Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_035963
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 446257
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Found at i:175 original size:51 final size:51
Alignment explanation
Indices: 109--212 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
99 CGATTCCGAG
*
109 CGAGAAGTTCCCCAATCTGCAAGCGCGGCAGCCCACGAAGACGATTGCGTT
1 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
160 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
1 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
211 CG
1 CG
213 GTCATCAGAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.15
Consensus pattern (51 bp):
CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
Left flanking sequence: Indices 1 -- 108
AGGGCATCCTGTAACAATGGGAATGGTTGGATCTCCGCCCCAACACCAACCGCTGCTGCTGCGGG
GGCATTTTGTTGGGCTTCGTTCACACTCGATTCCGATTCCGAG
Right flanking sequence: Indices 213 -- 712
GTCATCAGAGGGAGAGGGGACCAGTACTGGCTCTTTGTCGGGGCTTTGTGGGATTAATTGATTGG
ATACCCGAGAGCCATAATCTTTCCTAGGAACAGCTTCTACGACGATAGGCATAAAGGCATGATTA
GTTCCACAAATCTCACTGCACTGACCATAGTAAACTCCTTCTCGTTGTACCGAAATAGAGGTCTG
ATTTAAACGACCCGGTACAGCATCACATTTGACACCTAAGGAAGGTACAGCCCAACTATGAGGTA
CATCAGCAGATGTTACAATAAAACGTATAGGGCTCTTTGCTGGTAGAACCACTCTATTGTCGACT
TCTAATAAACGTGATTGACCCAATTCTAGATCATCTTCTGGAATCGTATAACTGTCAAAAGTGAG
TGACTGTTCATCGGAACTGTTATAGTCCGAATACTCATAAGGTAGGGTCGACGCCCGCCTCCCCC
CAAACTGTACTTGCAAGTTTCCCCGCAAAAAGCTCTCCACGCCTA
Found at i:2925 original size:24 final size:24
Alignment explanation
Indices: 2893--2939 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2883 CCATTTCTTC
* *
2893 GGAATTGTCCGCTCATAGCACGAT
1 GGAAGTGTCCGATCATAGCACGAT
*
2917 GGAAGTGTCCGATTATAGCACGA
1 GGAAGTGTCCGATCATAGCACGA
2940 CGCGCTGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
GGAAGTGTCCGATCATAGCACGAT
Left flanking sequence: Indices 2393 -- 2892
CCATTCTAGAACAATCATTTGGTTTGGTTCATTCTTTGACTGCTCTGCTCCCCCCAAAAAAAAGA
GAGACTGAATTTCTTCCACCTTCCCTGTAGGAGTAGTGAAGAAGTATAGATTTAGTTGGTTGTTG
ACCAACGGAAAGCATGGGATCAAAAAAGGCAGAATTTACGCAATTTCTTTTCTAAGAAAGAGATC
ATAGTGATTGATGGCTCTTTCAATCCGGCGAAATGGAATTGGCGTGTACCAATTTGGGTCAGATT
AATAAGCTTACGACCACTGAACAAACTTGGTTGACGAACATAGTTTATGCGCCGCTAATGTAGCG
GCTTGTCGAGCATTTGACAAACTCACACCATCCATTTCAAATAGGATTTGTCCCCTGGACACACG
AGCAATCCAACCCGTAGGATTTCCTTTTCCTCTTCCCATTCTTACTTCTGTAGGTTTCCCGGTAA
TAGGGATATCTGCGAGAACTCTTACCCATATCTTACCATTTCTTC
Right flanking sequence: Indices 2940 -- 3439
CGCGCTGCTTCAATGGCTCGATATGAAAGACGACCAGCTCTACAACTTTTAGTGCCATATCTTCC
AAAACCAAGTTGTGTACCGTCCGGTTTGCAACCCCTACTACATCTGCCTTTACGATATTTACTAT
ATTTCGTACGTTTCGGATATAGCACGTCCCCCCTTTTTTTGACTATATGAAATCCACACTTTGAC
ACCTGAGATTCCGTAACGAGTAGATACTTCCGCAGGAGCATAATCTATTTTCTGGTTAAATACAT
TACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGCTATTTCTGCACCTTCTAATCGACCT
GAACAACATATACGGATCCCCTCCACCCCCTTTTTCATTACTAATGGAATATCCTTCACTATTTG
ACTAAAAATGGAACGAAATGATCTTGTTTTGTTCCTCGGTTGAAAAGAGATGTCTTGAGCAATCG
GAGAAGCACTTTGATAAACAGATTTGATCTTGACCGATTCAATTA
Found at i:24470 original size:16 final size:16
Alignment explanation
Indices: 24438--24472 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24428 ACGTGCATCC
*
24438 GAATAGTCATCGGTTT
1 GAATAGTCATCGCTTT
*
24454 GAATAGTCATCTCTTT
1 GAATAGTCATCGCTTT
24470 GAA
1 GAA
24473 AGAGAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (16 bp):
GAATAGTCATCGCTTT
Left flanking sequence: Indices 23938 -- 24437
ACGTACCCCGAGAATAGAAGCTAGAGAACCTAAGTCTGAAGAAGAGTCTTGGTTCGAAGTATAGG
GAGAGAGGGAGACCACTGAATCAGTTGGCTCAGCTCCGAAAACTGAGTGACGAGAATCTGTCTTC
ACAAACCTGCGAAACTTCCCCTTAAGCTGATCACTCTGGTCACCCGGATCTTGCTGACTCTATTA
AATCGGAGAATTCTGATGCTGTCTCACATAAACTCCTCAATAGTTCCACCCCTCCCCTCTAAGGG
GAGACAGGGGAACATAATGGCCCACCATCACAGGGAATCTCAAAGCCCCGAGCTCCGTAGTAAGT
TCGAAAAAGGTGACATGTCGAGAAAGGTGGAATCGTCGTGTAGAAGGATCATTAACACTTGTAGC
CCTTTTGAGAGAGGGGTACCCCAACCTCACTCAAGAAAACACATAGAGTGAGATGTAGGGCTCAG
TTTGTCTTGTGCAGGAGATGGAATTTTCACAAAGCACGTGCATCC
Right flanking sequence: Indices 24473 -- 24972
AGAGAGTAAAACGCCCAAAGATAACGTGTAGAGGAGATCGCTCACCAATAATAGGAGCCATCGTC
TTCTTACTCAGATAAGCGGCCATCATTAAATTGGCTTTACTAGGGATCCTATAATAGGGAACTTT
CATTCCCAGTAGAAGTCCTCGAGCAACTTGACTAATACTAATAAATAAGGGGAAGGCCCAACATT
TTCTATTAGTATAAGGAAGGCGCTAGCTAGCGCCCAACCTATACAAGGGCTTTCCACCTCCATTT
GGTCGTGCTGCTATGATGTAACGTGCAGTCGTCCCAAGGCAGCAGGATGTATGGTATAGGGCCCC
CTATTTTATCTCCCTTAAAGTCCTTTATGGATTTCGAGTCGGGAATAGAGCTGTGGCTTATTCGG
CGCTATATCACAATGCATTCTCGGGCATAGCTGTTCACGAAAGGTGGCATGGGACATCTGTCAGC
GGCGGGAGTCTTACATCCGAGCGAGAGGTCAGACCAATCCCATTC
Found at i:25934 original size:20 final size:20
Alignment explanation
Indices: 25909--25949 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25899 GGGCGGCCGA
25909 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
25929 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
25949 G
1 G
25950 TAAGACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GAGTGTTGTGTTATTGTTAT
Left flanking sequence: Indices 25409 -- 25908
TTTCATACGGCGAGAGTCATTGGTTCAAATCCAATAGTAGGTAAAACCGACCGAAACCCCTGCTT
TTGCCAGCATGACAGCAAGCACGGACTGGCAGCAAGGAGTCAATTGAATGATCAAGGCATCGGTT
GCTTCCACCTGTGGCCTTCTTCGACCGCCTTGACACCTTAATATCAAGGAACCCCCCCTATTCCA
CAAGTAGGTGGAGACCTGGAGGGTCGGAAACCTCAACGGGAAACCTTTCACCGCGCCACACGATT
CTTTCGCGAAGCGCTCTTTCCACTCCTGCCCCCGCAAGCAAAGAGGTTTCAAGATAAGATAGCAG
GCGACCAAAAAGCTCCGAGCAAATCTTCTAGAGAGCGTACCCTTAGTTTCGACTCTTTCTCTATT
CTAAAACGAAAAATCGAAAAAAGAAAAAGAAAGAGATTTTTTAAAGAAAAGAAAAACGGGTCAAC
AACACCAACATGTGTATTTGAGAGATTGTCCTCTTGGGCGGCCGA
Right flanking sequence: Indices 25950 -- 26449
TAAGACCAAGGAGGATCCTATCCTAAAGGAGAAGGAGGAGGAGTAGGAGCTAGCCTTAGGGGCGG
AATCGATTCTAAAATACAAAAATGAACGACTTACTAGAAGCTGTCGCGCCTTTTGTGACAGGTTT
ACAAGAAACTTTGAGCGGGAGACAGGGGGCGAACCCGCAGGTTCCCCTTGCCCAAGAATTTCGGG
TAGAGGAAAATGGGGACCCTGCGATGGGGCTTCAGGTAGGGCATCGAGAACCTTTTTTTCTAATA
AGAAATGAGAGTATGGAGACCTCTATGCTTAATCGAATAAGAAAGCTCGAAAGGGAAAATAGCGT
ATTTCTGCTTGAAAAAGCAAAAGGAGCCTATTGGGAAGAAGTAAAAAGCACCCTGAACAATTCTG
GCTCTCAGAAAGAGTATTGCAGGTTACTCTGTTTCGAGAACAGAGACCTGCAAATCAGGGAGAGA
AAACATGAATGTTTTTTTCTCTTTCAAGAGATTCTTTCTCGGAAT
Found at i:50165 original size:27 final size:27
Alignment explanation
Indices: 50097--50166 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
50087 CACAATCTCA
50097 AATTGTTCAGGTGGGCCACTTATTTCT
1 AATTGTTCAGGTGGGCCACTTATTTCT
** **
50124 AATTGTGAAAATGGGCCACTTATTTCT
1 AATTGTTCAGGTGGGCCACTTATTTCT
50151 AATTGTTCAGGTGGGC
1 AATTGTTCAGGTGGGC
50167 TGGAGACGAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (27 bp):
AATTGTTCAGGTGGGCCACTTATTTCT
Left flanking sequence: Indices 49597 -- 50096
AATAGTCCCTCGGACTCGGAAAGTAATAACGAAAATAGCTAACCCAATAGCAGATTCCGCAGCTG
CCACCGTTGGAACCAATGAAGCAAATGATTGACCCATCATATCATCCGAAGAAACAGAAAATACC
AAAAAGTTCGAATTCACAGCTAATAACATTGATTCAATTGGCATTGACATAATAGGAATATTTCG
TCTATTAAGGAGGATTCCCCGAATACCTGAAATAGAGATAATCATAGAAAATGTGAAATATTTGA
TAGGATCCATTTCGGGAACGTAGAATGTAAGAGAAATTCAAATGTGAAACAATAGGTGAGCTCTT
CTACTTGAAATATCCATTAATTATGGATATGGAAGAAATATTCTTTTTCATTTTTTTAGTAACAA
AATAAAAGAAAAGTAGGACCAAACTGAGAGTTAGTAGCATAAAAAAAGATGGATTTGTGAATGAA
AAATAGAAGTTTCCAATAGGAAAATCCATCAATGGCACAATCTCA
Right flanking sequence: Indices 50167 -- 50666
TGGAGACGAGATCTTTCACTAGATCCACTTGTTCAGGTGGGCCACTTAGATCTAATTGTTCAGTT
TGGTCACTTATTTCTAATTGTTCAGTTTGGTCGGGGTCGTCTGTACGCGCGTCTTTCTTTGGCTT
TTTAAAGATATCCTCCGCCCGTCCCCCTATACTGTAATAATATTTCAATGCGCGTAGTATATAGT
CGCTCTCCCTCTCGTAACGGCCTCGTACAGGGAAACCTCTTTTGGCAGTCTCGATAACAATAGGC
TCTCCTAATTTCTCCTCTATCTTCTCGATAACTGGGCGAGGTTTAAGGACTGGAAAGCCCTTGGT
CCCACAACTCTCAATAAAAGTCGTGTAGTTAAAAGGTTCGGTCGATTGAGAAGGACTGGCGGCGA
AATCTTCATAAATAGTAGACAGTCTTCCTTTAAAAATAGAAGAGAAGGGTCTTTTACTTTTATTG
GGCATTCTTGATTGATTGAGACAAAAAGATTCCCTCAATACAGCT
Found at i:50225 original size:27 final size:27
Alignment explanation
Indices: 50186--50256 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
50176 GATCTTTCAC
* *
50186 TAGATCCACTTGTTCAGGTGGGCCACT
1 TAGATCTAATTGTTCAGGTGGGCCACT
* * *
50213 TAGATCTAATTGTTCAGTTTGGTCACT
1 TAGATCTAATTGTTCAGGTGGGCCACT
**
50240 TATTTCTAATTGTTCAG
1 TAGATCTAATTGTTCAG
50257 TTTGGTCGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
TAGATCTAATTGTTCAGGTGGGCCACT
Left flanking sequence: Indices 49686 -- 50185
ATGATTGACCCATCATATCATCCGAAGAAACAGAAAATACCAAAAAGTTCGAATTCACAGCTAAT
AACATTGATTCAATTGGCATTGACATAATAGGAATATTTCGTCTATTAAGGAGGATTCCCCGAAT
ACCTGAAATAGAGATAATCATAGAAAATGTGAAATATTTGATAGGATCCATTTCGGGAACGTAGA
ATGTAAGAGAAATTCAAATGTGAAACAATAGGTGAGCTCTTCTACTTGAAATATCCATTAATTAT
GGATATGGAAGAAATATTCTTTTTCATTTTTTTAGTAACAAAATAAAAGAAAAGTAGGACCAAAC
TGAGAGTTAGTAGCATAAAAAAAGATGGATTTGTGAATGAAAAATAGAAGTTTCCAATAGGAAAA
TCCATCAATGGCACAATCTCAAATTGTTCAGGTGGGCCACTTATTTCTAATTGTGAAAATGGGCC
ACTTATTTCTAATTGTTCAGGTGGGCTGGAGACGAGATCTTTCAC
Right flanking sequence: Indices 50257 -- 50756
TTTGGTCGGGGTCGTCTGTACGCGCGTCTTTCTTTGGCTTTTTAAAGATATCCTCCGCCCGTCCC
CCTATACTGTAATAATATTTCAATGCGCGTAGTATATAGTCGCTCTCCCTCTCGTAACGGCCTCG
TACAGGGAAACCTCTTTTGGCAGTCTCGATAACAATAGGCTCTCCTAATTTCTCCTCTATCTTCT
CGATAACTGGGCGAGGTTTAAGGACTGGAAAGCCCTTGGTCCCACAACTCTCAATAAAAGTCGTG
TAGTTAAAAGGTTCGGTCGATTGAGAAGGACTGGCGGCGAAATCTTCATAAATAGTAGACAGTCT
TCCTTTAAAAATAGAAGAGAAGGGTCTTTTACTTTTATTGGGCATTCTTGATTGATTGAGACAAA
AAGATTCCCTCAATACAGCTTCACTCCGTCAAACCTGTACGAGTAGTGAAGAGGTATAGATTTAG
TTGGTTGTTGACCAACGGAAAGCATGGGATCAAAAAAGGCAGAAT
Found at i:54521 original size:33 final size:33
Alignment explanation
Indices: 54478--54563 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
54468 ATCGAATTAT
54478 GTATGATGAGCTTGAGTCGAGTCAC-AAAAAGG
1 GTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
54510 GCTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
1 G-TATGATGAGCTTGAGTCGAGTCACAAAAAAGG
54544 GTATGATGAGCTTGAGTCGA
1 GTATGATGAGCTTGAGTCGA
54564 TTATTTCCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.02
33 43 0.83
34 8 0.15
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (33 bp):
GTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
Left flanking sequence: Indices 53978 -- 54477
AAACCATGCTTCGCAATCAAGCTAGAAAAAGACTAAGCAAGTGCTGTCCTAATGAAATGGCGGAT
AGTTTAGTATAACATTCATTCCTGACCGCCGCTGCCTGCTTAAGACTAAAAGCTAGTAGTGAGAC
TTCTATTCTTCCGCCCTATCTAGTAAGAGCCTCTAAAGCTATGTTTGGCGTAATCAATATAATAG
TTGGGCTCGGCTTTACTGAAGAAGAAGGGGCGAAGTCTCAACTACCAGACTACTACTATACCAAA
CGCACTCCACGAGTGGATTAGTTGAGTGACTAGACTGATACTCTAAACGAGACCAATACTATCAA
AAAGAAAGTAGCAAAAATCATAAGAGAAGAAAAGCAAGTCAAGCAGTATGCCTGGTTCACCAGGT
TCTACCACTGCAGGGCCCAATCATAGTCAAAAGCGGAAAAGAGAGGATTTGCAAGAAAAAGTCGA
ATAGACTGACCTACGAGCATAAGAAAGAAGAGGAAATCGAATTAT
Right flanking sequence: Indices 54564 -- 55063
TTATTTCCAAGATCGAATTCCAGTTTTTTCTTATGTAGTGGAAACGCCCTACAATCTGAAGTTTT
ACGCTTCAGGCAAGAAATGTTCTTGGTGGATGCAGGACTTGGGACCCCCAGAATTTGTATGCAAG
ATGAGCTTACAGGGGTGCCAATCAACCGAGCCACCAGGTTTGAGAATAGGGTGGGATTCCTGGAT
CTAGTGGCCGGTGAATCACTGATCAAAGAGCAGATTTTGGAGAGATTCTTCATCGATCTAGTGGC
CGGTGAATCACTGATCAAAGAGCGAGCAGCCGCCAGGTTTAATGATTTGGTGGGATCTACAGATG
TAGTGGCTGGTGAACCGCTTCTTCTTCTTCCACGAAGATTCAGACAAAACCGAGCTTGGATGGAA
CTGAACAAGATTGAGCGAACGAAGGCAAAGATCAAAGGCTTTATTATTGAGAAAGTAAAAGGAGG
TTATTCAGTAGCCATCGCAGGTTTCATTACTTTTCTTCCATTCCG
Found at i:60288 original size:24 final size:24
Alignment explanation
Indices: 60261--60318 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
60251 CGGAGCAGTT
60261 ACAATTGCTTCAGCTGGAGCTGCG
1 ACAATTGCTTCAGCTGGAGCTGCG
60285 ACAATTGCTTCAGCTGGAGCTGCG
1 ACAATTGCTTCAGCTGGAGCTGCG
60309 ACAATTGCTT
1 ACAATTGCTT
60319 TACTTTAGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (24 bp):
ACAATTGCTTCAGCTGGAGCTGCG
Left flanking sequence: Indices 59761 -- 60260
GTCAACTGTTGGAGGCAAAGACAAAGAAAAAACGGAAAAGCCGAGCACACTGCATCTCCAGTGAA
CCATCCTACTAAGGTTTCACGAAGTCAACACATACGTTCACAGCTAGGGACCATGTTCAGTCCAT
GCCAATAAAAAACAACAGGAGCTCGCGGTCTATCAGCACTTGAAGGGCTACACAATGGAGATCGG
ATCGGCCTCGTATGGAGCGCTTTTTGGCTCCCCGAAGACCTTCCACGTGACCGGCAAGCTCTTAT
TCCAATTTCTATAGGACCTAGCTACAACTCTTTATCTGTTGTCCGTTCCTCTCGCTCAAACAAGG
TTTCACGGAGTCGAGTTCAAGTAGCATCTTTATATGTATCGGATCATTTGTGGATTGAAACTCTC
TTTTCTTTCAGCTTTCCCTTTCCATTGGACCAGGTCAAGGCTGCTGTAAGCAGTTCTGATCTCAA
GCACCTATCACGGTTTTCGAGTAGCTCTGATCCACCGGAGCAGTT
Right flanking sequence: Indices 60319 -- 60818
TACTTTAGCGGGCGACAAGCGTAGCTGTTCTGAAGTTATAGTTAGAAAGAGGGGTTGGTAATCTA
ATCCCTCTTAGTGGTCTTATAGTAGAGTGAGTGATCCTCGGGTAGTCATCTATGAGTTGAAGCAG
GAACAAAGAATCAATATAAGGTGAAAGAACCTTCTTTCATTTGAATTTCCTGTTTAACTAGTCAG
CCTCTAACTTAACTCTTGAATCTGCGGGCTTGGAAACCTACTTTCTGAAGCGGGCCCTACCACGT
ATACAGTCTGCGGAACCACGCCTAGCTGCGGTGTCAAGCTCATATCCTCTGCCTCTTTCTTGAAA
AGAAACTATGCCTGATAAGGCGAATAAAGACTCATCTTCTTTCATATCATATGTGTCAGAAGCAT
CAAATGATGTTTTATGAGGTGGGGGAATCCTAATCCAATGCCCTAAGCTCGCGGTGACAGAATGC
TGTTATGTCCCTGGAGAGTGCTCCCCCAGGAGTTATGTGCCCGGA
Found at i:105436 original size:25 final size:25
Alignment explanation
Indices: 105359--105436 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
105349 ATCTTTCAAT
105359 AGTTCTAGACTTCTCACTATCAGTC
1 AGTTCTAGACTTCTCACTATCAGTC
* * * *
105384 ---TCTAAAGCTCTATCATCTTTCAAT-
1 AGTTCTAGA-CT-TCTCA-CTATCAGTC
105408 AGTTCTAGACTTCTCACTATCAGTC
1 AGTTCTAGACTTCTCACTATCAGTC
105433 AGTT
1 AGTT
105437 TTCCCACGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 5 0.13
23 2 0.05
24 10 0.26
25 14 0.37
26 2 0.05
27 5 0.13
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (25 bp):
AGTTCTAGACTTCTCACTATCAGTC
Left flanking sequence: Indices 104859 -- 105358
TTCAATAGCACCCTTTCTTCCTATTCCGGAAAAACTAGCTGCTGACTCAACCTCCCCTCGGGTCT
ACGCACTCTTTGTCTTTGTTTTTAGCATCGGCGATTGAAAGAGAGTAGGAGCCCATTCTATTCTA
TCTATCTCAGAAAGAAAGTCTCAACCCTTTGGTACGAAAGTAGGCCCTAGCTTCTCAATAAGTCA
TTCAATGAACTAACTATACTTAAGATGTGAGCTATACCTATTCCTTCTTTTCTTATCTCTTCCCT
TTCGGGCCGGATCGGATAAAGAAAGGAGCTAAAGAATGAAATATTCATCAAAGTAGTCCTTACAT
CCCTCCGCAAGCATAAGAAGAGTCCGATAATGGCTGGTCTTTAAAGGCCATTAAGAAATTACATA
AGTCAAGTTCTTGTGCTATGTCAAAAGTGAAGTTCTCCCCGCCCTGGAATCACTTCACTCCCAAC
CAACAAGCTTCAAACTAGAGGTCGCCAAGCCCATCATCTTTCAAT
Right flanking sequence: Indices 105437 -- 105936
TTCCCACGTCCGGTAGACTTTCTTTCAAAAACCTTGACTAATAGAATAGTGAAATTAGAATAGGC
TGAGAAAAGGGCTAAGAGAGAAGCTTAGGATATTACTTAAGTAAAGGGGCGTAGCAGTTCTTCCG
TGATCAATCTCGTTCCTTTCGCTTTGCTTAAGCGACTACGTACCTTAAATTGTTCTTACTCGTTT
CGTTTAGGTCAACTCGTCACGTCAATCCGTATCTAATAGCCGCGCCAAAGCTTCACTCCAGGTCG
AACTCACTTCCATTTACAATTCCCCAATTCCACTTTTATGGGAGTTTACGCCCTTTCTCGACCCT
ATCGAGCTCTTCCCGAACCTCCGCCTCTCCTCAACGAAGTCATTAAAGTGGGGCAACTCGTATTC
GCTAACTAACTTAGGGAACTTAGGCACGTCACCCCACTGTGAATCTATCTTTCTTTATCGCGCTT
TTGATCCTCTCGATGGGAGAATGAATTAGTGGAAAGATCTGTTGT
Found at i:111115 original size:18 final size:18
Alignment explanation
Indices: 111092--111127 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
111082 TACAGAGCCA
111092 ATTCCAATAGACTTATTG
1 ATTCCAATAGACTTATTG
111110 ATTCCAATAGACTTATTG
1 ATTCCAATAGACTTATTG
111128 GAGGGTCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
ATTCCAATAGACTTATTG
Left flanking sequence: Indices 110592 -- 111091
TGGATTTCACTTGACTGTCTACGGTTCCATTGCGTGTGCTCGGGGTAGAAGTTTTGTATAAATGT
ATCGCCATGCTATTAAGTATTTTGATTTAAGTTCTTTTCTTTATAAGAGTTGGAATAGAATAACC
CGGTTGAAGCGTAATGATCATACGTCTGTAATGCATTGTATGTCCCATAATAGGCCCCATTCTTC
TACTCTTTCCCGGAAGTCGATGACTATTGATAGCTATTACCTTGACACCAAAGAAGAGTTCGACC
CAATGCTTTATTTCTGTCCTAGTTGATCCTGATTCGACATTATAAGTCTATTTATTTTTCCCCAA
TAACCGAATACTTTTGTCTGTAAATACTGCATATTTGATTCCATCTATAAATCTATTTTCTTCCC
TATGAGTGAAAGTCTCAATAAGAATGCTAGTTCTTACTGTTCATTATGATATGAATATACCCCAT
CAATTCGTTATGTATGGATGATGAGATTCCATTGATACAGAGCCA
Right flanking sequence: Indices 111128 -- 111627
GAGGGTCCCATTGGTGTGCATCCAGTAGGAATTGAACCTACAAATTCGCCAATTATGAGTTGGGC
GCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATTCTTTTTATGAGTT
GGGCGTTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATTCTTTCTCGA
GCTTCTATTTCTTCCGTTAAAGGAGATTCGAGAAAAGATGGAATAGGAAGACGTGTTTCCAGAAC
GAACAGGATACGGGTTGAGAAGGGGGAGTTAGCAAAGTTGGACAAGATTGGAATGGGCATAGGAA
TATGTATTGATGTACCGGATCGGCTAATGCTCCCAGGTTGATGCAATGTGTTCCACCAATTGACT
GAAGACTTGATTATTGGTATATCGATCGGTCCAGCACGGATTGAAATAGGAGCCGGTTCGACAGA
AAGCTTTTGAAAACGCAGTGCACCCAGGTAAATAAGGAACAAGAT
Found at i:111291 original size:69 final size:69
Alignment explanation
Indices: 111180--111317 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
111170 AATTCGCCAA
111180 TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
1 TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
111245 CTTT
66 CTTT
*
111249 TTATGAGTTGGGCGTTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
1 TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
111314 CTTT
66 CTTT
111318 CTCGAGCTTC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.36
Consensus pattern (69 bp):
TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
CTTT
Left flanking sequence: Indices 110680 -- 111179
GATTTAAGTTCTTTTCTTTATAAGAGTTGGAATAGAATAACCCGGTTGAAGCGTAATGATCATAC
GTCTGTAATGCATTGTATGTCCCATAATAGGCCCCATTCTTCTACTCTTTCCCGGAAGTCGATGA
CTATTGATAGCTATTACCTTGACACCAAAGAAGAGTTCGACCCAATGCTTTATTTCTGTCCTAGT
TGATCCTGATTCGACATTATAAGTCTATTTATTTTTCCCCAATAACCGAATACTTTTGTCTGTAA
ATACTGCATATTTGATTCCATCTATAAATCTATTTTCTTCCCTATGAGTGAAAGTCTCAATAAGA
ATGCTAGTTCTTACTGTTCATTATGATATGAATATACCCCATCAATTCGTTATGTATGGATGATG
AGATTCCATTGATACAGAGCCAATTCCAATAGACTTATTGATTCCAATAGACTTATTGGAGGGTC
CCATTGGTGTGCATCCAGTAGGAATTGAACCTACAAATTCGCCAA
Right flanking sequence: Indices 111318 -- 111817
CTCGAGCTTCTATTTCTTCCGTTAAAGGAGATTCGAGAAAAGATGGAATAGGAAGACGTGTTTCC
AGAACGAACAGGATACGGGTTGAGAAGGGGGAGTTAGCAAAGTTGGACAAGATTGGAATGGGCAT
AGGAATATGTATTGATGTACCGGATCGGCTAATGCTCCCAGGTTGATGCAATGTGTTCCACCAAT
TGACTGAAGACTTGATTATTGGTATATCGATCGGTCCAGCACGGATTGAAATAGGAGCCGGTTCG
ACAGAAAGCTTTTGAAAACGCAGTGCACCCAGGTAAATAAGGAACAAGATGAATACAGAGGTTAA
ACGAGCATCCCACACCCAAAAGGTGCCCCACATGGGTTTCCCCCGAAACCCCCCAGTAACTAAGG
TAAACAACGTAGAAAAAGCACCTATTTCTGTACCGGTTCCGGAAGAGCGAAGAAAAAGGGGATGT
TTTGTTAATAGGAAGAAAAAAGTGTTTATAGCCGTAACGATATAA
Found at i:112749 original size:51 final size:51
Alignment explanation
Indices: 112683--112786 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
112673 CGATTCCGAG
*
112683 CGAGAAGTTCCCCAATCTGCAAGCGCGGCAGCCCACGAAGACGATTGCGTT
1 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
112734 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
1 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
112785 CG
1 CG
112787 GTCATCAGAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.15
Consensus pattern (51 bp):
CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
Left flanking sequence: Indices 112183 -- 112682
AAGCTGACTTATGGCGACTACCTTAGTTTTACTTTATATAGCTTTTCCCTTAATTCCCAAATCGA
AGGCGAAGCTTGCAGTCTACAAAAGCAGTTATAATGCGTTTGTAGGGTGGGCTCTGGTCTGGCCC
AACCCTTTCAATTATATCTATATAGCTCTTGTATGTCGTGGCAGCGAGGGGTCGCCCATACGGAT
AGAAAGCGATCCCTCGTATTTTTCCCATTTCGTTGAGAATCGATTCTGGGCTAAAGCCATTGGCC
AGTAAAGCGCTCTCCATTTGTTTTTCTAACAAGAATTGTTGTTCCAACGTAGCGTTTATTTGCCC
TTCTGTCCAGTTTTTTCCGATCAAGTGCAAGTGGAACGACAGCCGGCTATCTAGCTCCTGACGCC
TTAGGGCATCCTGTAACAATGGGAATGGTTGGATCTCCGCCCCAACACCAACCGCTGCTGCTGCG
GGGGCATTTTGTTGGGCTTCGTTCACACTCGATTCCGATTCCGAG
Right flanking sequence: Indices 112787 -- 113286
GTCATCAGAGGGAGAGGGGACCAGTACTGGCTCTTTGTCGGGGCTTTGTGGGATTAATTGATTGG
ATACCCGAGAGCCATAATCTTTCCTAGGAACAGCTTCTACGACGATAGGCATAAAGGCATGATTA
GTTCCACAAATCTCACTGCACTGACCATAGTAAACTCCTTCTCGTTGTACCGAAATAGAGGTCTG
ATTTAAACGACCCGGTACAGCATCACATTTGACACCTAAGGAAGGTACAGCCCAACTATGAGGTA
CATCAGCAGATGTTACAATAAAACGTATAGGGCTCTTTGCTGGTAGAACCACTCTATTGTCGACT
TCTAATAAACGTGATTGACCCAATTCTAGATCATCTTCTGGAATCGTATAACTGTCAAAAGTGAG
TGACTGTTCATCGGAACTGTTATAGTCCGAATACTCATAAGGTAGGGTCGACGCCCGCCTCCCCC
CAAACTGTACTTGCAAGTTTCCCCGCAAAAAGCTCTCCACGCCTA
Found at i:115499 original size:24 final size:24
Alignment explanation
Indices: 115467--115513 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
115457 CCATTTCTTC
* *
115467 GGAATTGTCCGCTCATAGCACGAT
1 GGAAGTGTCCGATCATAGCACGAT
*
115491 GGAAGTGTCCGATTATAGCACGA
1 GGAAGTGTCCGATCATAGCACGA
115514 CGCGCTGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
GGAAGTGTCCGATCATAGCACGAT
Left flanking sequence: Indices 114967 -- 115466
CCATTCTAGAACAATCATTTGGTTTGGTTCATTCTTTGACTGCTCTGCTCCCCCCAAAAAAAAGA
GAGACTGAATTTCTTCCACCTTCCCTGTAGGAGTAGTGAAGAAGTATAGATTTAGTTGGTTGTTG
ACCAACGGAAAGCATGGGATCAAAAAAGGCAGAATTTACGCAATTTCTTTTCTAAGAAAGAGATC
ATAGTGATTGATGGCTCTTTCAATCCGGCGAAATGGAATTGGCGTGTACCAATTTGGGTCAGATT
AATAAGCTTACGACCACTGAACAAACTTGGTTGACGAACATAGTTTATGCGCCGCTAATGTAGCG
GCTTGTCGAGCATTTGACAAACTCACACCATCCATTTCAAATAGGATTTGTCCCCTGGACACACG
AGCAATCCAACCCGTAGGATTTCCTTTTCCTCTTCCCATTCTTACTTCTGTAGGTTTCCCGGTAA
TAGGGATATCTGCGAGAACTCTTACCCATATCTTACCATTTCTTC
Right flanking sequence: Indices 115514 -- 116013
CGCGCTGCTTCAATGGCTCGATATGAAAGACGACCAGCTCTACAACTTTTAGTGCCATATCTTCC
AAAACCAAGTTGTGTACCGTCCGGTTTGCAACCCCTACTACATCTGCCTTTACGATATTTACTAT
ATTTCGTACGTTTCGGATATAGCACGTCCCCCCTTTTTTTGACTATATGAAATCCACACTTTGAC
ACCTGAGATTCCGTAACGAGTAGATACTTCCGCAGGAGCATAATCTATTTTCTGGTTAAATACAT
TACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGCTATTTCTGCACCTTCTAATCGACCT
GAACAACATATACGGATCCCCTCCACCCCCTTTTTCATTACTAATGGAATATCCTTCACTATTTG
ACTAAAAATGGAACGAAATGATCTTGTTTTGTTCCTCGGTTGAAAAGAGATGTCTTGAGCAATCG
GAGAAGCACTTTGATAAACAGATTTGATCTTGACCGATTCAATTA
Found at i:137044 original size:16 final size:16
Alignment explanation
Indices: 137012--137046 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
137002 ACGTGCATCC
*
137012 GAATAGTCATCGGTTT
1 GAATAGTCATCGCTTT
*
137028 GAATAGTCATCTCTTT
1 GAATAGTCATCGCTTT
137044 GAA
1 GAA
137047 AGAGAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (16 bp):
GAATAGTCATCGCTTT
Left flanking sequence: Indices 136512 -- 137011
ACGTACCCCGAGAATAGAAGCTAGAGAACCTAAGTCTGAAGAAGAGTCTTGGTTCGAAGTATAGG
GAGAGAGGGAGACCACTGAATCAGTTGGCTCAGCTCCGAAAACTGAGTGACGAGAATCTGTCTTC
ACAAACCTGCGAAACTTCCCCTTAAGCTGATCACTCTGGTCACCCGGATCTTGCTGACTCTATTA
AATCGGAGAATTCTGATGCTGTCTCACATAAACTCCTCAATAGTTCCACCCCTCCCCTCTAAGGG
GAGACAGGGGAACATAATGGCCCACCATCACAGGGAATCTCAAAGCCCCGAGCTCCGTAGTAAGT
TCGAAAAAGGTGACATGTCGAGAAAGGTGGAATCGTCGTGTAGAAGGATCATTAACACTTGTAGC
CCTTTTGAGAGAGGGGTACCCCAACCTCACTCAAGAAAACACATAGAGTGAGATGTAGGGCTCAG
TTTGTCTTGTGCAGGAGATGGAATTTTCACAAAGCACGTGCATCC
Right flanking sequence: Indices 137047 -- 137546
AGAGAGTAAAACGCCCAAAGATAACGTGTAGAGGAGATCGCTCACCAATAATAGGAGCCATCGTC
TTCTTACTCAGATAAGCGGCCATCATTAAATTGGCTTTACTAGGGATCCTATAATAGGGAACTTT
CATTCCCAGTAGAAGTCCTCGAGCAACTTGACTAATACTAATAAATAAGGGGAAGGCCCAACATT
TTCTATTAGTATAAGGAAGGCGCTAGCTAGCGCCCAACCTATACAAGGGCTTTCCACCTCCATTT
GGTCGTGCTGCTATGATGTAACGTGCAGTCGTCCCAAGGCAGCAGGATGTATGGTATAGGGCCCC
CTATTTTATCTCCCTTAAAGTCCTTTATGGATTTCGAGTCGGGAATAGAGCTGTGGCTTATTCGG
CGCTATATCACAATGCATTCTCGGGCATAGCTGTTCACGAAAGGTGGCATGGGACATCTGTCAGC
GGCGGGAGTCTTACATCCGAGCGAGAGGTCAGACCAATCCCATTC
Found at i:138508 original size:20 final size:20
Alignment explanation
Indices: 138483--138523 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
138473 GGGCGGCCGA
138483 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
138503 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
138523 G
1 G
138524 TAAGACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GAGTGTTGTGTTATTGTTAT
Left flanking sequence: Indices 137983 -- 138482
TTTCATACGGCGAGAGTCATTGGTTCAAATCCAATAGTAGGTAAAACCGACCGAAACCCCTGCTT
TTGCCAGCATGACAGCAAGCACGGACTGGCAGCAAGGAGTCAATTGAATGATCAAGGCATCGGTT
GCTTCCACCTGTGGCCTTCTTCGACCGCCTTGACACCTTAATATCAAGGAACCCCCCCTATTCCA
CAAGTAGGTGGAGACCTGGAGGGTCGGAAACCTCAACGGGAAACCTTTCACCGCGCCACACGATT
CTTTCGCGAAGCGCTCTTTCCACTCCTGCCCCCGCAAGCAAAGAGGTTTCAAGATAAGATAGCAG
GCGACCAAAAAGCTCCGAGCAAATCTTCTAGAGAGCGTACCCTTAGTTTCGACTCTTTCTCTATT
CTAAAACGAAAAATCGAAAAAAGAAAAAGAAAGAGATTTTTTAAAGAAAAGAAAAACGGGTCAAC
AACACCAACATGTGTATTTGAGAGATTGTCCTCTTGGGCGGCCGA
Right flanking sequence: Indices 138524 -- 139023
TAAGACCAAGGAGGATCCTATCCTAAAGGAGAAGGAGGAGGAGTAGGAGCTAGCCTTAGGGGCGG
AATCGATTCTAAAATACAAAAATGAACGACTTACTAGAAGCTGTCGCGCCTTTTGTGACAGGTTT
ACAAGAAACTTTGAGCGGGAGACAGGGGGCGAACCCGCAGGTTCCCCTTGCCCAAGAATTTCGGG
TAGAGGAAAATGGGGACCCTGCGATGGGGCTTCAGGTAGGGCATCGAGAACCTTTTTTTCTAATA
AGAAATGAGAGTATGGAGACCTCTATGCTTAATCGAATAAGAAAGCTCGAAAGGGAAAATAGCGT
ATTTCTGCTTGAAAAAGCAAAAGGAGCCTATTGGGAAGAAGTAAAAAGCACCCTGAACAATTCTG
GCTCTCAGAAAGAGTATTGCAGGTTACTCTGTTTCGAGAACAGAGACCTGCAAATCAGGGAGAGA
AAACATGAATGTTTTTTTCTCTTTCAAGAGATTCTTTCTCGGAAT
Found at i:167166 original size:28 final size:28
Alignment explanation
Indices: 167121--167175 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
167111 GGTTTTTCTT
*
167121 CCTCTCCTTTCAGTCGAG-TGACTTCGTA
1 CCTCTCCTTTCAGGCGAGCT-ACTTCGTA
*
167149 CCTCTCCTTTTAGGCGAGCTACTTCGT
1 CCTCTCCTTTCAGGCGAGCTACTTCGT
167176 TCCAAACCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.13, C:0.33, G:0.18, T:0.36
Consensus pattern (28 bp):
CCTCTCCTTTCAGGCGAGCTACTTCGTA
Left flanking sequence: Indices 166621 -- 167120
CTGTGATCCATGGATCTCCGATCGGGAAACCGTATCCAAGCTCCGTGGCTAGTCTGCGCTCTTTG
GACTTTTCAAACTTAGCGAACTGAAACATCTTAGTAGCTAAAGGAAGGGAAATCAACCGAGACCC
CGTTAGTAGCGGCGAGCGAGAGCGGATTGGGGTTTGAAGAAAAACAAACACGAAGCTTCGTTCCT
CTCCTTTTAGGCGAGCTACTTCGTTCCTCAGCAAAGTGTTCACTTCTTTTTCGCCAGGTTTCATT
CGATTTGTTGTGGATTGGATGATGGAAAAACCAGCAAGCTACGGCTTCAAAGCTTACCTTATTTA
GAAAAGGAGAAAGGGCTTTTTTATAGATGTTGAGGTTGAGTAAGGGGGGCGGAGCTTGAAGAGCG
AAGCGAGCCGCGCTAGCCTAGCAACGTTTTTCAGCAGCAAGCTACGGTCTAACGACCCCCTAACC
TAGGTTGGGGCGAAAACTCCAAAATCCAAAACGTTGGTTTTTCTT
Right flanking sequence: Indices 167176 -- 167675
TCCAAACCTTTCTCTAATAATAAGGTAAGCTTGAAAGCCGCCGCCCTTTAAATTTAAAGGAGCGG
GCGCAGTGAACTGTAATTGTGAAAAGATTGGAAGATCTGGCCAAAGAAGGTGATAGCCCTGTAGA
TTCGTTCCCATGGTTCGATCCTTCCCAGTAAAACGCGGCGTGTTCGAATTCTGATCGCTTTTACG
CGAGAAAGGGGGACCACCCTCTAAGCCTAAGTATTCCTCAATGACCGATAGCGTACAAGTACCGT
GAGGGAAAGGTGAAAAGAACCCTATTTAGGGAGTGCAATAGAGAACCTGAGATCCGATGCGAACA
ATCAGTCGAAGGAGCGGAGCTTAGAGCCTTTACTTTATGTAAAGCGCACTCACTCTAACGGCGTA
CCTTTTGCATGATGGGTCAGCGAGGAAATGGGAACAGCGGCTTAAGCCATTAGGTGTAGGCGCTT
TCCAGAGGTGGAATCTTCTAGTTCTTCCTATTTGACCCGAAACCG
Found at i:171211 original size:12 final size:12
Alignment explanation
Indices: 171194--171234 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
171184 TTTCAAGTTC
171194 TGATTCGTGTAG
1 TGATTCGTGTAG
*
171206 TGATTCAGT-T-C
1 TGATTC-GTGTAG
171217 TGATTCGTGTAG
1 TGATTCGTGTAG
171229 TGATTC
1 TGATTC
171235 AGTTCTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.08
11 7 0.29
12 13 0.54
13 2 0.08
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.44
Consensus pattern (12 bp):
TGATTCGTGTAG
Left flanking sequence: Indices 170694 -- 171193
GTACGACAAGGCCTACAAACCCAGGGACTTTCACCCAGGGAGTACGAGGTCATGGTGCGCAATTT
CCTGGAAACAGAGTTTTGTTTTTCAACTCGTGACCAGATTTCCTCTCTCTATCAACTAATTTATT
ATGGTCGGGAGGATCCCCAATTCTTCATTGATCCACAAGACCTGGATTCCATACTGAGGGTACAC
CTTGAACCCTTTGAATTCAATCACCCGGCTCTATGCCAGGTCTTGGAAAGCTTGTGTGGGGACAG
AGAAGAATCCCCATTCTATGCGGAAGTCAAAAGGACCCAGGCAGAGCATTCCCAGGGCTTTTTAA
AACAAAAGCACCAAGCCCAATTGGAAATGCACCATCGCCGAGAGTTAGTTGAGTTATGGAAATCC
CTTGAGAGAAGGAACGCTTTTCTAAGCGAAGAAAACGCCTCTCTAAGAGAAAAACTTTTTCTTCT
CGACAGGGAAGCCCCATAACATTATTTTTTCATTGTTTCAAGTTC
Right flanking sequence: Indices 171235 -- 171734
AGTTCTGATACATAATCAATCCTATTAGTTTTGTTCATTACTAAAATGAATCGAATCCTATCAAA
TATTTCTATTTCTCCTTTGAATTACTCATATATATCCTATGAATTTCATTTCGCACCGGAAACTA
TTCTAGGAGAAGTTCGAATCCGTTCCGTTCGGGTATTGATTGGTCTTGGTTTGACATGGTTTACG
CGTTACTGGTTCCCGGAAGAGTTAATATCTCCATTAGCTAAACCCTTTCTTACCCTGCCTTTGGA
TTCGTATTTTGTTCGTACACAATCAACGGAGGCCTTCCCGACATATGTTGCAACGTCTCCAATAG
CATGCTCTTACTTCGTCTTTCCCTTAATAAGTCATCAAATTTGGTGCTTTTTGATCCCCAGTTGC
TATGGGGAACAAAGGACGAAATACAATCGATTCCTCCATTTAAGTGGTTCTCGCTTCTCCTTGTT
CCTGTTCCTAACTCCTCCCCGGGTAGTTCCCAATGTTTGGCACTT
Found at i:171216 original size:23 final size:23
Alignment explanation
Indices: 171189--171243 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
171179 CATTGTTTCA
171189 AGTTCTGATTCGTGTAGTGATTC
1 AGTTCTGATTCGTGTAGTGATTC
171212 AGTTCTGATTCGTGTAGTGATTC
1 AGTTCTGATTCGTGTAGTGATTC
171235 AGTTCTGAT
1 AGTTCTGAT
171244 ACATAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (23 bp):
AGTTCTGATTCGTGTAGTGATTC
Left flanking sequence: Indices 170689 -- 171188
AATTCGTACGACAAGGCCTACAAACCCAGGGACTTTCACCCAGGGAGTACGAGGTCATGGTGCGC
AATTTCCTGGAAACAGAGTTTTGTTTTTCAACTCGTGACCAGATTTCCTCTCTCTATCAACTAAT
TTATTATGGTCGGGAGGATCCCCAATTCTTCATTGATCCACAAGACCTGGATTCCATACTGAGGG
TACACCTTGAACCCTTTGAATTCAATCACCCGGCTCTATGCCAGGTCTTGGAAAGCTTGTGTGGG
GACAGAGAAGAATCCCCATTCTATGCGGAAGTCAAAAGGACCCAGGCAGAGCATTCCCAGGGCTT
TTTAAAACAAAAGCACCAAGCCCAATTGGAAATGCACCATCGCCGAGAGTTAGTTGAGTTATGGA
AATCCCTTGAGAGAAGGAACGCTTTTCTAAGCGAAGAAAACGCCTCTCTAAGAGAAAAACTTTTT
CTTCTCGACAGGGAAGCCCCATAACATTATTTTTTCATTGTTTCA
Right flanking sequence: Indices 171244 -- 171743
ACATAATCAATCCTATTAGTTTTGTTCATTACTAAAATGAATCGAATCCTATCAAATATTTCTAT
TTCTCCTTTGAATTACTCATATATATCCTATGAATTTCATTTCGCACCGGAAACTATTCTAGGAG
AAGTTCGAATCCGTTCCGTTCGGGTATTGATTGGTCTTGGTTTGACATGGTTTACGCGTTACTGG
TTCCCGGAAGAGTTAATATCTCCATTAGCTAAACCCTTTCTTACCCTGCCTTTGGATTCGTATTT
TGTTCGTACACAATCAACGGAGGCCTTCCCGACATATGTTGCAACGTCTCCAATAGCATGCTCTT
ACTTCGTCTTTCCCTTAATAAGTCATCAAATTTGGTGCTTTTTGATCCCCAGTTGCTATGGGGAA
CAAAGGACGAAATACAATCGATTCCTCCATTTAAGTGGTTCTCGCTTCTCCTTGTTCCTGTTCCT
AACTCCTCCCCGGGTAGTTCCCAATGTTTGGCACTTTCCATACTT
Found at i:190904 original size:27 final size:27
Alignment explanation
Indices: 190864--190918 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
190854 GAATTTTCTT
190864 TTAAGCAAAACAAAAGGTGATCTACTA
1 TTAAGCAAAACAAAAGGTGATCTACTA
* *
190891 TTAAGCTAAGCAAAAGGTGATCTACTA
1 TTAAGCAAAACAAAAGGTGATCTACTA
190918 T
1 T
190919 GTAGTCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (27 bp):
TTAAGCAAAACAAAAGGTGATCTACTA
Left flanking sequence: Indices 190364 -- 190863
CTAAATCTATACTTCTTCACTACTCCTACAGGGAAGGTGGAAGAAATTCAGTCTCTCTTTTTTTT
GGGGGGAGCAGAGAAAGAAAAAATAATCTTATTATTTTTGGATATGGAAAACAGTGCATTTCTAC
TCACCCCGAGCGATCTTCACTTTATGCAAAGTTCCACTTCTTCCTTCGCTTCTTCTACTAGTTCA
ACTACGTCGGACGCGCAAAGCGCTCCACCGGAGTTAACTCAGTTATTTCGCGACATCTGCAAAAA
TAGCGCAGAGTTGCTTCGACTCAGCGGTAGGGACGTACCCGAGAGGTGGAACATAGCGGATCTAG
TTGAGGCTGTTATAGGAGACGACGCTCTTCTAATTCCGGGGCACCTCCAAGATACCTATTACGAT
GTTCTTTCAAAAGGGTGTTCTAGCTGGCTTTTCAAAGACCTATCTGAATTTATAGAATTAACGCA
GAATCTCGTCTAACAACCACAATATGCACCACTTAGAATTTTCTT
Right flanking sequence: Indices 190919 -- 191418
GTAGTCTTCTTGACATGACATATCAAGTCAAGAGGGCGAGGCTCCCAGCAATGGGGGGAAAGGGG
AGTGGGTAGGCGGGCTCCTTTCACTTGACTGGTTAGTTAGGACTTTTTTCTACGATGTTCGAGAT
CTTTGTCTCGCAGAGGGCGAAATGAGATCTTCTTGGAACAAGGTCAGAGACGTTGGACGGACCAG
TTTCTTCTGATTCCAATGATAGATGGATGGTCAGGTCGGTAACATATGGATGGAGGACTTCTACA
GGGTCTTCTCGTGCGCTCGACTAGAAAGGTGGTTTTGTAGGCGAACGAAATAGGTTTTTGTAGGC
GAGCGGAGTGAGGCAATGAAATTGTTTAGGCGAAAGAAAGGTTGAGCGAAAAGCTTTCGTTGTAT
CGGATCTCGGGACATTAATAACCGGTGAGGGGGACACGCATAAGCCGTATGCAGCGGGTCTCATG
CTTGTTCTCCCTAAGGAGCCTGTCAAGTACAATAGGGTGGAAACC
Found at i:205289 original size:19 final size:19
Alignment explanation
Indices: 205265--205302 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
205255 TCGGTGCGAC
*
205265 CACTAAAGAATTGCTTATA
1 CACTAAAGAACTGCTTATA
*
205284 CACTAAAGAGCTGCTTATA
1 CACTAAAGAACTGCTTATA
205303 TACGTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (19 bp):
CACTAAAGAACTGCTTATA
Left flanking sequence: Indices 204765 -- 205264
AAGAGTCAAGACCAGGCTACCTAATGGAATGTTTAACCGATCCATTCCGGATCGACCGAATTGGT
ACGGAAGTTGTAACATGGGAAAACCACGGAAAACACGACTTATTTGAATAACCCGGTGACCTACC
AATTGTAGAAGTAGGATTTTTGGCAAGCAATAAGCACTTAAATAATACAATTCAAGTGTACCATC
TTCTTTCTCATTTCGAGGAAAAGGTGCGGAAGGAAAAGGAAACAACGGAGGGATCCGAATCGGAC
CTAAATGGGAATGACATGAAAAGTCTTTTTCAAAACCTAGCATTAAGGGCGTTACGACGATATAC
GAGAGGAATAGAGAAAAACTCGTGATTGGTGTGGAGGGGAAGATCTGTTTATGATATAGTTCAAG
AAAGAGTCGTCTCATTTCCTTACTTCTTTATAATTCATTCACTTCAAGACTGGTTCTGAACGCCG
CGTAAGATCATCTTCAACCAACCTCCACCGTACTTTCGGTGCGAC
Right flanking sequence: Indices 205303 -- 205802
TACGTTTACTAAAAGACTGACTTTCATTCATTATCATTAGTCCAGCGTGAAACTAAGAAAGAGAG
ATGTGCCTAAGGCGGCATGTAAGCAAACTGTGCACGCTAAGAGAAGAGGAGAGATGTTCGCAATT
ACTACCACAAGAAAGCCGCCCCCTATCTTCTAAAGGGGCCCGTCACTTCGTTCGTACCTTCTTGG
CTTAGGCTTCCAACTGAACAACATGGCCTTGCCGCCCCGCCACTAGCAGAAGCTAAGCGCTTGAA
AAGCGCGCTAAGAAAGGTTGCTTCTGTCGCCCTTTCTGTGCAACAGTCCACCAGTAGCGGAAGAG
AGGGTTACCGTACATACAAGAGTCTTCCAGTTCTTACGGAAGCTCTTTCTTACCAGTCAATCAAG
TAGTACAAGAACTGTATCTTATCTTATAGCCCGGCGCGGCGGGTCGCCTTTTAAATTAATTAAGT
AGATAGAAGAAAGTATTAAATAGATAAGGAGTAGATGAGTGAGTG
Found at i:245398 original size:20 final size:20
Alignment explanation
Indices: 245373--245413 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
245363 CTTGGTCTTA
245373 CATAACAATAACACAACACT
1 CATAACAATAACACAACACT
245393 CATAACAATAACACAACACT
1 CATAACAATAACACAACACT
245413 C
1 C
245414 TCGGCCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (20 bp):
CATAACAATAACACAACACT
Left flanking sequence: Indices 244873 -- 245372
GCCGACCACTACATAAGTCGCCATCCGTCCAGGAGAGAAGCAAGCTACCTTTCTTTGATCCCCCT
TCCCGGGCAGGGAAGAGAACGAAAATGGACCGCAGAGGGTAGTCGTGGTTGATTTTGATTCGAGG
ATCTTACGCGGCGGAGCGAACTCTTCTATCGTGTTGCATTTTCTCTGGCGGACCCCCCCCCCGGT
CCATCGTACTGGAGCGATTCGAGAAGAACGATTAGGCGCATATTCTATCCTTTCTACAATGCCTA
TAGACGAAGTGCTTCGTTTCAGATCAATTCTTCGCTGCAATCGCTTCGATCCACCCCCTCGGTGA
AAAACCGTAATACGCCCTGAGGAATTCCTACCAGCAGACTTCCCTGTACTCAAAGTGAATTGTCT
AAGTGCTCTCCTTTGTCTCATTGTTTATCTCGTAATCATTCGATTCCGCCCCTAAGGCTAGCTCC
TACTCCTCCTCCTTCTCCTTTAGGATAGGATCCTCCTTGGTCTTA
Right flanking sequence: Indices 245414 -- 245913
TCGGCCAAATTGTCTTTCCCGAGCCCGAGAGAGGCCGCCTTCTCTCAGTCTCAGGCCATCTTCTA
CTCTTCTACTTCAGTCTCTAGTCTGACTCGAAGTATTTGTCAAAATACATATGAAATAGTGTTTC
TATTTTACGAAATGGACCCAAATAGGCAGAAAGCGAAGCGATTTCCGCTTCGCTTTTTGTATCAA
TGTCCAATTCCGTAATAGAAAAATGTTGCGCAAAATATTGGAAATCTTCCTTGTTTTTATCTTTC
AAACAAGGGAACCTTTTCAATCCATCCTCAGAAGCGCAGTATCTCCGAAGATGCCCTTCGACTAC
GGCATGGAGCTTTTTTAGTTTCTCTCCTTCCGAACCCGGGGCTGGGCCGTCCCCTTCGATTCGCG
CACCGGGAATGAGCTCCAGACCGGAATTCTCTGGTGGAGGAGTCGGGGTTGGCGCTTGACTGAAC
CACCCTTCACCCGACGGAGGAGAGTAAAACTGATTCACAGCACGA
Found at i:246008 original size:22 final size:23
Alignment explanation
Indices: 245982--246034 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 23
245972 CCACGATAAC
245982 TTTTCCAATATGGAATAAAAGGA
1 TTTTCCAATATGGAATAAAAGGA
246005 TTTCTACTCCAATATGGAATAAAAGGA
1 -TT-T--TCCAATATGGAATAAAAGGA
246032 TTT
1 TTT
246035 CAAGTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.08
25 2 0.08
26 2 0.08
27 20 0.77
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (23 bp):
TTTTCCAATATGGAATAAAAGGA
Left flanking sequence: Indices 245482 -- 245981
TTCTACTTCAGTCTCTAGTCTGACTCGAAGTATTTGTCAAAATACATATGAAATAGTGTTTCTAT
TTTACGAAATGGACCCAAATAGGCAGAAAGCGAAGCGATTTCCGCTTCGCTTTTTGTATCAATGT
CCAATTCCGTAATAGAAAAATGTTGCGCAAAATATTGGAAATCTTCCTTGTTTTTATCTTTCAAA
CAAGGGAACCTTTTCAATCCATCCTCAGAAGCGCAGTATCTCCGAAGATGCCCTTCGACTACGGC
ATGGAGCTTTTTTAGTTTCTCTCCTTCCGAACCCGGGGCTGGGCCGTCCCCTTCGATTCGCGCAC
CGGGAATGAGCTCCAGACCGGAATTCTCTGGTGGAGGAGTCGGGGTTGGCGCTTGACTGAACCAC
CCTTCACCCGACGGAGGAGAGTAAAACTGATTCACAGCACGAGTTAGGTCATCCGCGAACAGATA
CCCAAAGTGTAAGGTGACCTTTGCCAGAACAAGACCCACGATAAC
Right flanking sequence: Indices 246035 -- 246534
CAAGTCTTTTTTTTATCTTATTTTCTAGTCGTAAAATTCTTCCAAGTATTACGGATGGAAGTAGA
CAAAAAAGTGGAAATCCCCATGATGGCATAATTGTCCGACACTACGTTCCTCGATCTTCAAAGAA
AACTGACTCCTCCTACTCCTCCTTCTCCTTTAGGATAGGATCCTCCTTGGTCCTTTTTACATAAC
ATTCTCGGCTGCCTCCGGTCCGGTAGGTCGGTCGCCCTCTAGCCAGTGACTAGCCCAGCTATGGA
GCTAGGTGTACACCGCCACGTCGAGACTCTCTTTCGAAAGTGAGATACCGGCTTTCATAAGAGGG
AAAGATCACTCCGTCATGCAGCAGAGCAGTGTTCATCTAACTAGAAATTTCATAAGAGAAGAAGA
ATCGTAGCGTAGGGTCGACATAAACAATCGGTTAAAATAGTCTAATGAGAAAGCATCTGTTCACG
TTCGTAGTTGCAATAAGTTTTCTTTTTTGTTTCGAGATTGGCTTG
Found at i:249298 original size:15 final size:15
Alignment explanation
Indices: 249278--249307 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
249268 TGGAAAAATC
249278 CTTAATATCATAAAG
1 CTTAATATCATAAAG
249293 CTTAATATCATAAAG
1 CTTAATATCATAAAG
249308 GAAAGGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
CTTAATATCATAAAG
Left flanking sequence: Indices 248778 -- 249277
CCCCTGATCCCTTTATTTGTCTTTCATCCCCCCTGAATAAGTAAGACCCCGCTCTTTCGAATTCG
ATTTATTTTGATAGAAAGAAGAACCAGAATTGGTCCTGGGTCGTATCGTTTTTCAACTGTCCGCT
GGTAAATCTGGTCTAGCACTACAATGTCTCCATTGTGCGGCGCTATGAAAGAGAAAAAGAATTCT
GCCTCGCTAGCCTTTTCACCTCTTCTCTTCCGTCGGTCTTGTACTGAGCCATCAGAATAGGGATG
GTGCCAAGAAAGGCAGTTTAATCTATATCTGTAGAACGAACAAAGCAAAGATATTCAAATAAAGA
ATTTGTGAGGGAATGACTATTCATATATTGAATTTTCATCCAGGCAAGAAAAAGTCTATGGAAAG
ATGCTGTATATGTCGCAGCCTTCTTAAACAAAATGAACGAAGGCCCAAGGGCTTTTATCCATCAG
ACATGAATGAAAGGGGATGACACCACTCTAATGATTGGAAAAATC
Right flanking sequence: Indices 249308 -- 249807
GAAAGGTCTTTTTCTTAAAAGCTTCAGTAATAGCAAAAGCAGCCTATCTGGAATGGCCTACTCCT
TACTCAAGCAAAGCTGTATGCAACCGCATAGAGGAAGTTAAGCCAATCCCTCTATTTTCATCTTG
AAAGATTCGGAAAAATAGAACATGCTCTACCCCTTCCTTCGATTGCTTTCATTTTTGGCCCGATC
AGGCTTCATCTTCTTATCGGGATAGCCCTTTAGCTTGCTTTCTTGGGACTAGCCTTGAATACTAG
CCATTTTCTCATCGCATCAAGAGGGCTTTCAGAGAGAGGGCTCCAACCCTCTATAATCGAGTGAT
GGTGGAATGACCAATCCAGTTCCCTCAGGCTGGCTTTCTCCAAGGGAAGTTTTGTCCTGTCCGCT
AGGACTGAGCTATTCGTTTCACTAACGCACACCTTTCGGTGCTTGTTCACTCATTTATTCCGTTC
GTTGGGGAATTCTCACTCCTATTTTGTTTAGAAGGTGATCATTCC
Found at i:304227 original size:33 final size:33
Alignment explanation
Indices: 304184--304269 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
304174 ATCGAATTAT
304184 GTATGATGAGCTTGAGTCGAGTCAC-AAAAAGG
1 GTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
304216 GCTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
1 G-TATGATGAGCTTGAGTCGAGTCACAAAAAAGG
304250 GTATGATGAGCTTGAGTCGA
1 GTATGATGAGCTTGAGTCGA
304270 TTATTTCCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.02
33 43 0.83
34 8 0.15
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (33 bp):
GTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
Left flanking sequence: Indices 303684 -- 304183
CTTCGACCTGACTTTCTGAAATGGGATTCCGAGAAGGTGGAGTTCAGTAACCCAGTTCAGTGACC
GAGGAGAGGTTGAGAAGAAGACAATGAATGGAATGGTCCGAAAGTCGCTATAGAAGATCGAATGA
GTCTTAGTGAAGCTAGTCCATTAATTAGATAGATCACCTGTGCGTACGTTATCTATAATAAGAAA
AAACCTGGCTCCAGGTAGCGAAAGGGAGTAGCAAAGGGGAAATTCGTTAGGAGAGAAGACCAGGA
TTCCCTTGGTCCTTCTAAGGACCAGCAGCATACCTGGATTTACCGTCCATCCAGAGAATACCAGT
CGTCCAGCTTAGAAACCATTGAACTAGCTGCCGGAGAAGGGGAACTTCAACTAAGAAAGAAGAAG
AATAAGAAGAATTGCTTAAGTATGGCCATTTTGTGTTCGAATTCTAAACCGGCGAGGCGCTGCTG
GATGCTTCTGATCAATAGAACACGAAGAAGAGGAAATCGAATTAT
Right flanking sequence: Indices 304270 -- 304769
TTATTTCCAAGATCGAATTCCAGCTTTTTCTTATGTAGTGTATTATTATTTTTCCTTTTTTCTAC
CCTTTCTATTCGAGGAGTCAAAACAAAGAGTATAAAATATCTTTTGGTATTCGTTCTTCTCCCTC
TCCTATTTCTGAATTATTATTCGGGCGGGGCTCTTGAAGGCTTCCTTGCCGCGTGCGACGCGGGA
AGGGGTTCCCCGTCTGGCCCTTTTTACCCTCCTGGGAGAGAAGCACAGCCGCACATTCCCGAGCC
CGAGGTTGCGCCCATTCCGCGCGCCGTTCTGGTTCCGGAATTCGAACGCCCTCTCCTTCCTGATA
TCCAAAGGAGAGCGGAGCTTCAACACCGGCTGTCCTTCTATTTTATCGGGAGGAACGAGCCCAGG
CACCTCCCACTCTTTTTGGGTATCCTGGAGAAGCAGTTCCTCTTGGAAAAGAGGGTCGAGGCCGC
ATTGGTGGGGGATGGGTTTCCCCCCCAGATAGTTCTGGCTCGGAG
Found at i:313926 original size:20 final size:20
Alignment explanation
Indices: 313901--313941 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
313891 GGGCGGCCGA
313901 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
313921 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
313941 G
1 G
313942 TAAGACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GAGTGTTGTGTTATTGTTAT
Left flanking sequence: Indices 313401 -- 313900
GTTCTCGCTCAGTCTTTCAACGGCTGGGAAGGCAGTCGTAGAAACGAAGCCTATCGCCACGCCGA
CCATCAAATACGAGACTGGGCCCCTTCTCAAAGATTTGATGGAATGGCCCACCCCACCCAAGAGC
GCTTATGTCATAGGGGAACTCATGGCTGGAAACAATCCTTATGGTTTGTTTTGATATCCGGTAGG
AATAAAAAAAAAAGTCCAGGTTGGTTGGTGAGCCTAGTGATAGGAGACTATCTAGCTTGGTTCGG
AGAGCACTTGTTGGGTGAAATATTTTTTGGTTGCTAAATGTTACGGCCTAAATGCTGAACTATTG
ACCCTACTTGTTCGGATGGGTGTTCACCCCAAAGTGTTCCCGGACCGCATGCATACATCCGTAAG
TAACTTAGTGCAACATGGAAAATTTCATTGAGAGGAATCAGCAAAGAAAAGAAAAACGGGTCAAC
AACACCAACATGTGTATTTGAGAGATTGTCCTCTTGGGCGGCCGA
Right flanking sequence: Indices 313942 -- 314441
TAAGACCAAGGAGGATCCTATCCTAAAGGAGAAGGAGGAGGAGTAGGAGCTAGCCTTAGGGGCGG
AATCGAATGATTACGAGATAAACAATGAGACAAAGGAGAGCACTTAGACGAGTCAGCCAAAAAGA
AAGACCACCAAAAGTAACGACCACCAAGATAGGCATAGTAATTCGATCTTTTGATCACCCATTTT
TGGAAAACCATTTTTGGGGGCTTCCGCCTTACACACGGAAGATTGGATTGCCTGAATCACGAGTC
TTATATACTGTGTTACGATCACCTCATATTGATAAAAAGTCCAGAGAACAATTTTTTATGAAAAT
CAAGAAAGAATTTCTGGTCATAAAAACAGAAAGGCATGAATTGCGCAAGAAGTTCTTTCGGTTAA
AACGCCGTGCGACTCGGAGGACATAAGACTTCTTGGTCAAGCCAAAAAGATTGCCGACTGGATGC
TCCTACCCCACCATGCCTGGCCCTTTATCTTACCTTAAGAAGAAA
Found at i:337141 original size:33 final size:33
Alignment explanation
Indices: 337104--337224 Score: 242
Period size: 33 Copynumber: 3.7 Consensus size: 33
337094 AGGAATTCAT
337104 ACCCTCTCACTTCGTTCGAGCTGAATTACATCC
1 ACCCTCTCACTTCGTTCGAGCTGAATTACATCC
337137 ACCCTCTCACTTCGTTCGAGCTGAATTACATCC
1 ACCCTCTCACTTCGTTCGAGCTGAATTACATCC
337170 ACCCTCTCACTTCGTTCGAGCTGAATTACATCC
1 ACCCTCTCACTTCGTTCGAGCTGAATTACATCC
337203 ACCCTCTCACTTCGTTCGAGCT
1 ACCCTCTCACTTCGTTCGAGCT
337225 TCCTTTTCAG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.20, C:0.37, G:0.12, T:0.31
Consensus pattern (33 bp):
ACCCTCTCACTTCGTTCGAGCTGAATTACATCC
Left flanking sequence: Indices 336604 -- 337103
CCGAATCCGTACTTTCCGGTACTATGCCTACTCCCCTTTCCTCTTTCAAGTGGGTTGAACTCTTT
CTAAGGCAAAGGGCCAAGTGTGTGCCACGAGTGCTCTGTCTTCGAAAAGGCAGAATGCTGTTATA
GAATCCGCTATTTTTGGAATAGAATAAGCTTTGTGTCCTAACCAGATGCCGTGGGGCGATAAGGG
GTGCTTTATCTAAACTAGGCAGGAGAACTTGGCTAACTTTCCTACTCTGATAGCATCTCTGAACG
GCAGGTACCCACAACCGCCGTAACGAAGGAATGAATCTATTAAGTGGGAAAGAGCCCTCGTAAGG
CCTCTCTCATCCCTTGCTTATGCTGAATCGAGATTTTATTGGTCTTCTTTGACCCGCGGGTGCGA
ATCGGTAGCTGTGAAACTAGCTCTGGCTTGATGACTGCTTTACTTTTCGCCTTTTCCTGGGGCAT
AGAAGGAGTTGATCCTGGTCGAGGTAAATGGATTTAGGAATTCAT
Right flanking sequence: Indices 337225 -- 337724
TCCTTTTCAGCCCTCTCACGGCCGAAGGCTCCGCAACACGTTGGAGAGCTTTTAGATCCCGCCCT
ACCCTAAAACGCCCATTCCCCTAGAGTTCCGAAGTGATTCTCATTCTCACCGCAGCCTTCTTAAG
CCGAAAGAAAGCCGGGCAAGAATCTCATGGTAGTACGAAGGGGGAGCAGAATCGTATCTGGGAGT
GGTTCTTCGGATCGATCACAGATTCTCGGCCCCGTCTTTTGGCTTCCACTCCAGTTGACCTCTCT
TGTTTCCATCCCACCGTGAGAAGGTAGAGAGCAAAACCAACCCAGCAAACAACTATGACTATGCC
CCTATTAGTAAAGCATGTACTTCTTGCAAGGCTTGCTGAGCTTCTTCATGTGACAGACATCGCAA
AAGTAGTCCGTTGAACGATCGCCGATCGAGGGCATCGTAATAGTATACAATTTTGGAACCCTGAT
GGGTTTCGCAGTCGACCATTTGATAGCCCTGTTCCTGAATATACA
Found at i:393856 original size:50 final size:51
Alignment explanation
Indices: 393760--393857 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 51
393750 ATATAAATAC
* * *
393760 TCTCTCTAAAGGATGGATTAAATATAATGTTCATTTTTTAAGGATTCTCACT
1 TCTCTCTAAAGGATGGATGAAACATAATGTTCA-TTTTTAAAGATTCTCACT
* *
393812 TCTCTCTAAAGGGTGGATGATACACT-ATGTTCA-TTTTAAAGATTCT
1 TCTCTCTAAAGGATGGATGAAACA-TAATGTTCATTTTTAAAGATTCT
393858 AGAGAATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 12 0.30
52 27 0.68
53 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (51 bp):
TCTCTCTAAAGGATGGATGAAACATAATGTTCATTTTTAAAGATTCTCACT
Left flanking sequence: Indices 393260 -- 393759
GAGAGTGAATTAGATAGAGTTACCTACAGAAAGTCAGACAAAGGATGAGAAGGAATGGGTAAAAA
AGCTTCCTGGCTAAGAAAGATAAAAGCAGAAGAACAAGTGATAAGGGCATTAGGGATATATAGTT
AACATATCATGCTTGGAAGCTGCTACCACTAAGACTGATTATGAACCTTAGATCAAGTATATGAT
AATATTTATTGTTAGGTATTAATTTTATATGATAAGTATCATATGATATGAGTTATTAGGTATTT
TATAGTATAGGATAATATATGTTGTTAGGTATTTATTCTATATGGTAAGTATCATATATTATGAA
AAATAATACCTATTATCATCAAGATATATATATTTATTATTAACGATATCAGGAACCCTCTAAAT
CCTCTACAGCATCATACCAAGATACGCTAGATCTCCAGCACTCTAACATGATTCCTAAACCACCT
ACCCCTCCAACCGTAACAAATATACACTACTACATATATAAATAC
Right flanking sequence: Indices 393858 -- 394357
AGAGAATTTCTTTATCAAACTCATTTTCTAAGAGATATAGAGATATTGTAGTATACTACTAGGGA
TAACTTGTGCTCTTATTCTTCTGTCAAAAGTAGGGAAGAGCAAGTGTCTGATCAGATCAATCAAG
CGATAGGGGCAGAGACTTTACTTCGCTAGGACGGAGTTGCTGTCGATTGAGGATTGGCCGAGGGC
CCTTTTTTCTTTTATAAGGGAAGAGATTGTAGCTGGGTACAAATAGGCCGGTGAAAGACGAGTAG
GCAAGCACGCGGGTTGTACCGGTCAGCTTTGAGCTGTCGAGTGACGATTGGCCGAGGGGACTTCC
ATCATGTAGCTGGGTACAAATAAGCCAGTTAAAGACGAGTAGGCAGGGCGTTAGGCTAGTGCCAG
TGGGGTACGTAAACGAGGACAGATCACATGGTTTTGTACTGGTCAGTTTTGAGCTGTCGAGTGAC
GATTGCTCCATCTCTTAAGAAAGGACGCGGGGGGCCTGTCTTATA
Found at i:396036 original size:15 final size:15
Alignment explanation
Indices: 396016--396045 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
396006 AAGACCTTTC
396016 CTTTATGATATTAAG
1 CTTTATGATATTAAG
396031 CTTTATGATATTAAG
1 CTTTATGATATTAAG
396046 GATTTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
CTTTATGATATTAAG
Left flanking sequence: Indices 395516 -- 396015
GGAATGATCACCTTCTAAACAAAATAGGAGTGAGAATTCCCCAACGAACGGAATAAATGAGTGAA
CAAGCACCGAAAGGTGTGCGTTAGTGAAACGAATAGCTCAGTCCTAGCGGACAGGACAAAACTTC
CCTTGGAGAAAGCCAGCCTGAGGGAACTGGATTGGTCATTCCACCATCACTCGATTATAGAGGGT
TGGAGCCCTCTCTCTGAAAGCCCTCTTGATGCGATGAGAAAATGGCTAGTATTCAAGGCTAGTCC
CAAGAAAGCAAGCTAAAGGGCTATCCCGATAAGAAGATGAAGCCTGATCGGGCCAAAAATGAAAG
CAATCGAAGGAAGGGGTAGAGCATGTTCTATTTTTCCGAATCTTTCAAGATGAAAATAGAGGGAT
TGGCTTAACTTCCTCTATGCGGTTGCATACAGCTTTGCTTGAGTAAGGAGTAGGCCATTCCAGAT
AGGCTGCTTTTGCTATTACTGAAGCTTTTAAGAAAAAGACCTTTC
Right flanking sequence: Indices 396046 -- 396545
GATTTTTCCAATCATTAGAGTGGTGTCATCCCCTTTCATTCATGTCTGATGGATAAAAGCCCTTG
GGCCTTCGTTCATTTTGTTTAAGAAGGCTGCGACATATACAGCATCTTTCCATAGACTTTTTCTT
GCCTGGATGAAAATTCAATATATGAATAGTCATTCCCTCACAAATTCTTTATTTGAATATCTTTG
CTTTGTTCGTTCTACAGATATAGATTAAACTGCCTTTCTTGGCACCATCCCTATTCTGATGGCTC
AGTACAAGACCGACGGAAGAGAAGAGGTGAAAAGGCTAGCGAGGCAGAATTCTTTTTCTCTTTCA
TAGCGCCGCACAATGGAGACATTGTAGTGCTAGACCAGATTTACCAGCGGACAGTTGAAAAACGA
TACGACCCAGGACCAATTCTGGTTCTTCTTTCTATCAAAATAAATCGAATTCGAAAGAGCGGGGT
CTTACTTATTCAGGGGGGATGAAAGACAAATAAAGGGATCAGGGG
Found at i:399340 original size:22 final size:24
Alignment explanation
Indices: 399288--399338 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 24
399278 AAAAAGACTT
399288 GAAATCCTTTTATTCCATATTGGAGTA
1 GAAATCCTTTTATTCCATATT-G-G-A
399315 GAAATCCTTTTATTCCATATTGGA
1 GAAATCCTTTTATTCCATATTGGA
399339 AAAGTTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 1 0.04
25 1 0.04
26 1 0.04
27 21 0.88
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (24 bp):
GAAATCCTTTTATTCCATATTGGA
Left flanking sequence: Indices 398788 -- 399287
CCAAGCCAATCTCGAAACAAAAAAGAAAACTTATTGCAACTACGAACGTGAACAGATGCTTTCTC
ATTAGACTATTTTAACCGATTGTTTATGTCGACCCTACGCTACGATTCTTCTTCTCTTATGAAAT
TTCTAGTTAGATGAACACTGCTCTGCTGCATGACGGAGTGATCTTTCCCTCTTATGAAAGCCGGT
ATCTCACTTTCGAAAGAGAGTCTCGACGTGGCGGTGTACACCTAGCTCCATAGCTGGGCTAGTCA
CTGGCTAGAGGGCGACCGACCTACCGGACCGGAGGCAGCCGAGAATGTTATGTAAAAAGGACCAA
GGAGGATCCTATCCTAAAGGAGAAGGAGGAGTAGGAGGAGTCAGTTTTCTTTGAAGATCGAGGAA
CGTAGTGTCGGACAATTATGCCATCATGGGGATTTCCACTTTTTTGTCTACTTCCATCCGTAATA
CTTGGAAGAATTTTACGACTAGAAAATAAGATAAAAAAAAGACTT
Right flanking sequence: Indices 399339 -- 399838
AAAGTTATCGTGGGTCTTGTTCTGGCAAAGGTCACCTTACACTTTGGGTATCTGTTCGCGGATGA
CCTAACTCGTGCTGTGAATCAGTTTTACTCTCCTCCGTCGGGTGAAGGGTGGTTCAGTCAAGCGC
CAACCCCGACTCCTCCACCAGAGAATTCCGGTCTGGAGCTCATTCCCGGTGCGCGAATCGAAGGG
GACGGCCCAGCCCCGGGTTCGGAAGGAGAGAAACTAAAAAAGCTCCATGCCGTAGTCGAAGGGCA
TCTTCGGAGATACTGCGCTTCTGAGGATGGATTGAAAAGGTTCCCTTGTTTGAAAGATAAAAACA
AGGAAGATTTCCAATATTTTGCGCAACATTTTTCTATTACGGAATTGGACATTGATACAAAAAGC
GAAGCGGAAATCGCTTCGCTTTCTGCCTATTTGGGTCCATTTCGTAAAATAGAAACACTATTTCA
TATGTATTTTGACAAATACTTCGAGTCAGACTAGAGACTGAAGTA
Found at i:399935 original size:20 final size:20
Alignment explanation
Indices: 399910--399950 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
399900 ATTTGGCCGA
399910 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
399930 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
399950 G
1 G
399951 TAAGACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GAGTGTTGTGTTATTGTTAT
Left flanking sequence: Indices 399410 -- 399909
TCGTGCTGTGAATCAGTTTTACTCTCCTCCGTCGGGTGAAGGGTGGTTCAGTCAAGCGCCAACCC
CGACTCCTCCACCAGAGAATTCCGGTCTGGAGCTCATTCCCGGTGCGCGAATCGAAGGGGACGGC
CCAGCCCCGGGTTCGGAAGGAGAGAAACTAAAAAAGCTCCATGCCGTAGTCGAAGGGCATCTTCG
GAGATACTGCGCTTCTGAGGATGGATTGAAAAGGTTCCCTTGTTTGAAAGATAAAAACAAGGAAG
ATTTCCAATATTTTGCGCAACATTTTTCTATTACGGAATTGGACATTGATACAAAAAGCGAAGCG
GAAATCGCTTCGCTTTCTGCCTATTTGGGTCCATTTCGTAAAATAGAAACACTATTTCATATGTA
TTTTGACAAATACTTCGAGTCAGACTAGAGACTGAAGTAGAAGAGTAGAAGATGGCCTGAGACTG
AGAGAAGGCGGCCTCTCTCGGGCTCGGGAAAGACAATTTGGCCGA
Right flanking sequence: Indices 399951 -- 400450
TAAGACCAAGGAGGATCCTATCCTAAAGGAGAAGGAGGAGGAGTAGGAGCTAGCCTTAGGGGCGG
AATCGAATGATTACGAGATAAACAATGAGACAAAGGAGAGCACTTAGACAATTCACTTTGAGTAC
AGGGAAGTCTGCTGGTAGGAATTCCTCAGGGCGTATTACGGTTTTTCACCGAGGGGGTGGATCGA
AGCGATTGCAGCGAAGAATTGATCTGAAACGAAGCACTTCGTCTATAGGCATTGTAGAAAGGATA
GAATATGCGCCTAATCGTTCTTCTCGAATCGCTCCAGTACGATGGACCGGGGGGGGGGTCCGCCA
GAGAAAATGCAACACGATAGAAGAGTTCGCTCCGCCGCGTAAGATCCTCGAATCAAAATCAACCA
CGACTACCCTCTGCGGTCCATTTTCGTTCTCTTCCCTGCCCGGGAAGGGGGATCAAAGAAAGGTA
GCTTGCTTCTCTCCTGGACGGATGGCGACTTATGTAGTGGTCGGC
Found at i:425648 original size:18 final size:18
Alignment explanation
Indices: 425625--425660 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
425615 AGCCTATTCC
425625 AATGCAGTGAATACGAAT
1 AATGCAGTGAATACGAAT
425643 AATGCAGTGAATACGAAT
1 AATGCAGTGAATACGAAT
425661 GCGGATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (18 bp):
AATGCAGTGAATACGAAT
Left flanking sequence: Indices 425125 -- 425624
AAAAAAATATGGTGCGACGCATTTTCCGCTTTGATGAAGCTAGTCTGAACTCAAGTTCCAGTTCC
AGTAATATAGCTTCGCCTTCGTCTAGTAGTTCATTCGGAACTAGTAGTACTGGGATTCTAAATCC
TACGAATCAATCTACTACGACTATTGGCGATTTTAGTCTTCGGTCGTCCAGTACTCAGGTTGATG
GGAGTGTTTCGAGTATTTTGAATAATCATGGTATTTTTGAAGGTCTGGACCCTACTACTTCTACG
ACTTTTGAAAATATAGCAGACCACCTAAGGGGTGAAATCTTTGAGTCCGTTCAAAAAGTCTTCAA
AAATCATTGTTCAGATGAAAACAAATTACTCGCAATCACAGAAAATTTGCATAATGATGATGACA
ACACGGGTTTTCTCGGAGAAATTTTAGAACATTTAAAAGACAAACAGGGTGAGCACTATGACTTT
GCCCTAAAACAATTTAACGAGATTGTAGGGGGTTCAGCCTATTCC
Right flanking sequence: Indices 425661 -- 426160
GCGGATCTCTTAGAAAGCCCACTTGATCAATTTGAGATTGTGCCATTGATTCCTATGAAAATTGG
AAACTTCTATTTCTCATTCACAAATCCATCTTTTTTTATGCTACTAACTCTCAGTTTGGTCCTAC
TTTTGGTTTATTTTGTTACTAAAAAGGGAGGAGGAAACTCAGTACCAAATGCTTGGCAATCCTTG
GTAGAGCTTATTTATGATTTCGTGCTGAACCCGGTAAACGAACAAATAGGTGGTCTTTCCGGAAA
TGTTAAACAAAAGTTTTCCCCTCGCATCTCGGTCACTTTTACTTTTTCGTTATTTTGTAATCCCC
AGGGTATGATACCTTATAGCTTCACAGTTACAAGTCATTTTCTCATTACTTTGGGTCTCTCATTT
TCGATTTTTATTGGCATTACTATAGTGGGATTTCAAAAAAATGGGCTTCATTTTTTAAGCTTCTT
ATTACCCGCGGGAGTCCCGCTGCCATTAGCACCTTTTTTAGTACT
Done.