Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065227
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: 441853
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Found at i:39930 original size:17 final size:17
Alignment explanation
Indices: 39908--39942 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
39898 ATCATCTCTT
39908 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
39925 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
39942 T
1 T
39943 AGCTTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.29, G:0.11, T:0.14
Consensus pattern (17 bp):
TCAAGAAGCCAACTCAA
Left flanking sequence: Indices 39408 -- 39907
TGCGCTCTCACTAGACTTTTTTTTTTATGTCTACGCCGCCTCGATTCACTCAGATTTAATGGTTT
GGTAACCTGCAACATCTTTGGTTCGGCTAGCTTTCATTTTTTTGATCGAAGTCGGTTGTCTTATT
AATCGATTGGAACTCGTAGCTCCAACTATGTATTCCCACTGCCCTGACATGGACAACTTCGCTTT
TACCTAGGTTTATTCACGAAGCATAGGGCATACTTTCTATATAATTTATGCTTTCGTCCAGCCGG
AATCTTAACTGGACGTCTATTGAAAAGGACGGTAAATTGAGAAAAAAAGCATTTCATTAAAAAAA
AGAGTGGATTCTTGAGGTTACATTCCGCTATAGTAGCTTGACCAACGTGAAAGTGGAACAAGTGC
ATGCCCCATACACGAAATTGAATATTAGAGTATAAATCTCATATCGGTATGAGGCTTCCAGTCGA
ATATCTGACTCCGCCTATCACTTTATTCTGCTTCCATCATCTCTT
Right flanking sequence: Indices 39943 -- 40442
AGCTTCTTTTAGAACCGCTATGCCCTCTGCTGCAACTGAGCTAGTTATTGGGAACAGATGGGGAC
TACAAGCGAAGCTTCGCTTGCTTATACCACGTAATTCAACCTCAACAGGAAGGCAAATGGTAAGA
TCCGGGTAAGAGGTTTCGCAGATCTGCTTATTACTGTACCAAACAACAAGACGAAAGCGTCAAAG
GCGAAGCCATGGCGTCACACAATTATCATACAAAATTCTCATTAAGCCACTGTGAGAGAAGGTTG
CTGATCGACGATAATAGGTAGCTTGCAACTATAACATAAAGTGGACGAGCTGACTCAGTGGAGCC
TAAAAATAGCACAAGGTAGTACTAGAAATGATATACAGATGAGATCAAAGGATGGATACACGCAC
GGAGGGAACCAGAACCGGGATAAGCCGCCCTTATTGGGCGCGGTAGAAGCTTACTCTGTAGTTGG
TCTGAAGGAGGTGTTCCACTTCTCACCATCGATTATGATTCGTAT
Found at i:69512 original size:15 final size:17
Alignment explanation
Indices: 69481--69513 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
69471 ATCGTATAAT
69481 ATATATATATATATATA
1 ATATATATATATATATA
69498 ATATATAT-TAT-TATA
1 ATATATATATATATATA
69513 A
1 A
69514 AAGTCGCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATATATATATATA
Left flanking sequence: Indices 68981 -- 69480
TATCATCTACGTCAATTTCTTCTTCAATAGATTCCCTCACTTCTGGCCCGAGAGAAAGTAGGCCA
AAAACGTGGGATGTAAAAAAAGGTGTATTCTAGGGCCAGGTGATGTCAGGTATACAGGATGAGTC
TCACAGTCCCCACAGCCTCCACGCGAGAACGCATCCCCTTTTCCGTGATGATGCTTTGTTAATCC
TTTACTGGAAGTCTGCTTTTAAGAAAACCCTGCATAGAATAGGTCACATAAAGTGAAGGCTGGTA
CCCGAATCAATCCACCATGCATAAGTAGATAAGTAAAAAAAAAGCAACTTTTCAGAAACAAGGGC
ATAGTGATTGCCTTCCTTCACTCCTTAAAAAACCGAAGCTTTGAACTAAATATCGTACAATCCTT
TTTTATAGTTGCAAAGCATAGCGAGAGAAAAAGAACAAGAAAGTTGACCGTGACGGTCGTAGCTC
TATCAAGTAGGTACGCTAAACACTCATAGACCGGTATCGTATAAT
Right flanking sequence: Indices 69514 -- 70013
AAGTCGCGGTGGAATCCATTGCGATCTTGGGCATCGCCAAAGAAGGGTGTTCTCAGCGCCTATGC
TTAACACGGCTCCCATGATAGTAGCAGAAAACGAGTTGTGCTGGTGATGTGATCGGACCATTTCC
CCCCGGGAAATACGGTCACAAGTTCATACTTTCTTTTTTACTAGTAATTTTTTACTAGAGTAAGT
CAAGATCAGAGCAGACACAACGACGCAATTCTCAGGGGCGTGTCTGGTGCTATCGTATATAATAT
AAAGGTTGGGTTGCATTTAGGAAGGATCTTTCTCTTTAACTATAAATATCTTAAGATAAGAAAGC
GTAAAAAAGAAAGGTTTTGATTCGACCTGATTAAACAAAAAAAAAAAAGCTTTCTCCGCGTCAGG
CTGTTGATGTAGTTGCTTGTACTTTTCATTTTATGTCGAGATTTAGTTGGTGTTCAGTGTACCAT
GAGTAGAAGATCGAAAAGAATGAATGCATTGATTGCATTTCAAGT
Found at i:111837 original size:17 final size:17
Alignment explanation
Indices: 111815--111859 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
111805 TCGGGAAGAG
111815 AGGAAATCTGTCTTTAT
1 AGGAAATCTGTCTTTAT
* *
111832 AGGAAATTTTTCTTTAT
1 AGGAAATCTGTCTTTAT
*
111849 AGGGAATCTGT
1 AGGAAATCTGT
111860 GCCCTTTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (17 bp):
AGGAAATCTGTCTTTAT
Left flanking sequence: Indices 111315 -- 111814
CTTGGAGAACGCGAAGCCTTTTTTTCTCGGTCGTCCTTCTCTAGGTACAAAAAGGAATTTACGGG
ATATCTCCAAAATTCGATGTACTTCTTCAAGTGTGGGACACATCTCATGTTTGCCGAATCTAAAA
ACCATCGTCTTTGCATCCCAACACTTCACTGCGGCTATGATCGGATCCCAGTGTTGGTTCACTTT
TTATCCTCCACCAAATCTTCTGAGCTCCTGTTCTCAATGATGTTAAGCAGCTCTTGATCGCAGCA
ATCATGCCTTCGAAGGTACGCTTTTTTCATTCAACTGTGCTTGAAAGAGAGAGGATATGATATAA
GGTAAGCCCCAATTCCACTGAAAGATTCAATTCAGTCAGCTTGGCTTTTTCTCTAGTTTGCCTTT
TTGTCTACCTTCTTTAGTCAATGTCGCATTTCGAGTGCTTGGTTAGATCTCCTAATGGAGAAGAT
GCGGTGAATCAATCAGTATTAGCTAAGGAAAGCATTCGGGAAGAG
Right flanking sequence: Indices 111860 -- 112359
GCCCTTTGTTTGGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGACTAATCGCTAAGAGCTC
GCCCCGAGTGCTAAGTACGGCATTCAGTAAGAAGTAAGCCAAGTTCAGTGATCCTCGAGAATAAA
CTATCAGGCGGAGGAAAGAACTGATGACTCACATCCCACAACACAAGAAGGATGGAAAGTCGTGG
AATTGATCGAAGTTAGCCAAGTTCTCTTAGCCGTTACGTTAGGGTGACTCGAGAAAGCTTGAAAG
AATAAGATACGTAGAGCGTGAACCAAGGTTCATAGGCGGATCAAAGTAGAATCTTGCAGATCCTA
GTTCGCTTTCTAATCGCTTTCGGGACCAGTCTTCAATGGCATGAAGCTTTAGTGGCATAGAATTG
GCTGCCTGATCGGACAGATGAAAGGAGAACTATCTGGTGAGGCATCTGGATTTGATTCGGGTCGG
TTAAAGCTTGAAAGGGAGTTCGTGGCCTACTAGGAGTTCTGTTTT
Found at i:121370 original size:18 final size:18
Alignment explanation
Indices: 121330--121372 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
121320 ACCGCCCTGC
121330 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
121349 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
121366 CATAGTC
1 CATAGTC
121373 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 120830 -- 121329
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAGAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAT
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 121373 -- 121872
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:191206 original size:20 final size:20
Alignment explanation
Indices: 191181--191218 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
191171 TCTTGTTTTA
191181 GTAGCTAAGGAGTT-CTAGTT
1 GTAGCT-AGGAGTTGCTAGTT
191201 GTAGCTAGGAGTTGCTAG
1 GTAGCTAGGAGTTGCTAG
191219 CAGCTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.32
Consensus pattern (20 bp):
GTAGCTAGGAGTTGCTAGTT
Left flanking sequence: Indices 190681 -- 191180
TTTTCTCCAACCTTCGATGATCCTCCTGCAGGCAAATCATCGAAGTCAAGAAAAGAAGAAGTGAT
GGGCCAGGCAGCAATGCTAGGTCCGAGGAAGAGACCTGTAGGTTTGGAAAGCCTGTCGATCCATC
CTGATTAACTTACGCAATTTCTGACTAGAGAGAGGACTTAGATCGGAGAGGAGCAGCTCTTTTCT
TTTTAACAGAAAGCAGTGATGAATGGGACAGAGCTGCTACAATAGCTTCAAGCTGGAGCTGCTTT
ATGTATTGGAGCAGAGGTGGCAGTTCAGACAGCAGCAGGAGCAGGACCAGCAACTAGGGTTGTTT
TGTTCACAGAGCAGCCGTCTTTCCCTCTCAAGCGGAGAAGACTGGTTACATGTCCGATCCGGTAG
GGATGGTTCTTCTCGACAGATTAAGCTACTTACTATAGTTAGGGTATTGAACAACGGGTGGCAAC
TTGCCCAATAAGAAAAGTCGCCCGAGTGAAAGAGCTCTTGTTTTA
Right flanking sequence: Indices 191219 -- 191718
CAGCTATGAGTTCCGAGTTGACGAGATCATAAACAAATCTGTCTGGGACTGGTGACACCTGTACC
ACACTCTATGGCACACACCCCTCGTTGTAGTAGACGAAGATGGTCACCTAGGATAGGCAGACAAC
CCTGAACCTTAGAAAGTCGCCGGCGGAGACGCTACGGGAGAACCGCCTAGGATGGCGTAAGAGAC
TCGAGCATCTCTTTCTTCAATTTGGGTTTGTGCATTTGTCTTTCAAATAGGTCAAGGGTTCAGAC
AGGAGATGTGCTTTAGCCAAAGAAGCTTGGGCACCTGCTCCAATAAAGCTAAGAGGACTAGCTAC
GGTGTGGGCACCAGATCCACTCAGTGAGGCCGGGCAAGACTTTACGTCCGATATAGTAGTGTCAG
ACATTTGTCATACTTAAGCAGTGGGATAGACTCCTTCAAATGGAAAGATAGGAGATGTTTAGCCA
GTACAAGCTGTGTTTGTGGCACCCATCCGGGTGGAGTAGCCAGGA
Found at i:202116 original size:18 final size:18
Alignment explanation
Indices: 202093--202127 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
202083 GAAAAGCTGT
202093 TAGCCTTTTATGCCCTAC
1 TAGCCTTTTATGCCCTAC
202111 TAGCCTTTTATGCCCTA
1 TAGCCTTTTATGCCCTA
202128 GCCTTCCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.40
Consensus pattern (18 bp):
TAGCCTTTTATGCCCTAC
Left flanking sequence: Indices 201593 -- 202092
TCACTCCTTTTGGTCCGGGTATCTGCCCTCTGATTCGGTGGAGTAACTGCCCGCCCTGTATCTGG
TGGTGCCTGTCTGGCTGGCTTCGGCTTGCTGAACGTTGTTATTATTCTTTTTAGGGTCTGGTGGT
CTTGCTGCAGTCAGCGCTCGCCTCATTCAATCCCCACCTCTCTGTATTGCTAGCACAGAAGGCTC
TCTCTGTTCTTACTACCTACGGGATAAAGCCAAGCCATGGCCTCCAGGGTTGGTTGTCTTACTCG
AGGTTCTGCCCGCTCCATCGATATCTTTCTTACTACTTTCCTTGCCTTGGCAAAGTCTACCTGTA
CGTTACGATTTCAAGCCTTTCCGAACGCCCGTTAGAACTGAACTTTGAAACCGGTAGCTTTGATG
CCCGACGCTTCGTCATGCCAACCTTGAGCCCCTTTATTTAGCCCTGTACTGTGGTGAAACCGGAA
CTTATGGCTGAGTGTTTTTAGCCGCTTTTGACTCGGAAAAGCTGT
Right flanking sequence: Indices 202128 -- 202627
GCCTTCCCTAGCCTTGAAAACGATTATGCTTTCGTAATTAGTTCCAGCTTAGCTTCGTCATGCCC
ACCGGAAGGAACGCCTTCACTCACGCCAACAACAACAACAACCTCTGCTTAAGCAGCCTACCTTG
AACCAGCGAAAGTTAAAATCACATTTCTTTGCCTGAGAGAGAAGAGCGTCAGCCCGCACGGTCCC
TGTGAGCAGCGGATTGCTTCCGCGTTGAGCCCTTGGCACTGACCTTTGAGACATCGTTCCCGTAG
CACCTTATACCTGACCTTGGAATGTCACTCTGCCTCACAAAGATCGTCTCTCTGGCACTTCCGCT
TCCGGGGTTGGGTCAAAGCTATCGGTCGATCTCGTGGCGAGCCTTCCCCACCTACCTTACCTGGA
CCACCGTTAGCCCACCAACTTCCTTTGCAACCTGAACGCCCAACAACTTCCACTTCCACTGGGAC
TTGACCACCAACAGGCACTGGCTCACCTCACTACGCTCCGAAAGC
Found at i:225969 original size:22 final size:23
Alignment explanation
Indices: 225937--225989 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
225927 GAGGTTACTA
225937 TCGT-CCTACACTAG-GTCACCC
1 TCGTCCCTACACTAGCGTCACCC
* *
225958 TCGTCCCTACACTAGCTTCTCCC
1 TCGTCCCTACACTAGCGTCACCC
225981 TC-TCCCTAC
1 TCGTCCCTAC
225990 GGTCGAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 17 0.61
23 7 0.25
ACGTcount: A:0.15, C:0.47, G:0.09, T:0.28
Consensus pattern (23 bp):
TCGTCCCTACACTAGCGTCACCC
Left flanking sequence: Indices 225437 -- 225936
CTCCTCCGGCCGCCTATGGAAGTAGTAGAGCCACCTAAAGTGCTTTATAGAAAGTAGTCCCATGC
ATTCCTACAAATGTAAATGGTATCGCTAGACGGTAAGGAAAGAGAAAGGGCCTTTCAGCCTCTGC
TTGAGTTCCTCTTTTTTATGTTTATGGTCTTTCTCGAGGCGCTGCCTACCTACAAGGCAAGATCA
ATTGAACCTTCACCTTAAACTGCGACCGGTCTAAATGCAGGCGCTTCGGGCACAGTAGTTGTTAT
AGATCAATCCATGGGAGTCTCCGACTTGCTACCCCTTCTCCAGAGCTGCAAAAGAGTTTTACTTC
TATTATCTTACGTATAATTTCTAGCAATACTCTTAGTAACTCTCTTTTTATAAGATATTATAAAA
AGTCTTTTGGCATACCAATCAGTGAAACTCTAAGCTATCACAGCTACATCCACTCATAAATGCTC
CGCTGCTCGGGGAACACTCGTTACGAAGAAAAGGGGAGGTTACTA
Right flanking sequence: Indices 225990 -- 226489
GGTCGAGTTGCCCCGCCCATTTCCTCTCAGACAAGCACGTAACCATCCCCAGTCGAGCTAGCGGC
TCTATCTTCTACTGATATCGAGCTAGGTCCAGATAGCTAAATTGATTGTATGACCATTTCTGGAC
GTTTCTACGGTTTATGGCCAGGGATGCAATCCTATCGATCGATTTCCCTATAGCTTTTTGCCCTC
TCGGCGTAAGATTTTGATTGGAAGATTGGGTGAAGCCTAGCTTCTTTCTTTCTTGCCTCTGCCAA
AACCAATAGGAATTGGAGCTCCTTCTGAGTAGAATGAGGAGAGTGCAGACGCTTTCACAGATGCC
CGGTATCTTCCGGAGCTGTAATCTTTACACACTAAGTAAGCAAGCTTTGGTTGGCTCTATTAACT
CAAGATATCCATCATCCCGCGCTATACGGATCGAAGCCTTCCACTTTAGGAATAGGTTTAATTGT
TTAATGTGAACGCTAAGGAAGAGAAATCCTTACCGGAAAGCCGGG
Found at i:294961 original size:8 final size:8
Alignment explanation
Indices: 294948--294987 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
294938 AAATAATAGA
294948 TATATAAT
1 TATATAAT
294956 TATATAAT
1 TATATAAT
294964 AGATATATAAT
1 ---TATATAAT
294975 TATATAAT
1 TATATAAT
294983 TATAT
1 TATAT
294988 CTATAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 21 0.72
11 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (8 bp):
TATATAAT
Left flanking sequence: Indices 294448 -- 294947
CAGCCTTAACCTGTCCTCAGACAGCCAGCCCTCACCAGGCTGCTGGAATTGCTAAATGCTCCGCC
ACGAAGCAAGCTCTCCCGATCCCGAAGACGACAGATGCGGAAGTGGCTAAAGAAGTCGGAGGAAG
AAAGTTGTTGGGCAATTGTATGCGCGAGGGTACATTATAAGTATTCTGAGAATTGGCAACATTGA
CAGAAAGGGGAAGAAAAGGGGGTAGGAATAAACTTTTTTAGGTGTAGCTATACTAAAGTAAGTAG
TCGGCCTAACCTTCGGTTACCGTAACCAAGTTTTTCTTTCTCACTCCTTATGTTATGTACTTTTT
CTTACTTAATCCATACTTTTTTACCTTTTCTGAAGTGTGGGGCAAAGGGTGCCCTCTACTTATAC
TTCTAACTAAAGGCGAACTGCAGGCATTGCAAGCAAACAAAGCGCCCCCGCCCGTTTGAGTCGCG
AAGGGGCCGCTTGCTTAAAAAATTTATTTTATATAAAATAATAGA
Right flanking sequence: Indices 294988 -- 295487
CTATAAACTAAGAAAATCCGTTTTTTTTATCCAATTGTTCATTCCCGGGAAGAGGAAGAAGCAGA
TAGAGCAAAGGCCTCCTCTTTCCTTCCGTCCGCTCTTCCCGAAGTGGGCGAATTGCATGTAGAGA
TCCGCAGGGGCTTATAGTTTAATTGGTTGAAACGTACCGCTCATAACGGTTATATTGTAGGTTCG
AGCCCTACTAAGCCTACCACCCCCTTCTCTGCACCCGATACAAGGCAGTCGAAGTCCTCGCCACC
CTGCAGATCTCAATCTAGCGACGGCACCTGGAACCGCACAGCTTCCGCTGCCCTTCGGGCACGCC
TCCTACGCTCTTGCGGCATGCCCCCTTCGGGCAATACGGCTTTCGTGAGTAATACGCGAAGCAGC
TGAGCGATAGCTCTCTTCGATCGCTATATTCTTGCGATAGCGAAGGCGTAGTTCATCCTCTAAGA
GAGAGTAGATGCGAAGATTCGGATCGAAGATCTTCGCTTGGGCCG
Found at i:294964 original size:19 final size:19
Alignment explanation
Indices: 294940--294982 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
294930 TTTATATAAA
294940 ATAATAGATATATAATTAT
1 ATAATAGATATATAATTAT
294959 ATAATAGATATATAATTAT
1 ATAATAGATATATAATTAT
294978 ATAAT
1 ATAAT
294983 TATATCTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
ATAATAGATATATAATTAT
Left flanking sequence: Indices 294440 -- 294939
AGCAGGCCCAGCCTTAACCTGTCCTCAGACAGCCAGCCCTCACCAGGCTGCTGGAATTGCTAAAT
GCTCCGCCACGAAGCAAGCTCTCCCGATCCCGAAGACGACAGATGCGGAAGTGGCTAAAGAAGTC
GGAGGAAGAAAGTTGTTGGGCAATTGTATGCGCGAGGGTACATTATAAGTATTCTGAGAATTGGC
AACATTGACAGAAAGGGGAAGAAAAGGGGGTAGGAATAAACTTTTTTAGGTGTAGCTATACTAAA
GTAAGTAGTCGGCCTAACCTTCGGTTACCGTAACCAAGTTTTTCTTTCTCACTCCTTATGTTATG
TACTTTTTCTTACTTAATCCATACTTTTTTACCTTTTCTGAAGTGTGGGGCAAAGGGTGCCCTCT
ACTTATACTTCTAACTAAAGGCGAACTGCAGGCATTGCAAGCAAACAAAGCGCCCCCGCCCGTTT
GAGTCGCGAAGGGGCCGCTTGCTTAAAAAATTTATTTTATATAAA
Right flanking sequence: Indices 294983 -- 295482
TATATCTATAAACTAAGAAAATCCGTTTTTTTTATCCAATTGTTCATTCCCGGGAAGAGGAAGAA
GCAGATAGAGCAAAGGCCTCCTCTTTCCTTCCGTCCGCTCTTCCCGAAGTGGGCGAATTGCATGT
AGAGATCCGCAGGGGCTTATAGTTTAATTGGTTGAAACGTACCGCTCATAACGGTTATATTGTAG
GTTCGAGCCCTACTAAGCCTACCACCCCCTTCTCTGCACCCGATACAAGGCAGTCGAAGTCCTCG
CCACCCTGCAGATCTCAATCTAGCGACGGCACCTGGAACCGCACAGCTTCCGCTGCCCTTCGGGC
ACGCCTCCTACGCTCTTGCGGCATGCCCCCTTCGGGCAATACGGCTTTCGTGAGTAATACGCGAA
GCAGCTGAGCGATAGCTCTCTTCGATCGCTATATTCTTGCGATAGCGAAGGCGTAGTTCATCCTC
TAAGAGAGAGTAGATGCGAAGATTCGGATCGAAGATCTTCGCTTG
Found at i:330837 original size:15 final size:16
Alignment explanation
Indices: 330795--330837 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
330785 TCCTACCTTA
330795 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
330813 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
330828 ACAGTCGATC
1 ACAGTCGATC
330838 TGTCCATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (16 bp):
ACAGTCGATCATGCGC
Left flanking sequence: Indices 330295 -- 330794
TTGCATGAAAAAACTCAAAAAAGAATAGGTGATCGTAGGTCAGCCCGTGGGTAAGTTCCGGGCTT
TCATTGATATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATG
CACATAGCTTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCT
TTCCCGCGGGTTCGGTTACAGATAGGATACACGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAA
GTTGGCTTTGAAGGTACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCCCATCTTCAGTTTCGGGATATTGCTCCTATGCCTCTTCGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTTATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAATTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 330838 -- 331337
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTTAAGTATGGCAACTTGAG
GTCTCCTATTTAACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTAAAAGAAAGAAAGGTAGAAGGGGGGTTTTCTACCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTCACTGGATCGGAG
CCTTTCGGAAATCCTCCCCTTTTGGCTTCACTTGAGCGGTTGACGCAATCCAAGAGGAAGAGGAA
GCTAAACCCGTGCTGACGAATAAACAAACCCCTTAATTCGTCGAGTAAAGTAAATAGGGAAGGTA
TAGGTTTGTTATGAATGACCCCGTATCGAATACAGGTAATAATAT
Found at i:339039 original size:39 final size:39
Alignment explanation
Indices: 338985--339063 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
338975 CGATTTTCTA
* *
338985 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
339024 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
339063 T
1 T
339064 GAAGGATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 338485 -- 338984
GCCCACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACTGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 339064 -- 339563
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
AATCCTGTCACCTTACTTCGAATGGAATCTTAGCCCGCCTCACTTGCTTTCTGTACTGCATAAGG
GCCATAAGGGCATAAGCGAAGTCAAGGGATTTCCTTCTAACTAGTGGCTGAGAGTAAGCAAGCTA
CCTTCATTCAACAGATTTGTGGTTGAGTCAATAACATGCTCTGGGTCGGGAATCTTTGCTCTTCT
CTTTTGCATTTCCGCTGCCTGCGTTCTTCTTCGTGTCCGTCCGTATCGCAAAGCTGGTCGACGCC
AGCTGTAATGGTTGAAAATAGGGGGCCAACCAAGACCCTACCCTAATAAAGCTTTGTTCGATAAA
GCAAACGATTCGTTCCGACAACTTCGGACCAGATTAACCCTTTTGAATTAGCCGATCTTACAAAA
TGGATCGGGCGGGCTGGTTGGGAAGGGGTGATTTGCGGAGAAAAG
Found at i:375399 original size:13 final size:13
Alignment explanation
Indices: 375381--375406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
375371 CCCCGCCCTA
375381 TAGAATGAATAAG
1 TAGAATGAATAAG
375394 TAGAATGAATAAG
1 TAGAATGAATAAG
375407 GAGAGGCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
TAGAATGAATAAG
Left flanking sequence: Indices 374881 -- 375380
TGTCCAGCGGTGTTGTCCACCAGAACATCGATGTGCGGAAGAGAAAAAGAATCTTTTCGGCTTGC
CTTGTTTAGGGTCTTTTGACTCACGGAACCTGCTTTATGAGGGAAAAACCGTTCTCGAAAAGCGT
GACCATCCCGTTGAATCTCGTTACCCTCCCGTGTGGTTATGGGGGCGCGCCCGCTTTCCACTATT
ATGGAGCCGGGCCGCAAGCAAGTGAATGCGATCCCGCCCTCCATCAGCCGGTGTGTGTGAGCTTC
GCTCCTTATAGCTCTACACCGCCGCCGGCCACTTTAGCTCCTCTACCATATGATTCATTCTTTGG
AAGTTAGGCACGTGACTCGATAGCGCAGGCACAAGACCTTTGAATGCAAACAAAGAATGGCGAGA
CCGCATATAGTTTGGAACCCAAGCTTACCTTATTATTATTCAAAGGGGAAGGTTTGATAAAGGAG
CTTTTAAGCCCTTTTGCTGAATTGTTGGTCCGCAGCCCCGCCCTA
Right flanking sequence: Indices 375407 -- 375906
GAGAGGCCTGTTGATGACCGAGCCACTCTTATACTACTCCTTACCTCACCCCCCCCCTTGTCACT
TAAAGGGCGAAGTCGCTGAAGCGAGTCTAAAGGCCAAAGAGTGATCTTTGAACGCTACTACGCAT
CCTTACTAATAGTATAGTGTAAGGTAGGTTTGGGTATAGCAGGACTTGAACCTGCGACCATTAGG
TTAAAAGCCCAATGCTCTACCAACTGAGCTATACACCCCCAAAATATATAGTAAAAAATAAGGAT
TGGTGCGGAAAAAAAAGGGGGCAGCCGCGGTCGAACTCTAATTCTGGAAAAAAGTCGGGGCCCCT
TTTCCAAGTCTACCAGATAGAAGATGATAGAGGGCCATATCGTTGCGTTGGACAAGACGGCGCCG
TCTCACTTCGAGTTCCTTCCTTCGTAGTAAAATCAGATGATACGCTTCGGCGATGTTACCTACCA
AATTTAAGGCCTGCTAGGTGATCGAAATTGCTCAGGTCAGTGAGG
Found at i:391782 original size:18 final size:18
Alignment explanation
Indices: 391761--391797 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
391751 AATAGAATTA
*
391761 CAACTCGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
391779 CAACTAGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
391797 C
1 C
391798 TATTAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.16, G:0.22, T:0.05
Consensus pattern (18 bp):
CAACTAGAAAAGGAAAAG
Left flanking sequence: Indices 391261 -- 391760
CTGTCTCAACCCTGACTGACGACTAGCTTTACTTGATAGAGTTGCCTTCCATGCCCGGTTAAGTT
CGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGAAAAC
AAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATACAAT
CTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAAACAG
AAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCTATGC
CCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCACTACT
CGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAATTTT
ATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTA
Right flanking sequence: Indices 391798 -- 392297
TATTAAAACTAGAAAAGCTATTAAAATTACAACTAGAAAAGGAATTAAAAGTAGAAATAGAATTA
CAACTCGAAAAGGAAAAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCTATTAAAATCGCTTGA
GTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAATATCCCTT
CCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTAGCGTAAG
AGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGACTTCCGTC
TTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGCGGAGCAGTTAAA
GAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGTGATGCAG
CGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGA
Found at i:391826 original size:24 final size:24
Alignment explanation
Indices: 391799--391847 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
391789 AGGAAAAGCT
*
391799 ATTAAAACTAGAAAAGCTATTAAA
1 ATTAAAACTAGAAAAGCAATTAAA
* *
391823 ATTACAACTAGAAAAGGAATTAAA
1 ATTAAAACTAGAAAAGCAATTAAA
391847 A
1 A
391848 GTAGAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.22
Consensus pattern (24 bp):
ATTAAAACTAGAAAAGCAATTAAA
Left flanking sequence: Indices 391299 -- 391798
GAGTTGCCTTCCATGCCCGGTTAAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGA
CAGTAAGAATTTAATTGCCTTGAAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCA
TCTCTCATTAAACTTTTATAATACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGA
GTAAAAGGAAATTAGCCTTTCAAACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATC
GTAAGAGAGAGAGAGAACCTCCTATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAAC
CACAACTCACTATAATTCTTCACTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGG
AATCAAAATGACGTAAATCCCAATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAAT
AGAATTACAACTCGAAAAGGAAAAGCAACTAGAAAAGGAAAAGCT
Right flanking sequence: Indices 391848 -- 392347
GTAGAAATAGAATTACAACTCGAAAAGGAAAAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCT
ATTAAAATCGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGA
ATAGAAATATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAA
ATTGCGTAGCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAA
CCGGCGACTTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGG
GGCGGAGCAGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTG
TTCCTTGTGATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCAA
GGAATAATGGACTTACATCACGATATCTTTTTCTTCCTCATTCTG
Found at i:391852 original size:18 final size:18
Alignment explanation
Indices: 391822--391877 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
391812 AAGCTATTAA
*
391822 AATTACAACTAGAAAAGG
1 AATTAAAACTAGAAAAGG
*
391840 AATTAAAAGTAGAAATA-G
1 AATTAAAACTAGAAA-AGG
* *
391858 AATTACAACTCGAAAAGG
1 AATTAAAACTAGAAAAGG
391876 AA
1 AA
391878 AAGCTATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.57, C:0.09, G:0.16, T:0.18
Consensus pattern (18 bp):
AATTAAAACTAGAAAAGG
Left flanking sequence: Indices 391322 -- 391821
AGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGA
AAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATA
CAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAA
ACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCT
ATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCAC
TACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAA
TTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTACAACTCGAAAAGGAAA
AGCAACTAGAAAAGGAAAAGCTATTAAAACTAGAAAAGCTATTAA
Right flanking sequence: Indices 391878 -- 392377
AAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCTATTAAAATCGCTTGAGTCGCTGCCTTGTGA
AAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAATATCCCTTCCAAATATCTAATAT
AAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTAGCGTAAGAGAAGAAAATGCCCA
AAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGACTTCCGTCTTCCTGAATTGGGAG
AGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGCGGAGCAGTTAAAGAATGAACCAACCCA
AATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGTGATGCAGCGGAACCATGGCAAT
TAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAATGGACTTACATCACGATATCTTT
TTCTTCCTCATTCTGATTTTGGTTTTCGTATCACGGATCTTGGTT
Found at i:391858 original size:24 final size:24
Alignment explanation
Indices: 391807--391859 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
391797 CTATTAAAAC
* * *
391807 TAGAAAAGCTATTAAAATTACAAC
1 TAGAAAAGCAATTAAAAGTACAAA
* *
391831 TAGAAAAGGAATTAAAAGTAGAAA
1 TAGAAAAGCAATTAAAAGTACAAA
391855 TAGAA
1 TAGAA
391860 TTACAACTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (24 bp):
TAGAAAAGCAATTAAAAGTACAAA
Left flanking sequence: Indices 391307 -- 391806
TTCCATGCCCGGTTAAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGA
ATTTAATTGCCTTGAAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCAT
TAAACTTTTATAATACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGG
AAATTAGCCTTTCAAACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGA
GAGAGAGAACCTCCTATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTC
ACTATAATTCTTCACTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAA
TGACGTAAATCCCAATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTAC
AACTCGAAAAGGAAAAGCAACTAGAAAAGGAAAAGCTATTAAAAC
Right flanking sequence: Indices 391860 -- 392359
TTACAACTCGAAAAGGAAAAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCTATTAAAATCGCT
TGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAATATCC
CTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTAGCGT
AAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGACTTCC
GTCTTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGCGGAGCAGTT
AAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGTGATG
CAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAATGGAC
TTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTTC
Found at i:391892 original size:30 final size:30
Alignment explanation
Indices: 391809--391920 Score: 118
Period size: 30 Copynumber: 3.5 Consensus size: 30
391799 ATTAAAACTA
391809 GAAAAGCTATTAAAATTACAACTAGAAAAG
1 GAAAAGCTATTAAAATTACAACTAGAAAAG
* * *
391839 GAATTAAAAG-TAGAAATAGAATTACAACTCGAAAAG
1 G----AAAAGCT---ATTAAAATTACAACTAGAAAAG
*
391875 GAAAAGCTATTAAAATTACAAGTAGAAAAG
1 GAAAAGCTATTAAAATTACAACTAGAAAAG
391905 GAAAAGCTATTAAAAT
1 GAAAAGCTATTAAAAT
391921 CGCTTGAGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
30 35 0.52
32 5 0.07
33 2 0.03
34 5 0.07
36 20 0.30
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (30 bp):
GAAAAGCTATTAAAATTACAACTAGAAAAG
Left flanking sequence: Indices 391309 -- 391808
CCATGCCCGGTTAAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAAT
TTAATTGCCTTGAAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTA
AACTTTTATAATACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAA
ATTAGCCTTTCAAACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGA
GAGAGAACCTCCTATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCAC
TATAATTCTTCACTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATG
ACGTAAATCCCAATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTACAA
CTCGAAAAGGAAAAGCAACTAGAAAAGGAAAAGCTATTAAAACTA
Right flanking sequence: Indices 391921 -- 392420
CGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAAT
ATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTA
GCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGAC
TTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGCGGAGC
AGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGT
GATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAAT
GGACTTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTTCGTATCACGGATCTTGG
TTCGCGCTTTATGGCATTTCCACTATAAAAAAAATCCAATCCCGC
Found at i:397069 original size:21 final size:20
Alignment explanation
Indices: 397035--397076 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
397025 ATGAGGTTAC
*
397035 GAAGTAAACGAAGTGAGGTG
1 GAAGTAAACGAAGTGAAGTG
*
397055 GAAGTGAAGCGAAGTGAAGTG
1 GAAGT-AAACGAAGTGAAGTG
397076 G
1 G
397077 GCAATCTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.05, G:0.43, T:0.14
Consensus pattern (20 bp):
GAAGTAAACGAAGTGAAGTG
Left flanking sequence: Indices 396535 -- 397034
CATCTGAATGGACGCTTTCTGGTAATAGAAACCCCATTTCGGCCCCTTCTCCCGTTGGGCACTAC
CTCCGATGGGAAAAGATACCCGTAGGACCATTCCGGCAGTTTTTCAAGCCTCCCCTCACGCCTTT
GGCGCCTCTGATGCATCTGATCGAGACAGAGCTCGAAACGTCTGGGCTTCGGATTGATCTTAATC
ACATTGGGATGGTACGGGGGAACAAGATGGACTCGGTTAGGTCACCCCCGAGTCCTTTTGCTGGA
AGTTCGAATGGCTTCTAGTATGGATGTGTCTCGGCTTCGCCTGACGCTCAAGATCGTCTCAATCC
CCTCTCCCTAATGGTATGGTCGAGCAATCTCCCGCTGGTTGAGTGCGAAACCCTCCGCTTGCGGA
GATCGAAGGCAGGATTATGAACTGTTTTCCAAGCTTTGGGTTAGGATTGTTCTCTCGAGACCATA
GTGGGAATTCCTTAACAACAACATTTTGTGTAAACATGAGGTTAC
Right flanking sequence: Indices 397077 -- 397576
GCAATCTTTGCCACTGTTGACTTGAACCAGCGTCCAGATATGGAGGGTTGGCTTAGCGGCAAACC
CTGTTTGGAAAACAAAAGCCAAACAGGGGCATCCTACCTTTCGTCGCCCTTACGGACCCTACATC
TGTGAAATGACGGAATGATACGAGGGATCCCCGGACGAGTCAGGGAGACGGGGACTGGCAAGAGG
GATGGTTTGTAATCATCCCCTCCCACGGCAAGCATGACGAGGAGCACCACTTTCAATACAAAGCA
GTGGCCGAGGCGCCACTCTTTCGTTTCAGTCGCGTTGACAACAAAGGGGTGTGCGGCCGTGTTCC
GTCAAGCCATCGAGATGAGTGTGCCTCTTTGACAGAGTCCCCTTATCTTGCGTAGTAATTCCGGA
ATCTCCTGCCACCGAAGTGAGTCAGAGGAAGGTTCCGCTCCTTCATTCTTTTTTTTTTATTGATT
GCACAAGATCTGCTTCGCAGCCTAACGGTTGTATTCACGAGGCTG
Found at i:434341 original size:13 final size:14
Alignment explanation
Indices: 434308--434341 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
434298 CAGAAGCTAG
*
434308 AGGACAGTATTCGT
1 AGGACGGTATTCGT
434322 AGGACGGTATTCGT
1 AGGACGGTATTCGT
434336 -GGACGG
1 AGGACGG
434342 ATGAGCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.24
Consensus pattern (14 bp):
AGGACGGTATTCGT
Left flanking sequence: Indices 433808 -- 434307
TAGATACGTGATAACACTTGTGGTTTCGGCGAATCGCCTTCACTCTCGGGGTTCAGTACCCGCCT
CTTGGTGTCCAATACCCAGTGATGGGAGAAGGAGTGGGAGACGAAGAGAGAGAAGATGGTTGCTT
AGCAGCGGAAGCTGGGGATCGAGAAGCGGAGGGAGAGCTTAGGCTTGAAATGGAGCTGGGATACC
GGTATTTTTCCCTCCCTGGATCCGAGTCTTTCTCTTCTCCTGGACCGAGCACCGAGACCGAGGAA
AGAGAGGCTGGATACGAGTCTGATGAGATCAGAGCCAGTGAAGAGAAGAGGGAAGGCTTACTCTG
CTAGGCTGGCTTGCTTGTTCGACTAGAGCACATAAATAAGGTAGCTTGCTTACTTAGTGCGAAAC
GCTAAGGCCAATTAAGCAACGTTAATGGACCGCTCCCCATTACAGACGCTTTCACAGGGCTTCTT
TTTAGATAAAATAGGCCATAGAAATTCACTCATAACAGAAGCTAG
Right flanking sequence: Indices 434342 -- 434841
ATGAGCGATTGGACCGCCTATAGGACAGTTACTGGACAGATGCGACCGTTACCAGTTGACAGATG
ACAGGCAGAAGAGCGGGAAGTCGCTCTATTTAAAGGACGGGAATTGCACATTAAAGGAAGGGAAT
CGTGTACTGAGCTAGCCTGCCTTGAACTTGAAGTAGGTAGTCTCTCCTATATCTGATAGCTTTAA
CTGGCCACTACAAAGAAATTGCCATAGATCGAAACTTATTCCAGGCTTAGTATCCCCGGATAGAC
CCTATAAAAGAAGACGAGTCATAAAGGCAAATATCTAACAATTTCAGGGGGGCACATCCTAACTG
AATAGTACTCGCAGGTTCTCTTTTCCATATGTTCTTCCCGATGCCCTATCCGACAGCCGTTAACT
GCCTTGCAGGGAATTCCTTACTCAAAAGTATGAGAGTGCGGCATAGCAAGAGTGAATCCTCCCAC
CTCCCTCTAACGCTTATCTCTTTTCTTGCTTCCTTGCTTTAATCC
Done.