Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065239
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: 312993
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Found at i:15279 original size:39 final size:39
Alignment explanation
Indices: 15222--15300 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
15212 CCCATCCTTC
* *
15222 AATATCATGATTGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
15261 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
15300 A
1 A
15301 TAGAAAATCG
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:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 14722 -- 15221
CACTGGAGAAGGTCATTTTTGGAGGGGTCGGAAGAACGGGTTTAAAAGAAATATATATATATATT
ATTAGTTTGGTTTTTATGCAAAAAAGACAAAACGGGATTGGATTTCCACTCAGAAGGAAGGAAGG
TTAAATACCTTTGACAGGGTTGTATTTTTGGGATGGTGTTCAAACTCCCGAAATGAACCATTACA
GCTGGCGTCGACCAGCTTTGCGATACGTACGGACACGAAGAAGAACGCAGGCAGCGGAAATGCAA
AAGAGAAGAGCAAAGATTCCCGACCCTTATTGACTCAACCACAAATCTGTTGAATGAAGGTAGCT
TGCTTACTCTCAGCCACTAGTTAGAAGGAAATCCCTTTACTTTCTTTCAGAACCTTATGCAGTAC
AGAAAGCAAGTGAGGCGGGCTAAGATTCCATTCGAAGTAAGGTAACAAGATTCGATGTTGCACCA
CCTTCAACTCGATCCGGAGTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 15301 -- 15800
TAGAAAATCGAAAACGTACATAGCTGTTCCAGCCGAAATACTTGGAATAATTCTACCACTTCTAC
TAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGAGCGTTCGGATTGTTACAACCTCTAGCGGATGGTTTGAAATTGATTCTAAA
AGAACCTATTTCACCAAGTAGTGCTAATTTCTCCCTTTTTAGAATGGCTCCAGTGACTACATTTA
TGTTAAGTCTGGTTGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATTCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTTG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATAGG
TTTGTGCCGCAGGTGTTGAACGATCTACTCTACACAGGTGTGGGC
Found at i:25835 original size:21 final size:22
Alignment explanation
Indices: 25801--25843 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
25791 TTTGTATTAT
*
25801 ATATATCTTATAATATAATATA
1 ATATATCCTATAATATAATATA
25823 ATATATCCT-TAATATAATATA
1 ATATATCCTATAATATAATATA
25844 GTAAATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATATCCTATAATATAATATA
Left flanking sequence: Indices 25301 -- 25800
GTTGTTGTTAACTTCTGCACCAGTTGTTGAAGAACAGGGGGATTCCCGTTCAATTCCATCGTATC
TTTCTTCTCGTGCTACCAAGTCATATTATCATGACTTTTCCTCGCATCCCGTAGTCAATTCTTGT
GGCTATGCCCTGTGGCATTTAATCTTGTTGTTGCCGCTTCAACCTACAGCGAATTAGTTGTTTTT
GTCGCTAAGCGCTCCTTTATAGTTCCTTTTGGCATTCATAAGACGAGTCTTAAGCTTAAAGCACG
AGTTGTACTCCATAAGTCTATCCGCGAAAAGGCTTGTTACTTAGGTTGTTAGCATAAGAATTAGT
CTTACAATCAATGTAATGAATGAAGACTACGTTCATGTCCCACACCCGTGATCCATTCACTCTCT
GTAAGTATCTTCTTCCATTGGATAGGGGTTGGTAGGGTTTTTCCTCTCGCCTCAGCTCGGTCCAG
TGCCCGCTTCCGCGGGGTACCCGTAGGGTGACCCGTTTGTATTAT
Right flanking sequence: Indices 25844 -- 26343
GTAAATATAGTATATATAGTATAGTATAGTATGATATAGTATACCCCGGGGTGAAATAAAGGATG
TGAGAAAGGTTCATTTAAAGCTATAGGTTGTAGCGCTTAGCTTCTGAAAGAAAGCAAAGAGAATA
TAAGTTCGTTTACTGCACCCGGGTCAGCATATTCGGGATTTTCTTAACGCTTATGGATCTGATAT
CGATATCGAGCCCATCACTTCTTCTTGACTTTGATGATTCAATAACGGATTGACATATTAGTGAT
AGAAAGCATTCAACATCTTTCAGCTTCTTCCATCTAGTGAGAAATTCGATGATCTAATGTCGTAG
GTATATATCTCCATGGTCAAAAGCGAGAGCTCTTTTTCATCTCTAATGCAAGATAACAGAGTAGT
TTCCGCCCAAAGTGCTGTTACGACGGCAGGTCTCCGGGGGTGAAGTCAACTTGCAGCATGAAGAA
AAGACTTTCAGAATGAGACTATAGTAGAGGAGAAATTGTACAAGA
Found at i:25850 original size:9 final size:10
Alignment explanation
Indices: 25835--25886 Score: 72
Period size: 9 Copynumber: 5.4 Consensus size: 10
25825 ATATCCTTAA
25835 TATAATATAG
1 TATAATATAG
25845 TA-AATATAG
1 TATAATATAG
25854 TAT-ATATAG
1 TATAATATAG
*
25863 TATAGTATAG
1 TATAATATAG
*
25873 TATGATATAG
1 TATAATATAG
25883 TATA
1 TATA
25887 CCCCGGGGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 18 0.50
10 18 0.50
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.40
Consensus pattern (10 bp):
TATAATATAG
Left flanking sequence: Indices 25335 -- 25834
CAGGGGGATTCCCGTTCAATTCCATCGTATCTTTCTTCTCGTGCTACCAAGTCATATTATCATGA
CTTTTCCTCGCATCCCGTAGTCAATTCTTGTGGCTATGCCCTGTGGCATTTAATCTTGTTGTTGC
CGCTTCAACCTACAGCGAATTAGTTGTTTTTGTCGCTAAGCGCTCCTTTATAGTTCCTTTTGGCA
TTCATAAGACGAGTCTTAAGCTTAAAGCACGAGTTGTACTCCATAAGTCTATCCGCGAAAAGGCT
TGTTACTTAGGTTGTTAGCATAAGAATTAGTCTTACAATCAATGTAATGAATGAAGACTACGTTC
ATGTCCCACACCCGTGATCCATTCACTCTCTGTAAGTATCTTCTTCCATTGGATAGGGGTTGGTA
GGGTTTTTCCTCTCGCCTCAGCTCGGTCCAGTGCCCGCTTCCGCGGGGTACCCGTAGGGTGACCC
GTTTGTATTATATATATCTTATAATATAATATAATATATCCTTAA
Right flanking sequence: Indices 25887 -- 26386
CCCCGGGGTGAAATAAAGGATGTGAGAAAGGTTCATTTAAAGCTATAGGTTGTAGCGCTTAGCTT
CTGAAAGAAAGCAAAGAGAATATAAGTTCGTTTACTGCACCCGGGTCAGCATATTCGGGATTTTC
TTAACGCTTATGGATCTGATATCGATATCGAGCCCATCACTTCTTCTTGACTTTGATGATTCAAT
AACGGATTGACATATTAGTGATAGAAAGCATTCAACATCTTTCAGCTTCTTCCATCTAGTGAGAA
ATTCGATGATCTAATGTCGTAGGTATATATCTCCATGGTCAAAAGCGAGAGCTCTTTTTCATCTC
TAATGCAAGATAACAGAGTAGTTTCCGCCCAAAGTGCTGTTACGACGGCAGGTCTCCGGGGGTGA
AGTCAACTTGCAGCATGAAGAAAAGACTTTCAGAATGAGACTATAGTAGAGGAGAAATTGTACAA
GAGTCAAATATTCAGGAGCGCTTAGCAACAAGAATTGCCATCGCT
Found at i:25882 original size:20 final size:19
Alignment explanation
Indices: 25839--25886 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
25829 CCTTAATATA
25839 ATATAGTA-AATATAGTAT
1 ATATAGTATAATATAGTAT
*
25857 ATATAGTATAGTATAGTAT
1 ATATAGTATAATATAGTAT
25876 GATATAGTATA
1 -ATATAGTATA
25887 CCCCGGGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (19 bp):
ATATAGTATAATATAGTAT
Left flanking sequence: Indices 25339 -- 25838
GGGATTCCCGTTCAATTCCATCGTATCTTTCTTCTCGTGCTACCAAGTCATATTATCATGACTTT
TCCTCGCATCCCGTAGTCAATTCTTGTGGCTATGCCCTGTGGCATTTAATCTTGTTGTTGCCGCT
TCAACCTACAGCGAATTAGTTGTTTTTGTCGCTAAGCGCTCCTTTATAGTTCCTTTTGGCATTCA
TAAGACGAGTCTTAAGCTTAAAGCACGAGTTGTACTCCATAAGTCTATCCGCGAAAAGGCTTGTT
ACTTAGGTTGTTAGCATAAGAATTAGTCTTACAATCAATGTAATGAATGAAGACTACGTTCATGT
CCCACACCCGTGATCCATTCACTCTCTGTAAGTATCTTCTTCCATTGGATAGGGGTTGGTAGGGT
TTTTCCTCTCGCCTCAGCTCGGTCCAGTGCCCGCTTCCGCGGGGTACCCGTAGGGTGACCCGTTT
GTATTATATATATCTTATAATATAATATAATATATCCTTAATATA
Right flanking sequence: Indices 25887 -- 26386
CCCCGGGGTGAAATAAAGGATGTGAGAAAGGTTCATTTAAAGCTATAGGTTGTAGCGCTTAGCTT
CTGAAAGAAAGCAAAGAGAATATAAGTTCGTTTACTGCACCCGGGTCAGCATATTCGGGATTTTC
TTAACGCTTATGGATCTGATATCGATATCGAGCCCATCACTTCTTCTTGACTTTGATGATTCAAT
AACGGATTGACATATTAGTGATAGAAAGCATTCAACATCTTTCAGCTTCTTCCATCTAGTGAGAA
ATTCGATGATCTAATGTCGTAGGTATATATCTCCATGGTCAAAAGCGAGAGCTCTTTTTCATCTC
TAATGCAAGATAACAGAGTAGTTTCCGCCCAAAGTGCTGTTACGACGGCAGGTCTCCGGGGGTGA
AGTCAACTTGCAGCATGAAGAAAAGACTTTCAGAATGAGACTATAGTAGAGGAGAAATTGTACAA
GAGTCAAATATTCAGGAGCGCTTAGCAACAAGAATTGCCATCGCT
Found at i:39014 original size:6 final size:7
Alignment explanation
Indices: 38996--39023 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
38986 TACAGCCTAA
38996 ATTTTTT
1 ATTTTTT
39003 ATTTTTT
1 ATTTTTT
39010 ATTTTTT
1 ATTTTTT
39017 ATTTTTT
1 ATTTTTT
39024 CTCACATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Left flanking sequence: Indices 38496 -- 38995
TAAGCTCCTCGAGCCTTCCTCTAGTTCAAGAGTTCTAGTACTTGCGTTTCGTTCCAGTTCGATGA
TTCTTCTTCGCTTTTAAGGCTTGTTCAATCAATCTCATGGGTTCCCATGGCTCGTCCTATAGAAA
GGGGGATACCCGGCAAGTAAAGGGAGCTTGCTTACTTAGTGCTTGCGCTAAGGTTCTGAAAGAAC
GTTAAAAGCATTATATAGATATTTAATAGATCTTATCAGTCTTCTTGTGTAATAGTAACTCTCCC
CCATCAATCGGTACTAGTTATTCTCATTTTTATTCCTTGACTTGATTTGTCCGATGAGAAATGCG
AAACAAAAGAAGGATCCTCCTGCTGGGAATTATATCCTACTCTTTGCCCGGAGAGATGAATTGAT
CGATTCAGCGGATCCTAGGTCGGGACTGACGGGGCTCGAACCCGCAGCTTCCGCCTTGACAGGGC
GGTGCTCTGACCGATTGAACTACAATCCCAGGGTGTACAGCCTAA
Right flanking sequence: Indices 39024 -- 39523
CTCACATTCGAACCATTTTGTTTCGCCGTGTTGTAACAGAGACACGAATGATATACTATATTATA
AATTATTATCATAAAAAAAATATATAAGAATTTATTTATAAATGAAAATGCAGTAAACTCATAGT
GGGCTAATTCATGAATTGAATCAAATGGACCCTTTTAACTAAGCGGTAGAGTCACGCTCTTTAAA
CGCCCTAAGAAATAGGCGTAAGTCATCGGTTCCAATCAGATCCGAAAAATGAGAAATCAATCAAA
AGTAAGTGCAGTGGTGAATCATGACTATATAAGCTATTCTGATATTAAGATTCGATATAGATGAA
ATCGTGGAAGCGGACCTTTGATTTCCTTGGACCACGTAAGAATTCGCCGTCCGATTGAATCTTCT
TGTTCCTGGATGCTCCATAGAAATCCATCGCTATTCCTTTCTTCCACCGAGAAAGGTTCAGTCCG
AATCACAAGAGAAATTTATCTATCTTTTTTTTTTTTATTTTCGTT
Found at i:64518 original size:11 final size:12
Alignment explanation
Indices: 64492--64517 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64482 CTGAAATTTC
64492 TTTCTTTTTTAT
1 TTTCTTTTTTAT
64504 TTTCTTTTTTAT
1 TTTCTTTTTTAT
64516 TT
1 TT
64518 CACCGGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTCTTTTTTAT
Left flanking sequence: Indices 63992 -- 64491
ACCTATAGAAAAGATCATCAGAGAGGAGACACCCCATTTTTGATTCCAGCCGAGAAGACTAGTAA
AAGGAAGGATCAAGAATGTCATATATTTCAGGAGCTAGATCAGTTGCCGATGAACAAGTAAGAAT
TGCCTCAACAAAAATTGATGGAATTGGACCTAAAAAAGCCATTCAGGTTCGTTATCGATTAGGTA
TCAGTGGGAACATAAAGATAAAAGAGTTAACTAAGTATCAGATCGACCAAATTGAACAAATGATA
GGTCAAGATCATGTTGTTCATTGGGAATTGAAGAGGGGAGAACGAGCAGACATCGAACGATTAAT
TTCTATTTCTTGTTATCGTGGAATTCGTCATCAAGATGGATTGCCCTTACGCGGTCAACGAACTC
ATACTAATGCAAGGACTTTTCGCAAGCTAATTCGGAAATGAAAGAAGTCTACCGAAAGCCCTTGG
TACTTGTCTGATCAATCACACTGTTCAATAGTTCACTGAAATTTC
Right flanking sequence: Indices 64518 -- 65017
CACCGGTTACTAATCCAGTATACGTATAGTAGGCCTCCTTCGCCACTCCACTAGTGGCTCGGCTT
GGTCTCGCTTCCTTCGCCCGACTATCGGCTCGGCTTCGTCCTAGAAGCTACTGCTTCCGCCTCTC
TAGGCTTCGCTATCGCTCATGACTGGTATAGTATATGGATCTCTCTATGTAGCGGTCGGCCTTCT
ATAAGCTTCGCCAGAAGCGACTAGTAGCTTCCCGAATGCCTCTTTACTTTAGTATGGTCTAGTCT
TTCCAATGCCTCCTTCCTTGCCGCCAACGTACGCTACTAGGAGAGTAAGCAAGCTACCTTGCTTG
CATTCTAGAAACGGTAGCTTCCGCGCCCTTCCTGCCTGCTGAAATTGATGTGAATGATCGTGACA
GCTCTTCAAATCCTATTCAGTCTGATTAGATATGTCACTGAAACAATCCGTTCTGTCTCTGTTTT
ATTTTAGGATTCCGAGAACGAGCCGGCCGATCCTAACATCATTTA
Found at i:107121 original size:17 final size:17
Alignment explanation
Indices: 107094--107126 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
107084 ACTTGTGTCA
107094 GGGTAAAGCCCCCTTTAT
1 GGGTAAAG-CCCCTTTAT
107112 GGGT-AAGCCCCTTTA
1 GGGTAAAGCCCCTTTA
107127 GAGATAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (17 bp):
GGGTAAAGCCCCTTTAT
Left flanking sequence: Indices 106594 -- 107093
ATCGATCCTTAGTAATCGCGGGCCCCTAGTTGTTCACATAGATTTTTGCAGGCTCGAATAGGTGG
TTGGCTGCTGCGTCGTCGGAAGGGTCTTTTCCTTTGCTTGCGTAAGTTACCCTGCTTGCTATTCT
ATCACCCCTCGCCCGGCCTTTACTTGATTGATAGGGCTCCTTCACCAGGATCAATAGCCCAGCTA
CACTACCACTACCCGTAAGATAGAAGTAGGGCACTTCACTCACCTCAGAGAATGCACTACCTATC
TGTAATCAGTTCAGCTTAGAGTTGTTTGCTGACACACGCTACTATCACGCTGGTTGCTGCTTTCA
CTCGGATTCTCCTCGGGCGGATCAAGGGATATTGGCTTGGCTTGCGAAAGAACTTATAGTTGCAG
GATGGTTGGTTGACAGGTGTCTGGCTAGCAAAGAACCAGACAAAAAAAAACAAGTACAGTAGCGC
TATAGGCTATTTGATATAGTATAGCCGCGGAGACTACTTGTGTCA
Right flanking sequence: Indices 107127 -- 107626
GAGATAGGAAAACGGCCTAGCTGCTTTATTGAGGCAACATTGAGAATTTAAAAAAGAATTTGCTG
CTATTTCAGTGGTTGAAGTGCCGGTCGGCATTGCCTAAGTAACGTCCGACACTGTTTGCGCGCTT
CTCTCCTCTTCATTCAATGCAAAGACAACCGCCTGAGCGTCGCGTCTGACTCCAGCATCAGAGAA
GAAAGGCCCATATCTAATGCTTGCTTCAACCCGCACGAGATTGCCAAAATCTCAACGAGAGGAAA
CTCCGGCGCCCATACCTTTTGGTCTACACACCAAATCCTAATTAGCAAGATGGATCTTCCTCTTA
TTTTTACCAAAAAAAGTTTTTCTGTTTAGCTTGTCAAGCCTAGAGCACACAGAAATAAGCAACTT
GCCTATCGATATTAGGAGAACATAAGATATTCTATTTCTCAAAGCGCCCTGAAACCATGCAAAAA
TCATCCAAACACTTTCTCTCAGCTTGAGAGCCTCAGAGAAACTGA
Found at i:134667 original size:26 final size:26
Alignment explanation
Indices: 134631--134684 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
134621 AGTTCCGCAG
134631 AAAGAGAATGAATATATCTCTTAAAT
1 AAAGAGAATGAATATATCTCTTAAAT
134657 AAAGAGAATGAATATATCTCTTAAAT
1 AAAGAGAATGAATATATCTCTTAAAT
134683 AA
1 AA
134685 TGTCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAGAGAATGAATATATCTCTTAAAT
Left flanking sequence: Indices 134131 -- 134630
GCTTCTGAAGATCCGGATCGCACTACGCATTGACCGCTTCGTTAACTGAATTTAAGCTACCCGCA
ATCATCCATTCACAATTGGCTGTTCTGTTGCCGGTTCAACCTATAGCGTTTAGATGCTGTCTTGT
TAACTCCTCCGGCTGTTGCATCCTGCTGATTGAGTTTACGTTCCCTTCCCGCTCTCAAGTGAATA
ATGAACCATATGGTATTCTGGCGCATTAAGGAGCATTTTCGAAGGGGGCTCCACGGAGTGATAAA
AATCAGGGTCGAGTTACGACGTTGGGATCTGAGATCAAGATGCCCATTTACGATGCTTTGTAACC
ACAGTTTCGGCACCCTCGCGGGGGAAGAATGAGTTTACGAGTCAAAAGCCTGAAAGGGAGGATGA
AGCAGAATAAGCAGCTGAGTCCATTGAAGCGGAAAGGCATTGATTGGCCGTGGATTGGGTGGCAT
TGGTTGCAATAAGTGCTTGTTGTTCTGGGGGGTCTAGTTCCGCAG
Right flanking sequence: Indices 134685 -- 135184
TGTCATATTAAGGTCCCTTGCATCCTATCCATAACCAACGTTAAAACAGCCTTCTTTTTGCATTC
TCTTATTACTTTATTTCATTACTGTTTCATCTGCTGCTCAAACAACTCCCACTGCGCTTGTACAA
ATACCTAAGGAACCCCCGCTCGTCGAGCCTCGCATCCATCAACGGTAGAGCCTCTGCCCTCTTCC
CCGCAAGAGAATCTGTTCTTACTTCGCGCCCGAATCAATCGATTTATGAGAGAAAACCCACGGTA
AAGTACGCTTTTGGTCAAAAGATAAACTCGTTTACGAGGCAAAAGGGAAATCCATTGAAAAACCA
CGGGTTTAAGGAAAGTACCAATTAATTAGATTGGTGGCAATGTGCGCTGAAGGAGATGCTTAAAA
TGCCGCTCTCGAATCCGCTGTGCCAATTGATAATAAATCGAGGGATGCAAGAGCTCTAATATTTG
AGAGGGATGCTCTGTTGTTAAGCGGAAAGCTGTTAAAGAATCTTA
Found at i:146067 original size:30 final size:30
Alignment explanation
Indices: 146033--146178 Score: 105
Period size: 30 Copynumber: 5.2 Consensus size: 30
146023 CTTGCTCGTC
* *
146033 GTTCAGTA-CGGGTTTTAGCTGGTCTTAGTT
1 GTTCAGTACCGGGATTTA-CCGGTCTTAGTT
* *
146063 GTTCATTACCTGGATTTACCGGTCTTAGTT
1 GTTCAGTACCGGGATTTACCGGTCTTAGTT
* *
146093 GTTCATTACCTGGATTTA-C---C-----T
1 GTTCAGTACCGGGATTTACCGGTCTTAGTT
* *
146114 GTTCATTACCTGGATTTACCGGTCTTAGTT
1 GTTCAGTACCGGGATTTACCGGTCTTAGTT
* * * *
146144 GTTCATTACCTGGATTTACCTGTTTTAGTT
1 GTTCAGTACCGGGATTTACCGGTCTTAGTT
146174 GTTCA
1 GTTCA
146179 TTACGTGGAT
Statistics
Matches: 100, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.19
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 70 0.70
31 7 0.07
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (30 bp):
GTTCAGTACCGGGATTTACCGGTCTTAGTT
Left flanking sequence: Indices 145533 -- 146032
TCTTTCCTCTCTTCAATTATCGAGACCAGTAAATACAAAGATCTAGTCATCTCCTTCTAAGAAGT
AAAATCTCCTTCCTATATTTTATTCTAAAAAGAAAGAATAAGAGTAAGAAAAAATATGTATACTC
TATTGGAGAGCCTATAGAGATAAAACCCGGACCCCCTTGGGTATGGGTTCATTTATCTCTACTAA
CCCTGGTGAAATCCAGATTAGAGGCTTGTCTCTCCCAAGTAGGTAAGTTACACGCCTCATTTGTA
GGTAGTGTAATGGTCAGATTTTAACCGCTTATTTCTATGGGGGAGTTAAAGGTAGGGGAAATCCC
TACCACGGTAATAGCCGCCAGGGTGGTGAGATGGTGAGGGTGTTCGTATCACTCAATCCATCTCA
CTTATGAGTTATGCAGTCTAAGCGATACACCTAGTATTCGTATACAAACAGAATTAAACCTATGT
TGTCTCCTAAATACGTACTAAACTCACATTTTAATCTTGCTCGTC
Right flanking sequence: Indices 146179 -- 146678
TTACGTGGATTTGCGGGTAGCGGTAGTAATACGAATAAATATCTCGATAGAGAAGATATGCACTT
TCTACTTGATGAAACAAACCCCAATTCCATAGTTCTGGATCGGGGTTCTCTATTAAAAAGTATTG
ATCTTTTGTTATGCTATTTAGGAGATCTATTTATTAAGAGATCGTCAGCAGATAATATTAGAGAT
CTATATAAGAAAGTGTCAGTAGATGAGATTAGTTCAATAAAAAAAGAAATCGAAAATGGTTCTTT
TATTTTCTCTCCGCTTTATCTCCACATCGTGAATCAGAATGGTGAACTGGAAAGGTTTAGTTGTT
ATGACTACAATAAGGAAACATATAATCCAATGAGTGCTGTATTTTTCATAGCTAAACCAAGAGAT
ATGCTCGTGATGAATGGACTAGGTCTTTTACTTCATACTTATTTGACGTCGCTGTATATTCACAT
TCCCACCTCATTTGGTTTACGCGTGACGTATAATACATTTATGCA
Found at i:146117 original size:21 final size:21
Alignment explanation
Indices: 146092--146133 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
146082 CGGTCTTAGT
146092 TGTTCATTACCTGGATTTACC
1 TGTTCATTACCTGGATTTACC
146113 TGTTCATTACCTGGATTTACC
1 TGTTCATTACCTGGATTTACC
146134 GGTCTTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (21 bp):
TGTTCATTACCTGGATTTACC
Left flanking sequence: Indices 145592 -- 146091
AGAAGTAAAATCTCCTTCCTATATTTTATTCTAAAAAGAAAGAATAAGAGTAAGAAAAAATATGT
ATACTCTATTGGAGAGCCTATAGAGATAAAACCCGGACCCCCTTGGGTATGGGTTCATTTATCTC
TACTAACCCTGGTGAAATCCAGATTAGAGGCTTGTCTCTCCCAAGTAGGTAAGTTACACGCCTCA
TTTGTAGGTAGTGTAATGGTCAGATTTTAACCGCTTATTTCTATGGGGGAGTTAAAGGTAGGGGA
AATCCCTACCACGGTAATAGCCGCCAGGGTGGTGAGATGGTGAGGGTGTTCGTATCACTCAATCC
ATCTCACTTATGAGTTATGCAGTCTAAGCGATACACCTAGTATTCGTATACAAACAGAATTAAAC
CTATGTTGTCTCCTAAATACGTACTAAACTCACATTTTAATCTTGCTCGTCGTTCAGTACGGGTT
TTAGCTGGTCTTAGTTGTTCATTACCTGGATTTACCGGTCTTAGT
Right flanking sequence: Indices 146134 -- 146633
GGTCTTAGTTGTTCATTACCTGGATTTACCTGTTTTAGTTGTTCATTACGTGGATTTGCGGGTAG
CGGTAGTAATACGAATAAATATCTCGATAGAGAAGATATGCACTTTCTACTTGATGAAACAAACC
CCAATTCCATAGTTCTGGATCGGGGTTCTCTATTAAAAAGTATTGATCTTTTGTTATGCTATTTA
GGAGATCTATTTATTAAGAGATCGTCAGCAGATAATATTAGAGATCTATATAAGAAAGTGTCAGT
AGATGAGATTAGTTCAATAAAAAAAGAAATCGAAAATGGTTCTTTTATTTTCTCTCCGCTTTATC
TCCACATCGTGAATCAGAATGGTGAACTGGAAAGGTTTAGTTGTTATGACTACAATAAGGAAACA
TATAATCCAATGAGTGCTGTATTTTTCATAGCTAAACCAAGAGATATGCTCGTGATGAATGGACT
AGGTCTTTTACTTCATACTTATTTGACGTCGCTGTATATTCACAT
Found at i:146138 original size:51 final size:51
Alignment explanation
Indices: 146062--146167 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
146052 TGGTCTTAGT
146062 TGTTCATTACCTGGATTTACCGGTCTTAGTTGTTCATTACCTGGATTTACC
1 TGTTCATTACCTGGATTTACCGGTCTTAGTTGTTCATTACCTGGATTTACC
146113 TGTTCATTACCTGGATTTACCGGTCTTAGTTGTTCATTACCTGGATTTACC
1 TGTTCATTACCTGGATTTACCGGTCTTAGTTGTTCATTACCTGGATTTACC
146164 TGTT
1 TGTT
146168 TTAGTTGTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (51 bp):
TGTTCATTACCTGGATTTACCGGTCTTAGTTGTTCATTACCTGGATTTACC
Left flanking sequence: Indices 145562 -- 146061
TAAATACAAAGATCTAGTCATCTCCTTCTAAGAAGTAAAATCTCCTTCCTATATTTTATTCTAAA
AAGAAAGAATAAGAGTAAGAAAAAATATGTATACTCTATTGGAGAGCCTATAGAGATAAAACCCG
GACCCCCTTGGGTATGGGTTCATTTATCTCTACTAACCCTGGTGAAATCCAGATTAGAGGCTTGT
CTCTCCCAAGTAGGTAAGTTACACGCCTCATTTGTAGGTAGTGTAATGGTCAGATTTTAACCGCT
TATTTCTATGGGGGAGTTAAAGGTAGGGGAAATCCCTACCACGGTAATAGCCGCCAGGGTGGTGA
GATGGTGAGGGTGTTCGTATCACTCAATCCATCTCACTTATGAGTTATGCAGTCTAAGCGATACA
CCTAGTATTCGTATACAAACAGAATTAAACCTATGTTGTCTCCTAAATACGTACTAAACTCACAT
TTTAATCTTGCTCGTCGTTCAGTACGGGTTTTAGCTGGTCTTAGT
Right flanking sequence: Indices 146168 -- 146667
TTAGTTGTTCATTACGTGGATTTGCGGGTAGCGGTAGTAATACGAATAAATATCTCGATAGAGAA
GATATGCACTTTCTACTTGATGAAACAAACCCCAATTCCATAGTTCTGGATCGGGGTTCTCTATT
AAAAAGTATTGATCTTTTGTTATGCTATTTAGGAGATCTATTTATTAAGAGATCGTCAGCAGATA
ATATTAGAGATCTATATAAGAAAGTGTCAGTAGATGAGATTAGTTCAATAAAAAAAGAAATCGAA
AATGGTTCTTTTATTTTCTCTCCGCTTTATCTCCACATCGTGAATCAGAATGGTGAACTGGAAAG
GTTTAGTTGTTATGACTACAATAAGGAAACATATAATCCAATGAGTGCTGTATTTTTCATAGCTA
AACCAAGAGATATGCTCGTGATGAATGGACTAGGTCTTTTACTTCATACTTATTTGACGTCGCTG
TATATTCACATTCCCACCTCATTTGGTTTACGCGTGACGTATAAT
Found at i:146179 original size:30 final size:30
Alignment explanation
Indices: 146113--146190 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
146103 TGGATTTACC
146113 TGTTCATTACCTGGATTTACCGGTCTTAGT
1 TGTTCATTACCTGGATTTACCGGTCTTAGT
* *
146143 TGTTCATTACCTGGATTTACCTGTTTTAGT
1 TGTTCATTACCTGGATTTACCGGTCTTAGT
*
146173 TGTTCATTACGTGGATTT
1 TGTTCATTACCTGGATTT
146191 GCGGGTAGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (30 bp):
TGTTCATTACCTGGATTTACCGGTCTTAGT
Left flanking sequence: Indices 145613 -- 146112
TATTTTATTCTAAAAAGAAAGAATAAGAGTAAGAAAAAATATGTATACTCTATTGGAGAGCCTAT
AGAGATAAAACCCGGACCCCCTTGGGTATGGGTTCATTTATCTCTACTAACCCTGGTGAAATCCA
GATTAGAGGCTTGTCTCTCCCAAGTAGGTAAGTTACACGCCTCATTTGTAGGTAGTGTAATGGTC
AGATTTTAACCGCTTATTTCTATGGGGGAGTTAAAGGTAGGGGAAATCCCTACCACGGTAATAGC
CGCCAGGGTGGTGAGATGGTGAGGGTGTTCGTATCACTCAATCCATCTCACTTATGAGTTATGCA
GTCTAAGCGATACACCTAGTATTCGTATACAAACAGAATTAAACCTATGTTGTCTCCTAAATACG
TACTAAACTCACATTTTAATCTTGCTCGTCGTTCAGTACGGGTTTTAGCTGGTCTTAGTTGTTCA
TTACCTGGATTTACCGGTCTTAGTTGTTCATTACCTGGATTTACC
Right flanking sequence: Indices 146191 -- 146690
GCGGGTAGCGGTAGTAATACGAATAAATATCTCGATAGAGAAGATATGCACTTTCTACTTGATGA
AACAAACCCCAATTCCATAGTTCTGGATCGGGGTTCTCTATTAAAAAGTATTGATCTTTTGTTAT
GCTATTTAGGAGATCTATTTATTAAGAGATCGTCAGCAGATAATATTAGAGATCTATATAAGAAA
GTGTCAGTAGATGAGATTAGTTCAATAAAAAAAGAAATCGAAAATGGTTCTTTTATTTTCTCTCC
GCTTTATCTCCACATCGTGAATCAGAATGGTGAACTGGAAAGGTTTAGTTGTTATGACTACAATA
AGGAAACATATAATCCAATGAGTGCTGTATTTTTCATAGCTAAACCAAGAGATATGCTCGTGATG
AATGGACTAGGTCTTTTACTTCATACTTATTTGACGTCGCTGTATATTCACATTCCCACCTCATT
TGGTTTACGCGTGACGTATAATACATTTATGCAACAAATTGAATC
Found at i:154161 original size:24 final size:24
Alignment explanation
Indices: 154129--154176 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
154119 AATCAGTCTT
154129 CTTGTATGGTTCCTGCTTGTTGGA
1 CTTGTATGGTTCCTGCTTGTTGGA
154153 CTTGTATGGTTCCTGCTTGTTGGA
1 CTTGTATGGTTCCTGCTTGTTGGA
154177 TAAGGAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.17, G:0.29, T:0.46
Consensus pattern (24 bp):
CTTGTATGGTTCCTGCTTGTTGGA
Left flanking sequence: Indices 153629 -- 154128
AGATGCATCTCAATGACAAAAACATAATGGATGGTGGTCTTTCAATCATTTTAAGTGTAAGTGTA
TATAGGAAACTAGCATATCGCTATACCTAGCTATAGGGAGACTCACTTGTTATGAGATTTCCATA
ATCCATGTTAAGGTGCGGGGACAAAATACTGCAAGAGATGTACCTATAGGTACTCAGAATAGCTG
CAGGTATCTTTAGTTTCCGGGTGAGAGGCCTCCATGGTTTGTTCATCAGCTCAGTTGGTTCAACG
ACATCGTAGTCTTTTCCATTTCCTAAACCGAAACCTTGGACCATATAGCATTCCCATAGCCATAA
GTTCCCTTGGTTTCAAAGAGCCGTGATCCAAATCGCCAGTTTGACTCCTCATCAGGACCTACTTT
GTTGACTTCATGAGTGACAACCTCCTCTCCATTTTAGACATCCCATTAGGCAGAGGCAGGGGAAG
CGGAGGCAATGCACTCTCCATAGCCATTTCATCCAAATCAGTCTT
Right flanking sequence: Indices 154177 -- 154676
TAAGGAAGGTGGCTAGCGTTGCTAAAGGACATGCTACCACCCCCTGTTTTGACAGCATCAGTATA
ACAATCTCGACAAAGATTGAATCGAAATCGCTCAGGTCAGTGAGTCCTCACCTACTCCTTATCAC
ACCCACAAGGTAGAATGTCCTCCCCGCGTTGATCGCTCATCACCTTTGCATCACACCCAGGAATG
GCACATGATGACCCTTTGACGCCATCTGAGGATGGTTGGCTTCGGATTCAATCACCTTGTCCATA
AGATGAGCTCGGGTAAGACTGTTGAATCCCCCAGTGAAGAGCGAATTGGACACATACTGCTCTTC
AACCTTCTGCGAAATGGATGGATCCATTGGCTGGTGTCGGAGGCCGTGTAGTTCATAAAGTCACC
ACTCCCAATTTCGCTATCGAGATCATCTCTGGAGTAGCTGATGTAGCGACCGGAGGAGGCGGCCG
AATGTGACTGTGGGAATTGGAGGCTTGCCGAGTGCATCGGGAATG
Found at i:164002 original size:15 final size:15
Alignment explanation
Indices: 163982--164016 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
163972 AATTCTGACC
163982 GCTAGGAGCTCTCTA
1 GCTAGGAGCTCTCTA
*
163997 GCTAGGAGCTTTCTA
1 GCTAGGAGCTCTCTA
164012 GCTAG
1 GCTAG
164017 CAATCCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (15 bp):
GCTAGGAGCTCTCTA
Left flanking sequence: Indices 163482 -- 163981
ACCAAGTATTCCACTCGTTCCTGTGAGGTCTAGTTACCGCTTACGCCCGCAGACTACACCCCGTG
AAGAGTACCTACTACCATAGGGCAAAGAGTCACTTAGTTCCCCAAGAATGCTTTCATAGCCCCTG
TCCCTCCGTACTTCCCCTTCACTAGGTAAGATTGTGTCGCTTACCCAGGCGCCTCGACCAACCAC
CAATCCCCCCGCCATCTTTCAGCCTCTCCAGTTCGTTTATGGCCTATGGTCTTCTCCGCTCGCTG
GCGAAAGAAAGAGCGACTGCTCTAGTACCGGAAGCCAACCGACTGACTTGCAGCTGCCAGTGTCC
GCCTGACTTTCTTCTCTTTTACTATAGATGGGAGTCTGCTTCCGGTATCACACTCTATACTATAC
GATTGTCAGCTAAGTAAATAGATGGAGCAGATGAAGAAAGTGCTTTCAAAGTCCCAGGCTTCACC
TTAGCTACTAAGAGGCAACGACTTTCCAAAGATTGAATTCTGACC
Right flanking sequence: Indices 164017 -- 164516
CAATCCTCTTTGGTTTCTTACATGACAGCTTTCGAAGCTCGACTATAAAAGGAAAGATGAAAGAG
CTAAGTACTGACCGAATGTCTCCGCCTATTTTACCTAATCCCTTTGAGAAGAGATTGCTTAAAGC
ATCCTCCTAATAGGTCATAAAGCAGAAAGAAAGACTACCAGTACAACGGAATACACCAGCTACAA
GAGAGACATTCAGGGCTCCTGCCAGACATACTACACTCAAAGAAATAGATACATCTATGAAATGA
TTGCAGCGATGTCCTAGGAAAGAGCTTCTTACACACTCGAAATCAAAGATAACGAATAAAGGAGC
ACTCCTTAACTAACGGAAGGAGGTTCCTTGACCGGACCTGTGAAAGAGAAAGCCAAGGCCCCCGT
GTAGTTGAGTCAAGATCCGCCGTCGTCAGCGGAAGCATAAGAGGAAGCAACAGTCCTTTAAGTGC
ACCTGAGCTTAGACAGGAGAAAAGGGGCTTCAAAGCCCTTACGTT
Found at i:200344 original size:33 final size:33
Alignment explanation
Indices: 200307--200386 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
200297 AGAGTAAGGT
200307 AGTTTACTTGCTTATATATTATATATATATGGG
1 AGTTTACTTGCTTATATATTATATATATATGGG
200340 AGTTTACTTGCTTATATATTATATATATATGGG
1 AGTTTACTTGCTTATATATTATATATATATGGG
200373 AGTTTACTTGCTTA
1 AGTTTACTTGCTTA
200387 CTTGTTAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (33 bp):
AGTTTACTTGCTTATATATTATATATATATGGG
Left flanking sequence: Indices 199807 -- 200306
AGCAACAACCAACCAGTCAAGATTGTAAGAAAGGATTGTATCAGAGAAATCGTTGTTTCAAGCCC
TTCGTGTACCTTTACGAAGGTGTCTAACTAAGGTTTTTGTGTTTCACCGTAGAATCGACATACGA
ACTCGAATATGCGCATAAATCCCTTCCTTGTGAGTTGGGAACCTACTAGTTAGCAAAAAACGCCC
AGGAACGAGATTCAAATCTCACTTAAGTACGTGAGCCGGGAAGGTAGTAAACTTGCTTATATAGA
ATATAAGGGCGCTATCAAGGGCAAGCTCCCTCGTGCCTTAAGGTCATTCTATCTAAGAGGCGGTG
GGGCAGTGGTTAGCTTCGGTTTCCTGCTCAATGAAATAGATTCTCGGACCTATTGAATCAGTTGA
CTCTCTTGAATCAGTCTATTCCCGTCCCTCCTTAAAGCCTTGCGAGCTAGATATCTTTTGACAAG
CTACCTCTCAGCATTACTCTCTTTCCCGGGTTAGAAGAGTAAGGT
Right flanking sequence: Indices 200387 -- 200886
CTTGTTAAGGTAGTTTACTTGCTTAGATTATAAGGAAGACACTTTCGCTTACTTCACGCCTTTAG
GATAGTTTACCTTATACGGGTAGATGTACATTATTTGAAGCTTTCTGAACTACATTATGTCCACT
TCTACATCGTCTGAACGGGACATTAAGCCCGCCTCCACTTCTGGCGTAATTACCTTACCCTACCG
CCCTTACATCGCGCTCCTCACTACTTTAGTCTCGTACGAAGGTCGAGCCTACCTAGATAAACCCA
CCTTCACGCCCACCATCTGGATCGGTAGCAGAACTCTTCTCAGCCTTCACTTCAGCCGCAGTCCT
TGTTTACTCCACGGCCTCTACCATTGATGCAGAACCGAAATCGGCATCTTAGCCGCCGCCAAGGA
ACATCAAGACAGAATCCATACATCGCACAACCAGTCGAACGAGACGATCTATCCACCAATCCGTA
TTGACACCAATCCAACAACTTCCCGCATCAGATTACGAGCCCACC
Found at i:200420 original size:25 final size:25
Alignment explanation
Indices: 200373--200421 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
200363 TATATATGGG
* *
200373 AGTTTACTTGCTTACTTGTTAAGGT
1 AGTTTACTTGCTTAATTGATAAGGT
200398 AGTTTACTTGCTTAGATT-ATAAGG
1 AGTTTACTTGCTTA-ATTGATAAGG
200422 AAGACACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.45
Consensus pattern (25 bp):
AGTTTACTTGCTTAATTGATAAGGT
Left flanking sequence: Indices 199873 -- 200372
TCGTGTACCTTTACGAAGGTGTCTAACTAAGGTTTTTGTGTTTCACCGTAGAATCGACATACGAA
CTCGAATATGCGCATAAATCCCTTCCTTGTGAGTTGGGAACCTACTAGTTAGCAAAAAACGCCCA
GGAACGAGATTCAAATCTCACTTAAGTACGTGAGCCGGGAAGGTAGTAAACTTGCTTATATAGAA
TATAAGGGCGCTATCAAGGGCAAGCTCCCTCGTGCCTTAAGGTCATTCTATCTAAGAGGCGGTGG
GGCAGTGGTTAGCTTCGGTTTCCTGCTCAATGAAATAGATTCTCGGACCTATTGAATCAGTTGAC
TCTCTTGAATCAGTCTATTCCCGTCCCTCCTTAAAGCCTTGCGAGCTAGATATCTTTTGACAAGC
TACCTCTCAGCATTACTCTCTTTCCCGGGTTAGAAGAGTAAGGTAGTTTACTTGCTTATATATTA
TATATATATGGGAGTTTACTTGCTTATATATTATATATATATGGG
Right flanking sequence: Indices 200422 -- 200921
AAGACACTTTCGCTTACTTCACGCCTTTAGGATAGTTTACCTTATACGGGTAGATGTACATTATT
TGAAGCTTTCTGAACTACATTATGTCCACTTCTACATCGTCTGAACGGGACATTAAGCCCGCCTC
CACTTCTGGCGTAATTACCTTACCCTACCGCCCTTACATCGCGCTCCTCACTACTTTAGTCTCGT
ACGAAGGTCGAGCCTACCTAGATAAACCCACCTTCACGCCCACCATCTGGATCGGTAGCAGAACT
CTTCTCAGCCTTCACTTCAGCCGCAGTCCTTGTTTACTCCACGGCCTCTACCATTGATGCAGAAC
CGAAATCGGCATCTTAGCCGCCGCCAAGGAACATCAAGACAGAATCCATACATCGCACAACCAGT
CGAACGAGACGATCTATCCACCAATCCGTATTGACACCAATCCAACAACTTCCCGCATCAGATTA
CGAGCCCACCTCTCTGAAGAGTCGATCCCGACTTGGGAAGCAAGG
Found at i:237956 original size:18 final size:18
Alignment explanation
Indices: 237935--237971 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
237925 GTCACGGCCG
237935 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
237953 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
237971 A
1 A
237972 CAAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATCGTCACTATCATCA
Left flanking sequence: Indices 237435 -- 237934
TACTAATCGATAGGGCCTCATCGGTAAGTGCTACAAGATCTCGTACATTGGAACCCATGGTTATG
GACCCGAATCCATTAGTATAGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCATGTATTTAATTTAT
TCGGAGCTATTAGAGCGGGATCCACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTGGAACATCTTTCACAATCCCTGGAGAGATAGTTCACTAATAAACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATAGGTCTATTTCCGGCATCATATCCATAGTTAGCGCA
TTCATCATAGTTAGAAGCTCCAGCTCCGTATCAAGGTCACGGCCG
Right flanking sequence: Indices 237972 -- 238471
CAAGAAAACCCTTGGGCTTGTTATCCAGGAACTTGTTCAGAAATACTGTAATGAAAGGAACATAG
GAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTATCACTAAAAT
ACCCCTAGAGAGGGATAGGGCTAAACGGAGCGAAAAGGGTTTTCCATGAGATGGGAAATGAAAAC
TATTAGCCCCACAGGAGGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAATATCCGCCTT
TCTGCTAAACAGGATGTATTGAACTCATAATTCATTAGATACTTTTTATGAATGTCAACTAAGTA
TCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTTGATAAATGAT
CACTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGTGGAGAACTGA
ACCAAGAATTCTCTTTCTTTATCACCAATCGAATCACTGTTCGAG
Found at i:250004 original size:18 final size:18
Alignment explanation
Indices: 249964--250006 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
249954 ACCGCCCTGC
249964 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
249983 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
250000 CATAGTC
1 CATAGTC
250007 AACAAGGTTT
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 249464 -- 249963
GAAAGCTTTTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAAAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTGTCTGTTGGAGCGAATTGAATGATCGGGCCGAGGGCAGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGACGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTACTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 250007 -- 250506
AACAAGGTTTAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:256768 original size:26 final size:23
Alignment explanation
Indices: 256720--256771 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
256710 AGGAATGGGT
256720 GAACGGGAAACCTGTTGTTAGGA
1 GAACGGGAAACCTGTTGTTAGGA
256743 GAACGGGAAACCTGTTGTTAGGA
1 GAACGGGAAACCTGTTGTTAGGA
*
256766 GGACGG
1 GAACGG
256772 AGCCTGTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.13, G:0.38, T:0.19
Consensus pattern (23 bp):
GAACGGGAAACCTGTTGTTAGGA
Left flanking sequence: Indices 256220 -- 256719
GTTATTTAAAACCAATAACAACGTAAAAAACACGTGGTTTTGCATGTAGGTGAAGGGTCAAATTG
ATCAAAAAAGGAACGCTCTCACTAAGTAAAACGGCTTTTCTAGGTTTTGTAGCTAGGGCTAGATG
GATTTCGTGTCAAAAGAAAAACGAGTGAAAAGACCATTTCAAGCAAAAAAGACGGGGTTTTAGAC
TTTTTTCCAAAAAGCATGCCACTTCACTTCTTATTCACTTCCTCACTTTGTTTACTTCGTAACCT
TTGGTATTGCGTCTCATCCAGGTGATTAATATCACGTCATAGCATTTCTTCCCCTGCTTCTGAAA
GAAAAGAATCATATGACTTACCTAGGCGGTTGTACCACTTGAAAGGTGACATTGAAGAAGCTGAA
TCGAAACTTATACGATATTGTAGAGAACCACTCTGAGTCTTTATTCCCCTAGTCTTCTTCGCATC
CTTACTTACCTCCTTATACTACTGTAAGCATATGAAGGAATGGGT
Right flanking sequence: Indices 256772 -- 257271
AGCCTGTTGCCAAGGAGAACGGATAACATGGAAAGACAAGGAATACAAGGAAAGACAAGGAAAGC
GTGGGAGTTGCCGGGGTAACCTCCCTCTCCGGTCGAGTAACCTTCTACCTCTCCTTGTTGCCGAG
GAATGGAATTCCTATAAAAATTCCCGGGAAAGTCGACTTTGTTCGATAGTTCCCATCTCTCGATC
ACCCCACAAGAGAAGCCACTCGAACGAATAGCTCCTTTCTTGCCGTGGAATTCCTCAAAGCTATA
ATATAAATGGAATTCTCCCTTGACTCGATCTTTAAAAAAATTATGGAATTCTCTACAAGAGCTGC
GGAACTAACGACTCTATTAGAAAGTAGAATTACCAACTTTTACACGAATTTTCAAGTGGATGAGA
TCGGTCGAGTGGTCTCAGTTGGAGATGGGATTGCACGTGTTTATGGATTGAATGAGATTCAAGCT
GGGGAAATGGTTGAATTTGCCAGCGGTGTGAAAGGAATAGCGTTG
Found at i:256829 original size:10 final size:10
Alignment explanation
Indices: 256801--256835 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
256791 CGGATAACAT
256801 GGAAAGACAA
1 GGAAAGACAA
*
256811 GG-AATACAA
1 GGAAAGACAA
256820 GGAAAGACAA
1 GGAAAGACAA
256830 GGAAAG
1 GGAAAG
256836 CGTGGGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.57, C:0.09, G:0.31, T:0.03
Consensus pattern (10 bp):
GGAAAGACAA
Left flanking sequence: Indices 256301 -- 256800
TCTCACTAAGTAAAACGGCTTTTCTAGGTTTTGTAGCTAGGGCTAGATGGATTTCGTGTCAAAAG
AAAAACGAGTGAAAAGACCATTTCAAGCAAAAAAGACGGGGTTTTAGACTTTTTTCCAAAAAGCA
TGCCACTTCACTTCTTATTCACTTCCTCACTTTGTTTACTTCGTAACCTTTGGTATTGCGTCTCA
TCCAGGTGATTAATATCACGTCATAGCATTTCTTCCCCTGCTTCTGAAAGAAAAGAATCATATGA
CTTACCTAGGCGGTTGTACCACTTGAAAGGTGACATTGAAGAAGCTGAATCGAAACTTATACGAT
ATTGTAGAGAACCACTCTGAGTCTTTATTCCCCTAGTCTTCTTCGCATCCTTACTTACCTCCTTA
TACTACTGTAAGCATATGAAGGAATGGGTGAACGGGAAACCTGTTGTTAGGAGAACGGGAAACCT
GTTGTTAGGAGGACGGAGCCTGTTGCCAAGGAGAACGGATAACAT
Right flanking sequence: Indices 256836 -- 257335
CGTGGGAGTTGCCGGGGTAACCTCCCTCTCCGGTCGAGTAACCTTCTACCTCTCCTTGTTGCCGA
GGAATGGAATTCCTATAAAAATTCCCGGGAAAGTCGACTTTGTTCGATAGTTCCCATCTCTCGAT
CACCCCACAAGAGAAGCCACTCGAACGAATAGCTCCTTTCTTGCCGTGGAATTCCTCAAAGCTAT
AATATAAATGGAATTCTCCCTTGACTCGATCTTTAAAAAAATTATGGAATTCTCTACAAGAGCTG
CGGAACTAACGACTCTATTAGAAAGTAGAATTACCAACTTTTACACGAATTTTCAAGTGGATGAG
ATCGGTCGAGTGGTCTCAGTTGGAGATGGGATTGCACGTGTTTATGGATTGAATGAGATTCAAGC
TGGGGAAATGGTTGAATTTGCCAGCGGTGTGAAAGGAATAGCGTTGAATCTTGAGAATGAGAATG
TAGGGATTGTTGTCTTTGGTAGTGATACCGCTATTAAAGAAGGAG
Done.