Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 228 of 228
Found at i:67799288 original size:26 final size:25
Alignment explanation
Indices: 67799259--67799323 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
67799249 AAAAATAAGT
67799259 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
67799285 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
67799310 -TATATTTATATATA
1 GTATATGTATATATA
67799324 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:67801841 original size:20 final size:20
Alignment explanation
Indices: 67801823--67801858 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
67801813 ATGTGTGAAT
67801823 AAATATA-GA-TATGTATGA
1 AAATATACGAGTATGTATGA
67801841 AAATATACGAGTATGTAT
1 AAATATACGAGTATGTAT
67801859 ATAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (20 bp):
AAATATACGAGTATGTATGA
Found at i:67801864 original size:20 final size:19
Alignment explanation
Indices: 67801821--67801864 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
67801811 AAATGTGTGA
67801821 ATAAATATAGATATGTATG
1 ATAAATATAGATATGTATG
67801840 A-AAATATACGAGTATGTAT-
1 ATAAATATA-GA-TATGTATG
67801859 ATAAAT
1 ATAAAT
67801865 GTATTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
ATAAATATAGATATGTATG
Found at i:67802239 original size:18 final size:19
Alignment explanation
Indices: 67802207--67802244 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
67802197 TAGTAAAAAT
*
67802207 ACATAAATAACAGTATTAA
1 ACATAAATAACAGTAGTAA
*
67802226 ACAT-AATAATAGTAGTAA
1 ACATAAATAACAGTAGTAA
67802244 A
1 A
67802245 ATACTGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (19 bp):
ACATAAATAACAGTAGTAA
Found at i:67803930 original size:23 final size:23
Alignment explanation
Indices: 67803904--67803953 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
67803894 TATTTATTGT
67803904 TTTATCATTGTTATAAAAAAATA
1 TTTATCATTGTTATAAAAAAATA
67803927 TTTATCATTGTTATAAAAAAATA
1 TTTATCATTGTTATAAAAAAATA
67803950 TTTA
1 TTTA
67803954 ACTATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (23 bp):
TTTATCATTGTTATAAAAAAATA
Found at i:67804248 original size:21 final size:20
Alignment explanation
Indices: 67804224--67804273 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
67804214 CATTGTTTCT
*
67804224 AATCTCACTGCTACAGTATCC
1 AATCTCAC-GCTACAGTAACC
*
67804245 AATCTCAGCGCTACAGTAACT
1 AATCTCA-CGCTACAGTAACC
67804266 AATCTCAC
1 AATCTCAC
67804274 CGCCACCGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (20 bp):
AATCTCACGCTACAGTAACC
Found at i:67807902 original size:3 final size:3
Alignment explanation
Indices: 67807894--67807929 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
67807884 ACCTAAAATC
67807894 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
67807930 GATATAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:67815780 original size:27 final size:27
Alignment explanation
Indices: 67815749--67815804 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
67815739 TCCAAGCCTT
67815749 AAATTATTTAAGTCTGATTTAAGAAAA
1 AAATTATTTAAGTCTGATTTAAGAAAA
* * *
67815776 AAATTATTTAGGTTTGGTTTAAGAAAA
1 AAATTATTTAAGTCTGATTTAAGAAAA
67815803 AA
1 AA
67815805 CGTGATTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (27 bp):
AAATTATTTAAGTCTGATTTAAGAAAA
Found at i:67826940 original size:27 final size:27
Alignment explanation
Indices: 67826887--67826944 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
67826877 TTGTTTAAAG
67826887 TTTAATTATAGATAATATATCCTTAAT
1 TTTAATTATAGATAATATATCCTTAAT
* * *
67826914 ATTTAATTATTG-TATTATATGCTTAAT
1 -TTTAATTATAGATAATATATCCTTAAT
67826941 TTTA
1 TTTA
67826945 TGTAATAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.15
27 13 0.48
28 10 0.37
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (27 bp):
TTTAATTATAGATAATATATCCTTAAT
Found at i:67827904 original size:173 final size:174
Alignment explanation
Indices: 67827613--67827948 Score: 446
Period size: 173 Copynumber: 1.9 Consensus size: 174
67827603 CGATATCTAG
* * * * * *
67827613 AATTACTTATAACATCTTCCCAATCTATAAATAGTAGAAGAATGCGCTTCAACACACTCGAACCC
1 AATTACTCATAACATCTCCCCAAGCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACCC
* * *
67827678 ACGTTCTCCTGCATTGGTAACAATGCTCATGTCAATCGAGTTAAGACTCAATCGACATAA-ATAT
66 ACGTTCTCCTACATTGGCAACAATACTCATGTCAATCGAGTTAAGACTCAATCGACATAAGATAT
* *
67827742 ATATTATATAAGAG-CCTATTTCACAAATGTTATATGATGTTTAT
131 ATATTATATAAAAGTCC-ATTTCACAAAAGTTATATGATGTTTAT
* * *
67827786 AATTACTCATAATC-TCTCCCCAAGCTATAAATAGGAGGATAATACGCTCCAACACACTCGAACT
1 AATTACTCATAA-CATCTCCCCAAGCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACC
* * * *
67827850 CA-TTTCTTCCTACATTTGCGACAATACTCATGTCAATCGAGTTAAGATTCAATCGACATAAGTA
65 CACGTTC-TCCTACATTGGCAACAATACTCATGTCAATCGAGTTAAGACTCAATCGACATAAG-A
67827914 TATATATTATATAAAAGTCCATTTCACAAAAGTTA
128 TATATATTATATAAAAGTCCATTTCACAAAAGTTA
67827949 AAATCGAGAG
Statistics
Matches: 140, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
172 3 0.02
173 103 0.74
174 1 0.01
175 31 0.22
176 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (174 bp):
AATTACTCATAACATCTCCCCAAGCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACCC
ACGTTCTCCTACATTGGCAACAATACTCATGTCAATCGAGTTAAGACTCAATCGACATAAGATAT
ATATTATATAAAAGTCCATTTCACAAAAGTTATATGATGTTTAT
Found at i:67830482 original size:46 final size:46
Alignment explanation
Indices: 67830408--67830653 Score: 424
Period size: 46 Copynumber: 5.4 Consensus size: 46
67830398 GTGATAAGCG
*
67830408 GTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
*
67830454 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
1 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
67830500 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
1 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* *
67830546 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATTAA
1 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
*
67830592 GTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATC-A
1 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
*
67830637 GGGAC-AAGTGATAAGTG
1 GTGACAAAGTGATAAGTG
67830654 ATCATATGTA
Statistics
Matches: 191, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
44 12 0.06
45 5 0.03
46 174 0.91
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
Found at i:67831429 original size:18 final size:17
Alignment explanation
Indices: 67831380--67831430 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
67831370 AAAGTTTTAT
*
67831380 AAATATATATAAATTAA
1 AAATATATAAAAATTAA
*
67831397 AAAGATTATTAAAAATCTAA
1 AAATA-TA-TAAAAAT-TAA
67831417 AAATATATAAAAAT
1 AAATATATAAAAAT
67831431 GTTAATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.14
18 9 0.32
19 8 0.29
20 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAATATATAAAAATTAA
Found at i:67833319 original size:3 final size:3
Alignment explanation
Indices: 67833313--67833404 Score: 52
Period size: 3 Copynumber: 31.7 Consensus size: 3
67833303 CAAAATTCGC
* *
67833313 ATA ATA A-A AT- ATA A-A AGTA -TA ATA GTA ATA ATAA ATC ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
67833356 CTA AT- ATGC ATA AT- AGA ATA ATA ATA TTA ATA ATA TTA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67833400 ATA AT
1 ATA AT
67833405 CTAATTTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
2 11 0.16
3 50 0.75
4 6 0.09
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:67833556 original size:15 final size:16
Alignment explanation
Indices: 67833538--67833572 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
67833528 AATGATAAGT
67833538 AAATAAAT-AAAATAA
1 AAATAAATAAAAATAA
*
67833553 AAATACATAAAAATAA
1 AAATAAATAAAAATAA
67833569 AAAT
1 AAAT
67833573 CTAGACAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAATAAAAATAA
Found at i:67843682 original size:20 final size:19
Alignment explanation
Indices: 67843646--67843684 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
67843636 GTAAATATTA
**
67843646 CAAGTTAAATTTGTAAAAT
1 CAAGTTAAATTAATAAAAT
67843665 CAAGATTAAATTAATAAAAT
1 CAAG-TTAAATTAATAAAAT
67843685 GTGTACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (19 bp):
CAAGTTAAATTAATAAAAT
Found at i:67844304 original size:32 final size:32
Alignment explanation
Indices: 67844263--67844327 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
67844253 CTTTTTATTC
67844263 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
1 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
67844295 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
1 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
67844327 T
1 T
67844328 GTCTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.45
Consensus pattern (32 bp):
TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
Found at i:67847501 original size:14 final size:14
Alignment explanation
Indices: 67847482--67847509 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67847472 AGTTGTTGGC
67847482 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
67847496 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
67847510 AAGTTCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TGCTTAAAAAGGTT
Found at i:67847584 original size:29 final size:29
Alignment explanation
Indices: 67847542--67847599 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
67847532 TGAACTATCA
67847542 ATTGTAGGTTATAGGGAATTTCAATTATT
1 ATTGTAGGTTATAGGGAATTTCAATTATT
67847571 ATTGTAGGTTATAGGGAATTTCAATTATT
1 ATTGTAGGTTATAGGGAATTTCAATTATT
67847600 CATTCCAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (29 bp):
ATTGTAGGTTATAGGGAATTTCAATTATT
Found at i:67848772 original size:21 final size:21
Alignment explanation
Indices: 67848747--67848793 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
67848737 TAAAATATAA
67848747 ATTTATTTAT-TAAAAATGTTT
1 ATTTATTTATATAAAAAT-TTT
* *
67848768 TTTTATTTTTATAAAAATTTT
1 ATTTATTTATATAAAAATTTT
67848789 ATTTA
1 ATTTA
67848794 AAATTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTATTTATATAAAAATTTT
Found at i:67849960 original size:14 final size:15
Alignment explanation
Indices: 67849925--67849965 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
67849915 TATTACTTAT
67849925 AAAAAATAATATTTTA
1 AAAAAATAA-ATTTTA
67849941 ATAAAAATAAA-TTTA
1 A-AAAAATAAATTTTA
67849956 AAAAAATAAA
1 AAAAAATAAA
67849966 AAAGTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 2 0.08
17 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAAATAAATTTTA
Found at i:67858643 original size:23 final size:23
Alignment explanation
Indices: 67858610--67858653 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
67858600 GGTAACATTA
67858610 TAAAAATATA-TTTTTAAATTTT
1 TAAAAATATATTTTTTAAATTTT
67858632 TAAAAATAATATTTTTTAAATT
1 TAAAAAT-ATATTTTTTAAATT
67858654 CATTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAAAATATATTTTTTAAATTTT
Found at i:67858659 original size:25 final size:22
Alignment explanation
Indices: 67858606--67858659 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
67858596 ACATGGTAAC
67858606 ATTA-TAAAAATATATTTTTAA
1 ATTATTAAAAATATATTTTTAA
*
67858627 ATTTTTAAAAATAATATTTTTTAA
1 ATTATTAAAAAT-ATA-TTTTTAA
67858651 ATTCATTAA
1 ATT-ATTAA
67858660 TATTTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 7 0.26
23 3 0.11
24 10 0.37
25 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTATTAAAAATATATTTTTAA
Found at i:67858713 original size:21 final size:23
Alignment explanation
Indices: 67858672--67858714 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67858662 TTTGAAAAAT
*
67858672 AAAAATATAATATATATTTTTTG
1 AAAAATAGAATATATATTTTTTG
67858695 AAAAATAGAAT-TA-ATTTTTT
1 AAAAATAGAATATATATTTTTT
67858715 TGTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
AAAAATAGAATATATATTTTTTG
Found at i:67861626 original size:31 final size:31
Alignment explanation
Indices: 67861560--67861640 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
67861550 TGAAAAGCCT
* *
67861560 TTATTTGAGCACTTCACAAAACAGTTTGATTC
1 TTATTTGAGCACTT-TCAAAACAGTTTGATCC
* * *
67861592 TTATTTAAGCACTTTCAAAACATTTTGGTCC
1 TTATTTGAGCACTTTCAAAACAGTTTGATCC
67861623 TTATTTGAGCAGCTTTCA
1 TTATTTGAGCA-CTTTCA
67861641 TTTAAACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (31 bp):
TTATTTGAGCACTTTCAAAACAGTTTGATCC
Found at i:67864970 original size:18 final size:16
Alignment explanation
Indices: 67864935--67864975 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
67864925 TTTATATTTT
67864935 TTAATTTATATAACTA
1 TTAATTTATATAACTA
*
67864951 TTTATTTATATATACATA
1 TTAATTTATATA-AC-TA
67864969 TTAATTT
1 TTAATTT
67864976 TTAGGTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 11 0.52
17 2 0.10
18 8 0.38
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTTATATAACTA
Found at i:67867802 original size:21 final size:21
Alignment explanation
Indices: 67867773--67867817 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
67867763 AAGATTTATG
*
67867773 AGGTTAATAATTGACCCCGGT
1 AGGTGAATAATTGACCCCGGT
67867794 AGGTGAATAATTGACCCCGGT
1 AGGTGAATAATTGACCCCGGT
67867815 AGG
1 AGG
67867818 AAGGTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (21 bp):
AGGTGAATAATTGACCCCGGT
Found at i:67872067 original size:69 final size:69
Alignment explanation
Indices: 67871986--67872129 Score: 191
Period size: 69 Copynumber: 2.1 Consensus size: 69
67871976 CCTTACCCTT
* * *
67871986 ACTTGACATCGACATTAATTTAAACTTTAAAGTTTAAAAAAACTT-AACAAAAATCAAAAGTATT
1 ACTTGACATCGACATCAATTTAAACTTTAAAGTTCAAAAAAA-TTGAACAAAAATCAAAAATATT
**
67872050 GGTAC
65 AATAC
* * * *
67872055 ACTTGACATCGACATCAATTTGAATTTTAAAGTTCAGAAAAATTGAACAAAAATTAAAAATATTA
1 ACTTGACATCGACATCAATTTAAACTTTAAAGTTCAAAAAAATTGAACAAAAATCAAAAATATTA
67872120 ATAC
66 ATAC
67872124 ACTTGA
1 ACTTGA
67872130 GAAAGTATCG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
68 2 0.03
69 63 0.97
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (69 bp):
ACTTGACATCGACATCAATTTAAACTTTAAAGTTCAAAAAAATTGAACAAAAATCAAAAATATTA
ATAC
Found at i:67878236 original size:112 final size:108
Alignment explanation
Indices: 67878127--67878540 Score: 422
Period size: 108 Copynumber: 3.9 Consensus size: 108
67878117 TAAAAAAATT
* * ** *
67878127 AAATTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAATAGTAA-CAAAAAAAATTTTGAATTT
1 AAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTT--ATTT
* *
67878191 TTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTTGAAAAA
64 TTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTT-AAAAA
** * **
67878237 ATTTTTTTTGGGTGCTGGCTTGTCAATGGCTAGCACCCAGTACAAATTTTAAAAAACAATTTTTT
1 A-AATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA--TTAAAAAA-AA--TTTT
* * *
67878302 TTCTTTTTTCGTGTAAAAATCAGATATCAGAATACAAAAAAAG-TAAAAA
60 AT-TTTTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAA
* * * * * *
67878351 AAA-ATTTGGGTGCTGGCATGTCACTGGCCGACACCCAGTACAAATTTAAAAAAA-TTTCTTTTT
1 AAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTTATTTTT
* *
67878414 TGCGTGTAAAAATCATATATCAGTATACGAAAAAAGTTAAAAGA
66 TTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAA-A
*
67878458 AATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT-----AAA----ATTTTT
1 AAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTTATTTTT
67878514 TTCGTGTAAAAATCAGATATCAGTATA
66 TTCGTGTAAAAATCAGATATCAGTATA
67878541 TTGATATCTG
Statistics
Matches: 256, Mismatches: 37, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
100 30 0.12
103 3 0.01
105 36 0.14
106 9 0.04
107 3 0.01
108 39 0.15
109 2 0.01
110 8 0.03
111 35 0.14
112 35 0.14
114 12 0.05
115 4 0.02
116 36 0.14
117 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (108 bp):
AAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTTATTTTT
TTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAA
Found at i:67878504 original size:108 final size:106
Alignment explanation
Indices: 67878130--67878540 Score: 419
Period size: 111 Copynumber: 3.8 Consensus size: 106
67878120 AAAAATTAAA
* * ** ** *
67878130 TTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAATAGTAACAAAAAAAATTTTGAATTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAATTTT---CTTTTTT
* * *
67878195 CGTGTCAGAATCAGATATCAGTATACGAAAAAAGTTGAAAAAATTT
63 CGTGTAAAAATCAGATATCAGTATACGAAAAAAGTT-AAAAAA-AT
* **
67878241 TTTTTGGGTGCTGGCTTGTCAATGGCTAGCACCCAGTACAAATTTTAAAAAACAATTTTTTTTCT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA--TT-AAAAA-AA----TTTTCT
* *
67878306 TTTTTCGTGTAAAAATCAGATATCAGAATACAAAAAAAG-TAAAAAAA-
58 TTTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAAAAT
** * * *
67878353 AATTTGGGTGCTGGCATGTCACTGGCCGACACCCAGTACAAATTTAAAAAAA-TTTCTTTTTTGC
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TTAAAAAAATTTTCTTTTTT-C
*
67878417 GTGTAAAAATCATATATCAGTATACGAAAAAAGTTAAAAGAAAT
64 GTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAA-AAAT
67878461 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT---AAAA---T-TTTTTTCGT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAATTTTCTTTTTTCGT
67878519 GTAAAAATCAGATATCAGTATA
66 GTAAAAATCAGATATCAGTATA
67878541 TTGATATCTG
Statistics
Matches: 257, Mismatches: 31, Indels: 35
0.80 0.10 0.11
Matches are distributed among these distances:
100 24 0.09
101 6 0.02
102 1 0.00
104 14 0.05
105 31 0.12
106 5 0.02
107 5 0.02
108 37 0.14
109 2 0.01
110 5 0.02
111 38 0.15
112 35 0.14
114 11 0.04
115 3 0.01
116 36 0.14
119 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (106 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAATTTTCTTTTTTCGT
GTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAAAAT
Found at i:67878649 original size:13 final size:13
Alignment explanation
Indices: 67878631--67878656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67878621 AAAATTAATT
67878631 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
67878644 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
67878657 GTATATCAAT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:67879163 original size:18 final size:18
Alignment explanation
Indices: 67879113--67879170 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
67879103 TAATCACTCA
*
67879113 ATTTT-AATAAATTTT-T
1 ATTTTAAATTAATTTTAT
67879129 ATTTTAATCACTT-ATTTTAT
1 ATTTTAA--A-TTAATTTTAT
67879149 ATTTTAAATTAATTTTAT
1 ATTTTAAATTAATTTTAT
67879167 -TTTT
1 ATTTT
67879171 TTCAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
16 5 0.14
17 7 0.20
18 8 0.23
19 6 0.17
20 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTAAATTAATTTTAT
Found at i:67879315 original size:30 final size:31
Alignment explanation
Indices: 67879275--67879344 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
67879265 GTGAGTGACC
* **
67879275 AAAATAAAAATAA-TTTTAACCGTAGTGCAT
1 AAAATGAAAATAATTTTTAACAATAGTGCAT
* *
67879305 AAAATGAAAATAATTTTTAATAATAGTTCAT
1 AAAATGAAAATAATTTTTAACAATAGTGCAT
67879336 AAAATGAAA
1 AAAATGAAA
67879345 TTTTTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (31 bp):
AAAATGAAAATAATTTTTAACAATAGTGCAT
Found at i:67881017 original size:22 final size:21
Alignment explanation
Indices: 67880983--67881038 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
67880973 TAATAATAAA
*
67880983 TTTAGCTTCTAATATTTATTGTTT
1 TTTA-CTT-TAATATTAATT-TTT
*
67881007 TTTACTTTAATCTTAATTTTT
1 TTTACTTTAATATTAATTTTT
67881028 TATTACTTTAA
1 T-TTACTTTAA
67881039 CTCTCAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.14
22 18 0.62
23 3 0.10
24 4 0.14
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTACTTTAATATTAATTTTT
Found at i:67886683 original size:21 final size:23
Alignment explanation
Indices: 67886643--67886685 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67886633 ATAATATAAT
67886643 ATAATATAAATATAATTTGAGAC
1 ATAATATAAATATAATTTGAGAC
*
67886666 ATAATATACAT-T-ATTTGAGA
1 ATAATATAAATATAATTTGAGA
67886686 AAACCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
23 10 0.53
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (23 bp):
ATAATATAAATATAATTTGAGAC
Found at i:67887629 original size:21 final size:20
Alignment explanation
Indices: 67887591--67887630 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67887581 ACTTTTATTT
67887591 AAATATAATATAAAAATATA
1 AAATATAATATAAAAATATA
* *
67887611 AAATATTATCATAATAATAT
1 AAATATAAT-ATAAAAATAT
67887631 TAATTATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATAATATAAAAATATA
Found at i:67892495 original size:30 final size:30
Alignment explanation
Indices: 67892454--67892518 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
67892444 GGCCAAACTA
* *
67892454 AAAACAATTTTAACCATAGTGCCTAAAATG
1 AAAATAATTTTAACAATAGTGCCTAAAATG
*
67892484 AAAATAATTTTAATAATAGTGCCTAAAATG
1 AAAATAATTTTAACAATAGTGCCTAAAATG
67892514 AAAAT
1 AAAAT
67892519 TTTTTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (30 bp):
AAAATAATTTTAACAATAGTGCCTAAAATG
Found at i:67901096 original size:19 final size:20
Alignment explanation
Indices: 67901072--67901143 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 20
67901062 ACATTTTTAA
67901072 AAAAATTTA-AAAAAATATT
1 AAAAATTTATAAAAAATATT
* *
67901091 AAAAATTTATATAAACT-TAT
1 AAAAATTTATAAAAAATAT-T
*
67901111 AACAA-TTATAAAAAATA-T
1 AAAAATTTATAAAAAATATT
67901129 ATAAAATTTA-AAAAA
1 A-AAAATTTATAAAAA
67901144 CCCTAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
18 2 0.05
19 27 0.64
20 13 0.31
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATTTATAAAAAATATT
Found at i:67901795 original size:10 final size:9
Alignment explanation
Indices: 67901782--67901904 Score: 63
Period size: 9 Copynumber: 13.0 Consensus size: 9
67901772 TTTTATGATT
67901782 TTTTTCATAA
1 TTTTT-ATAA
67901792 TTTTTATAA
1 TTTTTATAA
*
67901801 TTTATATAA
1 TTTTTATAA
* *
67901810 -GTATATAA
1 TTTTTATAA
67901818 TATTTTCA-ACA
1 T-TTTT-ATA-A
*
67901829 TTTTTAGAA
1 TTTTTATAA
*
67901838 TTTTT-TGAG
1 TTTTTAT-AA
*
67901847 TTTTAATAA
1 TTTTTATAA
*
67901856 TATTTATAA
1 TTTTTATAA
67901865 GTTTTTTATGAA
1 --TTTTTAT-AA
67901877 TTATTTATAA
1 TT-TTTATAA
* *
67901887 GTTTTATAT
1 TTTTTATAA
67901896 TTTTTATAA
1 TTTTTATAA
67901905 GTTTCCTTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
8 7 0.08
9 45 0.52
10 19 0.22
11 14 0.16
12 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:67901902 original size:22 final size:22
Alignment explanation
Indices: 67901845--67901895 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
67901835 GAATTTTTTG
67901845 AGTTTTA-AT-AA-TATTTATA
1 AGTTTTATATGAATTATTTATA
*
67901864 AGTTTTTTATGAATTATTTATA
1 AGTTTTATATGAATTATTTATA
67901886 AGTTTTATAT
1 AGTTTTATAT
67901896 TTTTTATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 6 0.22
20 2 0.07
21 2 0.07
22 17 0.63
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
AGTTTTATATGAATTATTTATA
Found at i:67901907 original size:40 final size:38
Alignment explanation
Indices: 67901829--67901908 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 38
67901819 ATTTTCAACA
*
67901829 TTTTTAGAATTTTTTGAGTTTTAATAATATTTATAAGT
1 TTTTTAGAATTTTTTAAGTTTTAATAATATTTATAAGT
* *
67901867 TTTTTATGAATTATTTATAAGTTTT-ATATTTTTTATAAGT
1 TTTTTA-GAATT-TTT-TAAGTTTTAATAATATTTATAAGT
67901907 TT
1 TT
67901909 CCTTAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 6 0.17
39 5 0.14
40 18 0.50
41 7 0.19
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (38 bp):
TTTTTAGAATTTTTTAAGTTTTAATAATATTTATAAGT
Found at i:67909207 original size:33 final size:33
Alignment explanation
Indices: 67909169--67909234 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
67909159 CTAATTATAA
*
67909169 AATTTA-ATGATTATATTTAAATATTTA-AAATAT
1 AATTTATAT-ATTATAATTAAAT-TTTATAAATAT
*
67909202 AATTTATATATTCTAATTAAATTTTATAAATAT
1 AATTTATATATTATAATTAAATTTTATAAATAT
67909235 TTATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.14
33 23 0.79
34 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (33 bp):
AATTTATATATTATAATTAAATTTTATAAATAT
Found at i:67913013 original size:10 final size:10
Alignment explanation
Indices: 67912998--67913055 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
67912988 CTAAAGAAAC
67912998 TTTAAAAATA
1 TTTAAAAATA
67913008 TTTAAAAAT-
1 TTTAAAAATA
*
67913017 TATAAAAA-A
1 TTTAAAAATA
**
67913026 TACAAAAAATA
1 T-TTAAAAATA
*
67913037 TTTAAAATTA
1 TTTAAAAATA
67913047 -TTAAAAATA
1 TTTAAAAATA
67913056 GAAAAATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
9 16 0.42
10 20 0.53
11 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:67913043 original size:28 final size:29
Alignment explanation
Indices: 67913001--67913061 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
67912991 AAGAAACTTT
67913001 AAAAATATTTAAAAATTATAAAAAATACA
1 AAAAATATTTAAAAATTATAAAAAATACA
* *
67913030 AAAAATATTT-AAAATTATTAAAAATAGA
1 AAAAATATTTAAAAATTATAAAAAATACA
67913058 AAAA
1 AAAA
67913062 TTATACAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAAATATTTAAAAATTATAAAAAATACA
Found at i:67913444 original size:21 final size:22
Alignment explanation
Indices: 67913404--67913444 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
67913394 GTAATTTTAT
67913404 ATTTTTTTAGTTTTGTAATTTC
1 ATTTTTTTAGTTTTGTAATTTC
67913426 ATTTTTTCTA-TTTT-TAATT
1 ATTTTTT-TAGTTTTGTAATT
67913445 ATTTTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (22 bp):
ATTTTTTTAGTTTTGTAATTTC
Found at i:67913451 original size:33 final size:34
Alignment explanation
Indices: 67913398--67913484 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 34
67913388 ATTTTAGTAA
*
67913398 TTTTATATTTTT--TTAGTTTTGTAATTTCAT-T
1 TTTTATATTTTTAATTATTTTTGTAATTTCATAT
* *
67913429 TTTTCTATTTTTAATTATTTTTGTAATTTTATAT
1 TTTTATATTTTTAATTATTTTTGTAATTTCATAT
*
67913463 TTTTTTCATTTTTTAA-TATTTT
1 TTTTAT-A-TTTTTAATTATTTT
67913485 AAAAGTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 11 0.23
33 16 0.34
34 6 0.13
35 7 0.15
36 7 0.15
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (34 bp):
TTTTATATTTTTAATTATTTTTGTAATTTCATAT
Found at i:67913474 original size:16 final size:16
Alignment explanation
Indices: 67913414--67913466 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
67913404 ATTTTTTTAG
*
67913414 TTTTGTAATTTCAT-T
1 TTTTGTAATTTTATAT
* *
67913429 TTTTCTATTTTTAATTAT
1 TTTTGTAATTTT-A-TAT
67913447 TTTTGTAATTTTATAT
1 TTTTGTAATTTTATAT
67913463 TTTT
1 TTTT
67913467 TTCATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 9 0.30
16 8 0.27
17 2 0.07
18 11 0.37
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (16 bp):
TTTTGTAATTTTATAT
Found at i:67916449 original size:42 final size:42
Alignment explanation
Indices: 67916397--67916494 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
67916387 GCATAATAAT
*
67916397 AACAAGATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
1 AACAAAATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
* *
67916439 AACAAAATAACACTGTTGTGTAAGTGTAACCAGTAAATTAAT
1 AACAAAATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
67916481 AACAAAATAACACT
1 AACAAAATAACACT
67916495 TCTATTGGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.24
Consensus pattern (42 bp):
AACAAAATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
Found at i:67918939 original size:128 final size:128
Alignment explanation
Indices: 67918711--67918967 Score: 496
Period size: 128 Copynumber: 2.0 Consensus size: 128
67918701 TTAGTTTAAT
67918711 TGACATTGTTGTAATATATAACATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
1 TGACATTGTTGTAATATATAACATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
67918776 GATGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
66 GATGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
*
67918839 TGACATTGTTGTAATATATAGCATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
1 TGACATTGTTGTAATATATAACATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
*
67918904 GGTGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
66 GATGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
67918967 T
1 T
67918968 CTAGCATTAA
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (128 bp):
TGACATTGTTGTAATATATAACATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
GATGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
Found at i:67927373 original size:50 final size:51
Alignment explanation
Indices: 67927319--67927423 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 51
67927309 GAAACAAGTC
67927319 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGA-T
1 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
67927369 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
1 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
67927420 TTTT
1 TTTT
67927424 TGATAGGGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 49 0.91
51 5 0.09
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.44
Consensus pattern (51 bp):
TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
Found at i:67936172 original size:14 final size:15
Alignment explanation
Indices: 67936147--67936175 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
67936137 AACAATCGAC
67936147 AGAACAAAAAGAAAA
1 AGAACAAAAAGAAAA
67936162 AGAAC-AAAAGAAAA
1 AGAACAAAAAGAAAA
67936176 GAGCTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (15 bp):
AGAACAAAAAGAAAA
Found at i:67954745 original size:67 final size:67
Alignment explanation
Indices: 67954668--67954800 Score: 266
Period size: 67 Copynumber: 2.0 Consensus size: 67
67954658 CTATAAATTT
67954668 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
1 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
67954733 TA
66 TA
67954735 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
1 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
67954800 T
66 T
67954801 TAAACATTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (67 bp):
TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
TA
Found at i:67964070 original size:2 final size:2
Alignment explanation
Indices: 67964065--67964095 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
67964055 CACGCGCGCG
67964065 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
67964096 TCTTTAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:67970351 original size:15 final size:15
Alignment explanation
Indices: 67970331--67970377 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
67970321 TGGTTACTAG
*
67970331 TAATAATAAGGTTAA
1 TAATAATAAGGATAA
*
67970346 TAATAATAATGATAA
1 TAATAATAAGGATAA
* *
67970361 TAATAATGATGATAA
1 TAATAATAAGGATAA
67970376 TA
1 TA
67970378 TATTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (15 bp):
TAATAATAAGGATAA
Found at i:67970360 original size:12 final size:12
Alignment explanation
Indices: 67970345--67970403 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
67970335 AATAAGGTTA
67970345 ATAATAATAATG
1 ATAATAATAATG
67970357 ATAATAATAATG
1 ATAATAATAATG
* *
67970369 ATGATAATATATT
1 ATAATAATA-ATG
* *
67970382 AAAATAATAAAG
1 ATAATAATAATG
*
67970394 AGAATAATAA
1 ATAATAATAA
67970404 AAGTACTCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
12 30 0.77
13 9 0.23
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:67971823 original size:87 final size:87
Alignment explanation
Indices: 67971709--67971949 Score: 304
Period size: 87 Copynumber: 2.7 Consensus size: 87
67971699 TCCATTCTGT
*
67971709 TGTAACTTCAGGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 TGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* * * *
67971774 CTCTTATTTTAATCCGTTCCAC
66 CTCTGACTTCAATCCGCTCCAC
* *
67971796 TGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGAT
1 TGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* *
67971861 CTCTGGCTTCAATCTGCTCCAC
66 CTCTGACTTCAATCCGCTCCAC
* * * * * *
67971883 TGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATA
1 TGTAACTTCAGGGAGATAAGATAGTG----TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
67971947 AGA
62 AGA
67971950 CCTGATGTGA
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
86 2 0.02
87 98 0.74
90 33 0.25
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (87 bp):
TGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
CTCTGACTTCAATCCGCTCCAC
Found at i:67971941 original size:46 final size:45
Alignment explanation
Indices: 67971735--67972289 Score: 332
Period size: 44 Copynumber: 12.8 Consensus size: 45
67971725 TAAGATAGTG
* * *
67971735 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * * * *
67971778 TATTTTAATCCGTTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 T-CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * *
67971821 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
67971865 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
67971912 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
67971955 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
67971992 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
67972035 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
67972082 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
67972125 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
67972162 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
67972205 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
67972252 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
67972290 CCTGTATTAT
Statistics
Matches: 389, Mismatches: 83, Indels: 77
0.71 0.15 0.14
Matches are distributed among these distances:
36 4 0.01
37 2 0.01
38 2 0.01
39 44 0.11
40 4 0.01
41 48 0.12
42 3 0.01
43 32 0.08
44 134 0.34
45 3 0.01
46 108 0.28
47 5 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:67972065 original size:170 final size:170
Alignment explanation
Indices: 67971872--67972293 Score: 826
Period size: 170 Copynumber: 2.5 Consensus size: 170
67971862 TCTGGCTTCA
* *
67971872 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
67971937 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATACGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATACGATCCTTTAATCC
67972002 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
67972042 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
67972107 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATACGATCCTTTAATCC
66 CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATACGATCCTTTAATCC
67972172 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
131 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
67972212 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
1 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
67972277 CAGGGAGATAAGACCTG
66 CAGGGAGATAAGACCTG
67972294 TATTATGAAC
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 250 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (170 bp):
ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCT
CAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATACGATCCTTTAATCC
GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
Found at i:67972069 original size:83 final size:83
Alignment explanation
Indices: 67971969--67972245 Score: 278
Period size: 83 Copynumber: 3.3 Consensus size: 83
67971959 ATCTTCTCTA
67971969 CTGTAACTTCAGAGAGATACGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATACGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
67972034 TATCTTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
* * ** * * * *
67972052 CTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGAT
1 CTGTAACT-TCAGAGAGAT---A-C-G--ATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGAT
* * * * **
67972116 AAGA--CCTGA--TGTGATCTTCTCTA
58 AGGATTACT-ATCTTTGATCTGCTCCG
67972139 CTGTAACTTCAGAGAGATACGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
1 CTGTAACTTCAGAGAGATACGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
67972204 TATCTTTGATCTGCTCCG
66 TATCTTTGATCTGCTCCG
* *
67972222 CTGTAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATACGATC
67972246 TGAAATTCTT
Statistics
Matches: 149, Mismatches: 30, Indels: 30
0.71 0.14 0.14
Matches are distributed among these distances:
80 32 0.21
81 1 0.01
82 5 0.03
83 46 0.31
84 1 0.01
86 1 0.01
87 26 0.17
88 4 0.03
89 1 0.01
90 32 0.21
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (83 bp):
CTGTAACTTCAGAGAGATACGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTAC
TATCTTTGATCTGCTCCG
Done.