Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 26 of 59
Found at i:9589838 original size:43 final size:43
Alignment explanation
Indices: 9589669--9589841 Score: 226
Period size: 43 Copynumber: 4.0 Consensus size: 43
9589659 TTGTGTGATA
* *
9589669 ATGATGACCCAGCTATGTGCAGTGTA-GGAGTGCACATGAGTTG
1 ATGATGACCCAGCTATGTGC-GAGTAGGGAGTGCACATGAGCTG
* *
9589712 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATAAG-TCG
1 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCT-G
* * *
9589755 ATGATGACCCATCTATGTGC-AGTGTGGGAGGGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGAGT-AGGGAGTGCACATGAGCTG
*
9589798 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTG
9589841 A
1 A
9589842 GTGTGGCGGA
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
42 8 0.07
43 101 0.89
44 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.23
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTG
Found at i:9595048 original size:15 final size:15
Alignment explanation
Indices: 9595028--9595066 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9595018 TTGAAATAAA
*
9595028 ACTTTCCTTTTTAAG
1 ACTTTCCATTTTAAG
*
9595043 ACTTTCCATTTTAAT
1 ACTTTCCATTTTAAG
*
9595058 TCTTTCCAT
1 ACTTTCCAT
9595067 AATTAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (15 bp):
ACTTTCCATTTTAAG
Found at i:9595443 original size:78 final size:77
Alignment explanation
Indices: 9595327--9595492 Score: 251
Period size: 78 Copynumber: 2.1 Consensus size: 77
9595317 TGAATTTCCC
* *
9595327 AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAATGTAGGAAACAATTTCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTACTTTTAAAGTAGGAAACAATTTCCTA-TTTTT
9595392 TATGAATCACCCA
65 TATGAATCACCCA
** *
9595405 AAATTAAAATTTTATCCTTAGTTTTAGGAATTACTTTTAAAGTAGGAAACAATTTCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTACTTTTAAAGTAGGAAACAATTTCCTATTTTTT
* **
9595470 ATGGATCACCTT
66 ATGAATCACCCA
9595482 AAATTAAAATA
1 AAATTAAAATA
9595493 GATGGTATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 25 0.32
78 54 0.68
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (77 bp):
AAATTAAAATACTATCCTTAATTTTAGGAATTACTTTTAAAGTAGGAAACAATTTCCTATTTTTT
ATGAATCACCCA
Found at i:9602386 original size:2 final size:2
Alignment explanation
Indices: 9602379--9602418 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9602369 NNNNNNNNNN
9602379 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9602419 GCTTATGGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9603520 original size:5 final size:5
Alignment explanation
Indices: 9603510--9603606 Score: 62
Period size: 5 Copynumber: 19.0 Consensus size: 5
9603500 GCAAACCATG
**
9603510 CCTTT CCTTT -CTTT CTCTCTT TTTTT CC-TT -CTTT -CTTT CCTTT CCTTT
1 CCTTT CCTTT CCTTT C-CT-TT CCTTT CCTTT CCTTT CCTTT CCTTT CCTTT
9603558 CCTTT CCTTTCT CCTTT CTTCTTT -CTTT -CTTCT CCTTT CTCTTT CCTTT
1 CCTTT CC-TT-T CCTTT C--CTTT CCTTT CCTT-T CCTTT C-CTTT CCTTT
9603607 TTGGCTATGG
Statistics
Matches: 76, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
3 1 0.01
4 19 0.25
5 32 0.42
6 15 0.20
7 9 0.12
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
CCTTT
Found at i:9603525 original size:4 final size:4
Alignment explanation
Indices: 9603511--9603588 Score: 61
Period size: 4 Copynumber: 18.8 Consensus size: 4
9603501 CAAACCATGC
* * *
9603511 CTTT CCTTT CTTT CTCT CTTT TTTT CCTT CTTT CTTT CCTTT CCTTT CCTTT
1 CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT -CTTT -CTTT -CTTT
*
9603563 CCTTT C-TC CTTT C-TT CTTT CTTT CTT
1 -CTTT CTTT CTTT CTTT CTTT CTTT CTT
9603589 CTCCTTTCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
3 5 0.08
4 34 0.55
5 23 0.37
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:9603554 original size:38 final size:41
Alignment explanation
Indices: 9603510--9603602 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
9603500 GCAAACCATG
* *
9603510 CCTTTCCTTTCTTT-C-TCTCTTTTTTTCCTTCTTTCTT-T
1 CCTTTCCTTTCTTTCCTTCTCCTTTCTTCCTTCTTTCTTCT
*
9603548 CCTTTCCTTTCCTTTCCTTTCTCCTTTCTTCTTTCTTTCTTCT
1 CCTTTCCTTT-CTTTCC-TTCTCCTTTCTTCCTTCTTTCTTCT
9603591 CCTTTCTCTTTC
1 CCTTTC-CTTTC
9603603 CTTTTTGGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
38 10 0.22
39 4 0.09
40 1 0.02
42 19 0.41
43 8 0.17
44 4 0.09
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (41 bp):
CCTTTCCTTTCTTTCCTTCTCCTTTCTTCCTTCTTTCTTCT
Found at i:9603569 original size:28 final size:25
Alignment explanation
Indices: 9603533--9603606 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 25
9603523 TCTCTCTTTT
9603533 TTTCC-TTCTTTCTTTCCTTTC--C
1 TTTCCTTTCTTTCTTTCCTTTCTTC
9603555 TTTCCTTTCCTTTC--TCCTTTCTTC
1 TTTCCTTT-CTTTCTTTCCTTTCTTC
9603579 TTT-CTTTC-TTC--TCCTTTC-TC
1 TTTCCTTTCTTTCTTTCCTTTCTTC
9603599 TTTCCTTT
1 TTTCCTTT
9603607 TTGGCTATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.11
21 14 0.30
22 13 0.28
23 6 0.13
24 9 0.19
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTCCTTTCTTTCTTTCCTTTCTTC
Found at i:9603722 original size:22 final size:21
Alignment explanation
Indices: 9603696--9603740 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
9603686 GCCCAATACC
9603696 TTTCTTT-TTCCTTTATTTTTCT
1 TTTCTTTCTT-CTTTA-TTTTCT
9603718 TTTCTTTCTTCTTTATTTTCT
1 TTTCTTTCTTCTTTATTTTCT
9603739 TT
1 TT
9603741 ACATGGGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.36
22 12 0.55
23 2 0.09
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCTTTCTTCTTTATTTTCT
Found at i:9605415 original size:139 final size:140
Alignment explanation
Indices: 9605165--9605448 Score: 401
Period size: 139 Copynumber: 2.0 Consensus size: 140
9605155 ATTTGCCCTT
* * *
9605165 GAAGTGGCAATATGGCTCAATTGAAAGGGATCAATTATGGACCATGCACTCTACTCTTTTTTCCT
1 GAAGTAGCAACATGGCTCAATTGAAAGGGAGCAATTATGGACCATGCACTCTACTCTTTTTTCCT
* * *
9605230 TCTGATCAATTTTTGTCCCACTAGGTTTTTCCAGCTTAAGGTTTTTAATGAGGTAGTACAATGGA
66 TCTGATCAATTTTTGTCCAACTAGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCAATACAATGGA
9605295 CATTCAAA-G
131 CATTCAAAGG
** * * * *
9605304 GAAGTAGCAACATGGCTCAATTGAGGGGGAGCAATTATGGACCATTCATTGTACTTTTTTTTCCT
1 GAAGTAGCAACATGGCTCAATTGAAAGGGAGCAATTATGGACCATGCACTCTACTCTTTTTTCCT
* * * *
9605369 TCTGATCAGTTTTTGTCCAATTGGGTTTCTTCGA-CTTAAGGTTTTTAATGAGGCAATACAATGG
66 TCTGATCAATTTTTGTCCAACTAGGTTT-TTCCAGCTTAAGGTTTTTAATGAGGCAATACAATGG
9605433 ACATTCAAAGG
130 ACATTCAAAGG
9605444 GAAGT
1 GAAGT
9605449 GTTATGAATA
Statistics
Matches: 127, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
139 117 0.92
140 10 0.08
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (140 bp):
GAAGTAGCAACATGGCTCAATTGAAAGGGAGCAATTATGGACCATGCACTCTACTCTTTTTTCCT
TCTGATCAATTTTTGTCCAACTAGGTTTTTCCAGCTTAAGGTTTTTAATGAGGCAATACAATGGA
CATTCAAAGG
Found at i:9605880 original size:29 final size:29
Alignment explanation
Indices: 9605834--9605891 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
9605824 ACAACTATAG
* *
9605834 GTACATGTCTCTTAGAAATGTTAGCTCAA
1 GTACATGTCTATTAGAAATGTTAACTCAA
*
9605863 GTACATGTCTATTTGAAATGTTAACTCAA
1 GTACATGTCTATTAGAAATGTTAACTCAA
9605892 TAAACAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (29 bp):
GTACATGTCTATTAGAAATGTTAACTCAA
Found at i:9607179 original size:71 final size:71
Alignment explanation
Indices: 9607049--9607180 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 71
9607039 TGGTGCTGGC
** * *
9607049 TTTCTTCAAGTTTTTTGTGCATTCTACTAAAGGATCAACTACCCATGCCATATAGTCGACTAGTG
1 TTTCTTCAAGTTTTTCATGCATTCTACTAAAGGATCAACTACCCAAGCCATATAATCGACTAGTG
9607114 TTTCCT
66 TTTCCT
* * ** *
9607120 TTTCTTCAAGTTTTTCATGTATTCTGCTAAAGGATTGACTGCCCAAGCTC-TATAATCGACT
1 TTTCTTCAAGTTTTTCATGCATTCTACTAAAGGATCAACTACCCAAGC-CATATAATCGACT
9607181 GGTGCCTTCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 50 0.98
72 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (71 bp):
TTTCTTCAAGTTTTTCATGCATTCTACTAAAGGATCAACTACCCAAGCCATATAATCGACTAGTG
TTTCCT
Found at i:9616046 original size:22 final size:22
Alignment explanation
Indices: 9616016--9616063 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
9616006 AAAAATGGAT
9616016 GCTGATATGTTTATGGTATTTG
1 GCTGATATGTTTATGGTATTTG
* *
9616038 GCTGGTATGTTTATGGTATTTT
1 GCTGATATGTTTATGGTATTTG
9616060 GCTG
1 GCTG
9616064 CTGATAGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.06, G:0.29, T:0.50
Consensus pattern (22 bp):
GCTGATATGTTTATGGTATTTG
Found at i:9616440 original size:17 final size:17
Alignment explanation
Indices: 9616415--9616448 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9616405 AGCAAAATAT
9616415 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
* *
9616432 GCACTCACTTAGGGGGA
1 GCACACACTAAGGGGGA
9616449 ACAATCCTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.24, G:0.35, T:0.12
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:9621589 original size:20 final size:20
Alignment explanation
Indices: 9621563--9621608 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
9621553 AATCTTACCT
* *
9621563 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
9621584 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
9621605 TTTT
1 TTTT
9621609 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:9621610 original size:22 final size:22
Alignment explanation
Indices: 9621568--9621608 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9621558 TACCTTTTTT
*
9621568 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
9621590 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
9621609 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:9622933 original size:40 final size:39
Alignment explanation
Indices: 9622857--9622962 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 39
9622847 GTCTTAATCA
* * * * * *
9622857 AAATCACCATATTAAACAATCACTACTTAATGCTTAGTCT
1 AAATCACCACATTAGACATTCAAT-CATAATACTTAGTCT
*
9622897 AAATCACCACCTTAGACATTCATATCATAATACTTAGTCT
1 AAATCACCACATTAGACATTCA-ATCATAATACTTAGTCT
9622937 AAATCACCACATTAGACATTCAATCA
1 AAATCACCACATTAGACATTCAATCA
9622963 AGTAAAATGG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.07
40 52 0.91
41 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (39 bp):
AAATCACCACATTAGACATTCAATCATAATACTTAGTCT
Found at i:9623077 original size:38 final size:38
Alignment explanation
Indices: 9623026--9623101 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9623016 GAAACCAAAT
9623026 AGTCCATTACTCTATAGTCGACAACAATTCATAAAAAG
1 AGTCCATTACTCTATAGTCGACAACAATTCATAAAAAG
9623064 AGTCCATTACTCTATAGTCGACAACAATTCATAAAAAG
1 AGTCCATTACTCTATAGTCGACAACAATTCATAAAAAG
9623102 GGTAATACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (38 bp):
AGTCCATTACTCTATAGTCGACAACAATTCATAAAAAG
Found at i:9628172 original size:51 final size:51
Alignment explanation
Indices: 9628077--9628177 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
9628067 ACAAATTTAT
**
9628077 AGCTGTAATAGGTTCATAAATGACACAATACTGTATGCTGTAACACACTTG
1 AGCTGTAATAGGTTCATAAATGACACAATACTGTATGCCATAACACACTTG
*
9628128 AGCTGTAATAGGTTCATAAATGACACAATACTGTATGCCATAACATACTT
1 AGCTGTAATAGGTTCATAAATGACACAATACTGTATGCCATAACACACTT
9628178 AACAGCTTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (51 bp):
AGCTGTAATAGGTTCATAAATGACACAATACTGTATGCCATAACACACTTG
Found at i:9637086 original size:3 final size:3
Alignment explanation
Indices: 9637071--9637116 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
9637061 TGAGCATTAG
*
9637071 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9637117 TAACAATGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9643556 original size:253 final size:250
Alignment explanation
Indices: 9643070--9644211 Score: 1082
Period size: 242 Copynumber: 4.6 Consensus size: 250
9643060 GATAAGACTA
* * * *
9643070 TAAGAATTAACGTAAAAAAATTATAAAAGTGGAACAAACATTATCAAAATATTGACGTAAACACA
1 TAAGAATTAACGT-AAAAAATTATAAAGGTGGAACAAGCATTATCAAAATATTGATGTAAATA-A
* * * *
9643135 TAAGATTTAACGTAACAAGTCAATTATATTAAATAAACA-CATTTTTTTAAAAA-TAAATATTTA
64 TGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTTTAAAAATTAAATATTTA
* * * *** * *
9643198 ATTTTATATTTTCAAGTTTAAAGTATTTAATGGTTTGTAAATTTTAATTTATAAATGAATAATAG
129 AATTTATATTCTCGAGTTTAAAGTATTTAACAATTTATAAATTTTAATTTATAAATGAATAATAA
* * ** * * * *
9643263 TAAAAACAAAAAAAATTATTTTGAAAACTAGTAGTTGAAAAACTTTTACGTTAAGCTG
194 TAAGAATAAAAAAAATTATAGTGAAAAATAGCAATTGAAAAACTTTTACG-TAAACTG
* * * *
9643321 TAAGAATTAACGTGAAAAATTATAAAGATGGAACAAGTATTATCAAAATATTGATGTAAATTAAA
1 TAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAATATTGATGTAAA-TAAT
* * *
9643386 GAGATTTAACGCAACAAGTTAATTATGTCAAATAAATATAATTTTTTTGAAAAATTAAATATTTA
65 GAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTTT-AAAAATTAAATATTTA
* * *
9643451 ATTTTATATTCTCGAGTTTAAAGTATTTAACAATTTATAGATTTTAATTTATAAAGGAATAATAA
129 AATTTATATTCTCGAGTTTAAAGTATTTAACAATTTATAAATTTTAATTTATAAATGAATAATAA
* * *
9643516 TAAGGATAAAAATAATTATAGTAAAAAATAGCAATTGAAAAAC---T-C-T--A---
194 TAAGAATAAAAAAAATTATAGTGAAAAATAGCAATTGAAAAACTTTTACGTAAACTG
* * * * * * *
9643563 TAAGAATTAACGTAAAAAATTATAATGGTAGAACAAACATTGTCAAAATATTGACGTAAACATGT
1 TAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAATATTGATGTAAATA-AT
* * * * * * *
9643628 GATATTTAATGTAACAAGTCAATTAAGTCAAAATAAATATAATTTTTATGAAAATTAAACATTTA
65 GAGATTTAACGTAACAAGTCAATTATGTC-AAATAAACATAATTTTTTTAAAAATTAAATATTTA
* * * * * * * *
9643693 AATTTATATTCTTGAATTTAAAGTATTTAATAGTTTACAAATTTTGATTTATAAATGAATGATAG
129 AATTTATATTCTCGAGTTTAAAGTATTTAACAATTTATAAATTTTAATTTATAAATGAATAATAA
* * * * * * *
9643758 TAAGAATAAAAAAAATTATAGTGAAAATTAGTAATTAAAAAACCTTGACATAAAACTA
194 TAAGAATAAAAAAAATTATAGTGAAAAATAGCAATTGAAAAACTTTTACGT-AAACTG
* * ** * * *
9643816 TAGGAATTAGCCAAAAAAAATTATAAAGGTGGAACAAGTATTATCAAAATATTAATGTAAAT-GT
1 TAAGAATTA-ACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAATATTGATGTAAATAAT
* * * * * * *
9643880 GTTACATGTAACATAATAAGTCAATTATATTAAATAAACATAATTTTTTTTAGAAAATTAAACAT
65 G--AGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAA-TTTTTTTA-AAAATTAAATAT
* * **
9643945 TTAAATTTATATTCTCGAGTTTAAAATATTTAAC-ATTTTTCAAACTTTT-ATTT-TAAAAAAAT
126 TTAAATTTATATTCTCGAGTTTAAAGTATTTAACAATTTAT-AAA-TTTTAATTTATAAATGAAT
* * * * * *
9644007 AATAATAAGGATAAAAAAATTTGA-AGTGGAAAATACCAATTGAAAAACTTTAATGTAAACTTG
189 AATAATAAGAATAAAAAAAATT-ATAGTGAAAAATAGCAATTGAAAAACTTTTACGTAAAC-TG
** * *
9644070 TAAGAATTAATATAAAAAATTATAAAGGTGGAAGAAGCATTGTC-AAATATT-ATTGTAAACGT-
1 TAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAATATTGA-TGTAAA--TA
* * *
9644132 ATGAGATTTTACGTAACAAGTCAATTAAGTTAAAATAAACATAATTTTTTTAAAAATTAAATATT
63 ATGAGATTTAACGTAACAAGTCAATTATG-TCAAATAAACATAATTTTTTTAAAAATTAAATATT
9644197 TAAATTTATATTCTC
127 TAAATTTATATTCTC
9644212 AAATTAAATT
Statistics
Matches: 726, Mismatches: 135, Indels: 60
0.79 0.15 0.07
Matches are distributed among these distances:
241 1 0.00
242 181 0.25
243 18 0.02
246 1 0.00
247 2 0.00
249 1 0.00
250 76 0.10
251 50 0.07
252 48 0.07
253 164 0.23
254 130 0.18
255 50 0.07
256 4 0.01
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (250 bp):
TAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAATATTGATGTAAATAATG
AGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTTTAAAAATTAAATATTTAAA
TTTATATTCTCGAGTTTAAAGTATTTAACAATTTATAAATTTTAATTTATAAATGAATAATAATA
AGAATAAAAAAAATTATAGTGAAAAATAGCAATTGAAAAACTTTTACGTAAACTG
Found at i:9644010 original size:496 final size:495
Alignment explanation
Indices: 9643066--9644210 Score: 1326
Period size: 496 Copynumber: 2.3 Consensus size: 495
9643056 TCGAGATAAG
* *
9643066 ACTATAAGAATTAACGTAAAAAAATTATAAAAGTGGAACAAACATTATCAAAATATTGACGTAAA
1 ACTATAAGAATTAACGT-AAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAA
* * * * *
9643131 CACATAAGATTTAACGTAACAAGTCAATTATA-TTAAATAAACACATTTTTTTAAAAA-TAAATA
65 CATATGAGATTTAACGTAACAAGTCAATTA-AGTAAAATAAACATAATTTTTTAAAAATTAAATA
* * **
9643194 TTTAATTTTATATT-TTCAAGTTTAAAGTATTTAATGGTTTGTAAATTTTAATTTATAAATGAAT
129 TTTAAATTTATATTCTTCAAGTTTAAAGTATTTAATAGTTTACAAATTTTAATTTATAAATGAAT
** * * * * * * * *
9643258 AATAGTAAAAACAAAAAAAATTATTTTGAAAACTAGTAGTTGAAAAACTTTTACGTTAAGCTGTA
194 AATAGTAAAAACAAAAAAAATTATAGTGAAAACTAGTAATTAAAAAACCTTGACATAAAACTATA
*** *
9643323 AGAATTAACGTGAAAAATTATAAAGATGGAACAAGTATTATCAAAATATTGATGTAAATTAAAGA
259 AGAATTAACAAAAAAAATTATAAAGATGGAACAAGTATTATCAAAATATTAATGTAAATTAAAGA
* * * * * * * *
9643388 GATTTAACGCAACAAGTTAATTATGTCAAATAAATATAATTTTTTTGAAAAATTAAATATTTAAT
324 CATGTAACACAACAAGTCAATTATATCAAATAAACATAATTTTTTTGAAAAATTAAACATTTAAA
* * **
9643453 TTTATATTCTCGAGTTTAAAGTATTTAACAATTTATAGATTTTAATTTATAAAGGAATAATAATA
389 TTTATATTCTCGAGTTTAAAATATTTAACAATTTATAAATTTTAATTTATAAAAAAATAATAATA
*
9643518 AGGATAAAAATAA-TTATAGTAAAAAATAGCAATTGAAAAAC-T
454 AGGATAAAAA-AATTTA-AGTAAAAAATACCAATTGAAAAACTT
* *
9643560 -CTATAAGAATTAACGTAAAAAATTATAATGGTAGAACAAACATTGTCAAAATATTGACGTAAAC
1 ACTATAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAAC
* * * * * *
9643624 ATGTGATATTTAATGTAACAAGTCAATTAAGTCAAAATAAATATAATTTTTATGAAAATTAAACA
66 ATATGAGATTTAACGTAACAAGTCAATTAAGT-AAAATAAACATAATTTTT-TAAAAATTAAATA
* *
9643689 TTTAAATTTATATTCTTGAA-TTTAAAGTATTTAATAGTTTACAAATTTTGATTTATAAATGAAT
129 TTTAAATTTATATTCTTCAAGTTTAAAGTATTTAATAGTTTACAAATTTTAATTTATAAATGAAT
* * * *
9643753 GATAGTAAGAATAAAAAAAATTATAGTGAAAATTAGTAATTAAAAAACCTTGACATAAAACTATA
194 AATAGTAAAAACAAAAAAAATTATAGTGAAAACTAGTAATTAAAAAACCTTGACATAAAACTATA
* * * **
9643818 GGAATTAGCCAAAAAAAATTATAAAGGTGGAACAAGTATTATCAAAATATTAATGTAAATGT-GT
259 AGAATTA-ACAAAAAAAATTATAAAGATGGAACAAGTATTATCAAAATATTAATGTAAAT-TAAA
* * * * *
9643882 TACATGTAACATAATAAGTCAATTATATTAAATAAACATAATTTTTTTTAGAAAATTAAACATTT
322 GACATGTAACACAACAAGTCAATTATATCAAATAAACATAATTTTTTTGA-AAAATTAAACATTT
*
9643947 AAATTTATATTCTCGAGTTTAAAATATTTAAC-ATTTTTCAAACTTTT-ATTT-TAAAAAAATAA
386 AAATTTATATTCTCGAGTTTAAAATATTTAACAATTTAT-AAA-TTTTAATTTATAAAAAAATAA
**
9644009 TAATAAGGATAAAAAAATTTGAAGTGGAAAATACCAATTGAAAAACTTTAATGT
449 TAATAAGGATAAAAAAATTT-AAGTAAAAAATACCAATTGAAAAAC-----T-T
* ** * * *
9644063 AAACTTGTAAGAATTAATATAAAAAATTATAAAGGTGGAAGAAGCATTGTC-AAATATT-ATTGT
1 --AC-TATAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGA-CGT
* *
9644126 AAACGTATGAGATTTTACGTAACAAGTCAATTAAGTTAAAATAAACATAATTTTTTTAAAAATTA
62 AAACATATGAGATTTAACGTAACAAGTCAATTAAG-TAAAATAAACATAA-TTTTTTAAAAATTA
9644191 AATATTTAAATTTATATTCT
125 AATATTTAAATTTATATTCT
9644211 CAAATTAAAT
Statistics
Matches: 544, Mismatches: 81, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
491 1 0.00
492 69 0.13
493 30 0.06
494 5 0.01
495 117 0.22
496 141 0.26
497 51 0.09
498 4 0.01
503 1 0.00
505 1 0.00
506 79 0.15
507 45 0.08
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (495 bp):
ACTATAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAAC
ATATGAGATTTAACGTAACAAGTCAATTAAGTAAAATAAACATAATTTTTTAAAAATTAAATATT
TAAATTTATATTCTTCAAGTTTAAAGTATTTAATAGTTTACAAATTTTAATTTATAAATGAATAA
TAGTAAAAACAAAAAAAATTATAGTGAAAACTAGTAATTAAAAAACCTTGACATAAAACTATAAG
AATTAACAAAAAAAATTATAAAGATGGAACAAGTATTATCAAAATATTAATGTAAATTAAAGACA
TGTAACACAACAAGTCAATTATATCAAATAAACATAATTTTTTTGAAAAATTAAACATTTAAATT
TATATTCTCGAGTTTAAAATATTTAACAATTTATAAATTTTAATTTATAAAAAAATAATAATAAG
GATAAAAAAATTTAAGTAAAAAATACCAATTGAAAAACTT
Found at i:9644025 original size:254 final size:253
Alignment explanation
Indices: 9643554--9644216 Score: 680
Period size: 254 Copynumber: 2.6 Consensus size: 253
9643544 TAGCAATTGA
** * * * * * *
9643554 AAAACTCTATAAGAATTAACGTAAAAAATTATAATGGTAGAACAAACATTGTCAAAATATTGACG
1 AAAACT-TATAAGAATTAACAAAAAAAATTATAAAGGTGGAACAAGCATTATC-AAATATTAATG
* * * * ** * * *
9643619 TAAACATGTGATATTTAATGTAACAAGTCAATTAAGTCAAAATAAATATAATTTTTAT-GAAAAT
64 TAAACGTATGACATGTAACATAACAAGTCAATTAAGTTAAAATAAACATAATTTTTTTAGAAAAT
* * *
9643683 TAAACATTTAAATTTATATTCTTGAATTTAAAGTATTTAATAGTTTACAAATTTTGATTTATAAA
129 TAAACATTTAAATTTATATTCTCGAATTTAAAATATTTAACAGTTTACAAATTTTGATTTATAAA
** * * **
9643748 TGAATGATAGTAAGAATAAAAAAAATT-ATAGT-GAAAATTAGTAATTAAAAAACCTTGACAT-
194 AAAATAATAATAAGAATAAAAAAAATTGA-AGTGGAAAA-TACCAATTAAAAAA-CTTGA-ATG
* * *
9643809 AAAAC-TATAGGAATTAGCCAAAAAAAATTATAAAGGTGGAACAAGTATTATCAAAATATTAATG
1 AAAACTTATAAGAATTA-ACAAAAAAAATTATAAAGGTGGAACAAGCATTATC-AAATATTAATG
* * * *
9643873 TAAATGTGTTACATGTAACATAATAAGTCAATTATA-TT-AAATAAACATAATTTTTTTTAGAAA
64 TAAACGTATGACATGTAACATAACAAGTCAATTA-AGTTAAAATAAACATAA-TTTTTTTAGAAA
* * *
9643936 ATTAAACATTTAAATTTATATTCTCGAGTTTAAAATATTTAACATTTTTCAAACTTTT-ATTT-T
127 ATTAAACATTTAAATTTATATTCTCGAATTTAAAATATTTAACAGTTTACAAA-TTTTGATTTAT
* * * *
9643999 AAAAAAATAATAATAAGGATAAAAAAATTTGAAGTGGAAAATACCAATTGAAAAACTTTAATG
191 AAAAAAATAATAATAAGAATAAAAAAAATTGAAGTGGAAAATACCAATTAAAAAACTTGAATG
* * * * * * *
9644062 TAAACTTGTAAGAATTAATATAAAAAATTATAAAGGTGGAAGAAGCATTGTCAAATATTATTGTA
1 AAAACTTATAAGAATTAACAAAAAAAATTATAAAGGTGGAACAAGCATTATCAAATATTAATGTA
* * * *
9644127 AACGTATGAGATTTTACGTAACAAGTCAATTAAGTTAAAATAAACATAATTTTTTTA-AAAATTA
66 AACGTATGACATGTAACATAACAAGTCAATTAAGTTAAAATAAACATAATTTTTTTAGAAAATTA
* *
9644191 AATATTTAAATTTATATTCTCAAATT
131 AACATTTAAATTTATATTCTCGAATT
9644217 AAATTTTTTT
Statistics
Matches: 338, Mismatches: 59, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
251 31 0.09
252 48 0.14
253 70 0.21
254 118 0.35
255 67 0.20
256 4 0.01
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (253 bp):
AAAACTTATAAGAATTAACAAAAAAAATTATAAAGGTGGAACAAGCATTATCAAATATTAATGTA
AACGTATGACATGTAACATAACAAGTCAATTAAGTTAAAATAAACATAATTTTTTTAGAAAATTA
AACATTTAAATTTATATTCTCGAATTTAAAATATTTAACAGTTTACAAATTTTGATTTATAAAAA
AATAATAATAAGAATAAAAAAAATTGAAGTGGAAAATACCAATTAAAAAACTTGAATG
Found at i:9650325 original size:43 final size:43
Alignment explanation
Indices: 9650278--9650404 Score: 200
Period size: 43 Copynumber: 3.0 Consensus size: 43
9650268 CATTCTGCTC
* *
9650278 GAGAAGAACCAACACCTTGTAGAGAAAGAATCGATTCTTAAGT
1 GAGAAGAACCAACACCTTGTAGAGAAAGAATTGATTCTCAAGT
* * *
9650321 GAGAAGACCCAACACCTCGTAGAGAAAAAATTGATTCTCAAGT
1 GAGAAGAACCAACACCTTGTAGAGAAAGAATTGATTCTCAAGT
*
9650364 AAGAAGAACCAACACCTTGTAGAGAAAGAATTGATTCTCAA
1 GAGAAGAACCAACACCTTGTAGAGAAAGAATTGATTCTCAA
9650405 TTACAGGGAC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (43 bp):
GAGAAGAACCAACACCTTGTAGAGAAAGAATTGATTCTCAAGT
Found at i:9652035 original size:51 final size:50
Alignment explanation
Indices: 9651972--9652078 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 50
9651962 GCAAATGATG
* *
9651972 TATGTAATGTTTATGTATGTTTAAT-GAGTAAGACCCAATTGTTTTAAGGTT
1 TATGTAAAGTTTATGCATGTTTAATGGA-TAAGACCCAATTG-TTTAAGGTT
*
9652023 TATGTAAAGTTTATGCATGTTTGATGGATAAGACCCAATTGTTTAAGGTT
1 TATGTAAAGTTTATGCATGTTTAATGGATAAGACCCAATTGTTTAAGGTT
9652073 TATGTA
1 TATGTA
9652079 TTCAAGTAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
50 15 0.29
51 35 0.67
52 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (50 bp):
TATGTAAAGTTTATGCATGTTTAATGGATAAGACCCAATTGTTTAAGGTT
Found at i:9668793 original size:28 final size:30
Alignment explanation
Indices: 9668752--9668811 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
9668742 GTCTATGGGC
* *
9668752 AATTTTTCAGTTTT-TTA-GGCAAAAATGT
1 AATTTTTCACTTTTATGAGGGCAAAAATGT
*
9668780 AATTTTTCACTTTTATGAGGGCAAAAGTGT
1 AATTTTTCACTTTTATGAGGGCAAAAATGT
9668810 AA
1 AA
9668812 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
29 2 0.07
30 12 0.44
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTTTCACTTTTATGAGGGCAAAAATGT
Found at i:9677094 original size:10 final size:12
Alignment explanation
Indices: 9677071--9677106 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
9677061 AAAATCAAAG
9677071 TTTTTTCTTCTC
1 TTTTTTCTTCTC
9677083 TTTTTTCTTCT-
1 TTTTTTCTTCTC
9677094 TTTTTTACTTCTC
1 TTTTTT-CTTCTC
9677107 CATTCTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTCTTCTC
Found at i:9678487 original size:36 final size:37
Alignment explanation
Indices: 9678370--9678507 Score: 172
Period size: 39 Copynumber: 3.6 Consensus size: 37
9678360 ATGCAGGTAG
*
9678370 TGTGTGGTGTGGGAGAGCACACGTTGATGATA-TATGCCA
1 TGTGCGGTGTGGGAGAGCACA---TGATGATATTATGCCA
9678409 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGAT-AT-TATGCCA
*
9678448 TGTGCGGTGTGGGAGAGCACATGATGATATTA-GCTA
1 TGTGCGGTGTGGGAGAGCACATGATGATATTATGCCA
* * *
9678484 TGTGTGGTGTGGGAGTGTACATGA
1 TGTGCGGTGTGGGAGAGCACATGA
9678508 GCTGAGTTGA
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
36 31 0.34
37 3 0.03
38 2 0.02
39 55 0.60
ACGTcount: A:0.23, C:0.11, G:0.38, T:0.28
Consensus pattern (37 bp):
TGTGCGGTGTGGGAGAGCACATGATGATATTATGCCA
Found at i:9682106 original size:73 final size:73
Alignment explanation
Indices: 9681968--9682115 Score: 156
Period size: 73 Copynumber: 2.0 Consensus size: 73
9681958 TTAGTCAACC
* * * ** * *
9681968 AAAAAGTAAGTTAGTTGACTAAGAGCTTACTGCTAGAAATCTAGACTTCAAGATAGAAACAACTT
1 AAAAAGTAAGTTAGTCGACTAAGAGCTTACTGCCAGAAAACTAGACTAAAAAACAGAAACAACTT
*
9682033 AATTGACT
66 AATCGACT
* * *
9682041 AAAAAGTAAGTTAGTCGACTAAGAGCTTACTGCCA-AAAACTGGGA-TAAAAAAACAGAGACGAC
1 AAAAAGTAAGTTAGTCGACTAAGAGCTTACTGCCAGAAAACT-AGACT-AAAAAACAGAAACAAC
*
9682104 TTAGTCGACT
64 TTAATCGACT
9682114 AA
1 AA
9682116 GATCATTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
72 6 0.10
73 55 0.90
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (73 bp):
AAAAAGTAAGTTAGTCGACTAAGAGCTTACTGCCAGAAAACTAGACTAAAAAACAGAAACAACTT
AATCGACT
Found at i:9689188 original size:21 final size:21
Alignment explanation
Indices: 9689164--9689203 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9689154 TACCTTTTGT
9689164 CACTTTAT-TCTTGAATTTTCA
1 CACTTT-TCTCTTGAATTTTCA
*
9689185 CACTTTTCTTTTGAATTTT
1 CACTTTTCTCTTGAATTTT
9689204 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.57
Consensus pattern (21 bp):
CACTTTTCTCTTGAATTTTCA
Found at i:9692271 original size:19 final size:19
Alignment explanation
Indices: 9692247--9692284 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9692237 CCATTTGACT
9692247 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
9692266 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
9692285 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:9703714 original size:58 final size:57
Alignment explanation
Indices: 9703625--9703743 Score: 184
Period size: 58 Copynumber: 2.1 Consensus size: 57
9703615 GGGTCTCATA
* * *
9703625 TTTGCATGCGTAGCATTTATTAAATTGTATAAAATAAATCTATCACATGCATACTAC
1 TTTGCATGCATAGCATTTATTAAATTATATAAAATAAATCTATCACATGCAAACTAC
* *
9703682 TTTGCATTGCATAGTATTTATTAAATTATATAAAATAAATCTATCACGTGCAAACTAC
1 TTTGCA-TGCATAGCATTTATTAAATTATATAAAATAAATCTATCACATGCAAACTAC
9703740 TTTG
1 TTTG
9703744 GATGATTATG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 6 0.11
58 50 0.89
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (57 bp):
TTTGCATGCATAGCATTTATTAAATTATATAAAATAAATCTATCACATGCAAACTAC
Found at i:9705333 original size:177 final size:178
Alignment explanation
Indices: 9704997--9705402 Score: 439
Period size: 178 Copynumber: 2.3 Consensus size: 178
9704987 TGGTGTATCT
*
9704997 TTAGGAATTTAATTCCAATAAAATTTATCCTGATAGAAAACTCATGGACCTATTCCAGAATAAAT
1 TTAGGAATTTAATTCCAATAAAATTTATCCTGATAGAAAACTCATGGA-C-ACTCCAGAATAAAT
* * * * * *
9705062 TTTTAGGATTTTAGGAGGTGATTTGGCCATTCAAAAAATTCAAAAACCGTGACTTTTATCTGCAG
64 TTTAAAGATTTTAGGAGATGATTTGGCCATTAAAAAAATTCAAAAACCGTGACCTTTATCAGCAG
* * *
9705127 GAGGCAGAATTAGTTTTTGAGTCCTTTTGAA-ATTTTTTGTGAC-TAAAA
129 GAGGCAGAATTAGGTTTTGAGTCCTTTTGAAGATATTTGGTGACATAAAA
* *
9705175 CTTAGGAATTTAAATCCTAATAAAATTTATCCTGATAGATAACTCATGGA-ACTCCAGAATAAAT
1 -TTAGGAATTTAATTCC-AATAAAATTTATCCTGATAGAAAACTCATGGACACTCCAGAATAAAT
* ** *
9705239 TTTAAAGATTTTAGGAGATGTTTTTGGCTGTTAAAAAAAATTC-AAAACCGTGACCTTTATCAGT
64 TTTAAAGATTTTAGGAGATG-ATTTGGCCATT-AAAAAAATTCAAAAACCGTGACCTTTATCAGC
* * ** * * *
9705303 A-GAGGCAG-TTTCGGTTTTGTCTTTCTTTTGAAGCTATTTGGTGGCATAAAA
127 AGGAGGCAGAATTAGGTTTTG-AGTCCTTTTGAAGATATTTGGTGACATAAAA
* * * *
9705354 TCAGGAATTTAATTCCCAATTAAATTT-TCCTTGATAGAAAGCTTATGGA
1 TTAGGAATTTAATT-CCAATAAAATTTATCC-TGATAGAAAACTCATGGA
9705403 AAAATTCCAT
Statistics
Matches: 190, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
176 8 0.04
177 49 0.26
178 71 0.37
179 31 0.16
180 31 0.16
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (178 bp):
TTAGGAATTTAATTCCAATAAAATTTATCCTGATAGAAAACTCATGGACACTCCAGAATAAATTT
TAAAGATTTTAGGAGATGATTTGGCCATTAAAAAAATTCAAAAACCGTGACCTTTATCAGCAGGA
GGCAGAATTAGGTTTTGAGTCCTTTTGAAGATATTTGGTGACATAAAA
Found at i:9712617 original size:35 final size:35
Alignment explanation
Indices: 9712571--9712689 Score: 177
Period size: 35 Copynumber: 3.4 Consensus size: 35
9712561 CTTCATCAGC
* * *
9712571 TCATGTACACTCCCTGCATGCACATTTCAATATCA
1 TCATGTGCACTCCCTACCTGCACATTTCAATATCA
9712606 TCATGTGCACTCCCTACCCT-CACATTTCAATATCA
1 TCATGTGCACTCCCTA-CCTGCACATTTCAATATCA
* *
9712641 TCATTTGCACTCCTTACCTGCACATTTCAATATCA
1 TCATGTGCACTCCCTACCTGCACATTTCAATATCA
9712676 TCATGTGCACTCCC
1 TCATGTGCACTCCC
9712690 CATTCGCACA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 3 0.04
35 70 0.93
36 2 0.03
ACGTcount: A:0.25, C:0.34, G:0.08, T:0.33
Consensus pattern (35 bp):
TCATGTGCACTCCCTACCTGCACATTTCAATATCA
Found at i:9712699 original size:35 final size:34
Alignment explanation
Indices: 9712571--9712712 Score: 158
Period size: 35 Copynumber: 4.1 Consensus size: 34
9712561 CTTCATCAGC
* * *
9712571 TCATGTACACTCCCTGCATGCACATTTCAATATCA
1 TCATGTGCACTCCCTAC-CGCACATTTCAATATCA
*
9712606 TCATGTGCACTCCCTACCCTCACATTTCAATATCA
1 TCATGTGCACTCCCTA-CCGCACATTTCAATATCA
* *
9712641 TCATTTGCACTCCTTACCTGCACATTTCAATATCA
1 TCATGTGCACTCCCTACC-GCACATTTCAATATCA
* * * *
9712676 TCATGTGCACTCCCCATTCGCACATTTTAGTATCA
1 TCATGTGCACTCCCTA-CCGCACATTTCAATATCA
9712711 TC
1 TC
9712713 GTACGCATTT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.02
35 87 0.96
36 2 0.02
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.34
Consensus pattern (34 bp):
TCATGTGCACTCCCTACCGCACATTTCAATATCA
Found at i:9723262 original size:71 final size:69
Alignment explanation
Indices: 9723177--9723317 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 69
9723167 ATAGGCTGAT
9723177 TTTTAAAGGAAATAATAAAATATTCTAAGCTTGACAAGTGTCATTTTATTATTGGTCCATTTTTA
1 TTTTAAAGGAAATAATAAAATATTCTAAGCTTGACAAGTGTCATTTTATTATTGGTCCATTTTTA
9723242 AAAC
66 AAAC
9723246 TNNTTTAAAGGAAATAATAAAATATTCTAAGCTTGACAAGTGTCATTTTATTATTGGTCCATTTT
1 T--TTTAAAGGAAATAATAAAATATTCTAAGCTTGACAAGTGTCATTTTATTATTGGTCCATTTT
9723311 TAAAAC
64 TAAAAC
9723317 T
1 T
9723318 GTAAAAATTT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 1 0.01
71 69 0.99
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.40
Consensus pattern (69 bp):
TTTTAAAGGAAATAATAAAATATTCTAAGCTTGACAAGTGTCATTTTATTATTGGTCCATTTTTA
AAAC
Found at i:9730575 original size:35 final size:35
Alignment explanation
Indices: 9730536--9730644 Score: 166
Period size: 35 Copynumber: 3.1 Consensus size: 35
9730526 CTTCACCAGC
* * *
9730536 TCATGTACACTCTCTACACGTACATTTCAATATCA
1 TCATGTGCACTCTCTACTCGCACATTTCAATATCA
9730571 TCATGTGCACT-TCCTACTCGCACATTTCAATATCA
1 TCATGTGCACTCT-CTACTCGCACATTTCAATATCA
*
9730606 TCATGTGCACTCCCTACTCGCACATTTCAATATCA
1 TCATGTGCACTCTCTACTCGCACATTTCAATATCA
9730641 TCAT
1 TCAT
9730645 ACGCATTCCC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.99
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (35 bp):
TCATGTGCACTCTCTACTCGCACATTTCAATATCA
Found at i:9730667 original size:70 final size:70
Alignment explanation
Indices: 9730536--9730668 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 70
9730526 CTTCACCAGC
* * ** * * *
9730536 TCATGTACACTCTCTACACGTACATTTCAATATCATCATGTGCACTTCCTACTCGCACATTTCAA
1 TCATGTACACTCCCTACACGCACATTTCAATATCATCATACGCACTTCCCACCCACACATTTCAA
9730601 TATCA
66 TATCA
* * *
9730606 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCATACGCA-TTCCCGCCCACATCATTTC
1 TCATGTACACTCCCTACACGCACATTTCAATATCATCATACGCACTTCCCACCCACA-CATTTC
9730669 CGACATGTGC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
69 8 0.15
70 44 0.85
ACGTcount: A:0.26, C:0.34, G:0.08, T:0.32
Consensus pattern (70 bp):
TCATGTACACTCCCTACACGCACATTTCAATATCATCATACGCACTTCCCACCCACACATTTCAA
TATCA
Found at i:9730668 original size:35 final size:34
Alignment explanation
Indices: 9730557--9730654 Score: 142
Period size: 35 Copynumber: 2.8 Consensus size: 34
9730547 CTCTACACGT
*
9730557 ACATTTCAATATCATCATGTGCACTTCCTACTCGC
1 ACATTTCAATATCATCATGTGCA-TTCCCACTCGC
*
9730592 ACATTTCAATATCATCATGTGCACTCCCTACTCGC
1 ACATTTCAATATCATCATGTGCATTCCC-ACTCGC
**
9730627 ACATTTCAATATCATCATACGCATTCCC
1 ACATTTCAATATCATCATGTGCATTCCC
9730655 GCCCACATCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 3 0.05
35 54 0.95
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (34 bp):
ACATTTCAATATCATCATGTGCATTCCCACTCGC
Found at i:9733988 original size:38 final size:38
Alignment explanation
Indices: 9733903--9733994 Score: 130
Period size: 38 Copynumber: 2.4 Consensus size: 38
9733893 ACACACAAGG
* *
9733903 CAATATCATCATCATGTGCTCTCCCTACTCGCACATTT
1 CAATATCATCAACAAGTGCTCTCCCTACTCGCACATTT
*
9733941 CCATATCATCAACAAGTGCTCTCCCTACTCGCACATTT
1 CAATATCATCAACAAGTGCTCTCCCTACTCGCACATTT
* *
9733979 TAATCTCATCACACAA
1 CAATATCATCA-ACAA
9733995 TGACACCATC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 43 0.91
39 4 0.09
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (38 bp):
CAATATCATCAACAAGTGCTCTCCCTACTCGCACATTT
Found at i:9737091 original size:20 final size:20
Alignment explanation
Indices: 9737068--9737110 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9737058 ACTTTAAGAC
9737068 AGAAACAACTTAATCGACTA
1 AGAAACAACTTAATCGACTA
** * *
9737088 AGAAGTAAGTTAGTCGACTA
1 AGAAACAACTTAATCGACTA
9737108 AGA
1 AGA
9737111 GCTTACTACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (20 bp):
AGAAACAACTTAATCGACTA
Found at i:9740100 original size:15 final size:12
Alignment explanation
Indices: 9740066--9740091 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9740056 AAAAATCAAG
9740066 TTTTTTCTTCTT
1 TTTTTTCTTCTT
9740078 TTTTTTCTTCTT
1 TTTTTTCTTCTT
9740090 TT
1 TT
9740092 CTTACTTCTC
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTCTT
Found at i:9740213 original size:21 final size:21
Alignment explanation
Indices: 9740187--9740226 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9740177 AGATAGGAAG
9740187 AAAGAAGAAAGGAA-AGAAAGA
1 AAAGAA-AAAGGAAGAGAAAGA
9740208 AAAGAAAAAGGAAGAGAAA
1 AAAGAAAAAGGAAGAGAAA
9740227 AGCTCGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAGGAAGAGAAAGA
Found at i:9742685 original size:35 final size:35
Alignment explanation
Indices: 9742646--9742725 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 35
9742636 CTATCAGACA
*
9742646 TCTCCAAATATAAGGGCATATCATCATCCCTACA-G
1 TCTCCAAATATAAGGGCATATCATCATCCCCA-ATG
**
9742681 TCTCC-AATATGGGGGCATATCATCATCCCCAATG
1 TCTCCAAATATAAGGGCATATCATCATCCCCAATG
9742715 TCTCCAAATAT
1 TCTCCAAATAT
9742726 CATCAAACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.03
34 29 0.73
35 10 0.25
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (35 bp):
TCTCCAAATATAAGGGCATATCATCATCCCCAATG
Found at i:9743593 original size:2 final size:2
Alignment explanation
Indices: 9743586--9743612 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9743576 CTTTCGCACA
9743586 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9743613 CATACTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9746404 original size:64 final size:64
Alignment explanation
Indices: 9746254--9746404 Score: 153
Period size: 64 Copynumber: 2.4 Consensus size: 64
9746244 TACACGGTGA
* * * * ** * *
9746254 GAGGTAACACTCCACACATGGTGAATGCATCTAGTATAGTGGTTGATGGCATTTCACACATTGT
1 GAGGTAACATTCCACACTTGGTGAATGCATCTAGTAGAGTGGATGATGGCATGCCACAAAGTGT
* * **
9746318 AAGGCAACATTCCACA-TGTGGTGAATGTGTCTAGTAG-GATGGATGATGGCATGCCACAAAGTG
1 GAGGTAACATTCCACACT-TGGTGAATGCATCTAGTAGAG-TGGATGATGGCATGCCACAAAGTG
9746381 T
64 T
*
9746382 GAGGTAATATTCCACACTTGGTG
1 GAGGTAACATTCCACACTTGGTG
9746405 CCCACACTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
63 1 0.01
64 67 0.97
65 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (64 bp):
GAGGTAACATTCCACACTTGGTGAATGCATCTAGTAGAGTGGATGATGGCATGCCACAAAGTGT
Found at i:9752716 original size:80 final size:80
Alignment explanation
Indices: 9752623--9752784 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
9752613 TTAGATTTAG
*
9752623 TTAATTTATAATTTATTTAGTTACTTGATTTTGTTTGTTTAGATAAGACTGAATTGTGTTAATTT
1 TTAATTTATAATTTATTTAGTTACTTGATTTTGTTTGTTTAGATAAAACTGAATTGTGTTAATTT
9752688 TAGTACTTAGTGAAA
66 TAGTACTTAGTGAAA
9752703 TTAATTTATAATTTATTTAGTTACTTGATTTTGTTTGTTTAGATAAAACTGAATTGTGTTAATTT
1 TTAATTTATAATTTATTTAGTTACTTGATTTTGTTTGTTTAGATAAAACTGAATTGTGTTAATTT
*
9752768 TAGTGCTTAGTGAAA
66 TAGTACTTAGTGAAA
9752783 TT
1 TT
9752785 TTAGATCAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.52
Consensus pattern (80 bp):
TTAATTTATAATTTATTTAGTTACTTGATTTTGTTTGTTTAGATAAAACTGAATTGTGTTAATTT
TAGTACTTAGTGAAA
Found at i:9754371 original size:1 final size:1
Alignment explanation
Indices: 9754304--9754351 Score: 78
Period size: 1 Copynumber: 48.0 Consensus size: 1
9754294 AAATCATAAT
**
9754304 AAAAAAAAGGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9754352 TTTTTTGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:9762496 original size:19 final size:20
Alignment explanation
Indices: 9762469--9762513 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
9762459 AGGAGACAAG
*
9762469 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
9762488 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
9762507 ATAATAT
1 ATAATAT
9762514 AAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:9763311 original size:33 final size:34
Alignment explanation
Indices: 9763274--9763337 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
9763264 CATTTAAGGG
9763274 CTGG-TTTGGAGGCT-GAAAAGAGCCATTTTTCTA
1 CTGGTTTTGGAGGCTAG-AAAGAGCCATTTTTCTA
*
9763307 CTGGTTTTGGAGGCTAGAAAGTGCCATTTTT
1 CTGGTTTTGGAGGCTAGAAAGAGCCATTTTT
9763338 TTGCTGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.82
35 1 0.04
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (34 bp):
CTGGTTTTGGAGGCTAGAAAGAGCCATTTTTCTA
Found at i:9763354 original size:34 final size:34
Alignment explanation
Indices: 9763278--9763364 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
9763268 TAAGGGCTGG
* *
9763278 TTTGGAGGCT-GAAAAGAGCCATTTTTCTACTGGT
1 TTTGGAGGCTAG-AAAGTGCCATTTTTCTACTGAT
* *
9763312 TTTGGAGGCTAGAAAGTGCCATTTTTTTGCTGAT
1 TTTGGAGGCTAGAAAGTGCCATTTTTCTACTGAT
* * *
9763346 TTTTGAGGCCAAAAAGTGC
1 TTTGGAGGCTAGAAAGTGC
9763365 AGAATTTTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 44 0.98
35 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (34 bp):
TTTGGAGGCTAGAAAGTGCCATTTTTCTACTGAT
Found at i:9770275 original size:2 final size:2
Alignment explanation
Indices: 9770268--9770320 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
9770258 TAATTAAGGG
* * * * *
9770268 GA GA GA GA GA GA AA GA GA GA AA AA GA GA GA GA AA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9770310 GA GA GA GA GA G
1 GA GA GA GA GA G
9770321 GCATTACTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9770320 original size:10 final size:10
Alignment explanation
Indices: 9770271--9770319 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
9770261 TTAAGGGGAG
9770271 AGAGAGAGAA
1 AGAGAGAGAA
*
9770281 AGAGAGAAAA
1 AGAGAGAGAA
9770291 AGAGAGAGAA
1 AGAGAGAGAA
* *
9770301 AGAAAGAGAG
1 AGAGAGAGAA
9770311 AGAGAGAGA
1 AGAGAGAGA
9770320 GGCATTACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (10 bp):
AGAGAGAGAA
Found at i:9772217 original size:44 final size:44
Alignment explanation
Indices: 9772155--9772243 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
9772145 AGGGTACATG
9772155 AAACAAACTTTTCAAAACATAGGACAATATTTGAAGCATTTATC
1 AAACAAACTTTTCAAAACATAGGACAATATTTGAAGCATTTATC
9772199 AAACAAACTTTTCAAAACATAGGACAATATTTGAAGCATTTATC
1 AAACAAACTTTTCAAAACATAGGACAATATTTGAAGCATTTATC
9772243 A
1 A
9772244 TCTTTGAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (44 bp):
AAACAAACTTTTCAAAACATAGGACAATATTTGAAGCATTTATC
Found at i:9775258 original size:2 final size:2
Alignment explanation
Indices: 9775253--9775287 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9775243 ATATGCAAAT
* *
9775253 AC AC AC GC AT AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
9775288 TATATATAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.46, G:0.03, T:0.03
Consensus pattern (2 bp):
AC
Found at i:9783863 original size:35 final size:35
Alignment explanation
Indices: 9783821--9783902 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
9783811 ACAAGGTCAA
*
9783821 GCATAACCTTTACAACATGCCTTTTGTAGGATCAG
1 GCATAACCTTTACAACATGCCTTTTGCAGGATCAG
* * *
9783856 GCGTAACCTCTACAACATGCCTTTTGCAGGATCAT
1 GCATAACCTTTACAACATGCCTTTTGCAGGATCAG
9783891 GCATAACCTTTA
1 GCATAACCTTTA
9783903 TCAAGACATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (35 bp):
GCATAACCTTTACAACATGCCTTTTGCAGGATCAG
Found at i:9790815 original size:21 final size:21
Alignment explanation
Indices: 9790789--9790840 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
9790779 TCTGATGAAC
9790789 ATGTATCGATACATATTCGTA
1 ATGTATCGATACATATTCGTA
9790810 ATGTATCGATACATATTCGTA
1 ATGTATCGATACATATTCGTA
9790831 ATGTATCGAT
1 ATGTATCGAT
9790841 GCATGTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATGTATCGATACATATTCGTA
Found at i:9796171 original size:2 final size:2
Alignment explanation
Indices: 9796164--9796216 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
9796154 ATTATGTGTT
9796164 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9796206 TA TA TA TA TA T
1 TA TA TA TA TA T
9796217 NNNNNNNNNN
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9799691 original size:2 final size:2
Alignment explanation
Indices: 9799684--9799724 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9799674 NNNNNNNNNN
9799684 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9799725 AGAATGTCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9803454 original size:35 final size:34
Alignment explanation
Indices: 9803415--9803511 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 34
9803405 GTGGGACATT
9803415 ATACCACACTTGATAAGGGCTAGATGTGGAGAGTC
1 ATACCACAC-TGATAAGGGCTAGATGTGGAGAGTC
* * **
9803450 ATACCACA-AGAATACTAGGGCTAGATGTGGGGTTTC
1 ATACCACACTG-ATA--AGGGCTAGATGTGGAGAGTC
*
9803486 ATACCACACGTAATAAGGGCTAGATG
1 ATACCACAC-TGATAAGGGCTAGATG
9803512 CAGGGCATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
33 1 0.02
34 3 0.06
35 19 0.37
36 25 0.49
37 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (34 bp):
ATACCACACTGATAAGGGCTAGATGTGGAGAGTC
Found at i:9803477 original size:36 final size:35
Alignment explanation
Indices: 9803427--9803511 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 35
9803417 ACCACACTTG
9803427 ATAAGGGCTAGATGTGGAGAGTCATACCACAAG-A
1 ATAAGGGCTAGATGTGGAGAGTCATACCACAAGTA
* ** *
9803461 ATACTAGGGCTAGATGTGGGGTTTCATACCACACGTA
1 ATA--AGGGCTAGATGTGGAGAGTCATACCACAAGTA
9803498 ATAAGGGCTAGATG
1 ATAAGGGCTAGATG
9803512 CAGGGCATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
34 3 0.07
35 11 0.25
36 26 0.59
37 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (35 bp):
ATAAGGGCTAGATGTGGAGAGTCATACCACAAGTA
Found at i:9805151 original size:2 final size:2
Alignment explanation
Indices: 9805138--9805170 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9805128 TATTGGTGTT
*
9805138 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9805171 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9815770 original size:17 final size:19
Alignment explanation
Indices: 9815729--9815770 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
9815719 ATGTATATAT
9815729 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
9815750 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
9815767 ATGA
1 ATGA
9815771 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:9824416 original size:77 final size:78
Alignment explanation
Indices: 9824328--9824479 Score: 261
Period size: 77 Copynumber: 2.0 Consensus size: 78
9824318 ATGCCATCTA
* *
9824328 TTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTGCTTTAAAAGCAATTCCT-AAA
1 TTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAAA
*
9824392 TTAATGATAGAAT
66 TTAAGGATAGAAT
*
9824405 TTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTTCTAAAA
1 TTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAAA
9824470 TTAAGGATAG
66 TTAAGGATAG
9824480 CATACTAATT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
77 58 0.83
78 12 0.17
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.39
Consensus pattern (78 bp):
TTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAAA
TTAAGGATAGAAT
Found at i:9824489 original size:77 final size:77
Alignment explanation
Indices: 9824331--9824535 Score: 239
Period size: 77 Copynumber: 2.8 Consensus size: 77
9824321 CCATCTATTT
* *
9824331 TAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTGCTTTAAAAGCAATTCCTAAATTAA
1 TAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAATTAA
* **
9824396 TGATAGAATTTT
66 GGATAGAATTAC
*
9824408 TAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTTCTAAAATTA
1 TAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCT-AAATTA
*
9824473 AGGATAGCA-TAC
65 AGGATAGAATTAC
* ** *
9824485 TAA-TTCGGGAAATTCAT--AG---A--AAATAGTTTCCTACTTTAAAAGAAATTCCTA
1 TAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTA
9824536 GAGTTATGTG
Statistics
Matches: 115, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
68 1 0.01
69 28 0.24
71 1 0.01
74 2 0.02
76 11 0.10
77 59 0.51
78 13 0.11
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (77 bp):
TAATTTTGGGTGATTCATAAAGAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAATTAA
GGATAGAATTAC
Found at i:9825295 original size:11 final size:11
Alignment explanation
Indices: 9825279--9825303 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9825269 AGATTTAAGG
9825279 AAATTACAAGC
1 AAATTACAAGC
9825290 AAATTACAAGC
1 AAATTACAAGC
9825301 AAA
1 AAA
9825304 GCTTGAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (11 bp):
AAATTACAAGC
Found at i:9831678 original size:15 final size:16
Alignment explanation
Indices: 9831640--9831672 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9831630 AGAGAATCAA
9831640 TTCTTTCTTCTTGCAT
1 TTCTTTCTTCTTGCAT
9831656 TTCTTTCTT-TTGCAT
1 TTCTTTCTTCTTGCAT
9831671 TT
1 TT
9831673 TGTTCTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (16 bp):
TTCTTTCTTCTTGCAT
Found at i:9840574 original size:9 final size:9
Alignment explanation
Indices: 9840556--9840586 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9840546 TTGGAAATTT
*
9840556 TTTTTTTAA
1 TTTTTATAA
9840565 TTTTTATAA
1 TTTTTATAA
9840574 TTTTTATAA
1 TTTTTATAA
9840583 TTTT
1 TTTT
9840587 GAAACAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9842152 original size:98 final size:98
Alignment explanation
Indices: 9842037--9842234 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
9842027 ATAAGTGTAG
* * *
9842037 AAATAAAACATAAATTCCAGTGTGGCATTGAAATTAAAATGGAAATAGGATGGTTAAAAGAAAAT
1 AAATAAAACATAAATTCCAGTGTAGCATTGAAATTAAAATGGAAATAGGATGGTAAAAAGAAAAC
9842102 GAAACAGAAGGTCAGCTCCATGAGAGGGAGAGT
66 GAAACAGAAGGTCAGCTCCATGAGAGGGAGAGT
* * * *
9842135 AAATAAAACATATATTCCAGTGTAGCATTGCAATTAAAATGGGAATGGGATGGTAAAAAGAAAAC
1 AAATAAAACATAAATTCCAGTGTAGCATTGAAATTAAAATGGAAATAGGATGGTAAAAAGAAAAC
*
9842200 GAAACAGATGGTCAGCTCCATGAGAGGGAGAGT
66 GAAACAGAAGGTCAGCTCCATGAGAGGGAGAGT
9842233 AA
1 AA
9842235 GGAAAGAACA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.20
Consensus pattern (98 bp):
AAATAAAACATAAATTCCAGTGTAGCATTGAAATTAAAATGGAAATAGGATGGTAAAAAGAAAAC
GAAACAGAAGGTCAGCTCCATGAGAGGGAGAGT
Found at i:9844503 original size:1 final size:1
Alignment explanation
Indices: 9844497--9844522 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9844487 GTCCCACCCG
9844497 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
9844523 AAACCNTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:9848303 original size:30 final size:30
Alignment explanation
Indices: 9848268--9848335 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
9848258 TTTAAAAAAT
*
9848268 TTAAATAAATTTTTAAACATTTATTTTGAA
1 TTAAATAAATTTTTAAACATTTATTTTAAA
* **
9848298 TTAAATAAATTTTTATATTTTTATTTTAAA
1 TTAAATAAATTTTTAAACATTTATTTTAAA
9848328 TTAAATAA
1 TTAAATAA
9848336 GTCTTATAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
TTAAATAAATTTTTAAACATTTATTTTAAA
Found at i:9848871 original size:18 final size:19
Alignment explanation
Indices: 9848850--9848887 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9848840 GATGAAAAGA
9848850 TAAA-TATTCATTTGCTAT
1 TAAATTATTCATTTGCTAT
* *
9848868 TAAATTCTTCATTTGTTAT
1 TAAATTATTCATTTGCTAT
9848887 T
1 T
9848888 TTACATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (19 bp):
TAAATTATTCATTTGCTAT
Found at i:9850495 original size:13 final size:13
Alignment explanation
Indices: 9850477--9850501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9850467 TTTTAGAAAA
9850477 TTTATAAAATCAT
1 TTTATAAAATCAT
9850490 TTTATAAAATCA
1 TTTATAAAATCA
9850502 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9856190 original size:21 final size:22
Alignment explanation
Indices: 9856140--9856195 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
9856130 ATTCTGTCTC
* *
9856140 AAATATATCGATATGTGTGCAT
1 AAATGTATCGATATATGTGCAT
9856162 AAATGTATCGATATATGTGCAT
1 AAATGTATCGATATATGTGCAT
*
9856184 -GATGTATCGATA
1 AAATGTATCGATA
9856196 CATTTAGCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (22 bp):
AAATGTATCGATATATGTGCAT
Found at i:9857506 original size:68 final size:68
Alignment explanation
Indices: 9857236--9857468 Score: 259
Period size: 68 Copynumber: 3.4 Consensus size: 68
9857226 TTTGATATGT
* * *
9857236 TGAATGCCATAAGATTAAGTATATGTTGTAAATTCCATATACCATGTGAGATGATTAAGTATGCA
1 TGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCA
9857301 TGA
66 TGA
* *** * * *
9857304 TGTATATTATAAGATTGTGTATATGATGTAAATTTCATATACCATATGAGGTGATTAAGTATGCA
1 TGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCA
9857369 TGA
66 TGA
** * * * * * * * * * *
9857372 CAAATGCCATGAGATTTTGTATATGATGTATATTCCACAAACTACATGAGATGATTGAGAAAGCA
1 TGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCA
9857437 TGA
66 TGA
*
9857440 TGAATGCCATGAGATTATGTATATGATGT
1 TGAATGCCATAAGATTATGTATATGATGT
9857469 GTTTTCTATA
Statistics
Matches: 134, Mismatches: 31, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 134 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (68 bp):
TGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCA
TGA
Found at i:9865406 original size:21 final size:21
Alignment explanation
Indices: 9865354--9865417 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
9865344 GTGTGCTACC
*
9865354 GGGCAGCACACAGCCCCTGCT
1 GGGCAACACACAGCCCCTGCT
* *
9865375 GAGTAGA-ACACAGCCCCTGCT
1 GGGCA-ACACACAGCCCCTGCT
*
9865396 GGGCAACACACAGCCCTTGCT
1 GGGCAACACACAGCCCCTGCT
9865417 G
1 G
9865418 TGTGCCGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.23, C:0.38, G:0.27, T:0.12
Consensus pattern (21 bp):
GGGCAACACACAGCCCCTGCT
Found at i:9871928 original size:29 final size:28
Alignment explanation
Indices: 9871883--9872024 Score: 176
Period size: 29 Copynumber: 4.9 Consensus size: 28
9871873 GGCAACTTTG
*
9871883 ACATGTTTGTCTTAATTTAAACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
9871911 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* *
9871940 ATATGTTTGCCTTAATTTAAGACAAGAAAA
1 ACATGTTTGTCTTAATTT-AGACAAG-AAA
* * *
9871970 ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* *
9871999 ACATATTTGTCTCAATTTAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
9872025 TAAAATATTA
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
28 37 0.37
29 38 0.38
30 12 0.12
31 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:9871996 original size:59 final size:59
Alignment explanation
Indices: 9871883--9872038 Score: 201
Period size: 59 Copynumber: 2.7 Consensus size: 59
9871873 GGCAACTTTG
* * *
9871883 ACATGTTTGTCTTAATTTAA-ACAAG-AAAACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* * *
9871940 ATATGTTTGCCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* *
9871999 ACATATTTGTCTCAATTT-AGACAAGATAAAATATTATTTT
1 ACATGTTTGTCTTAATTTAAGACAAGA-AAAATATT-TTTT
9872039 TTATCTTAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 18 0.21
58 13 0.15
59 50 0.59
60 4 0.05
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (59 bp):
ACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
Found at i:9872032 original size:28 final size:28
Alignment explanation
Indices: 9871883--9872033 Score: 162
Period size: 28 Copynumber: 5.2 Consensus size: 28
9871873 GGCAACTTTG
* *
9871883 ACATGTTTGTCTTAATTTAAACAAGAAA
1 ACATATTTGTCTTAATTTAGACAAGAAA
*
9871911 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATATTT-GTCTTAATTTAGACAAGAAA
* * *
9871940 ATATGTTTGCCTTAATTTAAGACAAGAAA
1 ACATATTTGTCTTAATTT-AGACAAGAAA
*
9871969 A-ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATA---TTTGTCTTAATTTAGACAAGAAA
*
9871999 ACATATTTGTCTCAATTTAGACAAGATAA
1 ACATATTTGTCTTAATTTAGACAAGA-AA
9872028 A-ATATT
1 ACATATT
9872034 ATTTTTTATC
Statistics
Matches: 108, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
28 43 0.40
29 40 0.37
30 10 0.09
31 15 0.14
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (28 bp):
ACATATTTGTCTTAATTTAGACAAGAAA
Found at i:9881578 original size:26 final size:26
Alignment explanation
Indices: 9881522--9881580 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9881512 GGCCGGCCAT
* *
9881522 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
9881548 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
9881574 AAGGAAA
1 AAGGAAA
9881581 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:9889065 original size:26 final size:26
Alignment explanation
Indices: 9889009--9889067 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9888999 GGCCGGCCAT
* *
9889009 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
9889035 GAGGAAATGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
9889061 AAGGAAA
1 AAGGAAA
9889068 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.27, T:0.03
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:9900886 original size:38 final size:38
Alignment explanation
Indices: 9900817--9900903 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 38
9900807 CACACTCAAC
* *
9900817 TCATGTGCACTTCGTACACGCAAAATGCAATATCATCA
1 TCATGTGCACTCCCTACACGCAAAATGCAATATCATCA
* * * *
9900855 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACACGCAAAATGCAATATCATCA
9900893 -CA--TGCACTCCC
1 TCATGTGCACTCCC
9900904 GCCCACATCA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
35 9 0.21
37 2 0.05
38 32 0.74
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (38 bp):
TCATGTGCACTCCCTACACGCAAAATGCAATATCATCA
Found at i:9900996 original size:2 final size:2
Alignment explanation
Indices: 9900989--9901041 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
9900979 AATACACATC
* * *
9900989 AT AT AT AT TT AG AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9901031 AT AT AT AT AT A
1 AT AT AT AT AT A
9901042 AACATAACAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9901007 original size:14 final size:14
Alignment explanation
Indices: 9900988--9901047 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
9900978 CAATACACAT
* *
9900988 CATATATATTTAGA
1 CATATATATATATA
9901002 CATATATATATATA
1 CATATATATATATA
*
9901016 TATATATATATATA
1 CATATATATATATA
* *
9901030 TATATATATATAAA
1 CATATATATATATA
9901044 CATA
1 CATA
9901048 ACACAGGGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (14 bp):
CATATATATATATA
Found at i:9906901 original size:45 final size:46
Alignment explanation
Indices: 9906843--9906931 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 46
9906833 AGCATAAAAA
*
9906843 ATAAAAAATAATAA-TTAA-ACTAAAGTAAA-TAAATATAAAAATAGC
1 ATAAAAAATAATAACTTAATA--AAAGTAAACTAAATAGAAAAATAGC
*
9906888 ATAAAATAA-AATAACTTAATAAAAGTAAACTAATTAGAAAAATA
1 ATAAAA-AATAATAACTTAATAAAAGTAAACTAAATAGAAAAATA
9906932 ACTAAAACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
45 19 0.50
46 18 0.47
47 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.25
Consensus pattern (46 bp):
ATAAAAAATAATAACTTAATAAAAGTAAACTAAATAGAAAAATAGC
Found at i:9907757 original size:16 final size:16
Alignment explanation
Indices: 9907736--9907767 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9907726 CCAAAATGTA
9907736 GATTTTGATTGTTTTG
1 GATTTTGATTGTTTTG
*
9907752 GATTTTGATTTTTTTG
1 GATTTTGATTGTTTTG
9907768 ATATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.66
Consensus pattern (16 bp):
GATTTTGATTGTTTTG
Found at i:9907861 original size:16 final size:17
Alignment explanation
Indices: 9907816--9907862 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
9907806 TTTATATTAA
9907816 ATATCTTAA-GTAAATGG
1 ATAT-TTAATGTAAATGG
*
9907833 ATATTTACT-TAAATGG
1 ATATTTAATGTAAATGG
9907849 -TATTTAATGTAAAT
1 ATATTTAATGTAAAT
9907863 AAGCTAGGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.27
16 15 0.58
17 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (17 bp):
ATATTTAATGTAAATGG
Found at i:9909340 original size:21 final size:21
Alignment explanation
Indices: 9909282--9909340 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9909272 AACAAAGAGT
*
9909282 TTCTCGCTGCAGTGAGATTCT
1 TTCTCGCTGCAGTGAGATTCA
* * * *
9909303 TTTTTGCTGTAGCGAGATTCA
1 TTCTCGCTGCAGTGAGATTCA
*
9909324 TTCTCGTTGCAGTGAGA
1 TTCTCGCTGCAGTGAGA
9909341 ACCAGTTTTG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (21 bp):
TTCTCGCTGCAGTGAGATTCA
Found at i:9909682 original size:43 final size:44
Alignment explanation
Indices: 9909619--9909741 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 44
9909609 CCCATCATCA
* * ** *
9909619 TCATCACC-AGCTTATCCGCACTCCTTACTCGCACATGGCTGGG
1 TCATCACCGAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
*
9909662 TCATCACCGAG-TTATGCGCACTCCCTACTTGCACATAACCGGG
1 TCATCACCGAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* *
9909705 TCATC-CTCG-GCTTATGCTCACTCCCTACTCACACATA
1 TCATCAC-CGAGCTTATGCGCACTCCCTACTCGCACATA
9909742 GTCGAGTCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.03
43 64 0.94
44 2 0.03
ACGTcount: A:0.21, C:0.37, G:0.15, T:0.26
Consensus pattern (44 bp):
TCATCACCGAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:9911778 original size:68 final size:68
Alignment explanation
Indices: 9911669--9911919 Score: 322
Period size: 68 Copynumber: 3.7 Consensus size: 68
9911659 TATGTTCGGT
*
9911669 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGGTTAAGTA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
9911734 TGC
66 TGC
* * * * * * *
9911737 ATGATGTATACTATAAGATTGTGTATATGATGTAAGTTCCATATACCATATGAGGTGATTAAATA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
9911802 TGC
66 TGC
** * * ** * * *
9911805 ATGACAAATGCCATGAGATTATGCATATGATGTATCTTCCATATACTAAATGAGATGATTAAGAA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
*
9911870 AGC
66 TGC
**
9911873 ATGATGAATGCCATAAGATTATGTATATGATGTATTTTCCATATACC
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACC
9911920 TTCCGAGACG
Statistics
Matches: 153, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 153 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (68 bp):
ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
TGC
Found at i:9911919 original size:136 final size:136
Alignment explanation
Indices: 9911675--9911919 Score: 355
Period size: 136 Copynumber: 1.8 Consensus size: 136
9911665 CGGTATGATG
* * * * *
9911675 AATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGGTTAAGTATGCATG
1 AATGCCATAAGATTATGCATATGATGTAAATTCCATATACCAAATGAGATGATTAAGAAAGCATG
* * *
9911740 ATGTATACTATAAGATTGTGTATATGATGTAAGTTCCATATACCATATGAGGTGATTAAATATGC
66 ATGAATACCATAAGATTATGTATATGATGTAAGTTCCATATACCATATGAGGTGATTAAATATGC
9911805 ATGACA
131 ATGACA
* ** *
9911811 AATGCCATGAGATTATGCATATGATGTATCTTCCATATACTAAATGAGATGATTAAGAAAGCATG
1 AATGCCATAAGATTATGCATATGATGTAAATTCCATATACCAAATGAGATGATTAAGAAAGCATG
* **
9911876 ATGAATGCCATAAGATTATGTATATGATGTATTTTCCATATACC
66 ATGAATACCATAAGATTATGTATATGATGTAAGTTCCATATACC
9911920 TTCCGAGACG
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
136 94 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (136 bp):
AATGCCATAAGATTATGCATATGATGTAAATTCCATATACCAAATGAGATGATTAAGAAAGCATG
ATGAATACCATAAGATTATGTATATGATGTAAGTTCCATATACCATATGAGGTGATTAAATATGC
ATGACA
Found at i:9916164 original size:36 final size:36
Alignment explanation
Indices: 9916089--9916217 Score: 197
Period size: 36 Copynumber: 3.6 Consensus size: 36
9916079 ATTGCTTGTG
* * ** *
9916089 GCGATGTGGGGGTGCACA-AATGGCATTAGCCGTGT
1 GCGATGTGGGGGAGCACACGATGGCATTAGCTATGC
9916124 GCGATGTGGGGGAGCACACGATGGCATTAGCTATGC
1 GCGATGTGGGGGAGCACACGATGGCATTAGCTATGC
*
9916160 GCGATGTGGGGGAGCACACGATGGTATTAGCTATGC
1 GCGATGTGGGGGAGCACACGATGGCATTAGCTATGC
9916196 GCGATGTGGGGGAGCACACGAT
1 GCGATGTGGGGGAGCACACGAT
9916218 AACTCGGGCT
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 17 0.20
36 70 0.80
ACGTcount: A:0.22, C:0.18, G:0.40, T:0.20
Consensus pattern (36 bp):
GCGATGTGGGGGAGCACACGATGGCATTAGCTATGC
Found at i:9916249 original size:72 final size:71
Alignment explanation
Indices: 9916089--9916249 Score: 171
Period size: 72 Copynumber: 2.3 Consensus size: 71
9916079 ATTGCTTGTG
* * ** *
9916089 GCGATGTGGGGGTGCACAAATGGCATTAGCCGTGTGCGATGTGGGGGAGCACACGATGGCATTAG
1 GCGATGTGGGGGTGCACAAATGGCATTAGCCATGCGCGATGTGGGGGAGCACACGATAACATGAG
*
9916154 CTATGC
66 CTATAC
* * * *
9916160 GCGATGTGGGGGAGCACACGATGGTATTAGCTATGCGCGATGTGGGGGAGCACACGATAAC-TCG
1 GCGATGTGGGGGTGCACA-AATGGCATTAGCCATGCGCGATGTGGGGGAGCACACGATAACAT-G
* *
9916224 GGCTATAT
64 AGCTATAC
* *
9916232 GCGGTGTGGGAGTGCACA
1 GCGATGTGGGGGTGCACA
9916250 TGAGCTGGGT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
71 18 0.25
72 55 0.75
ACGTcount: A:0.22, C:0.18, G:0.40, T:0.20
Consensus pattern (71 bp):
GCGATGTGGGGGTGCACAAATGGCATTAGCCATGCGCGATGTGGGGGAGCACACGATAACATGAG
CTATAC
Found at i:9919318 original size:17 final size:18
Alignment explanation
Indices: 9919278--9919320 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9919268 CAAGAATTGA
9919278 TAACTCTTTGTTTCTCTCT
1 TAACT-TTTGTTTCTCTCT
* *
9919297 CAACTTTTGTTTTTCT-T
1 TAACTTTTGTTTCTCTCT
9919314 TAACTTT
1 TAACTTT
9919321 CTTAAACTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 10 0.48
19 4 0.19
ACGTcount: A:0.14, C:0.21, G:0.05, T:0.60
Consensus pattern (18 bp):
TAACTTTTGTTTCTCTCT
Found at i:9920167 original size:19 final size:18
Alignment explanation
Indices: 9920139--9920176 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
9920129 AGTGCAGAAA
9920139 TTTAAAATAAAATAATAT
1 TTTAAAATAAAATAATAT
9920157 TTTATAAATAAAATAATAT
1 TTTA-AAATAAAATAATAT
9920176 T
1 T
9920177 AGAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAAAATAAAATAATAT
Found at i:9921160 original size:21 final size:19
Alignment explanation
Indices: 9921136--9921198 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 19
9921126 CCATAACCAA
9921136 AAAGAAAAGAGAAAGGAGAGG
1 AAAGAAAAGAGAAA-GAGA-G
9921157 AAAG-AAAGAAGAAA-AGAG
1 AAAGAAAAG-AGAAAGAGAG
*
9921175 AAAGAAAAG-GAAAGAAAG
1 AAAGAAAAGAGAAAGAGAG
9921193 -AAGAAA
1 AAAGAAA
9921199 GAAAGGAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 10 0.26
18 8 0.21
19 7 0.18
20 4 0.11
21 9 0.24
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAGAAAGAGAG
Found at i:9921170 original size:28 final size:27
Alignment explanation
Indices: 9921137--9921212 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
9921127 CATAACCAAA
9921137 AAGAAAAGAGAAAGGAGAGGAAAGAAAG
1 AAGAAAAGAGAAAGGA-AGGAAAGAAAG
*
9921165 AAGAAAAGAGAAAGAAAAGGAAAGAAAG
1 AAGAAAAGAGAAAG-GAAGGAAAGAAAG
9921193 AAG--AA-AGAAAGGAAGGAAAG
1 AAGAAAAGAGAAAGGAAGGAAAG
9921213 GTTCAATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.18
25 6 0.13
26 2 0.04
28 28 0.62
29 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (27 bp):
AAGAAAAGAGAAAGGAAGGAAAGAAAG
Found at i:9921199 original size:21 final size:20
Alignment explanation
Indices: 9921156--9921212 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
9921146 GAAAGGAGAG
9921156 GAAAGAAA-G-AAGAAA-AGA
1 GAAAGAAAGGAAAGAAAGA-A
9921174 GAAAGAAAAGGAAAGAAAGAA
1 GAAAG-AAAGGAAAGAAAGAA
*
9921195 GAAAGAAAGGAAGGAAAG
1 GAAAGAAAGGAAAGAAAG
9921213 GTTCAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 13 0.38
21 12 0.35
22 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGGAAAGAAAGAA
Found at i:9921203 original size:11 final size:11
Alignment explanation
Indices: 9921156--9921203 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
9921146 GAAAGGAGAG
9921156 GAAAGAAAGAA
1 GAAAGAAAGAA
9921167 G--A-AAAG-A
1 GAAAGAAAGAA
*
9921174 GAAAGAAA-AG
1 GAAAGAAAGAA
9921184 GAAAGAAAGAA
1 GAAAGAAAGAA
9921195 GAAAGAAAG
1 GAAAGAAAG
9921204 GAAGGAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
7 2 0.07
8 4 0.13
9 2 0.07
10 11 0.37
11 11 0.37
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
GAAAGAAAGAA
Found at i:9921203 original size:20 final size:21
Alignment explanation
Indices: 9921145--9921212 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
9921135 AAAAGAAAAG
9921145 AGAAAGGAGAGGAAAGAAA-G-A
1 AGAAA-GAGA-GAAAGAAAGGAA
9921166 AGAAA-AGAGAAAGAAAAGGAA
1 AGAAAGAGAGAAAG-AAAGGAA
9921187 AGAAAGA-AGAAAGAAAGGAA
1 AGAAAGAGAGAAAGAAAGGAA
*
9921207 GGAAAG
1 AGAAAG
9921213 GTTCAATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
18 5 0.12
19 6 0.14
20 13 0.31
21 17 0.40
22 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (21 bp):
AGAAAGAGAGAAAGAAAGGAA
Found at i:9922788 original size:55 final size:55
Alignment explanation
Indices: 9922631--9922790 Score: 212
Period size: 55 Copynumber: 2.9 Consensus size: 55
9922621 ATGTATACAA
* * * *
9922631 CCACCGGTCATCAGCTCATGTGCACTTTCACACCGCACATAGATAGAATCATCAT
1 CCACCGGTCATCAGCTCATGTGCACTTCCACACCACACATAGATGGAATCATCAC
** *
9922686 CCTTCGGTCATCAGCTCATGTGCACTTCCACACCACACATAGCTGGAATCATCAC
1 CCACCGGTCATCAGCTCATGTGCACTTCCACACCACACATAGATGGAATCATCAC
* * * * *
9922741 CCACCGGTCATCAACTCATATGCACTACCACATCACACATAGTTGGAATC
1 CCACCGGTCATCAGCTCATGTGCACTTCCACACCACACATAGATGGAATC
9922791 GCCCGTCATC
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (55 bp):
CCACCGGTCATCAGCTCATGTGCACTTCCACACCACACATAGATGGAATCATCAC
Found at i:9926177 original size:79 final size:79
Alignment explanation
Indices: 9925943--9926178 Score: 206
Period size: 75 Copynumber: 3.1 Consensus size: 79
9925933 NNNNNNNAGG
9925943 CATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAAAAT
1 CATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAAAAT
9926008 CTGAAAATATAACC
66 CTGAAAATATAACC
* * * * * * * * ** ** * *
9926022 CAT-AA-AT--TCATAAACTTCAAGAGTT-GAA-A-ATATATTACTTTTAG-CCTTA-AAAATGA
1 CATAAAGATCAACAAAAACAT-AATATTTCCAAGACAAAGATT--TTGAAGAAATTAGGAAATAA
* **
9926078 AGT-TGAAAAT-TCAAGG
63 AATCTGAAAATAT-AACC
9926094 CATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAAAAT
1 CATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAAAAT
9926159 CTGAAAATATAACC
66 CTGAAAATATAACC
9926173 CATAAA
1 CATAAA
9926179 TTCATAAACT
Statistics
Matches: 108, Mismatches: 34, Indels: 30
0.63 0.20 0.17
Matches are distributed among these distances:
71 1 0.01
72 12 0.11
73 14 0.13
74 6 0.06
75 18 0.17
76 18 0.17
77 6 0.06
78 14 0.13
79 18 0.17
80 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (79 bp):
CATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAAAAT
CTGAAAATATAACC
Found at i:9926214 original size:151 final size:151
Alignment explanation
Indices: 9925940--9926243 Score: 608
Period size: 151 Copynumber: 2.0 Consensus size: 151
9925930 NNNNNNNNNN
9925940 AGGCATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAA
1 AGGCATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAA
9926005 AATCTGAAAATATAACCCATAAATTCATAAACTTCAAGAGTTGAAAATATATTACTTTTAGCCTT
66 AATCTGAAAATATAACCCATAAATTCATAAACTTCAAGAGTTGAAAATATATTACTTTTAGCCTT
9926070 AAAAATGAAGTTGAAAATTCA
131 AAAAATGAAGTTGAAAATTCA
9926091 AGGCATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAA
1 AGGCATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAA
9926156 AATCTGAAAATATAACCCATAAATTCATAAACTTCAAGAGTTGAAAATATATTACTTTTAGCCTT
66 AATCTGAAAATATAACCCATAAATTCATAAACTTCAAGAGTTGAAAATATATTACTTTTAGCCTT
9926221 AAAAATGAAGTTGAAAATTCA
131 AAAAATGAAGTTGAAAATTCA
9926242 AG
1 AG
9926244 TATTGGTGAT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 153 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (151 bp):
AGGCATAAAGATCAACAAAAACATAATATTTCCAAGACAAAGATTTTGAAGAAATTAGGAAATAA
AATCTGAAAATATAACCCATAAATTCATAAACTTCAAGAGTTGAAAATATATTACTTTTAGCCTT
AAAAATGAAGTTGAAAATTCA
Found at i:9928791 original size:51 final size:51
Alignment explanation
Indices: 9928706--9928802 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
9928696 TCACTGTAGT
*
9928706 GAGACAGTCACTGCAGCTTCTCGCTGCAGTGAAAAAGAATCTCGCTATAGC
1 GAGACAGTCACTGCAGCTTCTCGCTGCAGCGAAAAAGAATCTCGCTATAGC
* * *
9928757 GAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGAATCTCGCT
1 GAGACAGTCACTGCAGCTTCTCGCTGCAGCGAAAAAGAATCTCGCT
9928803 GCAATGAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (51 bp):
GAGACAGTCACTGCAGCTTCTCGCTGCAGCGAAAAAGAATCTCGCTATAGC
Found at i:9928861 original size:21 final size:21
Alignment explanation
Indices: 9928832--9928872 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9928822 TTCATTAGCT
* *
9928832 GAATTTCGCTGCAGCGAGAAA
1 GAATCTCGCTGCAGCAAGAAA
9928853 GAATCTCGCTGCAGCAAGAA
1 GAATCTCGCTGCAGCAAGAA
9928873 CCCTTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (21 bp):
GAATCTCGCTGCAGCAAGAAA
Found at i:9930768 original size:35 final size:35
Alignment explanation
Indices: 9930729--9930806 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
9930719 TGATGTGGAC
* * *
9930729 GGGAGTGCGTGTGATGATATTGAAATGTGCATGTA
1 GGGAGTGCGTATGATGATATTAAAATATGCATGTA
*
9930764 GGGAGTGCGTATGATGATATTAAAATATGCGTGTA
1 GGGAGTGCGTATGATGATATTAAAATATGCATGTA
9930799 GGGAGTGC
1 GGGAGTGC
9930807 ACATGATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.27, C:0.06, G:0.37, T:0.29
Consensus pattern (35 bp):
GGGAGTGCGTATGATGATATTAAAATATGCATGTA
Found at i:9930813 original size:35 final size:35
Alignment explanation
Indices: 9930740--9930819 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
9930730 GGAGTGCGTG
* * **
9930740 TGATGATATTGAAATGTGCATGTAGGGAGTGCGTA
1 TGATGATATTAAAATATGCATGTAGGGAGTGCACA
*
9930775 TGATGATATTAAAATATGCGTGTAGGGAGTGCACA
1 TGATGATATTAAAATATGCATGTAGGGAGTGCACA
*
9930810 TGATGTTATT
1 TGATGATATT
9930820 GCCTTGTGCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.34
Consensus pattern (35 bp):
TGATGATATTAAAATATGCATGTAGGGAGTGCACA
Found at i:9932080 original size:22 final size:22
Alignment explanation
Indices: 9932035--9932097 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
9932025 TATATATACA
* *
9932035 CCCATCACCATCATGCACACCAT
1 CCCATCATCATCA-GCTCACCAT
9932058 CCCATCATCATCAGCTCACCAT
1 CCCATCATCATCAGCTCACCAT
*
9932080 CTCATCATCATCAGCTCA
1 CCCATCATCATCAGCTCA
9932098 TGTGCACTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 25 0.68
23 12 0.32
ACGTcount: A:0.29, C:0.44, G:0.05, T:0.22
Consensus pattern (22 bp):
CCCATCATCATCAGCTCACCAT
Found at i:9932132 original size:43 final size:43
Alignment explanation
Indices: 9932084--9932215 Score: 147
Period size: 43 Copynumber: 3.1 Consensus size: 43
9932074 CACCATCTCA
* * * * ** * *
9932084 TCATCATCAGCTCATGTGCACTCCCTACTCGCACATGGCTGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTAGCACATAACCGAG
* * *
9932127 TCATCACCGGTTTATGCACACTCCCTACTAGCACATAACCGAG
1 TCATCATCGGCTTATGCGCACTCCCTACTAGCACATAACCGAG
* *
9932170 TCATCATCGGCTTATGCGCACTCCCTACTTGCACATAGCCGAG
1 TCATCATCGGCTTATGCGCACTCCCTACTAGCACATAACCGAG
9932213 TCA
1 TCA
9932216 ATATCATTAC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.25
Consensus pattern (43 bp):
TCATCATCGGCTTATGCGCACTCCCTACTAGCACATAACCGAG
Found at i:9940612 original size:55 final size:55
Alignment explanation
Indices: 9940458--9940615 Score: 194
Period size: 55 Copynumber: 2.9 Consensus size: 55
9940448 TATATAGCCA
* * *
9940458 CCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCT
1 CCGGTCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCATCACCCT
* * *
9940513 CCGATCATCAGCTTATGTGCACTCCCACA-CAGCACATAGTTGGAATCATCACCCAT
1 CCGGTCATCAGCTCATGTGCACTCCCACACCA-CACATAGCTGGAATCATCACCC-T
* * * *
9940569 -CGGTCATTAGCTCATGTGCACTCCCATACCACACACAACTGGAATCA
1 CCGGTCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCA
9940616 CACGTCATCA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 1 0.01
55 83 0.95
56 3 0.03
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (55 bp):
CCGGTCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGAATCATCACCCT
Found at i:9941568 original size:14 final size:15
Alignment explanation
Indices: 9941535--9941572 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
9941525 AAGAAGTCAT
*
9941535 AAAAGAAAAGAAATG
1 AAAAGAAAAGAAAGG
*
9941550 AAAAGAAATG-AAGG
1 AAAAGAAAAGAAAGG
9941564 AAAAGAAAA
1 AAAAGAAAA
9941573 TGGAAAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAGAAAGG
Found at i:9955286 original size:25 final size:25
Alignment explanation
Indices: 9955254--9955308 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
9955244 GGTTTGTGAT
**
9955254 ATATATGTGGAAAGGCCACGGGTTG
1 ATATATGTGGAAAGGCCACAAGTTG
**
9955279 ATATATGTGGCTAGGCCACAAGTTG
1 ATATATGTGGAAAGGCCACAAGTTG
9955304 ATATA
1 ATATA
9955309 CATGGTTGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
ATATATGTGGAAAGGCCACAAGTTG
Found at i:9961459 original size:21 final size:21
Alignment explanation
Indices: 9961418--9961459 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9961408 AAACAAAAGG
*
9961418 TTTCTCGCTGCAGCGAGATTC
1 TTTCTCGCTGCAGCGAAATTC
* *
9961439 TTTCTCGCTGTAGTGAAATTC
1 TTTCTCGCTGCAGCGAAATTC
9961460 AACTGATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTCTCGCTGCAGCGAAATTC
Found at i:9961865 original size:40 final size:38
Alignment explanation
Indices: 9961812--9961914 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
9961802 ACCCAGCTCA
* * *
9961812 TGTACATCTCCCCACATCGTGCACGTAGCCCGCGCCATCG
1 TGTACATCCCCCCACATCGTGCAC--AACCAGCGCCATCG
* * * *
9961852 TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATTG
1 TGTACATCCCCCCACATCGTGCACAACCAGCGCCATCG
9961890 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
9961915 CGAGCACTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 33 0.60
40 22 0.40
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.21
Consensus pattern (38 bp):
TGTACATCCCCCCACATCGTGCACAACCAGCGCCATCG
Found at i:9963599 original size:42 final size:42
Alignment explanation
Indices: 9963547--9963663 Score: 171
Period size: 42 Copynumber: 2.8 Consensus size: 42
9963537 ATGCAACGGT
* * *
9963547 TTATGCGCACTCCCACTTGCACATAACCGGGTCAACAACGAC
1 TTATGTGCACTCCCACTCGCACATAGCCGGGTCAACAACGAC
* * *
9963589 TTATGTGCACTCCCACTCACACATAGCCGGGTCAGCAACGGC
1 TTATGTGCACTCCCACTCGCACATAGCCGGGTCAACAACGAC
*
9963631 TTATGTGCACTCCTACTCGCACATAGCCGGGTC
1 TTATGTGCACTCCCACTCGCACATAGCCGGGTC
9963664 TACATCAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (42 bp):
TTATGTGCACTCCCACTCGCACATAGCCGGGTCAACAACGAC
Found at i:9968304 original size:88 final size:89
Alignment explanation
Indices: 9968155--9968331 Score: 338
Period size: 88 Copynumber: 2.0 Consensus size: 89
9968145 ACTAGAGGAG
9968155 AGTAAGTTAATTGGTGGAGGGGCATTTTCGTAATTTTAAAGGAAATGATAAGATTGCCTATAAAT
1 AGTAAGTTAATTGGTGGAGGGGCATTTTCGTAATTTTAAAGGAAATGATAAGATTGCCTATAAAT
9968220 ACC-TTGAATTTCCAGCAACTTCT
66 ACCTTTGAATTTCCAGCAACTTCT
*
9968243 AGTAAGTTAATTGGTGGAGGGGTATTTTCGTAATTTTAAAGGAAATGATAAGATTGCCTATAAAT
1 AGTAAGTTAATTGGTGGAGGGGCATTTTCGTAATTTTAAAGGAAATGATAAGATTGCCTATAAAT
9968308 ACCTTTGAATTTCCAGCAACTTCT
66 ACCTTTGAATTTCCAGCAACTTCT
9968332 TGAATTTTCC
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 67 0.77
89 20 0.23
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (89 bp):
AGTAAGTTAATTGGTGGAGGGGCATTTTCGTAATTTTAAAGGAAATGATAAGATTGCCTATAAAT
ACCTTTGAATTTCCAGCAACTTCT
Found at i:9969191 original size:43 final size:43
Alignment explanation
Indices: 9969135--9969253 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
9969125 GTAATTATAT
* * * * *
9969135 TGACTCAGCTATGTACGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCAGCTATGTGCAAGTAGGGAGTACGCATAACCCG-GTGA
*
9969178 TGACCC-GACTATGTGCCAGTAGGGAGTACGCATAACCCGGTGA
1 TGACCCAG-CTATGTGCAAGTAGGGAGTACGCATAACCCGGTGA
* *
9969221 TGACCCAGCCATGTGCAAGTAGGGAGTCCGCAT
1 TGACCCAGCTATGTGCAAGTAGGGAGTACGCAT
9969254 GAGCTGGTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.03
43 62 0.95
44 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (43 bp):
TGACCCAGCTATGTGCAAGTAGGGAGTACGCATAACCCGGTGA
Found at i:9969263 original size:43 final size:43
Alignment explanation
Indices: 9969152--9969266 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
9969142 GCTATGTACG
* * *
9969152 AGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGACTATGTGCC
1 AGTAGGGAGTACGCATAAGCCG-GTGATGACCCGACCATGTGCA
*
9969195 AGTAGGGAGTACGCATAACCCGGTGATGACCC-AGCCATGTGCA
1 AGTAGGGAGTACGCATAAGCCGGTGATGACCCGA-CCATGTGCA
* * *
9969238 AGTAGGGAGTCCGCATGAGCTGGTGATGA
1 AGTAGGGAGTACGCATAAGCCGGTGATGA
9969267 TGATGATGGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 2 0.03
43 60 0.97
ACGTcount: A:0.26, C:0.22, G:0.35, T:0.17
Consensus pattern (43 bp):
AGTAGGGAGTACGCATAAGCCGGTGATGACCCGACCATGTGCA
Found at i:9969312 original size:2 final size:2
Alignment explanation
Indices: 9969299--9969361 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
9969289 TGATGATGGG
*
9969299 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9969341 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
9969362 GTGTGTNNNN
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9970480 original size:30 final size:30
Alignment explanation
Indices: 9970444--9970506 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
9970434 ATTTGTGACT
9970444 TAACAATATTTGATGGTATGATGAGTAAGA
1 TAACAATATTTGATGGTATGATGAGTAAGA
9970474 TAACAATATTTGATGGTATGATGAGTAAGA
1 TAACAATATTTGATGGTATGATGAGTAAGA
9970504 TAA
1 TAA
9970507 ATAATAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.33
Consensus pattern (30 bp):
TAACAATATTTGATGGTATGATGAGTAAGA
Done.