Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 46 of 295
Found at i:13243643 original size:82 final size:81
Alignment explanation
Indices: 13243530--13243685 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13243520 AAATTGTACA
* *
13243530 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13243594 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13243611 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13243676 TGCGAGTTGA
65 TGCGAATTGA
13243686 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13243697 original size:82 final size:81
Alignment explanation
Indices: 13243526--13243706 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13243516 GATTAAATTG
* *
13243526 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13243591 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13243607 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13243671 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13243689 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13243707 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13246615 original size:27 final size:27
Alignment explanation
Indices: 13246593--13246645 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
13246583 GTCACCGGAT
* *
13246593 ACAAATAT-TGTGGCTAGGCCACCAGA
1 ACAAATATATGTGGCGAAGCCACCAGA
*
13246619 ACAGATATATGTGGCGAAGCCACCAGA
1 ACAAATATATGTGGCGAAGCCACCAGA
13246646 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
ACAAATATATGTGGCGAAGCCACCAGA
Found at i:13247487 original size:81 final size:81
Alignment explanation
Indices: 13247363--13247558 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
13247353 GGGGCAAAAT
* ** * * * * * ** *
13247363 GGTAATTTTACCCCACAAGGGTATCTCGGTAAGTCTACCTTACAGGGGTATTTTGGTATTTCTAC
1 GGTAATTCTACCTTACAAGGGTATTTCAGTAATTTTACGTTACAGGGGTATTTTAATAATTCTAC
13247428 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * *
13247444 GGTAATTTTATCC-TATAGGGGTATTTCAGTAATTTTACGTTACAGGGGTATTTTAATAATTCTA
1 GGTAATTCTA-CCTTACAAGGGTATTTCAGTAATTTTACGTTACAGGGGTATTTTAATAATTCTA
* *
13247508 CCCTATAGGGGTATTTC
65 CCCTACAAGGGTATTTC
*
13247525 GGTAATTCTACCTTACAAGGGTATTTCGGTAATT
1 GGTAATTCTACCTTACAAGGGTATTTCAGTAATT
13247559 CTACAACTTA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 2 0.02
81 92 0.96
82 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (81 bp):
GGTAATTCTACCTTACAAGGGTATTTCAGTAATTTTACGTTACAGGGGTATTTTAATAATTCTAC
CCTACAAGGGTATTTC
Found at i:13247559 original size:27 final size:27
Alignment explanation
Indices: 13247363--13247562 Score: 202
Period size: 27 Copynumber: 7.4 Consensus size: 27
13247353 GGGGCAAAAT
* * * *
13247363 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
13247390 GGTAAGTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
13247417 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
13247444 GGTAATTTTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
13247471 AGTAATTTTACGTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
13247498 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
13247525 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
13247552 GGTAATTCTAC
1 GGTAATTCTAC
13247563 AACTTATCCA
Statistics
Matches: 139, Mismatches: 34, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:13248945 original size:94 final size:92
Alignment explanation
Indices: 13248734--13248945 Score: 232
Period size: 94 Copynumber: 2.3 Consensus size: 92
13248724 GATACATGTG
* * * *
13248734 CCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGAGATATGTTTGGG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCTAGTGAGACATGTCTGGG
* *
13248799 AAATGCATCGATCTCGAGATATACCAA
66 AAATGCATCGACCTCGAGACATACCAA
* ***
13248826 CCAGAGTAAGACATGTCTGGGACATGCATCGA-CTTTTATATGAGAGCTAGTGTAAGACATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACCACAT-TATGAGAGCTAGTG--AGACATGTCT
**
13248890 GGGACGTGCATC-AGCCTCGAGACATA-CAA
63 GGGAAATGCATCGA-CCTCGAGACATACCAA
* *
13248919 GCTAGTGTAAGACCTGTCTGGGACATG
1 -CCAGTGTAAGACATGTCTGGGACATG
13248946 GCGTCTGCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
91 2 0.02
92 43 0.43
93 4 0.04
94 51 0.51
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (92 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCTAGTGAGACATGTCTGGG
AAATGCATCGACCTCGAGACATACCAA
Found at i:13265810 original size:12 final size:12
Alignment explanation
Indices: 13265793--13265819 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13265783 GGCTGTTATT
13265793 TGGCCTAGCACA
1 TGGCCTAGCACA
13265805 TGGCCTAGCACA
1 TGGCCTAGCACA
13265817 TGG
1 TGG
13265820 GCATGTGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.19
Consensus pattern (12 bp):
TGGCCTAGCACA
Found at i:13279696 original size:18 final size:19
Alignment explanation
Indices: 13279653--13279697 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13279643 AGTTTTCTCC
13279653 AAAATGAAAACGAGAATAA
1 AAAATGAAAACGAGAATAA
* * *
13279672 GAAATGAAAATGA-ATTAA
1 AAAATGAAAACGAGAATAA
13279690 AAAATGAA
1 AAAATGAA
13279698 TTTATGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.16
Consensus pattern (19 bp):
AAAATGAAAACGAGAATAA
Found at i:13284383 original size:16 final size:16
Alignment explanation
Indices: 13284362--13284392 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13284352 TTTTTTATTT
*
13284362 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
13284378 ATATTAAGATAATTA
1 ATATTAAGATAATTA
13284393 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:13285186 original size:17 final size:19
Alignment explanation
Indices: 13285150--13285187 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
13285140 TTATTTTTCC
13285150 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
13285169 TTATTT-AATTTC-GCAAT
1 TTATTTCAATTTCTGCAAT
13285186 TT
1 TT
13285188 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:13285587 original size:13 final size:13
Alignment explanation
Indices: 13285569--13285594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13285559 TATCAAATTA
13285569 AATTAAATTTAAT
1 AATTAAATTTAAT
13285582 AATTAAATTTAAT
1 AATTAAATTTAAT
13285595 TCATGTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTAAATTTAAT
Found at i:13289676 original size:3 final size:3
Alignment explanation
Indices: 13289668--13289751 Score: 63
Period size: 3 Copynumber: 29.0 Consensus size: 3
13289658 ATTTCTAATT
*
13289668 TTA TTA TTA TTA TTA TTA TTTA TT- TTA TTA TT- TTA TTTC TTA TT-
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
13289712 TTA TTA TAA TT- TTT TTA TTT TTAA TTA TT- TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
13289752 ATAAAATTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
2 12 0.18
3 46 0.71
4 7 0.11
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:13289684 original size:24 final size:23
Alignment explanation
Indices: 13289663--13289753 Score: 72
Period size: 20 Copynumber: 4.2 Consensus size: 23
13289653 ATTTTATTTC
13289663 TAATTTTATTATTATTATTATTAT
1 TAATTTTATTATT-TTATTATTAT
* *
13289687 TTATTTTATTATTTTA-T-TTCT
1 TAATTTTATTATTTTATTATTAT
13289708 T-ATTTTATTATAATTT-TT-TTAT
1 TAATTTTATTAT--TTTATTATTAT
*
13289730 T--TTTAATTATTTTATTA-TAT
1 TAATTTTATTATTTTATTATTAT
13289750 TAAT
1 TAAT
13289754 AAAATTCTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.05
20 16 0.29
21 12 0.21
22 10 0.18
23 3 0.05
24 12 0.21
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (23 bp):
TAATTTTATTATTTTATTATTAT
Found at i:13289686 original size:15 final size:14
Alignment explanation
Indices: 13289668--13289751 Score: 79
Period size: 12 Copynumber: 6.2 Consensus size: 14
13289658 ATTTCTAATT
13289668 TTATTATTATTATTA
1 TTATT-TTATTATTA
13289683 TTA-TTTATT-TTA
1 TTATTTTATTATTA
*
13289695 TTATTTTA-T-TTC
1 TTATTTTATTATTA
*
13289707 TTATTTTATTATAA
1 TTATTTTATTATTA
* *
13289721 TTTTTTTATTTTTAA
1 TTATTTTATTATT-A
13289736 TTATTTTATTA-TA
1 TTATTTTATTATTA
13289749 TTA
1 TTA
13289752 ATAAAATTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
12 17 0.30
13 14 0.25
14 13 0.23
15 13 0.23
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:13289702 original size:44 final size:41
Alignment explanation
Indices: 13289653--13289745 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 41
13289643 TTAATTTTAA
* *
13289653 ATTTTATTTCTAATTTTATTATTATTATTATTATTTATTTTATT
1 ATTTTATTTCTAATTTTATTATAATT-TTATTA-TT-TTTAATT
* *
13289697 ATTTTATTTCTTATTTTATTATAATTTTTTTATTTTTAATT
1 ATTTTATTTCTAATTTTATTATAATTTTATTATTTTTAATT
13289738 ATTTTATT
1 ATTTTATT
13289746 ATATTAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
41 14 0.31
42 2 0.04
43 5 0.11
44 24 0.53
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (41 bp):
ATTTTATTTCTAATTTTATTATAATTTTATTATTTTTAATT
Found at i:13291244 original size:4 final size:4
Alignment explanation
Indices: 13291237--13291261 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13291227 ATGTACATAC
13291237 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
13291262 AAGTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:13291878 original size:16 final size:16
Alignment explanation
Indices: 13291857--13291887 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13291847 CATTTTATTT
*
13291857 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
13291873 ATATTAAGATAATTA
1 ATATTAAGATAATTA
13291888 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:13291916 original size:28 final size:27
Alignment explanation
Indices: 13291853--13291917 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
13291843 ACTCCATTTT
13291853 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
13291881 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
13291910 ATTTTATT
1 ATTTTATT
13291918 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:13291932 original size:10 final size:10
Alignment explanation
Indices: 13291913--13291944 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
13291903 TTTTAGGATT
13291913 TTAT-TTTAA
1 TTATCTTTAA
13291922 TTATCTTTAA
1 TTATCTTTAA
13291932 TTATCTTTAA
1 TTATCTTTAA
13291942 TTA
1 TTA
13291945 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:13292694 original size:17 final size:19
Alignment explanation
Indices: 13292658--13292695 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
13292648 TTTATTTTTC
13292658 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
13292677 TTATTT-AATTTC-GCAAT
1 TTATTTCAATTTCTGCAAT
13292694 TT
1 TT
13292696 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:13293094 original size:13 final size:13
Alignment explanation
Indices: 13293076--13293101 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13293066 TATCAAATTA
13293076 AATTAAATTTAAT
1 AATTAAATTTAAT
13293089 AATTAAATTTAAT
1 AATTAAATTTAAT
13293102 TCATGTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTAAATTTAAT
Found at i:13306603 original size:39 final size:38
Alignment explanation
Indices: 13306536--13306611 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
13306526 ACCAGATTGG
*
13306536 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGCAA-AGTTGA
* * *
13306575 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAGTTG
13306612 GTACCCAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.16
39 24 0.75
40 3 0.09
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTGA
Found at i:13307778 original size:9 final size:9
Alignment explanation
Indices: 13307766--13307791 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13307756 CTTTTATATA
13307766 TATAATAAC
1 TATAATAAC
13307775 TATAATAAC
1 TATAATAAC
13307784 TATAATAA
1 TATAATAA
13307792 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
TATAATAAC
Found at i:13307806 original size:18 final size:18
Alignment explanation
Indices: 13307785--13307821 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13307775 TATAATAACT
13307785 ATAATAAAAATCTATTTA
1 ATAATAAAAATCTATTTA
* *
13307803 ATAATAAATATTTATTTA
1 ATAATAAAAATCTATTTA
13307821 A
1 A
13307822 CAATTGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATAAAAATCTATTTA
Found at i:13307878 original size:11 final size:12
Alignment explanation
Indices: 13307859--13307892 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13307849 TATATATATA
13307859 TATATAATAACT
1 TATATAATAACT
13307871 TA-ATAATATACT
1 TATATAATA-ACT
13307883 TATATAATAA
1 TATATAATAA
13307893 ATAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:13309408 original size:93 final size:93
Alignment explanation
Indices: 13309301--13309471 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13309291 GCCCATAAGT
* *
13309301 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13309366 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
13309394 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
13309459 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13309472 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:13309468 original size:46 final size:46
Alignment explanation
Indices: 13309293--13309468 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13309283 TGTAACCCGC
* * *
13309293 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
13309339 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * * *
13309389 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
13309432 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13309469 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:13311080 original size:3 final size:3
Alignment explanation
Indices: 13311072--13311154 Score: 73
Period size: 3 Copynumber: 28.0 Consensus size: 3
13311062 ATCTTTAACT
* *
13311072 TAA TAA TAA TACC TAT TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
13311119 TAA TAG T-T TAA T-A TAA -AA CCA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13311155 CAACAATTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
2 5 0.08
3 57 0.86
4 4 0.06
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13318798 original size:18 final size:19
Alignment explanation
Indices: 13318760--13318800 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
13318750 TTGGTTCATG
13318760 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
13318779 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
13318797 TTTC
1 TTTC
13318801 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:13319372 original size:15 final size:15
Alignment explanation
Indices: 13319352--13319382 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13319342 TCATATAAAT
13319352 TCAATATAAATTCAA
1 TCAATATAAATTCAA
13319367 TCAATATAAATTCAA
1 TCAATATAAATTCAA
13319382 T
1 T
13319383 AAATTCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
TCAATATAAATTCAA
Found at i:13320198 original size:18 final size:18
Alignment explanation
Indices: 13320177--13320212 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13320167 AATAATAACT
13320177 ATAATAAAAATCTATTTA
1 ATAATAAAAATCTATTTA
* *
13320195 ATAATAAATATTTATTTA
1 ATAATAAAAATCTATTTA
13320213 CCACTTGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATAAAAATCTATTTA
Found at i:13320297 original size:13 final size:12
Alignment explanation
Indices: 13320265--13320298 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13320255 TTTATATATA
13320265 TATATAATAACT
1 TATATAATAACT
13320277 TA-ATAATATACT
1 TATATAATA-ACT
13320289 TATATAATAA
1 TATATAATAA
13320299 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:13323661 original size:27 final size:26
Alignment explanation
Indices: 13323590--13323703 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
13323580 AGCATGGCTG
* *
13323590 CCAGAACAGATAATGTGACA-AGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
13323615 CCAGATATAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
13323643 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
13323670 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
13323697 CCAGAAC
1 CCAGAAC
13323704 GCTTCCTTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
25 5 0.07
26 9 0.12
27 51 0.68
28 10 0.13
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:13323683 original size:54 final size:53
Alignment explanation
Indices: 13323590--13323703 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 53
13323580 AGCATGGCTG
* *
13323590 CCAGAACAGATAATGTGACAAGTCACCAGATATAGATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * *
13323643 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACA-AGCCACCAGATACAGATAATCGTGGCAGAACCA
13323697 CCAGAAC
1 CCAGAAC
13323704 GCTTCCTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 12 0.23
54 31 0.58
55 10 0.19
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:13325162 original size:24 final size:24
Alignment explanation
Indices: 13325130--13325203 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
13325120 ACACAGTTCA
13325130 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
13325154 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
13325178 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
13325202 CC
1 CC
13325204 AGACAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:13330391 original size:27 final size:26
Alignment explanation
Indices: 13330316--13330424 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
13330306 AGCATGGCTG
** *
13330316 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
13330342 CCAGATACAAATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
13330370 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
13330397 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
13330424 C
1 C
13330425 TAGGACGCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 6 0.09
27 49 0.70
28 15 0.21
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:13331890 original size:24 final size:24
Alignment explanation
Indices: 13331858--13331931 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
13331848 ACACAGTTCA
13331858 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
13331882 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
13331906 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
13331930 CC
1 CC
13331932 AGACAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.22, C:0.42, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:13334357 original size:17 final size:16
Alignment explanation
Indices: 13334335--13334366 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13334325 CTCTTCTCTT
13334335 TCTCTCTTGTTTTCTCC
1 TCTCTCTT-TTTTCTCC
13334352 TCTCTCTTTTTTCTC
1 TCTCTCTTTTTTCTC
13334367 TGAAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.62
Consensus pattern (16 bp):
TCTCTCTTTTTTCTCC
Found at i:13334824 original size:18 final size:18
Alignment explanation
Indices: 13334790--13334824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13334780 AACCCAAAAC
*
13334790 AGTCCAAAATGTCCAAAT
1 AGTCCAAAATGTACAAAT
*
13334808 AGTCCAAAATTTACAAA
1 AGTCCAAAATGTACAAA
13334825 ACTCTTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.23
Consensus pattern (18 bp):
AGTCCAAAATGTACAAAT
Found at i:13342609 original size:21 final size:21
Alignment explanation
Indices: 13342585--13342628 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13342575 TCCATAGAAG
*
13342585 AACCACCTACCTT-AGAGTTAA
1 AACC-CCTACCTTCACAGTTAA
*
13342606 AACCTCTACCTTCACAGTTAA
1 AACCCCTACCTTCACAGTTAA
13342627 AA
1 AA
13342629 TGCGTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.39, C:0.30, G:0.07, T:0.25
Consensus pattern (21 bp):
AACCCCTACCTTCACAGTTAA
Found at i:13345135 original size:64 final size:64
Alignment explanation
Indices: 13345005--13345152 Score: 145
Period size: 64 Copynumber: 2.3 Consensus size: 64
13344995 CACACGAACA
* * * * *
13345005 TGTGTCCAGGCCGTGTAACTCTCAGAGTTAGGATTTAAAGTCACATGGGCAAGACACATTGACG
1 TGTGTCCAAGCCGTGTAACTCTCAGAGTTAGGATTTAAAGACACACGAGCAAGACACATAGACG
* * * * ** *
13345069 TGTGTCCAAGTCGTGTAACTCTCTGAGTTTGTATTTGGAGACACACGAGCAAGAGACACTAG-CG
1 TGTGTCCAAGCCGTGTAACTCTCAGAGTTAGGATTTAAAGACACACGAGCAAGACACA-TAGACG
* * *
13345133 TGTGTCTAGGCCGTGCAACT
1 TGTGTCCAAGCCGTGTAACT
13345153 TATTGACTTC
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
64 65 0.97
65 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (64 bp):
TGTGTCCAAGCCGTGTAACTCTCAGAGTTAGGATTTAAAGACACACGAGCAAGACACATAGACG
Found at i:13348234 original size:13 final size:13
Alignment explanation
Indices: 13348216--13348262 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
13348206 CAGAGACACG
13348216 GCCGTGTGTCTCA
1 GCCGTGTGTCTCA
* * * *
13348229 GCCGTGAGACACG
1 GCCGTGTGTCTCA
13348242 GCCGTGTGTCTCA
1 GCCGTGTGTCTCA
13348255 GCCGTGTG
1 GCCGTGTG
13348263 ACAGGCACGG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.11, C:0.30, G:0.36, T:0.23
Consensus pattern (13 bp):
GCCGTGTGTCTCA
Found at i:13348244 original size:26 final size:26
Alignment explanation
Indices: 13348208--13348265 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
13348198 CACATGGGCA
13348208 GAGACACGGCCGTGTGTCTCAGCCGT
1 GAGACACGGCCGTGTGTCTCAGCCGT
13348234 GAGACACGGCCGTGTGTCTCAGCCGT
1 GAGACACGGCCGTGTGTCTCAGCCGT
*
13348260 GTGACA
1 GAGACA
13348266 GGCACGGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.19
Consensus pattern (26 bp):
GAGACACGGCCGTGTGTCTCAGCCGT
Found at i:13353692 original size:31 final size:31
Alignment explanation
Indices: 13353649--13353765 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
13353639 TCAATCTCAG
13353649 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
13353679 CATATCACTGGGCCGAAGCCTTTTCATGATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
13353710 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
13353741 CATATCACTAGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
13353766 TGTAACAATA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:13353998 original size:25 final size:23
Alignment explanation
Indices: 13353970--13354029 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 23
13353960 CTGGAGGCCT
13353970 AGCCTCTTTTAATAATTGGGGCAAA
1 AGCCTCTTTTAA-AATT-GGGCAAA
*
13353995 AGCCCTCTTTGATAAACTTGGGCAAA
1 AG-CCTCTTT--TAAAATTGGGCAAA
13354021 AGCC-CTTTT
1 AGCCTCTTTT
13354030 CGGTAAACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
22 1 0.03
24 4 0.13
25 4 0.13
26 16 0.52
27 3 0.10
28 3 0.10
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (23 bp):
AGCCTCTTTTAAAATTGGGCAAA
Found at i:13354047 original size:25 final size:26
Alignment explanation
Indices: 13353986--13354078 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
13353976 TTTTAATAAT
13353986 TGGGGCAAAAGCCCTCTTT-GATAAAC
1 TGGGGCAAAAGCCCT-TTTCGATAAAC
* *
13354012 TTGGGCAAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAAGCCCTTTTCGATAAAC
13354038 TGGGGC-AAAGCCCTTTTCGAT-AAC
1 TGGGGCAAAAGCCCTTTTCGATAAAC
* *
13354062 TAGGGC-ATAGCCCTTTT
1 TGGGGCAAAAGCCCTTTT
13354079 GCACTTCCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
24 18 0.30
25 17 0.28
26 25 0.42
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
TGGGGCAAAAGCCCTTTTCGATAAAC
Found at i:13360868 original size:23 final size:27
Alignment explanation
Indices: 13360841--13360908 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 27
13360831 CGCAACACCT
*
13360841 TTTTTTATATTAAA-A-TATT-TTTTA
1 TTTTTTATATAAAATATTATTATTTTA
*
13360865 TTTTTTAAATAAAATATTATTATTTTA
1 TTTTTTATATAAAATATTATTATTTTA
13360892 -TTTTTAT-TAGAAATATT
1 TTTTTTATATA-AAATATT
13360909 TAAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 12 0.32
25 3 0.08
26 17 0.46
27 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTTTATATAAAATATTATTATTTTA
Found at i:13360887 original size:22 final size:24
Alignment explanation
Indices: 13360841--13360890 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
13360831 CGCAACACCT
* *
13360841 TTTTTTATATTAAAATATTTTTTA
1 TTTTTTATAATAAAATATTTATTA
13360865 TTTTTTA-AATAAAATA-TTATTA
1 TTTTTTATAATAAAATATTTATTA
13360887 TTTT
1 TTTT
13360891 ATTTTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 8 0.33
24 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTTATAATAAAATATTTATTA
Found at i:13361241 original size:14 final size:13
Alignment explanation
Indices: 13361224--13361264 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
13361214 GAGAAAAAGG
13361224 AGAAGAAAAAATAA
1 AGAAGAAAAAA-AA
13361238 AGAAGAAAGAAAAA
1 AGAAGAAA-AAAAA
*
13361252 AAAAGAAAAAAAA
1 AGAAGAAAAAAAA
13361265 GATAATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 17 0.68
15 3 0.12
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:13361244 original size:17 final size:17
Alignment explanation
Indices: 13361217--13361258 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13361207 AAGAGATGAG
*
13361217 AAAAAGGAG-AAGAAAA
1 AAAAAGAAGAAAGAAAA
13361233 AATAAAGAAGAAAGAAAA
1 AA-AAAGAAGAAAGAAAA
13361251 AAAAAGAA
1 AAAAAGAA
13361259 AAAAAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAAAGAAGAAAGAAAA
Found at i:13366559 original size:23 final size:23
Alignment explanation
Indices: 13366529--13366576 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
13366519 ATGAGAAGGC
*
13366529 AATATCCGAATCTGTTTTCTGGT
1 AATATCCGAATCTGTTTTCTAGT
13366552 AATATCCGAATCTGTTTTCTAGT
1 AATATCCGAATCTGTTTTCTAGT
13366575 AA
1 AA
13366577 GACTTTCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (23 bp):
AATATCCGAATCTGTTTTCTAGT
Found at i:13367619 original size:13 final size:13
Alignment explanation
Indices: 13367598--13367632 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13367588 GTTTCAGAAT
*
13367598 AACCAAAACACAG
1 AACCGAAACACAG
13367611 AACCGAAACACAG
1 AACCGAAACACAG
13367624 AACCGAAAC
1 AACCGAAAC
13367633 GATTACCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.57, C:0.31, G:0.11, T:0.00
Consensus pattern (13 bp):
AACCGAAACACAG
Found at i:13369610 original size:60 final size:60
Alignment explanation
Indices: 13369517--13369635 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
13369507 TATTTTTTAA
*
13369517 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
13369577 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
13369636 AGTTTAGTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:13370068 original size:101 final size:102
Alignment explanation
Indices: 13369831--13370102 Score: 419
Period size: 101 Copynumber: 2.7 Consensus size: 102
13369821 TTATAGTTAT
* * *
13369831 TTATTTTGTTAATAATTTATGGGATTAGG-TTACAAATTGTTAGTGTTTAG-TATAGGGTTTTGT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTTATAAATTGTTAGTGTTTAGTTATAGTGTTTTGT
13369894 GATTTTTTAGTAATGTAATTTTTTTAAAAAAAATTATAG
64 GATTTTTTAGTAATGTAATTTTTTTAAAAAAAATTATAG
*
13369933 TTATTTTGTTTGTAATTTATGATTAGGTTGTATAAATTGTTAGTGTTTAGTTAT-GTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTT-TATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
**
13369997 ATTTTTTAGTAATGT-ATTTTTTTTTAAAAAATTATAG
65 ATTTTTTAGTAATGTAATTTTTTTAAAAAAAATTATAG
13370034 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTT-TAGTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTT-TATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
13370098 ATTTT
65 ATTTT
13370103 AATGTAAATT
Statistics
Matches: 158, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
100 8 0.05
101 86 0.54
102 61 0.39
103 3 0.02
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (102 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTTATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTGA
TTTTTTAGTAATGTAATTTTTTTAAAAAAAATTATAG
Found at i:13370129 original size:15 final size:16
Alignment explanation
Indices: 13370102--13370131 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13370092 TTTGTGATTT
13370102 TAATGTAAATTTTATA
1 TAATGTAAATTTTATA
13370118 TAATGT-AATTTTAT
1 TAATGTAAATTTTAT
13370132 TTGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TAATGTAAATTTTATA
Found at i:13371633 original size:27 final size:27
Alignment explanation
Indices: 13371603--13371800 Score: 272
Period size: 27 Copynumber: 7.3 Consensus size: 27
13371593 TATTGAAATG
** *
13371603 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
13371630 CCCTCGATTTATAGAATTACCATTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
*
13371657 CCTTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
13371684 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
13371711 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
13371738 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
13371765 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
13371792 CCCTCGATT
1 CCCTCGATT
13371801 GTAAAATTAC
Statistics
Matches: 155, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 153 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:13371718 original size:81 final size:81
Alignment explanation
Indices: 13371603--13371800 Score: 308
Period size: 81 Copynumber: 2.4 Consensus size: 81
13371593 TATTGAAATG
* * *
13371603 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCTTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTA
13371668 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
13371684 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTA
13371749 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
13371765 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
13371801 GTAAAATTAC
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
80 1 0.01
81 107 0.99
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:13371822 original size:27 final size:27
Alignment explanation
Indices: 13371799--13371928 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 27
13371789 TTACCCTCGA
*
13371799 TTGTAAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
** *
13371825 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
*
13371853 TTGTAAAATTACCAAGATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
13371880 TTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
13371907 TTGTCAAATTATCGAAATACCC
1 TTGTAAAATTACCAAAATACCC
13371929 TGCGCGCTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 83 0.95
28 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:13374640 original size:55 final size:55
Alignment explanation
Indices: 13374581--13374684 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
13374571 ATAGGGTGTT
* *
13374581 ATTCAGGTTTTGTGCCTAGCAGGCTTAGTGTCGGTGTATTAATTAAGGCGTATTA
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTATTAATTAAGGCGTATTA
* * *
13374636 ATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGTGTATTGATTCAGGC
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTATTAATTAAGGC
13374685 TTTGTGCCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (55 bp):
ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTATTAATTAAGGCGTATTA
Found at i:13374681 original size:41 final size:40
Alignment explanation
Indices: 13374630--13374744 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 40
13374620 TAATTAAGGC
* **
13374630 GTATTAATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGT
1 GTATT-ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAAT
*
13374671 GTATTGATTCAGGCTTTGTGCCTAGCAGACTTAGTGCCAAT
1 GTATT-ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAAT
* *
13374712 G--TTATTTAGGCTTAGTGCCTAGCAGGCTTAGTG
1 GTATTATTCAGGCTTTGTGCCTAGCAGGCTTAGTG
13374745 TCAGTGTTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
38 27 0.41
39 2 0.03
41 37 0.56
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (40 bp):
GTATTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAAT
Found at i:13374732 original size:38 final size:38
Alignment explanation
Indices: 13374636--13374762 Score: 146
Period size: 38 Copynumber: 3.3 Consensus size: 38
13374626 AGGCGTATTA
* *
13374636 ATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGTGTATT
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTG--TT
* *
13374676 GATTCAGGCTTTGTGCCTAGCAGACTTAGTGCCAATGTT
1 -ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTT
* * *
13374715 ATTTAGGCTTAGTGCCTAGCAGGCTTAGTGTCAGTGTT
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTT
* *
13374753 ACTCAAGCTT
1 ATTCAGGCTT
13374763 AAAGCCTAGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
38 40 0.54
39 2 0.03
41 32 0.43
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (38 bp):
ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTT
Found at i:13374763 original size:38 final size:38
Alignment explanation
Indices: 13374636--13374778 Score: 142
Period size: 38 Copynumber: 3.7 Consensus size: 38
13374626 AGGCGTATTA
* * *
13374636 ATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGTGTATT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTG--TT
* * *
13374676 GATTCAGGCTTTGTGCCTAGCAGACTTAGTGCCAATGTT
1 -ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTGTT
* *
13374715 ATTTAGGCTTAGTGCCTAGCAGGCTTAGTGTCAGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTGTT
* * ** *
13374753 ACTCAAGCTTAAAGCCTAGTAGGCTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTT
13374779 GATGTCAGTG
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
38 53 0.61
39 2 0.02
41 32 0.37
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (38 bp):
ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCAGTGTT
Found at i:13377798 original size:11 final size:12
Alignment explanation
Indices: 13377763--13377803 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
13377753 GTTTGGATTT
*
13377763 AATATGTTTATT
1 AATATGTTTATA
*
13377775 AATATG-ATATA
1 AATATGTTTATA
13377786 AA-ATGTTTATA
1 AATATGTTTATA
13377797 AATATGT
1 AATATGT
13377804 GTACATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 3 0.12
11 11 0.46
12 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (12 bp):
AATATGTTTATA
Found at i:13379638 original size:23 final size:23
Alignment explanation
Indices: 13379610--13379654 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13379600 CTTATTTGTA
* *
13379610 TTTTTTATTTCATTTTTTAAGTT
1 TTTTTTAATTCATTTGTTAAGTT
*
13379633 TTTTTTAATTGATTTGTTAAGT
1 TTTTTTAATTCATTTGTTAAGT
13379655 AATAAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.69
Consensus pattern (23 bp):
TTTTTTAATTCATTTGTTAAGTT
Found at i:13393523 original size:7 final size:7
Alignment explanation
Indices: 13393508--13393538 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13393498 ACCTCATTTG
13393508 ATCCCTC
1 ATCCCTC
*
13393515 ATCCATC
1 ATCCCTC
13393522 ATCCCTC
1 ATCCCTC
13393529 ATCCCTC
1 ATCCCTC
13393536 ATC
1 ATC
13393539 ATTCTCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCCCTC
Found at i:13400694 original size:48 final size:48
Alignment explanation
Indices: 13400632--13400857 Score: 247
Period size: 48 Copynumber: 4.7 Consensus size: 48
13400622 TTATGTGTGC
* *
13400632 GCCAGTGTAAGACCATGTTTGGAACTTGGCATCGGCATTGTTATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGAGA
* ** * ** *
13400680 GCTAGTGTAAGACCATGTTTAGG-ACATGGCATCAACCTCAATATGCGA
1 GCCAGTGTAAGACCATGTTT-GGAACATGGCATCGGCATCGTTATGAGA
* *
13400728 GCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTGTTATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGAGA
* * * *
13400776 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCG-T-TATGAGA
* * * *
13400826 GCCAGCGTAAGACGATGTCTGGAACATCGCAT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCAT
13400858 TGACATTTTA
Statistics
Matches: 145, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 106 0.73
49 3 0.02
50 34 0.23
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATCGTTATGAGA
Found at i:13400766 original size:96 final size:96
Alignment explanation
Indices: 13400632--13400808 Score: 318
Period size: 96 Copynumber: 1.8 Consensus size: 96
13400622 TTATGTGTGC
* *
13400632 GCCAGTGTAAGACCATGTTTGGAACTTGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATG
*
13400697 TTTAGGACATGGCATCAACCTCAATATGCGA
66 TCTAGGACATGGCATCAACCTCAATATGCGA
13400728 GCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATG
*
13400793 TCTGGGACATGGCATC
66 TCTAGGACATGGCATC
13400809 GGCACCGATA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (96 bp):
GCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATG
TCTAGGACATGGCATCAACCTCAATATGCGA
Found at i:13407292 original size:48 final size:48
Alignment explanation
Indices: 13407228--13407557 Score: 347
Period size: 48 Copynumber: 6.9 Consensus size: 48
13407218 GGTTATGTGT
* * *
13407228 GAGCCAATGTAAGACCATGTTTAGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* * * * *** **
13407276 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCAATATTC
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* *
13407324 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* * * ** *
13407372 GAGCTAGTGTAAGACCATGTCTGGGA-ATGGCATCGGCCTTAATATGC
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* * * *
13407419 CAGCCAGTGTAAGACCATGTTTGGAACATGGCATGGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* * ** *
13407467 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATGTATAA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTG-T-TATGA
** *
13407517 GAGCCAACGTAAGACCATATCTGGAACATGGCATCGGCATT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATT
13407558 TTACCCTTTT
Statistics
Matches: 223, Mismatches: 56, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
47 38 0.17
48 147 0.66
49 1 0.00
50 37 0.17
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
Found at i:13407450 original size:95 final size:96
Alignment explanation
Indices: 13407229--13407501 Score: 449
Period size: 95 Copynumber: 2.9 Consensus size: 96
13407219 GTTATGTGTG
* * *
13407229 AGCCAATGTAAGACCATGTTTAGAACATGGCATCGGCATTGTTATGAGAGCTAGTATAAGACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCAT
* *
13407294 GTCTGGGACATGGCATCGGCCTCAATATTCG
66 GTCTGGGACATGGCATCGGCCTCAATATGCC
*
13407325 AGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAGCTAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCAT
*
13407390 GTCTGGGA-ATGGCATCGGCCTTAATATGCC
66 GTCTGGGACATGGCATCGGCCTCAATATGCC
* * *
13407420 AGCCAGTGTAAGACCATGTTTGGAACATGGCATGGGCATTGTTATGTGAGCCAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCAT
13407485 GTCTGGGACATGGCATC
66 GTCTGGGACATGGCATC
13407502 AGCACCGATG
Statistics
Matches: 166, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
95 89 0.54
96 77 0.46
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCCTCAATATGCC
Found at i:13409360 original size:37 final size:31
Alignment explanation
Indices: 13409291--13409352 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13409281 GGTGTTACAC
13409291 TGTTGGTTTACACTATTTAAAGATGCTTATG
1 TGTTGGTTTACACTATTTAAAGATGCTTATG
13409322 TGTTGGTTTACACTATTTAAAGATGCTTATG
1 TGTTGGTTTACACTATTTAAAGATGCTTATG
13409353 CTTATGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (31 bp):
TGTTGGTTTACACTATTTAAAGATGCTTATG
Found at i:13411022 original size:17 final size:19
Alignment explanation
Indices: 13410981--13411023 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
13410971 CACATCGCTG
* *
13410981 TTGCTGTCGTACGCTATCG
1 TTGCTGTCGTACGATATCC
13411000 TTGCTGTCGTAC-AT-TCC
1 TTGCTGTCGTACGATATCC
13411017 TTGCTGT
1 TTGCTGT
13411024 TGCAAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 1 0.05
19 12 0.55
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (19 bp):
TTGCTGTCGTACGATATCC
Found at i:13412999 original size:31 final size:31
Alignment explanation
Indices: 13412961--13413039 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
13412951 TTTAACAGTT
*
13412961 ACTGGGCCGAAGCCTTTTTATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
13412992 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
13413023 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
13413040 ACTGTAAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:13413109 original size:41 final size:41
Alignment explanation
Indices: 13413063--13413152 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
13413053 TGGCCCTTAG
* * *
13413063 GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATAAATGTATG-AA
13413105 -CCCATTTCAATATCACATGAAATACCAATAAATGTATGAA
1 GCCCATTTCAATATCACATGAAATACCAATAAATGTATGAA
13413145 GCCCATTT
1 GCCCATTT
13413153 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 2 0.05
41 42 0.95
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (41 bp):
GCCCATTTCAATATCACATGAAATACCAATAAATGTATGAA
Found at i:13413344 original size:26 final size:27
Alignment explanation
Indices: 13413297--13413366 Score: 106
Period size: 26 Copynumber: 2.6 Consensus size: 27
13413287 CCTCTTTAAT
13413297 AACTGGGGCATAAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTTCAATA
**
13413324 AACTGGGGCATAAGCCC-TTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTTCAATA
*
13413350 AATTGGGGCATAAGCCC
1 AACTGGGGCATAAGCCC
13413367 ATTTGCACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 23 0.57
27 17 0.43
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (27 bp):
AACTGGGGCATAAGCCCTTTTTCAATA
Found at i:13413425 original size:16 final size:16
Alignment explanation
Indices: 13413404--13413434 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13413394 ACCCAACCCA
*
13413404 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
13413420 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
13413435 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:13413557 original size:43 final size:43
Alignment explanation
Indices: 13413510--13413594 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
13413500 TCCGTCAACC
13413510 ACACAGTCCAAGTCAGTCACTTGCCCAC-AAGGTCAAAACAATA
1 ACACAGTCCAAGTCAGTCACTTGCCCACAAAGG-CAAAACAATA
13413553 ACACAGTCCAAGTCAGTCACTTGCCCACAAAGGCAAAACAAT
1 ACACAGTCCAAGTCAGTCACTTGCCCACAAAGGCAAAACAAT
13413595 CATTTTTCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.40, C:0.31, G:0.14, T:0.15
Consensus pattern (43 bp):
ACACAGTCCAAGTCAGTCACTTGCCCACAAAGGCAAAACAATA
Found at i:13414262 original size:27 final size:27
Alignment explanation
Indices: 13414232--13414294 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
13414222 TTTACCATAC
13414232 AGGGGTATTACGGTCACTTTAACCTA-T
1 AGGGGTATTACGGTC-CTTTAACCTATT
* *
13414259 AGGGGCT-TTACGGTCTTTTTACCTATT
1 AGGGG-TATTACGGTCCTTTAACCTATT
13414286 AGGGGTATT
1 AGGGGTATT
13414295 TTAGTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 9 0.29
27 21 0.68
28 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (27 bp):
AGGGGTATTACGGTCCTTTAACCTATT
Found at i:13414365 original size:27 final size:27
Alignment explanation
Indices: 13414341--13414604 Score: 169
Period size: 27 Copynumber: 9.7 Consensus size: 27
13414331 CTACAAACCG
*
13414341 AGGGTATTTCAGTAATTTTGTAAA-CAA
1 AGGGTATTTCGGTAATTTTGTAAATC-A
* **
13414368 ATGGTATTTCTATAATTTT-TAGAAAGTCA
1 AGGGTATTTCGGTAATTTTGT--AAA-TCA
*
13414397 AGGGTATTTCTGTAATTTTGTAAATCA
1 AGGGTATTTCGGTAATTTTGTAAATCA
* ** **
13414424 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTGTAAATCA
*** *
13414451 AGGGTATTTCGGTAATTTCACAAA-CT
1 AGGGTATTTCGGTAATTTTGTAAATCA
* **
13414477 AGTGGTATTTTGGTAATTTTACAAA-CTA
1 AG-GGTATTTCGGTAATTTTGTAAATC-A
* * *
13414505 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCGGTAATTTTGTAAATCA
** *
13414532 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCA
*** * * *
13414559 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCA
13414586 AGGGTACTTT-GGTAATTTT
1 AGGGTA-TTTCGGTAATTTT
13414605 ACAAATTGAG
Statistics
Matches: 192, Mismatches: 36, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.02
27 161 0.84
28 8 0.04
29 18 0.09
30 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCA
Found at i:13414484 original size:54 final size:54
Alignment explanation
Indices: 13414312--13414615 Score: 220
Period size: 54 Copynumber: 5.6 Consensus size: 54
13414302 TTTCATCCTA
* * * ** * **
13414312 CAAGGGTGTTTTGGTAAATCTACAAACCGAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCATAAAC
* * * * ** * ** *
13414366 AAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-TTGAGGGTATTTCGGTAATTTCATAAAC
*
13414422 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCATAAAC
* * * **
13414475 CTAGTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCATAAAC
* ** * *** *
13414530 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTC-ATAAAC
* *
13414584 CGAGGGTACTTTGGTAATTTTACAAATTGAGG
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGG
13414616 ACATTAAAGT
Statistics
Matches: 195, Mismatches: 46, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
53 6 0.03
54 133 0.68
55 20 0.10
56 36 0.18
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCATAAAC
Found at i:13414610 original size:27 final size:27
Alignment explanation
Indices: 13414397--13414615 Score: 183
Period size: 27 Copynumber: 8.1 Consensus size: 27
13414387 TAGAAAGTCA
** *
13414397 AGGGTATTTCT-GTAATTTTGTAAATCA
1 AGGGTATTT-TGGTAATTTTACAAATCG
*
13414424 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
13414451 AGGGTATTTCGGTAATTTCACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAATCG
*
13414477 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTACAAATCG
** * *
13414504 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTTGGTAATTTTACAAATCG
* **
13414532 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**** * *
13414559 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
13414586 AGGGTACTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
13414613 AGG
1 AGG
13414616 ACATTAAAGT
Statistics
Matches: 158, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 152 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:13419137 original size:21 final size:21
Alignment explanation
Indices: 13419112--13419161 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
13419102 ATTGTTGAGA
**
13419112 AGGAAGTTATTGCTGCAGAAG
1 AGGAAGTTATTGCTAAAGAAG
* *
13419133 AGGAATTTGTTGCTAAAGAAG
1 AGGAAGTTATTGCTAAAGAAG
*
13419154 AAGAAGTT
1 AGGAAGTT
13419162 GCTGAAAATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (21 bp):
AGGAAGTTATTGCTAAAGAAG
Found at i:13419626 original size:17 final size:17
Alignment explanation
Indices: 13419604--13419636 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13419594 ATAAGTACAC
*
13419604 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
13419621 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
13419637 CATGTTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:13422272 original size:23 final size:23
Alignment explanation
Indices: 13422246--13422291 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13422236 GGGATATTAG
13422246 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
13422269 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
13422292 TTAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:13422944 original size:99 final size:94
Alignment explanation
Indices: 13422737--13422959 Score: 245
Period size: 92 Copynumber: 2.3 Consensus size: 94
13422727 ATTGGTGTGA
* * ** ** * **
13422737 GCCAGTGTAAGACCATGTCCAGGACATAGCATCGGCATTGAGATG--AGTGCTAGTGTAAGACAT
1 GCCAGTGTAAAACCATGTCCGGGACATAGCATTAGCACGGATATGCAAAAGCTAGTGTAAGACAT
13422800 GTCTGGGACATGCATCGGCTACGAGATGT
66 GTCTGGGACATGCATCGGCTACGAGATGT
* * *
13422829 GTCAGTGTAAAACCATGTCTGGGACATGGCATTAGCACGGATATGCAAAAGCTAGTGTAAGACCA
1 GCCAGTGTAAAACCATGTCCGGGACATAGCATTAGCACGGATATGCAAAAGCTAGTGTAAGA-CA
*
13422894 TGTTTGGGACATGGCATCGGCCT-CGATGATGAT
65 TGTCTGGGACAT-GCATCGG-CTACGA-GATG-T
*
13422927 AGCCAGTGTAAGACCATGTCCGGGACATAGCAT
1 -GCCAGTGTAAAACCATGTCCGGGACATAGCAT
13422960 CGGTAACTTA
Statistics
Matches: 106, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
92 35 0.33
94 13 0.12
95 13 0.12
96 10 0.09
97 6 0.06
98 1 0.01
99 28 0.26
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAAACCATGTCCGGGACATAGCATTAGCACGGATATGCAAAAGCTAGTGTAAGACAT
GTCTGGGACATGCATCGGCTACGAGATGT
Found at i:13426339 original size:46 final size:46
Alignment explanation
Indices: 13426249--13426377 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 46
13426239 CGTTGGTGTG
*
13426249 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACG-A
1 AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCATCGAGACGTA
* * * *
13426296 GTGCTAGTGTAAGACATTTTTGGGACATGCATCGGCCTCGAGACGTA
1 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCATCGAGACGTA
* *
13426343 AGCCCGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCGGC
13426378 TATGAGATGT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 45 0.64
47 14 0.20
48 11 0.16
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCATCGAGACGTA
Found at i:13432411 original size:4 final size:4
Alignment explanation
Indices: 13432402--13432431 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13432392 TATATTGCTG
13432402 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
13432432 ATGCTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:13433455 original size:36 final size:36
Alignment explanation
Indices: 13433408--13433483 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
13433398 AATAATAGTG
13433408 TATTATTTTAAAATGTAGTAAATAAAATATTTTAAA
1 TATTATTTTAAAATGTAGTAAATAAAATATTTTAAA
*
13433444 TATTATTTTAAAATGTAGTAAATAAAATATTTTAAG
1 TATTATTTTAAAATGTAGTAAATAAAATATTTTAAA
13433480 TATT
1 TATT
13433484 TTAATATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (36 bp):
TATTATTTTAAAATGTAGTAAATAAAATATTTTAAA
Found at i:13433553 original size:26 final size:26
Alignment explanation
Indices: 13433523--13433586 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
13433513 ATTAAGAATG
13433523 TTATTAAATTAT-ATTTAATAATAATTA
1 TTATTAAATTATGA-TTAA-AATAATTA
* * *
13433550 -TATTAAAATATGATTAAATTATTTA
1 TTATTAAATTATGATTAAAATAATTA
13433575 TTATTAAATTAT
1 TTATTAAATTAT
13433587 TTAAAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 6 0.19
26 24 0.77
27 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATTAAATTATGATTAAAATAATTA
Found at i:13443611 original size:54 final size:54
Alignment explanation
Indices: 13443496--13443671 Score: 162
Period size: 54 Copynumber: 3.3 Consensus size: 54
13443486 TTCACAGACT
* * *
13443496 GTGTAACTAACTGTGCCCGTGTAG-TAAAAGGACACACGG-TCGTGTCGCCAGGCC
1 GTGTAACTCACTGTGCCCGTGTAGCT-AAGGGTCACACGGCT-GTGTCGCCAGGCC
* *
13443550 GTTTAACTCACTGTGCCCGTGTAGCTTAGGGTCACACGGCTGTGTCGCCAGGCC
1 GTGTAACTCACTGTGCCCGTGTAGCTAAGGGTCACACGGCTGTGTCGCCAGGCC
* *** * * * * * *
13443604 ATGTAACTTTTTGTGCCCGTATGGCTCAGGGTTACACGGC--TGTCACTAGGCC
1 GTGTAACTCACTGTGCCCGTGTAGCTAAGGGTCACACGGCTGTGTCGCCAGGCC
*
13443656 GTGTAACTCTCTGTGC
1 GTGTAACTCACTGTGC
13443672 TTGTGTGGAC
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
52 23 0.23
54 76 0.75
55 2 0.02
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (54 bp):
GTGTAACTCACTGTGCCCGTGTAGCTAAGGGTCACACGGCTGTGTCGCCAGGCC
Found at i:13455837 original size:24 final size:25
Alignment explanation
Indices: 13455809--13455856 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
13455799 TGCTATGTAA
13455809 GAGCATG-T-TGAGTATATGTTATAC
1 GAGCATGATATGA-TATATGTTATAC
13455833 GAGCATGCATATGATATATGTTAT
1 GAGCATG-ATATGATATATGTTAT
13455857 TATGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.33
26 11 0.52
27 3 0.14
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (25 bp):
GAGCATGATATGATATATGTTATAC
Found at i:13463921 original size:42 final size:42
Alignment explanation
Indices: 13463868--13463983 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 42
13463858 TCGTTTCAAT
* * *
13463868 GCCATATCCCCGATATGGTCTTACATGAAAT-ATCATATCGAT
1 GCCATATCCCCGATATGGTCTTACACGAAATCA-CATACCGAG
* * * *
13463910 GTCATGTCCCCGACATGGTCTTATACGAAATCACATACCGAG
1 GCCATATCCCCGATATGGTCTTACACGAAATCACATACCGAG
* * *
13463952 GCCATATCCCGGATATGGTCTTATACAAAATC
1 GCCATATCCCCGATATGGTCTTACACGAAATC
13463984 TTAATAACCT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
GCCATATCCCCGATATGGTCTTACACGAAATCACATACCGAG
Found at i:13471028 original size:20 final size:20
Alignment explanation
Indices: 13471005--13471044 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13470995 TTTATTATTC
13471005 TTATGGATCTTTGTAAAAGT
1 TTATGGATCTTTGTAAAAGT
13471025 TTATGGATCTTTGTAAAAGT
1 TTATGGATCTTTGTAAAAGT
13471045 ACTCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (20 bp):
TTATGGATCTTTGTAAAAGT
Found at i:13478114 original size:26 final size:26
Alignment explanation
Indices: 13478085--13478135 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
13478075 ACACTTAATG
*
13478085 TTACTGGCAACTACGCTGCGTTATTA
1 TTACTGGCAACTACGCTGCGATATTA
* * *
13478111 TTACTGGTAGCTTCGCTGCGATATT
1 TTACTGGCAACTACGCTGCGATATT
13478136 GGTGTGCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TTACTGGCAACTACGCTGCGATATTA
Found at i:13483042 original size:79 final size:80
Alignment explanation
Indices: 13482943--13483163 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
13482933 CTCGTTCAAG
* * ** * *
13482943 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
13483006 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
13483022 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
13483087 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
13483102 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
13483164 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:13483094 original size:80 final size:80
Alignment explanation
Indices: 13482983--13483163 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
13482973 CTCATTCAAT
* * *
13482983 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
13483046 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
13483062 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
13483126 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
13483143 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
13483164 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:13483123 original size:40 final size:40
Alignment explanation
Indices: 13482980--13483163 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
13482970 TAACTCATTC
* *
13482980 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
13483020 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
13483060 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
13483100 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
13483141 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13483164 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:13490946 original size:79 final size:80
Alignment explanation
Indices: 13490847--13491067 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
13490837 CTCGTTCAAG
* * ** * *
13490847 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
13490910 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
13490926 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
13490991 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
13491006 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
13491068 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:13490998 original size:80 final size:80
Alignment explanation
Indices: 13490887--13491067 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
13490877 CTCATTCAAT
* * *
13490887 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
13490950 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
13490966 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
13491030 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
13491047 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
13491068 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:13491027 original size:40 final size:40
Alignment explanation
Indices: 13490884--13491067 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
13490874 TAACTCATTC
* *
13490884 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
13490924 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
13490964 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
13491004 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
13491045 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13491068 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:13500858 original size:31 final size:32
Alignment explanation
Indices: 13500792--13500858 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
13500782 TATGATCTAT
*
13500792 ATTCTAGTGTAGTGGGATCTCTCATGTATTCTATGC
1 ATTCTAGTGCAGTGGGATCTCTCATG---T-TATGC
13500828 ATTCTAGTGCAGTGGGATCTCTCATG-TATGC
1 ATTCTAGTGCAGTGGGATCTCTCATGTTATGC
13500859 TACGGTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 5 0.17
36 25 0.83
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (32 bp):
ATTCTAGTGCAGTGGGATCTCTCATGTTATGC
Found at i:13501517 original size:13 final size:13
Alignment explanation
Indices: 13501482--13501518 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13501472 CTATTATATA
13501482 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
13501495 ATTTAGTCTTTAG
1 ATTTTCTCTTTAG
13501508 ATTTTCTCTTT
1 ATTTTCTCTTT
13501519 TCTTAAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTTCTCTTTAG
Found at i:13503489 original size:29 final size:29
Alignment explanation
Indices: 13503447--13503502 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
13503437 GGTGTTACAA
13503447 TCATCATTCAAATAAATCAAGTTTGATAC
1 TCATCATTCAAATAAATCAAGTTTGATAC
*
13503476 TCATCGTTCAAATAAATCAAGTTTGAT
1 TCATCATTCAAATAAATCAAGTTTGAT
13503503 CCATCTAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (29 bp):
TCATCATTCAAATAAATCAAGTTTGATAC
Found at i:13505157 original size:45 final size:45
Alignment explanation
Indices: 13505107--13505201 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
13505097 ATTGGTCATA
* *
13505107 AAACATGCATTTAACACACATGACATTTTACCAACCATGCATGGC
1 AAACATGCATTCAACACACATGACATATTACCAACCATGCATGGC
*
13505152 AAACATGCATTCAACACACATGACATATTACCAACGATGCATGGC
1 AAACATGCATTCAACACACATGACATATTACCAACCATGCATGGC
13505197 AAACA
1 AAACA
13505202 AACATATTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (45 bp):
AAACATGCATTCAACACACATGACATATTACCAACCATGCATGGC
Found at i:13506444 original size:50 final size:50
Alignment explanation
Indices: 13506369--13506610 Score: 250
Period size: 50 Copynumber: 4.8 Consensus size: 50
13506359 ACCGAAGCTC
* * *
13506369 TCTGGTACGCATAGTAGCCTACACTTAATACTACACATACGACCTAACAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAA
* * * *
13506419 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCTAA-CAA
* ** * *
13506470 TCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAA
* * * * * *
13506520 TCTGGTACACGTAGTAGCATGCACTTAGTACTACACACGTGACCTAAAACTA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCT--AACAA
*** * *
13506572 TCTTAAACACATAGTAGCCTGCACATAGTACTACACATG
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATG
13506611 TGTTCACAAC
Statistics
Matches: 157, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
50 80 0.51
51 41 0.26
52 36 0.23
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAA
Found at i:13506536 original size:101 final size:101
Alignment explanation
Indices: 13506361--13506561 Score: 303
Period size: 101 Copynumber: 2.0 Consensus size: 101
13506351 CCCTTGTAAC
* * *
13506361 CGAAGCTCTCTGGTACGCATAGTAGCCTACACTTAATACTACACATACGACCTAACAATCTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAATCTGGTA
* *
13506426 CACATAGTAGCCTACACTTAGTACTACACATGTGAT
66 CACATAGTAGCATACACTTAGTACTACACACGTGAT
* * * *
13506462 CGAAGCTATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAATCTGGTA
* *
13506527 CACGTAGTAGCATGCACTTAGTACTACACACGTGA
66 CACATAGTAGCATACACTTAGTACTACACACGTGA
13506562 CCTAAAACTA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CGAAGCTATCGGGTACGCATAGTAGCCTACACTTAATACTACACATACAACCTAACAATCTGGTA
CACATAGTAGCATACACTTAGTACTACACACGTGAT
Found at i:13518245 original size:30 final size:30
Alignment explanation
Indices: 13518211--13518292 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
13518201 TCAGGCATTG
13518211 ACATTGGCATCGACTGCTACATGGGCATCT
1 ACATTGGCATCGACTGCTACATGGGCATCT
* * * *
13518241 ACATTAGCATCAACTACTGCATGGGCATCT
1 ACATTGGCATCGACTGCTACATGGGCATCT
* * * *
13518271 ACATCGACATTGATTGCTACAT
1 ACATTGGCATCGACTGCTACAT
13518293 CAGCATCTGC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (30 bp):
ACATTGGCATCGACTGCTACATGGGCATCT
Found at i:13519652 original size:22 final size:22
Alignment explanation
Indices: 13519627--13519670 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13519617 TAGTCATATA
13519627 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
13519649 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
13519671 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:13519706 original size:13 final size:14
Alignment explanation
Indices: 13519690--13519731 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
13519680 TTTCAATTTT
13519690 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
13519703 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
13519718 ATTTTAAATAATAT
1 ATTTT-AATAATAT
13519732 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:13519716 original size:16 final size:16
Alignment explanation
Indices: 13519694--13519730 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
13519684 AATTTTATTT
13519694 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
13519711 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
13519726 TAATA
1 TAATA
13519731 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:13519781 original size:15 final size:15
Alignment explanation
Indices: 13519749--13519819 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
13519739 ATATTATTGA
13519749 AAAT-TTTTAA-AAT
1 AAATATTTTAATAAT
*
13519762 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
13519777 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
13519796 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
13519811 AAATGTTTT
1 AAATATTTT
13519820 GTAGTATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 3 0.07
14 6 0.13
15 19 0.42
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:13522980 original size:18 final size:17
Alignment explanation
Indices: 13522959--13523002 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
13522949 TTAAATAATA
*
13522959 TATAAATTTTGGAATTTT
1 TATAAATTTT-GAAATTT
*
13522977 TATAAATATTTTAAATTT
1 TATAAAT-TTTGAAATTT
13522995 TATAAATT
1 TATAAATT
13523003 ATTTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TATAAATTTTGAAATTT
Found at i:13523014 original size:19 final size:18
Alignment explanation
Indices: 13522971--13523014 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13522961 TAAATTTTGG
13522971 AATTTTTATAAATATTTT
1 AATTTTTATAAATATTTT
*
13522989 AAATTTTATAAATTATTTT
1 AATTTTTATAAA-TATTTT
*
13523008 GATTTTT
1 AATTTTT
13523015 TTGTAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTTTTATAAATATTTT
Found at i:13525782 original size:28 final size:28
Alignment explanation
Indices: 13525742--13525795 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
13525732 AAAGTTTCTT
13525742 TTTTTAAAATTTTTTTTTATACTAACCG
1 TTTTTAAAATTTTTTTTTATACTAACCG
*
13525770 TTTTTAAACTTTTTTTTTATACTAAC
1 TTTTTAAAATTTTTTTTTATACTAAC
13525796 TTTTATAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTTAAAATTTTTTTTTATACTAACCG
Found at i:13534104 original size:70 final size:70
Alignment explanation
Indices: 13534002--13534635 Score: 700
Period size: 70 Copynumber: 9.1 Consensus size: 70
13533992 CCTTCAAATG
* * * * ***
13534002 GTTAGCAATAGTTAAAAGCTCCTAACTTTCATTCTAAGTCTCACAGGTTTAATACCATGGCCTCC
1 GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
13534067 AAACA
66 AAACA
* * * *
13534072 GTTACCAAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCG-TGCCCTC
1 GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAG-CCTC
*
13534136 CATACA
65 CAAACA
* * * * *
13534142 GTTTAGCAAGAGTTAAAAGCTCCCAATTGTCATTATAAGGCTCACAGGTTTAATACCGC-GACCT
1 G-TTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAG-CCT
13534206 CCAAACA
64 CCAAACA
* * *
13534213 ATTAGCAAGAGTTAAAAGCT-CTCAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTC
1 GTTAGCAAGAGTTAAAAGCTCCT-AACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTC
* *
13534277 TAAATA
65 CAAACA
* * * * *
13534283 GTTAACGAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAGCCTCC
1 GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
*
13534348 ATACA
66 AAACA
** * *
13534353 GTTAGTGAGAGTTAAAAGCTCCCAACTATCATTCTAAGGTTCGCAGGTTTAATACCGCAGCCTCC
1 GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
13534418 AAACA
66 AAACA
* ** ** * * * * *
13534423 GTTAGCGAGAGTTAAAAGCTTTTAGTTTTCATTCTAAGGCTCGCAGGTTTAATATCGTAGCTTCT
1 GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
13534488 AAACA
66 AAACA
* * ** * * *
13534493 GTTAGCGAGAGTTAAAAGCTCTTAGGTGTCATTCTAAGGCTCACAGGTTTAATACCGCAGTCTCC
1 GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
*
13534558 AAATA
66 AAACA
* * * * *
13534563 GTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGTAGATTTGATACCGCAACC-CC
1 GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
*
13534627 AAATA
66 AAACA
13534632 GTTA
1 GTTA
13534636 ACGCGAGCTC
Statistics
Matches: 478, Mismatches: 80, Indels: 13
0.84 0.14 0.02
Matches are distributed among these distances:
69 13 0.03
70 405 0.85
71 60 0.13
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (70 bp):
GTTAGCAAGAGTTAAAAGCTCCTAACTATCATTCTAAGGCTCGCAGGTTTAATACCGCAGCCTCC
AAACA
Found at i:13534467 original size:210 final size:210
Alignment explanation
Indices: 13534002--13534635 Score: 844
Period size: 210 Copynumber: 3.0 Consensus size: 210
13533992 CCTTCAAATG
* * * * *
13534002 GTTAGCAATAGTTAAAAGCTC-CTAACTTTCATTCTAAGTCTCACAGGTTTAATACCATGGCCTC
1 GTTAGCAAGAGTTAAAAGCTCTC-AACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTC
* * * *
13534066 CAAACAGTTACCAAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCG-T
65 TAAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCA
* * * *
13534130 GCCCTCCATACAGTTTAGCAAGAGTTAAAAGCTCCCAATTGTCATTATAAGGCTCACAGGTTTAA
130 G-CCTCCATACAG-TTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAA
13534195 TACCGC-GACCTCCAAACA
193 TACCGCAG-CCTCCAAACA
*
13534213 ATTAGCAAGAGTTAAAAGCTCTCAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
1 GTTAGCAAGAGTTAAAAGCTCTCAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
* *
13534278 AAATAGTTAACGAGAGTTAAAAGCTCCCAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
66 AAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
** *
13534343 CCTCCATACAGTTAGTGAGAGTTAAAAGCTCCCAACTATCATTCTAAGGTTCGCAGGTTTAATAC
131 CCTCCATACAGTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAATAC
13534408 CGCAGCCTCCAAACA
196 CGCAGCCTCCAAACA
* * * ** * *
13534423 GTTAGCGAGAGTTAAAAGCTTTTAGTTTTCATTCTAAGGCTCGCAGGTTTAATATCGTAGCTTCT
1 GTTAGCAAGAGTTAAAAGCTCTCAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
* * * * **
13534488 AAACAGTTAGCGAGAGTTAAAAGCTCTTAGGTGTCATTCTAAGGCTCACAGGTTTAATACCGCAG
66 AAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
* * * * * *
13534553 TCTCCAAATAGTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGTAGATTTGATAC
131 CCTCCATACAGTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAATAC
* *
13534618 CGCAACC-CCAAATA
196 CGCAGCCTCCAAACA
13534632 GTTA
1 GTTA
13534636 ACGCGAGCTC
Statistics
Matches: 374, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
209 10 0.03
210 236 0.63
211 126 0.34
212 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (210 bp):
GTTAGCAAGAGTTAAAAGCTCTCAACTTTCATTCTAAGGCTCGCAGGTTTAATACCGTAGCCTCT
AAACAGTTAACGAGAGTTAAAAGCTCCTAGCTATCATTCTAAGGCTTGCAGGTTTAATACCGCAG
CCTCCATACAGTTAGCAAGAGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTTAATAC
CGCAGCCTCCAAACA
Found at i:13538339 original size:3 final size:3
Alignment explanation
Indices: 13538331--13538365 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
13538321 TATAAAATAC
* *
13538331 TAT TAT TAT TAT AAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13538366 GTATATGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:13538547 original size:22 final size:23
Alignment explanation
Indices: 13538522--13538584 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
13538512 ATGTTTTCAT
*
13538522 ATACTATTATGTATATATC-TTA
1 ATACTATTATGTATATACCTTTA
*
13538544 ATACTATTA-GTTATATACCTTTT
1 ATACTATTATG-TATATACCTTTA
13538567 ATACTATTGTATGTATAT
1 ATACTA-T-TATGTATAT
13538585 TTCTATATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 16 0.47
23 8 0.24
24 1 0.03
25 7 0.21
26 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (23 bp):
ATACTATTATGTATATACCTTTA
Found at i:13539074 original size:25 final size:25
Alignment explanation
Indices: 13539000--13539076 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
13538990 TTATATTATC
* * *
13539000 TTATGGATATATCTTTTATAACTACA
1 TTATGCATATATCTTTAAT-ACTATA
** * **
13539026 TTATGCACGTATTTTTAACGCTATA
1 TTATGCATATATCTTTAATACTATA
*
13539051 TTATGTATATATCTTTAATACTATA
1 TTATGCATATATCTTTAATACTATA
13539076 T
1 T
13539077 ATACTTTTTT
Statistics
Matches: 37, Mismatches: 14, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
25 24 0.65
26 13 0.35
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (25 bp):
TTATGCATATATCTTTAATACTATA
Found at i:13541064 original size:7 final size:7
Alignment explanation
Indices: 13541044--13541079 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
13541034 TAATTAAACA
13541044 TAATATT
1 TAATATT
13541051 T-ATATT
1 TAATATT
13541057 TAATATT
1 TAATATT
13541064 TAATATT
1 TAATATT
13541071 TAATTATT
1 TAA-TATT
13541079 T
1 T
13541080 GATTCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.22
7 16 0.59
8 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TAATATT
Found at i:13541071 original size:14 final size:13
Alignment explanation
Indices: 13541044--13541079 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
13541034 TAATTAAACA
13541044 TAATATTTATATT
1 TAATATTTATATT
13541057 TAATATTTAATATT
1 TAATATTT-ATATT
13541071 TAATTATTT
1 TAA-TATTT
13541080 GATTCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATATTTATATT
Done.