Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold393
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: 702984
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 6
Found at i:139598 original size:39 final size:38
Alignment explanation
Indices: 139555--139636 Score: 87
Period size: 39 Copynumber: 2.1 Consensus size: 38
139545 TTTTTTTAAA
139555 TTAATAAAAAAATATAA-TTAATAATTA-ATTAAAATATAT
1 TTAATAAAAAAATATAATTTAAT-ATTACATTAAAA-AT-T
** *
139594 TTAATTTAATAATATAATTTTAATATTACATTAAAAATT
1 TTAATAAAAAAATATAA-TTTAATATTACATTAAAAATT
139633 TTAA
1 TTAA
139637 AATTAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
39 19 0.51
40 6 0.16
41 12 0.32
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (38 bp):
TTAATAAAAAAATATAATTTAATATTACATTAAAAATT
Found at i:139634 original size:20 final size:19
Alignment explanation
Indices: 139572--139642 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 19
139562 AAAAATATAA
139572 TTAATAATTAATTAAAATATAT
1 TTAAT-ATTAATTAAAA-AT-T
139594 TTAAT-TTAA-TAATATAATT
1 TTAATATTAATTAA-A-AATT
139613 TTAATATTACATTAAAAATT
1 TTAATATTA-ATTAAAAATT
*
139633 TTAAAATTAA
1 TTAATATTAA
139643 AATTTTATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
19 10 0.23
20 22 0.51
21 3 0.07
22 8 0.19
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAATATTAATTAAAAATT
Found at i:139643 original size:15 final size:16
Alignment explanation
Indices: 139623--139661 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
139613 TTAATATTAC
139623 ATTAAAAATTTTA-AA
1 ATTAAAAATTTTATAA
139638 ATT-AAAATTTTATAA
1 ATTAAAAATTTTATAA
*
139653 ATTATAAAT
1 ATTAAAAAT
139662 AAAATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.43
15 8 0.38
16 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAAAATTTTATAA
Found at i:139677 original size:23 final size:22
Alignment explanation
Indices: 139624--139683 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
139614 TAATATTACA
139624 TTAAAAATTTTAAAATTAAAATT
1 TTAAAAATTTT-AAATTAAAATT
* *
139647 TTATAAATTATAAA-TAAAATT
1 TTAAAAATTTTAAATTAAAATT
139668 TTAAAAAAATTTTAAA
1 TT--AAAAATTTTAAA
139684 AACACATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 19 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAAAATTTTAAATTAAAATT
Found at i:139684 original size:10 final size:11
Alignment explanation
Indices: 139651--139685 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
139641 AAAATTTTAT
*
139651 AAATTATAAATA
1 AAATTTTAAA-A
139663 AAATTTTAAAA
1 AAATTTTAAAA
139674 AAATTTTAAAA
1 AAATTTTAAAA
139685 A
1 A
139686 CACATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATTTTAAAA
Found at i:140854 original size:19 final size:18
Alignment explanation
Indices: 140806--140855 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
140796 TATGACATAA
*
140806 AAAAAATATATAAAATAT
1 AAAAAATATATACAATAT
*
140824 AAAATATA-ATACAATAT
1 AAAAAATATATACAATAT
140841 AAAAAATAATATACA
1 AAAAAAT-ATATACA
140856 CATGATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 14 0.52
18 8 0.30
19 5 0.19
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATATATACAATAT
Found at i:140929 original size:18 final size:17
Alignment explanation
Indices: 140881--140947 Score: 56
Period size: 18 Copynumber: 4.1 Consensus size: 17
140871 ATAATATCTC
140881 AAAATTTATAT-AATAT
1 AAAATTTATATAAATAT
*
140897 -AAA-TTATCA-ATATAT
1 AAAATTTAT-ATAAATAT
140912 CAAAATTTATATAAATAT
1 -AAAATTTATATAAATAT
140930 AAAATATT-T-TAAATAT
1 AAAAT-TTATATAAATAT
140946 AA
1 AA
140948 TTATAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
14 4 0.10
15 8 0.19
16 9 0.21
17 10 0.24
18 11 0.26
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:141792 original size:2 final size:2
Alignment explanation
Indices: 141785--141819 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
141775 TTTAGACACA
141785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
141820 TCACCACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:142719 original size:21 final size:23
Alignment explanation
Indices: 142693--142734 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
142683 TTATACAATA
142693 TTTTTTAAAT-TA-ATTTTTTAT
1 TTTTTTAAATATATATTTTTTAT
142714 TTTTTTAAATATATATTTTTT
1 TTTTTTAAATATATATTTTTT
142735 TAAAAAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 2 0.11
23 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTTAAATATATATTTTTTAT
Found at i:143861 original size:26 final size:25
Alignment explanation
Indices: 143832--143886 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
143822 TATAATATTC
*
143832 AAATTTAAATT-TGAATAATTGTTTCA
1 AAATCTAAATTAT-AATAATT-TTTCA
* *
143858 AAATCTAGATTATAATAATTTTTTA
1 AAATCTAAATTATAATAATTTTTCA
143883 AAAT
1 AAAT
143887 AGAATTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 8 0.32
26 16 0.64
27 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (25 bp):
AAATCTAAATTATAATAATTTTTCA
Found at i:144358 original size:17 final size:17
Alignment explanation
Indices: 144336--144368 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
144326 TTACTTAACG
144336 TATAAAAAAAACTTTAA
1 TATAAAAAAAACTTTAA
*
144353 TATAAATAAAACTTTA
1 TATAAAAAAAACTTTA
144369 CATTTTTTTC
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:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAAAAACTTTAA
Found at i:144739 original size:25 final size:26
Alignment explanation
Indices: 144690--144744 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
144680 TGTAATATTT
*
144690 AAATTTGAATTTAAATAATTATTTTA
1 AAATTTAAATTTAAATAATTATTTTA
* *
144716 AAATTTAAATTTTAAT-ATTTTTTTA
1 AAATTTAAATTTAAATAATTATTTTA
144741 AAAT
1 AAAT
144745 AGAATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATTTAAATTTAAATAATTATTTTA
Found at i:144817 original size:21 final size:21
Alignment explanation
Indices: 144793--144868 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
144783 AGTCTTAAAG
144793 TTTTTATTTATATTTCATTAA
1 TTTTTATTTATATTTCATTAA
* * * *
144814 TTTTTAGTTATTTTTAAACTAA
1 TTTTTATTTATATTT-CATTAA
144836 -TTTTATTTAT-TTATC-TTATA
1 TTTTTATTTATATT-TCATTA-A
144856 TTTTTATTATATA
1 TTTTTATT-TATA
144869 ATTATTTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 2 0.05
20 3 0.07
21 30 0.71
22 7 0.17
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTTATTTATATTTCATTAA
Found at i:144939 original size:858 final size:865
Alignment explanation
Indices: 143425--145115 Score: 2760
Period size: 861 Copynumber: 2.0 Consensus size: 865
143415 TAAGATATAT
143425 TTAAAAATAAATAAAACATATAATAATTTTTTAATTTCACTTAACATATAAAAGAAAAGGAACTT
1 TTAAAAATAAATAAAACATATAATAATTTTTTAATTTCACTTAACATAT-AAAGAAAA-GAACTT
*
143490 TAACATAAATAAAGCTTTACAGTTTTTTCTTTTAAATTTAAATCTTTTCAAAAGTAAGATGAAAC
64 TAACATAAATAAAACTTTACAGTTTTTTCTTTTAAATTTAAATCTTTTCAAAAGTAAGATGAAAC
*
143555 TACTCTTTTTTACTTAAGTTAATCATTTTATTTATAATTTTTTATTATTTTTCATCTTTTATTCC
129 TACTCTTTTTCACTTAAGTTAATCATTTTATTTATAATTTTTTATTATTTTTCATCTTTTATTCC
143620 AAACATAACCAAAAAAAAAAAAAAAATTCCCTCCTTTCATATTTTTTTTTCTTTTTATTTATTAT
194 AAACATAACC-AAAAAAAAAAAAAAATTCCCTCCTTTCATATTTTTTTTTCTTTTTATTTATTAT
143685 CCTAAATTGGCTTTTCGACTAGTTGTTAAGGCACTAGCGTGGAAGCGTGAGAAAGACGTGATCCA
258 CCTAAATTGGCTTTTCGACTAGTTGTTAAGGCACTAGCGTGGAAGCGTGAGAAAGACGTGATCCA
*
143750 TTTGAAAGATGCGGAATTGTCTATTTACGAAAAAAAAAAAATAGGGTGACAAGCATATTTATATA
323 TTTGAAAGATGCGGAATTGTCTATTTACGAAAAAAAAAAAATAGAGTGACAAGCATATTTATATA
* * *
143815 TTTTTTATATAATATTCAAATTTAAATTTGAATAATTGTTTCAAAATCTAGATTATAATAATTTT
388 TTTTTTATATAATATTCAAATTTAAATTTAAATAATTATTTCAAAATCTAAATTATAATAATTTT
*
143880 TTAAAATAGAATTAGTTAATTTTATTATATGCATTAAAGCAGTGAAGTCTTAGAGTTTTTATTTA
453 TTAAAATAGAATTAGTTAATTTTATTATATGCATTAAAGCAGTGAAGTCTTAAAGTTTTTATTTA
*
143945 TATTCAGTTAATTTTTAGTTATCTTTAAATTAATTTTATTTATTTATCTTATATTTTAATTATAT
518 TATTCAGTTAATTTTTAGTTATCTTTAAACTAATTTTATTTATTTATCTTATATTTTAATTATAT
* * *
144010 AATTATTTAATATTTTTATATTTTTTTATGTACAAAGCTCAAAGAGATTTTCAAAGTACGATAAT
583 AATTATTTAATATTTTTATATTTTTTTAAGCACAAAGCTCAAAGAGATTTTCAAAGTACGATAAC
* * * * * * *
144075 TTAAT-AAAAAAATAACCTCAGCGTGACAACTTTAAAAAATAAATTGCTTAAGTTAC-TTAATAA
648 TTAATAAAAAAAAAAACCCCAACATGACAACTTTAAAAAATAAATTACTCAAATTACTTTAATAA
** * **
144138 -ATTTTTCCTTTCTAAAGTTTTGATTGTATATAGAACTTTTTAATGTTAGATCTTAAAGGAGATT
713 TAAATTTCCTTTCTAAAGTTTTGATTGTATATAGAACTTTTTAATGTTAGATATTAAAGGAGACG
* *
144202 TGGGAACTTTGTATACCCTAATTTTTTGAAGAGGAGAATAGCCATCTTAATATGTATTTCTTATG
778 TAGGAACTTTGTATACCCTAATTTTTTGAAGAGGAGAATAGCCATCATAATATGTATTTCTTATG
144267 ATATATTTAAAAATAAAAATAAC
843 ATATATTTAAAAATAAAAATAAC
* * * *
144290 TTAAAAATAAATAAAATATATGATAATTTTTTAATTTTACTTAACGTAT-AA-AAAA-AACTTTA
1 TTAAAAATAAATAAAACATATAATAATTTTTTAATTTCACTTAACATATAAAGAAAAGAACTTTA
* *
144352 ATATAAATAAAACTTTACATTTTTTTCTTTTAAATTTAAATCTTTTCAAAAGTAAGATGAAACTA
66 ACATAAATAAAACTTTACAGTTTTTTCTTTTAAATTTAAATCTTTTCAAAAGTAAGATGAAACTA
*
144417 CTCTTTTTCACTTAAGTTAATCATTTTATTTATAATTTTTTTATTGTTTTTCATCTTTTATTCCA
131 CTCTTTTTCACTTAAGTTAATCATTTTATTTATAA-TTTTTTATTATTTTTCATCTTTTATTCCA
144482 AACATAACC-AAAAAAAAAAAAAATTCCCTCCTTTCATAATTTTTTATTTCTTTTTATTTATTAT
195 AACATAACCAAAAAAAAAAAAAAATTCCCTCCTTTCAT-ATTTTTT-TTTCTTTTTATTTATTAT
* *
144546 CCTAAATTGGCTTTTCGACTAGTTGTTAAGGCACTAGTGTGGTAGCGTGAGAAAGACGTGATCCA
258 CCTAAATTGGCTTTTCGACTAGTTGTTAAGGCACTAGCGTGGAAGCGTGAGAAAGACGTGATCCA
144611 TTTGAAAGATGCGGAATTGTCTATTTACGAAAAAGAAAAAAA-A-AGTGACAAGCATA-TT-TAT
323 TTTGAAAGATGCGGAATTGTCTATTTACGAAAAA-AAAAAAATAGAGTGACAAGCATATTTATAT
* * * * * * *
144672 ATTTTTTATGTAATATTTAAATTTGAATTTAAATAATTATTTTAAAATTTAAATTTTAATATTTT
387 ATTTTTTATATAATATTCAAATTTAAATTTAAATAATTATTTCAAAATCTAAATTATAATAATTT
*
144737 TTTAAAATAGAATTATTTAATTTTATTATATGCATTAAAGCAGTGAAGTCTTAAAGTTTTTATTT
452 TTTAAAATAGAATTAGTTAATTTTATTATATGCATTAAAGCAGTGAAGTCTTAAAGTTTTTATTT
* *
144802 ATATTTCA-TTAATTTTTAGTTATTTTTAAACTAATTTTATTTATTTATCTTATATTTTTATTAT
517 ATA-TTCAGTTAATTTTTAGTTATCTTTAAACTAATTTTATTTATTTATCTTATATTTTAATTAT
* *
144866 ATAATTATTTAATATTTTTATATTTTTTTAAGCACAAAGCTTAAAGAGATTTTC-AAGATGCGAT
581 ATAATTATTTAATATTTTTATATTTTTTTAAGCACAAAGCTCAAAGAGATTTTCAAAG-TACGAT
* *
144930 AACTTAATAAAAAAAAAAACCCCAACATGATAACTTTAAAAAATAAATTACTCAAATTACTTTAC
645 AACTTAATAAAAAAAAAAACCCCAACATGACAACTTTAAAAAATAAATTACTCAAATTACTTTAA
*
144995 TAATAAATTTCCTTTCTAAGGTTTTGATTGTATATAGAACTTTTTAATGTTAGATATTAAAGGAG
710 TAATAAATTTCCTTTCTAAAGTTTTGATTGTATATAGAACTTTTTAATGTTAGATATTAAAGGAG
*
145060 ACGTAGGAACTTTGTATACCCTAATTTTTTGAAGAGGAGAATGGCCATCATAATAT
775 ACGTAGGAACTTTGTATACCCTAATTTTTTGAAGAGGAGAATAGCCATCATAATAT
145116 TTAAGGAGAA
Statistics
Matches: 767, Mismatches: 50, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
857 3 0.00
858 240 0.31
859 77 0.10
860 128 0.17
861 261 0.34
862 11 0.01
863 2 0.00
865 45 0.06
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (865 bp):
TTAAAAATAAATAAAACATATAATAATTTTTTAATTTCACTTAACATATAAAGAAAAGAACTTTA
ACATAAATAAAACTTTACAGTTTTTTCTTTTAAATTTAAATCTTTTCAAAAGTAAGATGAAACTA
CTCTTTTTCACTTAAGTTAATCATTTTATTTATAATTTTTTATTATTTTTCATCTTTTATTCCAA
ACATAACCAAAAAAAAAAAAAAATTCCCTCCTTTCATATTTTTTTTTCTTTTTATTTATTATCCT
AAATTGGCTTTTCGACTAGTTGTTAAGGCACTAGCGTGGAAGCGTGAGAAAGACGTGATCCATTT
GAAAGATGCGGAATTGTCTATTTACGAAAAAAAAAAAATAGAGTGACAAGCATATTTATATATTT
TTTATATAATATTCAAATTTAAATTTAAATAATTATTTCAAAATCTAAATTATAATAATTTTTTA
AAATAGAATTAGTTAATTTTATTATATGCATTAAAGCAGTGAAGTCTTAAAGTTTTTATTTATAT
TCAGTTAATTTTTAGTTATCTTTAAACTAATTTTATTTATTTATCTTATATTTTAATTATATAAT
TATTTAATATTTTTATATTTTTTTAAGCACAAAGCTCAAAGAGATTTTCAAAGTACGATAACTTA
ATAAAAAAAAAAACCCCAACATGACAACTTTAAAAAATAAATTACTCAAATTACTTTAATAATAA
ATTTCCTTTCTAAAGTTTTGATTGTATATAGAACTTTTTAATGTTAGATATTAAAGGAGACGTAG
GAACTTTGTATACCCTAATTTTTTGAAGAGGAGAATAGCCATCATAATATGTATTTCTTATGATA
TATTTAAAAATAAAAATAAC
Found at i:145183 original size:9 final size:9
Alignment explanation
Indices: 145169--145199 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
145159 GACCTGATAC
145169 TTTTTATTT
1 TTTTTATTT
145178 TTTTTA-TT
1 TTTTTATTT
145186 TTTTTATTT
1 TTTTTATTT
145195 TTTTT
1 TTTTT
145200 TGTAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:145187 original size:8 final size:8
Alignment explanation
Indices: 145169--145198 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
145159 GACCTGATAC
145169 TTTTTATTT
1 TTTTTA-TT
145178 TTTTTATT
1 TTTTTATT
145186 TTTTTATT
1 TTTTTATT
145194 TTTTT
1 TTTTT
145199 TTGTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTATT
Found at i:148191 original size:13 final size:13
Alignment explanation
Indices: 148173--148198 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148163 TACACAAAGT
148173 ATGTATCGATACA
1 ATGTATCGATACA
148186 ATGTATCGATACA
1 ATGTATCGATACA
148199 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:148196 original size:32 final size:33
Alignment explanation
Indices: 148155--148218 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
148145 TAACTAAACT
**
148155 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
148187 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
148219 TTGGCTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:150854 original size:26 final size:26
Alignment explanation
Indices: 150796--150847 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
150786 GAGATAAAAT
* * *
150796 TAAA-TATTAAATATTATATTTTTAA
1 TAAATTATTAAATATTAAATATGTAA
150821 TAAATTATTAAATATTAAATATGTAA
1 TAAATTATTAAATATTAAATATGTAA
150847 T
1 T
150848 TATTTATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAATTATTAAATATTAAATATGTAA
Found at i:150904 original size:76 final size:77
Alignment explanation
Indices: 150772--150918 Score: 253
Period size: 76 Copynumber: 1.9 Consensus size: 77
150762 AAGTGTGAGC
*
150772 ATTTATGAGGGAAAGAGATAAAATTAAATATTAAATATTATATTTTTAATAAATTATTAAATATT
1 ATTTATAAGGGAAAGAGATAAAATTAAATATTAAATATTATATTTTTAATAAATTATTAAATATT
150837 AAATATGTAATT
66 AAATATGTAATT
*
150849 ATTTATAAGGGAAAGAGA-AAAATTAAATAGTT-AATATTATATTTTTAATATATTATTAAATAT
1 ATTTATAAGGGAAAGAGATAAAATTAAATA-TTAAATATTATATTTTTAATAAATTATTAAATAT
150912 TAAATAT
65 TAAATAT
150919 TAAATATGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
76 48 0.72
77 19 0.28
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (77 bp):
ATTTATAAGGGAAAGAGATAAAATTAAATATTAAATATTATATTTTTAATAAATTATTAAATATT
AAATATGTAATT
Found at i:150914 original size:7 final size:7
Alignment explanation
Indices: 150902--150935 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
150892 TTTAATATAT
150902 TATTAAA
1 TATTAAA
150909 TATTAAA
1 TATTAAA
150916 TATTAAA
1 TATTAAA
*
150923 TATGTAAT
1 TAT-TAAA
150931 TATTA
1 TATTA
150936 TACTATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (7 bp):
TATTAAA
Found at i:151378 original size:26 final size:28
Alignment explanation
Indices: 151349--151402 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
151339 TTAATTTTTT
*
151349 ATTA-ATTTAAATAT-AAAAACTTTATA
1 ATTATATTAAAATATAAAAAACTTTATA
151375 ATTATATTAAAATATAAAAAACTTTATA
1 ATTATATTAAAATATAAAAAACTTTATA
151403 TATATTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.16
27 9 0.36
28 12 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
ATTATATTAAAATATAAAAAACTTTATA
Found at i:151944 original size:18 final size:17
Alignment explanation
Indices: 151921--151976 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
151911 TAAGTGGCAT
151921 AATTTAATCAAAAATTAA
1 AATTTAAT-AAAAATTAA
*
151939 AATTTAATGATAAAATT-T
1 AATTTAAT-A-AAAATTAA
*
151957 AATTAAATAAAAA-TAA
1 AATTTAATAAAAATTAA
151973 AATT
1 AATT
151977 AACATTAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.03
16 8 0.25
17 1 0.03
18 16 0.50
19 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AATTTAATAAAAATTAA
Found at i:159098 original size:8 final size:8
Alignment explanation
Indices: 159087--159144 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
159077 TATTAATATT
159087 TATATAAA
1 TATATAAA
159095 TATAT-AA
1 TATATAAA
*
159102 TAATATAAT
1 T-ATATAAA
159111 TATA-AAA
1 TATATAAA
159118 T-TATAAAA
1 TATAT-AAA
*
159126 TATAAAAA
1 TATATAAA
159134 TATATAAA
1 TATATAAA
159142 TAT
1 TAT
159145 GATATGAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 2 0.05
7 6 0.15
8 29 0.71
9 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATATAAA
Found at i:159114 original size:22 final size:21
Alignment explanation
Indices: 159066--159130 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
159056 ATATAACATC
* *
159066 AATTATTAAATTAT-TAATAT
1 AATTATAAAATTATAAAATAT
159086 --TTATATAAATATATAATAATAT
1 AATTATA-AAAT-TATAA-AATAT
159108 AATTATAAAATTATAAAATAT
1 AATTATAAAATTATAAAATAT
159129 AA
1 AA
159131 AAATATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 3 0.08
21 7 0.19
22 10 0.27
23 4 0.11
24 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTATAAAATTATAAAATAT
Found at i:159647 original size:19 final size:21
Alignment explanation
Indices: 159616--159655 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
159606 TTACATATAA
159616 AAATAATACAAA-TATGATAC
1 AAATAATACAAATTATGATAC
159636 AAATAA-ACAAATTATGATAC
1 AAATAATACAAATTATGATAC
159656 CTATTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (21 bp):
AAATAATACAAATTATGATAC
Found at i:160339 original size:24 final size:24
Alignment explanation
Indices: 160295--160340 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
160285 TAATAAATTA
*
160295 TTAAAATATAAAATTTATAATACT
1 TTAAAATATAAAATATATAATACT
160319 TTAAATATATAAAATAT-TAATA
1 TTAAA-ATATAAAATATATAATA
160341 TAAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAAAATATAAAATATATAATACT
Found at i:161175 original size:22 final size:21
Alignment explanation
Indices: 161135--161175 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
161125 ATACAAAGGA
**
161135 TAAAAATAAATTATTTTATTG
1 TAAAAATAAATTAAATTATTG
161156 TAAAAATATAATTAAATTAT
1 TAAAAATA-AATTAAATTAT
161176 GTGACAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAAAATAAATTAAATTATTG
Found at i:162998 original size:31 final size:31
Alignment explanation
Indices: 162961--163054 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 31
162951 TCTAATTTTA
* *
162961 TTTGATTAAATTTTGCAACTAAATTTTAATT
1 TTTGATTAAATTTTGCTACTAAATTTTGATT
* * *
162992 TTTGATTAAAATTTGCTACTTAATTTCGATT
1 TTTGATTAAATTTTGCTACTAAATTTTGATT
* * *
163023 TTT-ATTGAATTTTGTTACTAAATATTGATT
1 TTTGATTAAATTTTGCTACTAAATTTTGATT
163053 TT
1 TT
163055 CGATAATCTA
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 23 0.44
31 29 0.56
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (31 bp):
TTTGATTAAATTTTGCTACTAAATTTTGATT
Found at i:165376 original size:2 final size:2
Alignment explanation
Indices: 165369--165400 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
165359 GAAATCCTAC
165369 AT AT 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
165401 TTTATATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:165973 original size:20 final size:20
Alignment explanation
Indices: 165956--165992 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
165946 AAAGAAATTC
165956 AAGAAAA-TTAAAAAAAATA
1 AAGAAAATTTAAAAAAAATA
165975 AAGAAAATTTAAAAAAAA
1 AAGAAAATTTAAAAAAAA
165993 AAATGAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (20 bp):
AAGAAAATTTAAAAAAAATA
Found at i:166208 original size:12 final size:12
Alignment explanation
Indices: 166191--166216 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
166181 AATTAATATC
166191 TATTCAAAAATT
1 TATTCAAAAATT
166203 TATTCAAAAATT
1 TATTCAAAAATT
166215 TA
1 TA
166217 AAAATTAAAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTCAAAAATT
Found at i:168029 original size:24 final size:24
Alignment explanation
Indices: 168002--168049 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
167992 TGAGTTTAAA
*
168002 TAAAAGTAATT-TTATTAATTTTTT
1 TAAAAGTAATTGTTAAT-ATTTTTT
*
168026 TAAAATTAATTGTTAATATTTTTT
1 TAAAAGTAATTGTTAATATTTTTT
168050 ATTAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TAAAAGTAATTGTTAATATTTTTT
Found at i:172855 original size:2 final size:2
Alignment explanation
Indices: 172848--172880 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
172838 ACAACTAATA
172848 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 T
172881 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:172885 original size:2 final size:2
Alignment explanation
Indices: 172880--172913 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
172870 TCTCTCTCTC
172880 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
172914 GATAATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:174015 original size:124 final size:124
Alignment explanation
Indices: 173873--174120 Score: 282
Period size: 124 Copynumber: 2.0 Consensus size: 124
173863 GTAATCAACT
* * * * * ***
173873 TTTTTTATCAAATTAAATTGAGTCGA-ATTTGAATTTAAATGGATTAATCAAATTTTTTAAATTC
1 TTTTTGATCAAATCAAATTAAATC-ACATTTGAATTTAAATAGATTAATCAAATTTAAAAAATTC
** * * *
173937 GGATCAAAATTAATAAATCTGGCTAAGCTCTTACACTATCAAAGTTTAAAAGGTAATCTA
65 AAATCAAAATTAATAAATCTAGCTAAACGCTTACACTATCAAAGTTTAAAAGGTAATCTA
* ** * *
173997 TTTTTGATCAAGTCAAATTAAATCACATTTGTGTTTAAATAGATTAATCGAATTTAAAAAATTTA
1 TTTTTGATCAAATCAAATTAAATCACATTTGAATTTAAATAGATTAATCAAATTTAAAAAATTCA
* * * *
174062 AATCAAAATTCATAAATCTAGCTAAACGCTTACATTATCGAGGTTTAAAAGGTAATCTA
66 AATCAAAATTAATAAATCTAGCTAAACGCTTACACTATCAAAGTTTAAAAGGTAATCTA
174121 CATTCTCTTT
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
123 1 0.01
124 100 0.99
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (124 bp):
TTTTTGATCAAATCAAATTAAATCACATTTGAATTTAAATAGATTAATCAAATTTAAAAAATTCA
AATCAAAATTAATAAATCTAGCTAAACGCTTACACTATCAAAGTTTAAAAGGTAATCTA
Found at i:175905 original size:15 final size:15
Alignment explanation
Indices: 175885--175930 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
175875 TTTAGACCGA
175885 TTTATATTATATTTT
1 TTTATATTATATTTT
175900 TTTATAATT-TA-TTT
1 TTTAT-ATTATATTTT
*
175914 TTTAAATATATATTTT
1 TTTATAT-TATATTTT
175930 T
1 T
175931 AAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 2 0.08
14 8 0.31
15 9 0.35
16 7 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATATTATATTTT
Found at i:175916 original size:14 final size:14
Alignment explanation
Indices: 175897--175953 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
175887 TATATTATAT
175897 TTTTTTATAATTTA
1 TTTTTTATAATTTA
*
175911 TTTTTTA-AATATA
1 TTTTTTATAATTTA
*
175924 TATTTTTAAAATTTA
1 T-TTTTTATAATTTA
* *
175939 ATCTTTATTAATTTA
1 TTTTTTA-TAATTTA
175954 ATATTTTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 6 0.17
14 18 0.51
15 11 0.31
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTATAATTTA
Found at i:175945 original size:28 final size:28
Alignment explanation
Indices: 175892--175945 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
175882 CGATTTATAT
* * * *
175892 TATATTTTTTTATAATTTATTTTTTAAA
1 TATATATTTTTAAAATTTAATCTTTAAA
175920 TATATATTTTTAAAATTTAATCTTTA
1 TATATATTTTTAAAATTTAATCTTTA
175946 TTAATTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
TATATATTTTTAAAATTTAATCTTTAAA
Found at i:176171 original size:18 final size:18
Alignment explanation
Indices: 176142--176189 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
176132 CCAAAGCTCT
*
176142 GCTCATTTTTTTATCAGA
1 GCTCATTTTTTTATCAAA
*
176160 GTCTCATTTTTTTGTCAAA
1 G-CTCATTTTTTTATCAAA
176179 GCTCATTTTTT
1 GCTCATTTTTT
176190 AGATTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.54
Consensus pattern (18 bp):
GCTCATTTTTTTATCAAA
Found at i:176737 original size:47 final size:47
Alignment explanation
Indices: 176598--176737 Score: 201
Period size: 47 Copynumber: 3.0 Consensus size: 47
176588 TATATATAGT
* * *
176598 TAATAATATTCATATTTTATCATTTTATATTTAACAATAACTT-AATT
1 TAATAATATT-ATATTTTATTATTTTATATTTAAAAATAACTTAAATA
*
176645 TAATAATATTTATATTTTATTGTTTTATATTTAAAAATAACTTAAATA
1 TAATAATA-TTATATTTTATTATTTTATATTTAAAAATAACTTAAATA
* *
176693 TCATAATATTATATTTTATTATTTTATATTTAATAATAACTTAAA
1 TAATAATATTATATTTTATTATTTTATATTTAAAAATAACTTAAA
176738 CTTGACTTAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
47 72 0.86
48 12 0.14
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (47 bp):
TAATAATATTATATTTTATTATTTTATATTTAAAAATAACTTAAATA
Found at i:177041 original size:17 final size:17
Alignment explanation
Indices: 177021--177059 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
177011 TTTTATTAAA
*
177021 TTATATTTAATATATAT-
1 TTATATATAA-ATATATG
177038 TTATATATAAATATATG
1 TTATATATAAATATATG
177055 TTATA
1 TTATA
177060 AACTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTATATATAAATATATG
Found at i:177354 original size:18 final size:17
Alignment explanation
Indices: 177333--177369 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 17
177323 TAAATTGATT
177333 AAAATAATTTTAATATTA
1 AAAAT-ATTTTAATATTA
177351 AAAATATTTTAATATTA
1 AAAATATTTTAATATTA
177368 AA
1 AA
177370 TAAATAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATTTTAATATTA
Found at i:179113 original size:2 final size:2
Alignment explanation
Indices: 179108--179136 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
179098 TATATATATA
179108 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
179137 ACCTTGAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:180397 original size:37 final size:38
Alignment explanation
Indices: 180347--180418 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
180337 TTATTTAAAA
180347 TAATATTAAAATTAAAAATAA-AAAAAT-ATTTTATAT
1 TAATATTAAAATTAAAAATAATAAAAATAATTTTATAT
* **
180383 TAATATTTATAATTAAATTTAATAAAAATAATTTTA
1 TAATA-TTAAAATTAAAAATAATAAAAATAATTTTA
180419 ATACATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 5 0.17
37 13 0.43
38 6 0.20
39 6 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (38 bp):
TAATATTAAAATTAAAAATAATAAAAATAATTTTATAT
Found at i:180507 original size:14 final size:14
Alignment explanation
Indices: 180490--180516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
180480 ACCTAAATCA
180490 ATCAAATTAAATAT
1 ATCAAATTAAATAT
180504 ATCAAATTAAATA
1 ATCAAATTAAATA
180517 AATTACTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
ATCAAATTAAATAT
Found at i:181151 original size:30 final size:30
Alignment explanation
Indices: 181094--181153 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
181084 GTTGCCATGC
* *
181094 TATAAATAAACCTAATAATATTAAATATAA
1 TATAAATAAACATAATAATAATAAATATAA
*
181124 TATAAATAAA-ATAATTATAATATAATATAA
1 TATAAATAAACATAATAATAATA-AATATAA
181154 AATTAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (30 bp):
TATAAATAAACATAATAATAATAAATATAA
Found at i:181161 original size:25 final size:24
Alignment explanation
Indices: 181108--181154 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
181098 AATAAACCTA
181108 ATAAT-ATTAAATATAATATAAAT
1 ATAATAATTAAATATAATATAAAT
*
181131 AAAATAATTATAATATAATATAAA
1 ATAATAATTA-AATATAATATAAA
181155 ATTAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 4 0.19
25 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAATAATTAAATATAATATAAAT
Found at i:181211 original size:32 final size:33
Alignment explanation
Indices: 181108--181221 Score: 106
Period size: 33 Copynumber: 3.3 Consensus size: 33
181098 AATAAACCTA
*
181108 ATAATATTAAATATAATAT-AAATAAAATAATTATAAT
1 ATAATA-TAAAT-TAATATAAAATTAAA-AATT-T-AT
* * *
181145 ATAATATAAAATTAATATATATTTTAAAATTTAT
1 ATAATAT-AAATTAATATAAAATTAAAAATTTAT
*
181179 ATAATATAAATTATTA-AAAATTAAAAATTTAT
1 ATAATATAAATTAATATAAAATTAAAAATTTAT
181211 ATAAATATAAA
1 AT-AATATAAA
181222 ATATATTTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
32 15 0.23
33 16 0.24
34 9 0.14
35 1 0.02
36 11 0.17
37 14 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
ATAATATAAATTAATATAAAATTAAAAATTTAT
Found at i:181227 original size:2 final size:2
Alignment explanation
Indices: 181208--181272 Score: 66
Period size: 2 Copynumber: 34.5 Consensus size: 2
181198 ATTAAAAATT
* * * *
181208 TA TA TA AA TA TA -A AA TA TA TT TA TA -A TA TA -A TA -A AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
181246 TA 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 T
181273 TATCAAATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
1 4 0.08
2 49 0.92
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:181454 original size:11 final size:11
Alignment explanation
Indices: 181438--181481 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
181428 TAATAGTTTA
181438 TATATTTATAT
1 TATATTTATAT
181449 TATATTTATAT
1 TATATTTATAT
181460 TATTATATTATAAT
1 TA-TAT-TTAT-AT
*
181474 AATATTTA
1 TATATTTA
181482 AAATTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 13 0.45
12 6 0.21
13 7 0.24
14 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTTATAT
Found at i:181458 original size:19 final size:19
Alignment explanation
Indices: 181434--181471 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
181424 AATTTAATAG
181434 TTTATA-TATTTATATTATA
1 TTTATATTA-TTATATTATA
181453 TTTATATTATTATATTATA
1 TTTATATTATTATATTATA
181472 ATAATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATATTATTATATTATA
Found at i:181478 original size:19 final size:19
Alignment explanation
Indices: 181443--181479 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
181433 GTTTATATAT
* *
181443 TTATATTATATTTATATTA
1 TTATATTATAATAATATTA
181462 TTATATTATAATAATATT
1 TTATATTATAATAATATT
181480 TAAAATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATTATAATAATATTA
Found at i:183347 original size:167 final size:166
Alignment explanation
Indices: 183000--183405 Score: 478
Period size: 167 Copynumber: 2.4 Consensus size: 166
182990 TTTTCGAGAG
*** * * * ** *
183000 GATTTTTTATATTAACCAAATATCGTCATTTAAATCAT-GTTAAATTAGCTTTGAAAAAATCATT
1 GATTTTTTATATTCTTCAAATATCATCACTTAAATCATAG-TAAATCAATTTTGAAAAATTCATT
** * * * * *
183064 T-TATTTCATAAGTTTTTTATTTTTTTCTTGAAATTCTCTTGTTTCCAAAATACCGAATTTTCTA
65 TAT-TTTCATAAAATTTTCATTTTTTTCTTGAAATTCCCCTATTTCCAAAAAACCGAATTTTCTA
* *
183128 TTCTATAAATGTTTTCAAGAGGGTTTTTCACGGTTCAA
129 TTCTATAAATATTTTCAAGAGGGTTTTTCACGATTCAA
* * *
183166 AATTTTTAATATTCTTCAAATATCATCACTTAAATCATAGTGAATCAATTTTGAAAAATTCATTT
1 GATTTTTTATATTCTTCAAATATCATCACTTAAATCATAGTAAATCAATTTTGAAAAATTCATTT
* *
183231 ATTTTCATAAAATTTTCATTTTTTTTCTTGAAATTCCCCTATTTTCAAAAAATC-AAGTTTTCTA
66 ATTTTCATAAAATTTTCA-TTTTTTTCTTGAAATTCCCCTATTTCCAAAAAACCGAA-TTTTCTA
* * * *
183295 TTTTATAAATATTTTC-GGGGGAGTTTTTCTCGATTCAA
129 TTCTATAAATATTTTCAAGAGG-GTTTTTCACGATTCAA
* *
183333 GATTTTTTATATTCTTCCAATATCATCACTTAAATCATAATAAATCAATTTTGAAAAATTCATTT
1 GATTTTTTATATTCTTCAAATATCATCACTTAAATCATAGTAAATCAATTTTGAAAAATTCATTT
183398 ATTTTCAT
66 ATTTTCAT
183406 TTTCCCTTGA
Statistics
Matches: 203, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
166 69 0.34
167 134 0.66
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (166 bp):
GATTTTTTATATTCTTCAAATATCATCACTTAAATCATAGTAAATCAATTTTGAAAAATTCATTT
ATTTTCATAAAATTTTCATTTTTTTCTTGAAATTCCCCTATTTCCAAAAAACCGAATTTTCTATT
CTATAAATATTTTCAAGAGGGTTTTTCACGATTCAA
Found at i:184101 original size:15 final size:15
Alignment explanation
Indices: 184062--184093 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
184052 GGCAAGTGAG
184062 AAAAAAAG-AAGAAA
1 AAAAAAAGAAAGAAA
184076 AAAAAAAGAAAGAAA
1 AAAAAAAGAAAGAAA
184091 AAA
1 AAA
184094 GAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:185684 original size:31 final size:31
Alignment explanation
Indices: 185646--185707 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
185636 ATATATAGGA
185646 TAGATCCACTCTTTGCAACCCTTTTCAAGTC
1 TAGATCCACTCTTTGCAACCCTTTTCAAGTC
185677 TAGATCCACTCTTTGCAACCCTTTTCAAGTC
1 TAGATCCACTCTTTGCAACCCTTTTCAAGTC
185708 CTTTAGGATC
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:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (31 bp):
TAGATCCACTCTTTGCAACCCTTTTCAAGTC
Found at i:188323 original size:15 final size:15
Alignment explanation
Indices: 188299--188334 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
188289 ACTTTTATTT
*
188299 TTTAAAATATTTATA
1 TTTAAAATATATATA
*
188314 TTTAATATATATATA
1 TTTAAAATATATATA
188329 TTTAAA
1 TTTAAA
188335 CATAAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAAATATATATA
Found at i:188361 original size:16 final size:16
Alignment explanation
Indices: 188336--188373 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
188326 ATATTTAAAC
*
188336 ATAAACTTTTAAAAAT
1 ATAAAATTTTAAAAAT
*
188352 ATAAAATTTTAAATAT
1 ATAAAATTTTAAAAAT
188368 ATAAAA
1 ATAAAA
188374 AATTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAAATTTTAAAAAT
Found at i:190593 original size:21 final size:21
Alignment explanation
Indices: 190568--190613 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
190558 TCTTTTTAAT
*
190568 AAATAACATTTAATAAATTTA
1 AAATAACATTAAATAAATTTA
190589 AAATAACATTAAATAAATTTA
1 AAATAACATTAAATAAATTTA
190610 AAAT
1 AAAT
190614 TTAAATCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATAACATTAAATAAATTTA
Found at i:190610 original size:10 final size:11
Alignment explanation
Indices: 190567--190611 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
190557 CTCTTTTTAA
190567 TAAATAACATT
1 TAAATAACATT
190578 T-AATAA-ATT
1 TAAATAACATT
190587 TAAAATAACA-T
1 T-AAATAACATT
190598 TAAATAA-ATT
1 TAAATAACATT
190608 TAAA
1 TAAA
190612 ATTTAAATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
9 5 0.17
10 16 0.53
11 8 0.27
12 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAATAACATT
Found at i:195892 original size:15 final size:15
Alignment explanation
Indices: 195873--195901 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
195863 CATTCAATTA
195873 AAAAAAG-AATTATC
1 AAAAAAGTAATTATC
195887 AAAAAAGTAATTATC
1 AAAAAAGTAATTATC
195902 CTTCTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AAAAAAGTAATTATC
Found at i:197636 original size:3 final size:3
Alignment explanation
Indices: 197628--197654 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
197618 AATGTGCCTA
197628 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
197655 GCCTTAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:197910 original size:30 final size:29
Alignment explanation
Indices: 197876--197938 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
197866 ATTTAATTTA
* *
197876 ATATTTATAA-TAATATTAAAATATTTTTTT
1 ATATTTA-AAGTAA-ATAAAAATATTTTATT
197906 ATATTTAAATGTAAATAAAAATATTTTATT
1 ATATTTAAA-GTAAATAAAAATATTTTATT
197936 ATA
1 ATA
197939 AAAATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.07
30 24 0.83
31 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
ATATTTAAAGTAAATAAAAATATTTTATT
Found at i:199174 original size:20 final size:19
Alignment explanation
Indices: 199134--199179 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
199124 ATATAATTAA
*
199134 ATTTAAA-T-AAAAATATT
1 ATTTAAATTAAAAAATATG
*
199151 ATTTTAATTAAAAAATAATG
1 ATTTAAATTAAAAAAT-ATG
199171 ATTTAAATT
1 ATTTAAATT
199180 GAATTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 6 0.26
20 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTTAAATTAAAAAATATG
Found at i:200978 original size:104 final size:106
Alignment explanation
Indices: 200858--201075 Score: 368
Period size: 104 Copynumber: 2.0 Consensus size: 106
200848 ATTTTTGATT
200858 CAGAAGTTACTCTTAAATCACCCATACCAATCACACAATAGTTTAATCAATGGAATTAAAAT-AA
1 CAGAAGTTACTCTTAAATCACCCATACCAATCACACAATAGTTTAATCAATGGAATTAAAATAAA
*
200922 T-AATAAAAACTAGGTAAGATGTTGAAATTGCAACTAATAG
66 TAAAAAAAAACTAGGTAAGATGTTGAAATTGCAACTAATAG
200962 CAGAAGTTACTCTTAAATCACCCATACCAATCACACAATAGTTTAATCAATGGAATTAAAATAAA
1 CAGAAGTTACTCTTAAATCACCCATACCAATCACACAATAGTTTAATCAATGGAATTAAAAT---
201027 AAATAAAAAAAAAAACTAGGTAAGATGTTGAAATTGCAACTAATAG
63 AAAT--AAAAAAAAACTAGGTAAGATGTTGAAATTGCAACTAATAG
201073 CAG
1 CAG
201076 CAATTATCAT
Statistics
Matches: 106, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
104 62 0.58
108 3 0.03
111 41 0.39
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (106 bp):
CAGAAGTTACTCTTAAATCACCCATACCAATCACACAATAGTTTAATCAATGGAATTAAAATAAA
TAAAAAAAAACTAGGTAAGATGTTGAAATTGCAACTAATAG
Found at i:201273 original size:29 final size:28
Alignment explanation
Indices: 201230--201327 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 28
201220 TTAGTTTATT
*
201230 ATTTTTATGTATAATATTTAAAAATTAC
1 ATTTTTATTTATAATATTTAAAAATTAC
* * **
201258 ATTTATTATTTATAATTTTTATCAATATTTT
1 ATTT-TTATTTATAATATTTA--AAAATTAC
* *
201289 ATTTTTATTTATAA-CTTAAAAAAGTTAC
1 ATTTTTATTTATAATATTTAAAAA-TTAC
201317 ATTTATTATTT
1 ATTT-TTATTT
201328 GTGATTTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.05
28 10 0.18
29 23 0.42
30 10 0.18
31 9 0.16
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTTTATTTATAATATTTAAAAATTAC
Found at i:201291 original size:59 final size:60
Alignment explanation
Indices: 201228--201374 Score: 174
Period size: 59 Copynumber: 2.5 Consensus size: 60
201218 TATTAGTTTA
*
201228 TTATTTTTATGTATAATATTTAAAAATTACATTTATTATTTATAATTTTT-ATCAATATT
1 TTATTTTTATTTATAATATTTAAAAATTACATTTATTATTTATAATTTTTAATCAATATT
* * * * **
201287 TTATTTTTATTTATAA-CTTAAAAAAGTTACATTTATTATTTGTGATTTTTAATTGATATT
1 TTATTTTTATTTATAATATTTAAAAA-TTACATTTATTATTTATAATTTTTAATCAATATT
* *
201347 TCGA-TTTTATTTATAATTTTTAAAAATT
1 T-TATTTTTATTTATAATATTTAAAAATT
201375 TTACGCATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 7 0.09
59 37 0.50
60 22 0.30
61 8 0.11
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (60 bp):
TTATTTTTATTTATAATATTTAAAAATTACATTTATTATTTATAATTTTTAATCAATATT
Found at i:201702 original size:19 final size:17
Alignment explanation
Indices: 201668--201705 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
201658 AAAGATTATA
201668 AATAAAAATAAAATAAT
1 AATAAAAATAAAATAAT
201685 AATAAAAATTATAAATAAT
1 AATAAAAA-TA-AAATAAT
201704 AA
1 AA
201706 ATATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAAATAAAATAAT
Found at i:202324 original size:26 final size:28
Alignment explanation
Indices: 202290--202353 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
202280 TTTAGTTTTA
*
202290 TATATTTTTATAA-TTATTTATATTATTT
1 TATA-TTTTATAATTTAATTATATTATTT
*
202318 T-TATTTT-TAATTTAATTATTTTATTT
1 TATATTTTATAATTTAATTATATTATTT
202344 TATATTTTAT
1 TATATTTTAT
202354 TAAGATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 3 0.10
26 18 0.58
27 8 0.26
28 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
TATATTTTATAATTTAATTATATTATTT
Found at i:202352 original size:21 final size:22
Alignment explanation
Indices: 202286--202353 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
202276 TTAATTTAGT
**
202286 TTTATA-TATTTTTATAATT-A
1 TTTATATTATTTTTATTTTTAA
202306 TTTATATTATTTTTATTTTTAA
1 TTTATATTATTTTTATTTTTAA
*
202328 TTTA-ATTA-TTTTATTTTATAT
1 TTTATATTATTTTTATTTT-TAA
202349 TTTAT
1 TTTAT
202354 TAAGATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 15 0.37
21 21 0.51
22 5 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATATTATTTTTATTTTTAA
Found at i:202461 original size:18 final size:17
Alignment explanation
Indices: 202417--202454 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
202407 ACTATGATAT
202417 TTTAAATC--AAATTAA
1 TTTAAATCTTAAATTAA
*
202432 TTTAAATCTTAAATTTA
1 TTTAAATCTTAAATTAA
202449 TTTAAA
1 TTTAAA
202455 ATTTTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
17 12 0.60
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAATCTTAAATTAA
Found at i:202903 original size:11 final size:12
Alignment explanation
Indices: 202889--203074 Score: 51
Period size: 13 Copynumber: 15.7 Consensus size: 12
202879 CTGATTTTTA
202889 TATAAA-ATAAT
1 TATAAATATAAT
202900 TATACAATATAAT
1 TATA-AATATAAT
202913 TATAATATATAAT
1 TATAA-ATATAAT
* *
202926 AATAATATGTAA-
1 TATAA-ATATAAT
* * * *
202938 CATGATACATGA-
1 TAT-AAATATAAT
*
202950 TAAAAATATGAAT
1 TATAAATAT-AAT
202963 ATATTAAA-A-AAT
1 -TA-TAAATATAAT
202975 ATATAAA-ATAAAT
1 -TATAAATAT-AAT
*
202988 TATTAATAT-AT
1 TATAAATATAAT
202999 TAT-AAT-TAA-
1 TATAAATATAAT
203008 TATAAATAT-A-
1 TATAAATATAAT
* *
203018 TA-AAATTTTAAA
1 TATAAA-TATAAT
*
203030 TATAATTATAAT
1 TATAAATATAAT
203042 ATATAAATATATAT
1 -TATAAATATA-AT
203056 ATATAAA-ATAA-
1 -TATAAATATAAT
203067 TATAAATA
1 TATAAATA
203075 CATACATTAC
Statistics
Matches: 135, Mismatches: 19, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
9 7 0.05
10 18 0.13
11 21 0.16
12 28 0.21
13 46 0.34
14 12 0.09
15 3 0.02
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (12 bp):
TATAAATATAAT
Found at i:202977 original size:12 final size:13
Alignment explanation
Indices: 202960--203023 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 13
202950 TAAAAATATG
202960 AATATATTAAA-A
1 AATATATTAAATA
*
202972 AATATATAAAATA
1 AATATATTAAATA
202985 AAT-TATT-AATA
1 AATATATTAAATA
*
202996 TATTATAATTAATATA
1 -AATAT-ATTAA-ATA
*
203012 AATATATAAAAT
1 AATATATTAAAT
203024 TTTAAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
11 4 0.10
12 15 0.37
13 7 0.17
14 7 0.17
15 5 0.12
16 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATATTAAATA
Found at i:202995 original size:20 final size:19
Alignment explanation
Indices: 202971--203074 Score: 88
Period size: 20 Copynumber: 5.3 Consensus size: 19
202961 ATATATTAAA
202971 AAATATATAAAATAAATTAT
1 AAATATATAAAATAAA-TAT
* * *
202991 TAATATATTATAATTAATAT
1 AAATATA-TAAAATAAATAT
203011 AAATATATAAAATTTTAAATAT
1 AAATATATAAAA---TAAATAT
203033 -AAT-TATAATATATAAATAT
1 AAATATATAA-A-ATAAATAT
*
203052 ATATATATAAAAT-AATAT
1 AAATATATAAAATAAATAT
203070 AAATA
1 AAATA
203075 CATACATTAC
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
18 9 0.13
19 13 0.19
20 23 0.34
21 16 0.24
22 7 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATATAAAATAAATAT
Found at i:203035 original size:27 final size:28
Alignment explanation
Indices: 202975--203074 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 28
202965 ATTAAAAAAT
* *
202975 ATATAAAATAAAT-TATTAATATATTATA
1 ATATAATATAAATATA-TAAAATATTATA
*
203003 AT-TAATATAAATATATAAAATTTTA-A
1 ATATAATATAAATATATAAAATATTATA
203029 ATATAAT-TATAATATATAAATATATATATATA
1 ATATAATATA-AATATAT-AA-A-ATAT-TATA
*
203061 AAATAATATAAATA
1 ATATAATATAAATA
203075 CATACATTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
26 5 0.09
27 28 0.48
28 6 0.10
29 1 0.02
30 3 0.05
31 2 0.03
32 11 0.19
33 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
ATATAATATAAATATATAAAATATTATA
Found at i:203046 original size:35 final size:36
Alignment explanation
Indices: 202984--203054 Score: 103
Period size: 35 Copynumber: 2.0 Consensus size: 36
202974 TATATAAAAT
202984 AAATTATTAATATATTATAATTAATATAAATATATA
1 AAATTATTAATATATTATAATTAATATAAATATATA
203020 AAATT-TTAAATATAATTATAA-T-ATATAAATATATA
1 AAATTATT-AATAT-ATTATAATTAATATAAATATATA
203055 TATATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 15 0.45
36 11 0.33
37 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (36 bp):
AAATTATTAATATATTATAATTAATATAAATATATA
Found at i:203059 original size:14 final size:14
Alignment explanation
Indices: 202973--203070 Score: 66
Period size: 14 Copynumber: 7.4 Consensus size: 14
202963 ATATTAAAAA
*
202973 ATATATAAA-ATAA
1 ATATATAAATATAT
*
202986 AT-TATTAATATAT
1 ATATATAAATATAT
* *
202999 -TATAATTAATATAA
1 ATAT-ATAAATATAT
*
203013 ATATATAAA-ATTTT
1 ATATATAAATA-TAT
* *
203027 AAATATAATTATA-
1 ATATATAAATATAT
203040 ATATATAAATATAT
1 ATATATAAATATAT
203054 ATATATAAA-ATA-
1 ATATATAAATATAT
203066 ATATA
1 ATATA
203071 AATACATACA
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
12 11 0.16
13 21 0.31
14 31 0.46
15 4 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATAAATATAT
Found at i:203805 original size:72 final size:72
Alignment explanation
Indices: 203702--203845 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
203692 TAAGAATGAA
*
203702 TTTTATGCTTTATTAATATTAATGAATAATGTTGTAAATTATTGTCTCACATGGTATGTTTCCTT
1 TTTTATGCTTTATTAATATTAATGAATAATGTTGTAAATCATTGTCTCACATGGTATGTTTCCTT
203767 AATGGAG
66 AATGGAG
* * *
203774 TTTTATGCTTTGTTAATATTAATGAATAATGTTGTCAGTCATTGTCTCACATGGTATGTTTCCTT
1 TTTTATGCTTTATTAATATTAATGAATAATGTTGTAAATCATTGTCTCACATGGTATGTTTCCTT
203839 AATGGAG
66 AATGGAG
203846 AATCTTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (72 bp):
TTTTATGCTTTATTAATATTAATGAATAATGTTGTAAATCATTGTCTCACATGGTATGTTTCCTT
AATGGAG
Found at i:205882 original size:21 final size:20
Alignment explanation
Indices: 205818--205886 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 20
205808 CTATATCTTT
*
205818 TTTTTATCATTTATTTATT--
1 TTTTTATTATTTATTT-TTAA
* * **
205837 TATTTAGTTACTTATTTTTTC
1 TTTTTA-TTATTTATTTTTAA
205858 TTTTCTATTATTTATTTTTAA
1 TTTT-TATTATTTATTTTTAA
205879 TTTTTATT
1 TTTTTATT
205887 TACTTTATAC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 7 0.18
20 12 0.31
21 18 0.46
22 2 0.05
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.72
Consensus pattern (20 bp):
TTTTTATTATTTATTTTTAA
Found at i:205886 original size:20 final size:18
Alignment explanation
Indices: 205815--205886 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 18
205805 TACCTATATC
*
205815 TTTTTTTTATCATTTATT
1 TTTTTTTTATTATTTATT
* *
205833 TATTTATTTAGTTACTTATTT
1 T-TTTTTTTA-TTATTTA-TT
205854 TTTCTTTTCTATTATTTATT
1 TTT-TTTT-TATTATTTATT
205874 TTTAATTTTTATT
1 TTT--TTTTTATT
205887 TACTTTATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
18 1 0.02
19 7 0.17
20 16 0.38
21 16 0.38
22 2 0.05
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (18 bp):
TTTTTTTTATTATTTATT
Found at i:205948 original size:19 final size:18
Alignment explanation
Indices: 205907--205956 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
205897 ACATTTTTAT
205907 TTTTATTTATTTACTTGC
1 TTTTATTTATTTACTTGC
* *
205925 CTTTATTTACTTTACTTTGT
1 TTTTATTTA-TTTAC-TTGC
205945 TTTATATTTATT
1 TTT-TATTTATT
205957 ACAATCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 5 0.19
20 7 0.27
21 6 0.23
ACGTcount: A:0.18, C:0.10, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTATTTATTTACTTGC
Found at i:214408 original size:15 final size:15
Alignment explanation
Indices: 214388--214432 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
214378 ATTCCGCCAA
214388 ATCCACCACAAAATC
1 ATCCACCACAAAATC
** *
214403 ATCCACCACCTAATT
1 ATCCACCACAAAATC
*
214418 ACCCACCACAAAATC
1 ATCCACCACAAAATC
214433 GTCGATACAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:220053 original size:17 final size:16
Alignment explanation
Indices: 220033--220070 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
220023 CGTCATTCTC
220033 AAAAAGCAAAATAAAAA
1 AAAAAGCAAAA-AAAAA
220050 AAAAAGCAAAAAAAAA
1 AAAAAGCAAAAAAAAA
220066 AAAAA
1 AAAAA
220071 TACAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (16 bp):
AAAAAGCAAAAAAAAA
Found at i:220076 original size:17 final size:16
Alignment explanation
Indices: 220033--220079 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
220023 CGTCATTCTC
*
220033 AAAAAGCAAAATAAAAA
1 AAAAAACAAAA-AAAAA
*
220050 AAAAAGCAAAAAAAAA
1 AAAAAACAAAAAAAAA
220066 AAAAATACAAAAAA
1 AAAAA-ACAAAAAA
220080 GGGAGGGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.04
Consensus pattern (16 bp):
AAAAAACAAAAAAAAA
Found at i:223623 original size:52 final size:52
Alignment explanation
Indices: 223538--223662 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
223528 ATATGAAAAG
* *
223538 TTGCCTGCATGTATCGATATATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
223590 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
223642 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
223663 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:223675 original size:52 final size:51
Alignment explanation
Indices: 223538--223682 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
223528 ATATGAAAAG
*
223538 TTGCCTGCATGTATCGATATATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
223590 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
223642 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
223683 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:223689 original size:13 final size:13
Alignment explanation
Indices: 223671--223695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
223661 CAAAGATCAG
223671 TGTATCGATACAA
1 TGTATCGATACAA
223684 TGTATCGATACA
1 TGTATCGATACA
223696 TTTTTTGGCA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:223753 original size:13 final size:13
Alignment explanation
Indices: 223735--223791 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
223725 TACAAAATTA
223735 TGTATCGATACAT
1 TGTATCGATACAT
223748 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
223766 ATGTATCGATACAT
1 -TGTATCGATACAT
223780 TGTATCGATACA
1 TGTATCGATACA
223792 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:223773 original size:32 final size:32
Alignment explanation
Indices: 223715--223811 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
223705 AGTAGCTTAT
*
223715 ATTGTATCGATACAA-AATTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
223746 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
223778 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
223811 A
1 A
223812 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 15 0.24
32 33 0.52
33 15 0.24
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:225016 original size:28 final size:28
Alignment explanation
Indices: 224973--225576 Score: 598
Period size: 28 Copynumber: 21.5 Consensus size: 28
224963 TACGACACTT
**
224973 TTTCAAAGCCTGCAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* ** *
225001 TTTCAGAGCTTACAAGTCAGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ATCC
*
225030 TTTTCAAAGCCCACAAGCCAGTGGCA-CC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* **
225058 TTTCAAAGCCCACAAGTTAGTGGCATAT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
225086 TTTCAAAGTCCACAAGTCAATAGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
225114 TTTTAAAGCTCACGAGTCAGTGGCATCATT
1 TTTCAAAGCCCACAAGTCAGTGGCATC--C
* *
225144 TTTCAAAGCCCACAAGTCAATAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
225172 TTTCAAAGCCCACGAGTCAGTGGCATCCC
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CC
* *
225201 TTTTCAAAGCCCACGAGTCAGTGGCGTCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
*
225230 TTTCAAAGCCCATAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
* *
225259 -TTCAAAACGCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
225286 TTTCAGAA-CCCACAAGTCAGTGGCATCT
1 TTTCA-AAGCCCACAAGTCAGTGGCATCC
* *
225314 TTTCAAAGCTCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
225342 TTTCAAAGCCCACAAGTCAGTGTCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
225370 GTTCAAAACCCACAAGTTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
225397 TTTTCAAAG-CC-C--TTAAGTGGCA-CTT
1 -TTTCAAAGCCCACAAGTCAGTGGCATC-C
* * *
225422 TTTCAAAGCCCGCAAGTCGGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
225450 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
225478 TTTCAAAGCCAACAAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
225506 TTTCAAAACCCACAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
225533 TTTTCAAAGCCCACAAGTCGGTGGCAACC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
225562 TCTTCTAAAGCCCAC
1 T-TTC-AAAGCCCAC
225577 TCAAATTGGT
Statistics
Matches: 477, Mismatches: 77, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
24 17 0.04
25 2 0.00
26 2 0.00
27 34 0.07
28 327 0.69
29 19 0.04
30 76 0.16
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:225438 original size:24 final size:24
Alignment explanation
Indices: 225388--225438 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
225378 CCCACAAGTT
**
225388 AGTGGCACCTTTTCAAAGCCCTTA
1 AGTGGCACCTTTTCAAAGCCCGCA
*
225412 AGTGGCACTTTTTCAAAGCCCGCA
1 AGTGGCACCTTTTCAAAGCCCGCA
225436 AGT
1 AGT
225439 CGGTGGTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (24 bp):
AGTGGCACCTTTTCAAAGCCCGCA
Found at i:231232 original size:27 final size:26
Alignment explanation
Indices: 231167--231259 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 26
231157 TTGTTCCCTC
231167 CTTGTTGATTTCTCTTCTTTTGATATTT
1 CTTGTTGATTTCT-TTC-TTTGATATTT
* * *
231195 TTTGCTAATTTCATTTCTTTGATATTT
1 CTTGTTGATTTC-TTTCTTTGATATTT
* * *
231222 CTTGTTGATTTTGTTTCCTTGATCTTT
1 CTTGTTGA-TTTCTTTCTTTGATATTT
* *
231249 TTTATTGATTT
1 CTTGTTGATTT
231260 TATTAATAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 3 0.06
27 33 0.63
28 15 0.29
29 1 0.02
ACGTcount: A:0.13, C:0.12, G:0.11, T:0.65
Consensus pattern (26 bp):
CTTGTTGATTTCTTTCTTTGATATTT
Found at i:236765 original size:4 final size:4
Alignment explanation
Indices: 236756--236845 Score: 69
Period size: 4 Copynumber: 22.2 Consensus size: 4
236746 TTATAAATGT
* *
236756 ATAA ATAA AT-A ATAA ATAA AGAA ATAA ACAAA ATAA CATAA CA-AA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TAA ATAA -ATAA -ATAA ATAA
* * * *
236805 AGAA A-AA ATAA AAACA ATAA ATAA AGAA ATAA AGAA ATAA A
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA A
236846 CAAAATAACA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
3 7 0.10
4 50 0.72
5 12 0.17
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (4 bp):
ATAA
Found at i:236791 original size:54 final size:51
Alignment explanation
Indices: 236758--236963 Score: 126
Period size: 52 Copynumber: 4.0 Consensus size: 51
236748 ATAAATGTAT
*
236758 AAAT-AAATAATAAATAAAGAAATAAACAAAAT-AACATAACAAAATAAAGAAA
1 AAATAAAACAATAAATAAAGAAATAAA-AAAATAAACA-AA-AAAATAAAGAAA
* * * *
236810 AAATAAAAACAATAAATAAAGAAATAAAGAAATAAACAAAATAACAGAACAAA
1 AAAT-AAAACAATAAATAAAGAAATAAAAAAATAAACAAAAAAATA-AAGAAA
* * * * *
236863 TAAA-AACACAAT-AACAAA-AATTAAATAAATAAACAAAATAATAATA-AAA
1 -AAATAAAACAATAAATAAAGAAATAAAAAAATAAACAAAAAAATAA-AGAAA
* * *
236912 TAAATAAAACACTAACA-AAATG-AATAAACGAAAT-AATAAAAAAATAAA-AAA
1 -AAATAAAACAATAA-ATAAA-GAAATAAA-AAAATAAACAAAAAAATAAAGAAA
236963 A
1 A
236964 TTAATTTTAT
Statistics
Matches: 126, Mismatches: 16, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
49 8 0.06
50 30 0.24
51 13 0.10
52 32 0.25
53 15 0.12
54 28 0.22
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.15
Consensus pattern (51 bp):
AAATAAAACAATAAATAAAGAAATAAAAAAATAAACAAAAAAATAAAGAAA
Found at i:236825 original size:20 final size:19
Alignment explanation
Indices: 236758--236964 Score: 89
Period size: 20 Copynumber: 10.2 Consensus size: 19
236748 ATAAATGTAT
* * *
236758 AAATAAATAATAAATAAAG
1 AAATAAACAAAAAATAAAA
*
236777 AAATAAACAAAATAACATAACA
1 AAATAAAC-AAA-AA-ATAAAA
*
236799 AAATAAAGAAAAAATAAAA
1 AAATAAACAAAAAATAAAA
* *
236818 ACAATAAATAAAGAAATAAAG
1 A-AATAAACAAA-AAATAAAA
* *
236839 AAATAAACAAAATAACAGAAC
1 AAATAAACAAAA-AATA-AAA
*
236860 AAATAAA-AACACAATAACAA
1 AAATAAACAA-AAAATAA-AA
* *
236880 AAATTAAATAAATAAACAAAA
1 AAA-TAAACAAA-AAATAAAA
*
236901 TAATAATA-AAATAAATAAAA
1 AAATAA-ACAAA-AAATAAAA
* * *
236921 CACT-AACAAAATGAATAAACG
1 AAATAAACAAAA--AATAAA-A
236942 AAATAATA-AAAAAATAAAA
1 AAATAA-ACAAAAAATAAAA
236961 AAAT
1 AAAT
236965 TAATTTTATA
Statistics
Matches: 145, Mismatches: 24, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
18 2 0.01
19 23 0.16
20 62 0.43
21 35 0.24
22 22 0.15
23 1 0.01
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.15
Consensus pattern (19 bp):
AAATAAACAAAAAATAAAA
Found at i:236868 original size:50 final size:49
Alignment explanation
Indices: 236795--236947 Score: 150
Period size: 50 Copynumber: 3.0 Consensus size: 49
236785 AAAATAACAT
*
236795 AACAAAATAAAGAAAAAAT-AAAA-ACAATAAATAAAGAAATAAAGAAATA
1 AACAAAATAAAGAAAAAATAAAAACACAAT-AACAAA-AAATAAAGAAATA
* * *
236844 AACAAAATAACAGAACAAATAAAAACACAATAACAAAAATTAAATAAATA
1 AACAAAATAA-AGAAAAAATAAAAACACAATAACAAAAAATAAAGAAATA
* * *
236894 AACAAAATAATA-ATAAAATAAATAAAACACTAACAAAATGAATAAACGAAATA
1 AACAAAATAA-AGAAAAAATAAA-AACACAATAACAAAA--AATAAA-GAAATA
236947 A
1 A
236948 TAAAAAAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
49 18 0.21
50 43 0.50
51 9 0.10
52 10 0.12
53 6 0.07
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.14
Consensus pattern (49 bp):
AACAAAATAAAGAAAAAATAAAAACACAATAACAAAAAATAAAGAAATA
Found at i:236906 original size:62 final size:62
Alignment explanation
Indices: 236759--236895 Score: 192
Period size: 62 Copynumber: 2.2 Consensus size: 62
236749 TAAATGTATA
*
236759 AATAAAT-AATAAATAAAGAAATAAACAAAATAACATAACAAAATAAAGAAAAAATAAAAAC
1 AATAAATAAATAAATAAAGAAATAAACAAAATAACAGAACAAAATAAAGAAAAAATAAAAAC
* *
236820 AATAAATAAAGAAATAAAGAAATAAACAAAATAACAGAAC-AAATAAA-AACACAATAACAAA-
1 AATAAATAAATAAATAAAGAAATAAACAAAATAACAGAACAAAATAAAGAA-AAAATAA-AAAC
236881 AATTAAATAAATAAA
1 AA-TAAATAAATAAA
236896 CAAAATAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
60 2 0.03
61 22 0.32
62 44 0.65
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (62 bp):
AATAAATAAATAAATAAAGAAATAAACAAAATAACAGAACAAAATAAAGAAAAAATAAAAAC
Found at i:236917 original size:12 final size:12
Alignment explanation
Indices: 236777--236918 Score: 73
Period size: 13 Copynumber: 11.5 Consensus size: 12
236767 ATAAATAAAG
236777 AAATAAACAAAAT
1 AAAT-AACAAAAT
236790 AACATAACAAAAT
1 AA-ATAACAAAAT
*
236803 AAAGAA-AAAAT
1 AAATAACAAAAT
236814 AAA-AACAATAAAT
1 AAATAAC-A-AAAT
* *
236827 AAAGAA-ATAAAG
1 AAATAACA-AAAT
236839 AAATAAACAAAAT
1 AAAT-AACAAAAT
*
236852 AACAGAAC-AAAT
1 AA-ATAACAAAAT
*
236864 AAA-AACACAAT
1 AAATAACAAAAT
*
236875 AACA-AAAATTAAAT
1 AA-ATAACA--AAAT
236889 AAATAAACAAAAT
1 AAAT-AACAAAAT
*
236902 -AATAATAAAAT
1 AAATAACAAAAT
236913 AAATAA
1 AAATAA
236919 AACACTAACA
Statistics
Matches: 104, Mismatches: 10, Indels: 31
0.72 0.07 0.21
Matches are distributed among these distances:
10 5 0.05
11 21 0.20
12 30 0.29
13 34 0.33
14 11 0.11
15 3 0.03
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAACAAAAT
Found at i:236959 original size:8 final size:8
Alignment explanation
Indices: 236756--236964 Score: 59
Period size: 8 Copynumber: 25.2 Consensus size: 8
236746 TTATAAATGT
*
236756 ATAAATAA
1 ATAAAAAA
*
236764 AT-AATAA
1 ATAAAAAA
*
236771 ATAAAGAA
1 ATAAAAAA
236779 ATAAACAAA
1 ATAAA-AAA
* *
236788 ATAACATA
1 ATAAAAAA
*
236796 ACAAAATAA
1 ATAAAA-AA
*
236805 A-GAAAAA
1 ATAAAAAA
236812 ATAAAAACA
1 ATAAAAA-A
236821 ATAAATAAAGAA
1 AT--A-AAA-AA
*
236833 ATAAAGAA
1 ATAAAAAA
236841 ATAAACAAA
1 ATAAA-AAA
* *
236850 ATAACAGA
1 ATAAAAAA
* *
236858 ACAAATAA
1 ATAAAAAA
* *
236866 A-AACACA
1 ATAAAAAA
236873 ATAACAAAA
1 ATAA-AAAA
*
236882 ATTAAATAA
1 A-TAAAAAA
236891 ATAAACAAA
1 ATAAA-AAA
*
236900 AT--AATA
1 ATAAAAAA
236906 ATAAAATAA
1 ATAAAA-AA
*
236915 ATAAAACA
1 ATAAAAAA
* *
236923 CTAACAAA
1 ATAAAAAA
* *
236931 ATGAATAA
1 ATAAAAAA
** *
236939 ACGAAATA
1 ATAAAAAA
236947 ATAAAAAA
1 ATAAAAAA
236955 ATAAAAAA
1 ATAAAAAA
236963 AT
1 AT
236965 TAATTTTATA
Statistics
Matches: 144, Mismatches: 40, Indels: 34
0.66 0.18 0.16
Matches are distributed among these distances:
6 4 0.03
7 15 0.10
8 76 0.53
9 37 0.26
10 4 0.03
11 1 0.01
12 6 0.04
13 1 0.01
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (8 bp):
ATAAAAAA
Found at i:240426 original size:86 final size:86
Alignment explanation
Indices: 240281--240451 Score: 279
Period size: 86 Copynumber: 2.0 Consensus size: 86
240271 CAGTATCAAG
* * * *
240281 TGCTGTGACAGGTGGCAGAGGAAGATATTGAGGATAAAGAGGATGAGGGAAGAACAAGGGAAGAG
1 TGCTGTGACAGATGGCAGAGCAAGATATTAAGAATAAAGAGGATGAGGGAAGAACAAGGGAAGAG
*
240346 AAAAATGTAGAGCGAACTTAT
66 AAAAATGTAGAGAGAACTTAT
**
240367 TGCTGTGACAGATGGCAGAGCAAGATATTAAGAATAAAGAGTTTGAGGGAAGAACAAGGGAAGAG
1 TGCTGTGACAGATGGCAGAGCAAGATATTAAGAATAAAGAGGATGAGGGAAGAACAAGGGAAGAG
240432 AAAAATGTAGAGAGAACTTA
66 AAAAATGTAGAGAGAACTTA
240452 GAGAGGATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.43, C:0.07, G:0.33, T:0.17
Consensus pattern (86 bp):
TGCTGTGACAGATGGCAGAGCAAGATATTAAGAATAAAGAGGATGAGGGAAGAACAAGGGAAGAG
AAAAATGTAGAGAGAACTTAT
Found at i:242738 original size:34 final size:34
Alignment explanation
Indices: 242695--242762 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
242685 ATTGCTAAAT
242695 TTCTTTATACATAAGAAAGGAGAATATTTAACCA
1 TTCTTTATACATAAGAAAGGAGAATATTTAACCA
242729 TTCTTTATACATAAGAAAGGAGAATATTTAACCA
1 TTCTTTATACATAAGAAAGGAGAATATTTAACCA
242763 ACCTTTACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (34 bp):
TTCTTTATACATAAGAAAGGAGAATATTTAACCA
Found at i:242780 original size:4 final size:4
Alignment explanation
Indices: 242773--242798 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
242763 ACCTTTACCC
242773 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
242799 TGTGTATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:243863 original size:15 final size:15
Alignment explanation
Indices: 243843--243871 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
243833 TGTAATAAGA
243843 TTGATAAAATTTTTG
1 TTGATAAAATTTTTG
243858 TTGATAAAATTTTT
1 TTGATAAAATTTTT
243872 ATATAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TTGATAAAATTTTTG
Found at i:248001 original size:11 final size:11
Alignment explanation
Indices: 247979--248016 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
247969 AAGTTACAAT
247979 ATTTTA-TATA
1 ATTTTATTATA
247989 ATTTTATTATA
1 ATTTTATTATA
* *
248000 ATTTAATTTTA
1 ATTTTATTATA
248011 ATTTTA
1 ATTTTA
248017 AGATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTATTATA
Found at i:248557 original size:17 final size:16
Alignment explanation
Indices: 248521--248560 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
248511 AAATTATTTT
* *
248521 TATTAAATATTTATTG
1 TATTTAATATTTATTA
248537 TATTTAATATTTATTAA
1 TATTTAATATTTATT-A
248554 TATTTAA
1 TATTTAA
248561 GGTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TATTTAATATTTATTA
Found at i:250425 original size:34 final size:37
Alignment explanation
Indices: 250383--250459 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 37
250373 ATTATTTAAA
* *
250383 AAAT-ATTAAAATATAA-AAAAATTAATTTTA-TATT
1 AAATAATTAAAATAAAATAAAAAATAATTTTATTATT
* *
250417 -AATAATTAAATTAAAATAAAAAATATTTTTATTATT
1 AAATAATTAAAATAAAATAAAAAATAATTTTATTATT
250453 AAATAAT
1 AAATAAT
250460 AATTTGAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 3 0.09
34 10 0.29
35 12 0.34
36 4 0.11
37 6 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (37 bp):
AAATAATTAAAATAAAATAAAAAATAATTTTATTATT
Found at i:251476 original size:13 final size:13
Alignment explanation
Indices: 251458--251506 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
251448 TCATCATCTA
*
251458 TATTTATTATTAT
1 TATTTATTATAAT
251471 TATTTATTATAAT
1 TATTTATTATAAT
* *
251484 TAATTATAATAA-
1 TATTTATTATAAT
*
251496 TATTAATTATA
1 TATTTATTATA
251507 TCTATAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 8 0.27
13 22 0.73
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTATTATAAT
Found at i:251502 original size:15 final size:15
Alignment explanation
Indices: 251482--251524 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
251472 ATTTATTATA
251482 ATTAATTATAATAAT
1 ATTAATTATAATAAT
*
251497 ATTAATTAT-AT-CT
1 ATTAATTATAATAAT
251510 A-TAATTATAATAAT
1 ATTAATTATAATAAT
251524 A
1 A
251525 AGATCGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 7 0.29
13 4 0.17
14 4 0.17
15 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATTATAATAAT
Found at i:252079 original size:22 final size:21
Alignment explanation
Indices: 252053--252107 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
252043 TAAAAATTAA
*
252053 AAATTAAAATTATATTATATTT
1 AAATTAAAATTAAATTAT-TTT
*
252075 TAATTATATAATTAAATTATTTT
1 AAATTA-A-AATTAAATTATTTT
252098 AAATTTAAAA
1 AAA-TTAAAA
252108 ATCTGTCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 7 0.26
23 7 0.26
24 13 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATTAAAATTAAATTATTTT
Found at i:252079 original size:29 final size:29
Alignment explanation
Indices: 252047--252103 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
252037 AAAATTTAAA
*
252047 AATTA-AAAATTAAAATTATATTATATTTT
1 AATTATAAAATT-AAATTATATTAAATTTT
* *
252076 AATTATATAATTAAATTATTTTAAATTT
1 AATTATAAAATTAAATTATATTAAATTT
252104 AAAAATCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
AATTATAAAATTAAATTATATTAAATTTT
Found at i:252798 original size:21 final size:21
Alignment explanation
Indices: 252774--252824 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
252764 TATAGAATTT
252774 ATAATTAAAATTTAAATAAAA
1 ATAATTAAAATTTAAATAAAA
** * *
252795 ATAATTTTAATTTAATTTAAA
1 ATAATTAAAATTTAAATAAAA
252816 ATAAATTAA
1 AT-AATTAA
252825 GATCAAATCA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATTAAAATTTAAATAAAA
Found at i:253355 original size:17 final size:18
Alignment explanation
Indices: 253325--253358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
253315 TAACATTATC
253325 AAAAACCAACCCTAAAAA
1 AAAAACCAACCCTAAAAA
*
253343 AAAAACCTA-CCTAAAA
1 AAAAACCAACCCTAAAA
253359 TTCAAACCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.26, G:0.00, T:0.09
Consensus pattern (18 bp):
AAAAACCAACCCTAAAAA
Found at i:260353 original size:27 final size:27
Alignment explanation
Indices: 260315--260368 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
260305 TGGTGGACCA
* *
260315 TCTTGTAAGGCATCAGCCTCAGTAATG
1 TCTTGTAAGGCATCACCCTCAATAATG
260342 TCTTGTAAGGCATCACCCTCAATAATG
1 TCTTGTAAGGCATCACCCTCAATAATG
260369 GAAACAGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (27 bp):
TCTTGTAAGGCATCACCCTCAATAATG
Found at i:261361 original size:18 final size:18
Alignment explanation
Indices: 261338--261374 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
261328 CTTGCCCGAT
261338 AGAGAACAGCCTTTTCCA
1 AGAGAACAGCCTTTTCCA
261356 AGAGAACAGCCTTTTCCA
1 AGAGAACAGCCTTTTCCA
261374 A
1 A
261375 TTGTTGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (18 bp):
AGAGAACAGCCTTTTCCA
Found at i:262248 original size:18 final size:18
Alignment explanation
Indices: 262225--262260 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
262215 ATCGTAAAAG
262225 AATCTGTTGGGGTGGTTT
1 AATCTGTTGGGGTGGTTT
262243 AATCTGTTGGGGTGGTTT
1 AATCTGTTGGGGTGGTTT
262261 TCAAGCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.39, T:0.44
Consensus pattern (18 bp):
AATCTGTTGGGGTGGTTT
Found at i:264803 original size:2 final size:2
Alignment explanation
Indices: 264796--264844 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
264786 CCTTAACCCA
264796 AT AT AT AT AT AT AT 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
264838 AT AT AT A
1 AT AT AT A
264845 CAACATTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:265040 original size:2 final size:2
Alignment explanation
Indices: 265033--265058 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
265023 AGATCAACAT
265033 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
265059 GCTCATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:267603 original size:11 final size:10
Alignment explanation
Indices: 267571--267606 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
267561 AAAATTAAGA
267571 TTTAAA-ATT
1 TTTAAATATT
267580 TTTAAATATT
1 TTTAAATATT
267590 TTTAAATATAT
1 TTTAAATAT-T
267601 TTTAAA
1 TTTAAA
267607 ATTAAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.24
10 12 0.48
11 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTAAATATT
Found at i:269042 original size:16 final size:16
Alignment explanation
Indices: 269021--269073 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
269011 CTTTTTAAAT
269021 TTTTTTTATATATTAA
1 TTTTTTTATATATTAA
*
269037 TTTTTTTA-ATTTTTAA
1 TTTTTTTATA-TATTAA
**
269053 AATTTTTATATATTAA
1 TTTTTTTATATATTAA
269069 CTTTT
1 -TTTT
269074 GTGATACACA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
15 1 0.04
16 24 0.86
17 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTTTATATATTAA
Found at i:271064 original size:36 final size:36
Alignment explanation
Indices: 271017--271088 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
271007 AATACATTGG
271017 TGCAGATCTGAATGTAAACACTCATTTATGAAGTTT
1 TGCAGATCTGAATGTAAACACTCATTTATGAAGTTT
271053 TGCAGATCTGAATGTAAACACTCATTTATGAAGTTT
1 TGCAGATCTGAATGTAAACACTCATTTATGAAGTTT
271089 ACAATTACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (36 bp):
TGCAGATCTGAATGTAAACACTCATTTATGAAGTTT
Done.