Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold10
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: 3842500
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.31
Warning! 348197 characters in sequence are not A, C, G, or T
File 13 of 25
Found at i:1798264 original size:35 final size:35
Alignment explanation
Indices: 1798218--1798292 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
1798208 TTTAGTCCTT
1798218 TGAGAGTTGGAGTTGGGAAGAGAAAGAAAGAAGCA
1 TGAGAGTTGGAGTTGGGAAGAGAAAGAAAGAAGCA
1798253 TGAGAGTTGGAGTTGGGAAGAGAAAGAAAGAAGCA
1 TGAGAGTTGGAGTTGGGAAGAGAAAGAAAGAAGCA
*
1798288 GGAGA
1 TGAGA
1798293 AAAAAATGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.43, C:0.03, G:0.41, T:0.13
Consensus pattern (35 bp):
TGAGAGTTGGAGTTGGGAAGAGAAAGAAAGAAGCA
Found at i:1800047 original size:2 final size:2
Alignment explanation
Indices: 1800040--1800069 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1800030 TTAATTGTAC
1800040 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
1800070 TACACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1800996 original size:21 final size:20
Alignment explanation
Indices: 1800956--1801025 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 20
1800946 AAATATATAA
*
1800956 ATATATTAAAATTTATAAATT
1 ATATATTAAAATATA-AAATT
1800977 ATATATTAAAATATCAAAATT
1 ATATATTAAAATAT-AAAATT
1800998 -TATA-T-AAATAT-AAA-T
1 ATATATTAAAATATAAAATT
1801013 ATA-ATTAAAATAT
1 ATATATTAAAATAT
1801026 GATCTAATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
15 2 0.05
16 6 0.14
17 6 0.14
18 6 0.14
19 1 0.02
20 4 0.09
21 18 0.41
22 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATATTAAAATATAAAATT
Found at i:1801311 original size:15 final size:16
Alignment explanation
Indices: 1801277--1801313 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1801267 TTTGGAATAA
*
1801277 AAAATTCTCATTATAT
1 AAAATTCTCATCATAT
1801293 -AAATT-TCATCATAT
1 AAAATTCTCATCATAT
1801307 AAAATTC
1 AAAATTC
1801314 CCATTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATTCTCATCATAT
Found at i:1803004 original size:44 final size:44
Alignment explanation
Indices: 1802950--1803036 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
1802940 AATCATTACC
*
1802950 AGTTTTATAAAACATTACTTAAGATTTACATAGCTCACAAAAAG
1 AGTTTTATAAAACATTACCTAAGATTTACATAGCTCACAAAAAG
1802994 AGTTTTATAAAACATTACCTAAGATTTACATAGCTCACAAAAA
1 AGTTTTATAAAACATTACCTAAGATTTACATAGCTCACAAAAA
1803037 AGAGCTCATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (44 bp):
AGTTTTATAAAACATTACCTAAGATTTACATAGCTCACAAAAAG
Found at i:1803388 original size:13 final size:13
Alignment explanation
Indices: 1803370--1803399 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1803360 AGAATTGATA
1803370 TTATATAAAATAT
1 TTATATAAAATAT
1803383 TTATATAAAATAT
1 TTATATAAAATAT
1803396 TTAT
1 TTAT
1803400 TGACATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATATAAAATAT
Found at i:1806671 original size:19 final size:19
Alignment explanation
Indices: 1806647--1806687 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1806637 TTATGTTATT
1806647 ATTTATAAT-AATAATAATA
1 ATTTATAATAAAT-ATAATA
*
1806666 ATTTATATTAAATATAATA
1 ATTTATAATAAATATAATA
1806685 ATT
1 ATT
1806688 AATTTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTATAATAAATATAATA
Found at i:1806685 original size:22 final size:22
Alignment explanation
Indices: 1806648--1806700 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1806638 TATGTTATTA
*
1806648 TTTATAATA-ATAATAA-TAAT
1 TTTATAAAATATAATAATTAAT
*
1806668 TTATATTAAATATAATAATTAAT
1 TT-TATAAAATATAATAATTAAT
1806691 TTTATAAAAT
1 TTTATAAAAT
1806701 TTTAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 5 0.19
22 14 0.52
23 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTATAAAATATAATAATTAAT
Found at i:1807486 original size:3 final size:3
Alignment explanation
Indices: 1807478--1807510 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1807468 CGCTTTCCAA
*
1807478 CTT CTT CTT CTG CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1807511 TTTTCAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:1819441 original size:51 final size:51
Alignment explanation
Indices: 1819357--1819457 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
1819347 TATCTTGACT
* *
1819357 CAGCTGCCAAAGAACTAGGTTGTAATATTTCGATATAACATCGATTAACCA
1 CAGCTGCCAAAGAACTAGGCTGTAATATATCGATATAACATCGATTAACCA
* * *
1819408 CAGCTGCCATAGAACTAGGCTGTTATATATCGATATAACATTGATTAACC
1 CAGCTGCCAAAGAACTAGGCTGTAATATATCGATATAACATCGATTAACC
1819458 TTCGGATCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (51 bp):
CAGCTGCCAAAGAACTAGGCTGTAATATATCGATATAACATCGATTAACCA
Found at i:1820066 original size:20 final size:21
Alignment explanation
Indices: 1820027--1820067 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1820017 ATTTATTAAA
*
1820027 TTTAAATTAAAAATAATATTT
1 TTTAAATCAAAAATAATATTT
*
1820048 TTTAAATCAAATA-AATATTT
1 TTTAAATCAAAAATAATATTT
1820068 ACTTATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAAATCAAAAATAATATTT
Found at i:1823743 original size:23 final size:21
Alignment explanation
Indices: 1823689--1823765 Score: 55
Period size: 23 Copynumber: 3.4 Consensus size: 21
1823679 TGTTGTTTTT
* * *
1823689 TTTATTTTAATTGAGCTTTTAA
1 TTTAATTTAAATG-GCTTTTAG
*
1823711 TTTAAGTTTAGATAGGCTTTTAG
1 TTTAA-TTTAAAT-GGCTTTTAG
* *
1823734 TTTAGATTTAAATGGGTTTAAG
1 TTTA-ATTTAAATGGCTTTTAG
1823756 TTTAAATTTA
1 TTT-AATTTA
1823766 TATTTTATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
22 19 0.43
23 23 0.52
24 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.52
Consensus pattern (21 bp):
TTTAATTTAAATGGCTTTTAG
Found at i:1823764 original size:22 final size:23
Alignment explanation
Indices: 1823706--1823765 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
1823696 TAATTGAGCT
* *
1823706 TTTAA-TTTAAGTTTAGATAGGC
1 TTTAAGTTTAAATTTAAATAGGC
* * *
1823728 TTTTAGTTTAGATTTAAAT-GGG
1 TTTAAGTTTAAATTTAAATAGGC
1823750 TTTAAGTTTAAATTTA
1 TTTAAGTTTAAATTTA
1823766 TATTTTATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.50
Consensus pattern (23 bp):
TTTAAGTTTAAATTTAAATAGGC
Found at i:1823814 original size:22 final size:22
Alignment explanation
Indices: 1823757--1823818 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
1823747 GGGTTTAAGT
1823757 TTAAATTTATATT-TTATTAAATA
1 TTAAATTTA-ATTATT-TTAAATA
* *
1823780 -T-ATTTTAAATATTTTAAATA
1 TTAAATTTAATTATTTTAAATA
1823800 TTAAATTTAATTATTTTAA
1 TTAAATTTAATTATTTTAA
1823819 TTTATTCGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 9 0.28
21 8 0.25
22 15 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAATTTAATTATTTTAAATA
Found at i:1830017 original size:22 final size:24
Alignment explanation
Indices: 1829970--1830018 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1829960 ATATTTTTTA
*
1829970 TTTTTTAAAACAAATAACGATCAT
1 TTTTTTAAAACAAATAACGATAAT
*
1829994 TTTTTTAAAA-AAA-AACG-TAAA
1 TTTTTTAAAACAAATAACGATAAT
1830015 TTTT
1 TTTT
1830019 AAACTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 4 0.17
23 3 0.13
24 10 0.43
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (24 bp):
TTTTTTAAAACAAATAACGATAAT
Found at i:1831894 original size:32 final size:32
Alignment explanation
Indices: 1831845--1832094 Score: 394
Period size: 32 Copynumber: 7.8 Consensus size: 32
1831835 AATATGGTGA
* * **
1831845 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1831877 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1831909 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1831941 TTTGGAATGAGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1831973 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1832005 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1832037 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1832069 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
1832095 GATTTAAAAG
Statistics
Matches: 204, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
31 13 0.06
32 191 0.94
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1832111 original size:27 final size:27
Alignment explanation
Indices: 1832077--1833253 Score: 1832
Period size: 27 Copynumber: 43.0 Consensus size: 27
1832067 GCTTTGAAAT
* *
1832077 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832104 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832131 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1832158 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1832186 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
1832214 GGGTGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1832241 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832268 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** * *
1832295 GAATGCCACGAAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832322 GGGTGCCACGGAGTTGTGGTCTTAAACA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
*
1832350 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1832378 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832405 GGGTGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832432 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1832459 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832486 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1832513 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1832541 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1832568 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832595 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832622 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832649 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832676 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1832704 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832731 GGGTGCCACGGAATTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1832759 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1832786 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832813 GGGTGCCACGGAGTTGTGGTCTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
1832841 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1832868 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1832895 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1832922 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1832949 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1832977 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1833004 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* *
1833032 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1833059 GGGTACCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
1833087 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1833114 GGGGTGCCACGGAGTTGTGGATTTTAAAA
1 -GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
1833143 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1833170 GGGTACCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1833198 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1833225 GGATGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
1833253 G
1 G
1833254 AAAATGCCAC
Statistics
Matches: 1062, Mismatches: 74, Indels: 27
0.91 0.06 0.02
Matches are distributed among these distances:
27 730 0.69
28 305 0.29
29 27 0.03
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1832355 original size:164 final size:163
Alignment explanation
Indices: 1832077--1833253 Score: 1822
Period size: 164 Copynumber: 7.2 Consensus size: 163
1832067 GCTTTGAAAT
* * *
1832077 GGGTGCCACAGAGTTGTGGA-TTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1832141 GAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGG
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGG
*
1832206 ACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAA
129 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** *
1832241 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
1832306 AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAACAGGGATGCCACAGAGTTGTGGA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGGATGCCACGGAGTTGTGGA
1832371 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
130 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1832405 GGGTGCCATGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
1832470 AGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGAC
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGAC
1832535 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
131 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1832568 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
1832633 AGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGG-TGCCACAGAGTTGTGGAC
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGAC
* *
1832697 TTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAA
131 -TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1832731 GGGTGCCACGGAATTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
1832796 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGG-TGCCACGGAGTTGTGG
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGATGCCACGGAGTTGTGG
1832860 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
129 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
1832895 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
1832960 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGA
* *
1833025 CTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAA
130 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
1833059 GGGTACCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GGGTGCCAC
* * *
1833124 GGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG-TACCACGGAGTTGTG
64 GGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTG
*
1833188 GACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
128 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1833225 GGATGCCACAGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAAG
1833254 AAAATGCCAC
Statistics
Matches: 934, Mismatches: 68, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
162 16 0.02
163 288 0.31
164 439 0.47
165 87 0.09
166 104 0.11
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (163 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGAC
TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1834326 original size:17 final size:17
Alignment explanation
Indices: 1834304--1834337 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1834294 AGGGTGAAAA
1834304 GGTTTTTTTTTTTTTTT
1 GGTTTTTTTTTTTTTTT
1834321 GGTTTTTTTTTTTTTTT
1 GGTTTTTTTTTTTTTTT
1834338 TAGGATTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
GGTTTTTTTTTTTTTTT
Found at i:1841167 original size:24 final size:22
Alignment explanation
Indices: 1841113--1841167 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
1841103 TCCATTTCAT
*
1841113 ATTTTTT-TTTCTTTTTTCTTC
1 ATTTTTTCTTTCTTTTTTCTTA
1841134 ATCTTCTTTCTTTCTTTTTTACTTAA
1 AT-TT-TTTCTTTCTTTTTT-CTT-A
1841160 ATTTTTTC
1 ATTTTTTC
1841168 AACCCATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 3 0.11
24 14 0.50
25 5 0.18
26 2 0.07
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTTTCTTTCTTTTTTCTTA
Found at i:1843592 original size:239 final size:233
Alignment explanation
Indices: 1843168--1843638 Score: 789
Period size: 239 Copynumber: 2.0 Consensus size: 233
1843158 AATGAACATC
* * * * *
1843168 CAAGTATATGGCTTGAAAGTTGAGGTTCATATAAGATTGGATCACACATGTGTGCGTTACTGTTG
1 CAAGCATATGACTTGAAAGTTGAGGTCCATATAAGATTGGATCACACATGTGTGCGCTACTGTCG
* *
1843233 AGCTAAGCTAGGCCGAGCTTGGGGTTGGGCTTGGGCTAAAGGTCAAGTAGGCCTTATCTTTTGGA
66 AGCTAAGCTAAGCCAAGCTTGGGGTTGGGCTTGGGCTAAAGGTCAAGTAGGCCTTATCTTTTGGA
*
1843298 GCCCAGCCCATCAATGTTCAAAGTCTAACCAACTGAATAAGATATCCTATCCAGTTTCAAATTTA
131 GCCCAGCCCATCAATGCTCAAAGTCTAACCAACTGAATAAGATATCCTATCCAGTTTCAAATTTA
1843363 AACGATATTATCTTGATTTTTGGTGGAACTGTTATAAT
196 AACGATATTATCTTGATTTTTGGTGGAACTGTTATAAT
*
1843401 CAAGCATATGACTTGAAAGTTGAGGTCCATATAAGATTGGATTACACATGTGTGCGCTACTGTCG
1 CAAGCATATGACTTGAAAGTTGAGGTCCATATAAGATTGGATCACACATGTGTGCGCTACTGTCG
*
1843466 AGCTAAGCTAAGCCAAGTTTGGGGTTGGGCTTGGGCTTGGGCTAAAGGTCAAGTAGGCCTTATCT
66 AGCTAAGCTAAGCCAAGCTT---G--GGG-TTGGGCTTGGGCTAAAGGTCAAGTAGGCCTTATCT
*
1843531 TTTGGAGCCCAGCCCATCAATGCTCAAAGTTTAACCAACTGAATAAGATATCCTATCCAGTTTCA
125 TTTGGAGCCCAGCCCATCAATGCTCAAAGTCTAACCAACTGAATAAGATATCCTATCCAGTTTCA
1843596 AATTTAAACGATATTATCTTGATTTTTGGTGGAACTGTTATAA
190 AATTTAAACGATATTATCTTGATTTTTGGTGGAACTGTTATAA
1843639 ACGTTCAGGT
Statistics
Matches: 221, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
233 76 0.34
236 1 0.00
238 3 0.01
239 141 0.64
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (233 bp):
CAAGCATATGACTTGAAAGTTGAGGTCCATATAAGATTGGATCACACATGTGTGCGCTACTGTCG
AGCTAAGCTAAGCCAAGCTTGGGGTTGGGCTTGGGCTAAAGGTCAAGTAGGCCTTATCTTTTGGA
GCCCAGCCCATCAATGCTCAAAGTCTAACCAACTGAATAAGATATCCTATCCAGTTTCAAATTTA
AACGATATTATCTTGATTTTTGGTGGAACTGTTATAAT
Found at i:1844508 original size:2 final size:2
Alignment explanation
Indices: 1844501--1844528 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1844491 AGATCTTTAA
1844501 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
1844529 GTAAATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1848660 original size:61 final size:61
Alignment explanation
Indices: 1848586--1848708 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
1848576 ATTGATACCT
* * *
1848586 AATCAAAATTAAATAAAATTATATATTTTATTTTCAATTTAGACCTTATTTCATAAAGCCA
1 AATCAAAAATAAATAAAATTATATATTTTATTTTCAATCTAGACCTAATTTCATAAAGCCA
1848647 AATCAAAAATAAATAAAATTATATATTTTATTTTCAATCTAGACCTAATTTCATAAAGCCA
1 AATCAAAAATAAATAAAATTATATATTTTATTTTCAATCTAGACCTAATTTCATAAAGCCA
1848708 A
1 A
1848709 TTTCGTAAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.38
Consensus pattern (61 bp):
AATCAAAAATAAATAAAATTATATATTTTATTTTCAATCTAGACCTAATTTCATAAAGCCA
Found at i:1849916 original size:2 final size:2
Alignment explanation
Indices: 1849909--1849935 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1849899 CAGCCTTGTA
1849909 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1849936 CCCCCCCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1850665 original size:11 final size:11
Alignment explanation
Indices: 1850649--1850682 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
1850639 GAAGCTTAAC
1850649 TAATTTATACA
1 TAATTTATACA
*
1850660 TAATTTATGCA
1 TAATTTATACA
1850671 TAATTTATACA
1 TAATTTATACA
1850682 T
1 T
1850683 TTCATTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (11 bp):
TAATTTATACA
Found at i:1852169 original size:28 final size:28
Alignment explanation
Indices: 1852138--1852191 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
1852128 ACCAGTCTAG
*
1852138 AGTCTTGTTGTTCCCATTACAGAGAGTA
1 AGTCTTGTTGTTCCCATAACAGAGAGTA
*
1852166 AGTCTTGTTGTTCCCATAATAGAGAG
1 AGTCTTGTTGTTCCCATAACAGAGAG
1852192 GAGATGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (28 bp):
AGTCTTGTTGTTCCCATAACAGAGAGTA
Found at i:1855448 original size:4 final size:4
Alignment explanation
Indices: 1855441--1855465 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1855431 TACCTACCTA
1855441 CCAG CCAG CCAG CCAG CCAG CCAG C
1 CCAG CCAG CCAG CCAG CCAG CCAG C
1855466 AAGCAATCCC
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:0.24, C:0.52, G:0.24, T:0.00
Consensus pattern (4 bp):
CCAG
Found at i:1855870 original size:18 final size:18
Alignment explanation
Indices: 1855802--1855871 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
1855792 ATATTTAAAT
*
1855802 TTATTT-AATTTATATGA
1 TTATTTAAATTTATATTA
1855819 -TATTTAAATTTATTATTA
1 TTATTTAAATTTA-TATTA
* *
1855837 TT-TTTTATTTTAATATTA
1 TTATTTAAATTT-ATATTA
1855855 TTATTTAAATTTATATT
1 TTATTTAAATTTATATT
1855872 CAATTTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 5 0.12
17 6 0.14
18 23 0.53
19 9 0.21
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTTAAATTTATATTA
Found at i:1857105 original size:15 final size:15
Alignment explanation
Indices: 1857085--1857137 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
1857075 CTTTTATTAT
1857085 ATTTTATTTATATAA
1 ATTTTATTTATATAA
*
1857100 ATTTTA-ATATATTAA
1 ATTTTATTTATA-TAA
*
1857115 TAATTTATATTATATAA
1 -ATTTTAT-TTATATAA
1857132 ATTTTA
1 ATTTTA
1857138 ATATATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 4 0.13
15 9 0.30
16 10 0.33
17 3 0.10
18 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTATTTATATAA
Found at i:1857110 original size:14 final size:14
Alignment explanation
Indices: 1857093--1857143 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
1857083 ATATTTTATT
1857093 TATATAAATTTTAA
1 TATATAAATTTTAA
*
1857107 TATATTAATAATTTATAT
1 TATA-T-A-AATTT-TAA
1857125 TATATAAATTTTAA
1 TATATAAATTTTAA
1857139 TATAT
1 TATAT
1857144 TTTATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 11 0.35
15 6 0.19
16 2 0.06
17 6 0.19
18 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:1857110 original size:25 final size:26
Alignment explanation
Indices: 1857076--1857178 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 26
1857066 AATTTGAATC
*
1857076 TTTTATTATAT-TTTATTTATATAAA
1 TTTTAATATATATTTATTTATATAAA
1857101 TTTTAATATATTAATAATTTATATTATATAAA
1 TTTT-A-ATA-T-AT-ATTTAT-TTATATAAA
* *
1857133 TTTTAATATAT-TTTATATATTTATAA
1 TTTTAATATATATTTATTTATATA-AA
*
1857159 TTTT-TTA-ATATTTATTTATA
1 TTTTAATATATATTTATTTATA
1857179 ATCATATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 19 0.30
26 12 0.19
27 2 0.03
28 3 0.05
29 3 0.05
30 3 0.05
31 6 0.10
32 13 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTAATATATATTTATTTATATAAA
Found at i:1857128 original size:32 final size:30
Alignment explanation
Indices: 1857079--1857173 Score: 106
Period size: 32 Copynumber: 3.2 Consensus size: 30
1857069 TTGAATCTTT
*
1857079 TATTATATTTTATTTATATAAATTTTAATA
1 TATTATAATTTATTTATATAAATTTTAATA
1857109 TATTAATAATTTATATTATATAAATTTTAATA
1 TATT-ATAATTTAT-TTATATAAATTTTAATA
* * **
1857141 TATT-TTATATATTTATA-ATTTTTTAATA
1 TATTATAATTTATTTATATAAATTTTAATA
1857169 T-TTAT
1 TATTAT
1857174 TTATAATCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
27 2 0.04
28 11 0.19
29 5 0.09
30 10 0.18
31 8 0.14
32 21 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTATAATTTATTTATATAAATTTTAATA
Found at i:1857186 original size:42 final size:43
Alignment explanation
Indices: 1857079--1857186 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 43
1857069 TTGAATCTTT
*
1857079 TATTATATTTTATTTAT-ATAAATTTTAATATATTAATAATTTA
1 TATTATA-TTTATTTATAATATATTTTAATATATTAATAATTTA
** *
1857122 TATTATATAAATTT-TAATATATTTT-ATATATTTATAATTT-
1 TATTATATTTATTTATAATATATTTTAATATATTAATAATTTA
1857162 T-TTAATATTTATTTATAATCATATT
1 TATT-ATATTTATTTATAAT-ATATT
1857187 ATATTTAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
39 2 0.04
40 9 0.16
41 19 0.35
42 18 0.33
43 7 0.13
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (43 bp):
TATTATATTTATTTATAATATATTTTAATATATTAATAATTTA
Found at i:1857193 original size:21 final size:20
Alignment explanation
Indices: 1857079--1857190 Score: 75
Period size: 21 Copynumber: 5.4 Consensus size: 20
1857069 TTGAATCTTT
*
1857079 TATTATATTTTATTTAT-ATA
1 TATTATA-TATATTTATAATA
* * *
1857099 AATTTTAATATATTAATAATTTA
1 TATTAT-ATATATTTATAA--TA
*
1857122 TATTATATAAATTT-TAATA
1 TATTATATATATTTATAATA
* *
1857141 TATTTTATATATTTATAATT
1 TATTATATATATTTATAATA
* *
1857161 TTTTAATATTTATTTATAATCA
1 TATT-ATATATATTTATAAT-A
1857183 TATTATAT
1 TATTATAT
1857191 TTAATATTAT
Statistics
Matches: 69, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
19 14 0.20
20 18 0.26
21 22 0.32
22 9 0.13
23 6 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATATATATTTATAATA
Found at i:1857366 original size:17 final size:17
Alignment explanation
Indices: 1857343--1857430 Score: 79
Period size: 19 Copynumber: 4.8 Consensus size: 17
1857333 TATATAATTA
1857343 AAAAATATAAAAATAATT
1 AAAAATATAAAAATAA-T
* *
1857361 AAAATATATAATATTATAT
1 AAAA-ATATAAAAATA-AT
1857380 AATATAATATAAAAATAAT
1 AA-A-AATATAAAAATAAT
*
1857399 AAAAATA-AAATAAAAAT
1 AAAAATATAAA-AATAAT
1857416 AAAAATATTAAAAAT
1 AAAAATA-TAAAAAT
1857431 TTATATAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.05
17 16 0.28
18 7 0.12
19 19 0.33
20 11 0.19
21 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATATAAAAATAAT
Found at i:1857418 original size:11 final size:11
Alignment explanation
Indices: 1857383--1857419 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1857373 ATTATATAAT
*
1857383 ATAATATAAAA
1 ATAAAATAAAA
1857394 AT--AATAAAA
1 ATAAAATAAAA
1857403 ATAAAATAAAA
1 ATAAAATAAAA
1857414 ATAAAA
1 ATAAAA
1857420 ATATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:1857423 original size:39 final size:39
Alignment explanation
Indices: 1857346--1857423 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
1857336 ATAATTAAAA
* * * * *
1857346 AATATAAAAATAATTAAAATATATAATATTATATAATAT
1 AATATAAAAATAATAAAAATAAATAAAAATATAAAATAT
1857385 AATATAAAAATAATAAAAATAAAATAAAAATA-AAAATAT
1 AATATAAAAATAATAAAAAT-AAATAAAAATATAAAATAT
1857424 TAAAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.76
40 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (39 bp):
AATATAAAAATAATAAAAATAAATAAAAATATAAAATAT
Found at i:1857428 original size:20 final size:20
Alignment explanation
Indices: 1857336--1857417 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
1857326 TTTAAATTAT
* *
1857336 ATAATTAAAA-AATATAAAA
1 ATAATAAAAATAAAATAAAA
* * *
1857355 ATAATTAAAAT-ATAT-AAT
1 ATAATAAAAATAAAATAAAA
* * *
1857373 ATTATATAATATAATATAAAA
1 ATAATA-AAAATAAAATAAAA
1857394 ATAATAAAAATAAAATAAAA
1 ATAATAAAAATAAAATAAAA
1857414 ATAA
1 ATAA
1857418 AAATATTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
18 6 0.12
19 18 0.35
20 20 0.39
21 7 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAAAAATAAAATAAAA
Found at i:1857443 original size:26 final size:25
Alignment explanation
Indices: 1857378--1857444 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
1857368 ATAATATTAT
1857378 ATAATATAATATAAAAATAATAAAA
1 ATAATATAATATAAAAATAATAAAA
* * *
1857403 ATAAAATAAAAATAAAAATATTAAAA
1 ATAATAT-AATATAAAAATAATAAAA
*
1857429 ATTTATATAATATAAA
1 A-TAATATAATATAAA
1857445 TTATTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 6 0.18
26 24 0.71
27 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAATATAATATAAAAATAATAAAA
Found at i:1857463 original size:18 final size:16
Alignment explanation
Indices: 1857420--1857470 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
1857410 AAAAATAAAA
1857420 ATATTAAAAA-TTTAT
1 ATATTAAAAATTTTAT
* *
1857435 ATAATATAAATTATTAAT
1 ATATTAAAAATT-TT-AT
1857453 ATATTAAAAA-TTTAT
1 ATATTAAAAATTTTAT
1857468 ATA
1 ATA
1857471 AATATATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 13 0.45
16 3 0.10
17 3 0.10
18 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTAAAAATTTTAT
Found at i:1857484 original size:31 final size:33
Alignment explanation
Indices: 1857420--1857491 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
1857410 AAAAATAAAA
*
1857420 ATATTAAAAATTTATATAATATAAATTATTAAT
1 ATATTAAAAATTTATATAATATAAATTAATAAT
*
1857453 ATATTAAAAATTTATATAA-ATATA-TAATAAT
1 ATATTAAAAATTTATATAATATAAATTAATAAT
*
1857484 ATTTTAAA
1 ATATTAAA
1857492 TATAATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 13 0.36
32 4 0.11
33 19 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
ATATTAAAAATTTATATAATATAAATTAATAAT
Found at i:1858500 original size:2 final size:2
Alignment explanation
Indices: 1858495--1858519 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1858485 AAAAAAATTT
1858495 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 T
1858520 GCATATGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1858826 original size:42 final size:40
Alignment explanation
Indices: 1858770--1858873 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
1858760 ATAATGCATA
*
1858770 TAAATATTTATTAAAAATTTTAAAATAAAAAATATATTTAT-
1 TAAATATTTTTTAAAAATTTTAAAA-AAAAAATA-ATTTATG
* * * *
1858811 TATATTATTTTTT--AAATTTTATAAAATAATTAATTTATG
1 TA-AATATTTTTTAAAAATTTTAAAAAAAAAATAATTTATG
*
1858850 TAAATATTTTTTAAAAAATTTAAA
1 TAAATATTTTTTAAAAATTTTAAA
1858874 TTTATAAAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
38 15 0.29
39 8 0.16
40 18 0.35
41 2 0.04
42 8 0.16
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (40 bp):
TAAATATTTTTTAAAAATTTTAAAAAAAAAATAATTTATG
Found at i:1859149 original size:27 final size:26
Alignment explanation
Indices: 1859093--1859151 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
1859083 TATAGTGAAT
*
1859093 TTAATTATTATAATAATAATTATGAGA
1 TTAATTATTATAATAATAATTA-GAAA
1859120 TTAATTATTATAATAATAAAATTA-AAA
1 TTAATTATTATAATAAT--AATTAGAAA
1859147 TTAAT
1 TTAAT
1859152 AATAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 24 0.83
29 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATTATTATAATAATAATTAGAAA
Found at i:1859347 original size:27 final size:26
Alignment explanation
Indices: 1859291--1859349 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
1859281 TATAGTGAAT
*
1859291 TTAATTATTATAATAATAATTATGAGA
1 TTAATTATTATAATAATAATTA-GAAA
1859318 TTAATTATTATAATAATAAAATTA-AAA
1 TTAATTATTATAATAAT--AATTAGAAA
1859345 TTAAT
1 TTAAT
1859350 AATAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 24 0.83
29 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATTATTATAATAATAATTAGAAA
Found at i:1859569 original size:200 final size:198
Alignment explanation
Indices: 1859042--1859641 Score: 1096
Period size: 198 Copynumber: 3.0 Consensus size: 198
1859032 CATTCTTTTT
1859042 TAGGCTTCATTTAAAAGGAGGTTGAAGTTAAAAATAATGGTTATAGTGAATTTAATTATTATAAT
1 TAGGCTTCATTTAAAAGGAGGTTGAAGTTAAAAATAATGGTTATAGTGAATTTAATTATTATAAT
1859107 AATAATTATGAGATTAATTATTATAATAATAAAATTAAAATTAATAATAATATTAATATTTTAAA
66 AATAATTATGAGATTAATTATTATAATAATAAAATTAAAATTAATAATAATATTAATATTTTAAA
*
1859172 TTTGTTTGATGTATAGTTTATATTTTAATATATATATAATTAATTTTTAATTTACAAAAATTTGT
131 TTTGTTTGATGTATAGTTTATATTTTAATATATATAAAATTAATTTTTAATTTACAAAAATTTGT
1859237 ATA
196 ATA
1859240 TAGGCTTCATTTAAAAGGAGGTTGAAGTTAAAAATAATGGTTATAGTGAATTTAATTATTATAAT
1 TAGGCTTCATTTAAAAGGAGGTTGAAGTTAAAAATAATGGTTATAGTGAATTTAATTATTATAAT
1859305 AATAATTATGAGATTAATTATTATAATAATAAAATTAAAATTAATAATAATATTAATATTTTAAA
66 AATAATTATGAGATTAATTATTATAATAATAAAATTAAAATTAATAATAATATTAATATTTTAAA
1859370 TTTGTTTGATGTATAGTTTATATTTTAATATATATAAAATTAATTTTTAATTTACAAAAACTTTG
131 TTTGTTTGATGTATAGTTTATATTTTAATATATATAAAATTAATTTTTAATTTACAAAAA-TTTG
1859435 TATA
195 TATA
1859439 GTAGGCTTCATTTAAAAGGAGGTTG-AGTTAAAAATAATGGTTATAGTGAATTTAATTATTATAA
1 -TAGGCTTCATTTAAAAGGAGGTTGAAGTTAAAAATAATGGTTATAGTGAATTTAATTATTATAA
* *
1859503 TAATTAATTATGAGATTAATTATTATAAGAAT-AAATTAAAATTAACAATAATATTAATATTTTT
65 TAA-TAATTATGAGATTAATTATTATAATAATAAAATTAAAATTAATAATAATATTAATA-TTTT
*
1859567 AAATTTGTTTGATGTATAGTTTATATTTTAATATCATATAAAATTTAATTTTTAATTGACAAAAA
128 AAATTTGTTTGATGTATAGTTTATATTTTAATAT-ATATAAAA-TTAATTTTTAATTTACAAAAA
1859632 TTTGTATA
191 TTTGTATA
1859640 TA
1 TA
1859642 TTAAATTAGT
Statistics
Matches: 392, Mismatches: 4, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
198 189 0.48
199 76 0.19
200 91 0.23
201 16 0.04
202 20 0.05
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (198 bp):
TAGGCTTCATTTAAAAGGAGGTTGAAGTTAAAAATAATGGTTATAGTGAATTTAATTATTATAAT
AATAATTATGAGATTAATTATTATAATAATAAAATTAAAATTAATAATAATATTAATATTTTAAA
TTTGTTTGATGTATAGTTTATATTTTAATATATATAAAATTAATTTTTAATTTACAAAAATTTGT
ATA
Found at i:1860969 original size:14 final size:15
Alignment explanation
Indices: 1860952--1860985 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1860942 AAATATTAAT
1860952 TAATTATAATTTT-A
1 TAATTATAATTTTGA
*
1860966 TAATTATATTTTTGA
1 TAATTATAATTTTGA
1860981 TAATT
1 TAATT
1860986 TAACCATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TAATTATAATTTTGA
Found at i:1863682 original size:17 final size:17
Alignment explanation
Indices: 1863660--1863692 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1863650 GTAAAAAAAC
*
1863660 TATATTATATATATATA
1 TATATTATATAGATATA
1863677 TATATTATATAGATAT
1 TATATTATATAGATAT
1863693 GTATTTGGAT
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATATTATATAGATATA
Found at i:1863829 original size:23 final size:24
Alignment explanation
Indices: 1863785--1863830 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1863775 AAATGATTAA
* **
1863785 AAATATTAAAATTATATTTATATT
1 AAATAATAAAATTATAAATATATT
1863809 AAATAATAAAA-TATAAATATAT
1 AAATAATAAAATTATAAATATAT
1863831 ATTATATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATAATAAAATTATAAATATATT
Found at i:1863835 original size:36 final size:35
Alignment explanation
Indices: 1863795--1863869 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 35
1863785 AAATATTAAA
1863795 ATTATATTTATATTAAATAATAAAATATAAA-TATAT
1 ATTATATTTATATTAAATAAT--AATATAAATTATAT
* *
1863831 ATTATATTTATTTTAAATAATAATTTAAATTATAT
1 ATTATATTTATATTAAATAATAATATAAATTATAT
1863866 ATTA
1 ATTA
1863870 AAATAGCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 7 0.19
35 9 0.25
36 20 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATTATATTTATATTAAATAATAATATAAATTATAT
Found at i:1864589 original size:107 final size:107
Alignment explanation
Indices: 1864400--1864609 Score: 266
Period size: 107 Copynumber: 2.0 Consensus size: 107
1864390 TTTGAAAGAA
*
1864400 TTTTTATGTTGATCATCCAACTTTATAATTTATTTTTTTTGACAATATAACAAAAAAATTACAAA
1 TTTTTATGTTGATCATCCAACTTTATAATTAATTTTTTTTGACAATATAACAAAAAAATTACAAA
*
1864465 TTGTTTAATAACATTTATAAAATTATTTTTTTTACTACATAAT
66 TTGATTAATAACATTTATAAAATTA-TTTTTTTACTACATAAT
* * * * *
1864508 TTTTTATTTTGATCATCCAATTTTAT-ATTAATTTTTTTCT-A-ATTTAATAA-TAAAAAATTAT
1 TTTTTATGTTGATCATCCAACTTTATAATTAATTTTTTT-TGACA-AT-ATAACAAAAAAATTAC
* * *
1864569 ATATTGATTAATGACATTTATGAAATTATTTTTTTACTACA
63 AAATTGATTAATAACATTTATAAAATTATTTTTTTACTACA
1864610 CAATCATTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
106 14 0.16
107 46 0.52
108 29 0.33
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (107 bp):
TTTTTATGTTGATCATCCAACTTTATAATTAATTTTTTTTGACAATATAACAAAAAAATTACAAA
TTGATTAATAACATTTATAAAATTATTTTTTTACTACATAAT
Found at i:1865381 original size:30 final size:30
Alignment explanation
Indices: 1865346--1865424 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
1865336 CACTTAAATG
* * **
1865346 TTAATTTATATTTAAATAATTTTTTAATC-T
1 TTAATTTTTACTTAAATAAAATTTTAA-CAT
*
1865376 TTAATTTTTACTTAATTAAAATTTTAACAT
1 TTAATTTTTACTTAAATAAAATTTTAACAT
1865406 TTAATTTTTACTTAAATAA
1 TTAATTTTTACTTAAATAA
1865425 GATCTTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (30 bp):
TTAATTTTTACTTAAATAAAATTTTAACAT
Found at i:1866887 original size:8 final size:8
Alignment explanation
Indices: 1866876--1866910 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
1866866 AAATATCACA
1866876 TATTTTAT
1 TATTTTAT
1866884 TATTTTAT
1 TATTTTAT
1866892 TATTTT-T
1 TATTTTAT
1866899 TATTTTTAT
1 TA-TTTTAT
1866908 TAT
1 TAT
1866911 ACCTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.12
8 19 0.76
9 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTAT
Found at i:1867018 original size:17 final size:17
Alignment explanation
Indices: 1866998--1867038 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1866988 TTAAAGTAGG
*
1866998 AAAAAATATAAAAA-AT
1 AAAAAAAATAAAAATAT
*
1867014 AAAAAAAATAAAAATCT
1 AAAAAAAATAAAAATAT
1867031 AAAAAAAA
1 AAAAAAAA
1867039 AGGGGGCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAAATAAAAATAT
Found at i:1868131 original size:22 final size:24
Alignment explanation
Indices: 1868106--1868152 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
1868096 TAAATAATTT
1868106 ATAAATCATTTAAA-TTTG-TTAA
1 ATAAATCATTTAAAGTTTGATTAA
*
1868128 ATAAATTATTTAAAGTTTGATTAA
1 ATAAATCATTTAAAGTTTGATTAA
1868152 A
1 A
1868153 ATTCATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 4 0.18
24 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (24 bp):
ATAAATCATTTAAAGTTTGATTAA
Found at i:1869613 original size:3 final size:3
Alignment explanation
Indices: 1869605--1869633 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1869595 TAACATGTTA
1869605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1869634 ACACCACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1875377 original size:29 final size:31
Alignment explanation
Indices: 1875319--1875397 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 31
1875309 AACAAAAAAT
* *
1875319 AATAT-ATAAATATATAAAAATTTTATTATA
1 AATATAATTAATATATTAAAATTTTATTATA
*
1875349 TAA-ATTATTAATATATTAAAA-TTTA-TATA
1 -AATATAATTAATATATTAAAATTTTATTATA
*
1875378 AATATAATTAATATTTTAAA
1 AATATAATTAATATATTAAA
1875398 TATAATATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 19 0.45
30 6 0.14
31 15 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
AATATAATTAATATATTAAAATTTTATTATA
Found at i:1875405 original size:29 final size:27
Alignment explanation
Indices: 1875346--1875405 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
1875336 AAATTTTATT
*
1875346 ATATAAATTATTAATATATTAAAATTT
1 ATATAAATTATTAATATATTAAAATTA
*
1875373 ATATAAATATAATTAATAT-TTTAAATATA
1 ATATAAAT-T-ATTAATATATTAAAAT-TA
1875402 ATAT
1 ATAT
1875406 GCTACATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 7 0.25
29 13 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATAAATTATTAATATATTAAAATTA
Found at i:1875535 original size:2 final size:2
Alignment explanation
Indices: 1875528--1875563 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1875518 AAATAAAAGG
*
1875528 GA GA GA GA GA GA GA GG GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1875564 TAATGGAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1880970 original size:2 final size:2
Alignment explanation
Indices: 1880953--1880996 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
1880943 ATTATTGTGT
* *
1880953 TA TA T- TA TA TA CA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1880994 TA T
1 TA T
1880997 TCAGCTCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1881207 original size:15 final size:15
Alignment explanation
Indices: 1881173--1881207 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
1881163 GTTTGGGTTA
*
1881173 AAAAAAATTGGTTTG
1 AAAAAAATTGATTTG
1881188 AAAAAAATGTGATTTG
1 AAAAAAAT-TGATTTG
1881204 AAAA
1 AAAA
1881208 CATTTGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (15 bp):
AAAAAAATTGATTTG
Found at i:1881825 original size:18 final size:18
Alignment explanation
Indices: 1881804--1881839 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1881794 AAATATAAAA
*
1881804 TAAAAATTTTATATTTAT
1 TAAAAATGTTATATTTAT
*
1881822 TAAATATGTTATATTTAT
1 TAAAAATGTTATATTTAT
1881840 ATTATATTTT
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:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TAAAAATGTTATATTTAT
Found at i:1882184 original size:24 final size:24
Alignment explanation
Indices: 1882152--1882209 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1882142 AAGAACATTA
* *
1882152 AAAAAAAAAAAAAAAAAAACTCAC
1 AAAAGAAAAAAAAAAAAAACACAC
* * *
1882176 AAAAGAAAAAAGAGAAAAACACGC
1 AAAAGAAAAAAAAAAAAAACACAC
*
1882200 AAAGGAAAAA
1 AAAAGAAAAA
1882210 CCAATGTCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.02
Consensus pattern (24 bp):
AAAAGAAAAAAAAAAAAAACACAC
Found at i:1883985 original size:206 final size:206
Alignment explanation
Indices: 1883651--1884032 Score: 525
Period size: 206 Copynumber: 1.9 Consensus size: 206
1883641 AGATTTGTTG
* * * * * * *
1883651 AATGCCACCTCTTAAGGATGGTTGCATGAATTAATAGGACTTAGCTCCAAGTTCCTCATGCGTAA
1 AATGCCACCTCTTAAGGATGGTTGCATGAATCAATAGAAATAAACTCCAAGTTCCTCAAGCATAA
* ** * *
1883716 AACCCTTATCATGTCCGTTCATAAACTTTAGCATAATAGCAATAGATTAGCAGCACATTGCTTGA
66 AAACCTTATCACATCCGTTCATAAACTTTAGCAGAATAGCAATAGATTAGCACCACATTGCTTGA
* * *
1883781 TGTTG-AGAGATTATTTCATTCAAGCGTCCATGGGTTCCATGTCCAGATAATGGGATTTGAACCT
131 TGTTGAAGAGAATATTTCATGCAAGCGTCCATGGATTCCATGTCCAGATAATGGGATTTGAACCT
1883845 TAAACTTATTA
196 TAAACTTATTA
* * *
1883856 AATGCCACCTCTTAAGGATGGTTGTATGAATCAACT-GAAATAAACTCTTAAGTTTCTCAAGCAT
1 AATGCCACCTCTTAAGGATGGTTGCATGAATCAA-TAGAAATAAACTC-CAAGTTCCTCAAGCAT
* * * *
1883920 AAAAACCTTATCACATCTGTTCATAAACTTTAGCAGAATAGCAATAGCTTAGTACCACTTTGCTT
64 AAAAACCTTATCACATCCGTTCATAAACTTTAGCAGAATAGCAATAGATTAGCACCACATTGCTT
*
1883985 GATGTTGAAGAGAATATTTCATGCAAGTGTCCATGGATTCCATGTCCA
129 GATGTTGAAGAGAATATTTCATGCAAGCGTCCATGGATTCCATGTCCA
1884033 CAAAATCTTC
Statistics
Matches: 151, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
205 39 0.26
206 76 0.50
207 36 0.24
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (206 bp):
AATGCCACCTCTTAAGGATGGTTGCATGAATCAATAGAAATAAACTCCAAGTTCCTCAAGCATAA
AAACCTTATCACATCCGTTCATAAACTTTAGCAGAATAGCAATAGATTAGCACCACATTGCTTGA
TGTTGAAGAGAATATTTCATGCAAGCGTCCATGGATTCCATGTCCAGATAATGGGATTTGAACCT
TAAACTTATTA
Found at i:1888306 original size:21 final size:20
Alignment explanation
Indices: 1888272--1888313 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 20
1888262 AGTTGCAGTG
1888272 ATTTTTATTTTTTTA-TTTA
1 ATTTTTATTTTTTTACTTTA
1888291 ATTTTTATAATTTTTTACTTTA
1 ATTTTTAT--TTTTTTACTTTA
1888313 A
1 A
1888314 AAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTATTTTTTTACTTTA
Found at i:1888330 original size:16 final size:17
Alignment explanation
Indices: 1888301--1888333 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1888291 ATTTTTATAA
*
1888301 TTTTTTACTTTAAAAAT
1 TTTTTTACTATAAAAAT
1888318 TTTTTTA-TATAAAAAT
1 TTTTTTACTATAAAAAT
1888334 ATCCACGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTTACTATAAAAAT
Found at i:1891590 original size:16 final size:16
Alignment explanation
Indices: 1891549--1891628 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
1891539 AAATGACTTA
* *
1891549 AACTCAAAATGATTCG
1 AACTCGAAATGATCCG
1891565 AACTCGAAATGATCCG
1 AACTCGAAATGATCCG
** *
1891581 AACTTTAAAT-AACCAG
1 AACTCGAAATGATCC-G
* *
1891597 AATTCGAAATGATCTG
1 AACTCGAAATGATCCG
1891613 AAC-CTGAAAATGATCC
1 AACTC-G-AAATGATCC
1891629 AAAAATTTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
15 4 0.08
16 34 0.71
17 10 0.21
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (16 bp):
AACTCGAAATGATCCG
Found at i:1892826 original size:19 final size:19
Alignment explanation
Indices: 1892768--1892826 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
1892758 TAAAAATTAT
*
1892768 ATATATATTAAATAA-AAA
1 ATATATTTTAAATAATAAA
* **
1892786 ATTATATTTT-AATATTTTA
1 A-TATATTTTAAATAATAAA
1892805 ATATATTTTAAATAATAAA
1 ATATATTTTAAATAATAAA
1892824 ATA
1 ATA
1892827 AAATTTTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
18 13 0.42
19 18 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATTTTAAATAATAAA
Found at i:1893024 original size:2 final size:2
Alignment explanation
Indices: 1893019--1893044 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1893009 TAAAATAAGC
1893019 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
1893045 GAAAATGTTA
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):
AT
Found at i:1894074 original size:2 final size:2
Alignment explanation
Indices: 1894067--1894091 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1894057 ACAATTTTAC
1894067 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1894092 AAACTTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1896300 original size:8 final size:8
Alignment explanation
Indices: 1896282--1896314 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
1896272 ATATTATAAT
1896282 AATATTTAA
1 AATA-TTAA
1896291 AATATTAA
1 AATATTAA
1896299 AATATTAA
1 AATATTAA
1896307 AATATTAA
1 AATATTAA
1896315 TAATTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 20 0.83
9 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATATTAA
Found at i:1896308 original size:16 final size:17
Alignment explanation
Indices: 1896282--1896353 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 17
1896272 ATATTATAAT
1896282 AATATTTAAAATATTAA
1 AATATTTAAAATATTAA
1896299 AATA-TTAAAATATTAA
1 AATATTTAAAATATTAA
*
1896315 TAATTTATTTATATATATTTTAA
1 -AA--TATTTA-A-A-ATATTAA
1896338 AATATTT-AAATATTAA
1 AATATTTAAAATATTAA
1896354 TATTATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
16 18 0.39
17 7 0.15
18 1 0.02
19 2 0.04
20 8 0.17
21 1 0.02
22 3 0.07
23 6 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATTTAAAATATTAA
Found at i:1896349 original size:39 final size:37
Alignment explanation
Indices: 1896295--1896370 Score: 116
Period size: 39 Copynumber: 2.0 Consensus size: 37
1896285 ATTTAAAATA
1896295 TTAAAATATTAAAATATTAATAATTTATTTATATATATT
1 TTAAAATATTAAAATATTAAT-A-TTATTTATATATATT
* *
1896334 TTAAAATATTTAAATATTAATATTATTTTTATATATT
1 TTAAAATATTAAAATATTAATATTATTTATATATATT
1896371 ATTATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 14 0.40
38 1 0.03
39 20 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (37 bp):
TTAAAATATTAAAATATTAATATTATTTATATATATT
Found at i:1896369 original size:27 final size:25
Alignment explanation
Indices: 1896339--1896392 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1896329 ATATTTTAAA
1896339 ATAT-TTA-AATATTAATATTATTTTT
1 ATATATTATAATATT-A-ATTATTTTT
*
1896364 ATATATTATTATATTAATTATTTTT
1 ATATATTATAATATTAATTATTTTT
1896389 ATAT
1 ATAT
1896393 TATATTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 17 0.65
26 4 0.15
27 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
ATATATTATAATATTAATTATTTTT
Found at i:1896377 original size:47 final size:49
Alignment explanation
Indices: 1896259--1896377 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 49
1896249 ATTCGTGTAT
*
1896259 ATATATAA-TTTTTATATTATAATA-ATATTTAAAATATTAAAATATTAAA
1 ATAT-TAATTTTTTATATTATTATATATATTTAAAATATTAAAATATT-AA
** *
1896308 ATATTAATAATTTAT-TTA-TATATAT-TTTAAAATATTTAAATATT-A
1 ATATTAATTTTTTATATTATTATATATATTTAAAATATTAAAATATTAA
1896353 ATATT-ATTTTTATATATTATTATAT
1 ATATTAATTTTT-TATATTATTATAT
1896378 TAATTATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
44 4 0.07
45 9 0.15
46 3 0.05
47 26 0.44
48 8 0.14
49 9 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (49 bp):
ATATTAATTTTTTATATTATTATATATATTTAAAATATTAAAATATTAA
Found at i:1898281 original size:16 final size:15
Alignment explanation
Indices: 1898234--1898286 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
1898224 TAATTGAATT
*
1898234 ATATCAAATACAAAAA
1 ATATCAAATA-ATAAA
1898250 ATATCAAAATTAAATAATA
1 ATATC-AAA-T-AATAA-A
1898269 ATATCAAATAATAAA
1 ATATCAAATAATAAA
1898284 ATA
1 ATA
1898287 AAAATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 4 0.12
16 10 0.31
17 4 0.12
18 7 0.22
19 7 0.22
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (15 bp):
ATATCAAATAATAAA
Found at i:1898287 original size:21 final size:19
Alignment explanation
Indices: 1898246--1898293 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
1898236 ATCAAATACA
*
1898246 AAAAATATCAAAATTAAAT
1 AAAAATATCAAAATAAAAT
*
1898265 AATAATATCAAATAATAAAAT
1 AAAAATATC-AA-AATAAAAT
1898286 AAAAATAT
1 AAAAATAT
1898294 TTTTAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 2 0.08
21 14 0.58
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATATCAAAATAAAAT
Found at i:1900372 original size:18 final size:19
Alignment explanation
Indices: 1900339--1900376 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1900329 AATTGTATAT
1900339 ATTTATATTCTATATAATA
1 ATTTATATTCTATATAATA
1900358 ATTTATATT-TATATAATA
1 ATTTATATTCTATATAATA
1900376 A
1 A
1900377 AATTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTATATTCTATATAATA
Found at i:1901197 original size:22 final size:22
Alignment explanation
Indices: 1901172--1901216 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
1901162 AATCTCATAA
1901172 TTCTA-TCAATAAATTTAAAAAT
1 TTCTATTCAATAAA-TTAAAAAT
1901194 TTCTATTGTCAATAAATTAAAAA
1 TTCTA-T-TCAATAAATTAAAAA
1901217 CGAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
TTCTATTCAATAAATTAAAAAT
Found at i:1902599 original size:2 final size:2
Alignment explanation
Indices: 1902592--1902623 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1902582 TTGATCATAC
1902592 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1902624 ACTACAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1903873 original size:99 final size:99
Alignment explanation
Indices: 1903694--1903886 Score: 307
Period size: 99 Copynumber: 1.9 Consensus size: 99
1903684 CCCTACTGAA
*
1903694 GTTAGCAATGATCTAAGTTATACTAACTAACTAATACAAATTTTGGATCGAAAGCAAAAAGTATT
1 GTTAGCAATGATCTAAGTTATACTAACAAACTAATACAAATTTTGGATCGAAAGCAAAAAGTATT
*
1903759 ATCGACTAAGGTGATTCCACTTGTGAGTACTATG
66 ATAGACTAAGGTGATTCCACTTGTGAGTACTATG
* * * *
1903793 GTTAGCGATGATCTAAGTTATATTAAGAAACTAATACAAATTTTGGATCGAAAGGAAAAAGTATT
1 GTTAGCAATGATCTAAGTTATACTAACAAACTAATACAAATTTTGGATCGAAAGCAAAAAGTATT
*
1903858 ATAGA-TTAGGATGATTCCACTTGTGAGTA
66 ATAGACTAAGG-TGATTCCACTTGTGAGTA
1903887 TTACGGCAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 4 0.05
99 82 0.95
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (99 bp):
GTTAGCAATGATCTAAGTTATACTAACAAACTAATACAAATTTTGGATCGAAAGCAAAAAGTATT
ATAGACTAAGGTGATTCCACTTGTGAGTACTATG
Found at i:1905958 original size:28 final size:28
Alignment explanation
Indices: 1905918--1905977 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
1905908 CTTGATTGCT
1905918 TCTTTTCAACATGAATTATCTCTCACAA
1 TCTTTTCAACATGAATTATCTCTCACAA
1905946 TCTTTTCAACATGAATTATCTCTCACAA
1 TCTTTTCAACATGAATTATCTCTCACAA
1905974 TCTT
1 TCTT
1905978 CTAGCTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (28 bp):
TCTTTTCAACATGAATTATCTCTCACAA
Found at i:1907396 original size:30 final size:31
Alignment explanation
Indices: 1907332--1907395 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
1907322 TATGATTAAA
*
1907332 TTTAAATTTAAATTTAAATAAAAAATTAATT
1 TTTAAACTTAAATTTAAATAAAAAATTAATT
* *
1907363 TTTAAACTT-AATTTAATTTAAAAAATTTATT
1 TTTAAACTTAAATTTAA-ATAAAAAATTAATT
1907394 TT
1 TT
1907396 ACTGTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (31 bp):
TTTAAACTTAAATTTAAATAAAAAATTAATT
Found at i:1913325 original size:21 final size:22
Alignment explanation
Indices: 1913292--1913335 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1913282 TTATTTATTT
*
1913292 TATTTTTAAATTATCATTAAAA
1 TATTTTTAAATTATCAATAAAA
* *
1913314 TATTTTT-TATTATTAATAAAA
1 TATTTTTAAATTATCAATAAAA
1913335 T
1 T
1913336 TTACTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTTAAATTATCAATAAAA
Found at i:1917993 original size:21 final size:22
Alignment explanation
Indices: 1917960--1918003 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1917950 TTATTTATTT
*
1917960 TATTTTTAAATTATCATTAAAA
1 TATTTTTAAATTATCAATAAAA
* *
1917982 TATTTTT-TATTATTAATAAAA
1 TATTTTTAAATTATCAATAAAA
1918003 T
1 T
1918004 TTACTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTTAAATTATCAATAAAA
Found at i:1920019 original size:20 final size:20
Alignment explanation
Indices: 1919974--1920020 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1919964 CATCAAAAAA
1919974 CACAAATT-AAAAAAAATGT
1 CACAAATTAAAAAAAAATGT
*
1919993 CTC-AATTAAAAAAAAAAT-T
1 CACAAATT-AAAAAAAAATGT
1920012 CACAAATTA
1 CACAAATTA
1920021 TGGCAACCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
18 4 0.17
19 6 0.26
20 13 0.57
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (20 bp):
CACAAATTAAAAAAAAATGT
Found at i:1920342 original size:19 final size:19
Alignment explanation
Indices: 1920320--1920356 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1920310 GTCAGTGATT
*
1920320 ATTTTAATGTTAAATTTAA
1 ATTTAAATGTTAAATTTAA
*
1920339 ATTTAAATTTTAAATTTA
1 ATTTAAATGTTAAATTTA
1920357 TTAAATTTTA
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:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTAAATGTTAAATTTAA
Found at i:1920350 original size:13 final size:13
Alignment explanation
Indices: 1920320--1920356 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1920310 GTCAGTGATT
1920320 ATTTT-AATGTTAA
1 ATTTTAAAT-TTAA
1920333 A-TTTAAATTTAA
1 ATTTTAAATTTAA
1920345 ATTTTAAATTTA
1 ATTTTAAATTTA
1920357 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
ATTTTAAATTTAA
Found at i:1920787 original size:19 final size:20
Alignment explanation
Indices: 1920752--1920790 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1920742 TTTAAGAGCA
1920752 ATGATTAAAAAATATTAGAT
1 ATGATTAAAAAATATTAGAT
1920772 ATGATTAAAAAA-ATTAGAT
1 ATGATTAAAAAATATTAGAT
1920791 TGGATCAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGATTAAAAAATATTAGAT
Found at i:1922405 original size:13 final size:13
Alignment explanation
Indices: 1922387--1922422 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1922377 TGAAATAACC
1922387 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
*
1922400 AAAAAGGAAAAAG
1 AAAAAGAAAAAAG
1922413 -AAAAGAAAAA
1 AAAAAGAAAAA
1922423 CCCAATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:1923582 original size:27 final size:28
Alignment explanation
Indices: 1923528--1923583 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
1923518 TATGTTTTCT
1923528 ACTCATTTAGCTAAACTTAAAATTATAA
1 ACTCATTTAGCTAAACTTAAAATTATAA
* *
1923556 ACTCGTTTAGCT-AATTTAAAATTATAA
1 ACTCATTTAGCTAAACTTAAAATTATAA
1923583 A
1 A
1923584 TTATCAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (28 bp):
ACTCATTTAGCTAAACTTAAAATTATAA
Found at i:1924146 original size:2 final size:2
Alignment explanation
Indices: 1924141--1924181 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1924131 TTCTCTCTCA
*
1924141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1924182 TGATATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1927106 original size:17 final size:17
Alignment explanation
Indices: 1927084--1927119 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1927074 CATCCATTCG
* *
1927084 ATATTTAAATTTATTAA
1 ATATTTAAAATTATCAA
1927101 ATATTTAAAATTATCAA
1 ATATTTAAAATTATCAA
1927118 AT
1 AT
1927120 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTTAAAATTATCAA
Found at i:1934589 original size:17 final size:16
Alignment explanation
Indices: 1934532--1934603 Score: 51
Period size: 17 Copynumber: 4.3 Consensus size: 16
1934522 ATATTATATA
1934532 TTTATATAAATTTTGATAT
1 TTTA-ATAAATTTT-AT-T
*
1934551 ATTAAT-AA-TTTATT
1 TTTAATAAATTTTATT
1934565 TTGT-ATAAATTTTAATT
1 TT-TAATAAATTTT-ATT
*
1934582 TTTAATAAATTTATATA
1 TTTAATAAATTT-TATT
1934599 TTTAA
1 TTTAA
1934604 ATCATATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
14 4 0.09
15 5 0.11
16 7 0.16
17 22 0.50
18 3 0.07
19 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTAATAAATTTTATT
Found at i:1934627 original size:17 final size:17
Alignment explanation
Indices: 1934607--1934648 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1934597 TATTTAAATC
1934607 ATATTCATATTAT-TTTT
1 ATATT-ATATTATATTTT
1934624 ATATTATATTATATTTT
1 ATATTATATTATATTTT
*
1934641 ATGTTATA
1 ATATTATA
1934649 ATTTAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATTATATTATATTTT
Found at i:1934697 original size:39 final size:38
Alignment explanation
Indices: 1934614--1934697 Score: 89
Period size: 39 Copynumber: 2.2 Consensus size: 38
1934604 ATCATATTCA
* * * * *
1934614 TATTATTTTTATATTATATTATATTTTATGTTATAATT
1 TATTATTTTTAAATTATATAATATTTAATATTATAAAT
1934652 TAATTATTTTTAAATTATATAATTATTTAATAATTA-AAAT
1 T-ATTATTTTTAAATTATATAA-TATTTAAT-ATTATAAAT
1934692 TATTAT
1 TATTAT
1934698 ATATAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
38 1 0.03
39 23 0.61
40 11 0.29
41 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (38 bp):
TATTATTTTTAAATTATATAATATTTAATATTATAAAT
Found at i:1934723 original size:37 final size:35
Alignment explanation
Indices: 1934668--1934786 Score: 100
Period size: 36 Copynumber: 3.3 Consensus size: 35
1934658 TTTTTAAATT
* *
1934668 ATATAATTATTTAATAATTAAAATTATTATATATA
1 ATATAATTATATCATAATTAAAATTATTATATATA
* ** **
1934703 ATTTTATATTATATTTTAATT-AAATT-TT-TATACC
1 A-TATA-ATTATATCATAATTAAAATTATTATATATA
*
1934737 ATATAATTATATCATAATTAAAATTATCATATATA
1 ATATAATTATATCATAATTAAAATTATTATATATA
1934772 TATATATATATATAT
1 -ATATA-AT-TATAT
1934787 ATATATATAT
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
32 12 0.19
33 8 0.12
34 6 0.09
35 7 0.11
36 13 0.20
37 13 0.20
38 5 0.08
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.50
Consensus pattern (35 bp):
ATATAATTATATCATAATTAAAATTATTATATATA
Found at i:1934754 original size:69 final size:68
Alignment explanation
Indices: 1934625--1934774 Score: 196
Period size: 69 Copynumber: 2.2 Consensus size: 68
1934615 ATTATTTTTA
* ** *
1934625 TATTATAT-TATATTTTATGTTATAATTTAATTATTTTTAAATTATATAATTATTTAATAATTAA
1 TATTATATATATATTTTATATTATAATTTAATTATTTTTAAACCATATAATTATATAATAATTAA
1934689 AAT
66 AAT
* * *
1934692 TATTATATATA-ATTTTATATTATATTTTAATTAAATTTTTATACCATATAATTATATCATAATT
1 TATTATATATATATTTTATATTATAATTTAATT--ATTTTTAAACCATATAATTATATAATAATT
1934756 AAAAT
64 AAAAT
*
1934761 TATCATATATATAT
1 TATTATATATATAT
1934775 ATATATATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
67 27 0.38
68 2 0.03
69 40 0.56
70 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.54
Consensus pattern (68 bp):
TATTATATATATATTTTATATTATAATTTAATTATTTTTAAACCATATAATTATATAATAATTAA
AAT
Found at i:1934772 original size:2 final size:2
Alignment explanation
Indices: 1934765--1934798 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1934755 TAAAATTATC
1934765 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
1934799 GTCATTTGTA
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):
AT
Found at i:1934773 original size:32 final size:33
Alignment explanation
Indices: 1934667--1934783 Score: 96
Period size: 32 Copynumber: 3.5 Consensus size: 33
1934657 ATTTTTAAAT
*
1934667 TATATA-ATTATTTAATAATTAAAATTATTATA
1 TATATATATTATATAATAATTAAAATTATTATA
** *
1934699 TATAATTTTATATTATATTTTAATT-AAATTTTTATA
1 TAT-A---TATATTATATAATAATTAAAATTATTATA
* * *
1934735 CCATATA-ATTATATCATAATTAAAATTATCATA
1 -TATATATATTATATAATAATTAAAATTATTATA
1934768 TATATATATATATATA
1 TATATATAT-TATATA
1934784 TATATATATA
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
32 20 0.31
33 14 0.22
34 5 0.08
36 13 0.20
37 13 0.20
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.50
Consensus pattern (33 bp):
TATATATATTATATAATAATTAAAATTATTATA
Found at i:1935572 original size:15 final size:16
Alignment explanation
Indices: 1935552--1935586 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1935542 TGTAAGGCTG
*
1935552 TTATTTTTGT-TATTT
1 TTATTTTTGTGCATTT
1935567 TTATTTTTGTGCATTT
1 TTATTTTTGTGCATTT
1935583 TTAT
1 TTAT
1935587 ATCTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (16 bp):
TTATTTTTGTGCATTT
Found at i:1940161 original size:2 final size:2
Alignment explanation
Indices: 1940154--1940198 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1940144 AATATGAATG
*
1940154 AT AT AT AT AT AT A- AT TT 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
1940195 AT AT
1 AT AT
1940199 GAATGATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1941584 original size:29 final size:27
Alignment explanation
Indices: 1941499--1941585 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 27
1941489 ATAAAAAAAT
*
1941499 TAAAAT-ATAAAATAATATATAATATGACA
1 TAAAATAAT-AAA-AATATATAATAT-ATA
1941528 TAAAATAATAAAAATATAATACATATATA
1 TAAAATAATAAAAATAT-ATA-ATATATA
* *
1941557 TAAATATATTAAAATTTATATAATATATA
1 TAAA-ATAATAAAA-ATATATAATATATA
1941586 ACCCTTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 5 0.10
29 25 0.50
30 17 0.34
31 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (27 bp):
TAAAATAATAAAAATATATAATATATA
Found at i:1943384 original size:2 final size:2
Alignment explanation
Indices: 1943377--1943401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1943367 AGTTTTATTC
1943377 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1943402 AACTTGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1945257 original size:2 final size:2
Alignment explanation
Indices: 1945250--1945277 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1945240 AACTAGGAGA
1945250 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
1945278 GTCACTGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1945802 original size:21 final size:20
Alignment explanation
Indices: 1945778--1945818 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1945768 TTTTATTTTA
1945778 TTTAAATTTAAAATTACATTT
1 TTTAAATTTAAAATTA-ATTT
* *
1945799 TTTATATTTTAAATTAATTT
1 TTTAAATTTAAAATTAATTT
1945819 AAAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAATTTAAAATTAATTT
Found at i:1946219 original size:29 final size:29
Alignment explanation
Indices: 1946160--1946219 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
1946150 TTTACTATAT
**
1946160 TTAAATAAGTCTTTATATTTTTATTGTTA
1 TTAAATAAGTCTTTATATTTTTATTAATA
1946189 TTAAATTAA-TCTTTA-ATTTTTTATTAATA
1 TTAAA-TAAGTCTTTATA-TTTTTATTAATA
1946218 TT
1 TT
1946220 CATTAAAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 23 0.85
30 3 0.11
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (29 bp):
TTAAATAAGTCTTTATATTTTTATTAATA
Found at i:1948783 original size:15 final size:17
Alignment explanation
Indices: 1948763--1948794 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1948753 TTTCTAAAAT
1948763 AAATTT-AT-TTTTTTA
1 AAATTTGATATTTTTTA
1948778 AAATTTGATATTTTTTA
1 AAATTTGATATTTTTTA
1948795 TTATTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
AAATTTGATATTTTTTA
Found at i:1949579 original size:11 final size:11
Alignment explanation
Indices: 1949526--1949588 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
1949516 ATAATATGAT
1949526 ATGATATAAAA
1 ATGATATAAAA
1949537 A--AT-TAAAA
1 ATGATATAAAA
* *
1949545 ATAATATGAAAT
1 ATGATAT-AAAA
*
1949557 ATAATATAAAA
1 ATGATATAAAA
*
1949568 ATGATATTAAA
1 ATGATATAAAA
*
1949579 ATTATATAAA
1 ATGATATAAA
1949589 TATATAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 6 0.14
9 2 0.05
10 2 0.05
11 22 0.52
12 10 0.24
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (11 bp):
ATGATATAAAA
Found at i:1949604 original size:27 final size:29
Alignment explanation
Indices: 1949555--1949615 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
1949545 ATAATATGAA
1949555 ATAT-AATATAAAAATGATATTAAA-ATT
1 ATATAAATATAAAAATGATATTAAACATT
* * *
1949582 ATATAAATATATAAAT-ATCTTAAACTTT
1 ATATAAATATAAAAATGATATTAAACATT
1949610 ATATAA
1 ATATAA
1949616 TATGATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (29 bp):
ATATAAATATAAAAATGATATTAAACATT
Found at i:1949617 original size:27 final size:27
Alignment explanation
Indices: 1949555--1949618 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
1949545 ATAATATGAA
1949555 ATATAATATAAAAATGATATTAAAATT
1 ATATAATATAAAAATGATATTAAAATT
* * *
1949582 ATATAAATATATAAAT-ATCTTAAACTTT
1 ATAT-AATATAAAAATGATATTAAA-ATT
1949610 ATATAATAT
1 ATATAATAT
1949619 GATTTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (27 bp):
ATATAATATAAAAATGATATTAAAATT
Found at i:1950401 original size:31 final size:28
Alignment explanation
Indices: 1950366--1950423 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
1950356 ATATGATTAT
1950366 AAAATATAAATACAATAATAAAAAAATAATC
1 AAAATAT-AATACAAT-AT-AAAAAATAATC
*
1950397 AAAATATAATACAATGTAAAAAATAAT
1 AAAATATAATACAATATAAAAAATAAT
1950424 ATGAAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 1 0.04
30 8 0.31
31 7 0.27
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (28 bp):
AAAATATAATACAATATAAAAAATAATC
Found at i:1951351 original size:16 final size:16
Alignment explanation
Indices: 1951303--1951362 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
1951293 ACAAACAAAT
*
1951303 TAAT-TAAAGTCTGATA
1 TAATATAAATTCT-ATA
* *
1951319 TAATATGAA-TATATA
1 TAATATAAATTCTATA
1951334 TATATATCAAATTCTATA
1 TA-ATAT-AAATTCTATA
1951352 TAATATAAATT
1 TAATATAAATT
1951363 ATTAATGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.14
16 15 0.42
17 9 0.25
18 7 0.19
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
TAATATAAATTCTATA
Found at i:1951354 original size:33 final size:32
Alignment explanation
Indices: 1951316--1951378 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1951306 TTAAAGTCTG
*
1951316 ATATAATATGAA-TATATATATATATCAAATTCT
1 ATATAATATAAATTAT-TA-ATATATCAAATTCT
*
1951349 ATATAATATAAATTATTAATGTATCAAATT
1 ATATAATATAAATTATTAATATATCAAATT
1951379 TTTTATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 11 0.41
33 13 0.48
34 3 0.11
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (32 bp):
ATATAATATAAATTATTAATATATCAAATTCT
Found at i:1953456 original size:21 final size:21
Alignment explanation
Indices: 1953430--1953470 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1953420 ATCATAATTA
1953430 TATATAAAATTTT-ATATATTT
1 TATAT-AAATTTTAATATATTT
1953451 TATATAAATTTTAATATATT
1 TATATAAATTTTAATATATT
1953471 AATAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATAAATTTTAATATATTT
Found at i:1954018 original size:2 final size:2
Alignment explanation
Indices: 1953975--1954001 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1953965 TTACAAAAAC
1953975 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
1954002 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1955524 original size:15 final size:15
Alignment explanation
Indices: 1955496--1955541 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1955486 AAAAAATTCC
1955496 TTATTTAAAATTTAAT
1 TTATTT-AAATTTAAT
* *
1955512 TTATTTAATTTTAAA
1 TTATTTAAATTTAAT
*
1955527 TTAATTAAATTTAAT
1 TTATTTAAATTTAAT
1955542 AATGATCGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTTAAATTTAAT
Found at i:1956057 original size:4 final size:4
Alignment explanation
Indices: 1956048--1956072 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1956038 CATATAAACA
1956048 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
1956073 GAACCGCACA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:1962645 original size:3 final size:3
Alignment explanation
Indices: 1962637--1962673 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1962627 TCGTTTTTCC
1962637 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC- TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1962674 CTTTCTTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:1963220 original size:23 final size:23
Alignment explanation
Indices: 1963172--1963220 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
1963162 TTTTTTATTA
* *
1963172 AAATTACTTAATATGATTAGTTT
1 AAATTACTTAATATGATTAATAT
*
1963195 AAATTACTTAAT-TTATTAATAAT
1 AAATTACTTAATATGATTAAT-AT
1963218 AAA
1 AAA
1963221 ATTTTGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (23 bp):
AAATTACTTAATATGATTAATAT
Done.