Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 367 of 410
Found at i:112480708 original size:13 final size:13
Alignment explanation
Indices: 112480690--112480741 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
112480680 TAAATTTGAA
112480690 ATTTAATTTTTAT
1 ATTTAATTTTTAT
*
112480703 ATTTAATTTCTA-
1 ATTTAATTTTTAT
*
112480715 ATATAA-TTTTAT
1 ATTTAATTTTTAT
*
112480727 TTTTATATTTTTAT
1 ATTTA-ATTTTTAT
112480741 A
1 A
112480742 ATATATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 4 0.13
12 8 0.27
13 12 0.40
14 6 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTAATTTTTAT
Found at i:112481400 original size:29 final size:30
Alignment explanation
Indices: 112481368--112481424 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
112481358 AATTTGAAAT
* *
112481368 TTAATTTTTATA-TTTTTATTTTTAAAAAA
1 TTAATTTTTATACTTTTAAATTTTAAAAAA
112481397 TTAATTTTTATACTTTTAAATTTTAAAA
1 TTAATTTTTATACTTTTAAATTTTAAAA
112481425 TTTCGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
TTAATTTTTATACTTTTAAATTTTAAAAAA
Found at i:112482195 original size:16 final size:15
Alignment explanation
Indices: 112482170--112482199 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
112482160 TTAAATAGTT
112482170 AAAATAAATTATAAA
1 AAAATAAATTATAAA
112482185 AAAATTAAATTATAA
1 AAAA-TAAATTATAA
112482200 TGATAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATAAATTATAAA
Found at i:112482222 original size:28 final size:25
Alignment explanation
Indices: 112482183--112482234 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
112482173 ATAAATTATA
*
112482183 AAAAAATTAAATTATAATGATAATTTT
1 AAAAAATTAAATGATAA-GA-AATTTT
112482210 AAAAAATTCAAATGATAAGAAATTT
1 AAAAAATT-AAATGATAAGAAATTT
112482235 AGATATTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 10 0.43
28 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
AAAAAATTAAATGATAAGAAATTTT
Found at i:112483574 original size:10 final size:10
Alignment explanation
Indices: 112483547--112483590 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
112483537 TTAAATTCTA
*
112483547 AAAGATAAAT
1 AAAGATAATT
112483557 ACAA-ATAATT
1 A-AAGATAATT
*
112483567 AAAGATAACT
1 AAAGATAATT
112483577 AAAGATAATT
1 AAAGATAATT
112483587 AAAG
1 AAAG
112483591 TTAAATGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.23
Consensus pattern (10 bp):
AAAGATAATT
Found at i:112483604 original size:20 final size:19
Alignment explanation
Indices: 112483547--112483604 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
112483537 TTAAATTCTA
112483547 AAAGATAAATACAAATAATT
1 AAAGATAAATA-AAATAATT
*
112483567 AAAGATAACTAAAGATAATT
1 AAAGATAAATAAA-ATAATT
*
112483587 AAAGTTAAATGAAAATAA
1 AAAGATAAAT-AAAATAA
112483605 ATCCTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (19 bp):
AAAGATAAATAAAATAATT
Found at i:112499903 original size:29 final size:29
Alignment explanation
Indices: 112499870--112500001 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
112499860 GTGACGAGAT
*
112499870 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
112499899 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
112499928 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
112499957 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
112499986 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
112500002 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:112508522 original size:27 final size:28
Alignment explanation
Indices: 112508485--112508624 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
112508475 AGCATGGCTG
* *
112508485 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
112508511 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
112508539 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
112508566 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
112508593 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
112508620 CCAGA
1 CCAGA
112508625 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:112510272 original size:26 final size:26
Alignment explanation
Indices: 112510236--112510293 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
112510226 CATGAAATTC
112510236 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
112510262 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112510288 TTATCA
1 TTATCA
112510294 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112514297 original size:27 final size:28
Alignment explanation
Indices: 112514258--112514396 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
112514248 AGCATGGCTG
* *
112514258 CCAGA-ACA-ATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
112514283 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
112514311 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
112514338 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
112514365 CCAGAT-CAGATATTTGTGACATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
112514392 CCAGA
1 CCAGA
112514397 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.05
26 3 0.03
27 79 0.76
28 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:112514364 original size:54 final size:55
Alignment explanation
Indices: 112514258--112514396 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
112514248 AGCATGGCTG
*
112514258 CCAGAACA-ATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
112514311 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
112514365 CCAGATCAGATATTTGTGACATAGCCACCAGA
1 CCAGAACAGATATATGTGACAGAGCCACCAGA
112514397 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
53 8 0.11
54 50 0.66
55 18 0.24
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (55 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:112516053 original size:26 final size:26
Alignment explanation
Indices: 112516017--112516072 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
112516007 CATGAAATTC
112516017 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
112516043 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112516069 TTAT
1 TTAT
112516073 AAATTTGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112517610 original size:30 final size:31
Alignment explanation
Indices: 112517561--112517624 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
112517551 CTTAAAAGAG
*
112517561 ATAAACTATATATAGATTTAAAAGAAAATAT
1 ATAAACTATAAATAGATTTAAAAGAAAATAT
*
112517592 ATAAAC-ATAAATTGATTTAAAAGAAAATAT
1 ATAAACTATAAATAGATTTAAAAGAAAATAT
112517622 ATA
1 ATA
112517625 CGTAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (31 bp):
ATAAACTATAAATAGATTTAAAAGAAAATAT
Found at i:112536649 original size:48 final size:46
Alignment explanation
Indices: 112536578--112536668 Score: 155
Period size: 48 Copynumber: 1.9 Consensus size: 46
112536568 ACCCTATAAT
112536578 CAACTATAATTCAAAAGTCATGCATTCCCACTTCATTTTCATAAAGTG
1 CAACTATAATTCAAAAGTCATGCA--CCCACTTCATTTTCATAAAGTG
*
112536626 CAACTATAATTCAAAAGTCATGCACTCACTTCATTTTCATAAA
1 CAACTATAATTCAAAAGTCATGCACCCACTTCATTTTCATAAA
112536669 ATGGCATCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 18 0.43
48 24 0.57
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (46 bp):
CAACTATAATTCAAAAGTCATGCACCCACTTCATTTTCATAAAGTG
Found at i:112540884 original size:16 final size:17
Alignment explanation
Indices: 112540853--112540886 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
112540843 TATTTGTTTG
112540853 ATTATAAAAAAACTTCT
1 ATTATAAAAAAACTTCT
*
112540870 ATTAT-AAACAACTTCT
1 ATTATAAAAAAACTTCT
112540886 A
1 A
112540887 CCAAATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTATAAAAAAACTTCT
Found at i:112541725 original size:16 final size:16
Alignment explanation
Indices: 112541704--112541736 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
112541694 TTCCAACATC
*
112541704 CATGTGACACCTCCTA
1 CATGTGACACCCCCTA
112541720 CATGTGACACCCCCTA
1 CATGTGACACCCCCTA
112541736 C
1 C
112541737 CCGTATCCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.42, G:0.12, T:0.21
Consensus pattern (16 bp):
CATGTGACACCCCCTA
Found at i:112542719 original size:31 final size:31
Alignment explanation
Indices: 112542684--112542752 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
112542674 CTTGTCACTT
* *
112542684 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
* * *
112542715 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
112542746 GTAGCCG
1 GTAGCCG
112542753 GTGATCAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAA
Found at i:112542753 original size:31 final size:31
Alignment explanation
Indices: 112542692--112542753 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
112542682 TTGTAGCTGA
*
112542692 AGCTACCACTATTCACTGATCAGGTAGCCGG
1 AGCTACCACTATTCACTGATCAAGTAGCCGG
* *
112542723 AGCTACCATTTTTCACTGATCAAGTAGCCGG
1 AGCTACCACTATTCACTGATCAAGTAGCCGG
112542754 TGATCAGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (31 bp):
AGCTACCACTATTCACTGATCAAGTAGCCGG
Found at i:112542775 original size:46 final size:46
Alignment explanation
Indices: 112542708--112542798 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
112542698 CACTATTCAC
* *
112542708 TGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAAGTAGCCGG
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGG
*
112542754 TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCG
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCG
112542799 AAGCTACCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAGCCGG
Found at i:112542792 original size:31 final size:31
Alignment explanation
Indices: 112542754--112542812 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
112542744 AAGTAGCCGG
112542754 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
112542785 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
112542813 TACTTGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAC
Found at i:112542966 original size:50 final size:50
Alignment explanation
Indices: 112542792--112542968 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
112542782 CACTGATCAG
* * *
112542792 GTAGCCGAAGCTACCACTTTTTACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
112542843 GTAGCCAAAGCTATCACTTATCATTTTCATTTGTCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
112542893 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
112542943 GTAGCTGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
112542969 GTTGCCATGG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 92 0.81
51 21 0.19
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:112545437 original size:26 final size:26
Alignment explanation
Indices: 112545409--112545457 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
112545399 ACAACAAAAA
* *
112545409 AAAATCTATTCTAAAAA-GAAAAGGG
1 AAAACCTAATCTAAAAATGAAAAGGG
112545434 AAAACCTAATCTAAAAATGAAAAG
1 AAAACCTAATCTAAAAATGAAAAG
112545458 AAAAGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAACCTAATCTAAAAATGAAAAGGG
Found at i:112550187 original size:33 final size:33
Alignment explanation
Indices: 112550114--112550191 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
112550104 ATAGGTATAC
* *
112550114 GTGTAAGACCATAGCTAGGTTATAGCATCCTGA
1 GTGTAAGACCATAACTAGGTTATAGCATACTGA
*
112550147 -TGATAAGACCATAACTGGGTTATAGCATTAC-GA
1 GTG-TAAGACCATAACTAGGTTATAGCA-TACTGA
112550180 GTGTAAGACCAT
1 GTGTAAGACCAT
112550192 GTCAGTACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
32 2 0.05
33 33 0.85
34 4 0.10
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
GTGTAAGACCATAACTAGGTTATAGCATACTGA
Found at i:112553374 original size:5 final size:5
Alignment explanation
Indices: 112553364--112553401 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
112553354 TAGAAAAATA
112553364 TTATT TTATT TTA-T TTATTT TTATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTA-TT TTA-TT TTATT TTATT TT
112553402 TGATTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 17 0.55
6 10 0.32
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:112553409 original size:12 final size:11
Alignment explanation
Indices: 112553367--112553410 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
112553357 AAAAATATTA
112553367 TTTTATTTTAT
1 TTTTATTTTAT
*
112553378 TTAT-TTTTAT
1 TTTTATTTTAT
112553388 TTTTATTTTAT
1 TTTTATTTTAT
112553399 TTTTGATTTTAT
1 TTTT-ATTTTAT
112553411 ATAAAATTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.31
11 13 0.45
12 7 0.24
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:112553409 original size:17 final size:16
Alignment explanation
Indices: 112553367--112553410 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
112553357 AAAAATATTA
112553367 TTTTATTTTA-TTTAT
1 TTTTATTTTATTTTAT
112553382 TTTTATTTTTATTTTAT
1 TTTTA-TTTTATTTTAT
112553399 TTTTGATTTTAT
1 TTTT-ATTTTAT
112553411 ATAAAATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.19
16 5 0.19
17 15 0.58
18 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:112554995 original size:21 final size:22
Alignment explanation
Indices: 112554970--112555014 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
112554960 GCACCAGTCG
112554970 AGTTAAAAGAATTA-AAGACAC
1 AGTTAAAAGAATTACAAGACAC
* *
112554991 AGTTATAAGAATTACTAGACAC
1 AGTTAAAAGAATTACAAGACAC
112555013 AG
1 AG
112555015 GGTTCATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (22 bp):
AGTTAAAAGAATTACAAGACAC
Found at i:112563482 original size:20 final size:20
Alignment explanation
Indices: 112563459--112563516 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 20
112563449 AATTTTAAAA
112563459 TTTTATCAAAATTTATAAGG
1 TTTTATCAAAATTTATAAGG
112563479 TTTTATCAAAATATT-TAAGG
1 TTTTATCAAAAT-TTATAAGG
*
112563499 ATTTATCTAAGAATTTAT
1 TTTTATC-AA-AATTTAT
112563517 CAAAATATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 23 0.70
21 6 0.18
22 4 0.12
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTTATCAAAATTTATAAGG
Found at i:112563698 original size:20 final size:19
Alignment explanation
Indices: 112563668--112563723 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
112563658 AATTTATAAG
112563668 AATTCTTAAAGTTATACCAA
1 AATT-TTAAAGTTATACCAA
112563688 AATATTTAAAGATT-TACCAA
1 AAT-TTTAAAG-TTATACCAA
*
112563708 AATTTCTAAAATTATA
1 AATTT-TAAAGTTATA
112563724 TTAAAATATC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.13
20 24 0.77
21 3 0.10
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.38
Consensus pattern (19 bp):
AATTTTAAAGTTATACCAA
Found at i:112563884 original size:20 final size:20
Alignment explanation
Indices: 112563861--112563973 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 20
112563851 TGGTGAACCT
*
112563861 TTAGAAATATTGTTAAATCC
1 TTAGAAATATTGATAAATCC
* * **
112563881 TTAGAAATTTTAATAAAGGC
1 TTAGAAATATTGATAAATCC
*
112563901 TTAAAAATATTGATAAA-CAC
1 TTAGAAATATTGATAAATC-C
** * *
112563921 TTAGAAATACAGGTAAATCT
1 TTAGAAATATTGATAAATCC
* * * *
112563941 TTAGATATTTTGGTAAATCT
1 TTAGAAATATTGATAAATCC
112563961 TTAGAAATATTGA
1 TTAGAAATATTGA
112563974 ATTTTGGTAA
Statistics
Matches: 70, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 69 0.99
21 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.37
Consensus pattern (20 bp):
TTAGAAATATTGATAAATCC
Found at i:112564119 original size:22 final size:21
Alignment explanation
Indices: 112564094--112564159 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
112564084 TAAAAATCTC
112564094 GGTAAAAACTCTT-GAAAATTTT
1 GGTAAAAA-TCTTAG-AAATTTT
*
112564116 GGT-ATAATCTTAGAAATTTT
1 GGTAAAAATCTTAGAAATTTT
* *
112564136 GGTAAATA-CTTAGATATTTT
1 GGTAAAAATCTTAGAAATTTT
112564156 GGTA
1 GGTA
112564160 TAACCTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 29 0.76
21 6 0.16
22 3 0.08
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (21 bp):
GGTAAAAATCTTAGAAATTTT
Found at i:112564132 original size:20 final size:21
Alignment explanation
Indices: 112564109--112564200 Score: 93
Period size: 20 Copynumber: 4.6 Consensus size: 21
112564099 AAACTCTTGA
112564109 AAATTTTGGTATAAT-CTTAG
1 AAATTTTGGTATAATACTTAG
112564129 AAATTTTGGTA-AATACTTAG
1 AAATTTTGGTATAATACTTAG
* * *
112564149 ATATTTTGGTATAA-CCTTAT
1 AAATTTTGGTATAATACTTAG
* * *
112564169 AATTTTTGCTA-AATCCTTAG
1 AAATTTTGGTATAATACTTAG
*
112564189 AAATTTTAGTAT
1 AAATTTTGGTAT
112564201 GCTAAAATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
19 5 0.09
20 51 0.88
21 2 0.03
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (21 bp):
AAATTTTGGTATAATACTTAG
Found at i:112564156 original size:40 final size:40
Alignment explanation
Indices: 112564109--112564200 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
112564099 AAACTCTTGA
* *
112564109 AAATTTTGGTATAATCTTAGAAATTTTGGTAAATACTTAG
1 AAATTTTGGTATAACCTTAGAAATTTTGCTAAATACTTAG
* * * *
112564149 ATATTTTGGTATAACCTTATAATTTTTGCTAAATCCTTAG
1 AAATTTTGGTATAACCTTAGAAATTTTGCTAAATACTTAG
*
112564189 AAATTTTAGTAT
1 AAATTTTGGTAT
112564201 GCTAAAATGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (40 bp):
AAATTTTGGTATAACCTTAGAAATTTTGCTAAATACTTAG
Found at i:112564286 original size:20 final size:20
Alignment explanation
Indices: 112564271--112564314 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
112564261 ATCCTTAAAT
*
112564271 ATTTTTATATAACCTTAGAA
1 ATTTTGATATAACCTTAGAA
*
112564291 ATTTTGGTATAACCTTAG-A
1 ATTTTGATATAACCTTAGAA
112564310 ATTTT
1 ATTTT
112564315 ATTTTACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (20 bp):
ATTTTGATATAACCTTAGAA
Found at i:112564403 original size:20 final size:21
Alignment explanation
Indices: 112564378--112564450 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 21
112564368 TGGAGAAGAA
*
112564378 ATTTT-ATAAAATCCTTATAT
1 ATTTTGATAAAATCCTTAAAT
* * *
112564398 ATTTTAAT-ATAGCCTTAGAA-
1 ATTTTGATAAAATCCTTA-AAT
112564418 ATTTTGAT-AAATCCTTAAAT
1 ATTTTGATAAAATCCTTAAAT
112564438 ATTTTGATAAAAT
1 ATTTTGATAAAAT
112564451 ATTATAAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 2 0.05
20 34 0.79
21 7 0.16
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTTTGATAAAATCCTTAAAT
Found at i:112566633 original size:18 final size:18
Alignment explanation
Indices: 112566594--112566634 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
112566584 AACATATTCT
* *
112566594 CATATTCAGAATCAGATG
1 CATATTCAGAATCAAATA
*
112566612 CATATTCAGATTCAAATA
1 CATATTCAGAATCAAATA
112566630 CATAT
1 CATAT
112566635 ACAGTCACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (18 bp):
CATATTCAGAATCAAATA
Found at i:112568447 original size:12 final size:12
Alignment explanation
Indices: 112568430--112568457 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
112568420 ACCAAAACAG
112568430 GTTTTTAGCGGC
1 GTTTTTAGCGGC
112568442 GTTTTTAGCGGC
1 GTTTTTAGCGGC
112568454 GTTT
1 GTTT
112568458 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:112568509 original size:39 final size:40
Alignment explanation
Indices: 112568463--112568550 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 40
112568453 CGTTTGAATG
* * *
112568463 AAAAACGCCGCTAAAGAACTAGCATTAGCGGTGCTT-CTA
1 AAAAACGCCGCTAAAGAACGAGCATTAGCAGCGCTTACTA
* *
112568502 AAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTATTA
1 AAAAACGCCGCTAAAGAACGAGCATTAGCAGCGCTTACTA
112568542 AAAAACGCC
1 AAAAACGCC
112568551 ACTATAGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 32 0.74
40 11 0.26
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAACGAGCATTAGCAGCGCTTACTA
Found at i:112568631 original size:40 final size:40
Alignment explanation
Indices: 112568463--112568632 Score: 150
Period size: 40 Copynumber: 4.3 Consensus size: 40
112568453 CGTTTGAATG
* * * * *
112568463 AAAAACGCCGCTAAAGAACTAGCATTAGCGGTGC-TT-CTA
1 AAAAACGCCGCTAAAGATCGATCTTTAGCGGCGCTTTAC-A
* * * *
112568502 AAAAACGCCGCTAAAGATCGAGCATTAGCAGCGC-TTATTA
1 AAAAACGCCGCTAAAGATCGATCTTTAGCGGCGCTTTA-CA
* * * *
112568542 AAAAACGCCACTATAGGTTC-ATCTTTAGCGGCGCTTTTCA
1 AAAAACGCCGCTA-AAGATCGATCTTTAGCGGCGCTTTACA
* *
112568582 AAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTACA
1 AAAAACGCCGCTAAAGATCGATCTTTAGCGGCGCTTTACA
112568622 AAAAACGCCGC
1 AAAAACGCCGC
112568633 AAAAAATTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
39 36 0.33
40 67 0.61
41 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGATCGATCTTTAGCGGCGCTTTACA
Found at i:112568750 original size:40 final size:41
Alignment explanation
Indices: 112568665--112568770 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 41
112568655 CCTTTAGTGG
112568665 CTTTAGCGGTGC-TTTTTAAAAACGCCGCTAAAGATCAAGT
1 CTTTAGCGGTGCTTTTTTAAAAACGCCGCTAAAGATCAAGT
* * * *
112568705 -ATTAGCGGTGCTTTTTTAAAAACGCCGCTAATGTTCGA-T
1 CTTTAGCGGTGCTTTTTTAAAAACGCCGCTAAAGATCAAGT
112568744 CTTTAGC-G-GCATTTTTTGAAAAACGCC
1 CTTTAGCGGTGC-TTTTTT-AAAAACGCC
112568771 ACAAAAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
38 2 0.04
39 18 0.32
40 37 0.65
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGTGCTTTTTTAAAAACGCCGCTAAAGATCAAGT
Found at i:112569003 original size:22 final size:22
Alignment explanation
Indices: 112568978--112569023 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
112568968 GAGTTATTAT
* *
112568978 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
112569000 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
112569022 TT
1 TT
112569024 GTGGTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:112569017 original size:14 final size:14
Alignment explanation
Indices: 112568983--112569031 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
112568973 ATTATTTTAA
*
112568983 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
112568997 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
*
112569012 GGTTTAAGGG-TTGT
1 GGTTT-AGGGATTAT
112569026 GGTTTA
1 GGTTTA
112569032 AGGTTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 1 0.03
14 13 0.42
15 17 0.55
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:112569032 original size:14 final size:15
Alignment explanation
Indices: 112568990--112569034 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
112568980 TAAGGTTTAT
112568990 GGATTATGGGTTT-AG
1 GGATTAT-GGTTTAAG
112569005 GGATTATGGTTTAAG
1 GGATTATGGTTTAAG
*
112569020 GG-TTGTGGTTTAAG
1 GGATTATGGTTTAAG
112569034 G
1 G
112569035 TTTAAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
GGATTATGGTTTAAG
Found at i:112569072 original size:36 final size:36
Alignment explanation
Indices: 112569015--112569083 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
112569005 GGATTATGGT
*
112569015 TTAAGGGTTGTGGTTTAAGGTTTAAGTGTTAGGGGG
1 TTAAGGGTTGTGGGTTAAGGTTTAAGTGTTAGGGGG
* * *
112569051 TTAAGGGTTAG-GGGTTCAGGTTTATGTTTTAGG
1 TTAAGGGTT-GTGGGTTAAGGTTTAAGTGTTAGG
112569084 ATTTATAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 27 0.96
37 1 0.04
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.41
Consensus pattern (36 bp):
TTAAGGGTTGTGGGTTAAGGTTTAAGTGTTAGGGGG
Found at i:112569242 original size:14 final size:14
Alignment explanation
Indices: 112569225--112569263 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
112569215 ATCATTATAG
112569225 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
112569239 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
112569253 TTTAGAGTTTA
1 TTTAGGGTTTA
112569264 AAGTGTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:112569305 original size:15 final size:15
Alignment explanation
Indices: 112569287--112569334 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
112569277 ATTATTTTAA
112569287 GGTTTATGGATTATG
1 GGTTTATGGATTATG
112569302 GGTTTA-GAGATTAT-
1 GGTTTATG-GATTATG
* *
112569316 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
112569331 GGTT
1 GGTT
112569335 AGGGTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:112569307 original size:22 final size:21
Alignment explanation
Indices: 112569282--112569331 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
112569272 GAGTTATTAT
*
112569282 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
*
112569304 TTT-AGAGATTATGGTTTATGG
1 TTTAAG-GATTATGGATTATGG
112569325 TTTAAGG
1 TTTAAGG
112569332 GTTAGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:112569340 original size:14 final size:14
Alignment explanation
Indices: 112569323--112569363 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
112569313 TATGGTTTAT
112569323 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
112569337 GGTTTAAGGCTTAG
1 GGTTTAAGGGTTAG
*
112569351 GGGTTAAGGGTTA
1 GGTTTAAGGGTTA
112569364 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.22, C:0.02, G:0.41, T:0.34
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:112569372 original size:21 final size:21
Alignment explanation
Indices: 112569316--112569362 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
112569306 TAGAGATTAT
* * *
112569316 GGTTTATGGTTTAAGGGTTAG
1 GGTTTAAGGCTTAGGGGTTAG
112569337 GGTTTAAGGCTTAGGGGTTAAG
1 GGTTTAAGGCTTAGGGGTT-AG
112569359 GGTT
1 GGTT
112569363 AAGTGTTAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.38
Consensus pattern (21 bp):
GGTTTAAGGCTTAGGGGTTAG
Found at i:112569892 original size:14 final size:13
Alignment explanation
Indices: 112569873--112569922 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
112569863 TTAGTTTTTT
112569873 ATTTATAAAAACTA
1 ATTTATAAAAA-TA
112569887 ATTTATAAAAATA
1 ATTTATAAAAATA
*
112569900 A-TAATAATAAATA
1 ATTTATAA-AAATA
*
112569913 TTTTATAAAA
1 ATTTATAAAA
112569923 TCATTTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 5 0.16
13 10 0.32
14 16 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTATAAAAATA
Found at i:112570972 original size:17 final size:18
Alignment explanation
Indices: 112570944--112570981 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
112570934 TATCTACTTA
112570944 TTATTATTATTTTTATTT
1 TTATTATTATTTTTATTT
*
112570962 TTATT-TTATTTTTGTTT
1 TTATTATTATTTTTATTT
112570979 TTA
1 TTA
112570982 GAATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTATTATTATTTTTATTT
Found at i:112570974 original size:6 final size:6
Alignment explanation
Indices: 112570944--112570981 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
112570934 TATCTACTTA
* *
112570944 TTATTA TTATTT TTATTT TTA-TT TTATTT TTGTTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTA
112570982 GAATTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:112571529 original size:27 final size:27
Alignment explanation
Indices: 112571505--112571557 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
112571495 CTGGTTCTTT
112571505 ATTTATTTAT-TTTGCTCCTTCTTCTTAG
1 ATTTATTT-TCTTTGCT-CTTCTTCTTAG
*
112571533 ATTTATTTTCTTTTCTCTTCTTCTT
1 ATTTATTTTCTTTGCTCTTCTTCTT
112571558 GCAATCGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.11, C:0.19, G:0.04, T:0.66
Consensus pattern (27 bp):
ATTTATTTTCTTTGCTCTTCTTCTTAG
Found at i:112572313 original size:27 final size:27
Alignment explanation
Indices: 112572257--112572313 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
112572247 CACAGAGAAC
* *
112572257 AAAAAAAAAAAGAGATAGCAATTCGCA
1 AAAAAAAAAAAGAGAAAGAAATTCGCA
112572284 AAAAAAAAAAAGAGCAAAGAAATTCG-A
1 AAAAAAAAAAAGAG-AAAGAAATTCGCA
112572311 AAA
1 AAA
112572314 GAAATCGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.68, C:0.09, G:0.14, T:0.09
Consensus pattern (27 bp):
AAAAAAAAAAAGAGAAAGAAATTCGCA
Found at i:112573344 original size:3 final size:3
Alignment explanation
Indices: 112573330--112573694 Score: 247
Period size: 3 Copynumber: 122.0 Consensus size: 3
112573320 CAAAAATTCA
* * * *
112573330 TAT TAT TCAT TAT TAT AAT TAT AAT TAT AAT TAT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
112573376 TAT TAT T-T TAC TAT CAT T-T ATAT TCAT TAT TAT TAT TAT TAC TGT
1 TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * * *
112573421 TAT TGT TAT TTT TAT T-T TAT TAC TAT TAC CAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * **
112573468 TAT TAT TAT TAT TAT TTT TAC TAT TGC TAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * * * **
112573514 AAT TAT TAC TAC TAA CAT TAT TAT TGT TAT TAT T-T TGC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
112573561 TAT TAT TAT TAT GAT TAT TAT TTT TAT TAT TGC TAT TAC TAT T-T CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * * * * * *
112573609 TAT TAT TAT TAT TAT TAT TAT TGT TGT TGT TGT TGT TGT TAT CAT CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
112573656 TAA TAG TAT CAT TAT TAT TAT TAC TAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112573695 CATTTTTACT
Statistics
Matches: 281, Mismatches: 70, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
2 9 0.03
3 261 0.93
4 11 0.04
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:112573815 original size:11 final size:11
Alignment explanation
Indices: 112573799--112573841 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 11
112573789 TTTTTGTTAT
112573799 TTCATTTATTA
1 TTCATTTATTA
112573810 TTCATTTATTA
1 TTCATTTATTA
112573821 TTCTATTTATTTA
1 TTC-ATTTA-TTA
112573834 TTTCATTT
1 -TTCATTT
112573842 TTGTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 14 0.48
12 5 0.17
13 7 0.24
14 3 0.10
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (11 bp):
TTCATTTATTA
Found at i:112573851 original size:62 final size:57
Alignment explanation
Indices: 112573785--112573898 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 57
112573775 TTTAACTAGA
* * *
112573785 TTTTTTTTTGTTATT-TCATTTATTATTCAT-TTATTATTCTATTTATTTATTTCATTTTTG
1 TTTTTTTTT-TTGTTCTCA-TTATTA-TAATCTTATTA-TATATTTATTTATT-CATTTTTG
112573845 TTTTTTTTTTTGTTCTCATTATTATAATCTTATTATATATTTATTTATTCATTT
1 TTTTTTTTTTTGTTCTCATTATTATAATCTTATTATATATTTATTTATTCATTT
112573899 ATTCATTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
57 5 0.10
58 16 0.33
59 16 0.33
60 12 0.24
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (57 bp):
TTTTTTTTTTTGTTCTCATTATTATAATCTTATTATATATTTATTTATTCATTTTTG
Found at i:112581065 original size:39 final size:39
Alignment explanation
Indices: 112581011--112581085 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
112581001 TTATTCTTTC
112581011 AATTTCATTCATAATCATGCTATATAGATGGTTGTTTTT
1 AATTTCATTCATAATCATGCTATATAGATGGTTGTTTTT
112581050 AATTTCATTCATAATCATGCTATATAGATGGTTGTT
1 AATTTCATTCATAATCATGCTATATAGATGGTTGTT
112581086 ATTAGATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (39 bp):
AATTTCATTCATAATCATGCTATATAGATGGTTGTTTTT
Found at i:112587350 original size:44 final size:44
Alignment explanation
Indices: 112585992--112587342 Score: 1901
Period size: 44 Copynumber: 30.9 Consensus size: 44
112585982 AGGAACACCG
* * **
112585992 ATCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
112586036 ATCTGTCATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * ** *
112586080 ATATGTTATCTTCGATCTACTCTTTGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112586124 ATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112586168 ATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112586212 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
112586256 ATCTGTTATCTTCGATCTACTCTCCACCGCTACAGAGACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
112586300 ATCTGTTATCTTCGCTCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * *
112586344 ATCTACTATCTTCGATCTGCTCTCCACCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112586388 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
112586432 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
112586476 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
112586516 ATCTGTTATCTTCAATCTGCTCTCCGTCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112586560 ATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * ** *
112586604 ATCTGTTATCTTCGATCTACTC-CCTACCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCC-GCCGCTACAGAGACGCCAA
* * * *
112586648 ATCTGTCATCTTTGATCTGCTCTCCGCCACTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112586692 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * ** *
112586736 ATCTGTTATCTTTGATCTACTCTCTACCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
112586780 ATC----ATCTTCGATCTTCTTTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
112586820 ATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
112586864 ATCTGTTATTTTTGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
112586908 ATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACACAAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * *
112586952 ATCTGCTATATTCGATCTGCTCTCTGCCGCTGCAGAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
112586996 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
112587040 ATTTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
112587084 ATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
112587128 ATCTATTATCTTCGACCTGCTCTCCGCCACTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112587172 ATCTGTTATCTTCGACCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** *
112587216 ATCTATTATCTTCGATCTGCTCTCCATCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
112587260 ATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
**
112587304 ATCTGTTATCTTCGATCTGCTCTCTACCGCTACAGAGAC
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAC
112587343 ACTAAATCAT
Statistics
Matches: 1169, Mismatches: 128, Indels: 20
0.89 0.10 0.02
Matches are distributed among these distances:
40 73 0.06
43 2 0.00
44 1092 0.93
45 2 0.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:112587675 original size:61 final size:65
Alignment explanation
Indices: 112587561--112587679 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 65
112587551 GTATCCATAA
112587561 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
* *
112587626 TTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
112587680 AATGGTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
61 29 0.56
62 1 0.02
63 1 0.02
64 1 0.02
65 20 0.38
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
Found at i:112600142 original size:44 final size:44
Alignment explanation
Indices: 112600071--112600409 Score: 381
Period size: 44 Copynumber: 7.6 Consensus size: 44
112600061 GCCACTAAAC
* * *
112600071 CTTATCTCCCTAAAGTTGCAGGGGAGCAGGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * * ** * *
112600115 CTTAGCTCCCTGAAGTTACAGTAGAGCAGACTAAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAAT
* *
112600160 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * ** ** * *
112600204 CTTAGCTCCCTGAAGTTGCAGTAGAATAGACTAAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAAT
* *
112600249 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAGAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * *
112600293 ATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * ** *
112600337 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAAT
112600382 CTTATCTCCCTGAAGTTGCAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
112600410 TATTAAAGCT
Statistics
Matches: 240, Mismatches: 52, Indels: 5
0.81 0.18 0.02
Matches are distributed among these distances:
44 141 0.59
45 99 0.41
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
Found at i:112600218 original size:89 final size:89
Alignment explanation
Indices: 112600067--112600409 Score: 420
Period size: 89 Copynumber: 3.9 Consensus size: 89
112600057 AATAGCCACT
* * *
112600067 AAACCTTATCTCCCTAAAGTTGCAGGGGAGCAGGTTGAAGATACAAGTCTTAGCTCCCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
*
112600132 ACAGTAGAGCAGACTAAAGATAGC
66 GCAGTAGAGCAGACTAAAGATAGC
* *
112600156 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGTCTTAGCTCCCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
**
112600221 GCAGTAGAATAGACTAAAGATAGC
66 GCAGTAGAGCAGACTAAAGATAGC
* * * * * *
112600245 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAGAAATATTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
* ** * *
112600310 GCAGTGGAGCAGGTTGAAGTTA-C
66 GCAGTAGAGCAGACTAAAGATAGC
** * * * *
112600333 AAGTCTTATCTCCCTAAAGTTGCAGCGGAGC-AGACTAAAGATAGCAAATCTTATCTCCCTGAAG
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAG-TTGAAGATA-CAAATCTTAGCTCCCTGAAG
*
112600397 TTGCAGTGGAGCA
64 TTGCAGTAGAGCA
112600410 TATTAAAGCT
Statistics
Matches: 223, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
87 1 0.00
88 34 0.15
89 188 0.84
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (89 bp):
AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
GCAGTAGAGCAGACTAAAGATAGC
Found at i:112600314 original size:133 final size:134
Alignment explanation
Indices: 112600071--112600409 Score: 421
Period size: 133 Copynumber: 2.5 Consensus size: 134
112600061 GCCACTAAAC
* ** * ** * ** * *
112600071 CTTATCTCCCTAAAGTTGCAGGGGAGCAGGTTGAAGATA-CAAGTCTTAGCTCCCTGAAGTTACA
1 CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
* *
112600135 GTAGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
66 GTGGAGCAGACTAAAGATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
112600200 AAGT
131 AAGT
* * *
112600204 CTTAGCTCCCTGAAGTTGCAGTAGAATAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
1 CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
** * * * * *
112600269 GTGGAGCAGGTTGAAGTTAG-AAATATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAC
66 GTGGAGCAGACTAAAGATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
112600333 AAGT
131 AAGT
* * * *
112600337 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
1 CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
112600402 GTGGAGCA
66 GTGGAGCA
112600410 TATTAAAGCT
Statistics
Matches: 176, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
133 140 0.80
134 36 0.20
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (134 bp):
CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACTAAAGATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
AAGT
Found at i:112601030 original size:23 final size:23
Alignment explanation
Indices: 112601004--112601053 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
112600994 AGAACAAAAT
*
112601004 AAAAAAAAGAG-AAAGCAATTCACA
1 AAAAAAAA-AGCAAAGAAATTCA-A
112601028 AAAAAAAAAGCAAAGAAATTCAA
1 AAAAAAAAAGCAAAGAAATTCAA
112601051 AAA
1 AAA
112601054 GAAATTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.72, C:0.10, G:0.10, T:0.08
Consensus pattern (23 bp):
AAAAAAAAAGCAAAGAAATTCAA
Found at i:112601042 original size:24 final size:22
Alignment explanation
Indices: 112601004--112601053 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
112600994 AGAACAAAAT
* *
112601004 AAAAAAAAGAGAAAGCAATTCA
1 AAAAAAAAAAGAAAGAAATTCA
112601026 CAAAAAAAAAAGCAAAGAAATTCA
1 -AAAAAAAAAAG-AAAGAAATTCA
112601050 AAAA
1 AAAA
112601054 GAAATTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.72, C:0.10, G:0.10, T:0.08
Consensus pattern (22 bp):
AAAAAAAAAAGAAAGAAATTCA
Found at i:112601824 original size:3 final size:3
Alignment explanation
Indices: 112601816--112601875 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
112601806 ATTTTTGCTA
* * *
112601816 TAT TAT TAT TAA AAT TAAT TAAT TAAT TAT TAT TA- TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT
*
112601863 TAT CAT TAT TAT T
1 TAT TAT TAT TAT T
112601876 TCTTTAAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 34 0.72
4 11 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:112601855 original size:15 final size:14
Alignment explanation
Indices: 112601841--112601875 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
112601831 TAATTAATTA
112601841 ATTATTATTATATT
1 ATTATTATTATATT
*
112601855 ATTATTAATATCATT
1 ATTATTATTAT-ATT
112601870 ATTATT
1 ATTATT
112601876 TCTTTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:112602036 original size:3 final size:3
Alignment explanation
Indices: 112602028--112602102 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
112602018 TGTTTCTGCC
112602028 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112602076 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
112602103 CATTTTTTTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:112602227 original size:11 final size:12
Alignment explanation
Indices: 112602210--112602239 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
112602200 TTGTTATTTC
112602210 ATTTATTATTCT
1 ATTTATTATTCT
112602222 -TTTATTATTCT
1 ATTTATTATTCT
112602233 ATTTATT
1 ATTTATT
112602240 TATTTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTATTATTCT
Found at i:112607145 original size:22 final size:22
Alignment explanation
Indices: 112607120--112607181 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
112607110 ATCATTCTGT
*
112607120 ACTTCAGTGCCTACTGTTTTGC
1 ACTTCAGTGCTTACTGTTTTGC
** * *
112607142 ACTTTGGTGCTTAGTGATTTGC
1 ACTTCAGTGCTTACTGTTTTGC
* *
112607164 TCTTCTGTGCTTACTGTT
1 ACTTCAGTGCTTACTGTT
112607182 CTATTAGTGC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (22 bp):
ACTTCAGTGCTTACTGTTTTGC
Found at i:112621682 original size:20 final size:19
Alignment explanation
Indices: 112621659--112621698 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
112621649 TTTTTTACAT
112621659 TATTTTTCTCTCTTTTT-TTC
1 TATTTTTC-CT-TTTTTATTC
112621679 TATTTTTCCTTTTTTATTC
1 TATTTTTCCTTTTTTATTC
112621698 T
1 T
112621699 TTCTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTTTCCTTTTTTATTC
Found at i:112621693 original size:19 final size:20
Alignment explanation
Indices: 112621659--112621698 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
112621649 TTTTTTACAT
*
112621659 TATTTTTCTCTCTTTTTTTC
1 TATTTTTCTCTCTTTTATTC
*
112621679 TATTTTTC-CTTTTTTATTC
1 TATTTTTCTCTCTTTTATTC
112621698 T
1 T
112621699 TTCTTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTTCTCTCTTTTATTC
Found at i:112622100 original size:13 final size:13
Alignment explanation
Indices: 112622082--112622128 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
112622072 TCCGACGAAT
112622082 AAAACAAAAACTA
1 AAAACAAAAACTA
*
112622095 AAAACAAAAACCA
1 AAAACAAAAACTA
**
112622108 AAAACAAAGTCTA
1 AAAACAAAAACTA
112622121 AAAACAAA
1 AAAACAAA
112622129 TTTATAGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.74, C:0.17, G:0.02, T:0.06
Consensus pattern (13 bp):
AAAACAAAAACTA
Found at i:112622103 original size:6 final size:6
Alignment explanation
Indices: 112622082--112622115 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
112622072 TCCGACGAAT
112622082 AAAACA AAAACTA AAAACA AAAACCA AAAACA AA
1 AAAACA AAAAC-A AAAACA AAAA-CA AAAACA AA
112622116 GTCTAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:112625751 original size:3 final size:3
Alignment explanation
Indices: 112625743--112625805 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
112625733 ATACTAATTA
* *
112625743 AAT AAT AAT AGAG AA- AAT AAAT AAT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
112625789 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
112625806 AAGAAAATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.04
3 47 0.87
4 5 0.09
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:112625923 original size:3 final size:3
Alignment explanation
Indices: 112625915--112626008 Score: 107
Period size: 3 Copynumber: 30.3 Consensus size: 3
112625905 TAATCAAAAC
112625915 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
112625963 TTGA CATA AGTA GTA ATA CTA GTA ACA ATA ATA ATA ATG ATA ATA A
1 AT-A -ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
112626009 CAGTAGCAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
3 72 0.94
4 4 0.05
5 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:112627090 original size:14 final size:14
Alignment explanation
Indices: 112627071--112627097 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112627061 TATTATATCT
112627071 ACTGTTCATCTGCA
1 ACTGTTCATCTGCA
112627085 ACTGTTCATCTGC
1 ACTGTTCATCTGC
112627098 TTCTTGTCTT
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:0.19, C:0.30, G:0.15, T:0.37
Consensus pattern (14 bp):
ACTGTTCATCTGCA
Found at i:112627354 original size:4 final size:4
Alignment explanation
Indices: 112627345--112627384 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
112627335 AGACTGTAGC
112627345 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
112627385 GTGCCCTAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:112638780 original size:15 final size:15
Alignment explanation
Indices: 112638756--112638789 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
112638746 ACCCCAAATT
*
112638756 AGATATAGAAATAAC
1 AGATACAGAAATAAC
112638771 AGATACAGAAATAAC
1 AGATACAGAAATAAC
112638786 AGAT
1 AGAT
112638790 TAAACACGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
AGATACAGAAATAAC
Found at i:112641827 original size:21 final size:21
Alignment explanation
Indices: 112641780--112641829 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
112641770 AATTTCAACA
112641780 ATTAATATTTTAAATGTGTTT
1 ATTAATATTTTAAATGTGTTT
*
112641801 AGTAATCATTTT-AATGT-TTT
1 ATTAAT-ATTTTAAATGTGTTT
112641821 ACTTAATAT
1 A-TTAATAT
112641830 AAATTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.24
21 14 0.56
22 5 0.20
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (21 bp):
ATTAATATTTTAAATGTGTTT
Found at i:112647841 original size:25 final size:27
Alignment explanation
Indices: 112647783--112647834 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
112647773 TTTGATATAC
* *
112647783 ATACATATTTTTAATTATAAAAATGAA
1 ATACAAATTTATAATTATAAAAATGAA
112647810 ATACAAATTTATAATTATAAAAATG
1 ATACAAATTTATAATTATAAAAATG
112647835 TAACAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (27 bp):
ATACAAATTTATAATTATAAAAATGAA
Found at i:112650879 original size:26 final size:27
Alignment explanation
Indices: 112650850--112650990 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
112650840 AGCATGGCTG
* *
112650850 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
112650876 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
112650904 CCAGAACAGATATATGT-GCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
112650930 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
112650957 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
112650984 CCAGAAC
1 CCAGAAC
112650991 GCTTCCTCCA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 29 0.28
27 59 0.56
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:112651120 original size:26 final size:27
Alignment explanation
Indices: 112651091--112651165 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
112651081 CAAAATTAAC
*
112651091 CCTAGGGGTATAACGGTAATTTT-ACA
1 CCTAGGGGTATAACAGTAATTTTCACA
*
112651117 CCTAGGGGTATAACAGTAATTTTCATA
1 CCTAGGGGTATAACAGTAATTTTCACA
* * *
112651144 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
112651166 AGCTACTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 22 0.51
27 21 0.49
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCACA
Found at i:112651161 original size:27 final size:26
Alignment explanation
Indices: 112651093--112651165 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
112651083 AAATTAACCC
* *
112651093 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
*
112651119 TAGGGGTATAACAGTAATTTTCATACA
1 TAGGGGTATAACAGTAATTTT-ACACA
* *
112651146 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
112651166 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:112652638 original size:26 final size:26
Alignment explanation
Indices: 112652602--112652711 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
112652592 CATGAAATTC
112652602 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112652628 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112652654 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
112652680 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
112652706 TTATCA
1 TTATCA
112652712 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112655899 original size:46 final size:47
Alignment explanation
Indices: 112655792--112655920 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 47
112655782 TCGTAATAGA
**
112655792 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCC
1 GGCCGATGCCATGTCCCAGACATGGTCTTACACTA--TGACACATATCC
* * *
112655841 GTGTCGATGCCATGTCCCAGACATGGTCTTACA-T-TGACACATCTCAT
1 G-GCCGATGCCATGTCCCAGACATGGTCTTACACTATGACACATATC-C
*
112655888 GGCCGATGCCATGTCCCAAACATGGTCTTACAC
1 GGCCGATGCCATGTCCCAGACATGGTCTTACAC
112655921 AGGCTCTCAC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
46 37 0.53
47 1 0.01
49 2 0.03
50 30 0.43
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GGCCGATGCCATGTCCCAGACATGGTCTTACACTATGACACATATCC
Found at i:112658986 original size:10 final size:10
Alignment explanation
Indices: 112658973--112659022 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
112658963 ATTTGAAATT
112658973 TTAATTTTTA
1 TTAATTTTTA
112658983 TTAATTTTTA
1 TTAATTTTTA
*
112658993 TTAATTATTA
1 TTAATTTTTA
112659003 -TAA-TTTTA
1 TTAATTTTTA
112659011 -TAATTATTTA
1 TTAATT-TTTA
112659021 TT
1 TT
112659023 GACATAGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 7 0.20
9 4 0.11
10 23 0.66
11 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTAATTTTTA
Found at i:112659000 original size:17 final size:17
Alignment explanation
Indices: 112658974--112659018 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
112658964 TTTGAAATTT
*
112658974 TAATTTTTATTAATTTTTA
1 TAATTATTA-TAA-TTTTA
112658993 TTAATTATTATAATTTTA
1 -TAATTATTATAATTTTA
112659011 TAATTATT
1 TAATTATT
112659019 TATTGACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 3 0.12
20 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAATTATTATAATTTTA
Found at i:112660549 original size:51 final size:51
Alignment explanation
Indices: 112660490--112660591 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
112660480 TCCTACATGG
112660490 GTCCTAAACATGTCAATGATGATGATAATTGTATTGGATAATAATTGATGA
1 GTCCTAAACATGTCAATGATGATGATAATTGTATTGGATAATAATTGATGA
112660541 GTCCTAAACATGTCAATGATGATGATAATTGTATTGGATAATAATTGATGA
1 GTCCTAAACATGTCAATGATGATGATAATTGTATTGGATAATAATTGATGA
112660592 AAAAGTAATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (51 bp):
GTCCTAAACATGTCAATGATGATGATAATTGTATTGGATAATAATTGATGA
Found at i:112660756 original size:34 final size:34
Alignment explanation
Indices: 112660716--112660785 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
112660706 CTAAAATTAG
112660716 TTTTAATCTTTTTTTCTAGTAAAAAGAGAAAATC
1 TTTTAATCTTTTTTTCTAGTAAAAAGAGAAAATC
112660750 TTTTAATCTTTTTTTCTAGTAAAAAGAGAAAATC
1 TTTTAATCTTTTTTTCTAGTAAAAAGAGAAAATC
112660784 TT
1 TT
112660786 GGAGTTTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (34 bp):
TTTTAATCTTTTTTTCTAGTAAAAAGAGAAAATC
Found at i:112661515 original size:5 final size:5
Alignment explanation
Indices: 112661507--112661538 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
112661497 ATAAATATTT
112661507 TTATA TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TT
112661539 GATTGGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:112663365 original size:35 final size:36
Alignment explanation
Indices: 112663312--112663384 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 36
112663302 GAGTTATTCG
* * *
112663312 TTTTTATTTTAGTAAGATTTTAGGATTTTTAGTTTA
1 TTTTAATTTTAGTAAGATTTTAGAAATTTTAGTTTA
* *
112663348 TTTTAATTTTA-TTAGATTTTAGAAATTTTATTTTA
1 TTTTAATTTTAGTAAGATTTTAGAAATTTTAGTTTA
112663383 TT
1 TT
112663385 AATGTTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (36 bp):
TTTTAATTTTAGTAAGATTTTAGAAATTTTAGTTTA
Found at i:112664305 original size:11 final size:10
Alignment explanation
Indices: 112664287--112664312 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
112664277 TTTAACTAAC
112664287 AGAAAAAAAA
1 AGAAAAAAAA
112664297 AGAAAAAAAA
1 AGAAAAAAAA
112664307 AGAAAA
1 AGAAAA
112664313 GCAACCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:112672199 original size:39 final size:39
Alignment explanation
Indices: 112672087--112672308 Score: 293
Period size: 39 Copynumber: 5.6 Consensus size: 39
112672077 TCGTTCAAAC
* * * * * *
112672087 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATT
* * * * *
112672127 GCCTTCAGGACTTAACCCGGATATCACAACTCGCACAATC
1 GCCTTC-GGGCTTAGCCCGGATATCATATCTCGCACAATT
112672167 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
112672206 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
* *
112672245 GCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAATT
112672284 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
112672309 CAATTCGCAC
Statistics
Matches: 164, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
39 126 0.77
40 36 0.22
41 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
Found at i:112672288 original size:117 final size:119
Alignment explanation
Indices: 112672087--112672308 Score: 331
Period size: 117 Copynumber: 1.9 Consensus size: 119
112672077 TCGTTCAAAC
* *
112672087 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATC
112672152 ACAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
66 ACAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
* * * * * *
112672206 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATTGCCTTC-GGGCTTAGCCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATC
* * *
112672269 ACAATTCGCACATTTGCCTTCGGGCTTAGCCCGGATATCA
66 ACAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCA
112672309 CAATTCGCAC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 53 0.58
118 30 0.33
119 9 0.10
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (119 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATC
ACAACTCGCACAATCGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
Found at i:112680070 original size:39 final size:39
Alignment explanation
Indices: 112680022--112680256 Score: 262
Period size: 39 Copynumber: 6.1 Consensus size: 39
112680012 GCTACTCGTT
* * * * *
112680022 CAAACGCCTTCGGGACATAGCCC-GTTATGATAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
112680061 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
112680101 C-AATCGCCTTCGGGCTTAGCCCGGATATCATATCTCGCA
1 CAAAT-GCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* *
112680140 CAATTGCCTTCGGGCTTAGCCCGGATATCATATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
112680179 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
** * *
112680218 CATTTGCCTTC-GGCTTAGCCC-GATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
112680255 CA
1 CA
112680257 TTCATACACA
Statistics
Matches: 178, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
37 18 0.10
38 10 0.06
39 126 0.71
40 24 0.13
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:112680181 original size:78 final size:78
Alignment explanation
Indices: 112680026--112680256 Score: 290
Period size: 78 Copynumber: 3.0 Consensus size: 78
112680016 CTCGTTCAAA
* * * * * * *
112680026 CGCCTTCGGGACATAGCCC-GTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGG-CTTAGCCCGGATAT
112680090 CACAACTCGCACAAT
64 CACAACTCGCACAAT
112680105 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
* *
112680170 TATCTCGCACAAT
66 CAACTCGCACAAT
* * *
112680183 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTTGCCTTC-GGCTTAGCCC-GATATC
1 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
112680245 ACAATTCGCACA
65 ACAACTCGCACA
112680257 TTCATACACA
Statistics
Matches: 135, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
76 15 0.11
77 10 0.07
78 73 0.54
79 37 0.27
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (78 bp):
CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
CAACTCGCACAAT
Found at i:112683932 original size:20 final size:19
Alignment explanation
Indices: 112683901--112683942 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
112683891 ATACTATAAG
112683901 ATTATTTTTATCATACATT
1 ATTATTTTTATCATACATT
* *
112683920 ATTATTATTTATCGTATATT
1 ATTATT-TTTATCATACATT
112683940 ATT
1 ATT
112683943 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTATTTTTATCATACATT
Found at i:112683987 original size:22 final size:20
Alignment explanation
Indices: 112683936--112683997 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
112683926 ATTTATCGTA
* * * *
112683936 TATTATTTTTCACAAATTAT
1 TATTATTATTAACATATTTT
112683956 TATTATTATTAACATTATTTT
1 TATTATTATTAACA-TATTTT
*
112683977 TATATATTATTAATATATTTT
1 TAT-TATTATTAACATATTTT
112683998 ACTTGTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 12 0.34
21 13 0.37
22 10 0.29
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATTATTAACATATTTT
Found at i:112684148 original size:23 final size:23
Alignment explanation
Indices: 112684101--112684170 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 23
112684091 ATATATTCAA
112684101 ATTATGTTTTATTCTATA-ACGTT
1 ATTAT-TTTTATTCTATATACGTT
112684124 ATTATTTTTATTCTATATTAC-TT
1 ATTATTTTTATTCTATA-TACGTT
* *
112684147 ATTATTTTT-TTATATATATGTT
1 ATTATTTTTATTCTATATACGTT
112684169 AT
1 AT
112684171 GTATATATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 2 0.05
22 22 0.52
23 16 0.38
24 2 0.05
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (23 bp):
ATTATTTTTATTCTATATACGTT
Found at i:112684170 original size:22 final size:23
Alignment explanation
Indices: 112684121--112684163 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
112684111 ATTCTATAAC
*
112684121 GTTATTATTTTTATTCTATATTA
1 GTTATTATTTTTATTATATATTA
*
112684144 CTTATTATTTTT-TTATATAT
1 GTTATTATTTTTATTATATAT
112684164 ATGTTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (23 bp):
GTTATTATTTTTATTATATATTA
Found at i:112688111 original size:14 final size:14
Alignment explanation
Indices: 112688092--112688121 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
112688082 AAGATATTCT
112688092 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
*
112688106 TTTTCTAAATGAAA
1 TTTTCTAAATAAAA
112688120 TT
1 TT
112688122 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:112696558 original size:210 final size:210
Alignment explanation
Indices: 112696196--112696982 Score: 1394
Period size: 210 Copynumber: 3.7 Consensus size: 210
112696186 CATTATCAGG
* ** * *
112696196 GCAGATCCAAGATGACAGATCTTATCTTTCTGTATTCGGTAGGGAGCAGATCGAATATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
112696261 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
112696326 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
112696391 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * *
112696406 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATCCGGCGGGGAACAGATCAAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
*
112696471 ATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
112696536 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
112696601 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * *
112696616 GCAAATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCTAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
112696681 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* *
112696746 GAACAAATCGAAGTCTAGCATTTCCACTTTGATGGAAGGCAGACCCATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
112696811 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
112696826 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * * * *
112696891 ATTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAAATGATTTGTCGTTTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
*
112696956 GAACAAATCGAAGTCTGGCATCTCCAC
131 GAACAAATCGAAGTCTGGCATTTCCAC
112696983 ATTCAATGGG
Statistics
Matches: 550, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
210 550 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACGCTGAA
Found at i:112706046 original size:30 final size:30
Alignment explanation
Indices: 112705990--112706047 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
112705980 CACGGCCATG
*
112705990 ACACACGGGCATGCGGTCTACTCGTGTGTC
1 ACACACGGGCATGCGGTCTACCCGTGTGTC
* *
112706020 ACACACGGGCGTGTGGATC-ACCCGTGTG
1 ACACACGGGCATGCGG-TCTACCCGTGTG
112706048 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGCGGTCTACCCGTGTGTC
Found at i:112707737 original size:43 final size:43
Alignment explanation
Indices: 112707629--112707745 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
112707619 TGTGTGCTAG
* ** *
112707629 TATAATTGCTTCAGCTTGTTTGATGATGCACAATATGTCGCAA
1 TATAATTGCTTCAGCTTATCCGATGATGCACAAGATGTCGCAA
* *
112707672 TATAATTGCTTCAGCTTGTCCGATGATGCACAAGATGTCTCAA
1 TATAATTGCTTCAGCTTATCCGATGATGCACAAGATGTCGCAA
* *
112707715 TATAATTGCTTTAGTTTATCCGATGATGCAC
1 TATAATTGCTTCAGCTTATCCGATGATGCAC
112707746 CGCAGTGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (43 bp):
TATAATTGCTTCAGCTTATCCGATGATGCACAAGATGTCGCAA
Found at i:112709297 original size:28 final size:28
Alignment explanation
Indices: 112709251--112709319 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
112709241 TTTAAAACCC
*
112709251 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
112709278 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
112709306 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
112709320 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:112710970 original size:20 final size:20
Alignment explanation
Indices: 112710947--112710984 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
112710937 CACATCCAAA
*
112710947 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
112710967 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
112710985 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:112715947 original size:30 final size:30
Alignment explanation
Indices: 112715891--112715948 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
112715881 CACGGCCATG
*
112715891 ACACACGGGCATGCGGTCTACTCGTGTGTC
1 ACACACGGGCATGCGGTCTACCCGTGTGTC
* *
112715921 ACACACGGGCGTGTGGATC-ACCCGTGTG
1 ACACACGGGCATGCGG-TCTACCCGTGTG
112715949 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGCGGTCTACCCGTGTGTC
Found at i:112717638 original size:43 final size:43
Alignment explanation
Indices: 112717530--112717646 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
112717520 TGTGTGCTAG
* ** *
112717530 TATAATTGCTTCAGCTTGTTTGATGATGCACAATATGTCGCAA
1 TATAATTGCTTCAGCTTATCCGATGATGCACAAGATGTCGCAA
* *
112717573 TATAATTGCTTCAGCTTGTCCGATGATGCACAAGATGTCTCAA
1 TATAATTGCTTCAGCTTATCCGATGATGCACAAGATGTCGCAA
* * *
112717616 TATAATTGCTTTAGTTTATCCGATTATGCAC
1 TATAATTGCTTCAGCTTATCCGATGATGCAC
112717647 CGCAGTGCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (43 bp):
TATAATTGCTTCAGCTTATCCGATGATGCACAAGATGTCGCAA
Found at i:112719197 original size:28 final size:28
Alignment explanation
Indices: 112719151--112719219 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
112719141 TTTAAAACCC
*
112719151 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
112719178 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
112719206 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
112719220 TGATCACGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:112720869 original size:20 final size:20
Alignment explanation
Indices: 112720846--112720883 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
112720836 CACATCCAAA
*
112720846 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
112720866 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
112720884 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:112721286 original size:22 final size:23
Alignment explanation
Indices: 112721244--112721286 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
112721234 ACTTGGTTAG
112721244 TTAAATATAGCTTGTAAATGGAT
1 TTAAATATAGCTTGTAAATGGAT
* *
112721267 TTAAATGTAGTTTG-AAATGG
1 TTAAATATAGCTTGTAAATGG
112721287 TATGAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (23 bp):
TTAAATATAGCTTGTAAATGGAT
Found at i:112723688 original size:20 final size:20
Alignment explanation
Indices: 112723665--112723706 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
112723655 TTTGGATTTT
112723665 TTTTAAACTCTTTTATTGAA
1 TTTTAAACTCTTTTATTGAA
112723685 TTTTAAACTCTTTTATTGAA
1 TTTTAAACTCTTTTATTGAA
112723705 TT
1 TT
112723707 GTTTTTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTAAACTCTTTTATTGAA
Found at i:112730972 original size:10 final size:10
Alignment explanation
Indices: 112730959--112731016 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
112730949 AATTTAGGAT
* *
112730959 TTATTTTTAT
1 TTATCTTTAA
112730969 TTATCTTTAA
1 TTATCTTTAA
*
112730979 TTATCATTAA
1 TTATCTTTAA
112730989 TTATCTTTAA
1 TTATCTTTAA
*
112730999 TTAT-TTGTAT
1 TTATCTT-TAA
112731009 TTATCTTT
1 TTATCTTT
112731017 TAGAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:112731012 original size:20 final size:19
Alignment explanation
Indices: 112730963--112731016 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
112730953 TAGGATTTAT
112730963 TTTTATTTATCTTTAATTA
1 TTTTATTTATCTTTAATTA
* *
112730982 TCATTAATTATCTTTAATTA
1 T-TTTATTTATCTTTAATTA
112731002 TTTGTATTTATCTTT
1 TTT-TATTTATCTTT
112731017 TAGAATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATTTATCTTTAATTA
Found at i:112734648 original size:15 final size:14
Alignment explanation
Indices: 112734628--112734718 Score: 68
Period size: 15 Copynumber: 6.5 Consensus size: 14
112734618 ACTTTTCTTA
112734628 ATTTTTATTA-TTT
1 ATTTTTATTATTTT
*
112734641 ATTATT-TTATTTT
1 ATTTTTATTATTTT
112734654 A-TTTTATT-TTATT
1 ATTTTTATTATT-TT
112734667 AGTGTTTT-TTATTTT
1 A-T-TTTTATTATTTT
112734682 A-TTTTACTTTATTTT
1 ATTTTTA--TTATTTT
*
112734697 ATTATTCATTATTTT
1 ATT-TTTATTATTTT
112734712 ATTTTTA
1 ATTTTTA
112734719 GATATTAATA
Statistics
Matches: 62, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
12 12 0.19
13 14 0.23
14 3 0.05
15 23 0.37
16 7 0.11
17 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (14 bp):
ATTTTTATTATTTT
Found at i:112734652 original size:5 final size:5
Alignment explanation
Indices: 112734642--112734716 Score: 73
Period size: 5 Copynumber: 14.4 Consensus size: 5
112734632 TTATTATTTA
* *
112734642 TTATT TTATT TTATT TTATT TTATT AGTGTTTT TTATT TTATT TTACT
1 TTATT TTATT TTATT TTATT TTATT --T-TATT TTATT TTATT TTATT
112734690 TTATT TTA-- TTATT CATTATT TTATT TT
1 TTATT TTATT TTATT --TTATT TTATT TT
112734717 TAGATATTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
3 3 0.05
5 46 0.78
6 1 0.02
7 6 0.10
8 3 0.05
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:112736377 original size:14 final size:14
Alignment explanation
Indices: 112736340--112736377 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
112736330 ATTTAATGTT
112736340 TAATTATATT-AGGA
1 TAATTAT-TTAAGGA
112736354 TAATTA-TTAAGGA
1 TAATTATTTAAGGA
112736367 TAATTATTTAA
1 TAATTATTTAA
112736378 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 10 0.45
14 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (14 bp):
TAATTATTTAAGGA
Found at i:112736406 original size:10 final size:10
Alignment explanation
Indices: 112736391--112736442 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
112736381 TAAATTTAGG
112736391 ATTTATTTTT
1 ATTTATTTTT
*
112736401 ATTTATCTTT
1 ATTTATTTTT
* *
112736411 AATTATCTTT
1 ATTTATTTTT
*
112736421 ATTTATTTGT
1 ATTTATTTTT
112736431 ATTTATCTTTT
1 ATTTAT-TTTT
112736442 A
1 A
112736443 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:112744290 original size:9 final size:9
Alignment explanation
Indices: 112744278--112744401 Score: 73
Period size: 9 Copynumber: 13.7 Consensus size: 9
112744268 TTTGATTACA
112744278 TAAAAATAT
1 TAAAAATAT
112744287 TAAAAATAT
1 TAAAAATAT
112744296 TAAAAATAT
1 TAAAAATAT
*
112744305 ATTAAAATAT
1 -TAAAAATAT
112744315 T-AAAA-A-
1 TAAAAATAT
*
112744321 TACAAATAT
1 TAAAAATAT
112744330 TAAAAAT-T
1 TAAAAATAT
112744338 ATAAAAA-AT
1 -TAAAAATAT
*
112744347 GT-AAAATCT
1 -TAAAAATAT
*
112744356 CATAAAATAT
1 TA-AAAATAT
*
112744366 TAAATA-AT
1 TAAAAATAT
*
112744374 TACAAAACTTT
1 TA-AAAA-TAT
112744385 GTAAAAATAT
1 -TAAAAATAT
112744395 TATAAAA
1 TA-AAAA
112744402 ACATGGAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
6 1 0.01
7 4 0.04
8 14 0.16
9 42 0.47
10 21 0.24
11 5 0.06
12 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATAT
Done.