Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold194
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: 2893263
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 119126 characters in sequence are not A, C, G, or T
File 9 of 9
Found at i:2579784 original size:18 final size:18
Alignment explanation
Indices: 2579761--2579797 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2579751 ACAGGTTAGA
2579761 ATGCCTTCGTTTTGATGG
1 ATGCCTTCGTTTTGATGG
2579779 ATGCCTTCGTTTTGATGG
1 ATGCCTTCGTTTTGATGG
2579797 A
1 A
2579798 GCTGACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (18 bp):
ATGCCTTCGTTTTGATGG
Found at i:2592467 original size:23 final size:24
Alignment explanation
Indices: 2592439--2592487 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
2592429 GAAATGGGTT
* *
2592439 TTAAGG-AGATGAAATGTGAAGAG
1 TTAAGGAAGATGAAAGGTGAAAAG
*
2592462 TTAAGGAATATGAAAGGTGAAAAG
1 TTAAGGAAGATGAAAGGTGAAAAG
2592486 TT
1 TT
2592488 GATTATAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (24 bp):
TTAAGGAAGATGAAAGGTGAAAAG
Found at i:2592798 original size:27 final size:27
Alignment explanation
Indices: 2592768--2592819 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2592758 TTATTTTCAA
*
2592768 ATTTTTAAAAAACAT-AAAATGAAAACC
1 ATTTTT-AAAAACATGAAAATAAAAACC
*
2592795 ATTTTTTAAAACATGAAAATAAAAA
1 ATTTTTAAAAACATGAAAATAAAAA
2592820 GTTCTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.29
Consensus pattern (27 bp):
ATTTTTAAAAACATGAAAATAAAAACC
Found at i:2592859 original size:24 final size:25
Alignment explanation
Indices: 2592826--2592872 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
2592816 AAAAGTTCTT
*
2592826 TTTTTCTTTT-TATTTTAAAAATAA
1 TTTTTATTTTCTATTTTAAAAATAA
2592850 TTTTTATTTTCTATTTTAAAAAT
1 TTTTTATTTTCTATTTTAAAAAT
2592873 TAAAAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATTTTCTATTTTAAAAATAA
Found at i:2599715 original size:31 final size:31
Alignment explanation
Indices: 2599651--2599728 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
2599641 GTTACCACAA
* * * ** *
2599651 TAGTTAATACATCCCAATTAAATTATTACAT
1 TAGTTAATATATCACAATTAAATAAAAAAAT
2599682 TAGTTAATATATCACAATTAAATAAAAAAAT
1 TAGTTAATATATCACAATTAAATAAAAAAAT
*
2599713 TAGTCAATATAT-ACAA
1 TAGTTAATATATCACAA
2599729 ATTTTATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 4 0.10
31 36 0.90
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (31 bp):
TAGTTAATATATCACAATTAAATAAAAAAAT
Found at i:2605997 original size:26 final size:26
Alignment explanation
Indices: 2605967--2606023 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
2605957 TCTCATCTAT
*
2605967 ATTTTACCCCTAATAAAA-TTTTGACG
1 ATTTTACCCC-AATAAAATTTTTGACA
*
2605993 ATTTTACCCCAGTAAAATTTTTGACA
1 ATTTTACCCCAATAAAATTTTTGACA
2606019 ATTTT
1 ATTTT
2606024 TAACGAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCAATAAAATTTTTGACA
Found at i:2619081 original size:21 final size:21
Alignment explanation
Indices: 2619056--2619095 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2619046 TTTAAAATTG
*
2619056 AAATTAAAAATAGAAAATATT
1 AAATTAAAAATAAAAAATATT
*
2619077 AAATTTAAAATAAAAAATA
1 AAATTAAAAATAAAAAATA
2619096 GCTAAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
AAATTAAAAATAAAAAATATT
Found at i:2620422 original size:14 final size:14
Alignment explanation
Indices: 2620403--2620432 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2620393 ATTGAGAGAG
*
2620403 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
2620417 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
2620431 GA
1 GA
2620433 ATGAGGGATG
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:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:2621196 original size:19 final size:19
Alignment explanation
Indices: 2621172--2621214 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
2621162 CACCCCCAAA
* *
2621172 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAATT
2621191 ATTTT-ATAAAAATTAATT
1 ATTTTAATAAAAATTAATT
2621209 ATTTTA
1 ATTTTA
2621215 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAAATTAATT
Found at i:2621326 original size:19 final size:19
Alignment explanation
Indices: 2621302--2621344 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
2621292 CACCCCCAAA
* *
2621302 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAATT
2621321 ATTTT-ATAAAAATTAATT
1 ATTTTAATAAAAATTAATT
2621339 ATTTTA
1 ATTTTA
2621345 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAAATTAATT
Found at i:2621456 original size:19 final size:19
Alignment explanation
Indices: 2621432--2621474 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
2621422 CACCCCCAAA
* *
2621432 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAATT
2621451 ATTTT-ATAAAAATTAATT
1 ATTTTAATAAAAATTAATT
2621469 ATTTTA
1 ATTTTA
2621475 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAAATTAATT
Found at i:2621507 original size:130 final size:130
Alignment explanation
Indices: 2621038--2621492 Score: 894
Period size: 130 Copynumber: 3.5 Consensus size: 130
2621028 TTAACATGTT
*
2621038 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTCATGACAAAAATTCTATCGA
1 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATTCTATCGA
2621103 AAATGCATGATTTTAAGTAAAATTAGGTATGAAAAAGTATATAAATCTTTGTGTTTCCACACCCC
66 AAATGCATGATTTTAAGTAAAATTAGGTATGAAAAAGTATATAAATCTTTGTGTTTCCACACCCC
2621168 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATTCTATCGA
1 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATTCTATCGA
2621233 AAATGCATGATTTTAAGTAAAATTAGGTATGAAAAAGTATATAAATCTTTGTGTTTCCACACCCC
66 AAATGCATGATTTTAAGTAAAATTAGGTATGAAAAAGTATATAAATCTTTGTGTTTCCACACCCC
2621298 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATTCTATCGA
1 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATTCTATCGA
2621363 AAATGCATGATTTTAAGTAAAATTAGGTATGAAAAAGTATATAAATCTTTGTGTTTCCACACCCC
66 AAATGCATGATTTTAAGTAAAATTAGGTATGAAAAAGTATATAAATCTTTGTGTTTCCACACCCC
2621428 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATT-TATCGA
1 CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATTCTATCGA
2621492 A
66 A
2621493 CCTTCAGAAT
Statistics
Matches: 324, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
129 7 0.02
130 317 0.98
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (130 bp):
CAAAATTTTAATACAATTTAATTATTTTATAAAAATTAATTATTTTATGACAAAAATTCTATCGA
AAATGCATGATTTTAAGTAAAATTAGGTATGAAAAAGTATATAAATCTTTGTGTTTCCACACCCC
Found at i:2638441 original size:20 final size:20
Alignment explanation
Indices: 2638416--2638455 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2638406 CCGGAAAATG
*
2638416 ATTTCTGGGAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
2638436 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
2638456 TGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:2638652 original size:18 final size:18
Alignment explanation
Indices: 2638629--2638664 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2638619 AATTTATTTA
2638629 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
2638647 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
2638665 GGTTTAATTG
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:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:2653144 original size:14 final size:14
Alignment explanation
Indices: 2653125--2653153 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2653115 ATATCATTTG
2653125 CAATTTCCATAATT
1 CAATTTCCATAATT
2653139 CAATTTCCATAATT
1 CAATTTCCATAATT
2653153 C
1 C
2653154 GTTTAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (14 bp):
CAATTTCCATAATT
Found at i:2654658 original size:45 final size:45
Alignment explanation
Indices: 2654594--2654687 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
2654584 AACAGATACT
* *
2654594 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
2654639 CGGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
2654684 CGGT
1 CGGT
2654688 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:2654799 original size:51 final size:51
Alignment explanation
Indices: 2654689--2654828 Score: 165
Period size: 51 Copynumber: 2.7 Consensus size: 51
2654679 ATGTTCGGTT
* ** *
2654689 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCATCCAATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAGAAACATCCAATA
* * **
2654740 CACGTAGTAGCCTGCACATAGTACTACACACGTGA-TAGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAGAAAC-ATCCAATA
** *
2654791 TGCATAGTAGCTTGCACATAGTACTACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
2654829 TCACTTTCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
50 3 0.04
51 70 0.95
52 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAGAAACATCCAATA
Found at i:2661918 original size:12 final size:12
Alignment explanation
Indices: 2661901--2661925 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2661891 ATTTTATAAC
2661901 ATAAATATTGTT
1 ATAAATATTGTT
2661913 ATAAATATTGTT
1 ATAAATATTGTT
2661925 A
1 A
2661926 ATAACCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:2662302 original size:14 final size:14
Alignment explanation
Indices: 2662285--2662329 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2662275 AGATTGAAAC
*
2662285 TAATTTATCTTAAT
1 TAATTTAACTTAAT
2662299 TAATTTAACTTAA-
1 TAATTTAACTTAAT
*
2662312 -AACTTAA-TTAAT
1 TAATTTAACTTAAT
2662324 TAATTT
1 TAATTT
2662330 TTAATCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
11 4 0.15
12 6 0.23
13 4 0.15
14 12 0.46
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTTAACTTAAT
Found at i:2663427 original size:15 final size:15
Alignment explanation
Indices: 2663407--2663440 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2663397 TTCGTGACTA
2663407 AATAATATTGTAATT
1 AATAATATTGTAATT
2663422 AATAATATTGTAATT
1 AATAATATTGTAATT
2663437 AATA
1 AATA
2663441 GGTGAGAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
AATAATATTGTAATT
Found at i:2671975 original size:3 final size:3
Alignment explanation
Indices: 2671967--2672003 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2671957 CTTATTTCCA
2671967 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2672004 TTATAATAAT
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:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:2675931 original size:33 final size:33
Alignment explanation
Indices: 2675887--2675950 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2675877 TTGTATAATG
*
2675887 CATATATATTAAGCATTAAATAAAAATAAAATA
1 CATATACATTAAGCATTAAATAAAAATAAAATA
* * *
2675920 CATATACATTAAGTATTAAATTAAATTAAAA
1 CATATACATTAAGCATTAAATAAAAATAAAA
2675951 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (33 bp):
CATATACATTAAGCATTAAATAAAAATAAAATA
Found at i:2683075 original size:21 final size:21
Alignment explanation
Indices: 2683049--2683090 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2683039 ATAATTGCTT
2683049 TAGTACATGATTTTATGTTTA
1 TAGTACATGATTTTATGTTTA
2683070 TAGTACATGATTTTATGTTTA
1 TAGTACATGATTTTATGTTTA
2683091 ATTTGATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (21 bp):
TAGTACATGATTTTATGTTTA
Found at i:2686051 original size:16 final size:17
Alignment explanation
Indices: 2686027--2686062 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2686017 GTATAATAGA
*
2686027 AATGTCAATT-ATTTTC
1 AATGCCAATTCATTTTC
2686043 AATGCCAATTCATTTTC
1 AATGCCAATTCATTTTC
2686060 AAT
1 AAT
2686063 TCATGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (17 bp):
AATGCCAATTCATTTTC
Found at i:2688630 original size:21 final size:21
Alignment explanation
Indices: 2688606--2688645 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2688596 TTAAACATGA
2688606 CATTAATTA-CATCATTATCGT
1 CATT-ATTATCATCATTATCGT
*
2688627 CATTATTATTATCATTATC
1 CATTATTATCATCATTATC
2688646 AATTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (21 bp):
CATTATTATCATCATTATCGT
Found at i:2688761 original size:21 final size:19
Alignment explanation
Indices: 2688737--2688781 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
2688727 GTGATTTCAA
*
2688737 ATTTTTATCTATGTTTTATTT
1 ATTTTTATCTA-GTTAT-TTT
*
2688758 ATTTTTATGTAGTTATTTT
1 ATTTTTATCTAGTTATTTT
2688777 ATTTT
1 ATTTT
2688782 ATTATAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (19 bp):
ATTTTTATCTAGTTATTTT
Found at i:2693519 original size:84 final size:85
Alignment explanation
Indices: 2693377--2693545 Score: 322
Period size: 84 Copynumber: 2.0 Consensus size: 85
2693367 GAGGCGAGAA
*
2693377 TGCTTTTCATAAACACTTTGAAAGCCCCGTTCATTAACCATATGCTAGGTGCTACCAAGAGCTTC
1 TGCTTTTCATAAAAACTTTGAAAGCCCCGTTCATTAACCATATGCTAGGTGCTACCAAGAGCTTC
2693442 TCAGATATAGTAATGTCTGG
66 TCAGATATAGTAATGTCTGG
2693462 TGCTTTTCATAAAAAC-TTGAAAGCCCCGTTCATTAACCATATGCTAGGTGCTACCAAGAGCTTC
1 TGCTTTTCATAAAAACTTTGAAAGCCCCGTTCATTAACCATATGCTAGGTGCTACCAAGAGCTTC
2693526 TCAGATATAGTAATGTCTGG
66 TCAGATATAGTAATGTCTGG
2693546 AGACATGATT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 68 0.82
85 15 0.18
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (85 bp):
TGCTTTTCATAAAAACTTTGAAAGCCCCGTTCATTAACCATATGCTAGGTGCTACCAAGAGCTTC
TCAGATATAGTAATGTCTGG
Found at i:2700584 original size:44 final size:44
Alignment explanation
Indices: 2700514--2701222 Score: 297
Period size: 44 Copynumber: 15.6 Consensus size: 44
2700504 TGTCATAATG
* * *
2700514 AATCTTATATCTCTGAAGTTGTAGTGGAGCAAGATGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * *
2700558 AATCCTATATCCCTGAAGTTGCAGTGGATC-AGATTGAAGCAATA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACA
* * *** *
2700602 ATTTCC-ATA-CCCTTGAAGTTACAGTGG-GTTGGAATGAAACTACGGTGGCA
1 A-ATCCTATATCCC-TGAAGTTGCAGTGGAGCAAG-ATGAAGCTA------CA
* ** * *
2700652 AATCTTATCCCCCTGAAGTTGCAGTGGAGTAAGATGAAGCTGCA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
** * * * * * * *
2700696 AATTTTATCTCTCTAAAGTTACAGTAGAGCAAAATGAAGCTTCA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
*
2700740 AATCCTATATCCCTGAAGTTGCAGTGGATC-AGATTGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACA
** * ***
2700784 GTTTCTATA-CCCTTGAAGTTGCAGTGG-GTTGGAATGAA-CTATGATGGCA
1 AATCCTATATCCC-TGAAGTTGCAGTGGAGCAAG-ATGAAGC--T-A---CA
* * * * * * *
2700833 AATCTTATCTCCCTAAAGTTACAGTGGGGAAAGATGAAG-TGACG
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCT-ACA
* * *
2700877 AATCCTATATCCATGAAGTTGCAGTGGATC-GGATTGAAGCTAC-
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACA
* *** *
2700920 AATCTCTATA-CCCTTGAAGTTGTAGTGG-GTTGGAATGAAACTACTA
1 AATC-CTATATCCC-TGAAGTTGCAGTGGAGCAAG-ATGAAGCTAC-A
* * * *
2700966 TTGCGAATCTTATCTCTCTGAAGTTGTAGTGGAGC-AGATTGAAGCTACA
1 -----AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACA
* * *
2701015 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACA
* ** * *
2701059 AATCCTATA-CCCATAAAGTTGCAGTAAATCAA-ATTGAATCTACCATA
1 AATCCTATATCCC-TGAAGTTGCAGTGGAGCAAGA-TGAAGCTA-C--A
* * *
2701106 GCGAATCTTATCTCCTTGAAGTTGCAGTGGA--ATAGATTGAAGCTACA
1 ---AATCCTATATCCCTGAAGTTGCAGTGGAGCA-AGA-TGAAGCTACA
* *
2701153 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
*
2701197 ATTCCTATA-CCCTTGAAGTTGCAGTG
1 AATCCTATATCCC-TGAAGTTGCAGTG
2701223 AGTTGGAATG
Statistics
Matches: 508, Mismatches: 100, Indels: 114
0.70 0.14 0.16
Matches are distributed among these distances:
43 26 0.05
44 334 0.66
45 13 0.03
46 2 0.00
47 5 0.01
48 1 0.00
49 29 0.06
50 83 0.16
51 15 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCCTATATCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
Found at i:2700654 original size:94 final size:91
Alignment explanation
Indices: 2700556--2700859 Score: 266
Period size: 94 Copynumber: 3.3 Consensus size: 91
2700546 GATGAAGCTA
*
2700556 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTGAAGCAATAATTTCCATACCCTTGAAGT
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTGAAGCAA-AATTTCTATACCCTTGAAGT
2700621 TACAGTGGGTTGGAATGAAACTACGGTGG
65 TACAGTGGGTTGGAATGAAACTA--GTGG
* ** * * * *
2700650 CAAATCTTATCCCCCTGAAGTTGCAGTGGAGTAAGA-TGAAGCTGCAAATTT-TAT-CTCTCTAA
1 CAAATCCTATATCCCTGAAGTTGCAGTGGA-TCAGATTGAAGC--AAAATTTCTATACCCT-TGA
* *** *
2700712 AGTTACAGTAGAG-CAAAATGAAGCT--T--
62 AGTTACAGT-GGGTTGGAATGAAACTAGTGG
* *
2700738 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTGAAGCTACAGTTTCTATACCCTTGAAGT
1 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTGAAGC-AAAATTTCTATACCCTTGAAGT
*
2700803 TGCAGTGGGTTGGAATG-AACTATGATGG
65 TACAGTGGGTTGGAATGAAACTA-G-TGG
* * * *
2700831 CAAATCTTATCTCCCTAAAGTTACAGTGG
1 CAAATCCTATATCCCTGAAGTTGCAGTGG
2700860 GGAAAGATGA
Statistics
Matches: 162, Mismatches: 33, Indels: 31
0.72 0.15 0.14
Matches are distributed among these distances:
87 13 0.08
88 50 0.31
89 3 0.02
90 1 0.01
91 1 0.01
93 28 0.17
94 54 0.33
95 11 0.07
96 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (91 bp):
CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTGAAGCAAAATTTCTATACCCTTGAAGTT
ACAGTGGGTTGGAATGAAACTAGTGG
Found at i:2701051 original size:138 final size:138
Alignment explanation
Indices: 2700700--2701239 Score: 558
Period size: 138 Copynumber: 3.9 Consensus size: 138
2700690 GCTGCAAATT
* * * * * * * *
2700700 TTATCTCTCTAAAGTTACAGTAGAGCAAAATGAAGCTTCAAATCCTATATCCCTGAAGTTGCAGT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
* * * *
2700765 GGATCAGATTGAAGCTACAGTTTCTATACCCTTGAAGTTGCAGTGGGTTGGAATG-AACTA-TGA
66 GGAGCAAATTGAAGCTACAATCTCTATACCCTTGAAGTTGCAGTGGGTTGGAATGAAACTACT-A
* *
2700828 TGGCAAATC
130 TTGCGAATC
* * * * * * * * *
2700837 TTATCTCCCTAAAGTTACAGTGGGGAAAGA-TGAAG-TGACGAATCCTATATCCATGAAGTTGCA
1 TTATCTCTCTGAAGTTGCAGTGGAG-CAGATTGAAGCT-ACAAATCTTATCTCCCTGAAGTTGCA
* ** *
2700900 GTGGATCGGATTGAAGCTACAATCTCTATACCCTTGAAGTTGTAGTGGGTTGGAATGAAACTACT
64 GTGGAGCAAATTGAAGCTACAATCTCTATACCCTTGAAGTTGCAGTGGGTTGGAATGAAACTACT
2700965 ATTGCGAATC
129 ATTGCGAATC
* *
2700975 TTATCTCTCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAGATCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
* * *** ** * *
2701040 GGAGCAAATTGAAGCTACAAATC-CTATACCCATAAAGTTGCAGT-AAATCAAATTGAATCTACC
66 GGAGCAAATTGAAGCTAC-AATCTCTATACCCTTGAAGTTGCAGTGGGTTGGAA-TGAAACTACT
*
2701103 ATAGCGAATC
129 ATTGCGAATC
**
2701113 TTATCTC-CTTGAAGTTGCAGTGGAATAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAG
* *
2701177 TGGAGCAAGA-TGAAGCTACAAT-TCCTATACCCTTGAAGTTGCAGTGAGTTGGAATGAAGCTAC
65 TGGAGCAA-ATTGAAGCTACAATCT-CTATACCCTTGAAGTTGCAGTGGGTTGGAATGAAACTAC
2701240 AACTACAACT
Statistics
Matches: 340, Mismatches: 50, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
136 1 0.00
137 113 0.33
138 215 0.63
139 11 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (138 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
GGAGCAAATTGAAGCTACAATCTCTATACCCTTGAAGTTGCAGTGGGTTGGAATGAAACTACTAT
TGCGAATC
Found at i:2701261 original size:138 final size:137
Alignment explanation
Indices: 2700730--2701349 Score: 555
Period size: 138 Copynumber: 4.5 Consensus size: 137
2700720 TAGAGCAAAA
* * * * * *
2700730 TGAAGCTTCAAATCCTATATCCCTGAAGTTGCAGTGGATC-AGATTGAAGCTACAGTTTCTATAC
1 TGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAGCTACAATTCCTATAC
* ** * * * * *
2700794 CCTTGAAGTTGCAGTGGGTTGGAATGAACTATGATGGCAAATCTTATCTCCCTAAAGTTACAGTG
66 CCTTGAAGTTGCAGTGAGTTGGAATGAACTACAAT-ACGAATCTTATCTCCTTGAAGTTGCAGT-
2700859 GGGAA-AGA-
129 -GGAATAGAT
* * * * * *
2700867 TGAAG-TGACGAATCCTATATCCATGAAGTTGCAGTGGATC-GGATTGAAGCTACAA-TCTCTAT
1 TGAAGCT-ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAGCTACAATTC-CTAT
* * * * *
2700929 ACCCTTGAAGTTGTAGTGGGTTGGAATGAAACTACTATTGCGAATCTTATCT-CTCTGAAGTTGT
64 ACCCTTGAAGTTGCAGTGAGTTGGAATG-AACTAC-AATACGAATCTTATCTCCT-TGAAGTTGC
**
2700993 AGTGGAGCAGAT
126 AGTGGAATAGAT
* *
2701005 TGAAGCTACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTGAAGCTACAAATCCTATAC
1 TGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAGCTACAATTCCTATAC
* * ** ** *
2701069 CCATAAAGTTGCAGT-AAATCAAATTGAATCTACCATAGCGAATCTTATCTCCTTGAAGTTGCAG
66 CCTTGAAGTTGCAGTGAGTTGGAA-TGAA-CTACAATA-CGAATCTTATCTCCTTGAAGTTGCAG
2701133 TGGAATAGAT
128 TGGAATAGAT
2701143 TGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACAATTCCTATAC
1 TGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAGCTACAATTCCTATAC
* *
2701207 CCTTGAAGTTGCAGTGAGTTGGAATGAAGCTACAACTAC-AACTCATATAC-CCTTGAAGTTGTA
66 CCTTGAAGTTGCAGTGAGTTGGAATGAA-CTACAA-TACGAA-TCTTAT-CTCCTTGAAGTTGCA
** *
2701270 GTGGGTTGGAT
127 GTGGAATAGAT
** * *
2701281 TGAATTTATTATACCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGA-TGAAGCTACAACTC
1 TG-A---A-GCTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAGCTACAATTC
2701345 CTATA
60 CTATA
2701350 TATCTGAAGT
Statistics
Matches: 402, Mismatches: 56, Indels: 43
0.80 0.11 0.09
Matches are distributed among these distances:
136 5 0.01
137 91 0.23
138 235 0.58
139 15 0.04
142 1 0.00
143 2 0.00
144 53 0.13
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (137 bp):
TGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTGAAGCTACAATTCCTATAC
CCTTGAAGTTGCAGTGAGTTGGAATGAACTACAATACGAATCTTATCTCCTTGAAGTTGCAGTGG
AATAGAT
Found at i:2701359 original size:188 final size:189
Alignment explanation
Indices: 2701109--2701456 Score: 429
Period size: 188 Copynumber: 1.8 Consensus size: 189
2701099 TACCATAGCG
* * * * *
2701109 AATCTTATCTCCTTGAAGTTGCAGTGGAATAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTACAAATCCTATATACCTGAAGTTG
* * **
2701174 CAGTGGAGCAAGA-TGAAGCTACAATTCCTATA-CCCTTGAA-GTTGCAGTGAGTTGGAATGAAG
66 CAGTGGA-CAAGATTGAAACTACAATTCCTATACCCCCT-AAGGTTGCAGTGAGTTACAATGAAG
* *
2701236 CTACAACTACAACTCATAT-ACCCTTGAAGTTGTAGTGGGTTGGATTGAATTTATTATACCA
129 CTACAACAACAAATCATATCA-CCTTGAAGTTGTAGTGGGTTGGATTGAATTTATTATACCA
* *
2701297 AATCTTATCTCCCTAAAGTTGCAGTGGAGCA-AGA-TGAAGCTACAACTCCTATATATCTGAAGT
1 AATCTTATCTCCCTAAAGTTGCAGTGGA--ATAGATTGAAGCTACAAATCCTATATACCTGAAGT
* *** * *
2701360 TGTAGTGGATTGGATTGAAACTACAATTCCTATACCCCCTAAGGTTGTAGTGGGTTACAATGAAG
64 TGCAGTGGACAAGATTGAAACTACAATTCCTATACCCCCTAAGGTTGCAGTGAGTTACAATGAAG
*
2701425 CTACAACAACAAATCTTATCACCTTGAAGTTG
129 CTACAACAACAAATCATATCACCTTGAAGTTG
2701457 CAATGGAGCA
Statistics
Matches: 134, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
187 2 0.01
188 78 0.58
189 52 0.39
190 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (189 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTACAAATCCTATATACCTGAAGTTG
CAGTGGACAAGATTGAAACTACAATTCCTATACCCCCTAAGGTTGCAGTGAGTTACAATGAAGCT
ACAACAACAAATCATATCACCTTGAAGTTGTAGTGGGTTGGATTGAATTTATTATACCA
Found at i:2702535 original size:24 final size:25
Alignment explanation
Indices: 2702499--2702550 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
2702489 GACTTGAGAG
*
2702499 AAAAAAAGAATGAGA-AATTTTTTT
1 AAAAAAAGAATGAAATAATTTTTTT
* *
2702523 AAAAACAGGATGAAATAATTTTTTT
1 AAAAAAAGAATGAAATAATTTTTTT
2702548 AAA
1 AAA
2702551 TATTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.33
Consensus pattern (25 bp):
AAAAAAAGAATGAAATAATTTTTTT
Found at i:2717073 original size:20 final size:20
Alignment explanation
Indices: 2717035--2717073 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2717025 TTCCTATCGA
*
2717035 TCATCTGAGAATATGAACCC
1 TCATCTGAGAAGATGAACCC
2717055 TCATCTGAGGAAGAT-AACC
1 TCATCTGA-GAAGATGAACC
2717074 TAGGGGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
TCATCTGAGAAGATGAACCC
Found at i:2727998 original size:25 final size:25
Alignment explanation
Indices: 2727949--2727998 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2727939 ACTATAGCCT
**
2727949 TTTTATATATTTTGAATTATATATA
1 TTTTATATATTTAAAATTATATATA
2727974 TTTTATATAATTTAAAATTAT-TATA
1 TTTTATAT-ATTTAAAATTATATATA
2727999 ACATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTATATATTTAAAATTATATATA
Found at i:2733450 original size:21 final size:20
Alignment explanation
Indices: 2733399--2733467 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
2733389 ATTTTTGAGG
2733399 GAAAAACTTGTGA-TTTTATA
1 GAAAAACTTGT-ATTTTTATA
2733419 GAAAATTACTTGTATTTTTATA
1 GAAAA--ACTTGTATTTTTATA
* * *
2733441 GAGAAAACTTATTTTTTTACA
1 GA-AAAACTTGTATTTTTATA
2733462 GAAAAA
1 GAAAAA
2733468 ACCAGTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 9 0.21
21 15 0.36
22 15 0.36
23 3 0.07
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.41
Consensus pattern (20 bp):
GAAAAACTTGTATTTTTATA
Found at i:2733587 original size:23 final size:24
Alignment explanation
Indices: 2733547--2733592 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
2733537 ATATTTGGGG
**
2733547 TTTTACAATGAATTACCTAGGTTT
1 TTTTACAATGAAAAACCTAGGTTT
*
2733571 TTTTACAA-GAAAAACCTTGGTT
1 TTTTACAATGAAAAACCTAGGTT
2733593 ATTTGAACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (24 bp):
TTTTACAATGAAAAACCTAGGTTT
Found at i:2737167 original size:19 final size:19
Alignment explanation
Indices: 2737130--2737167 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2737120 TATTTTCCCT
*
2737130 TAAAAATAAATAAACAGAA
1 TAAAAATAAATAAAAAGAA
2737149 TAAAAATAAA-AGAAAAGAA
1 TAAAAATAAATA-AAAAGAA
2737168 ATCCTTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (19 bp):
TAAAAATAAATAAAAAGAA
Found at i:2738048 original size:43 final size:42
Alignment explanation
Indices: 2737998--2738190 Score: 137
Period size: 40 Copynumber: 4.5 Consensus size: 42
2737988 CTGCAACTTC
* *
2737998 AGGGAGATAGGATTAGTAGCTTCTGTCTGCTCCACTACTGCTT
1 AGGGAGATAAGATT-GTAGTTTCTGTCTGCTCCACTACTGCTT
* * * * *
2738041 AGGGAGATAAGATCTGTGGTTTTTATCCGATCCACTGTAACT--TT
1 AGGGAGATAAGAT-TGTAGTTTCTGTCTGCTCCAC--T-ACTGCTT
* * **
2738085 AGGGAGGTAGGATTGGTTTTTTTCTGTCTGCTCCACTACTGCTT
1 AGGGAGATAAGATT-G-TAGTTTCTGTCTGCTCCACTACTGCTT
*
2738129 AGGGAGATAAGACTTG-A--TGC-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGA-TTGTAGTTTCTG-TCTGCTCCACTACTGCTT
*
2738169 AGGGAGATAAGATCTGTGGTTT
1 AGGGAGATAAGAT-TGTAGTTT
2738191 TTATCCATTC
Statistics
Matches: 115, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
39 2 0.02
40 34 0.30
42 3 0.03
43 29 0.25
44 28 0.24
45 16 0.14
46 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
AGGGAGATAAGATTGTAGTTTCTGTCTGCTCCACTACTGCTT
Found at i:2738130 original size:88 final size:87
Alignment explanation
Indices: 2737973--2738140 Score: 246
Period size: 88 Copynumber: 1.9 Consensus size: 87
2737963 TGATTCATCA
*
2737973 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCTGTCTGCTCCACTACTG
1 TTTTAATCCGATCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCTGTCTGCTCCACTACTG
2738038 CTTAGGGAGATAAGATCTGTGG
66 CTTAGGGAGATAAGATCTGTGG
* * * * * ***
2738060 TTTTTATCCGATCCACTGTAACTTTAGGGAGGTAGGATTGGTTTTTTTCTGTCTGCTCCACTACT
1 TTTTAATCCGATCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCTGTCTGCTCCACTACT
2738125 GCTTAGGGAGATAAGA
65 GCTTAGGGAGATAAGA
2738141 CTTGATGCGA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 35 0.49
88 36 0.51
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (87 bp):
TTTTAATCCGATCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCTGTCTGCTCCACTACTG
CTTAGGGAGATAAGATCTGTGG
Found at i:2738131 original size:44 final size:44
Alignment explanation
Indices: 2738018--2738191 Score: 159
Period size: 44 Copynumber: 4.0 Consensus size: 44
2738008 GATTAGTAGC
2738018 TTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
1 TTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
* * * * * **
2738062 TT-TATCCGATCCACTGTAACT--TTAGGGAGGTAGGAT-TGGTTTTT
1 TTCTGTCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATCT-GTGGTT
*
2738106 TTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-G-A
1 TTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
*
2738146 TGC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
1 TTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
2738190 TT
1 TT
2738192 TATCCATTCC
Statistics
Matches: 100, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
39 1 0.01
40 32 0.32
41 2 0.02
42 5 0.05
43 12 0.12
44 35 0.35
45 10 0.10
46 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (44 bp):
TTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
Found at i:2738389 original size:100 final size:100
Alignment explanation
Indices: 2738248--2739102 Score: 1145
Period size: 100 Copynumber: 8.6 Consensus size: 100
2738238 TCAAATTGAC
* * * * * *
2738248 TGCAATGTCGAGGAA-CAAGATTCGCCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
* *
2738312 GTAAGATTCACTGTTGCAGCTTTAATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
* * *
2738347 TGCAAGGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCACCATGAAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
* * ** *
2738412 GTAAGATTCGCCATTGTGGCTTCCATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
*
2738447 TGCAATGTCGGGGAAGCAAGATTCGCCGTTTTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
* * *
2738512 GTAAGATTCGCCATTGCAGCCTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
* * * * * * *
2738547 TGCAATGTCGAGGAAGCAAGATTCACCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
* * *
2738612 GTAAGATTCACCGTTTCGGCTTTAATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
* * * * * *
2738647 TGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
* *
2738712 GTAAGATTCACTGTTGCAGCTTTAATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
* * *
2738747 TGCAAGGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCACCATGAAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
* * ** *
2738812 GTAAGATTCGCCATTGTGGCTTCCATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
* *
2738847 TGCAATGTCGGGGAAGCAAGATTCGCCGTTTTAGCTTTAATCTACTCCACTGCATCTCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
* *
2738912 GTAAGATTCACCGTTGCGGCCTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
* * * *
2738947 TGTAATGTCGAGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCCCCACTGCATCGCCATGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
***
2739012 GTAAGATTCGTTGTTGCAGCTTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
* * * **
2739047 TGTAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATC
2739103 ACAAGAGAGA
Statistics
Matches: 672, Mismatches: 83, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
99 13 0.02
100 659 0.98
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCGCCATGGAA
GTAAGATTCACCGTTGCAGCTTCAATCTTTTAAAT
Found at i:2738816 original size:300 final size:300
Alignment explanation
Indices: 2738248--2739104 Score: 1275
Period size: 300 Copynumber: 2.9 Consensus size: 300
2738238 TCAAATTGAC
2738248 TGCAATGTCGAGGAA-CAAGATTCGCCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGAGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
* * *
2738312 GTAAGATTCACTGTTGCAGCTTTAATCTTTTAAATTGCAAGGTCGGGGAAGCAAGATTCGCCGTT
66 GTAAGATTCACCGTTGCGGCTTTAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTT
* * ** ** *
2738377 GTAGCTTTAATCTACTCCACTGCATCACCATGAAAGTAAGATTCGCCATTGTGGCTTCCATCTTT
131 GTAGCTTTAATCTACTCCACTGCATCGCCATGGAAGTAAGATTCGCTGTTGCAGCTTCAATCTTT
* *
2738442 TAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTTTAGCTTTAATCTACTCCACTGCATCGCCA
196 TAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCACCA
*
2738507 TGGAAGTAAGATTCGCCATTGCAGCCTCAATCTTTTAAAT
261 TGAAAGTAAGATTCGCCATTGCAGCCTCAATCTTTTAAAT
*
2738547 TGCAATGTCGAGGAAGCAAGATTCACCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGAGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
* * *
2738612 GTAAGATTCACCGTTTCGGCTTTAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCATT
66 GTAAGATTCACCGTTGCGGCTTTAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTT
* * * * * *
2738677 GTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGCAGCTTTAATCTTT
131 GTAGCTTTAATCTACTCCACTGCATCGCCATGGAAGTAAGATTCGCTGTTGCAGCTTCAATCTTT
*
2738742 TAAATTGCAAGGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCACCA
196 TAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCACCA
** * *
2738807 TGAAAGTAAGATTCGCCATTGTGGCTTCCATCTTTTAAAT
261 TGAAAGTAAGATTCGCCATTGCAGCCTCAATCTTTTAAAT
* * * * * * * *
2738847 TGCAATGTCGGGGAAGCAAGATTCGCCGTTTTAGCTTTAATCTACTCCACTGCATCTCCATGGAA
1 TGCAATGTCGAGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
* * * *
2738912 GTAAGATTCACCGTTGCGGCCTCAATCTTTTAAATTGTAATGTCGAGGAAGCAAGATTCGCCGTT
66 GTAAGATTCACCGTTGCGGCTTTAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTT
* * *
2738977 GTAGCTTTAATCTGCCCCACTGCATCGCCATGGAAGTAAGATTCGTTGTTGCAGCTTCAATCTTT
131 GTAGCTTTAATCTACTCCACTGCATCGCCATGGAAGTAAGATTCGCTGTTGCAGCTTCAATCTTT
* * * **
2739042 TAAATTGTAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCAC
196 TAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCAC
2739105 AAGAGAGATA
Statistics
Matches: 498, Mismatches: 59, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
299 15 0.03
300 483 0.97
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (300 bp):
TGCAATGTCGAGGAAGCAAGATTCGCCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAA
GTAAGATTCACCGTTGCGGCTTTAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTT
GTAGCTTTAATCTACTCCACTGCATCGCCATGGAAGTAAGATTCGCTGTTGCAGCTTCAATCTTT
TAAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTACTCCACTGCATCACCA
TGAAAGTAAGATTCGCCATTGCAGCCTCAATCTTTTAAAT
Found at i:2739364 original size:133 final size:133
Alignment explanation
Indices: 2739164--2739680 Score: 851
Period size: 133 Copynumber: 3.9 Consensus size: 133
2739154 TAAGATATGT
* * *
2739164 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCATCTTCGATCCACTTCCTAC
1 TTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
* * *
2739229 CAATATAGGAAAACAAGACCTGCTATCTTCGATCTACTTCACTGCCAACATAGGAAGACAAGATC
66 CAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACTACCAACATAGGAAGACAAGATC
2739294 TAC
131 TAC
* * *
2739297 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATATGCATCTTCGATCCACTTCCTAC
1 TTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
* *
2739362 CAATATAAGAAGACAGGACCTGCTATCTTCGATCTACTTCACTGCCAACATAGGAAGACAAGATC
66 CAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACTACCAACATAGGAAGACAAGATC
2739427 TAC
131 TAC
*
2739430 TTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTAC
1 TTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
*
2739495 CAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACTACCAACACAGGAAGACAAGATC
66 CAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACTACCAACATAGGAAGACAAGATC
2739560 TAC
131 TAC
*
2739563 TTT-TTTGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
1 TTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
** * *
2739627 CAATATAGGAAGACAGGATTTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
66 CAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACTACCAACATAGGAA
2739681 TATAGGGCCT
Statistics
Matches: 366, Mismatches: 18, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
130 13 0.04
131 15 0.04
132 80 0.22
133 258 0.70
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (133 bp):
TTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
CAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACTACCAACATAGGAAGACAAGATC
TAC
Found at i:2739399 original size:88 final size:89
Alignment explanation
Indices: 2739166--2739737 Score: 568
Period size: 88 Copynumber: 6.5 Consensus size: 89
2739156 AGATATGTTT
* * * * *
2739166 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGC-ATCTTCGATCCACTTCCTACC
1 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACC
* *
2739230 AATATAGGAAAACAAGACCTGCTA
66 AATATAGGAAGACAAGATCTGCTA
* * * * * *
2739254 TCTTCGATCTACTTCACTGCCAACATAGGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCAC
1 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTAC
* * *
2739319 CAGTATGGGAAGACAAGATATGC-A
65 CAATATAGGAAGACAAGATCTGCTA
* * * * * *
2739343 TCTTCGATCCACTTC-CTACCAATATAAGAAGACAGGACCTGCTATCTTCGATCTACTTCACTGC
1 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTAC
* * *
2739407 CAACATAGGAAGACAAGATCTACTT
65 CAATATAGGAAGACAAGATCTGCTA
* * * *
2739432 TCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCACTTCCTACC
1 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACC
* *
2739496 AATATAGGAAGACAGGACCTGCTA
66 AATATAGGAAGACAAGATCTGCTA
* * * * * * * *
2739520 TCTTCGATCTACTTCACTACCAACACAGGAAGACAAGATCTACT-TTTTTGATCTACTCCGCCAC
1 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTAC
*
2739584 CAATATGGGAAGACAAGATCTGC-A
65 CAATATAGGAAGACAAGATCTGCTA
* * *
2739608 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATTTGC-ATCTTCGATCCACTTCCTACC
1 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACC
* * * **
2739671 AATATAGGAATATAGGGCCTGCTA
66 AATATAGGAAGACAAGATCTGCTA
* * * * * *
2739695 TCTTTGATCTATTTCAC-GCCAAAACATGAAGACAAGATCTGCT
1 TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCT
2739738 TTAATGACTT
Statistics
Matches: 386, Mismatches: 88, Indels: 20
0.78 0.18 0.04
Matches are distributed among these distances:
86 20 0.05
87 65 0.17
88 177 0.46
89 82 0.21
90 42 0.11
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (89 bp):
TCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACC
AATATAGGAAGACAAGATCTGCTA
Found at i:2739941 original size:15 final size:15
Alignment explanation
Indices: 2739901--2739941 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
2739891 TAACTAGATG
2739901 TGTATGAATGATATT
1 TGTATGAATGATATT
*
2739916 TGCATTGAATGATATT
1 TGTA-TGAATGATATT
2739932 TGTATGAATG
1 TGTATGAATG
2739942 CAAAATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (15 bp):
TGTATGAATGATATT
Found at i:2741189 original size:9 final size:8
Alignment explanation
Indices: 2741140--2741199 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
2741130 CCCAGTAGAG
2741140 GTTTTTTT
1 GTTTTTTT
*
2741148 ATTTTTTT
1 GTTTTTTT
*
2741156 GTCTCTTTT
1 GT-TTTTTT
2741165 GTTCTTTTT
1 GTT-TTTTT
2741174 -TTGTTTTT
1 GTT-TTTTT
*
2741182 GTGTTTTTG
1 GT-TTTTTT
2741191 GTTTTTTT
1 GTTTTTTT
2741199 G
1 G
2741200 CCTCCACTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
8 22 0.54
9 18 0.44
10 1 0.02
ACGTcount: A:0.02, C:0.05, G:0.15, T:0.78
Consensus pattern (8 bp):
GTTTTTTT
Found at i:2742591 original size:62 final size:62
Alignment explanation
Indices: 2742489--2742609 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
2742479 CTAAACTCGA
2742489 CGTACTTTTGGATTTTAGGAAATTTACTGTATGCAATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTACTGTATGCAATGAAATGTAATGTTGATGCATGAATG
* *
2742551 CGTATTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGA
1 CGTACTTTTGGATTTTAGGAAATTTACTGTATGCAATGAAATGTAATGTTGATGCATGA
2742610 GTGCAAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTACTGTATGCAATGAAATGTAATGTTGATGCATGAATG
Found at i:2752442 original size:16 final size:16
Alignment explanation
Indices: 2752397--2752445 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
2752387 AAAATTCAAT
2752397 TATTAAATAATTTATTA
1 TATT-AATAATTTATTA
**
2752414 -A--AATAATAAATTA
1 TATTAATAATTTATTA
2752427 TATTAATAATTTATTA
1 TATTAATAATTTATTA
2752443 TAT
1 TAT
2752446 GACTAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
16 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAATAATTTATTA
Found at i:2758165 original size:15 final size:17
Alignment explanation
Indices: 2758132--2758168 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2758122 GGTTAAATGT
*
2758132 TATACATGTGTATATTA
1 TATATATGTGTATATTA
2758149 TATATATGT-TATA-TA
1 TATATATGTGTATATTA
2758164 TATAT
1 TATAT
2758169 TAAGTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (17 bp):
TATATATGTGTATATTA
Found at i:2759253 original size:19 final size:19
Alignment explanation
Indices: 2759220--2759267 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
2759210 ATGGAAAAGT
*
2759220 TGAGAAATG-AATACGATA
1 TGAGAAATGAAATACGAAA
2759238 TGAGAAATGAAATACGAAA
1 TGAGAAATGAAATACGAAA
2759257 TGATGAAATGA
1 TGA-GAAATGA
2759268 GATGTAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.52, C:0.04, G:0.23, T:0.21
Consensus pattern (19 bp):
TGAGAAATGAAATACGAAA
Found at i:2764962 original size:16 final size:18
Alignment explanation
Indices: 2764941--2764973 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2764931 ACATCAAATT
2764941 CCAATT-CAAA-TCACAA
1 CCAATTACAAAGTCACAA
2764957 CCAATTACAAAGTCACA
1 CCAATTACAAAGTCACA
2764974 CATATTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.18
Consensus pattern (18 bp):
CCAATTACAAAGTCACAA
Found at i:2766373 original size:175 final size:176
Alignment explanation
Indices: 2766173--2766524 Score: 697
Period size: 175 Copynumber: 2.0 Consensus size: 176
2766163 TATATTAACA
2766173 TATTAAATTATTTAAATATTATTTAACTTATTTTTTACTTTCCAATATCATATTTAAAATATATA
1 TATTAAATTATTTAAATATTATTTAACTTATTTTTTACTTTCCAATATCATATTTAAAATATATA
2766238 TATTTTTAATAACAGTGAACAACATTTTTTAACAATGGTAACCTAGCCCCAAGTGTAATGGATTA
66 TATTTTTAATAACAGTGAACAACATTTTTTAACAATGGTAACCTAGCCCCAAGTGTAATGGATTA
2766303 AAACGCAGCGTTTTGGAATTTTAAGTAAATTGAATATCTCAATTGC
131 AAACGCAGCGTTTTGGAATTTTAAGTAAATTGAATATCTCAATTGC
2766349 TATTAAATTA-TTAAATATTATTTAACTTATTTTTTACTTTCCAATATCATATTTAAAATATATA
1 TATTAAATTATTTAAATATTATTTAACTTATTTTTTACTTTCCAATATCATATTTAAAATATATA
2766413 TATTTTTAATAACAGTGAACAACATTTTTTAACAATGGTAACCTAGCCCCAAGTGTAATGGATTA
66 TATTTTTAATAACAGTGAACAACATTTTTTAACAATGGTAACCTAGCCCCAAGTGTAATGGATTA
2766478 AAACGCAGCGTTTTGGAATTTTAAGTAAATTGAATATCTCAATTGC
131 AAACGCAGCGTTTTGGAATTTTAAGTAAATTGAATATCTCAATTGC
2766524 T
1 T
2766525 GTTGTCGAAT
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
175 166 0.94
176 10 0.06
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41
Consensus pattern (176 bp):
TATTAAATTATTTAAATATTATTTAACTTATTTTTTACTTTCCAATATCATATTTAAAATATATA
TATTTTTAATAACAGTGAACAACATTTTTTAACAATGGTAACCTAGCCCCAAGTGTAATGGATTA
AAACGCAGCGTTTTGGAATTTTAAGTAAATTGAATATCTCAATTGC
Found at i:2781852 original size:49 final size:51
Alignment explanation
Indices: 2781732--2781853 Score: 119
Period size: 51 Copynumber: 2.4 Consensus size: 51
2781722 TATAAACAAA
2781732 TAAAATAAGTTAATATAAA-AAATATTTATATATATGTAAAAAACACCAGATT
1 TAAAATAA-TTAA-ATAAATAAATATTTATATATATGTAAAAAACACCAGATT
** * * *
2781784 T-AAATAAAAAAATTAAAATAAATATTT-TATTTAT-T-TAAAACATCAGATT
1 TAAAATAATTAAA-T-AAATAAATATTTATATATATGTAAAAAACACCAGATT
2781833 TGAAAATAATTAAATAAATAA
1 T-AAAATAATTAAATAAATAA
2781854 GATTTTAGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
49 20 0.34
50 5 0.09
51 24 0.41
52 9 0.16
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (51 bp):
TAAAATAATTAAATAAATAAATATTTATATATATGTAAAAAACACCAGATT
Found at i:2785897 original size:82 final size:81
Alignment explanation
Indices: 2785789--2786140 Score: 409
Period size: 81 Copynumber: 4.3 Consensus size: 81
2785779 CCGACAGGAT
* * *
2785789 TAAATCCCAAAATAGAATTGTAT-AATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAA
1 TAAATCCCAAAACAG-ATTAT-TCAATTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAA
*
2785853 TCTGTTAAACGGAGGGAA
64 TCTGTTAAACGGCGGGAA
* * * * *
2785871 TAAATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATCACAATCGAATATAAT
1 TAAATCCCAAAACAG-ATTATTCAATTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
* * *
2785936 CTATTAAACGGCGGTAG
65 CTGTTAAACGGCGGGAA
* * * **
2785953 TAAATTCCAAAACAGATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAACTAAAATAAAATC
1 TAAATCCCAAAACAGATTATTCAATTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATC
*
2786018 TGTTAAACGGTGGGAA
66 TGTTAAACGGCGGGAA
* ** * *
2786034 TAAATCCCAAAACAGTTTATTCAATTATTTCTCATTTTGAAACAAAATCAAAATCGAATAAAATC
1 TAAATCCCAAAACAGATTATTCAATTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATC
* * *
2786099 TGTTGAACAGCGAGAA
66 TGTTAAACGGCGGGAA
** *
2786115 TAAATCCCCGAATAGATTATTCAATT
1 TAAATCCCAAAACAGATTATTCAATT
2786141 TTAGTTTTTA
Statistics
Matches: 230, Mismatches: 39, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
81 146 0.63
82 84 0.37
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (81 bp):
TAAATCCCAAAACAGATTATTCAATTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATC
TGTTAAACGGCGGGAA
Found at i:2786319 original size:22 final size:23
Alignment explanation
Indices: 2786285--2786335 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
2786275 AAACAAATAT
*
2786285 AAATATAAATAATT-TTATAAAA
1 AAATATAAATAATTAATATAAAA
*
2786307 AAATA-AAACTAATTAATATAAGA
1 AAATATAAA-TAATTAATATAAAA
2786330 AAATAT
1 AAATAT
2786336 TTATATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.12
22 10 0.42
23 11 0.46
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATATAAATAATTAATATAAAA
Found at i:2795718 original size:16 final size:17
Alignment explanation
Indices: 2795686--2795720 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2795676 TTTCTACATA
*
2795686 ACATGTTTAAGTTCATT
1 ACATGATTAAGTTCATT
2795703 ACATGATTAA-TTCATT
1 ACATGATTAAGTTCATT
2795719 AC
1 AC
2795721 TTACACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (17 bp):
ACATGATTAAGTTCATT
Found at i:2807967 original size:17 final size:17
Alignment explanation
Indices: 2807945--2808009 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
2807935 CTGTCGAGTG
2807945 ATACTATTCGCCAGGCA
1 ATACTATTCGCCAGGCA
* *
2807962 ATACTATCCGCCAGGCT
1 ATACTATTCGCCAGGCA
* ** *
2807979 ATTCTATTTACTAGGCA
1 ATACTATTCGCCAGGCA
*
2807996 ATGCTTATTCGCCA
1 ATAC-TATTCGCCA
2808010 AAGATAAGAA
Statistics
Matches: 35, Mismatches: 12, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
17 29 0.83
18 6 0.17
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (17 bp):
ATACTATTCGCCAGGCA
Found at i:2813100 original size:20 final size:19
Alignment explanation
Indices: 2813075--2813119 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2813065 TAATTTAGCC
*
2813075 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAATTTA
*
2813094 ATATTTTTGTTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
2813114 ATTTTT
1 ATTTTT
2813120 ACATTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:2813365 original size:131 final size:130
Alignment explanation
Indices: 2813116--2813366 Score: 344
Period size: 131 Copynumber: 1.9 Consensus size: 130
2813106 TTAATTTAAT
* *
2813116 TTTTACATTCTAATTTTTCATTTGTTTGATTTTGACAGGTTCTTTTGGTTTATGACTAGAGGAAA
1 TTTTACATTCTAATTTTTCATTTGTTTGATTCTGACAGGTTCTTCTGGTTTATGACTAGAGGAAA
** * * *
2813181 CCCATTGGAACCATTAGTTTTTGATAGTGAGATTGAGAAAACTGCTCACAGAAATTAGAGAGAAG
66 CCCATCAGAACCATTAATTTTTGACAGTGAGATTGAGAAAACTACTCACAGAAATTAGAGAGAAG
**
2813246 TTTTACATTCTAAATTTTTTTGTTTGTTTGATTCTGACAGGTTCTTCTGGTTTATGAC-AGAGGA
1 TTTTACATTCT-AA-TTTTTCATTTGTTTGATTCTGACAGGTTCTTCTGGTTTATGACTAGAGGA
* * * *
2813310 AACCCGTCAGAACCATTAATTTTTTACAGTGAGTTTGA-AAGAACTACTCGCAGAAAT
64 AACCCATCAGAACCATTAATTTTTGACAGTGAGATTGAGAA-AACTACTCACAGAAAT
2813367 CAAGGGGAAG
Statistics
Matches: 105, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
130 13 0.12
131 53 0.50
132 39 0.37
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (130 bp):
TTTTACATTCTAATTTTTCATTTGTTTGATTCTGACAGGTTCTTCTGGTTTATGACTAGAGGAAA
CCCATCAGAACCATTAATTTTTGACAGTGAGATTGAGAAAACTACTCACAGAAATTAGAGAGAAG
Found at i:2817450 original size:6 final size:6
Alignment explanation
Indices: 2817439--2817481 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
2817429 TATAGATACA
* *
2817439 ATTTTT ATTTTT ATTTTTT ACTTTT ACTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT
2817482 TTCAGGTCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:2825924 original size:15 final size:15
Alignment explanation
Indices: 2825906--2825939 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2825896 TACGAATTTT
2825906 TAAAAACCTAAACCC
1 TAAAAACCTAAACCC
*
2825921 TAAAACCCTAAACCC
1 TAAAAACCTAAACCC
2825936 TAAA
1 TAAA
2825940 TGCAAAACAA
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:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (15 bp):
TAAAAACCTAAACCC
Found at i:2830546 original size:12 final size:12
Alignment explanation
Indices: 2830529--2830558 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2830519 TTCGAAAGTT
2830529 ACACGGCCTAGC
1 ACACGGCCTAGC
*
2830541 ACACGGCCTGGC
1 ACACGGCCTAGC
2830553 ACACGG
1 ACACGG
2830559 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:2843142 original size:22 final size:22
Alignment explanation
Indices: 2843106--2843180 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
2843096 TTCTTTAAAT
* *
2843106 AGTAGTCACCTAAGTGTTGATC
1 AGTAGGCACCAAAGTGTTGATC
* * *
2843128 AATAGGCACCAAAGTGTAGAGC
1 AGTAGGCACCAAAGTGTTGATC
* *
2843150 AGTAGGCACTAAAATG-TGAATC
1 AGTAGGCACCAAAGTGTTG-ATC
2843172 AGTAGGCAC
1 AGTAGGCAC
2843181 TGTAGTGTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
21 1 0.02
22 41 0.98
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (22 bp):
AGTAGGCACCAAAGTGTTGATC
Found at i:2843181 original size:22 final size:22
Alignment explanation
Indices: 2843125--2843201 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
2843115 CTAAGTGTTG
* * * *
2843125 ATCAATAGGCACCAAAGTGTAG
1 ATCAGTAGGCACTAAAATGTAA
* *
2843147 AGCAGTAGGCACTAAAATGTGA
1 ATCAGTAGGCACTAAAATGTAA
** *
2843169 ATCAGTAGGCACTGTAGTGTAA
1 ATCAGTAGGCACTAAAATGTAA
2843191 ATCAGTAGGCA
1 ATCAGTAGGCA
2843202 TCATAATGCA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (22 bp):
ATCAGTAGGCACTAAAATGTAA
Found at i:2844694 original size:21 final size:21
Alignment explanation
Indices: 2844670--2844709 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2844660 GATCCTTGGC
*
2844670 AAGTGGGTATTGCAATACCTA
1 AAGTGGATATTGCAATACCTA
2844691 AAGTGGATATTGCAATACC
1 AAGTGGATATTGCAATACC
2844710 ACTTTAGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (21 bp):
AAGTGGATATTGCAATACCTA
Found at i:2851642 original size:24 final size:24
Alignment explanation
Indices: 2851615--2851660 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
2851605 AAGATTTATT
2851615 ATTTATGAACATAATATATTTAGC
1 ATTTATGAACATAATATATTTAGC
*
2851639 ATTTATTAACATAATATATTTA
1 ATTTATGAACATAATATATTTA
2851661 ACTATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (24 bp):
ATTTATGAACATAATATATTTAGC
Found at i:2851670 original size:24 final size:24
Alignment explanation
Indices: 2851622--2851671 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2851612 ATTATTTATG
* *
2851622 AACATAATATATTTAGCATTTATT
1 AACATAATATATTTAACATTGATT
2851646 AACATAATATATTTAAC-TATGATT
1 AACATAATATATTTAACAT-TGATT
2851670 AA
1 AA
2851672 AATTAGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (24 bp):
AACATAATATATTTAACATTGATT
Found at i:2854714 original size:9 final size:9
Alignment explanation
Indices: 2854700--2854766 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
2854690 TTTGGTTAAA
2854700 AATTAACCG
1 AATTAACCG
*
2854709 AATTAACCT
1 AATTAACCG
2854718 AATT-ACTCG
1 AATTAAC-CG
*
2854727 GATTAACCG
1 AATTAACCG
*
2854736 AATTACCCG
1 AATTAACCG
2854745 AATT-ACCTG
1 AATTAACC-G
2854754 AATTAACCG
1 AATTAACCG
2854763 AATT
1 AATT
2854767 GAATCACTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 4 0.08
9 39 0.81
10 5 0.10
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:2854739 original size:27 final size:27
Alignment explanation
Indices: 2854700--2854766 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
2854690 TTTGGTTAAA
*
2854700 AATTAACCGAATTAACCTAATTA-CTCG
1 AATTAACCGAATTAACCGAATTACCT-G
* *
2854727 GATTAACCGAATTACCCGAATTACCTG
1 AATTAACCGAATTAACCGAATTACCTG
2854754 AATTAACCGAATT
1 AATTAACCGAATT
2854767 GAATCACTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCTG
Found at i:2854912 original size:18 final size:18
Alignment explanation
Indices: 2854869--2854912 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2854859 ACTTTTTATG
**
2854869 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
*
2854887 ATTAGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
2854905 CTTGGGTT
1 ATTGGGTT
2854913 TGGATTGGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:2856828 original size:110 final size:110
Alignment explanation
Indices: 2856635--2856854 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
2856625 TTTCTAGAAA
*
2856635 ATTTAGTATTTATGAGTATAATATATTTAGCATTTATTAACAGAATATATTTGACTTTGATTAGA
1 ATTTAATATTTATGAGTATAATATATTTAGCATTTATTAACAGAATATATTTGACTTTGATTAGA
2856700 ATTAGGTTTTTTCAACCTATAAATAGATATAGTTGAAACTCCTCT
66 ATTAGGTTTTTTCAACCTATAAATAGATATAGTTGAAACTCCTCT
2856745 ATTTAATATTTATGAGTATAATATATTTAGCATTTATTAACAGAATATATTTGACTTTGATTAGA
1 ATTTAATATTTATGAGTATAATATATTTAGCATTTATTAACAGAATATATTTGACTTTGATTAGA
2856810 ATTAGGTTTTTTCAACCTATAAATAGATATAGTTGAAACTCCTCT
66 ATTAGGTTTTTTCAACCTATAAATAGATATAGTTGAAACTCCTCT
2856855 TGTAATTATT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (110 bp):
ATTTAATATTTATGAGTATAATATATTTAGCATTTATTAACAGAATATATTTGACTTTGATTAGA
ATTAGGTTTTTTCAACCTATAAATAGATATAGTTGAAACTCCTCT
Found at i:2859287 original size:538 final size:518
Alignment explanation
Indices: 2858264--2859325 Score: 1926
Period size: 538 Copynumber: 2.0 Consensus size: 518
2858254 CATATTATAA
* *
2858264 ATTTAATTTTTATGCCTATTTATTATATAAATAAAAGAAGCTAATATAATACATAATTAGAAAAC
1 ATTTTATTTTTATGCATATTTATTATATAAATAAAAGAAGCTAATATAATACATAATTAGAAAAC
2858329 AAATACAAAATAATTAAGCTTTCGCGGTAAAATATTATAGAAGTATCTATATTTAGGAGCGGATT
66 AAATACAAAATAATTAAGCTTTCGCGGTAAAATATTATAGAAGTATCTATATTTAGGAGCGGATT
2858394 GCATTTCAGCCCATTTATTTAAAAAATGGACAAACTAATCTTTATACATTTTGAAACATGCAAAT
131 GCATTTCAGCCCATTTATTTAAAAAATGGACAAACTAATCTTTATACATTTTGAAACATGCAAAT
2858459 TAGCTCATCCGTTAAATTTTATCTGTTAAATAATGATGTGGAACGTTAAATATATGCTAAAATTA
196 TAGCTCATCCGTTAAATTTTATCTGTTAAATAATGATGTGGAACGTTAAATATATGCTAAAATTA
2858524 AAATTTTTTTATAGATAAACTTTGAAAATGGTCATCCAACTATGCCTTTCGTTCTATTTTGGTTA
261 AAATTTTTTTATAGATAAACTTTGAAAATGGTCATCCAACTATGCCTTTCGTTCTATTTTGGTTA
2858589 CCTAACTATTAATTTTTCCGATTTAATCACTAAACTTTTCAAAATTAAATATGTTAGTCACTTTG
326 CCTAACTATTAATTTTTCCGATTTAATCACTAAACTTTTCAAAATTAAATATGTTAGTCACTTTG
2858654 AGCTGATGTGGGCTTTTTTATTGGTCCAGTAACAAAATTAGCCCTTTAATGTTTACACATTATAT
391 AGCTGATGTGGGCTTTTTTATTGGTCCAGTAACAAAATTAGCCCTTTAATGTTTACACATTATAT
2858719 TAATTTGATCCTAAATATAAAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAATTTTGTC
456 TAATTTGATCCTAAATATAAAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAATTTTGTC
2858782 ATTTTANNNNNNNNNNNNNNNNNNNNTTTTTATGCATATTTATTATATAAATAAAAGAAGCTAAT
1 ATTTTA--------------------TTTTTATGCATATTTATTATATAAATAAAAGAAGCTAAT
2858847 ATAATACATAATTAGAAAACAAATACAAAATAATTAAGCTTTCGCGGTAAAATATTATAGAAGTA
46 ATAATACATAATTAGAAAACAAATACAAAATAATTAAGCTTTCGCGGTAAAATATTATAGAAGTA
2858912 TCTATATTTAGGAGCGGATTGCATTTCAGCCCATTTATTTAAAAAATGGACAAACTAATCTTTAT
111 TCTATATTTAGGAGCGGATTGCATTTCAGCCCATTTATTTAAAAAATGGACAAACTAATCTTTAT
2858977 ACATTTTGAAACATGCAAATTAGCTCATCCGTTAAATTTTATCTGTTAAATAATGATGTGGAACG
176 ACATTTTGAAACATGCAAATTAGCTCATCCGTTAAATTTTATCTGTTAAATAATGATGTGGAACG
2859042 TTAAATATATGCTAAAATTAAAATTTTTTTATAGATAAACTTTGAAAATGGTCATCCAACTATGC
241 TTAAATATATGCTAAAATTAAAATTTTTTTATAGATAAACTTTGAAAATGGTCATCCAACTATGC
2859107 CTTTCGTTCTATTTTGGTTACCTAACTATTAATTTTTCCGATTTAATCACTAAACTTTTCAAAAT
306 CTTTCGTTCTATTTTGGTTACCTAACTATTAATTTTTCCGATTTAATCACTAAACTTTTCAAAAT
2859172 TAAATATGTTAGTCACTTTGAGCTGATGTGGGCTTTTTTATTGGTCCAGTAACAAAATTAGCCCT
371 TAAATATGTTAGTCACTTTGAGCTGATGTGGGCTTTTTTATTGGTCCAGTAACAAAATTAGCCCT
2859237 TTAATGTTTACACATTATATTAATTTGATCCTAAATATAAAAAAATTCAACAAATTTAGCCCTAA
436 TTAATGTTTACACATTATATTAATTTGATCCTAAATATAAAAAAATTCAACAAATTTAGCCCTAA
2859302 ATGTTTACAAATTTTGTC
501 ATGTTTACAAATTTTGTC
2859320 ATTTTA
1 ATTTTA
2859326 GTTCTAATTC
Statistics
Matches: 522, Mismatches: 2, Indels: 20
0.96 0.00 0.04
Matches are distributed among these distances:
518 5 0.01
538 517 0.99
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (518 bp):
ATTTTATTTTTATGCATATTTATTATATAAATAAAAGAAGCTAATATAATACATAATTAGAAAAC
AAATACAAAATAATTAAGCTTTCGCGGTAAAATATTATAGAAGTATCTATATTTAGGAGCGGATT
GCATTTCAGCCCATTTATTTAAAAAATGGACAAACTAATCTTTATACATTTTGAAACATGCAAAT
TAGCTCATCCGTTAAATTTTATCTGTTAAATAATGATGTGGAACGTTAAATATATGCTAAAATTA
AAATTTTTTTATAGATAAACTTTGAAAATGGTCATCCAACTATGCCTTTCGTTCTATTTTGGTTA
CCTAACTATTAATTTTTCCGATTTAATCACTAAACTTTTCAAAATTAAATATGTTAGTCACTTTG
AGCTGATGTGGGCTTTTTTATTGGTCCAGTAACAAAATTAGCCCTTTAATGTTTACACATTATAT
TAATTTGATCCTAAATATAAAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAATTTTGTC
Found at i:2859354 original size:61 final size:61
Alignment explanation
Indices: 2859276--2859402 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 61
2859266 CCTAAATATA
** * * * * * *
2859276 AAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAATTTTGTCATTTTAGTTCTAATTCT
1 AAAAAATTCAACAAATTTAGCCCTAAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
* * *
2859337 AAAAAATTCAATAAATTTGGCCCTCAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
1 AAAAAATTCAACAAATTTAGCCCTAAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
2859398 AAAAA
1 AAAAA
2859403 TTAAAAAATT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (61 bp):
AAAAAATTCAACAAATTTAGCCCTAAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
Found at i:2861174 original size:61 final size:61
Alignment explanation
Indices: 2861096--2861222 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 61
2861086 CCTAAATATA
** * * * * * *
2861096 AAAAAATTCAACAAATTTAGCCCTAAATGTTTACAAATTTTGTCATTTTAGTTCTAATTCT
1 AAAAAATTCAACAAATTTAGCCCTAAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
* * *
2861157 AAAAAATTCAATAAATTTGGCCCTCAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
1 AAAAAATTCAACAAATTTAGCCCTAAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
2861218 AAAAA
1 AAAAA
2861223 TTAAAAAATT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (61 bp):
AAAAAATTCAACAAATTTAGCCCTAAACATTTACAAAATCTGCCAATTTAGTCCTAACTCT
Found at i:2863383 original size:43 final size:43
Alignment explanation
Indices: 2863280--2863868 Score: 902
Period size: 43 Copynumber: 13.7 Consensus size: 43
2863270 GCGTTTATAG
* * **
2863280 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGTG--GCATT-AA
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGC-TTGGT
* * *
2863321 AAAAAAGACGCCACTAAAGATCATGTTCTTTAGCAGCAC-TTTGG-
1 AAAAAA-ACGCCGCTATAGATCATGTTCTTTAGC-G-ACGCTTGGT
* * * ***
2863365 AAAAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTAAC
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
* * * * **
2863408 AAAAAAATGCCGCTAAAGATCATGCTCTTTAGCGGCGCTT-AA
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
* *
2863450 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGT
1 AAAAAA-ACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863494 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863537 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863580 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863623 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863666 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863709 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863752 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863795 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
1 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
2863838 AAAAAAACGCCGCTATAGATCATGTTCTTTA
1 AAAAAAACGCCGCTATAGATCATGTTCTTTA
2863869 AAGTTGCGAC
Statistics
Matches: 518, Mismatches: 20, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
41 7 0.01
42 35 0.07
43 462 0.89
44 14 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGACGCTTGGT
Found at i:2864045 original size:21 final size:21
Alignment explanation
Indices: 2864021--2864069 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2864011 GCTTCTCTCG
2864021 CTGCTTCTCACACTGCAGCCT
1 CTGCTTCTCACACTGCAGCCT
* *
2864042 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCACACTGCAGCCT
*
2864063 CTACTTC
1 CTGCTTC
2864070 CCTCGTTGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.10, C:0.43, G:0.14, T:0.33
Consensus pattern (21 bp):
CTGCTTCTCACACTGCAGCCT
Found at i:2864074 original size:21 final size:21
Alignment explanation
Indices: 2864033--2864085 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2864023 GCTTCTCACA
* *
2864033 CTGCAGCCTCTGCTTCTCTCG
1 CTGCAGCCTCTACTTCCCTCG
2864054 CTGCAGCCTCTACTTCCCTCG
1 CTGCAGCCTCTACTTCCCTCG
* *
2864075 TTGCCGCCTCT
1 CTGCAGCCTCT
2864086 GCTTTAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.45, G:0.17, T:0.32
Consensus pattern (21 bp):
CTGCAGCCTCTACTTCCCTCG
Found at i:2869905 original size:9 final size:9
Alignment explanation
Indices: 2869888--2870174 Score: 194
Period size: 9 Copynumber: 32.8 Consensus size: 9
2869878 TATAAATTAA
*
2869888 GTAAATTAT
1 GTAAGTTAT
2869897 GTAAGTTAT
1 GTAAGTTAT
* *
2869906 ATACGTGTAT
1 GTAAGT-TAT
2869916 GT-A-TTAT
1 GTAAGTTAT
2869923 GTAAGTTAT
1 GTAAGTTAT
*
2869932 GT-A-TTAA
1 GTAAGTTAT
*
2869939 GTAAGCTAT
1 GTAAGTTAT
*
2869948 GTAAGTTGT
1 GTAAGTTAT
2869957 G-AA-TTAT
1 GTAAGTTAT
2869964 GTAAGTTAT
1 GTAAGTTAT
2869973 GTAAGTTAT
1 GTAAGTTAT
** *
2869982 CAAAGTAAT
1 GTAAGTTAT
*
2869991 GTATGTTAT
1 GTAAGTTAT
2870000 GTAAG-T-T
1 GTAAGTTAT
2870007 GTAAGTTAT
1 GTAAGTTAT
*
2870016 -TATGTAGTAT
1 GTAAGT--TAT
2870026 GTAAGTTAT
1 GTAAGTTAT
2870035 GTAAGTTAT
1 GTAAGTTAT
2870044 GTAAGTTAAAT
1 GTAAGTT--AT
2870055 GT-A-TTAT
1 GTAAGTTAT
*
2870062 GTAGGTTAT
1 GTAAGTTAT
*
2870071 GTAAGTTGT
1 GTAAGTTAT
*
2870080 GTAAGATAT
1 GTAAGTTAT
*
2870089 TTAAGTTAT
1 GTAAGTTAT
*
2870098 GTAAGTTTT
1 GTAAGTTAT
2870107 GT-A-TTAT
1 GTAAGTTAT
2870114 GTAAGTCT-T
1 GTAAGT-TAT
* *
2870123 GTATGCTAT
1 GTAAGTTAT
2870132 GT-A-TTAT
1 GTAAGTTAT
2870139 GTAAGTTGTTAT
1 GTAA---GTTAT
*
2870151 GTTA-TTAT
1 GTAAGTTAT
2870159 GTAAGTTAT
1 GTAAGTTAT
*
2870168 GCAAGTT
1 GTAAGTT
2870175 TAAATATAAG
Statistics
Matches: 214, Mismatches: 38, Indels: 52
0.70 0.12 0.17
Matches are distributed among these distances:
7 34 0.16
8 25 0.12
9 131 0.61
10 9 0.04
11 8 0.04
12 7 0.03
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:2869905 original size:25 final size:25
Alignment explanation
Indices: 2869877--2870006 Score: 102
Period size: 25 Copynumber: 5.1 Consensus size: 25
2869867 TGATATATAT
*
2869877 TTATAAATTAAGTAAATTATGTAAG
1 TTATAAATTAAGTAAGTTATGTAAG
* *
2869902 TTATATACGTGTATGT-A-TTATGTAAG
1 TTATA-A-AT-TAAGTAAGTTATGTAAG
** *
2869928 TTATGTATTAAGTAAGCTATGTAAG
1 TTATAAATTAAGTAAGTTATGTAAG
* * *
2869953 TTGTGAATTATGTAAGTTATGTAAG
1 TTATAAATTAAGTAAGTTATGTAAG
* *
2869978 TTATCAAAGTAATGTATGTTATGTAAG
1 TTAT-AAATTAA-GTAAGTTATGTAAG
2870005 TT
1 TT
2870007 GTAAGTTATT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
23 4 0.05
24 2 0.02
25 37 0.45
26 18 0.22
27 17 0.21
28 4 0.05
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (25 bp):
TTATAAATTAAGTAAGTTATGTAAG
Found at i:2870229 original size:16 final size:16
Alignment explanation
Indices: 2870210--2870285 Score: 50
Period size: 16 Copynumber: 4.6 Consensus size: 16
2870200 TGTAAGTTAA
2870210 TATGTAAGTAATGTAT
1 TATGTAAGTAATGTAT
*
2870226 TATGTAAGGTAACATATAAGTT
1 TATGTAA-GT-A-ATGT-A--T
*
2870248 TATGTAAGTTATG-A-
1 TATGTAAGTAATGTAT
*
2870262 -ATGTAAGTTATGTAT
1 TATGTAAGTAATGTAT
2870277 TATGTAAGT
1 TATGTAAGT
2870286 TATTTAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
13 12 0.25
14 1 0.02
16 15 0.31
17 3 0.06
18 1 0.02
19 5 0.10
20 1 0.02
21 2 0.04
22 8 0.17
ACGTcount: A:0.37, C:0.01, G:0.20, T:0.42
Consensus pattern (16 bp):
TATGTAAGTAATGTAT
Found at i:2870267 original size:13 final size:15
Alignment explanation
Indices: 2870248--2870288 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
2870238 CATATAAGTT
2870248 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
2870262 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
2870276 TTATGTAAGTTAT
1 -TATGTAAGTTAT
2870289 TTAAATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:2870395 original size:15 final size:16
Alignment explanation
Indices: 2870371--2870414 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
2870361 TAAATCTTGA
*
2870371 AAAAATTATATATTTT
1 AAAAATTATATATATT
2870387 AAAAA-TATATATATT
1 AAAAATTATATATATT
*
2870402 AAATATGTATATA
1 AAAAAT-TATATA
2870415 AATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAAAATTATATATATT
Found at i:2872725 original size:22 final size:22
Alignment explanation
Indices: 2872700--2872743 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2872690 CACAATTAAG
*
2872700 TAATTTGTTTCATCATATATAA
1 TAATTTGTTTCATCATAAATAA
2872722 TAATTTGTTTCATCATAAATAA
1 TAATTTGTTTCATCATAAATAA
2872744 CATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (22 bp):
TAATTTGTTTCATCATAAATAA
Found at i:2873233 original size:49 final size:49
Alignment explanation
Indices: 2873148--2873250 Score: 111
Period size: 49 Copynumber: 2.1 Consensus size: 49
2873138 CTACATCGTA
* * * *
2873148 AACCTTAAACCCTAAACTGTAATCCAAACATAATAAA-AATTATATAAT
1 AACCCTAAACCCTAAACTCTAAACCAAACATAATAAACAAATATATAAT
* *
2873196 GAACCCTAATACCCTAAAC-CTAAACCAAATATGATAAACTAAATATATAAT
1 -AACCCTAA-ACCCTAAACTCTAAACCAAACATAATAAAC-AAATATATAAT
2873247 AACC
1 AACC
2873251 TACATTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
49 22 0.49
50 13 0.29
51 10 0.22
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.24
Consensus pattern (49 bp):
AACCCTAAACCCTAAACTCTAAACCAAACATAATAAACAAATATATAAT
Found at i:2873622 original size:147 final size:147
Alignment explanation
Indices: 2873342--2873628 Score: 337
Period size: 147 Copynumber: 2.0 Consensus size: 147
2873332 AATAATACAG
** **
2873342 CAAAACGGCCTCGTATCAATAAATGTTAAAACATTTTTGCGGCATTTTAAGCAAAGCGCCACTAA
1 CAAAACGGAATCGTATCAATAAATGTTAAAACAACTTTGCGGCATTTTAAGCAAAGCGCCACTAA
* * * *
2873407 CTATAAATCAAAACGCAGTCGCTTCATCAACACTTACCTCAAACTGGTGGCGTTTTCAAAAAATC
66 ATATAAATCAAAACGAAGTCGCTTCACCAACACTTACCTCAAACTGGTGGCGTTTCCAAAAAATC
*
2873472 GCCACGAATAACATTTA
131 GCCACAAATAACATTTA
* * * * *
2873489 CAAAACGGAATCGTTTCTATAAATGTTAGAACAACTTTGCGGCGTTTTAAGTAAAGCGCCACTAA
1 CAAAACGGAATCGTATCAATAAATGTTAAAACAACTTTGCGGCATTTTAAGCAAAGCGCCACTAA
* * * * * * *
2873554 ATATAAGTTC-AAACGAAGTCGTTTCCCCAACAGTTTA-CTCAAGCTTGTGGCGTTTCCTGAAAA
66 ATATAA-ATCAAAACGAAGTCGCTTCACCAACA-CTTACCTCAAACTGGTGGCGTTTCC-AAAAA
2873617 A-CGCCACAAATA
128 ATCGCCACAAATA
2873629 CCATAGACAA
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
147 106 0.91
148 10 0.09
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (147 bp):
CAAAACGGAATCGTATCAATAAATGTTAAAACAACTTTGCGGCATTTTAAGCAAAGCGCCACTAA
ATATAAATCAAAACGAAGTCGCTTCACCAACACTTACCTCAAACTGGTGGCGTTTCCAAAAAATC
GCCACAAATAACATTTA
Found at i:2873639 original size:147 final size:146
Alignment explanation
Indices: 2873317--2873641 Score: 334
Period size: 147 Copynumber: 2.2 Consensus size: 146
2873307 GCGGCGCTTT
* ** **
2873317 TGAATAAACGCCACTAATA-ATACAGCAAAACGGCCTCGTATCAATAAATGTTAAAACATTTTTG
1 TGAA-AAACGCCACAAATACATACA-CAAAACGGAATCGTATCAATAAATGTTAAAACAACTTTG
* * *
2873381 CGGCATTTTAAGCAAAGCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACACTTACCT
64 CGGCATTTTAAGCAAAGCGCCACTAAATATAAATCAAAACGAAGTCGCTTCACCAACACTTACCT
*
2873446 CAAACTGGTGGCGTTTTC
129 CAAACTGGTGGCGTTTCC
* * ** * * *
2873464 -AAAAAATCGCCACGAATAACATTTACAAAACGGAATCGTTTCTATAAATGTTAGAACAACTTTG
1 TGAAAAA-CGCCACAAAT-ACATACACAAAACGGAATCGTATCAATAAATGTTAAAACAACTTTG
* * * * * *
2873528 CGGCGTTTTAAGTAAAGCGCCACTAAATATAAGTTC-AAACGAAGTCGTTTCCCCAACAGTTTA-
64 CGGCATTTTAAGCAAAGCGCCACTAAATATAA-ATCAAAACGAAGTCGCTTCACCAACA-CTTAC
* *
2873591 CTCAAGCTTGTGGCGTTTCC
127 CTCAAACTGGTGGCGTTTCC
*
2873611 TGAAAAACGCCACAAATACCATAGACAAAAC
1 TGAAAAACGCCACAAATA-CATACACAAAAC
2873642 AACTACATTT
Statistics
Matches: 144, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
145 3 0.02
146 12 0.08
147 116 0.81
148 13 0.09
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (146 bp):
TGAAAAACGCCACAAATACATACACAAAACGGAATCGTATCAATAAATGTTAAAACAACTTTGCG
GCATTTTAAGCAAAGCGCCACTAAATATAAATCAAAACGAAGTCGCTTCACCAACACTTACCTCA
AACTGGTGGCGTTTCC
Found at i:2875095 original size:114 final size:114
Alignment explanation
Indices: 2874891--2875334 Score: 593
Period size: 114 Copynumber: 3.9 Consensus size: 114
2874881 TAATTATTTT
* * * * *
2874891 GCGGCGCTTCATCAAAAACGCAGCTAAATCCCCAAATGCTCAGAAAACGGCATCATTGGGCTTAG
1 GCGGCGCTTCACCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCG
* * * * *
2874956 GCTT-TTTACGGCGCTTCCACAAAAAACGCCGCTAGAGTCCTGAGCATTA
66 GTTTATTTGCGGCGCTTACTC-AAAAACGCCGCTAAAGTCCTGAGCATTA
* * * * *
2875005 GCGGCGCTTTACCGAAAACGCCGTTAAATCCCCGAATGCTCAGAAAATGGCGTCGTTGGGCTTCG
1 GCGGCGCTTCACCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCG
2875070 GTTTATTTGCGGCGCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTA
66 GTTTATTTGCGGCGCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTA
* * * *
2875119 GCGGCGCTTTACCAAAAACGCCGCTAAATCCTCGAATGCTCAGAAAACGGCGTCGTTGGCCTTCG
1 GCGGCGCTTCACCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCG
*
2875184 GTTTATTTGCGACGCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTA
66 GTTTATTTGCGGCGCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTA
* * * * * *
2875233 GCTGCGCTTCACCGAAAACGCCACTAAATCTCCGAATGCTCAGAAAATGGCATCGCTGGGCTTCG
1 GCGGCGCTTCACCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCG
* * * * *
2875298 GTTTATTTGCAGCGCTTCCACAAAATCGTCGCTAAAG
66 GTTTATTTGCGGCGCTTACTCAAAAACGCCGCTAAAG
2875335 CCCCGAATGG
Statistics
Matches: 292, Mismatches: 37, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
114 279 0.96
115 13 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (114 bp):
GCGGCGCTTCACCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCATCGTTGGGCTTCG
GTTTATTTGCGGCGCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTA
Found at i:2877480 original size:43 final size:43
Alignment explanation
Indices: 2877418--2877502 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
2877408 CAGGGGTCAC
*
2877418 ACGCCCGTGTGGTCGGGCCGTATGACTCAAACGGCTGAGACAT
1 ACGCCCGTGTAGTCGGGCCGTATGACTCAAACGGCTGAGACAT
* *
2877461 ACGCCCGTGTAG-CGAGGCCGTGTGACTCACACGGCTGAGACA
1 ACGCCCGTGTAGTCG-GGCCGTATGACTCAAACGGCTGAGACA
2877503 CATGCTCGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.16
Consensus pattern (43 bp):
ACGCCCGTGTAGTCGGGCCGTATGACTCAAACGGCTGAGACAT
Found at i:2878542 original size:36 final size:35
Alignment explanation
Indices: 2878455--2878548 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 35
2878445 AGCATATCGT
* *
2878455 CAGTCCAACCATAACACACCCAATGCTCATACGAGC
1 CAGTCCAACCA-AACACACCAAATGCTCATAAGAGC
* **
2878491 CAATCCCTCCAAAACACACCAAATGCTCATAAGAGC
1 CAGTCCAACC-AAACACACCAAATGCTCATAAGAGC
* *
2878527 TAGTCCAACCGAAACACGCCAA
1 CAGTCCAACC-AAACACACCAA
2878549 TCAGAGAGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
36 45 0.98
37 1 0.02
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.13
Consensus pattern (35 bp):
CAGTCCAACCAAACACACCAAATGCTCATAAGAGC
Found at i:2879069 original size:149 final size:149
Alignment explanation
Indices: 2878788--2879073 Score: 437
Period size: 149 Copynumber: 1.9 Consensus size: 149
2878778 ATTCAACAAA
** * *
2878788 TCATATAGATGTTAAATTTTAAACTGTATAAACTTACTTGGACAGAATTGTAGTAGTTGCAAAAG
1 TCATATAGATGTTAAATTTTAAACCATACAAACTTACCTGGACAGAATTGTAGTAGTTGCAAAAG
* * * * * * * *
2878853 TTTAGGGACTATTCCGTTATTTTTCCTTTTCCACGAACATCTACGGGATCTTGATCTATAATGTA
66 TTCAGGGACTATTCCCTAATTTTTCCTTTTCCACGAACATCTACGAGATCTTAATATAAAATATA
2878918 AAATTTCATGTTATAATTT
131 AAATTTCATGTTATAATTT
* *
2878937 TCATATAGATGTTAAATTTTAAACCATACAAACTTACCTGGACTGAATTGTAGTAGTTGCTAAAG
1 TCATATAGATGTTAAATTTTAAACCATACAAACTTACCTGGACAGAATTGTAGTAGTTGCAAAAG
*
2879002 TTCAGGGACTATTCCCTAATTTTTCCTTTTCCACGAATATCTACGAGATCTTAATATAAAATATA
66 TTCAGGGACTATTCCCTAATTTTTCCTTTTCCACGAACATCTACGAGATCTTAATATAAAATATA
2879067 AAATTTC
131 AAATTTC
2879074 TCAATAATCA
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
149 122 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (149 bp):
TCATATAGATGTTAAATTTTAAACCATACAAACTTACCTGGACAGAATTGTAGTAGTTGCAAAAG
TTCAGGGACTATTCCCTAATTTTTCCTTTTCCACGAACATCTACGAGATCTTAATATAAAATATA
AAATTTCATGTTATAATTT
Found at i:2880911 original size:18 final size:17
Alignment explanation
Indices: 2880884--2880917 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2880874 AAATGTGTTA
*
2880884 AAAAATAATTTATATAAT
1 AAAAACAATTTA-ATAAT
2880902 AAAAACAATTTAATAA
1 AAAAACAATTTAATAA
2880918 ATTATGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAACAATTTAATAAT
Found at i:2882224 original size:18 final size:18
Alignment explanation
Indices: 2882187--2882225 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2882177 ATACTAATCT
* **
2882187 ATTATTTGAGTTATTCAA
1 ATTATTTGAATTATAAAA
2882205 ATTATTTGAATTATAAAA
1 ATTATTTGAATTATAAAA
2882223 ATT
1 ATT
2882226 CAATTCAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (18 bp):
ATTATTTGAATTATAAAA
Found at i:2882612 original size:19 final size:21
Alignment explanation
Indices: 2882578--2882618 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
2882568 AAAAGAATAT
*
2882578 ATATATATATATATTATCACC
1 ATATATATATATATTAACACC
2882599 ATATA-ATATA-ATTAACACC
1 ATATATATATATATTAACACC
2882618 A
1 A
2882619 ACGTAAACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 5 0.26
21 5 0.26
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATATATATATATTAACACC
Found at i:2883063 original size:17 final size:20
Alignment explanation
Indices: 2883027--2883077 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
2883017 AAAAATAACA
*
2883027 ATAAAATATATAAATTTATT
1 ATAAAATATATAAATCTATT
2883047 A-AAAATAT-TAAA-CTATT
1 ATAAAATATATAAATCTATT
2883064 ATAAAATATA-AAAT
1 ATAAAATATATAAAT
2883078 ATAATTATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 5 0.19
18 14 0.52
19 7 0.26
20 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAATATATAAATCTATT
Found at i:2883579 original size:23 final size:23
Alignment explanation
Indices: 2883552--2883595 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2883542 CAAAGGGGGG
*
2883552 AATTTTTTTATACATTTTATAAT
1 AATTTTTCTATACATTTTATAAT
**
2883575 AATTTTTCTATATTTTTTATA
1 AATTTTTCTATACATTTTATA
2883596 TTTTAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
AATTTTTCTATACATTTTATAAT
Found at i:2883609 original size:30 final size:30
Alignment explanation
Indices: 2883553--2883628 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
2883543 AAAGGGGGGA
* * *
2883553 ATTTTTTTATACATTTTATAATAATTTTTCT
1 ATTTTTTTATA-ATTTTAAAACAATTTTTAT
2883584 ATATTTTTTAT-ATTTTAAAACAATTTTTAT
1 AT-TTTTTTATAATTTTAAAACAATTTTTAT
2883614 ATTTTTTTAATAATT
1 ATTTTTTT-ATAATT
2883629 CTCTCTATGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 6 0.15
30 20 0.51
31 5 0.13
32 8 0.21
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTTTTTATAATTTTAAAACAATTTTTAT
Found at i:2883864 original size:27 final size:28
Alignment explanation
Indices: 2883792--2883882 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 28
2883782 TAGGATCTTC
* * *
2883792 TTATAA-ATTTTTCTATATCTTTTATATT
1 TTATAATATTTTTCTATAT-ATATATTTT
2883820 TTATAATATTTTTCCTATATATATATTTT
1 TTATAATATTTTT-CTATATATATATTTT
2883849 TTATAATA-TTTTCTATATATATATTTT
1 TTATAATATTTTTCTATATATATATTTT
*
2883876 TTCTAAT
1 TTATAAT
2883883 TTTATTGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 21 0.37
28 10 0.18
29 20 0.35
30 6 0.11
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATAATATTTTTCTATATATATATTTT
Done.