Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold432
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: 1706767
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 187295 characters in sequence are not A, C, G, or T
File 2 of 8
Found at i:165433 original size:87 final size:86
Alignment explanation
Indices: 165262--165460 Score: 242
Period size: 87 Copynumber: 2.3 Consensus size: 86
165252 GTGGCACTTT
* * *
165262 TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTCTCCTTTGTCCTCAAAGAGCAGGACA
1 TTTTGTCCTCAAAGAGCAGGACGTACTTTATTTTCCTCTCTCCTTTATCCTCAAAGAGCAAGACA
165327 CACTTCATTCCCTTCTTTTCTC
66 CACTTCATTCCCTTCTTTTC-C
* *
165349 TTTTGTCCTCAAAGAGCAGGACGTACTTTATTTTCCTCT-TTCTTTCATCCTCAAAGAGTAAGAC
1 TTTTGTCCTCAAAGAGCAGGACGTACTTTATTTTCCTCTCTCCTTT-ATCCTCAAAGAGCAAGAC
* * * *
165413 GCATTTCGTTTTCCTT-TTTTCC
65 ACACTTC-ATTCCCTTCTTTTCC
* * *
165435 -TTTATCCTCAAAAAGCAGGACATACT
1 TTTTGTCCTCAAAGAGCAGGACGTACT
165461 CTTTTCACTT
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
85 23 0.23
86 6 0.06
87 63 0.64
88 6 0.06
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (86 bp):
TTTTGTCCTCAAAGAGCAGGACGTACTTTATTTTCCTCTCTCCTTTATCCTCAAAGAGCAAGACA
CACTTCATTCCCTTCTTTTCC
Found at i:165519 original size:40 final size:40
Alignment explanation
Indices: 165459--165559 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
165449 GCAGGACATA
** *
165459 CTCTTTTCACTTTGTTCTCAAGAAGCAAGA-C-ACTTTCTTTT
1 CTCTTTTC-CTTTGACCTCAAGAAGCAAGACCTA-TTTC-ATT
* * *
165500 CTTTTTTCCTTTGACCTCAAGGAGCGAGACCTATTTCATT
1 CTCTTTTCCTTTGACCTCAAGAAGCAAGACCTATTTCATT
*
165540 CTCTTTTCCTTTGTCCTCAA
1 CTCTTTTCCTTTGACCTCAA
165560 AAAGTGGGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 37 0.74
41 12 0.24
42 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.44
Consensus pattern (40 bp):
CTCTTTTCCTTTGACCTCAAGAAGCAAGACCTATTTCATT
Found at i:168318 original size:11 final size:11
Alignment explanation
Indices: 168302--168326 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
168292 AATCAGCCTG
168302 AAAAAATTCAA
1 AAAAAATTCAA
168313 AAAAAATTCAA
1 AAAAAATTCAA
168324 AAA
1 AAA
168327 GGGGGACAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:168490 original size:51 final size:49
Alignment explanation
Indices: 168429--168598 Score: 155
Period size: 51 Copynumber: 3.3 Consensus size: 49
168419 TTTTTTCCCA
168429 GGGGATACTCCAACCCTGATTTTATTTTTAAAATACCAATTTTCCATATTC
1 GGGGATACTCCAACCCTGATTTTATTTTTAAAATACCAATTTTCCA-A-TC
**
168480 GGGGATACTCCAACTCC-GATTTTA-TTTCCAAATCACCAATTTCTCACAATC
1 GGGGATACTCCAAC-CCTGATTTTATTTTTAAAAT-ACCAATTT-TC-CAATC
* * *** * ** *
168531 GGGGACACTCCAACCCCGGCCTTATTTCTAAAGCATCAATTTTCCACAATC
1 GGGGATACTCCAACCCTGATTTTATTTTTAAAATACCAATTTT-C-CAATC
168582 GGGGATACTCCAACCCT
1 GGGGATACTCCAACCCT
168599 TTTATTTTTG
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
50 10 0.10
51 77 0.79
52 9 0.09
53 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (49 bp):
GGGGATACTCCAACCCTGATTTTATTTTTAAAATACCAATTTTCCAATC
Found at i:170404 original size:20 final size:20
Alignment explanation
Indices: 170379--170455 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
170369 GTAAAAAGAC
170379 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
170399 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
170419 TGCATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
170439 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
170456 CTGGGTAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:171318 original size:33 final size:33
Alignment explanation
Indices: 171281--171354 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 33
171271 ATCGACTTGC
*
171281 GTGGGCTTTTCAAAAAAGTTGCCACTAACATAT
1 GTGGGCTTTTCAAAAAAGTTACCACTAACATAT
* * * * *
171314 GTGGGC-TTTGAAAAGAGTTACCACTGACTTGT
1 GTGGGCTTTTCAAAAAAGTTACCACTAACATAT
171346 GTGGGCTTT
1 GTGGGCTTT
171355 GAAAGGGTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 26 0.76
33 8 0.24
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (33 bp):
GTGGGCTTTTCAAAAAAGTTACCACTAACATAT
Found at i:171558 original size:28 final size:28
Alignment explanation
Indices: 171294--171793 Score: 414
Period size: 28 Copynumber: 17.3 Consensus size: 28
171284 GGCTTTTCAA
* *
171294 AAAAGTTGCCACTAACATATGTGGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTG
*
171324 AAAAGAGTTACCACTGACTTGTGTGGGCTTTG
1 AAAAGA--TGCCACTGAC-T-TGTGGGCTTTG
* * * * *
171356 AAAGGGTTCCACTGACTTGTAGGATTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
171384 AAAAAAGAGTTGCCACCGACTTATGTGGGTTTTG
1 --AAAAGA--TGCCACTGAC-T-TGTGGGCTTTG
* * *
171418 AAAGGATGCCACTAACTTGTGGGCTTTA
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
171446 AAAAGGATGCCACTGACTCGTGGGCTTTA
1 AAAA-GATGCCACTGACTTGTGGGCTTTG
*
171475 AAAAGGATGCCACTGACTTGTAGGCTTTTG
1 AAAA-GATGCCACTGACTTGTGGGC-TTTG
* *
171505 -AAAGAATG-C-CTGACTTATAGGCTTTG
1 AAAAG-ATGCCACTGACTTGTGGGCTTTG
* *
171531 AAAAGAAGCCACTGCCTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
171559 AAAA-AGTGCCACTGACTTGTAGGCTTTG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTG
* *
171587 AAAGGGTATGCCACTGACTTGTGGGGTTTG
1 AAA-AG-ATGCCACTGACTTGTGGGCTTTG
* * * * * *
171617 AAAGGGTGTCACTAACCTGTAGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
171645 AAAGGATGCCACTGACTTGTGGTCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* * * * * *
171673 GAAGGGTGTCACTAACTTGTAGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
171701 AAAGGATGCCACTGACTTGTGGTCTTTTG
1 AAAAGATGCCACTGACTTGTGGGC-TTTG
*
171730 AAGAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
171758 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
171786 AAAAGATG
1 AAAAGATG
171794 AACGTTCTAG
Statistics
Matches: 382, Mismatches: 69, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.02
27 18 0.05
28 178 0.47
29 80 0.21
30 52 0.14
31 1 0.00
32 37 0.10
33 1 0.00
34 9 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (28 bp):
AAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:171638 original size:141 final size:140
Alignment explanation
Indices: 171407--171788 Score: 432
Period size: 141 Copynumber: 2.7 Consensus size: 140
171397 CACCGACTTA
* * * * *
171407 TGTGGGTTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAAGGATGCCACTGACTCGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGT-GGCTTTGAAAGGGATGCCACTGACTTGTGGGCT
* *
171472 TTAAAAAGGATGCCACTGACTTGTAGGCTTTTGAAAGAATG-C-CTGACTTATAGG-CTTTGAAA
65 TT-GAAAGGATGCCACTAACTTGTAGGC-TTTGAAAGAATGCCACTGACTTAT-GGTCTTTGAAA
**
171534 AGAAGCCACTGCCT
127 AGAAGCCACTAACT
*
171548 TGTGGGCTTTGAAA-AAGTGCCACTGACTTGTAGGCTTTGAAAGGGTATGCCACTGACTTGTGGG
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGT-GGCTTTGAAAGGG-ATGCCACTGACTTGTGGG
* * * * * * * *
171612 GTTTGAAAGGGTGTCACTAACCTGTAGGCTTTGAAAGGATGCCACTGACTTGTGGTCTTTGGAAG
63 CTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAGAATGCCACTGACTTATGGTCTTTGAAAA
** *
171677 GGTGTCACTAACT
128 GAAGCCACTAACT
* *
171690 TGTAGGCTTTGAAAGGATGCCACTGACTTGTGGTCTTTTG-AAGAGATGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGG-C-TTTGAAAGGGATGCCACTGACTTGTGGGC
*
171754 TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAA
64 TTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAA
171789 AGATGAACGT
Statistics
Matches: 203, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
140 12 0.06
141 111 0.55
142 75 0.37
143 5 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (140 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGCTTTGAAAGGGATGCCACTGACTTGTGGGCTT
TGAAAGGATGCCACTAACTTGTAGGCTTTGAAAGAATGCCACTGACTTATGGTCTTTGAAAAGAA
GCCACTAACT
Found at i:173064 original size:21 final size:20
Alignment explanation
Indices: 173038--173123 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 20
173028 ATCTGGACCC
173038 CTTTTTTATTTGTTTGTTTTT
1 CTTTTTTATTTGTTT-TTTTT
*
173059 CTTTTTTTTTTG-TTTTTTT
1 CTTTTTTATTTGTTTTTTTT
**
173078 CTTGGTTTT-TTT-TTGGTTTT
1 CTT--TTTTATTTGTTTTTTTT
* *
173098 GTTTTGT-TTTGTTTTTTTT
1 CTTTTTTATTTGTTTTTTTT
*
173117 GTTTTTT
1 CTTTTTT
173124 TTGGTATGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
18 6 0.11
19 20 0.38
20 12 0.23
21 15 0.28
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (20 bp):
CTTTTTTATTTGTTTTTTTT
Found at i:173074 original size:11 final size:11
Alignment explanation
Indices: 173039--173126 Score: 81
Period size: 11 Copynumber: 8.0 Consensus size: 11
173029 TCTGGACCCC
*
173039 TTTTTTATTTG
1 TTTTTTTTTTG
* *
173050 -TTTGTTTTTC
1 TTTTTTTTTTG
173060 TTTTTTTTTTG
1 TTTTTTTTTTG
*
173071 TTTTTTTCTTG
1 TTTTTTTTTTG
*
173082 GTTTTTTTTTG
1 TTTTTTTTTTG
* *
173093 GTTTTGTTTTG
1 TTTTTTTTTTG
173104 TTTTGTTTTTT-
1 TTTT-TTTTTTG
173115 TTGTTTTTTTTG
1 TT-TTTTTTTTG
173127 GTATGAAGGA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.11
11 48 0.77
12 7 0.11
ACGTcount: A:0.01, C:0.02, G:0.14, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:182634 original size:38 final size:38
Alignment explanation
Indices: 182583--182658 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
182573 TTTATCAATA
182583 ACTATCTGTTAAGGAATTATGTATTTAAATATTCTATG
1 ACTATCTGTTAAGGAATTATGTATTTAAATATTCTATG
182621 ACTATCTGTTAAGGAATTATGTATTTAAATATTCTATG
1 ACTATCTGTTAAGGAATTATGTATTTAAATATTCTATG
182659 TATTTAACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (38 bp):
ACTATCTGTTAAGGAATTATGTATTTAAATATTCTATG
Found at i:185482 original size:170 final size:172
Alignment explanation
Indices: 185148--185520 Score: 423
Period size: 170 Copynumber: 2.2 Consensus size: 172
185138 TGCTAGGTGG
* * * * *
185148 CCCTAAACTTTTTAG-TATTTGCATTTTGG-CCACTATACTTCAAAATAACATGGGAACTCATCA
1 CCCTAAAC--TTTAGATATTTGCATTTTGGTCCACTATACATCAAAATAAAAAGAGAACACATCA
* * * ** * *
185211 TTTAAAGCATGATATTAGCTCAACAACAGCAGCAAAATTCAGCTAAGAAACATCTTAAATTTGGC
64 TTTAAAGCATGAAATCAGCTCAACAACAGCAGCAAAATACAGAAAAGAAACATCTTAAATTCGAC
* * *
185276 CAAACACAACATTTCTAAAGAAAATTCAATTTTTGCATACAAGT
129 CAAACACAACATTTCTAAACAAAAGTCAAGTTTTGCATACAAGT
*
185320 CCCTATACTTTAGATATTTGCATTTTGGTCC-CTATACATC-AAATAAAAAGAGAACACATCATT
1 CCCTAAACTTTAGATATTTGCATTTTGGTCCACTATACATCAAAATAAAAAGAGAACACATCATT
* * * * ***
185383 TAAAGCATGAAATCAGCTTAATAACAGCAGCAAAAATACATAAAAGAAATATCTTGGGTTCGACC
66 TAAAGCATGAAATCAGCTCAACAACAGCAGC-AAAATACAGAAAAGAAACATCTTAAATTCGACC
*** *
185448 ATGTACAACATTTCTAAACAAAAGTC-GGTTTTGCATACAAGT
130 AAACACAACATTTCTAAACAAAAGTCAAGTTTTGCATACAAGT
* *
185490 CCCTAAACTTTGGATATTTGCATTTTAGTCC
1 CCCTAAACTTTAGATATTTGCATTTTGGTCC
185521 TTAACCACTT
Statistics
Matches: 168, Mismatches: 30, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
170 93 0.55
171 66 0.39
172 9 0.05
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (172 bp):
CCCTAAACTTTAGATATTTGCATTTTGGTCCACTATACATCAAAATAAAAAGAGAACACATCATT
TAAAGCATGAAATCAGCTCAACAACAGCAGCAAAATACAGAAAAGAAACATCTTAAATTCGACCA
AACACAACATTTCTAAACAAAAGTCAAGTTTTGCATACAAGT
Found at i:185932 original size:2 final size:2
Alignment explanation
Indices: 185925--185953 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
185915 AAAAATGCTG
185925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
185954 AAAAACTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:186067 original size:22 final size:20
Alignment explanation
Indices: 186033--186079 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
186023 ACTAGCCTAA
*
186033 TTTC-TCTATTTTTTTCTATAT
1 TTTCTTCTAGTTTTTTCT-T-T
186054 TTTCTTCTAGTTTTTTCTTT
1 TTTCTTCTAGTTTTTTCTTT
186074 TTTCTT
1 TTTCTT
186080 TCTCTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 5 0.21
22 12 0.50
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTCTTCTAGTTTTTTCTTT
Found at i:186412 original size:18 final size:18
Alignment explanation
Indices: 186389--186429 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
186379 CTACAAAAGG
186389 TAAAATAAA-TAAATAAAA
1 TAAAATAAATTAAA-AAAA
*
186407 TAAAATAAATTAAAAAAC
1 TAAAATAAATTAAAAAAA
186425 TAAAA
1 TAAAA
186430 GGTTGAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAATAAATTAAAAAAA
Found at i:187059 original size:20 final size:19
Alignment explanation
Indices: 187030--187069 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
187020 TATATTTCAG
187030 AAAAAGGAAAATTTTAATGA
1 AAAAAGGAAAATTTT-ATGA
*
187050 AAAAATGAAAATTTTATGA
1 AAAAAGGAAAATTTTATGA
187069 A
1 A
187070 GATGAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAAGGAAAATTTTATGA
Found at i:187063 original size:165 final size:161
Alignment explanation
Indices: 186667--187182 Score: 553
Period size: 166 Copynumber: 3.1 Consensus size: 161
186657 ATTTTCTCGA
* * *
186667 AAAAATTTATGGAGTAGAAAACTCGATTTTTCAAAGAAAAGG-AAATTTCAAGGAAAAAATTCAA
1 AAAAATTTACGGAGTAGAAAACTCCATATTTC-AA-AAAAGGAAAATTTCAAGGAAAAAATTCAA
* * * **
186731 AATTTATGAAAACGAATGAATTTTT--TATCTGAATTAATATGAAATAAATAATAATATTTTCTG
64 AATTTATGGAAATGAATGAATTTTTGAAATCTGAATTAATATGAAATAAATAATAATATTTGATG
* *
186794 AATTTTAAAAGTAAGAAAAAAGAAAAATCCCCTTG
129 AATTTTAAAATTAA-AAACAAGAAAAA-CCCCTTG
* *
186829 AAAGAATTTATGGAGTAGAAAACTCCGTATTTCAAAAAA--AAAGGGATTTCAAGGAAAAAATTC
1 AAA-AATTTACGGAGTAGAAAACTCCATATTTCAAAAAAGGAAA---ATTTCAAGGAAAAAATTC
*
186892 AAAATTTATGGAAATGAATGAATTTTTGAAATCCGAATTAATATGAAATAAATAATAATATTTGA
62 AAAATTTATGGAAATGAATGAATTTTTGAAATCTGAATTAATATGAAATAAATAATAATATTTGA
*
186957 TAAATTTTAAAATTCAAAAACCAAGAAAAAGCCCCTTG
127 TGAATTTTAAAATT-AAAAA-CAAGAAAAA-CCCCTTG
* ** * * *
186995 AAACAATTTACGGAATAGAAAACTTTATATTTCAGAAAAAGGAAAATTTTAATGAAAAAA-TGAA
1 AAA-AATTTACGGAGTAGAAAACTCCATATTTCA-AAAAAGGAAAATTTCAAGGAAAAAATTCAA
* * * **
187059 AATTTTAT-GAAGATGAATAAATTTTTGAAAAT-TGATTTAATTTGAGTTAAATAATAATATTTG
64 AA-TTTATGGAA-ATGAATGAATTTTTG-AAATCTGAATTAATATGAAATAAATAATAATATTTG
*
187122 ATGAATTTTATAAATTAAAAACAGAGAAAAATCCCTTCG
126 ATGAATTTTA-AAATTAAAAACA-AGAAAAACCCCTT-G
*
187161 AAAACATTTACGGAGTAAAAAA
1 AAAA-ATTTACGGAGTAGAAAA
187183 TAGGAGAAAT
Statistics
Matches: 303, Mismatches: 32, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
160 2 0.01
161 4 0.01
162 5 0.02
163 69 0.23
165 63 0.21
166 143 0.47
167 14 0.05
169 3 0.01
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (161 bp):
AAAAATTTACGGAGTAGAAAACTCCATATTTCAAAAAAGGAAAATTTCAAGGAAAAAATTCAAAA
TTTATGGAAATGAATGAATTTTTGAAATCTGAATTAATATGAAATAAATAATAATATTTGATGAA
TTTTAAAATTAAAAACAAGAAAAACCCCTTG
Found at i:188635 original size:84 final size:83
Alignment explanation
Indices: 188484--189033 Score: 359
Period size: 84 Copynumber: 6.5 Consensus size: 83
188474 AAGGAAGAAA
* * * * *** * ** * *
188484 GGGTTTACCGAGGATTAAGTCGATAGGTAAACATTGGATGGAGGTTAACCAAAGATTGAGTTGAT
1 GGGTTTACCGAGGACTAAGTCGATAGGTAAACAATGGATGAAGGTTGACTGGAGACTGAACTAAC
188549 AGGTCACCATAAGGGTAAT
66 AGGTCACCA-AAGGGTAAT
* * *
188568 GGGTTTATCGAGGACTAAGTCG-TCAAGTAAACAATGGATGAAGGTTGACTGGAGACTGAATTAA
1 GGGTTTACCGAGGACTAAGTCGAT-AGGTAAACAATGGATGAAGGTTGACTGGAGACTGAACTAA
* * *
188632 TAGGTCACC-AAGGAGAAAA
65 CAGGTCACCAAAGG-GTAAT
* * * * * *
188651 GGGATTTA-CTAGGGATTAAG-CTGATAAGTAAACAACGGATGAAGGTTGACTAGAGACTGAGCT
1 GGG-TTTACCGA-GGACTAAGTC-GATAGGTAAACAATGGATGAAGGTTGACTGGAGACTGAACT
* *
188714 AACAAGTCACCAAAGAGAG-AAG
63 AACAGGTCACCAAAG-G-GTAAT
* * * * *
188736 GGGTTTACCGGGGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGACTGGAGACTGAGCTGAC
1 GGGTTTACCGAGGACTAAGTCGATAGGTAAACAATGGATGAAGGTTGACTGGAGACTGAACTAAC
* * *
188801 AGGTCGCCATAAAGGCAAT
66 AGGTCACCA-AAGGGTAAT
* * * * * * *
188820 GGGTTTTGCCG-GGAACTAAGTCGACAAGTAAAAAATGGATAAAAGGTTGACAGGGGACT-AAGC
1 GGG-TTTACCGAGG-ACTAAGTCGATAGGTAAACAATGGAT-GAAGGTTGACTGGAGACTGAA-C
** * *
188883 CGATAGGTCACCAAAGAGATAA-
62 TAACAGGTCACCAAAG-GGTAAT
* *
188905 GAGGTTTACCGAGGACTGAG-CTGATAGGTAAATAATGGATGAAGGTTGA-TAGGAGACT-AAGC
1 G-GGTTTACCGAGGACTAAGTC-GATAGGTAAACAATGGATGAAGGTTGACT-GGAGACTGAA-C
*
188967 TAACAGGTCACCACAAAGGTAAT
62 TAACAGGTCACCA-AAGGGTAAT
* * * * *
188990 AGGTTTATCGAGGACTAAG-CCATCAGGTAAACGATGGATAAAGG
1 GGGTTTACCGAGGACTAAGTCGAT-AGGTAAACAATGGATGAAGG
189034 GTTAACCGAG
Statistics
Matches: 372, Mismatches: 70, Indels: 48
0.76 0.14 0.10
Matches are distributed among these distances:
82 4 0.01
83 13 0.03
84 246 0.66
85 73 0.20
86 36 0.10
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (83 bp):
GGGTTTACCGAGGACTAAGTCGATAGGTAAACAATGGATGAAGGTTGACTGGAGACTGAACTAAC
AGGTCACCAAAGGGTAAT
Found at i:188933 original size:170 final size:167
Alignment explanation
Indices: 188719--189119 Score: 459
Period size: 170 Copynumber: 2.4 Consensus size: 167
188709 GAGCTAACAA
* *
188719 GTCACCAAAGAGAGAAGGGGTTTACCGGGGACTAAGCCGATAGGTAAATAATGGATGAAGGTTGA
1 GTCACCAAAGAGA-AA-GGGTTTACCGAGGACTGAGCCGATAGGTAAATAATGGATGAAGGTTGA
* * * * * *
188784 CT-GGAGACTGAGCTGACAGGTCGCCATAAAGGCAATGGGTTT-TGCCG-GGAACTAAGTCGA-C
64 -TAGGAGACTAAGCTAACAGGTCACCACAAAGGCAATAGGTTTAT--CGAGG-ACTAAG-CCATC
* * *
188845 AAGTAAAAAATGGATAAAAGGTTGACAGGGGACTAAGCCGATAG
124 AAGTAAAAAATGGATAAAAGGTTAACAGAGGACTAAGCCAATAG
*
188889 GTCACCAAAGAGATAAGAGGTTTACCGAGGACTGAGCTGATAGGTAAATAATGGATGAAGGTTGA
1 GTCACCAAAGAGA-AAG-GGTTTACCGAGGACTGAGCCGATAGGTAAATAATGGATGAAGGTTGA
* *
188954 TAGGAGACTAAGCTAACAGGTCACCACAAAGGTAATAGGTTTATCGAGGACTAAGCCATCAGGTA
64 TAGGAGACTAAGCTAACAGGTCACCACAAAGGCAATAGGTTTATCGAGGACTAAGCCATCAAGTA
** * * *
189019 AACGATGGATAAAGGGTTAACCGAGGACTAAGCTAATAG
129 AAAAATGGATAAAAGGTTAACAGAGGACTAAGCCAATAG
* * * * *
189058 GTCACTAAAGAAAGAAAGGGTTTACCGATGATTGAGCCGACATGTAAATAATGGATGAAGGT
1 GTCACCAAAG--AGAAAGGGTTTACCGAGGACTGAGCCGATAGGTAAATAATGGATGAAGGT
189120 CAAAGTGAGG
Statistics
Matches: 198, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
168 2 0.01
169 94 0.47
170 98 0.49
171 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.20
Consensus pattern (167 bp):
GTCACCAAAGAGAAAGGGTTTACCGAGGACTGAGCCGATAGGTAAATAATGGATGAAGGTTGATA
GGAGACTAAGCTAACAGGTCACCACAAAGGCAATAGGTTTATCGAGGACTAAGCCATCAAGTAAA
AAATGGATAAAAGGTTAACAGAGGACTAAGCCAATAG
Found at i:196259 original size:13 final size:13
Alignment explanation
Indices: 196241--196267 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
196231 ACAGAGATCA
196241 AATGTATCGATAC
1 AATGTATCGATAC
196254 AATGTATCGATAC
1 AATGTATCGATAC
196267 A
1 A
196268 TTTGAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:197146 original size:47 final size:47
Alignment explanation
Indices: 197074--197598 Score: 412
Period size: 47 Copynumber: 10.8 Consensus size: 47
197064 AAAGGATGTT
* * * * *
197074 AATGTGTTGATTCACA-GTCAGCGACATTAGATTTGAAGAAGAATGCC
1 AATGTGTTGATTCA-AGGCCAACGACATTGGACTTAAAGAAGAATGCC
*
197121 AATGTGTTGAGTCAAGGCCAACGACATTGGACTTAAAGAAGAATGCC
1 AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGAAGAATGCC
** * *
197168 AATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGTC
1 AATGTGTTGATTCAAGGCCAACGACATT-GGACTTAAAGA--A-GAATGC--C
* * * *
197221 AATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
1 AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGAAGAA--TGCC
* * * * *
197270 AATGTGCTAAGTCAAGGCCAGCGACATTGGACTTAAAGAATAATGCC
1 AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGAAGAATGCC
** * *
197317 AATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCC
1 AATGTGTTGATTCAAGGCCAACGACATT-GGACTTAAAGA--A-GAA--TGCC
* * * *
197370 AATATGCTGATTCAAGGCCAATGATATTGGACTTAAAG--G--TGCC
1 AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGAAGAATGCC
* *
197413 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAATGCC
1 AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGAAGAATGCC
** * *
197460 AATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCC
1 AATGTGTTGATTCAAGGCCAACGACATT-GGACTTAAAGA--A-GAA--TGCC
* * * * * *
197513 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAAAAAATGGC
1 AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAG--AAGAATGCC
** * * *
197562 AATGTGCCGAGTCAAGGCCAGCGACATTGGTCTTAAA
1 AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAA
197599 AACAAAGGTG
Statistics
Matches: 386, Mismatches: 65, Indels: 52
0.77 0.13 0.10
Matches are distributed among these distances:
43 37 0.10
45 1 0.00
46 1 0.00
47 124 0.32
48 27 0.07
49 73 0.19
50 3 0.01
51 13 0.03
52 26 0.07
53 80 0.21
54 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (47 bp):
AATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGAAGAATGCC
Found at i:197287 original size:149 final size:149
Alignment explanation
Indices: 197024--197598 Score: 783
Period size: 149 Copynumber: 3.9 Consensus size: 149
197014 GGACCAATAC
* * * * ** * *
197024 GTTGATTCACGGCCAACGATATTGGG-TTTAAAGATGAGAAAAAGGATGTTAATGTGTTGATTCA
1 GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGAT--GACAAAGG-CGCCAATATGCTGATTCA
* * * * * * *
197088 CA-GTCAGCGACATTAGATTTGAAGAAGAA--TGCCAATGTGTTGAGTCAAGGCCAACGACATTG
63 -AGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTG
197150 GACTTAAAGAAGAATGCCAATGT
127 GACTTAAAGAAGAATGCCAATGT
* *
197173 GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGTCAATATGTTGATTCAAGG
1 GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGG
* *
197238 CCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCGACATTGGACT
66 CCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGACT
*
197303 TAAAGAATAATGCCAATGT
131 TAAAGAAGAATGCCAATGT
197322 GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGG
1 GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGG
** *
197387 CCAATGATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
66 CCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGACT
197446 TAAAGAAGAATGCCAATGT
131 TAAAGAAGAATGCCAATGT
197465 GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGG
1 GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGG
* ** * * *
197530 CCAGCGATATTGGACTTAAAGAAAAAAATGGCAATGTGCCGAGTCAAGGCCAGCGACATTGGTCT
66 CCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGACT
197595 TAAA
131 TAAA
197599 AACAAAGGTG
Statistics
Matches: 384, Mismatches: 32, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
143 137 0.36
146 1 0.00
147 36 0.09
148 8 0.02
149 193 0.50
150 9 0.02
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (149 bp):
GTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGG
CCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGACT
TAAAGAAGAATGCCAATGT
Found at i:197391 original size:19 final size:19
Alignment explanation
Indices: 197367--197432 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
197357 TGACAAAGGC
197367 GCCAATATGCTGATTCAAG
1 GCCAATATGCTGATTCAAG
** *
197386 GCCAATGATATTGGACTTAAAGG
1 GCCAAT-ATGCT-GA-TTCAA-G
*
197409 TGCCAATGTGCTGATTCAAG
1 -GCCAATATGCTGATTCAAG
197429 GCCA
1 GCCA
197433 GCGACATTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 10 0.29
20 4 0.11
21 6 0.17
22 6 0.17
23 3 0.09
24 6 0.17
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (19 bp):
GCCAATATGCTGATTCAAG
Found at i:197415 original size:96 final size:94
Alignment explanation
Indices: 197220--197489 Score: 271
Period size: 96 Copynumber: 2.9 Consensus size: 94
197210 ACAAAGGCGT
* * * *
197220 CAATATGTTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGAAGGTGCCAATGTGCTAAGTCA
1 CAATGTGTTGATTCAAGGCCAGCGACATTGGGACTTAAAGATGAAGGCGCCAATATGCTAAGTCA
*
197284 AGGCCAGCGACATTGGACTTAAAGAATAATGC
66 AGGCCAACGACATTGGACTTAAAG---AATGC
* ** * *
197316 CAATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CAATGTGTTGATTCAAGGCCAGCGACATTGGGACTTAAAGATG---AAGGCGCCAATATGCTAAG
* * *
197381 TCAAGGCCAATGATATTGGACTTAAAG-GTGC
63 TCAAGGCCAACGACATTGGACTTAAAGAATGC
* * * * * * *
197412 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAAGAA--TGCCAATGTGTTGATTCA
1 CAATGTGTTGATTCAAGGCCAGCGACATTGGGACTTAAAGATGAAGGCGCCAATATGCTAAGTCA
197474 AGGCCAACGACATTGG
66 AGGCCAACGACATTGG
197490 GTTTTAAAGA
Statistics
Matches: 147, Mismatches: 23, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
90 29 0.20
92 2 0.01
95 10 0.07
96 56 0.38
97 11 0.07
100 39 0.27
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (94 bp):
CAATGTGTTGATTCAAGGCCAGCGACATTGGGACTTAAAGATGAAGGCGCCAATATGCTAAGTCA
AGGCCAACGACATTGGACTTAAAGAATGC
Found at i:197422 original size:43 final size:43
Alignment explanation
Indices: 197361--197489 Score: 168
Period size: 43 Copynumber: 2.9 Consensus size: 43
197351 TAAAGATGAC
* * * *
197361 AAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
*
197404 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
*
197447 AAAGAAGAATGCCAATGTGTTGATTCAAGGCCAACGACATTGG
1 AAAG--G--TGCCAATGTGCTGATTCAAGGCCAACGACATTGG
197490 GTTTTAAAGA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 42 0.56
45 1 0.01
47 32 0.43
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
Found at i:208531 original size:23 final size:24
Alignment explanation
Indices: 208501--208551 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
208491 GCTCGACTTA
*
208501 AAATAGCCCTTGATTTAGTTATG-
1 AAATAGCCATTGATTTAGTTATGT
208524 AAATAGCCATTGATTTAGTTATGT
1 AAATAGCCATTGATTTAGTTATGT
208548 AAAT
1 AAAT
208552 GATGAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (24 bp):
AAATAGCCATTGATTTAGTTATGT
Found at i:210345 original size:157 final size:155
Alignment explanation
Indices: 209953--210443 Score: 588
Period size: 157 Copynumber: 3.1 Consensus size: 155
209943 ATAAAAGATC
** *
209953 AAAATTTTCTCCAAAATATTAATTCAATTTAATTTTATTTATTTTTGAAAATA-TCATTTCATAC
1 AAAATTTAATCCAAAATATTAATTAAATTTAATTTTATTTATTTTTGAAAATACT-ATTTCATAC
* * * * ***
210017 CCTAATGAAAGCTCGAAAGAATATGAAAGATTTTTTTTGAAATCTTTTATACCCCTACGGATGCC
65 CCTAATGGAAGCCCGAAAGGATA-CAAA-AACGTTTTTGAAATCTTTTATA-CCCTACGGATGCC
210082 CATAGGAATATAAAAGATTAGAAAAAATAGAT
127 CATAGGAATATAAAAGATTAGAAAAAAT---T
** * * ** * *
210114 ATTAGAATTTTTTTCGATAATACCAATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTCA
1 A--A-AA-TTTAATCCAAAATATTAATTAAATTTAATTTTATTTATTTTTGAAAATACTATTTCA
* * * *
210179 TACCCTAATGGAAGCCCAAAAGGACACAAAAACGTTTTTGGAATCTTTTATATCCCTATGGATGC
62 TACCCTAATGGAAGCCCGAAAGGATACAAAAACGTTTTTGAAATCTTTTATA-CCCTACGGATGC
210244 CCATAGGAATATAAAAGATTAGAAAAAATT
126 CCATAGGAATATAAAAGATTAGAAAAAATT
210274 AAAATTTAATCCAAAAGTATTAATTAAATTTAATTTTATTTATTTTTGAAAATACTATTTCATAC
1 AAAATTTAATCCAAAA-TATTAATTAAATTTAATTTTATTTATTTTTGAAAATACTATTTCATAC
* * * *
210339 CTTAATGGAAGCCCGAAAGGATACGAAAACGTTTTTGAAATCTTTTATACCCTTACAGATGCCTA
65 CCTAATGGAAGCCCGAAAGGATACAAAAACGTTTTTGAAATCTTTTATACCC-TACGGATGCCCA
210404 TAGGAATATAAAAGATTAGAAAAAATAGTT
129 TAGGAATATAAAAGATTAG-AAAAA-A-TT
210434 AAAATTTAAT
1 AAAATTTAAT
210444 TTATCACTAA
Statistics
Matches: 285, Mismatches: 35, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
156 11 0.04
157 118 0.41
158 6 0.02
159 1 0.00
160 14 0.05
161 1 0.00
163 59 0.21
164 5 0.02
165 70 0.25
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (155 bp):
AAAATTTAATCCAAAATATTAATTAAATTTAATTTTATTTATTTTTGAAAATACTATTTCATACC
CTAATGGAAGCCCGAAAGGATACAAAAACGTTTTTGAAATCTTTTATACCCTACGGATGCCCATA
GGAATATAAAAGATTAGAAAAAATT
Found at i:212603 original size:166 final size:164
Alignment explanation
Indices: 212035--212832 Score: 552
Period size: 166 Copynumber: 4.9 Consensus size: 164
212025 TTACTATATA
* * * * * * * *
212035 CAAAAAAAATTCAAAATTAATGAAATAAATTAAATTTTTCAAAAATGAATTAATGGGA-ATTCAA
1 CAAAAAAAAATCAAAATTTATGAAATGAA-TGAATTTTTGAAAAATGATTTAATGTGAGA-TAAA
* * * * ** * * * *
212099 TGACAACATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAAT-TTCCTCAAAAAAATTTAAGG
64 TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCC-CAAAAAAATTTACGG
* * ** *
212163 AGTAGAAAACT-TGGT-TTTTTAGAGAAAAGGGAATTT
128 AGTAGAAAAATCTCGTATTTCGAAAG-AAAGGGAATTT
* * * ** * * * * *
212199 TAAAGAAAAATTCAAAATTTAGGAAAATGAATGAATTTTAAAAAAACTGAATCACTATGAAATAA
1 CAAA-AAAAAATCAAAATTTATG-AAATGAATGAATTTTTGAAAAA-TGATTTAATGTGAGATAA
** *** *
212264 ATAATAATATTTGATGAATTTT-----TTTTAAA--AA-AAAAATCCTCTTGAAAAAATTTACAG
63 ATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGG
* * * * * * *
212321 AGTATAAAACTC-CATATTTTGGAA-AATGGGGATTT
128 AGTAGAAAAATCTCGTATTTCGAAAGAAAGGGAATTT
* * * * * *
212356 C-----AAATTCAAAATTTATGGAAATGAATGAATTATTGAAAAATGAATTAATATAAAATAAAT
1 CAAAAAAAAATCAAAATTTAT-GAAATGAATGAATTTTTGAAAAATGATTTAATGTGAGATAAAT
* * *
212416 AATAATATTTTATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCCCAAAAAAATTTACGGAG
65 AATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGGAG
212481 TAGAAAAATCT-GTATTTC-AGAA-AAAGGGAAATTT
130 TAGAAAAATCTCGTATTTCGA-AAGAAAGGG-AATTT
* * *
212515 CAAGAAAAAAATCAAAATTTTATGAAGATGAATAAATTTTTGAAAAATGATTTGATGTGAGTTAA
1 CAA-AAAAAAATCAAAA-TTTATGAA-ATGAATGAATTTTTGAAAAATGATTTAATGTGAGATAA
* * * * *
212580 ATAATAATATTTGATAAATTTTAAAAATTAAAAA-CAGAGAAAAAT-CTCTCTAAAACATTTACC
63 ATAATAATATTTGATGAATTTTAAAAATTAAAAACCA-AGAAAAATCCTCCCAAAAAAATTTACG
* *
212643 GAGTAG-AAAATTTCGTATTTCGAAAGAAAGGGAGTTT
127 GAGTAGAAAAATCTCGTATTTCGAAAGAAAGGGAATTT
* * * * * *
212680 TAAAAAAAATTAAAAAAATTCTGAAAGTGAATGAATTTTTGAAAACTGATTTAATGTGAGATAAA
1 CAAAAAAAAAT-CAAAATTTATGAAA-TGAATGAATTTTTGAAAAATGATTTAATGTGAGATAAA
* * * * * *
212745 TAATCATATTTGATGAATTTGAAAAATTAAAAACCAAAAAAAATCCTCCCGAAGAAATTTACGAA
64 TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGGA
*
212810 GAAG-AAAATCTCGTAATTT-GAAA
129 GTAGAAAAATCTCGT-ATTTCGAAA
212833 ATATGAGGAA
Statistics
Matches: 503, Mismatches: 95, Indels: 71
0.75 0.14 0.11
Matches are distributed among these distances:
150 36 0.07
151 33 0.07
152 1 0.00
155 4 0.01
157 11 0.02
158 71 0.14
159 13 0.03
161 7 0.01
163 1 0.00
164 93 0.18
165 112 0.22
166 120 0.24
167 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (164 bp):
CAAAAAAAAATCAAAATTTATGAAATGAATGAATTTTTGAAAAATGATTTAATGTGAGATAAATA
ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGGAGT
AGAAAAATCTCGTATTTCGAAAGAAAGGGAATTT
Found at i:212757 original size:164 final size:165
Alignment explanation
Indices: 212363--212806 Score: 479
Period size: 164 Copynumber: 2.7 Consensus size: 165
212353 TTTCAAATTC
* * * * * * *
212363 AAAATTTATGGAAA-TGAATGAATTATTGAAAAATGAATTAATATAAAATAAATAATAATATTTT
1 AAAAATTAT-GAAAGTGAATGAATTTTTGAAAAATGATTTAATGTGAGATAAATAATAATATTTG
* *
212427 ATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCCCAAAAAAATTTACGGAGTAGAAAAATCT
65 ATGAATTTTAAAAATTAAAAA-CAAGAAAAATCCCCCCAAAAAAATTTACCGAGTAGAAAAATCT
*
212492 GTATTTCAGAAAAAGGGAAATTTCAAGAAAAAAATCA
129 GTATTTCAGAAAAAGGGAAATTTCAAGAAAAAAATAA
** * * *
212529 AAATTTTATG-AAGATGAATAAATTTTTGAAAAATGATTTGATGTGAGTTAAATAATAATATTTG
1 AAAAATTATGAAAG-TGAATGAATTTTTGAAAAATGATTTAATGTGAGATAAATAATAATATTTG
* * * * * *
212593 ATAAATTTTAAAAATTAAAAACAGAGAAAAAT-CTCTCTAAAACATTTACCGAGTAG-AAAATTT
65 ATGAATTTTAAAAATTAAAAACA-AGAAAAATCCCCCCAAAAAAATTTACCGAGTAGAAAAATCT
* * *
212656 CGTATTTC-GAAAGAAAGGG-AGTTTTAA-AAAAAATTAA
129 -GTATTTCAG-AA-AAAGGGAAATTTCAAGAAAAAAATAA
* * *
212693 AAAAATTCTGAAAGTGAATGAATTTTTGAAAACTGATTTAATGTGAGATAAATAATCATATTTGA
1 AAAAATTATGAAAGTGAATGAATTTTTGAAAAATGATTTAATGTGAGATAAATAATAATATTTGA
* * * * *
212758 TGAATTTGAAAAATTAAAAACCAAAAAAAATCCTCCCGAAGAAATTTAC
66 TGAATTTTAAAAATTAAAAA-CAAGAAAAATCCCCCCAAAAAAATTTAC
212807 GAAGAAGAAA
Statistics
Matches: 232, Mismatches: 37, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
164 95 0.41
165 55 0.24
166 82 0.35
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (165 bp):
AAAAATTATGAAAGTGAATGAATTTTTGAAAAATGATTTAATGTGAGATAAATAATAATATTTGA
TGAATTTTAAAAATTAAAAACAAGAAAAATCCCCCCAAAAAAATTTACCGAGTAGAAAAATCTGT
ATTTCAGAAAAAGGGAAATTTCAAGAAAAAAATAA
Found at i:214196 original size:33 final size:33
Alignment explanation
Indices: 214141--214203 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
214131 TTAGAAGCAA
* *
214141 TGTATCGATACAATTCATCATGTATTGATACAT
1 TGTATCGATACAATTCACCATGTATCGATACAT
214174 TGTATCGATACAATGT-ACCATGTATCGATA
1 TGTATCGATACAAT-TCACCATGTATCGATA
214204 TAAACAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATGTATCGATACAT
Found at i:216127 original size:13 final size:13
Alignment explanation
Indices: 216109--216135 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
216099 ATAGTAACCC
216109 ATGTATCGATACA
1 ATGTATCGATACA
216122 ATGTATCGATACA
1 ATGTATCGATACA
216135 A
1 A
216136 GGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:222214 original size:13 final size:13
Alignment explanation
Indices: 222196--222221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
222186 TACAGCAAGT
222196 ATGTATCGATACA
1 ATGTATCGATACA
222209 ATGTATCGATACA
1 ATGTATCGATACA
222222 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:224476 original size:21 final size:21
Alignment explanation
Indices: 224443--224487 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
224433 TTGCAAGTTG
*
224443 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
224465 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
224485 AAA
1 AAA
224488 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:226310 original size:15 final size:15
Alignment explanation
Indices: 226290--226320 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
226280 TAAAAATGTC
*
226290 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
226305 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
226320 C
1 C
226321 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:228408 original size:13 final size:13
Alignment explanation
Indices: 228390--228428 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
228380 ACATTTTTCT
228390 TTGTATCGATACA
1 TTGTATCGATACA
228403 TTGTATCGATACA
1 TTGTATCGATACA
228416 TTGTATCGATACA
1 TTGTATCGATACA
228429 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:234696 original size:13 final size:13
Alignment explanation
Indices: 234678--234717 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
234668 AATGTTCTTT
234678 GTATCGATACATG
1 GTATCGATACATG
234691 GTATCGATACAAT-
1 GTATCGATAC-ATG
*
234704 GTATGGATACATG
1 GTATCGATACATG
234717 G
1 G
234718 GTTACTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:236233 original size:33 final size:33
Alignment explanation
Indices: 236196--236262 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
236186 TGAGAGTTGA
* * *
236196 TCACTTCACTTTTGTAGCGCATGGATGAGCACT
1 TCACTTCACTTTCGTAGCGCAAGGATGAGAACT
*
236229 TCACTTCACTTTCGTAGTGCAAGGATGAGAACT
1 TCACTTCACTTTCGTAGCGCAAGGATGAGAACT
236262 T
1 T
236263 TAGTTCTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (33 bp):
TCACTTCACTTTCGTAGCGCAAGGATGAGAACT
Found at i:236502 original size:26 final size:28
Alignment explanation
Indices: 236472--236527 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
236462 TAGGTTTTAC
*
236472 TTGCTATTATGGAT-GATTATGAT-TCT
1 TTGCTATTATGAATGGATTATGATATCT
*
236498 TTGCTATTATGAATGGTTTATGATATCT
1 TTGCTATTATGAATGGATTATGATATCT
236526 TT
1 TT
236528 TATTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 13 0.50
27 8 0.31
28 5 0.19
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.52
Consensus pattern (28 bp):
TTGCTATTATGAATGGATTATGATATCT
Found at i:236865 original size:33 final size:32
Alignment explanation
Indices: 236828--236905 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 32
236818 GATAGGGAGA
236828 TTGTTATATCAACCAAATTTATTTTTAAAAGTT
1 TTGTTATATCAACC-AATTTATTTTTAAAAGTT
* *
236861 TTGTTAAGATCAACCAATTTTTTTTTAAAAGTT
1 TTGTT-ATATCAACCAATTTATTTTTAAAAGTT
236894 TTGTTATATCAA
1 TTGTTATATCAA
236906 AAAGGGGGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
32 6 0.15
33 27 0.66
34 8 0.20
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.49
Consensus pattern (32 bp):
TTGTTATATCAACCAATTTATTTTTAAAAGTT
Found at i:237262 original size:19 final size:20
Alignment explanation
Indices: 237238--237293 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
237228 GTATCGATAT
**
237238 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGACCA
237257 ATTGTATCGATACATGACCA
1 ATTGTATCGATACATGACCA
*
237277 AATGTATCGATACATGA
1 ATTGTATCGATACATGA
237294 AACTGGTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGACCA
Found at i:237284 original size:20 final size:19
Alignment explanation
Indices: 237240--237293 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
237230 ATCGATATAT
** *
237240 TGTATCGATACATGTTCAT
1 TGTATCGATACATGACCAA
237259 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACC-AA
237279 TGTATCGATACATGA
1 TGTATCGATACATGA
237294 AACTGGTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATGACCAA
Found at i:237356 original size:13 final size:13
Alignment explanation
Indices: 237338--237399 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
237328 GATACATTGC
237338 ACAATGTATCGAT
1 ACAATGTATCGAT
237351 ACAATGTATCGAT
1 ACAATGTATCGAT
*
237364 AC-ATG-A---AG
1 ACAATGTATCGAT
*
237372 A-ATTGTATCGAT
1 ACAATGTATCGAT
237384 ACAATGTATCGAT
1 ACAATGTATCGAT
237397 ACA
1 ACA
237400 TGAAGAATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
8 4 0.10
9 1 0.03
11 1 0.03
12 5 0.13
13 28 0.72
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:237366 original size:33 final size:33
Alignment explanation
Indices: 237324--237419 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
237314 CCACTATTTC
* *
237324 TATCGATACATTGCACAA-TGTATCGATACAATG
1 TATCGATACA-TGAAGAATTGTATCGATACAATG
237357 TATCGATACATGAAGAATTGTATCGATACAATG
1 TATCGATACATGAAGAATTGTATCGATACAATG
237390 TATCGATACATGAAGAATTGTATCGATACA
1 TATCGATACATGAAGAATTGTATCGATACA
237420 TTGCCTCAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 5 0.08
33 55 0.92
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (33 bp):
TATCGATACATGAAGAATTGTATCGATACAATG
Found at i:237380 original size:20 final size:20
Alignment explanation
Indices: 237355--237420 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
237345 ATCGATACAA
237355 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
237375 TGTATCGATAC------AA-
1 TGTATCGATACATGAAGAAT
237388 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
237408 TGTATCGATACAT
1 TGTATCGATACAT
237421 TGCCTCAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 2 0.05
19 2 0.05
20 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:242946 original size:18 final size:19
Alignment explanation
Indices: 242912--242948 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
242902 TTTAAAATCC
*
242912 ATATTTATCTCAATAAATA
1 ATATTCATCTCAATAAATA
242931 ATATTCATCT-AATAAATA
1 ATATTCATCTCAATAAATA
242949 TAATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATTCATCTCAATAAATA
Found at i:242967 original size:17 final size:16
Alignment explanation
Indices: 242941--242981 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
242931 ATATTCATCT
*
242941 AATAAATATAATTATTA
1 AATAAATATAA-AATTA
*
242958 AATAATTATAAAATTA
1 AATAAATATAAAATTA
242974 AATAAATA
1 AATAAATA
242982 AATTAGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAAATATAAAATTA
Found at i:247027 original size:20 final size:19
Alignment explanation
Indices: 246965--247036 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
246955 TACATCCAGA
*
246965 TGTATCGATACATTA-TGCTT
1 TGTATCGATACA-TACT-CAT
**
246985 TGTATCGATACATGTTCAT
1 TGTATCGATACATACTCAT
*
247004 TGTATCAATACATACTCAAT
1 TGTATCGATACATACTC-AT
247024 TGTATCGATACAT
1 TGTATCGATACAT
247037 TAAACTGGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 17 0.39
20 27 0.61
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTCAT
Found at i:247085 original size:13 final size:13
Alignment explanation
Indices: 247067--247091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
247057 TATCATTGTT
247067 TGTATCGATACAG
1 TGTATCGATACAG
247080 TGTATCGATACA
1 TGTATCGATACA
247092 TGAAGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:251766 original size:27 final size:27
Alignment explanation
Indices: 251736--251795 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
251726 ATGATGTTTA
*
251736 GATACATCTGGGTTTTCCAGATGCATC
1 GATACATCTGGGTTTTCCAGATACATC
* *
251763 GATACATTTGGGTTTTCCAGATATATC
1 GATACATCTGGGTTTTCCAGATACATC
251790 GATACA
1 GATACA
251796 ATGTTCTCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (27 bp):
GATACATCTGGGTTTTCCAGATACATC
Found at i:254312 original size:13 final size:13
Alignment explanation
Indices: 254294--254320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
254284 ACATTATGCT
254294 TTGTATCGATACA
1 TTGTATCGATACA
254307 TTGTATCGATACA
1 TTGTATCGATACA
254320 T
1 T
254321 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:254329 original size:19 final size:19
Alignment explanation
Indices: 254305--254360 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
254295 TGTATCGATA
*
254305 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGCT
** *
254324 CATTGTATCGATGTATACT
1 CATTGTATCGATACATGCT
254343 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
254361 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:254414 original size:20 final size:19
Alignment explanation
Indices: 254389--254440 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
254379 TTATCACTGT
254389 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
254409 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATG-AGAA
254429 TTGTATCGATAC
1 TTGTATCGATAC
254441 GTTATGCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:255732 original size:19 final size:19
Alignment explanation
Indices: 255705--255759 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
255695 TGTATCGATA
*
255705 CATTATATCGATACATACT
1 CATTGTATCGATACATACT
*
255724 CATTGTATCAATACATACT
1 CATTGTATCGATACATACT
*
255743 CAATTGTATCGAAACAT
1 C-ATTGTATCGATACAT
255760 GAAACTGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:257003 original size:18 final size:18
Alignment explanation
Indices: 256972--257006 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
256962 GTATGTGACA
* *
256972 CAATGCAAATGCAAATAT
1 CAATGAAAAGGCAAATAT
256990 CAATGAAAAGGCAAATA
1 CAATGAAAAGGCAAATA
257007 CACGTGAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.17
Consensus pattern (18 bp):
CAATGAAAAGGCAAATAT
Found at i:257213 original size:44 final size:45
Alignment explanation
Indices: 257111--257446 Score: 146
Period size: 45 Copynumber: 7.5 Consensus size: 45
257101 GAGATTACAC
*
257111 AAATGAAAATGTCATCTAATGGTATAGATGCACATTAAAAAATGA
1 AAATGCAAATGTCATCTAATGGTATAGATGCACATTAAAAAATGA
* * ** *
257156 AAATGCAAATGTCATTTAATGGTGTAGATGCACA-TAAAATGTTGC
1 AAATGCAAATGTCATCTAATGGTATAGATGCACATTAAAA-AATGA
* * * * * * * * *
257201 ACATG-TAATGTCATCTAATGATACATATACACATGAAACAATGC
1 AAATGCAAATGTCATCTAATGGTATAGATGCACATTAAAAAATGA
** * * * * ** * **
257245 AAATGCAGGTACTAAT-AAAGAGGTA-A-ATGCATGTGAAACTAT-A
1 AAATGCAAAT-GTCATCTAA-TGGTATAGATGCACATTAAAAAATGA
* * * * **
257288 CCAATGCAAATGTCATCTAATGGTGTAGATGCATATGAAATTATGA
1 -AAATGCAAATGTCATCTAATGGTATAGATGCACATTAAAAAATGA
* * ** ** * *
257334 AAATGCGAATGTCATATAATGGTGCAGATGCATGTGAAATAAT-A
1 AAATGCAAATGTCATCTAATGGTATAGATGCACATTAAAAAATGA
* ** * * * *
257378 TAAATGCAAATGTCATATAATGGTGCAGATGCACGTGAAACAATGT
1 -AAATGCAAATGTCATCTAATGGTATAGATGCACATTAAAAAATGA
*
257424 AAATACAAATGTCATCTAATGGT
1 AAATGCAAATGTCATCTAATGGT
257447 GTCGACACAT
Statistics
Matches: 225, Mismatches: 54, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
43 6 0.03
44 56 0.25
45 156 0.69
46 7 0.03
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (45 bp):
AAATGCAAATGTCATCTAATGGTATAGATGCACATTAAAAAATGA
Found at i:257606 original size:221 final size:222
Alignment explanation
Indices: 257278--257869 Score: 572
Period size: 221 Copynumber: 2.7 Consensus size: 222
257268 TAAATGCATG
* * * * * *
257278 TGAAACTATACCAATGCAAATGTCATCTAATGGTGTAGATGCATATGAAATTATGAAAATGCGAA
1 TGAAACAATACAAATGCTAATGTCATCTAATGGTGTAGATGCATGTGAAA-CATGAAAATGCAAA
* * * * * *
257343 TGTCATATAATGGTGCAGATGCATGTGAAATAATATAAATGCAAATGTCATATAATGGTGCAGAT
65 TGTCATCTAATGGTGTAGATGCACGTGAAATGATACAAATGCAAATGTCATATAATGGTGTAGAT
* * * *
257408 GCACGTGAAACAATGTAAATACAAATGTCATCTAATGGTGTCGACA-CATGTGAAATGATATAAA
130 GCACGTGAAACAATGTAAATACAAATGTCATATAAT-GAGTAG-CAGCATGTGAAATGATACAAA
**
257472 TG-AAAGTATTAGT-AAAA-GCCAATAAACA
193 TGCAAA-TATTAGTAAAAAGGAAAATAAACA
* * * *
257500 TGAAACAATACAAATACTAATGTCATCTAATGGTTTAGATGCACGCGAAACATGAAAATGCAAAT
1 TGAAACAATACAAATGCTAATGTCATCTAATGGTGTAGATGCATGTGAAACATGAAAATGCAAAT
* * * * * *
257565 GTCATCTAATAGAGTAGATGCACGTTAAATGATGCAAATGC-AA-GT-ATAAGTAAAGAG-GTAA
66 GTCATCTAATGGTGTAGATGCACGTGAAATGATACAAATGCAAATGTCAT-A-TAATG-GTGTAG
* * * * * *
257626 ATGCATGTTAAACTAA-GCAAATGCTAATGTCATATAATGAGTAGCAGCATGTGAAATGATGCAA
128 ATGCACGTGAAAC-AATGTAAATACAAATGTCATATAATGAGTAGCAGCATGTGAAATGATACAA
** *
257690 ATGCAAATATTAGTAAAAAGGAAAATTCATA
192 ATGCAAATATTAGTAAAAAGGAAAATAAACA
** * * * * ** * *
257721 TGAAATGATGCAACTGCTAATGTCATTTAATGGTGTAGATGCATGTTAATGATGCAAATACAAAT
1 TGAAACAATACAAATGCTAATGTCATCTAATGGTGTAGATGCATGTGAAACATGAAAATGCAAAT
* * *
257786 GTTATCTAATGGTGTAAATGCACGTGAAATGATACAAATGCAAATGTCATTTAATGGTGTAGATG
66 GTCATCTAATGGTGTAGATGCACGTGAAATGATACAAATGCAAATGTCATATAATGGTGTAGATG
* * *
257851 TACATGAAATAATGTAAAT
131 CACGTGAAACAATGTAAAT
257870 GGAAGTATTA
Statistics
Matches: 291, Mismatches: 66, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
218 4 0.01
219 32 0.11
220 44 0.15
221 143 0.49
222 64 0.22
223 2 0.01
224 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (222 bp):
TGAAACAATACAAATGCTAATGTCATCTAATGGTGTAGATGCATGTGAAACATGAAAATGCAAAT
GTCATCTAATGGTGTAGATGCACGTGAAATGATACAAATGCAAATGTCATATAATGGTGTAGATG
CACGTGAAACAATGTAAATACAAATGTCATATAATGAGTAGCAGCATGTGAAATGATACAAATGC
AAATATTAGTAAAAAGGAAAATAAACA
Found at i:257617 original size:131 final size:132
Alignment explanation
Indices: 257368--257618 Score: 306
Period size: 131 Copynumber: 1.9 Consensus size: 132
257358 CAGATGCATG
* * * * *
257368 TGAAATAATATAAATGCAAATGTCATATAATGGTGCAGATGCACGTGAAACAATGTAAATACAAA
1 TGAAACAATACAAATACAAATGTCATATAATGGTGCAGATGCACGCGAAACAATGAAAATACAAA
* * * * * *
257433 TGTCATCTAATGGTGTCGACACATGTGAAATGATATAAATGAAAGTATTAGTAAAAGCCAATAAA
66 TGTCATCTAATAGAGTAGACACACGTGAAATGATACAAATGAAAGTATAAGTAAAAGCCAATAAA
257498 CA
131 CA
* * ** *
257500 TGAAACAATACAAATACTAATGTCATCTAATGGTTTAGATGCACGCGAAAC-ATGAAAATGCAAA
1 TGAAACAATACAAATACAAATGTCATATAATGGTGCAGATGCACGCGAAACAATGAAAATACAAA
** * * *
257564 TGTCATCTAATAGAGTAGATGCACGTTAAATGATGCAAATGCAAGTATAAGTAAA
66 TGTCATCTAATAGAGTAGACACACGTGAAATGATACAAATGAAAGTATAAGTAAA
257619 GAGGTAAATG
Statistics
Matches: 98, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
131 55 0.56
132 43 0.44
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (132 bp):
TGAAACAATACAAATACAAATGTCATATAATGGTGCAGATGCACGCGAAACAATGAAAATACAAA
TGTCATCTAATAGAGTAGACACACGTGAAATGATACAAATGAAAGTATAAGTAAAAGCCAATAAA
CA
Found at i:257686 original size:88 final size:88
Alignment explanation
Indices: 257555--257785 Score: 252
Period size: 88 Copynumber: 2.6 Consensus size: 88
257545 CGAAACATGA
* * * * *
257555 AAATGCAAATGTCATCTAATAGAGTAGATGCACGTTAAATGATGCAAATGCAAGTATAAGTAAAG
1 AAATGCTAATGTCATATAATAGAGTAGATGCATG-TAAATGATGCAAATGCAAATATAAGTAAAA
* * *
257620 AGGTAAATGCATGTTAAACT-AAGC
65 AGGAAAATGCATATGAAA-TGAAGC
*
257644 AAATGCTAATGTCATATAAT-GAGTAGCA-GCATGTGAAATGATGCAAATGCAAATATTAGTAAA
1 AAATGCTAATGTCATATAATAGAGTAG-ATGCATGT-AAATGATGCAAATGCAAATATAAGTAAA
* *
257707 AAGGAAAATTCATATGAAATGATGC
64 AAGGAAAATGCATATGAAATGAAGC
* * * * * *
257732 AACTGCTAATGTCATTTAATGGTGTAGATGCATGTTAATGATGCAAATACAAAT
1 AAATGCTAATGTCATATAATAGAGTAGATGCATGTAAATGATGCAAATGCAAAT
257786 GTTATCTAAT
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
87 2 0.02
88 89 0.74
89 30 0.25
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.27
Consensus pattern (88 bp):
AAATGCTAATGTCATATAATAGAGTAGATGCATGTAAATGATGCAAATGCAAATATAAGTAAAAA
GGAAAATGCATATGAAATGAAGC
Found at i:257831 original size:45 final size:45
Alignment explanation
Indices: 257271--258141 Score: 298
Period size: 45 Copynumber: 19.6 Consensus size: 45
257261 AAAGAGGTAA
*
257271 ATGCATGTGAAACT-ATACCAATGCAAATGTCATCTAATGGTGTAG
1 ATGCATGTGAAA-TGATACAAATGCAAATGTCATCTAATGGTGTAG
* * * * *
257316 ATGCATATGAAATTATGA-AAATGCGAATGTCATATAATGGTGCAG
1 ATGCATGTGAAATGAT-ACAAATGCAAATGTCATCTAATGGTGTAG
* * * *
257361 ATGCATGTGAAATAATATAAATGCAAATGTCATATAATGGTGCAG
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
* ** ** * *
257406 ATGCACGTGAAACAATGTAAATACAAATGTCATCTAATGGTGTCG
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
** * * ** **
257451 ACACATGTGAAATGATATAAATG-AAA-GT-ATTAGTAAAAG-CCA-
1 ATGCATGTGAAATGATACAAATGCAAATGTCA-T-CTAATGGTGTAG
** ** ** * * *
257493 ATAAACATGAAACAATACAAATACTAATGTCATCTAATGGTTTAG
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
* * * * *
257538 ATGCACGCGAAA-CATGA-AAATGCAAATGTCATCTAATAGAGTAG
1 ATGCATGTGAAATGAT-ACAAATGCAAATGTCATCTAATGGTGTAG
* * * * * ** * *
257582 ATGCACGTTAAATGATGCAAATGCAAGTAT-AAGTAAAGAG-GTAA
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATG-GTGTAG
* * * *
257626 ATGCATGTTAAACT-A-AGCAAATGCTAATGTCATATAAT-GAGTAG
1 ATGCATGTGAAA-TGATA-CAAATGCAAATGTCATCTAATGGTGTAG
* * * * ** * *
257670 CA-GCATGTGAAATGATGCAAATGCAAATATTAGT-AAAAAG-GAAA
1 -ATGCATGTGAAATGATACAAATGCAAATGTCA-TCTAATGGTGTAG
* * * * * *
257714 ATTCATATGAAATGATGCAACTGCTAATGTCATTTAATGGTGTAG
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
* * * * *
257759 ATGCATGT-TAATGATGCAAATACAAATGTTATCTAATGGTGTAA
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
* *
257803 ATGCACGTGAAATGATACAAATGCAAATGTCATTTAATGGTGTAG
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
* ** * ** * * * * * * * *
257848 ATGTACATGAAATAATGTAAATGGAAGTATTA-ATAAAGAG-GCAA
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATG-GTGTAG
** * * * * *
257892 ATGCACATGAAACT-ATAAAAATGCCAATGCCATCTAATGGTCTAT
1 ATGCATGTGAAA-TGATACAAATGCAAATGTCATCTAATGGTGTAG
* * * * * * * * * *
257937 ATGCACGTGAAAAGATAGAAATGTAAGTATCA-ATAAAGAG-GCAA
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATG-GTGTAG
* * ** * * * * *
257981 ATGCATATAAAACAATGCAAATTTC-AATGTCATATAATAGTGCAG
1 ATGCATGTGAAATGATACAAA-TGCAAATGTCATCTAATGGTGTAG
* * * * * * *
258026 ATGCATATAAAATGATGA-AAATGCAATTGCCATTTAATGGTATAA
1 ATGCATGTGAAATGAT-ACAAATGCAAATGTCATCTAATGGTGTAG
* * * *
258071 ATGCACGTGAAATAATGCAAATGTAAATGTCATCTAATGGTGTAG
1 ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
* *
258116 ATGCATATGAAATGATAAAAATGCAA
1 ATGCATGTGAAATGATACAAATGCAA
258142 GTATCAATAA
Statistics
Matches: 597, Mismatches: 190, Indels: 78
0.69 0.22 0.09
Matches are distributed among these distances:
42 16 0.03
43 13 0.02
44 223 0.37
45 344 0.58
46 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (45 bp):
ATGCATGTGAAATGATACAAATGCAAATGTCATCTAATGGTGTAG
Found at i:257894 original size:89 final size:89
Alignment explanation
Indices: 257555--258224 Score: 391
Period size: 89 Copynumber: 7.5 Consensus size: 89
257545 CGAAACATGA
* * *
257555 AAATGCAAATGTCATCTAATAGAGTAGATGCACGTTAAATGATGCAAATGCAAGTA-TAAGTAAA
1 AAATGCAAATGTCATCTAATGGTGTAGATGCACGTGAAATGATGCAAATGCAAGTATTAA-TAAA
* ** *
257619 GAGGTAAATGCATGTTAAACTA-AGC
65 GAGGCAAATGCACATGAAACTATA-C
* * * * * *
257644 AAATGCTAATGTCATATAAT-GAGTAGCA-GCATGTGAAATGATGCAAATGCAAATATTAGTAAA
1 AAATGCAAATGTCATCTAATGGTGTAG-ATGCACGTGAAATGATGCAAATGCAAGTATTAATAAA
* * * * *
257707 AAGGAAAATTCATATGAAA-TGATGC
65 GAGGCAAATGCACATGAAACT-ATAC
* * * * * * * * * *
257732 AACTGCTAATGTCATTTAATGGTGTAGATGCATGT-TAATGATGCAAATACAAATGTTATCTAAT
1 AAATGCAAATGTCATCTAATGGTGTAGATGCACGTGAAATGATGCAAATGCAAGTATTA-ATAAA
* *
257796 G-GTGTAAATGCACGTGAAA-TGATAC
65 GAG-GCAAATGCACATGAAACT-ATAC
* * * * * *
257821 AAATGCAAATGTCATTTAATGGTGTAGATGTACATGAAATAATGTAAATGGAAGTATTAATAAAG
1 AAATGCAAATGTCATCTAATGGTGTAGATGCACGTGAAATGATGCAAATGCAAGTATTAATAAAG
*
257886 AGGCAAATGCACATGAAACTATAA
66 AGGCAAATGCACATGAAACTATAC
* * * * * * *
257910 AAATGCCAATGCCATCTAATGGTCTATATGCACGTGAAAAGATAG-AAATGTAAGTATCAATAAA
1 AAATGCAAATGTCATCTAATGGTGTAGATGCACGTGAAATGAT-GCAAATGCAAGTATTAATAAA
* * * *
257974 GAGGCAAATGCATATAAAACAATGC
65 GAGGCAAATGCACATGAAACTATAC
* * * * ** * * *
257999 AAATTTC-AATGTCATATAATAGTGCAGATGCATATAAAATGATGAAAATGCAATTGCCATT--T
1 AAA-TGCAAATGTCATCTAATGGTGTAGATGCACGTGAAATGATGCAAATGCAA--G-TATTAAT
* ** * *
258061 AATG-GTATAAATGCACGTGAAA-TAATGC
62 AAAGAG-GCAAATGCACATGAAACT-ATAC
* ** ** * *
258089 AAATGTAAATGTCATCTAATGGTGTAGATGCATATGAAATGATAAAAATGCAAGTATCAATAAAA
1 AAATGCAAATGTCATCTAATGGTGTAGATGCACGTGAAATGATGCAAATGCAAGTATTAATAAAG
* * ** **
258154 AGGCAACTGTATGTGAAACTATGT
66 AGGCAAATGCACATGAAACTATAC
* **
258178 AAATG-ACAATGTCATATAA-GGTGTAGATGCACAAGAAATGATGCAAA
1 AAATGCA-AATGTCATCTAATGGTGTAGATGCACGTGAAATGATGCAAA
258225 CGTAAAGTAT
Statistics
Matches: 454, Mismatches: 102, Indels: 51
0.75 0.17 0.08
Matches are distributed among these distances:
87 3 0.01
88 117 0.26
89 245 0.54
90 86 0.19
91 1 0.00
92 2 0.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (89 bp):
AAATGCAAATGTCATCTAATGGTGTAGATGCACGTGAAATGATGCAAATGCAAGTATTAATAAAG
AGGCAAATGCACATGAAACTATAC
Found at i:258182 original size:134 final size:133
Alignment explanation
Indices: 257792--258230 Score: 329
Period size: 134 Copynumber: 3.3 Consensus size: 133
257782 AAATGTTATC
* * * * * *
257792 TAATGGTGTAAATGCACGTGAAATGATACAAATGCAAATGTCATTTAATGGTGTAGATGTACATG
1 TAATGGTGTAAATGCACGTGAAATAATGCAAATGTAAATGTCATATAATGGTGTAGATGCATATG
** * * * * * *
257857 AAATAATGTAAATGGAAGTATTAATAAAGAGGCAAATGCACATGAAACTATAAAAATGCCAATGC
66 AAATAATAAAAATGCAAGTATCAATAAAAAGGC-AATGCATATGAAACTATGAAAATGACAATGC
*
257922 CATC
130 CATA
* * * * * * *
257926 TAATGGTCTATATGCACGTGAAA-AGATAG-AAATGTAAGTATCA-ATAAAGAG-GCAAATGCAT
1 TAATGGTGTAAATGCACGTGAAATA-AT-GCAAATGTAAATGTCATATAATG-GTGTAGATGCAT
* * * * * * * *
257987 ATAAAACAATGCAAATTTCAA-TGTC-ATATAATAGTGCAGATGCATAT-AAAATGATGAAAATG
63 ATGAAATAAT-AAAAATGCAAGTATCAATA-AAAAG-GCA-ATGCATATGAAACT-ATGAAAATG
*
258049 -CAATTGCCATT
123 ACAA-TGCCATA
* *
258060 TAATGGTATAAATGCACGTGAAATAATGCAAATGTAAATGTCATCTAATGGTGTAGATGCATATG
1 TAATGGTGTAAATGCACGTGAAATAATGCAAATGTAAATGTCATATAATGGTGTAGATGCATATG
* * * * *
258125 AAATGATAAAAATGCAAGTATCAATAAAAAGGCAACTGTATGTGAAACTATGTAAATGACAATGT
66 AAATAATAAAAATGCAAGTATCAATAAAAAGGCAA-TGCATATGAAACTATGAAAATGACAATGC
258190 CATA
130 CATA
* ** * *
258194 TAA-GGTGTAGATGCACAAGAAATGATGCAAACGTAAA
1 TAATGGTGTAAATGCACGTGAAATAATGCAAATGTAAA
258231 GTATCAGATA
Statistics
Matches: 232, Mismatches: 55, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
132 3 0.01
133 62 0.27
134 130 0.56
135 34 0.15
136 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (133 bp):
TAATGGTGTAAATGCACGTGAAATAATGCAAATGTAAATGTCATATAATGGTGTAGATGCATATG
AAATAATAAAAATGCAAGTATCAATAAAAAGGCAATGCATATGAAACTATGAAAATGACAATGCC
ATA
Found at i:258970 original size:108 final size:108
Alignment explanation
Indices: 258840--259059 Score: 413
Period size: 108 Copynumber: 2.0 Consensus size: 108
258830 AGCTATTAGC
*
258840 ACTTCGATAGGTACCAAGATTGGTAGTAAAAGGTTAAAAAACTTTGAAAAAGTAAAGGATTTAAT
1 ACTTCGATAGGTACCAAGATTGGCAGTAAAAGGTTAAAAAACTTTGAAAAAGTAAAGGATTTAAT
258905 TTTCAGAGTTGTTCTGACCAACTTAGAGTTTACAACCTAGGGT
66 TTTCAGAGTTGTTCTGACCAACTTAGAGTTTACAACCTAGGGT
* *
258948 ACTTCGATAGGTACCAAGATTGGCAGTAAAAGGTTAAAGAACTTTGAAAAGGTAAAGGATTTAAT
1 ACTTCGATAGGTACCAAGATTGGCAGTAAAAGGTTAAAAAACTTTGAAAAAGTAAAGGATTTAAT
259013 TTTCAGAGTTGTTCTGACCAACTTAGAGTTTACAACCTAGGGT
66 TTTCAGAGTTGTTCTGACCAACTTAGAGTTTACAACCTAGGGT
259056 ACTT
1 ACTT
259060 AGGGATTTTT
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (108 bp):
ACTTCGATAGGTACCAAGATTGGCAGTAAAAGGTTAAAAAACTTTGAAAAAGTAAAGGATTTAAT
TTTCAGAGTTGTTCTGACCAACTTAGAGTTTACAACCTAGGGT
Found at i:269840 original size:13 final size:13
Alignment explanation
Indices: 269822--269846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
269812 CATAAAGTGT
269822 TGTATCGATACAA
1 TGTATCGATACAA
269835 TGTATCGATACA
1 TGTATCGATACA
269847 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:269926 original size:13 final size:13
Alignment explanation
Indices: 269908--269932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
269898 ATCACTTAAA
269908 TGTATCGATACAT
1 TGTATCGATACAT
269921 TGTATCGATACA
1 TGTATCGATACA
269933 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:269997 original size:52 final size:52
Alignment explanation
Indices: 269941--270069 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
269931 CACTGATCTT
* * *
269941 TGTATCGATACATGCAGGAAAATTTGCCCAGATTTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
269993 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
270045 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
270070 TTATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:279664 original size:20 final size:20
Alignment explanation
Indices: 279639--279676 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
279629 ATTTTCCAGA
279639 ATGTATCAATACAT-TGAATG
1 ATGTATC-ATACATCTGAATG
279659 ATGTATCATACATCTGAA
1 ATGTATCATACATCTGAA
279677 AAAACCCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCATACATCTGAATG
Found at i:282290 original size:19 final size:20
Alignment explanation
Indices: 282266--282319 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 20
282256 ACACTATGCT
282266 TTGTATCGATACATGCTC-A
1 TTGTATCGATACATGCTCAA
*
282285 TTGTATCGATACATACTCAA
1 TTGTATCGATACATGCTCAA
282305 TTGTATCGATACATG
1 TTGTATCGATACATG
282320 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGCTCAA
Found at i:282309 original size:20 final size:19
Alignment explanation
Indices: 282248--282318 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 19
282238 ATATCCAGAC
*
282248 GTATCGATACACTA-TGCTTT
1 GTATCGATACA-TACT-CATT
*
282268 GTATCGATACATGCTCATT
1 GTATCGATACATACTCATT
282287 GTATCGATACATACTCAATT
1 GTATCGATACATACTC-ATT
282307 GTATCGATACAT
1 GTATCGATACAT
282319 GAAACTGGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 19 0.41
20 27 0.59
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (19 bp):
GTATCGATACATACTCATT
Found at i:285728 original size:321 final size:323
Alignment explanation
Indices: 285229--285814 Score: 795
Period size: 321 Copynumber: 1.8 Consensus size: 323
285219 TTTTTATCGC
* * * * * * *
285229 TTCAAAATTTTTAATATTCATCAAGTATTATTATTTAACTCATATTAAATTAGTTTTCAAAAATT
1 TTCAAAATTTTTAATATTAATCAAATATCATCATTTAAATCATAGTAAATTAGTTTTAAAAAATT
* * * * *
285294 CATTTATTTTCTTGAGTTTTTCATTCCTTTCCTTGAAGCTCCCTTGTTTTCGAAATACAGAGTTT
66 CATTTATTTTCATGAGTTTTTAATTCCTTTCCTTAAAACTCCCTTGTTTTCGAAAAACAGAGTTT
* ** *
285359 TCTACTCCATAAACATTTTCAAGGGGTTTTTTCTTCTTTTCAAAATTTTTAATATTCATCAAATA
131 TCTACTCCATAAACATTTTCAAGAGGTTTTTTCTTCGGTTCAAAATTTTTAATACTCATCAAATA
* * * *
285424 TCATCATTTAAATCATAGTAAATTAGTTTTAAAAAATTCATTTA-TTTTCATTTTTTCCTTGAAA
196 TAATCATTTAAATCATACTAAATTAGTTTTAAAAAATGCATTCATTTTTCATTTTTTCCTTGAAA
285488 CTCTCACATTTCCAAAATATGAAGTTTTCTACTCCATAAATATTTTTGGGGCGATTTTCTTGA
261 CTCTCACATTTCCAAAATATGAAGTTTTCTACTCCATAAATATTTTTGGGGCGATTTTCTTGA
* *
285551 TTCAAATTTTTTAATATTAATTAAATATCATCATTTAAATCATAGTAAATTAGTTTTAAAAAA-T
1 TTCAAAATTTTTAATATTAATCAAATATCATCATTTAAATCATAGTAAATTAGTTTTAAAAAATT
* * ** *
285615 CTATTTATTTTCATGAGTTTTTAATT-TTTTCCTTAAAAAC-CCTTTGTTTTTTAAAAACTGAGT
66 C-ATTTATTTTCATGAGTTTTTAATTCCTTTCCTT-AAAACTCCCTTGTTTTCGAAAAACAGAGT
* *** * *
285678 TTTCTATTCCATAATTGTTTTCAACGAGGTTTTTT-TTGGGTTCAAAATTTTTGATACTCATCAA
129 TTTCTACTCCATAAACATTTTCAA-GAGGTTTTTTCTTCGGTTCAAAATTTTTAATACTCATCAA
*
285742 ATATAATCATTTAAATCATACTAAATTAGTTTTGAAAAATGCATTCATTTTTCATTTTTTCCTTG
193 ATATAATCATTTAAATCATACTAAATTAGTTTTAAAAAATGCATTCATTTTTCATTTTTTCCTTG
*
285807 AAATTCTC
258 AAACTCTC
285815 TTATTTTTGA
Statistics
Matches: 225, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
321 113 0.50
322 112 0.50
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.47
Consensus pattern (323 bp):
TTCAAAATTTTTAATATTAATCAAATATCATCATTTAAATCATAGTAAATTAGTTTTAAAAAATT
CATTTATTTTCATGAGTTTTTAATTCCTTTCCTTAAAACTCCCTTGTTTTCGAAAAACAGAGTTT
TCTACTCCATAAACATTTTCAAGAGGTTTTTTCTTCGGTTCAAAATTTTTAATACTCATCAAATA
TAATCATTTAAATCATACTAAATTAGTTTTAAAAAATGCATTCATTTTTCATTTTTTCCTTGAAA
CTCTCACATTTCCAAAATATGAAGTTTTCTACTCCATAAATATTTTTGGGGCGATTTTCTTGA
Found at i:286485 original size:11 final size:11
Alignment explanation
Indices: 286454--286501 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
286444 AGCAAGTGAA
286454 AAAAAAGGAAAG
1 AAAAAA-GAAAG
*
286466 AATAAAAGAAGG
1 AA-AAAAGAAAG
286478 AAAAAAGAAAG
1 AAAAAAGAAAG
*
286489 AAAAAAGAGAG
1 AAAAAAGAAAG
286500 AA
1 AA
286502 TAGAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 20 0.62
12 8 0.25
13 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:287250 original size:13 final size:13
Alignment explanation
Indices: 287232--287256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
287222 ACAGCAAGTC
287232 TGTATCGATACAA
1 TGTATCGATACAA
287245 TGTATCGATACA
1 TGTATCGATACA
287257 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:289506 original size:21 final size:21
Alignment explanation
Indices: 289473--289517 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
289463 TTGCAAGTTG
*
289473 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
289495 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
289515 AAA
1 AAA
289518 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:293432 original size:13 final size:13
Alignment explanation
Indices: 293414--293452 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
293404 ACATTTTTCT
293414 TTGTATCGATACA
1 TTGTATCGATACA
293427 TTGTATCGATACA
1 TTGTATCGATACA
293440 TTGTATCGATACA
1 TTGTATCGATACA
293453 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:295338 original size:40 final size:40
Alignment explanation
Indices: 295294--295381 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
295284 ATTAATAAAC
295294 GGGGGAGATAAAGGAGAGAATGCGTGAATTACCTGATTAA
1 GGGGGAGATAAAGGAGAGAATGCGTGAATTACCTGATTAA
*
295334 GGGGGAGATAAAGGAGAGAATGCGTGAATTACCTTATTAA
1 GGGGGAGATAAAGGAGAGAATGCGTGAATTACCTGATTAA
295374 GGGGGAGA
1 GGGGGAGA
295382 ATGTACAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.38, T:0.19
Consensus pattern (40 bp):
GGGGGAGATAAAGGAGAGAATGCGTGAATTACCTGATTAA
Found at i:296057 original size:13 final size:13
Alignment explanation
Indices: 296039--296064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
296029 TACAGCAAGT
296039 ATGTATCGATACA
1 ATGTATCGATACA
296052 ATGTATCGATACA
1 ATGTATCGATACA
296065 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:297340 original size:16 final size:15
Alignment explanation
Indices: 297319--297361 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
297309 TGAAATTTTC
* *
297319 AAAAATTAAAAAATT
1 AAAAAATAAAAAAGT
297334 AAAAAATAAATAAAGT
1 AAAAAATAAA-AAAGT
*
297350 AATAAATAAAAA
1 AAAAAATAAAAA
297362 TTATTTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAAAATAAAAAAGT
Found at i:300417 original size:33 final size:33
Alignment explanation
Indices: 300353--300418 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
300343 GCCAAGGAAA
*
300353 TGTATCGATACATTATTCAATGAATCTATACAT
1 TGTATCGATACATTATTCAATGAATCGATACAT
* *
300386 TGTATCGATACATTGA-TCATTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGAATCGATACAT
300419 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGAATCGATACAT
Found at i:313296 original size:33 final size:33
Alignment explanation
Indices: 313232--313297 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
313222 GCCAAGGAAA
*
313232 TGTATCGATACATTATTCAATGAATCTATACAT
1 TGTATCGATACATTATTCAATGAATCGATACAT
* *
313265 TGTATCGATACATTGA-TCATTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGAATCGATACAT
313298 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGAATCGATACAT
Found at i:320365 original size:15 final size:15
Alignment explanation
Indices: 320345--320375 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
320335 TAAAAATGTC
*
320345 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
320360 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
320375 C
1 C
320376 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:322460 original size:20 final size:21
Alignment explanation
Indices: 322390--322466 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 21
322380 ATGTCCAAAA
*
322390 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
322410 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
322434 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
322455 TGTATCGATACA
1 TGTATCGATACA
322467 ATGTATCGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 26 0.58
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.29
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:322473 original size:13 final size:13
Alignment explanation
Indices: 322455--322492 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
322445 CATTTTTTGT
322455 TGTATCGATACAA
1 TGTATCGATACAA
*
322468 TGTATCGATACAC
1 TGTATCGATACAA
322481 TGTATCGATACA
1 TGTATCGATACA
322493 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:324958 original size:20 final size:20
Alignment explanation
Indices: 324935--325008 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
324925 ACAATTCAAA
324935 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
324955 GTATCGATACATGAAAAAAAAT
1 GTATCGATACATG--TTGCAAT
324977 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
324997 GTATCAATACAT
1 GTATCGATACAT
325009 AAAAAAGATG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 27 0.63
22 16 0.37
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:325025 original size:41 final size:42
Alignment explanation
Indices: 324935--325029 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
324925 ACAATTCAAA
*
324935 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
1 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAAAAT
*
324977 GTATCGATACATGTTGCAATGTATCAATACAT-AAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAAAAT
325018 GTATCGATACAT
1 GTATCGATACAT
325030 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 20 0.39
42 31 0.61
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCAATACATGAAAAAAAAT
Found at i:325086 original size:13 final size:13
Alignment explanation
Indices: 325068--325093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
325058 TACAGCAAGT
325068 ATGTATCGATACA
1 ATGTATCGATACA
325081 ATGTATCGATACA
1 ATGTATCGATACA
325094 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:325421 original size:23 final size:22
Alignment explanation
Indices: 325395--325437 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
325385 TTTGTTTATA
325395 TTGTCATTATT-TTTCTAAGCTCT
1 TTGT-ATTATTATTTC-AAGCTCT
*
325418 TTGTATTCTTATTTCAAGCT
1 TTGTATTATTATTTCAAGCT
325438 TAAATTCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.56
Consensus pattern (22 bp):
TTGTATTATTATTTCAAGCTCT
Found at i:330079 original size:33 final size:33
Alignment explanation
Indices: 330042--330108 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
330032 AGTAGCTTAA
330042 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
330075 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
330108 A
1 A
330109 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:330082 original size:13 final size:13
Alignment explanation
Indices: 330064--330088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
330054 CAAAAAAATA
330064 TGTATCGATACAT
1 TGTATCGATACAT
330077 TGTATCGATACA
1 TGTATCGATACA
330089 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:340344 original size:4 final size:4
Alignment explanation
Indices: 340337--340363 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
340327 CAAAACAAAC
340337 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
340364 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:344221 original size:20 final size:20
Alignment explanation
Indices: 344196--344250 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
344186 AAAATGCCTG
344196 AATGTATCGATACAATCAAC
1 AATGTATCGATACAATCAAC
*
344216 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATCAAC
*
344236 AATGTATCAATACAA
1 AATGTATCGATACAA
344251 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAATCAAC
Found at i:347103 original size:19 final size:19
Alignment explanation
Indices: 347058--347113 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
347048 CTACTAATCT
**
347058 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
347078 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
347097 TATGTATCGATACAATG
1 CATGTATCGATACAATG
347114 TATTGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:347725 original size:33 final size:32
Alignment explanation
Indices: 347688--347830 Score: 103
Period size: 33 Copynumber: 4.5 Consensus size: 32
347678 AGTTTTCATT
*
347688 TTTCTCCCTCTTAATTAAGGAATTTCTCAAAAA
1 TTTCTCCCCCTTAATTAAGGAATTTCTC-AAAA
* * * ****
347721 TTTCTCCCCCTTAATCAAAGCATTTCTCCCTT
1 TTTCTCCCCCTTAATTAAGGAATTTCTCAAAA
* *** * **
347753 TTTGTCAAATCTAAATTAAGGAA-TT-TC-ATT
1 TTTCTC-CCCCTTAATTAAGGAATTTCTCAAAA
347783 TTTCTCCCCCTTAATTAAGGAATTTCTCAAAAA
1 TTTCTCCCCCTTAATTAAGGAATTTCTC-AAAA
347816 TTTCTCCCCCTTAAT
1 TTTCTCCCCCTTAAT
347831 CAAAGCATTT
Statistics
Matches: 81, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
29 12 0.15
30 9 0.11
31 4 0.05
32 7 0.09
33 49 0.60
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.41
Consensus pattern (32 bp):
TTTCTCCCCCTTAATTAAGGAATTTCTCAAAA
Found at i:347802 original size:95 final size:96
Alignment explanation
Indices: 347681--347863 Score: 350
Period size: 95 Copynumber: 1.9 Consensus size: 96
347671 GTTTTTAAGT
*
347681 TTTCATTTTTCTCCCTCTTAATTAAGGAATTTCTCAAAAATTTCTCCCCCTTAATCAAAGCATTT
1 TTTCATTTTTCTCCCCCTTAATTAAGGAATTTCTCAAAAATTTCTCCCCCTTAATCAAAGCATTT
347746 CTCCC-TTTTTGTCAAATCTAAATTAAGGAA
66 CTCCCTTTTTTGTCAAATCTAAATTAAGGAA
347776 TTTCATTTTTCTCCCCCTTAATTAAGGAATTTCTCAAAAATTTCTCCCCCTTAATCAAAGCATTT
1 TTTCATTTTTCTCCCCCTTAATTAAGGAATTTCTCAAAAATTTCTCCCCCTTAATCAAAGCATTT
347841 CTCCCTTTTTTGTCAAATCTAAA
66 CTCCCTTTTTTGTCAAATCTAAA
347864 AATTTATTTA
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 69 0.80
96 17 0.20
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (96 bp):
TTTCATTTTTCTCCCCCTTAATTAAGGAATTTCTCAAAAATTTCTCCCCCTTAATCAAAGCATTT
CTCCCTTTTTTGTCAAATCTAAATTAAGGAA
Found at i:349938 original size:30 final size:30
Alignment explanation
Indices: 349868--349939 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
349858 AATACATATC
* * *
349868 AAACATGCATAATTCATTCACACAACATAAT
1 AAACAT-CAAAATTCATTCACACAACAAAAA
349899 AAACATCAAAATTCATTCA-ACAACAAAAA
1 AAACATCAAAATTCATTCACACAACAAAAA
*
349928 AAATCGTCAAAA
1 AAA-CATCAAAA
349940 ATCACTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 11 0.31
30 19 0.53
31 6 0.17
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (30 bp):
AAACATCAAAATTCATTCACACAACAAAAA
Found at i:353848 original size:13 final size:13
Alignment explanation
Indices: 353830--353854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
353820 CATAAAGTGT
353830 TGTATCGATACAA
1 TGTATCGATACAA
353843 TGTATCGATACA
1 TGTATCGATACA
353855 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:353852 original size:33 final size:33
Alignment explanation
Indices: 353810--353876 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
353800 TTCAACGATT
353810 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
353843 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
353876 T
1 T
353877 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:353935 original size:13 final size:13
Alignment explanation
Indices: 353917--353941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
353907 ATCACTTAAA
353917 TGTATCGATACAT
1 TGTATCGATACAT
353930 TGTATCGATACA
1 TGTATCGATACA
353942 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:354006 original size:52 final size:52
Alignment explanation
Indices: 353950--354078 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
353940 CACTGATCTT
*
353950 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * **
354002 TGTATCGATACATGCGGGCAAATTCGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
354054 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
354079 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:372560 original size:97 final size:97
Alignment explanation
Indices: 372382--372613 Score: 340
Period size: 97 Copynumber: 2.4 Consensus size: 97
372372 CCTCGAGGAT
* * *
372382 ACTCCAACCCCACTCCTCCGAAGGGATACTCCAACCCCGCTTTCAAACTTGTCAAGATTCAAATC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTCAAACTTGTCAAGATTCAAATC
*
372447 TTATTCATGCTCAAATTGTCATCATCGGGGAC
66 TTATTCATGCTCAAATTGTCATAATCGGGGAC
* *
372479 ACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTGAAACTTGTCAAGATTCGAATC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTCAAACTTGTCAAGATTCAAATC
* * * *
372544 TTCTTC-TCGCTTAAATTTTCATAATCGGGGAT
66 TTATTCAT-GCTCAAATTGTCATAATCGGGGAC
**
372576 ACTCCAACCCTTTTCCTCCGAGGGGATACTCTAACCCC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCC
372614 ATTTTTTTTC
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 1 0.01
97 121 0.99
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (97 bp):
ACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTCAAACTTGTCAAGATTCAAATC
TTATTCATGCTCAAATTGTCATAATCGGGGAC
Found at i:375707 original size:19 final size:19
Alignment explanation
Indices: 375683--375745 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
375673 TACAAGCTAA
375683 TGTATCGATACATACTTGC
1 TGTATCGATACATACTTGC
375702 TGTATCGATAC--A--T--
1 TGTATCGATACATACTTGC
375715 TGTATCGATACATACTTGC
1 TGTATCGATACATACTTGC
375734 TGTATCGATACA
1 TGTATCGATACA
375746 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACTTGC
Found at i:375720 original size:13 final size:13
Alignment explanation
Indices: 375702--375727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
375692 ACATACTTGC
375702 TGTATCGATACAT
1 TGTATCGATACAT
375715 TGTATCGATACAT
1 TGTATCGATACAT
375728 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:375724 original size:32 final size:32
Alignment explanation
Indices: 375683--375745 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
375673 TACAAGCTAA
375683 TGTATCGATACATACTTGCTGTATCGATACAT
1 TGTATCGATACATACTTGCTGTATCGATACAT
375715 TGTATCGATACATACTTGCTGTATCGATACA
1 TGTATCGATACATACTTGCTGTATCGATACA
375746 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATACTTGCTGTATCGATACAT
Found at i:376466 original size:21 final size:21
Alignment explanation
Indices: 376425--376468 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
376415 CTCTCCTTTA
* *
376425 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
376446 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
376467 TC
1 TC
376469 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:378293 original size:13 final size:13
Alignment explanation
Indices: 378275--378300 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
378265 ATAATCACCC
378275 TGTATCGATACAA
1 TGTATCGATACAA
378288 TGTATCGATACAA
1 TGTATCGATACAA
378301 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:380399 original size:15 final size:15
Alignment explanation
Indices: 380379--380409 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
380369 ATTTCGTTTG
*
380379 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
380394 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
380409 G
1 G
380410 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:382242 original size:21 final size:21
Alignment explanation
Indices: 382213--382257 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
382203 AAGTTTTCAT
*
382213 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
382233 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
382255 TTT
1 TTT
382258 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:384496 original size:13 final size:13
Alignment explanation
Indices: 384478--384503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
384468 CAATTTTTTG
384478 TGTATCGATACAT
1 TGTATCGATACAT
384491 TGTATCGATACAT
1 TGTATCGATACAT
384504 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:395497 original size:28 final size:29
Alignment explanation
Indices: 395458--395896 Score: 462
Period size: 28 Copynumber: 15.1 Consensus size: 29
395448 CGTTTACCTC
*
395458 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
395487 TT-AAAGCCCACAAGTCAGTCGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
395514 TTCAAAACCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
395542 TTCAATGCCCATAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CACTCTT
* * * *
395572 TTCAAAGTCCATAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
395600 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
395629 TTCAAAGCCCACACGAGTCAGTGGCAACTATT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
395661 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
** *
395689 TTCAAAGCCCACAAGTTGGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CACTCTT
* * * *
395719 TTCAATGCCCACGAGTCGGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CACTCTT
* * *
395749 TTCAAAGCCCATAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
395777 TTCAAAGCCCACAAGTCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
395805 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
395834 TTCAAAGCCCACATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
* *
395866 TTCAAAGCCCACACAGTTAGTGACAC-CTT
1 TTCAAAGCCCACA-AGTCAGTGGCACTCTT
395895 TT
1 TT
395897 TTTAAAAAAA
Statistics
Matches: 349, Mismatches: 47, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.01
28 159 0.46
29 45 0.13
30 79 0.23
31 25 0.07
32 37 0.11
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:395763 original size:177 final size:171
Alignment explanation
Indices: 395458--395887 Score: 610
Period size: 177 Copynumber: 2.5 Consensus size: 171
395448 CGTTTACCTC
* * * *
395458 TTCAAAGCCCACAAGTTAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTCGCACCCTTTCAAAAC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
395522 CCACAAGTTAGTGGCACCCTTTCAATGCCCATAAGCCAGTGGTAACTCTTTTCAAAGTCCATAAG
66 CCACAAGTTAGTGGAACCCTTTCAATGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCCATAAG
*
395587 TTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTT
131 TTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC-T
*
395629 TTCAAAGCCCACACGAGTCAGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * * * *
395694 AGCCCACAAGTTGGTGGTAACTCTTTTCAATGCCCACGAGTCGGTGGTAACTCTTTTCAAAGCCC
63 AGCCCACAAGTTAGTGG-AAC-CCTTTCAATGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCC
395759 ATAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCT
126 ATAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
395805 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACATGAGTCGGTGGCAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-A-TCCTTTCA
395870 AAGCCCACACAGTTAGTG
62 AAGCCCACA-AGTTAGTG
395888 ACACCTTTTT
Statistics
Matches: 230, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
171 13 0.06
173 27 0.12
174 17 0.07
175 52 0.23
176 17 0.07
177 97 0.42
178 7 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (171 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
CCACAAGTTAGTGGAACCCTTTCAATGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCCATAAG
TTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:410190 original size:51 final size:50
Alignment explanation
Indices: 410043--410216 Score: 192
Period size: 51 Copynumber: 3.4 Consensus size: 50
410033 GAAATAACGA
* * *
410043 GGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAA-TCG
1 GGTTAGAGTATCCCCGATTGTGGAAAATTGGTG-TTTT-GAAATAAAACTAG
* **
410094 GAGTT-GAAGTATCCCCTATTAAAGGAAAATTGGTGTTTTGAAAATAAAACTAG
1 G-GTTAG-AGTATCCCCGATT-GTGGAAAATTGGTGTTTTG-AAATAAAACTAG
*
410147 GGTTAGAGTATCCCCGATTGTGGAAAA-TGAGTGTTTTAGAAATAAAACCAG
1 GGTTAGAGTATCCCCGATTGTGGAAAATTG-GTGTTTT-GAAATAAAACTAG
410198 GGTTAGAGTATCCCCGATT
1 GGTTAGAGTATCCCCGATT
410217 ATGAGAAATC
Statistics
Matches: 105, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
50 2 0.02
51 46 0.44
52 42 0.40
53 15 0.14
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (50 bp):
GGTTAGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGAAATAAAACTAG
Found at i:410242 original size:51 final size:51
Alignment explanation
Indices: 410135--410263 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 51
410125 GGTGTTTTGA
* * * * *
410135 AAATAAAACTAGGGTTAGAGTATCCCCGATTGTGGAAAATGAGTGTTTTAG
1 AAATAAAACCAGGGTTAGAGTATCCCCGATTATGGAAAATCAATATTTTAG
*
410186 AAATAAAACCAGGGTTAGAGTATCCCCGATTAT-GAGAAATCAATATTTTGG
1 AAATAAAACCAGGGTTAGAGTATCCCCGATTATGGA-AAATCAATATTTTAG
* * * *
410237 GAATAAAGCCGGGGTTGGAGTATCCCC
1 AAATAAAACCAGGGTTAGAGTATCCCC
410264 TCGGAGGTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
50 2 0.03
51 65 0.97
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (51 bp):
AAATAAAACCAGGGTTAGAGTATCCCCGATTATGGAAAATCAATATTTTAG
Found at i:410302 original size:28 final size:27
Alignment explanation
Indices: 410246--410317 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
410236 GGAATAAAGC
**
410246 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTAT-CCCTCGGAAATAA
410274 CGGGGTTGGAGTATCCCT-GATGAAATAA
1 CGGGGTTGGAGTATCCCTCG--GAAATAA
*
410302 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
410318 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 34 0.87
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:410365 original size:52 final size:51
Alignment explanation
Indices: 410306--410438 Score: 151
Period size: 52 Copynumber: 2.6 Consensus size: 51
410296 AAATAACGAG
* * * *
410306 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTATGGAAAA-AATATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTT-T-AAAAATAAAATCGGA
* * * *
410358 GTTGGAGTATCCCCGATTAAAGGAAAATTGTTGTTTTAAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTAAAAATAAAATCGGA
*
410410 GTTGGAGTATCCCCGATTATGAACAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
410439 AGAAACTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
51 12 0.18
52 43 0.63
53 13 0.19
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAAATCGGA
Found at i:412864 original size:13 final size:13
Alignment explanation
Indices: 412846--412898 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 13
412836 AGCTTCATAG
412846 CGATACAATGTAT
1 CGATACAATGTAT
412859 CGATACCAAACTTATGTAT
1 CGATA-C-AA--T--GTAT
412878 CGATACAATGTAT
1 CGATACAATGTAT
412891 CGATACAA
1 CGATACAA
412899 CACTTACGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 17 0.50
14 1 0.03
15 3 0.09
17 3 0.09
18 1 0.03
19 9 0.26
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (13 bp):
CGATACAATGTAT
Found at i:412887 original size:32 final size:32
Alignment explanation
Indices: 412846--412916 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
412836 AGCTTCATAG
*
412846 CGATACAATGTATCGATACCAA-ACTTATGTAT
1 CGATACAATGTATCGATA-CAACACTTACGTAT
412878 CGATACAATGTATCGATACAACACTTACGTAT
1 CGATACAATGTATCGATACAACACTTACGTAT
412910 CGATACA
1 CGATACA
412917 TTTACGGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
31 3 0.08
32 34 0.92
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (32 bp):
CGATACAATGTATCGATACAACACTTACGTAT
Found at i:413040 original size:12 final size:12
Alignment explanation
Indices: 413023--413056 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
413013 GACAAAAATG
413023 TTTTTTTTTAAT
1 TTTTTTTTTAAT
*
413035 TTTTTTTTTTAT
1 TTTTTTTTTAAT
413047 TATTTTTTTT
1 T-TTTTTTTT
413057 CCTTTTTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTAAT
Found at i:413041 original size:13 final size:13
Alignment explanation
Indices: 413023--413056 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
413013 GACAAAAATG
413023 TTTTTTTTTAATT-
1 TTTTTTTTT-ATTA
413036 TTTTTTTTTATTA
1 TTTTTTTTTATTA
413049 TTTTTTTT
1 TTTTTTTT
413057 CCTTTTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTATTA
Found at i:413862 original size:61 final size:59
Alignment explanation
Indices: 413769--414588 Score: 834
Period size: 61 Copynumber: 14.0 Consensus size: 59
413759 AGAGGAAAAT
* * **
413769 AAAGTGCATCCTGCTCTTTCAGGACT-AAAAAGTGCCACCAACTCCTGTGGGCTTTGAAAAGG
1 AAAG-GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT--AAAGG
* *
413831 AAAGGCATCCTGCTTTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAGG
* * * *
413892 AAAGGCGTCCTTCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGA
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT--AAAGG
** * *
413953 AAAAACATTCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTT----G
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGG
*
414008 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTT----G
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGG
* * ** * *
414063 AAAGGCGTCCTGCTCTTTAAGGACTAAAAAAGTGCCACCAACTGGTGTGGGCTTT----C
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAGG
* * * *
414119 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGGGTGGGCTATGAAAAGG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT-T-TAAAGG
* **
414180 AAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAG-G
* *
414242 AAA-GCATCCTGCACTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTT----G
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGG
* * *
414296 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTGGTGTGGGCTTT----G
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGG
* * *
414351 AAAGGCATCCTACTCTTTGAGGACT-AAAATAGTGCCACCAACTAGTGTGGGCTTT----G
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAA-A-TGCCACCAACTTGTGTGGGCTTTAAAGG
* *
414407 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGTGCTTTGAAAAGG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAGG
* ** *
414468 AAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGCGCTTTGCAAAGAG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAG-G
* *
414530 AAA-GCATCCTGCTCTTTGAGGACTCGAAAATGCCACCAAATTGTGTGGGCTTTGAAAGG
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGG
414589 TGTCCTGCGC
Statistics
Matches: 662, Mismatches: 72, Indels: 51
0.84 0.09 0.06
Matches are distributed among these distances:
54 7 0.01
55 188 0.28
56 100 0.15
57 3 0.00
59 1 0.00
60 9 0.01
61 335 0.51
62 19 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (59 bp):
AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGG
Found at i:414238 original size:349 final size:343
Alignment explanation
Indices: 413777--414588 Score: 1062
Period size: 349 Copynumber: 2.3 Consensus size: 343
413767 ATAAAGTGCA
* * *
413777 TCCTGCTCTTTCAGGACT-AAAAAGTGCCACCAACTCCTGTGGGCTTTGAAAAGGAAAGGCATCC
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCC
* * * *
413841 TGCTTTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAGGCGTCCTTCT
65 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAA-GCATCCTGCA
* * *
413906 CTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGAAAAAACATTCTGCTCTT
129 CTTTGAGGACTGGAAA-ATGCCACCAACTTCTGTGGGCTTT-----G-AAAAACATCCTGCTCTT
* * * *
413970 TGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGG
187 TGAGGACTAGAAAATGCCACCAACTGCTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACT-A
* *
414035 AAA-A-TGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAAAAGTGC
251 AAATAGTGCCACCAACTAGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGACTAAAAAA-TGC
*
414098 CACCAACTGGTGTGGGCTTT-CAAAGGCG
315 CACCAACTCGTGTGGGCTTTACAAAGGCG
* * * *
414126 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGGGTGGGCTATGAAAAGGAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCT
*
414191 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCAC
66 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAG-GAAAGCATCCTGCAC
** *
414256 TTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
130 TTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAAACATCCTGCTCTTTGAGGACT
*
414321 AGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAAAATAGTGC
195 AGAAAATGCCACCAACTGCTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAAAATAGTGC
* **
414386 CACCAACTAGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCG
260 CACCAACTAGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGACTAAAAAATGCCACCAACTCG
* *
414451 TGTGTGCTTTGAAAAGGAAAGGCG
325 TGTGGGCTTT----A-CAAAGGCG
** * * *
414475 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGCGCTTTGCAAAGAGAAA-GCATCC
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAG-GAAAGGCATCC
* * *
414539 TGCTCTTTGAGGACTCGAAAATGCCACCAAATTGTGTGGGCTTTG-AAAGG
65 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGG
414589 TGTCCTGCGC
Statistics
Matches: 408, Mismatches: 43, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
342 3 0.01
343 94 0.23
344 51 0.12
347 1 0.00
348 4 0.01
349 239 0.59
350 16 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (343 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCT
GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAGCATCCTGCACT
TTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAAACATCCTGCTCTTTGAGGACTA
GAAAATGCCACCAACTGCTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAAAATAGTGCC
ACCAACTAGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGACTAAAAAATGCCACCAACTCGT
GTGGGCTTTACAAAGGCG
Found at i:414354 original size:288 final size:288
Alignment explanation
Indices: 413769--414601 Score: 1299
Period size: 288 Copynumber: 2.9 Consensus size: 288
413759 AGAGGAAAAT
* **
413769 AAAGTGCATCCTGCTCTTTCAGGACT-AAAAAGTGCCACCAACTCCTGTGGGCTTTGAAAAGGAA
1 AAAG-GCATCCTGCTCTTTAAGGACTAAAAAAGTGCCACCAACTAGTGTGGGCTTT------GAA
* * * *
413833 AGGCATCCTGCTTTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAGGC
59 AGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGC
* * * * * *
413898 GTCCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGAAAAAACATTC
124 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCC
*
413963 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
189 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
*
414028 GGACTGGAAAATGCCACCAACTGGTGTGGGCTTTG
254 GGACTAGAAAATGCCACCAACTGGTGTGGGCTTTG
* * * *
414063 AAAGGCGTCCTGCTCTTTAAGGACTAAAAAAGTGCCACCAACTGGTGTGGGCTTTCAAAGGCGTC
1 AAAGGCATCCTGCTCTTTAAGGACTAAAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAGGCATC
* * *
414128 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGGGTGGGCTATGAAAAGGAAAGGCGTCCTGC
66 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGC
*
414193 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCACTT
131 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTT
414258 TGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAG
196 TGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAG
414323 AAAATGCCACCAACTGGTGTGGGCTTTG
261 AAAATGCCACCAACTGGTGTGGGCTTTG
* * *
414351 AAAGGCATCCTACTCTTTGAGGACTAAAATAGTGCCACCAACTAGTGTGGGCTTTGAAAGGCATC
1 AAAGGCATCCTGCTCTTTAAGGACTAAAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAGGCATC
*
414416 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGTGCTTTGAAAAGGAAAGGCGTCCTGC
66 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGC
*
414481 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGCGCTTTGCAAAGAGAAAGCATCCTGCTCTT
131 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTT
* * * * *
414546 TGAGGACTCGAAAATGCCACCAAATTGTGTGGGCTTTGAAAGGTGTCCTGCGCTTT
196 TGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
414602 ACTACGGATT
Statistics
Matches: 499, Mismatches: 39, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
288 449 0.90
293 19 0.04
294 31 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (288 bp):
AAAGGCATCCTGCTCTTTAAGGACTAAAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAGGCATC
CTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGC
TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTT
TGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAG
AAAATGCCACCAACTGGTGTGGGCTTTG
Found at i:416255 original size:27 final size:27
Alignment explanation
Indices: 416225--416310 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
416215 TGTGGGCTTT
416225 GAAAGGCGTCCTGCTCTTTGAGGACTG
1 GAAAGGCGTCCTGCTCTTTGAGGACTG
* ** ** * *
416252 GAAAATGCCACCAACTCGTGTG-GG-CTTT
1 G-AAAGGCGTCCTGCTC-TTTGAGGAC-TG
416280 GAAAGGCGTCCTGCTCTTTGAGGACTG
1 GAAAGGCGTCCTGCTCTTTGAGGACTG
416307 GAAA
1 GAAA
416311 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 3 0.08
27 19 0.47
28 15 0.38
29 3 0.08
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.24
Consensus pattern (27 bp):
GAAAGGCGTCCTGCTCTTTGAGGACTG
Done.