Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 123 of 126
Found at i:36710708 original size:359 final size:352
Alignment explanation
Indices: 36710203--36710899 Score: 1029
Period size: 359 Copynumber: 2.0 Consensus size: 352
36710193 CTTCGACCAG
** *
36710203 CTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCCCGCATCGAGCGTCAAGTTGGTAT
1 CTTCTCAACATCTCATCAGGAAGCTGGGTTCGAAGATTTGCCCACATCGAGCGTCAAGTTGGTAT
* *
36710268 ACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTATCTGCTTCTCTGTATCTTAT
66 ACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTAATCTGCTTCTCTGTATCTCAT
* *
36710333 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
131 CAGAAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * *
36710398 CCTACTTCTCAGTATCTTATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGCGTC-ATGT
196 CCTACTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCCTCGA-GT
* *
36710462 TGGTATACTTCTCAGTATCTCATCAGAAAGATGA-TAGCCTCACTTGTTTCAATCTGCATCTCTG
260 TGGTATACTTCTCAGTATCTCATCAGAAAGATGACCA-CCTCACTTGTTTCAATCCGCATCTCTG
*
36710526 TATCTCATCAGGAAGACGAATTTGGTCCA
324 TATCTCATCACGAAGACGAATTTGGTCCA
* ** *
36710555 CTTCTCAACATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
1 CTTCTCAACATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCCCACATCGAGC----G-TCAAGT
* * * * * *
36710620 TGGTCTTCTTCTCTGTGTCTCATCAGGAAGATGACCGCGTCATTTGTTTCAATCTGCTTCTTTGT
60 TGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTT-AATCTGCTTCTCTGT
36710685 ATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATT
124 ATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATT
* *
36710750 GCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATTGAGCC
189 GCTTCGACCTACTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCC
* * * *
36710815 TCGAGTTGGTATACTTCTCTGTATCTTATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTT
254 TCGAGTTGGTATACTTCTCAGTATCTCATCAGAAAGATGACCACCTCACTTGTTTCAATCCGCAT
36710880 CTCTGTATCTCATCACGAAG
319 CTCTGTATCTCATCACGAAG
36710900 CTAACCATTT
Statistics
Matches: 306, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
352 23 0.08
353 25 0.08
357 1 0.00
358 47 0.15
359 208 0.68
360 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (352 bp):
CTTCTCAACATCTCATCAGGAAGCTGGGTTCGAAGATTTGCCCACATCGAGCGTCAAGTTGGTAT
ACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTAATCTGCTTCTCTGTATCTCAT
CAGAAAGACGAATTTGGTCCACTTCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
CCTACTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCCTCGAGTT
GGTATACTTCTCAGTATCTCATCAGAAAGATGACCACCTCACTTGTTTCAATCCGCATCTCTGTA
TCTCATCACGAAGACGAATTTGGTCCA
Found at i:36711464 original size:29 final size:30
Alignment explanation
Indices: 36711384--36711464 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
36711374 AACTATTCAT
* * *
36711384 AAATTATATTTATGACCCCAAAATTTCAAAA
1 AAATTACATTT-TAACCCCAAAACTTCAAAA
* *
36711415 AAATTACATTTTAACCTCAAAACTTC-TAA
1 AAATTACATTTTAACCCCAAAACTTCAAAA
36711444 AAATTACCATTTT-ACCCCAAA
1 AAATTA-CATTTTAACCCCAAA
36711465 CTTTCCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 15 0.35
30 18 0.42
31 10 0.23
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (30 bp):
AAATTACATTTTAACCCCAAAACTTCAAAA
Found at i:36711738 original size:29 final size:28
Alignment explanation
Indices: 36711642--36711739 Score: 76
Period size: 29 Copynumber: 3.4 Consensus size: 28
36711632 ACCCCCGAAC
*
36711642 TTTC-CAAAATCCCATTTTTAACCTTGA
1 TTTCTCAAAATCCCATTTTTAACCTTAA
* * * *
36711669 TTTCACCAAAAATTACCA-TTTTACCCCTAAA
1 TTTC-TC-AAAA-TCCCATTTTTA-ACCTTAA
36711700 CTTTCT-AAAATCCCATTTTTAACCTTAA
1 -TTTCTCAAAATCCCATTTTTAACCTTAA
36711728 TTTTCTCAAAAT
1 -TTTCTCAAAAT
36711740 TATATTTTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
27 4 0.07
28 14 0.26
29 15 0.28
30 9 0.17
31 8 0.15
32 4 0.07
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.40
Consensus pattern (28 bp):
TTTCTCAAAATCCCATTTTTAACCTTAA
Found at i:36711738 original size:59 final size:58
Alignment explanation
Indices: 36711442--36711724 Score: 415
Period size: 59 Copynumber: 4.8 Consensus size: 58
36711432 CAAAACTTCT
*
36711442 AAAAATTACCATTTTACCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
* * *
36711500 AAAAATTACCATTTTACCTCCAAACTTTCTAAAATTCCATTTTTGACCCCGATTTCACC
1 AAAAATTACCATTTTACC-CCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
* * *
36711559 AAAAATTATCATTTTACCCCCAAACCTTCCAAAATTCTATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
* * *
36711618 -AAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTTGATTTCACC
1 AAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
* *
36711676 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCT
1 AAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCT
36711725 TAATTTTCTC
Statistics
Matches: 203, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
58 74 0.36
59 127 0.63
60 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.36
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
Found at i:36711738 original size:117 final size:116
Alignment explanation
Indices: 36711442--36711755 Score: 434
Period size: 117 Copynumber: 2.7 Consensus size: 116
36711432 CAAAACTTCT
36711442 AAAAATTACCATTTTACCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACCAAAAATT
1 AAAAATTACCATTTTACCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACC-AAAATT
* * * * *
36711507 ACCATTTTACCTCCAAACTTTCTAAAATTCCATTTTTGACCCCGATTTCACC
65 ACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* *
36711559 AAAAATTATCATTTTACCCCCAAACCTTCCAAAATTCTATTTTTAACCTCGATTTCACCAAAATT
1 AAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACCAAAATT
**
36711624 ACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTTGATTTCACC
65 ACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * ** *
36711676 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCTTAATTTTC-TCAAAAT
1 AAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCTATTTTTAACCTCGA-TTTCACCAAAAT
*
36711740 TA-TATTTTACCCCCGA
64 TACCATTTTACCCCCGA
36711756 GAGTAAAAAA
Statistics
Matches: 176, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
116 17 0.10
117 114 0.65
118 45 0.26
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.36
Consensus pattern (116 bp):
AAAAATTACCATTTTACCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACCAAAATTA
CCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:36712452 original size:154 final size:152
Alignment explanation
Indices: 36712250--36712534 Score: 455
Period size: 154 Copynumber: 1.9 Consensus size: 152
36712240 TTCTCAAAAC
* *
36712250 ATATATCTATATTACAAATAATTTTAAAGCGACGCAATGTCCTGTCGTGTGAAAACTTCGA-AAG
1 ATATATCTATATCACAAATAATTTTAAAACGACGCAATGTCCTGTCGTGTGAAAACTTCGAGAA-
* *
36712314 ATCGCGCTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCGAATCAAATATCCTCTTCAAAAG
65 ATCGCACTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCAAATATCCT-TTCAAAAG
36712379 TTTCCGAAACATCCTTCAATTTTT
129 TTTCCGAAACATCCTTCAATTTTT
* * *
36712403 ATATATCTATATCACAAGTAATTTTTAAAACGAGGCAATGTCCTTTCGTGTGAAAACTTCGAGAA
1 ATATATCTATATCACAAATAA-TTTTAAAACGACGCAATGTCCTGTCGTGTGAAAACTTCGAGAA
**
36712468 ATCGCACTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCGGATATCCTTTCAAAAGT
65 ATCGCACTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCAAATATCCTTTCAAAAGT
36712533 TT
130 TT
36712535 TCAAAACACT
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
153 30 0.25
154 89 0.74
155 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (152 bp):
ATATATCTATATCACAAATAATTTTAAAACGACGCAATGTCCTGTCGTGTGAAAACTTCGAGAAA
TCGCACTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGCAAATCAAATATCCTTTCAAAAGTT
TCCGAAACATCCTTCAATTTTT
Found at i:36712824 original size:21 final size:21
Alignment explanation
Indices: 36712800--36712843 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
36712790 AGAATTTATT
36712800 TTGTTATTTGAAGTGAGACTA
1 TTGTTATTTGAAGTGAGACTA
* ***
36712821 TTGTTTTTTTTTGTGAGACTA
1 TTGTTATTTGAAGTGAGACTA
36712842 TT
1 TT
36712844 TGTTGGGAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (21 bp):
TTGTTATTTGAAGTGAGACTA
Found at i:36715222 original size:15 final size:16
Alignment explanation
Indices: 36715202--36715237 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
36715192 AATTTAAATT
36715202 AAAAGTCCAAAA-TAC
1 AAAAGTCCAAAATTAC
36715217 AAAAGTCCAAAATTAC
1 AAAAGTCCAAAATTAC
36715233 AAAAG
1 AAAAG
36715238 CACAATTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.61, C:0.17, G:0.08, T:0.14
Consensus pattern (16 bp):
AAAAGTCCAAAATTAC
Found at i:36717173 original size:29 final size:28
Alignment explanation
Indices: 36717125--36717402 Score: 231
Period size: 29 Copynumber: 9.5 Consensus size: 28
36717115 CAAAAATTTG
*
36717125 AAAAATTCCATTTTTGACTCTGAAACTTCC
1 AAAAATTCCA-TTTTAAC-CTGAAACTTCC
* *
36717155 AAAAATTACATTTTAA-CTCGAAAATTTCC
1 AAAAATTCCATTTTAACCT-G-AAACTTCC
* *
36717184 AAAAATTCCATTTTAACCCT-AAGATTTTC
1 AAAAATTCCATTTTAA-CCTGAA-ACTTCC
* *
36717213 AAATATTCCATTTTGACCTCGAAACTTCC
1 AAAAATTCCATTTTAACCT-GAAACTTCC
* * *
36717242 AAAAATTACATTTTAACCCTAAAATTTCC
1 AAAAATTCCATTTTAA-CCTGAAACTTCC
* * *
36717271 AAAAATTCTATTTTTGACCCTGAAACTTTC
1 AAAAATTCCA-TTTT-AACCTGAAACTTCC
* *
36717301 AAAAAATACATTTTAACCTCGAAA-TCTCC
1 AAAAATTCCATTTTAACCT-GAAACT-TCC
36717330 AAAAATTCCATTTTAACCTCGAAACTTCC
1 AAAAATTCCATTTTAACCT-GAAACTTCC
* *
36717359 AACAATTCCATTTTGACCTCGAAACTT-C
1 AAAAATTCCATTTTAACCT-GAAACTTCC
*
36717387 AAAAATTACCCTTTTA
1 AAAAATT-CCATTTTA
36717403 CCCCCGGATG
Statistics
Matches: 202, Mismatches: 32, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.01
28 18 0.09
29 144 0.71
30 35 0.17
31 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAAATTCCATTTTAACCTGAAACTTCC
Found at i:36717367 original size:146 final size:146
Alignment explanation
Indices: 36717095--36717395 Score: 423
Period size: 146 Copynumber: 2.1 Consensus size: 146
36717085 TAAATTGTCT
* * *
36717095 AAAAATTACATTTTTACCCCCAAAAATTTGAAAAATTCCATTTTTGACTCTGAAACTTCCAAAAA
1 AAAAATTACATTTTTACACCCAAAAATTTCAAAAATTCCATTTTTGACCCTGAAACTTCCAAAAA
* * * * *
36717160 TTACATTTTAACTCGAAAATTTCCAAAAATTCCATTTTAACCCTAAGATTTTCAAATATTCCATT
66 ATACATTTTAACTCGAAAATCTCCAAAAATTCCATTTTAACCCGAAGACTTCCAAATATTCCATT
36717225 TTGACCTCGAAACTTCC
131 TTGACCTCGAAACTT-C
* * *
36717242 AAAAATTACA-TTTTA-ACCCTAAAATTTCCAAAAATTCTATTTTTGACCCTGAAACTTTCAAAA
1 AAAAATTACATTTTTACACCCAAAAATTT-CAAAAATTCCATTTTTGACCCTGAAACTTCCAAAA
36717305 AATACATTTTAACCTCG-AAATCTCCAAAAATTCCATTTTAACCTCGAA-ACTTCCAACA-ATTC
65 AATACATTTTAA-CTCGAAAATCTCCAAAAATTCCATTTTAACC-CGAAGACTTCCAA-ATATTC
36717367 CATTTTGACCTCGAAACTTC
127 CATTTTGACCTCGAAACTTC
36717387 AAAAATTAC
1 AAAAATTAC
36717396 CCTTTTACCC
Statistics
Matches: 139, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
145 20 0.14
146 101 0.73
147 18 0.13
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (146 bp):
AAAAATTACATTTTTACACCCAAAAATTTCAAAAATTCCATTTTTGACCCTGAAACTTCCAAAAA
ATACATTTTAACTCGAAAATCTCCAAAAATTCCATTTTAACCCGAAGACTTCCAAATATTCCATT
TTGACCTCGAAACTTC
Found at i:36724552 original size:153 final size:153
Alignment explanation
Indices: 36724383--36724667 Score: 464
Period size: 153 Copynumber: 1.9 Consensus size: 153
36724373 AGTGTTTTGA
* *
36724383 AAACTTTTGAAAAGGATATCCGATTTGCATGAATTACGAAAATCACACTTAACACGTTAAAGTGC
1 AAACTTTTGAAAAGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGC
* *
36724448 GAT-TTCTCGAAGTTTTCACACGAAAGGACATTGCCTCGTTTTAAAATTACTTGTGATATAGATA
66 GATCTT-TCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTACTTGTAATATAGATA
36724512 TATAAAAATTGAAGGATGTTTCGG
130 TATAAAAATTGAAGGATGTTTCGG
* **
36724536 AAACTTTTGAAGAGGATATTTGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGC
1 AAACTTTTGAAAAGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGC
* * *
36724601 GATCTTTCGAAGTTTTCACACGACAGGACATTGCGTCGCTTTAAAATTATTTGTAATATAGATAT
66 GATCTTTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTACTTGTAATATAGATAT
36724666 AT
131 AT
36724668 GTTTTGAGAA
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
153 119 0.98
154 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (153 bp):
AAACTTTTGAAAAGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGC
GATCTTTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTACTTGTAATATAGATAT
ATAAAAATTGAAGGATGTTTCGG
Found at i:36725216 original size:29 final size:29
Alignment explanation
Indices: 36725177--36725275 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 29
36725167 GTAAAATATA
36725177 ATTTTGGGAAAATTTAAGGTTAAAAATGGG
1 ATTTT-GGAAAATTTAAGGTTAAAAATGGG
* * * * *
36725207 ATTTTAGAAAGTTTAGGGGT-AAAATGGTA
1 ATTTTGGAAAATTTAAGGTTAAAAATGG-G
* *
36725236 ATTTTTGGTGAAA-TCAAGGTTAAAAATGGG
1 A-TTTTGG-AAAATTTAAGGTTAAAAATGGG
36725266 ATTTTGGAAA
1 ATTTTGGAAA
36725276 GTTCGGGGGT
Statistics
Matches: 52, Mismatches: 13, Indels: 10
0.69 0.17 0.13
Matches are distributed among these distances:
28 9 0.17
29 18 0.35
30 16 0.31
31 9 0.17
ACGTcount: A:0.38, C:0.01, G:0.26, T:0.34
Consensus pattern (29 bp):
ATTTTGGAAAATTTAAGGTTAAAAATGGG
Found at i:36725255 original size:59 final size:58
Alignment explanation
Indices: 36725193--36725476 Score: 424
Period size: 59 Copynumber: 4.8 Consensus size: 58
36725183 GGAAAATTTA
* * *
36725193 AGGTTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCA
1 AGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAATGGTAATTTTTGGTGAAATCG
* *
36725252 AGGTTAAAAATGGGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTT-TGGGGTAAAATGGTAATTTTTGGTGAAATCG
* * *
36725311 AGGTTAAAAATAGAATTTTGGAAGGTTTGGGGGTAAAATGATAATTTTTGGTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAATGGTAATTTTTGGTGAAATCG
* * *
36725370 GGGTCAAAAATGGAATTTTAGAAAGTTTGGAGGTAAAATGGTAATTTTTGGTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTTTGG-GGTAAAATGGTAATTTTTGGTGAAATCG
*
36725429 AGGTTAAAAATAGAATTTTGGAAAGTTTGGGGTAAAATGGTAATTTTT
1 AGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAATGGTAATTTTT
36725477 AGAAGTTTTG
Statistics
Matches: 204, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
58 20 0.10
59 184 0.90
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.34
Consensus pattern (58 bp):
AGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAATGGTAATTTTTGGTGAAATCG
Found at i:36725298 original size:29 final size:28
Alignment explanation
Indices: 36725258--36725475 Score: 101
Period size: 30 Copynumber: 7.5 Consensus size: 28
36725248 ATCAAGGTTA
*
36725258 AAAATGGGATTTTGGAAAGTTCGGGGGT
1 AAAATGGAATTTTGGAAAGTTCGGGGGT
* *
36725286 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
* * *
36725316 AAAAATAGAATTTTGGAAGGTTTGGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
*
36725345 AAAATGATAATTTTTGGTGAAA--TC-GGGGT
1 AAAATG-GAA-TTTT-G-GAAAGTTCGGGGGT
* * *
36725374 CAAAAATGGAATTTTAGAAAGTTTGGAGGT
1 --AAAATGGAATTTTGGAAAGTTCGGGGGT
* *
36725404 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
* *
36725434 AAAAATAGAATTTTGGAAAGTT-TGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
36725462 AAAATGGTAATTTT
1 AAAATGG-AATTTT
36725476 TAGAAGTTTT
Statistics
Matches: 140, Mismatches: 26, Indels: 48
0.65 0.12 0.22
Matches are distributed among these distances:
27 17 0.12
28 30 0.21
29 29 0.21
30 33 0.24
31 20 0.14
32 11 0.08
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:36725446 original size:30 final size:30
Alignment explanation
Indices: 36725227--36725447 Score: 117
Period size: 30 Copynumber: 7.4 Consensus size: 30
36725217 GTTTAGGGGT
*
36725227 AAAATGGTAATTTTTGGTGAAATCAAGGTTA
1 AAAATGG-AATTTTTGGTGAAATCGAGGTTA
* * *
36725258 AAAATGGGA-TTTT-G-GAAAGTTCGGGGGT-
1 AAAATGGAATTTTTGGTGAAA--TCGAGGTTA
36725286 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTTGGTGAAATCGAGGTTA
* * * * *
36725317 AAAATAGAA-TTTT-G-GAAGGTTTGGGGGT-
1 AAAATGGAATTTTTGGTGAA--ATCGAGGTTA
* * *
36725345 AAAATGATAATTTTTGGTGAAATCGGGGTCA
1 AAAATG-GAATTTTTGGTGAAATCGAGGTTA
* *
36725376 AAAATGGAA-TTTT--AGAAAGTTTGGAGG-T-
1 AAAATGGAATTTTTGGTGAAA---TCGAGGTTA
36725404 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTTGGTGAAATCGAGGTTA
*
36725435 AAAATAGAATTTT
1 AAAATGGAATTTT
36725448 GGAAAGTTTG
Statistics
Matches: 141, Mismatches: 26, Indels: 47
0.66 0.12 0.22
Matches are distributed among these distances:
27 11 0.08
28 21 0.15
29 32 0.23
30 39 0.28
31 27 0.19
32 11 0.08
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (30 bp):
AAAATGGAATTTTTGGTGAAATCGAGGTTA
Found at i:36725476 original size:29 final size:29
Alignment explanation
Indices: 36725208--36725517 Score: 123
Period size: 29 Copynumber: 10.6 Consensus size: 29
36725198 AAAAATGGGA
*
36725208 TTTTAGAAAGTTTAGGGGTAAAATGGTAAT
1 TTTTGGAAAGTTT-GGGGTAAAATGGTAAT
*** * *
36725238 TTTTGGTGAAA-TCAAGGTTAAAAATGG-GA-
1 TTTT-G-GAAAGTTTGGGGT-AAAATGGTAAT
*
36725267 TTTTGGAAAGTTCGGGGGTAAAATGGTAAT
1 TTTTGGAAAGTT-TGGGGTAAAATGGTAAT
* * *
36725297 TTTTGGTGAAA--TCGAGGTTAAAAATAG-AA-
1 TTTT-G-GAAAGTTTG-GGGT-AAAATGGTAAT
* *
36725326 TTTTGGAAGGTTTGGGGGTAAAATGATAAT
1 TTTTGGAAAGTTT-GGGGTAAAATGGTAAT
*
36725356 TTTTGGTGAAA--TCGGGGTCAAAAATGG-AA-
1 TTTT-G-GAAAGTTTGGGGT--AAAATGGTAAT
*
36725385 TTTTAGAAAGTTTGGAGGTAAAATGGTAAT
1 TTTTGGAAAGTTTGG-GGTAAAATGGTAAT
* * *
36725415 TTTTGGTGAAA--TCGAGGTTAAAAATAG-AA-
1 TTTT-G-GAAAGTTTG-GGGT-AAAATGGTAAT
36725444 TTTTGGAAAGTTTGGGGTAAAATGGTAAT
1 TTTTGGAAAGTTTGGGGTAAAATGGTAAT
* *
36725473 TTTTAG-AAGTTTTGAGGTTAAAAT-GTAAT
1 TTTTGGAAAG-TTTG-GGGTAAAATGGTAAT
* *
36725502 TTTTTGAAATTTTGGG
1 TTTTGGAAAGTTTGGG
36725518 TCATAAATAT
Statistics
Matches: 209, Mismatches: 35, Indels: 74
0.66 0.11 0.23
Matches are distributed among these distances:
27 21 0.10
28 33 0.16
29 62 0.30
30 49 0.23
31 29 0.14
32 15 0.07
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.36
Consensus pattern (29 bp):
TTTTGGAAAGTTTGGGGTAAAATGGTAAT
Found at i:36725525 original size:29 final size:29
Alignment explanation
Indices: 36725444--36725532 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
36725434 AAAAATAGAA
* * *
36725444 TTTTGGAAAGTTTGGGGT-AAAATGGTAAT
1 TTTTAGAAATTTTGAGGTCAAAAT-GTAAT
* *
36725473 TTTTAGAAGTTTTGAGGTTAAAATGTAAT
1 TTTTAGAAATTTTGAGGTCAAAATGTAAT
* *
36725502 TTTTTGAAATTTTG-GGTCATAAATATAAT
1 TTTTAGAAATTTTGAGGTCA-AAATGTAAT
36725531 TT
1 TT
36725533 ATGAATAGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 4 0.08
29 41 0.82
30 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (29 bp):
TTTTAGAAATTTTGAGGTCAAAATGTAAT
Found at i:36726573 original size:201 final size:201
Alignment explanation
Indices: 36726337--36727054 Score: 974
Period size: 200 Copynumber: 3.6 Consensus size: 201
36726327 TTCGAACCCC
** * *
36726337 AGCTTCCTGATGAGATGTTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGATGCAG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAG
* ** *
36726402 ATTGAAACAAGTGAGGCTATCATCTTTCTGATGAGATACTGAGAAGTATACCAACATGACGCTCG
66 ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTATACCAACATGACGCTCG
*
36726467 ATATGAGCAAATCTTCGAACCCCAGCTTCCTGATAAGATACTGAGAAGTAGGTCGAAGCAATAAA
131 ATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAA
36726532 ATGGTT
196 ATGGTT
* *
36726538 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGCAG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAG
* * *
36726603 ATAAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTTGACGCTCG
66 ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTATACCAACATGACGCTCG
** * *
36726668 ATGCGGGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCT-GGTCGAAGCAATAG
131 ATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG-TAGGTCGAAGCAATAA
36726731 AATGGTT
195 AATGGTT
*
36726738 AGCCTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGC-G
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAG
* ** * * * * *
36726802 AATTGAAACAAACGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACTCA
66 -ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTATACC-AA-C--A-TGA
* * *
36726867 AGCTCGATATGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
125 CGCTCGATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGC
*
36726932 AATAAAGTGGTT
190 AATAAAATGGTT
* * * * * * **
36726944 AGCTTCTTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCGGATGAAACACAAAGAAGTGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAG
* * *
36727009 ATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAG
66 ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAG
36727055 AAGACCAAGT
Statistics
Matches: 455, Mismatches: 52, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
199 1 0.00
200 150 0.33
201 138 0.30
202 1 0.00
205 22 0.05
206 142 0.31
207 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (201 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAG
ATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTATACCAACATGACGCTCG
ATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAA
ATGGTT
Found at i:36727514 original size:15 final size:16
Alignment explanation
Indices: 36727494--36727529 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
36727484 AATTTAAATT
36727494 AAAAGTCCAAAA-TAC
1 AAAAGTCCAAAATTAC
36727509 AAAAGTCCAAAATTAC
1 AAAAGTCCAAAATTAC
36727525 AAAAG
1 AAAAG
36727530 CACAATTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.61, C:0.17, G:0.08, T:0.14
Consensus pattern (16 bp):
AAAAGTCCAAAATTAC
Found at i:36727613 original size:34 final size:35
Alignment explanation
Indices: 36727570--36727635 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
36727560 AGATACACCA
*
36727570 AAGCCCAATTACAAGGGCCC-AATTAACCCAACAC
1 AAGCCCAATTACAAGGGCCCAAAATAACCCAACAC
* *
36727604 AAGCCCAATTAGACGGGCCCAAAATAACCCAA
1 AAGCCCAATTACAAGGGCCCAAAATAACCCAA
36727636 AACAGAAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.42, C:0.33, G:0.14, T:0.11
Consensus pattern (35 bp):
AAGCCCAATTACAAGGGCCCAAAATAACCCAACAC
Found at i:36729470 original size:29 final size:28
Alignment explanation
Indices: 36729422--36729699 Score: 222
Period size: 29 Copynumber: 9.5 Consensus size: 28
36729412 CAAAAATTTG
*
36729422 AAAAATTCCATTTTTGACTCTGAAACTTCC
1 AAAAATTCCA-TTTTAAC-CTGAAACTTCC
* *
36729452 AAAAATTACATTTTAA-CTCGAAAATTTCC
1 AAAAATTCCATTTTAACCT-G-AAACTTCC
* *
36729481 AAAAATTCCATTTTAACCCT-AAGATTTTC
1 AAAAATTCCATTTTAA-CCTGAA-ACTTCC
* *
36729510 AAATATTCCATTTTGACCTCGAAACTTCC
1 AAAAATTCCATTTTAACCT-GAAACTTCC
* * *
36729539 AAAAATTACATTTTAACCCTAAAATTTCC
1 AAAAATTCCATTTTAA-CCTGAAACTTCC
* * * *
36729568 AAAAATTCTATTTTTGACCCTAAAACTTTC
1 AAAAATTCCA-TTTT-AACCTGAAACTTCC
* *
36729598 AAAAAATACATTTTAACCTCGAAA-TCTCC
1 AAAAATTCCATTTTAACCT-GAAACT-TCC
36729627 AAAAATTCCATTTTAACCTCGAAACTTCC
1 AAAAATTCCATTTTAACCT-GAAACTTCC
* *
36729656 AACAATTCCATTTTGACCTCGAAACTT-C
1 AAAAATTCCATTTTAACCT-GAAACTTCC
*
36729684 AAAAATTACCCTTTTA
1 AAAAATT-CCATTTTA
36729700 CCCCCGGATG
Statistics
Matches: 202, Mismatches: 32, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.01
28 18 0.09
29 143 0.71
30 36 0.18
31 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAAATTCCATTTTAACCTGAAACTTCC
Found at i:36729656 original size:88 final size:87
Alignment explanation
Indices: 36729443--36729673 Score: 297
Period size: 88 Copynumber: 2.6 Consensus size: 87
36729433 TTTTGACTCT
* * *
36729443 GAAACTTCCAAAAATTACATTTTAA-CTCGAAAATTTCCAAAAATTCCATTTTAACCCTAAGATT
1 GAAACTTCCAAAAATTACATTTTAACCTCG-AAATTTCCAAAAATTCCATTTTGACCCTAAAACT
* * * *
36729507 TTCAAATATTCCATTTTGACCTC
65 TTCAAAAAATACATTTTAACCTC
* *
36729530 GAAACTTCCAAAAATTACATTTTAACC-CTAAAATTTCCAAAAATTCTATTTTTGACCCTAAAAC
1 GAAACTTCCAAAAATTACATTTTAACCTC-GAAATTTCCAAAAATTCCA-TTTTGACCCTAAAAC
36729594 TTTCAAAAAATACATTTTAACCTC
64 TTTCAAAAAATACATTTTAACCTC
* * *
36729618 GAAA-TCTCCAAAAATTCCATTTTAACCTCGAAACTTCCAACAATTCCATTTTGACC
1 GAAACT-TCCAAAAATTACATTTTAACCTCGAAATTTCCAAAAATTCCATTTTGACC
36729674 TCGAAACTTC
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
87 52 0.42
88 72 0.58
89 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (87 bp):
GAAACTTCCAAAAATTACATTTTAACCTCGAAATTTCCAAAAATTCCATTTTGACCCTAAAACTT
TCAAAAAATACATTTTAACCTC
Found at i:36729664 original size:146 final size:146
Alignment explanation
Indices: 36729392--36729692 Score: 414
Period size: 146 Copynumber: 2.1 Consensus size: 146
36729382 TAAATTGTCT
* * * *
36729392 AAAAATTACATTTTTACCCCCAAAAATTTGAAAAATTCCATTTTTGACTCTGAAACTTCCAAAAA
1 AAAAATTACATTTTTACACCCAAAAATTTCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAA
* * * * *
36729457 TTACATTTTAACTCGAAAATTTCCAAAAATTCCATTTTAACCCTAAGATTTTCAAATATTCCATT
66 ATACATTTTAACTCGAAAATCTCCAAAAATTCCATTTTAACCCGAAGACTTCCAAATATTCCATT
36729522 TTGACCTCGAAACTTCC
131 TTGACCTCGAAACTT-C
* * *
36729539 AAAAATTACA-TTTTA-ACCCTAAAATTTCCAAAAATTCTATTTTTGACCCTAAAACTTTCAAAA
1 AAAAATTACATTTTTACACCCAAAAATTT-CAAAAATTCCATTTTTGACCCTAAAACTTCCAAAA
36729602 AATACATTTTAACCTCG-AAATCTCCAAAAATTCCATTTTAACCTCGAA-ACTTCCAACA-ATTC
65 AATACATTTTAA-CTCGAAAATCTCCAAAAATTCCATTTTAACC-CGAAGACTTCCAA-ATATTC
36729664 CATTTTGACCTCGAAACTTC
127 CATTTTGACCTCGAAACTTC
36729684 AAAAATTAC
1 AAAAATTAC
36729693 CCTTTTACCC
Statistics
Matches: 138, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
145 20 0.14
146 100 0.72
147 18 0.13
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.34
Consensus pattern (146 bp):
AAAAATTACATTTTTACACCCAAAAATTTCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAA
ATACATTTTAACTCGAAAATCTCCAAAAATTCCATTTTAACCCGAAGACTTCCAAATATTCCATT
TTGACCTCGAAACTTC
Found at i:36729759 original size:58 final size:59
Alignment explanation
Indices: 36729683--36729795 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 59
36729673 CTCGAAACTT
* * *
36729683 CAAAAATTACCCTTTTACCCCCGGAT-GTCTAAAATATCATTTTTAACTCCAAATTTTCC
1 CAAAAATTACCATTTTACCCCCGG-TCATCCAAAATATCATTTTTAACTCCAAATTTTCC
* * *
36729742 CAAAAA-TACCATTTTACCCCCGGTCATCCAAAGTCTCATTTTTAGCTCCAAATT
1 CAAAAATTACCATTTTACCCCCGGTCATCCAAAATATCATTTTTAACTCCAAATT
36729796 GCATCTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.02
58 40 0.85
59 6 0.13
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGGTCATCCAAAATATCATTTTTAACTCCAAATTTTCC
Found at i:36737788 original size:59 final size:58
Alignment explanation
Indices: 36737653--36737817 Score: 278
Period size: 58 Copynumber: 2.8 Consensus size: 58
36737643 ATGGATACCT
*
36737653 GGGGGCAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC
1 GGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC
*
36737711 GGGGGTAAAATGGTAATTTTCGGTGAAATCAGGGTT-AAAATGGAATTTTAAAAGATTC
1 GGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC
*
36737769 GGGGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATGGGATTT
1 GGGGGTAAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATGGAATTT
36737818 AGGAAAGTTT
Statistics
Matches: 100, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
58 69 0.69
59 31 0.31
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC
Found at i:36737817 original size:29 final size:29
Alignment explanation
Indices: 36737659--36737808 Score: 132
Period size: 30 Copynumber: 5.1 Consensus size: 29
36737649 ACCTGGGGGC
36737659 AAAATGGTAATTTTGGTGAAATCGGGGTT
1 AAAATGGTAATTTTGGTGAAATCGGGGTT
** *
36737688 AAAAATGG-AATTTT--AAAAGATTCGGGGGT
1 -AAAATGGTAATTTTGGTGAA-A-TCGGGGTT
*
36737717 AAAATGGTAATTTTCGGTGAAATCAGGGTT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTT
** *
36737747 AAAATGG-AATTTT--AAAAGATTCGGGGGT
1 AAAATGGTAATTTTGGTGAA-A-TCGGGGTT
36737775 AAAATGGTAAATTTTGGTGAAATCGGGGTT
1 AAAATGGT-AATTTTGGTGAAATCGGGGTT
36737805 AAAA
1 AAAA
36737809 ATGGGATTTA
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
26 2 0.02
27 3 0.03
28 21 0.22
29 25 0.27
30 37 0.39
31 2 0.02
32 4 0.04
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTT
Found at i:36737931 original size:61 final size:61
Alignment explanation
Indices: 36737821--36738088 Score: 436
Period size: 61 Copynumber: 4.4 Consensus size: 61
36737811 GGGATTTAGG
* *
36737821 AAAG-TTTAGGGGTCAAAATGTAACTTTT-G-AAAGTTTTAGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGGTCAAAATGTAA-TTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
36737880 AAAGTTTTGGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTGGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGA
36737941 AAAGTTTTGGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
36738002 AAAGTTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGA
* * *
36738063 AAAATTTT-AGGATCAAAATGTAATTT
1 AAAGTTTTGGGGGTCAAAATGTAATTT
36738089 CTAGATAATT
Statistics
Matches: 198, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
59 8 0.04
60 35 0.18
61 155 0.78
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (61 bp):
AAAGTTTTGGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGA
Found at i:36738099 original size:30 final size:30
Alignment explanation
Indices: 36737821--36738088 Score: 432
Period size: 30 Copynumber: 8.9 Consensus size: 30
36737811 GGGATTTAGG
*
36737821 AAAGTTTAGGGGTCAAAATGTAACTTTT-G-
1 AAAGTTTTGGGGTCAAAATGTAA-TTTTGGA
*
36737850 AAAGTTTTAGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
36737880 AAAGTTTTGGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTT-GGGGTCAAAATGTAATTTTGGA
*
36737911 AAAGTTTTGGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
36737941 AAAGTTTTGGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTT-GGGGTCAAAATGTAATTTTGGA
36737972 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
36738002 AAAGTTTTAGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTT-GGGGTCAAAATGTAATTTTGGA
36738033 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
* * *
36738063 AAAATTTTAGGATCAAAATGTAATTT
1 AAAGTTTTGGGGTCAAAATGTAATTT
36738089 CTAGATAATT
Statistics
Matches: 226, Mismatches: 8, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
28 4 0.02
29 22 0.10
30 112 0.50
31 88 0.39
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATGTAATTTTGGA
Found at i:36738710 original size:22 final size:22
Alignment explanation
Indices: 36738684--36738727 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36738674 TCAAGCGCCT
*
36738684 GCGCC-ACTCCTTCCTTGCTCAC
1 GCGCCTACTCC-TCCGTGCTCAC
*
36738706 GCGCCTCCTCCTCCGTGCTCAC
1 GCGCCTACTCCTCCGTGCTCAC
36738728 ACACTGGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.07, C:0.52, G:0.16, T:0.25
Consensus pattern (22 bp):
GCGCCTACTCCTCCGTGCTCAC
Found at i:36739958 original size:17 final size:16
Alignment explanation
Indices: 36739933--36739982 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
36739923 CAAATTTACT
* *
36739933 AAATCTAAATTTAACAC
1 AAATTTAAATTTAA-AA
36739950 AAATTTAAATTTAAAA
1 AAATTTAAATTTAAAA
36739966 ATTAATTTAAATTTAAA
1 A--AATTTAAATTTAAA
36739983 TTTTAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTTAAATTTAAAA
Found at i:36739994 original size:18 final size:18
Alignment explanation
Indices: 36739973--36740021 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
36739963 AAAATTAATT
36739973 TAAATTTAAATTT-TAAGA
1 TAAATTTAAATTTGTAA-A
**
36739991 TAAATCCAAATTTGTAAA
1 TAAATTTAAATTTGTAAA
36740009 TAAATTTAGAATT
1 TAAATTTA-AATT
36740022 AACTTAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (18 bp):
TAAATTTAAATTTGTAAA
Found at i:36740001 original size:24 final size:24
Alignment explanation
Indices: 36739949--36740003 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
36739939 AAATTTAACA
* *
36739949 CAAATTTAAATTTAAAAATTAATT
1 CAAATTTAAATTTAAAAATAAATC
* * *
36739973 TAAATTTAAATTTTAAGATAAATC
1 CAAATTTAAATTTAAAAATAAATC
36739997 CAAATTT
1 CAAATTT
36740004 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
CAAATTTAAATTTAAAAATAAATC
Found at i:36741493 original size:153 final size:151
Alignment explanation
Indices: 36741262--36741591 Score: 497
Period size: 153 Copynumber: 2.2 Consensus size: 151
36741252 TCTTTTGGTC
* *
36741262 TTAAAATCACTTTGTATATA-AT-TATAAAATTGAAGAGTGTTTTGAAAACTTTTGAAAAGGATA
1 TTAAAATTA-TTTGTATATAGATATATAAAATTGAAGAGTGTTTCGAAAACTTTTGAAAAGGATA
*
36741325 TCCGATTTGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGCGAT-TTCTCGAAGTTTTC
65 TCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGCGATCTT-TCGAAGTTTTC
* *
36741389 ACACGAAAGTACATTGCCTCGTT
129 ACACGAAAGGACATTGCCTCGCT
* *
36741412 TTAAAATTATTTGTGATATAGATATATAAAAATTGAAG-GATGTTTCGGAAACTTTTGAAGAGGA
1 TTAAAATTATTTGT-ATATAGATATAT-AAAATTGAAGAG-TGTTTCGAAAACTTTTGAAAAGGA
*
36741476 TATTCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGCGATCTTTCGAAGTTTT
63 TATCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGCGATCTTTCGAAGTTTT
*
36741541 CACACGACAGGACATTGCCTCGCT
128 CACACGAAAGGACATTGCCTCGCT
36741565 TTAAAATTATTTGTAATATAGATATAT
1 TTAAAATTATTTGT-ATATAGATATAT
36741592 GTTTTGAGAA
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
149 5 0.03
150 13 0.08
151 2 0.01
152 4 0.02
153 138 0.84
154 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (151 bp):
TTAAAATTATTTGTATATAGATATATAAAATTGAAGAGTGTTTCGAAAACTTTTGAAAAGGATAT
CCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCGCGATCTTTCGAAGTTTTCAC
ACGAAAGGACATTGCCTCGCT
Found at i:36742149 original size:30 final size:29
Alignment explanation
Indices: 36742115--36742212 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 29
36742105 GGGAAAATTT
36742115 AGGGTTAAAAATGGGATTTTAGAAGGTTC
1 AGGGTTAAAAATGGGATTTTAGAAGGTTC
* * ** **
36742144 AAGGG-T-AAAATGGTAATTTTTGGTGAAATC
1 -AGGGTTAAAAATGG-GATTTTAGAAG-GTTC
* *
36742174 AGGGTTAAAAATGGGATTTTGGAAGGTTT
1 AGGGTTAAAAATGGGATTTTAGAAGGTTC
*
36742203 AGGGGTAAAA
1 AGGGTTAAAA
36742213 TGGTAATTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
28 7 0.14
29 22 0.44
30 14 0.28
31 7 0.14
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.31
Consensus pattern (29 bp):
AGGGTTAAAAATGGGATTTTAGAAGGTTC
Found at i:36742163 original size:59 final size:59
Alignment explanation
Indices: 36742115--36742282 Score: 282
Period size: 59 Copynumber: 2.8 Consensus size: 59
36742105 GGGAAAATTT
* *
36742115 AGGGTTAAAAATGGGATTTTAGAAGGTTCAAGGGTAAAATGGTAATTTTTGGTGAAATC
1 AGGGTTAAAAATGGGATTTTAGAAGGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
*
36742174 AGGGTTAAAAATGGGATTTTGGAAGGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
1 AGGGTTAAAAATGGGATTTTAGAAGGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
* * *
36742233 GGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTT
1 AGGGTTAAAAATGGGATTTTAGAAGGTTTAGGGGTAAAATGGTAATTTTT
36742283 AGAAGTTTTG
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 102 1.00
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.34
Consensus pattern (59 bp):
AGGGTTAAAAATGGGATTTTAGAAGGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
Found at i:36742177 original size:29 final size:30
Alignment explanation
Indices: 36742150--36742252 Score: 97
Period size: 30 Copynumber: 3.4 Consensus size: 30
36742140 GTTCAAGGGT
36742150 AAAATGGTAATTTTTGGTGAAATCAGGGTTA
1 AAAATGG-AATTTTTGGTGAAATCAGGGTTA
* * * *
36742181 AAAATGGGA-TTTT-G-GAAGGTTTAGGGGT-
1 AAAATGGAATTTTTGGTGAA--ATCAGGGTTA
*
36742209 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGG-AATTTTTGGTGAAATCAGGGTTA
36742240 AAAATGGAATTTT
1 AAAATGGAATTTT
36742253 AGAAAGTTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
27 3 0.05
28 8 0.14
29 11 0.20
30 16 0.29
31 15 0.27
32 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGTGAAATCAGGGTTA
Found at i:36742271 original size:29 final size:30
Alignment explanation
Indices: 36742131--36742325 Score: 99
Period size: 29 Copynumber: 6.6 Consensus size: 30
36742121 AAAAATGGGA
* * *
36742131 TTTTAGAAGGTTCAAGGGTAAAATGGTAAT
1 TTTTAGAAAGTTTAGGGGTAAAATGGTAAT
* * * *
36742161 TTTTGGTGAAA--TCAGGGTTAAAAATGG-GA-
1 TTTT--AGAAAGTTTAGGGGT-AAAATGGTAAT
* *
36742190 TTTTGGAAGGTTTAGGGGTAAAATGGTAAT
1 TTTTAGAAAGTTTAGGGGTAAAATGGTAAT
* *
36742220 TTTTGGTGAAA---TCGGGGTTAAAAATGG-AA-
1 TTTT--AGAAAGTTTAGGGG-T-AAAATGGTAAT
36742249 TTTTAGAAAGTTTAGGGGTAAAATGGTAAT
1 TTTTAGAAAGTTTAGGGGTAAAATGGTAAT
* *
36742279 TTTTAG-AAGTTTTGGGGTCAAAAT-ATAAT
1 TTTTAGAAAGTTTAGGGGT-AAAATGGTAAT
* *
36742308 TTTTTGAAA-TTTTGGGGT
1 TTTTAGAAAGTTTAGGGGT
36742326 CACAAATATA
Statistics
Matches: 129, Mismatches: 18, Indels: 37
0.70 0.10 0.20
Matches are distributed among these distances:
27 7 0.05
28 14 0.11
29 52 0.40
30 36 0.28
31 14 0.11
32 6 0.05
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (30 bp):
TTTTAGAAAGTTTAGGGGTAAAATGGTAAT
Found at i:36742333 original size:30 final size:29
Alignment explanation
Indices: 36742249--36742339 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
36742239 AAAAATGGAA
* *
36742249 TTTTAGAAAGTTTAGGGGT-AAAATGGTAAT
1 TTTTAGAAA-TTTTGGGGTCAAAAT-ATAAT
*
36742279 TTTTAGAAGTTTTGGGGTCAAAATATAAT
1 TTTTAGAAATTTTGGGGTCAAAATATAAT
*
36742308 TTTTTGAAATTTTGGGGTCACAAATATAAT
1 TTTTAGAAATTTTGGGGTCA-AAATATAAT
36742338 TT
1 TT
36742340 ATGAACAGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 30 0.56
30 24 0.44
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (29 bp):
TTTTAGAAATTTTGGGGTCAAAATATAAT
Found at i:36744201 original size:18 final size:18
Alignment explanation
Indices: 36744178--36744212 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36744168 TGGGCCTATA
36744178 TTTTGTAATTGGACTTTC
1 TTTTGTAATTGGACTTTC
36744196 TTTTGTAATTGGACTTT
1 TTTTGTAATTGGACTTT
36744213 TTGATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (18 bp):
TTTTGTAATTGGACTTTC
Found at i:36746382 original size:27 final size:27
Alignment explanation
Indices: 36746326--36746383 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
36746316 TATTGAAAGA
**
36746326 TTTAAAAATAAATATAAATAATTTTAT
1 TTTAAAAATAAATATAAATAATCGTAT
* *
36746353 TTTAAAAATAAATATTAATAATACGTTT
1 TTTAAAAATAAATATAAATAAT-CGTAT
36746381 TTT
1 TTT
36746384 TATAAATACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
TTTAAAAATAAATATAAATAATCGTAT
Found at i:36746834 original size:17 final size:18
Alignment explanation
Indices: 36746807--36746840 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36746797 TAGAACACAA
36746807 TTGGAGTGTATCCTTGAT
1 TTGGAGTGTATCCTTGAT
*
36746825 TTGG-GTGTATCTTTGA
1 TTGGAGTGTATCCTTGA
36746841 CTAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.09, G:0.29, T:0.47
Consensus pattern (18 bp):
TTGGAGTGTATCCTTGAT
Found at i:36748400 original size:9 final size:9
Alignment explanation
Indices: 36748386--36748551 Score: 69
Period size: 10 Copynumber: 17.9 Consensus size: 9
36748376 ATTTTAATCA
*
36748386 ATAAAAGTT
1 ATAAAAATT
36748395 ATAAAAATAT
1 ATAAAAAT-T
36748405 ATAAAAATT
1 ATAAAAATT
36748414 ATATAAAATTT
1 ATA-AAAA-TT
36748425 ATTAAAAA--
1 A-TAAAAATT
*
36748433 ATAAAAA-A
1 ATAAAAATT
* *
36748441 ATCAAAA-G
1 ATAAAAATT
*
36748449 ATAAAAGTT
1 ATAAAAATT
36748458 ATAGAAAATT
1 ATA-AAAATT
*
36748468 ATTTAAAATAT
1 A-TAAAAAT-T
36748479 ATTATAAAA-T
1 A-TA-AAAATT
*
36748489 AT--AATTT
1 ATAAAAATT
*
36748496 TTAAGAAATT
1 ATAA-AAATT
*
36748506 ATAAAAAAT
1 ATAAAAATT
36748515 ATAAATAATT
1 ATAAA-AATT
*
36748525 ATGGAAAATT
1 AT-AAAAATT
36748535 ATTAAAAA-T
1 A-TAAAAATT
36748544 ATAAAAAT
1 ATAAAAAT
36748552 ATATTATAAA
Statistics
Matches: 122, Mismatches: 17, Indels: 36
0.70 0.10 0.21
Matches are distributed among these distances:
6 2 0.02
7 8 0.07
8 18 0.15
9 26 0.21
10 47 0.39
11 15 0.12
12 6 0.05
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:36748421 original size:30 final size:30
Alignment explanation
Indices: 36748386--36748442 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36748376 ATTTTAATCA
*
36748386 ATAAAAGTTA-TAAAAATATATAAAAATTAT
1 ATAAAAGTTATTAAAAA-ATAAAAAAATTAT
*
36748416 ATAAAATTTATTAAAAAATAAAAAAAT
1 ATAAAAGTTATTAAAAAATAAAAAAAT
36748443 CAAAAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
ATAAAAGTTATTAAAAAATAAAAAAATTAT
Found at i:36748506 original size:38 final size:37
Alignment explanation
Indices: 36748462--36748567 Score: 101
Period size: 38 Copynumber: 2.8 Consensus size: 37
36748452 AAAGTTATAG
* *
36748462 AAAATTATTTAAAATATATTATAAAATATAATTTTTA
1 AAAATTATTAAAAATATATTATAAAATATAATTATTA
* * * *
36748499 AGAAATTATAAAAAATATA-AATAATTATGGAAAATTATTA
1 A-AAATTATTAAAAATATATTATAA-AAT--ATAATTATTA
36748539 AAAA-TA-TAAAAATATATTATAAAATATAA
1 AAAATTATTAAAAATATATTATAAAATATAA
36748568 AGTTTCAGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
35 3 0.06
37 16 0.30
38 23 0.43
39 3 0.06
40 9 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (37 bp):
AAAATTATTAAAAATATATTATAAAATATAATTATTA
Found at i:36748742 original size:19 final size:19
Alignment explanation
Indices: 36748718--36748778 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
36748708 CTTAAAATGT
36748718 TTTTTTATATTTTATAATA
1 TTTTTTATATTTTATAATA
*
36748737 TTTTTTAT-TGTTACTAA-A
1 TTTTTTATATTTTA-TAATA
*
36748755 TTTTATATATTTTTATAAT-
1 TTTTTTATA-TTTTATAATA
36748774 TTTTT
1 TTTTT
36748779 ATACTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.35
19 18 0.53
20 4 0.12
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTTATATTTTATAATA
Found at i:36748779 original size:20 final size:19
Alignment explanation
Indices: 36748719--36748789 Score: 78
Period size: 18 Copynumber: 3.8 Consensus size: 19
36748709 TTAAAATGTT
36748719 TTTTTATA-TTTTATAATA
1 TTTTTATATTTTTATAATA
*
36748737 TTTTT-TATTGTTACTAA-A
1 TTTTTATATTTTTA-TAATA
36748755 TTTTATATATTTTTATAAT-
1 TTTT-TATATTTTTATAATA
36748774 TTTTTATACTTTTTAT
1 TTTTTATA-TTTTTAT
36748790 TGATTAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.04
18 18 0.40
19 18 0.40
20 7 0.16
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (19 bp):
TTTTTATATTTTTATAATA
Found at i:36751778 original size:18 final size:18
Alignment explanation
Indices: 36751755--36751795 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
36751745 TTTTATTTTA
36751755 TATTATATAATAAAATAT
1 TATTATATAATAAAATAT
* * *
36751773 TATTATTTATTATAATAT
1 TATTATATAATAAAATAT
36751791 TATTA
1 TATTA
36751796 ATTAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATATAATAAAATAT
Found at i:36751804 original size:18 final size:18
Alignment explanation
Indices: 36751762--36751804 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36751752 TTATATTATA
* *
36751762 TAATAAAATATTATTATT
1 TAATATAATATTATTAAT
*
36751780 TATTATAATATTATTAAT
1 TAATATAATATTATTAAT
36751798 TAATATA
1 TAATATA
36751805 TCTTTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATATAATATTATTAAT
Found at i:36755596 original size:18 final size:18
Alignment explanation
Indices: 36755575--36755609 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36755565 TACCTCTGCC
*
36755575 ACTAGCACCACCTCGAGT
1 ACTACCACCACCTCGAGT
*
36755593 ACTACCACGACCTCGAG
1 ACTACCACCACCTCGAG
36755610 CTGCAGAAGT
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:0.29, C:0.40, G:0.17, T:0.14
Consensus pattern (18 bp):
ACTACCACCACCTCGAGT
Found at i:36758965 original size:18 final size:18
Alignment explanation
Indices: 36758923--36758965 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36758913 TTATTTTATA
* *
36758923 TAATAAAATATTATTATT
1 TAATATAATATTATTAAT
*
36758941 TATTATAATATTATTAAT
1 TAATATAATATTATTAAT
36758959 TAATATA
1 TAATATA
36758966 TCTTTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATATAATATTATTAAT
Found at i:36766112 original size:21 final size:21
Alignment explanation
Indices: 36766071--36766112 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36766061 CAAAGGGGAG
* **
36766071 TCAAATCCCATGAAAGTTGCA
1 TCAAATACCATGAAACCTGCA
36766092 TCAAATACCATGAAACCTGCA
1 TCAAATACCATGAAACCTGCA
36766113 AGGCAAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.21
Consensus pattern (21 bp):
TCAAATACCATGAAACCTGCA
Found at i:36777426 original size:23 final size:23
Alignment explanation
Indices: 36777381--36777426 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
36777371 CTTGTTTCCT
* * *
36777381 TTTGCCTTCTCTTTTGCTGGAAA
1 TTTGCCTTCTCATTTGATAGAAA
*
36777404 TTTGTCTTCTCATTTGATAGAAA
1 TTTGCCTTCTCATTTGATAGAAA
36777427 ATGCATCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (23 bp):
TTTGCCTTCTCATTTGATAGAAA
Found at i:36782163 original size:9 final size:9
Alignment explanation
Indices: 36782149--36782173 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36782139 CTTTTATTAA
36782149 TTAAAAAAT
1 TTAAAAAAT
36782158 TTAAAAAAT
1 TTAAAAAAT
36782167 TTAAAAA
1 TTAAAAA
36782174 GCTTAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:36786188 original size:2 final size:2
Alignment explanation
Indices: 36786175--36786209 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
36786165 TATTTATACA
*
36786175 TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
36786210 ATTGACTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:36801226 original size:22 final size:22
Alignment explanation
Indices: 36801184--36801226 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
36801174 TAATGTATTA
**
36801184 AATAATTATATTATATTTTTTG
1 AATAATTATATTATAAATTTTG
36801206 AATAATT-TCATTATAAATTTT
1 AATAATTAT-ATTATAAATTTT
36801227 AAGTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AATAATTATATTATAAATTTTG
Found at i:36809824 original size:30 final size:31
Alignment explanation
Indices: 36809770--36809827 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
36809760 CCTAAATCTT
* * *
36809770 AAAAAAAAAGACCTATTTAGACAATTAACAA
1 AAAAAAAAAGACATATATACACAATTAACAA
36809801 AAAAAAAAAG-CATATATACACAATTAA
1 AAAAAAAAAGACATATATACACAATTAA
36809828 ACCGTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.19
Consensus pattern (31 bp):
AAAAAAAAAGACATATATACACAATTAACAA
Found at i:36811007 original size:20 final size:20
Alignment explanation
Indices: 36810975--36811029 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
36810965 TCAAAATGAA
* *
36810975 AAAAAAAC-TATATCAAA-T
1 AAAAAAACAAATATAAAAGT
36810993 AAAAAAATCAAATATAAAAGT
1 AAAAAAA-CAAATATAAAAGT
*
36811014 AAAAGAACAAATATAA
1 AAAAAAACAAATATAA
36811030 TTCAAAAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 1 0.03
20 16 0.52
21 7 0.23
ACGTcount: A:0.71, C:0.07, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAAAAACAAATATAAAAGT
Found at i:36820321 original size:22 final size:22
Alignment explanation
Indices: 36820266--36820321 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
36820256 AAGTAGGACG
*
36820266 AAATTAAATTATATATTTTTATA
1 AAATTAAA-TATATATTTTTACA
36820289 AAAGTTAAAATATATATTTTTACA
1 AAA-TT-AAATATATATTTTTACA
**
36820313 TTATTAAAT
1 AAATTAAAT
36820322 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.14
23 5 0.18
24 16 0.57
25 3 0.11
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATTAAATATATATTTTTACA
Found at i:36826143 original size:21 final size:22
Alignment explanation
Indices: 36826103--36826143 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36826093 TAATTTTTAT
*
36826103 TTTTATGATGTAAAAATAAATA
1 TTTTATGATCTAAAAATAAATA
*
36826125 TTTTAT-ATCTAAAATTAAA
1 TTTTATGATCTAAAAATAAA
36826144 AATAACTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
TTTTATGATCTAAAAATAAATA
Found at i:36829191 original size:23 final size:22
Alignment explanation
Indices: 36829165--36829212 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
36829155 TAAGTTCAAA
*
36829165 CAGACCACGAGAACAATAACTAG
1 CAGA-CACGACAACAATAACTAG
*
36829188 CAG--ACGACAACCATAACTAG
1 CAGACACGACAACAATAACTAG
36829208 CAGAC
1 CAGAC
36829213 GATAACAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
20 18 0.86
23 3 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.08
Consensus pattern (22 bp):
CAGACACGACAACAATAACTAG
Found at i:36842758 original size:14 final size:14
Alignment explanation
Indices: 36842739--36842773 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
36842729 ATTAATATCC
36842739 AAATAATAACAATA
1 AAATAATAACAATA
*
36842753 AAATAATAGCAATA
1 AAATAATAACAATA
*
36842767 TAATAAT
1 AAATAAT
36842774 GAAATGACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:36843885 original size:15 final size:17
Alignment explanation
Indices: 36843856--36843898 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
36843846 TTTAACTTTT
36843856 TAAAAGTTATAAAAAT-A
1 TAAAA-TTATAAAAATAA
*
36843873 T-AAATTATTAAAATAA
1 TAAAATTATAAAAATAA
36843889 TAAAATTATA
1 TAAAATTATA
36843899 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 5 0.23
17 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAATTATAAAAATAA
Found at i:36852898 original size:16 final size:17
Alignment explanation
Indices: 36852866--36852898 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36852856 TTTTGATTCT
*
36852866 TTTTAAGTCATTAAAAA
1 TTTTAAGTCAGTAAAAA
36852883 TTTTAAGT-AGTAAAAA
1 TTTTAAGTCAGTAAAAA
36852899 AATATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (17 bp):
TTTTAAGTCAGTAAAAA
Found at i:36857323 original size:16 final size:18
Alignment explanation
Indices: 36857302--36857334 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
36857292 CTAAATCAAA
36857302 TCAAATT-AA-ACATAAT
1 TCAAATTGAAGACATAAT
36857318 TCAAATTGAAGACATAA
1 TCAAATTGAAGACATAA
36857335 AAACCCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (18 bp):
TCAAATTGAAGACATAAT
Found at i:36858583 original size:16 final size:17
Alignment explanation
Indices: 36858545--36858582 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36858535 CTCATATTTG
*
36858545 TTTTTT-TTTAAATTAA
1 TTTTTTATTTAAAATAA
36858561 TTTTTTATTTAAAATAA
1 TTTTTTATTTAAAATAA
36858578 TTTTT
1 TTTTT
36858583 AAGAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTATTTAAAATAA
Found at i:36860049 original size:21 final size:24
Alignment explanation
Indices: 36860011--36860054 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
36860001 TAACAAAAAA
*
36860011 AAAAAAGAAATTTTAAAA-TATTC
1 AAAAAAGAAATTTAAAAACTATTC
36860034 AAAAAA-AAA-TTAAAAACTATT
1 AAAAAAGAAATTTAAAAACTATT
36860055 TAGTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAAAGAAATTTAAAAACTATTC
Found at i:36868235 original size:31 final size:31
Alignment explanation
Indices: 36868151--36868226 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
36868141 CCCCAAAATG
* * * *
36868151 TTTAAGTACCAACTTAA-AACAAGTGTCAAG
1 TTTAAGTACCAAATTAAGAAAAAATGTCAAA
36868181 TTTAAGTACCAAATTAAGAAAAAATGTCAAA
1 TTTAAGTACCAAATTAAGAAAAAATGTCAAA
* *
36868212 TTTGAGTATCAAATT
1 TTTAAGTACCAAATT
36868227 GGACAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 16 0.41
31 23 0.59
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (31 bp):
TTTAAGTACCAAATTAAGAAAAAATGTCAAA
Found at i:36873766 original size:20 final size:21
Alignment explanation
Indices: 36873718--36873766 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
36873708 TTTAACAGAA
36873718 TTAATA-TTTATTATTTGAAAG
1 TTAATATTTTATTATTT-AAAG
*
36873739 -T-ATCTTTTATTATTT-AAG
1 TTAATATTTTATTATTTAAAG
36873757 TTAATATTTT
1 TTAATATTTT
36873767 GAAGTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 17 0.74
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (21 bp):
TTAATATTTTATTATTTAAAG
Found at i:36874308 original size:19 final size:19
Alignment explanation
Indices: 36874265--36874314 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
36874255 TTGAAAAAAA
*
36874265 TATTAATTTAATAAAATAG
1 TATTAATTAAATAAAATAG
*
36874284 -ACTTAATTAAATAATATAG
1 TA-TTAATTAAATAAAATAG
36874303 TATTAATCTAAA
1 TATTAAT-TAAA
36874315 ATATAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 20 0.77
20 5 0.19
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
TATTAATTAAATAAAATAG
Found at i:36875678 original size:20 final size:19
Alignment explanation
Indices: 36875655--36875694 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36875645 TTTAATTATG
*
36875655 TATTTTAAAAATTAAATTAA
1 TATTATAAAAA-TAAATTAA
*
36875675 TATTATGAAAATAAATTAA
1 TATTATAAAAATAAATTAA
36875694 T
1 T
36875695 GCATTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TATTATAAAAATAAATTAA
Found at i:36879877 original size:17 final size:17
Alignment explanation
Indices: 36879853--36879885 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36879843 AATTATAAAA
36879853 TTTACATT-TTTTTTAT
1 TTTACATTATTTTTTAT
36879869 TTTATCATTATTTTTTA
1 TTTA-CATTATTTTTTA
36879886 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTACATTATTTTTTAT
Found at i:36880418 original size:24 final size:23
Alignment explanation
Indices: 36880377--36880422 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
36880367 GACTTATCAG
36880377 AGTTTAATTGAAAAAAGATAACAA
1 AGTTTAATTGAAAAAAGA-AACAA
*
36880401 AGTTTAATT-AAGAGAAGAAACA
1 AGTTTAATTGAA-AAAAGAAACA
36880423 CATTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.24
Consensus pattern (23 bp):
AGTTTAATTGAAAAAAGAAACAA
Found at i:36890364 original size:5 final size:5
Alignment explanation
Indices: 36890349--36890381 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
36890339 TCGTTGAGAC
*
36890349 AAAGA ATAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
36890382 AGTCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:36892965 original size:72 final size:72
Alignment explanation
Indices: 36892848--36892992 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
36892838 CATAAATTAC
*
36892848 TTGGTACCGGTTTAAGACTAAAACGGTGCATATTTGTCAATACGAACAGCATCGGTGCAGTACCA
1 TTGGTACCGGTTTAAGACTAAAACAGTGCATATTTGTCAATACGAACAGCATCGGTGCAGTACCA
36892913 ACTACCA
66 ACTACCA
*
36892920 TTGGTACCGGTTTAAGACTAAAGCAGTGCATATTTGTCAATACGAACAGCATCGGTGCAGTACCA
1 TTGGTACCGGTTTAAGACTAAAACAGTGCATATTTGTCAATACGAACAGCATCGGTGCAGTACCA
36892985 ACTACCA
66 ACTACCA
36892992 T
1 T
36892993 GCCACTAATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (72 bp):
TTGGTACCGGTTTAAGACTAAAACAGTGCATATTTGTCAATACGAACAGCATCGGTGCAGTACCA
ACTACCA
Found at i:36897112 original size:104 final size:102
Alignment explanation
Indices: 36896995--36897320 Score: 331
Period size: 105 Copynumber: 3.1 Consensus size: 102
36896985 AATTAACCAA
* * * *
36896995 ATGAACTGGATTAAAACCTGAGTTCATAGGTCAAAACCGCTAAATATCATAAAAGATATGATATT
1 ATGAACCGAATTAAAACCTGAGTTCATAGGTCAAATCCGCTAAATATCATAAAAGATATGAAATT
*
36897060 TGAATCCAATGCCGGTAATATATCACCTCAGGTAAC-CGC
66 TGAATCCAAT-CCGGTAA-ATACCACCTCAGGTAACTC-C
* * * *
36897099 ATGAATCGAATT-AAACCTTGAGTTCATAAGG-CAAATCTGCTAAATATCATTAAAAAATATGAG
1 ATGAACCGAATTAAAACC-TGAGTTCAT-AGGTCAAATCCGCTAAATATCA-TAAAAGATATGAA
* *
36897162 ATTTGAATCCAAATCCGGTAAATACCACTTCGGGTAACTCC
63 ATTTGAATCC-AATCCGGTAAATACCACCTCAGGTAACTCC
* * * * *
36897203 ATGAACCGGATTAAAACCTAGAATTCATAAGTCAAATCCGCTAAATATTATACAAGATATCGAAA
1 ATGAACCGAATTAAAACCT-GAGTTCATAGGTCAAATCCGCTAAATATCATAAAAGATAT-GAAA
* *
36897268 TTTGAATCCAAATCCGCTAAATATCC-CCTC-GGCTAAC-CT
64 TTTGAATCC-AATCCGGTAAATA-CCACCTCAGG-TAACTCC
*
36897307 ATGAACCGGATTAA
1 ATGAACCGAATTAA
36897321 GCTTTGAGTT
Statistics
Matches: 189, Mismatches: 22, Indels: 22
0.81 0.09 0.09
Matches are distributed among these distances:
103 5 0.03
104 87 0.46
105 92 0.49
106 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (102 bp):
ATGAACCGAATTAAAACCTGAGTTCATAGGTCAAATCCGCTAAATATCATAAAAGATATGAAATT
TGAATCCAATCCGGTAAATACCACCTCAGGTAACTCC
Found at i:36897230 original size:105 final size:102
Alignment explanation
Indices: 36896954--36897320 Score: 373
Period size: 104 Copynumber: 3.5 Consensus size: 102
36896944 AAGGTCTGTG
* * * * *** * *
36896954 ATTTGAATCCAAATCAGCTAAATATCAACTCAATTAACCAAATGAACTGGATTAAAACCTGAGTT
1 ATTTGAATCCAAATCCGGTAAATACCACCTCGGGTAACC-CATGAACCGGATTAAAACCTGAGTT
* *
36897019 CAT-AGGTCAAAACCGCTAAATATCATAAAAGATATGAT
65 CATAAGG-CAAATCCGCTAAATATCATAAAAGATATGAA
* * * *
36897057 ATTTGAATCC-AATGCCGGTAATATATCACCTCAGGTAACCGCATGAATCGAATT-AAACCTTGA
1 ATTTGAATCCAAAT-CCGGTAA-ATACCACCTCGGGTAACC-CATGAACCGGATTAAAACC-TGA
* * *
36897120 GTTCATAAGGCAAATCTGCTAAATATCATTAAAAAATATGAG
62 GTTCATAAGGCAAATCCGCTAAATATCA-TAAAAGATATGAA
* *
36897162 ATTTGAATCCAAATCCGGTAAATACCACTTCGGGTAACTCCATGAACCGGATTAAAACCTAGAAT
1 ATTTGAATCCAAATCCGGTAAATACCACCTCGGGTAAC-CCATGAACCGGATTAAAACCT-GAGT
* * *
36897227 TCATAAGTCAAATCCGCTAAATATTATACAAGATATCGAA
64 TCATAAGGCAAATCCGCTAAATATCATAAAAGATAT-GAA
* * *
36897267 ATTTGAATCCAAATCCGCTAAATATCC-CCTCGGCTAACCTATGAACCGGATTAA
1 ATTTGAATCCAAATCCGGTAAATA-CCACCTCGGGTAACCCATGAACCGGATTAA
36897321 GCTTTGAGTT
Statistics
Matches: 223, Mismatches: 30, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
102 3 0.01
103 20 0.09
104 98 0.44
105 97 0.43
106 5 0.02
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.26
Consensus pattern (102 bp):
ATTTGAATCCAAATCCGGTAAATACCACCTCGGGTAACCCATGAACCGGATTAAAACCTGAGTTC
ATAAGGCAAATCCGCTAAATATCATAAAAGATATGAA
Found at i:36898548 original size:21 final size:21
Alignment explanation
Indices: 36898527--36898607 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 21
36898517 AATTATATTG
*
36898527 TTGTTTTGGTGCTGTTTTTTG
1 TTGTTTTGGTGCTGTTTTTTA
* *
36898548 TTGTTTTAGTGTTGTGTTTTTA
1 TTGTTTTGGTGCTGT-TTTTTA
* * *
36898570 CTGTTTTGATAC--TTTTTTA
1 TTGTTTTGGTGCTGTTTTTTA
36898589 TTGTTTTGGTTGCTGTTTT
1 TTGTTTTGG-TGCTGTTTT
36898608 GGTGCTGTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
19 13 0.29
20 3 0.07
21 13 0.29
22 16 0.36
ACGTcount: A:0.06, C:0.05, G:0.22, T:0.67
Consensus pattern (21 bp):
TTGTTTTGGTGCTGTTTTTTA
Found at i:36898615 original size:11 final size:11
Alignment explanation
Indices: 36898590--36898640 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
36898580 ACTTTTTTAT
36898590 TGTTTTGGTTGC
1 TGTTTTGG-TGC
36898602 TGTTTTGGTGC
1 TGTTTTGGTGC
** *
36898613 TGTTTTTTTAC
1 TGTTTTGGTGC
*
36898624 TATTTTGGTGC
1 TGTTTTGGTGC
36898635 TGTTTT
1 TGTTTT
36898641 TATTGTTATT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.04, C:0.08, G:0.25, T:0.63
Consensus pattern (11 bp):
TGTTTTGGTGC
Found at i:36898673 original size:24 final size:23
Alignment explanation
Indices: 36898604--36898688 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 23
36898594 TTGGTTGCTG
* *
36898604 TTTTGGTGCTGTTTTTTTACTA-
1 TTTTGGTGCTATTTTTTTATTAT
* *
36898626 TTTTGGTGCTGTTTTTATTGTTAT
1 TTTTGGTGCTATTTTT-TTATTAT
*
36898650 TTTTGTTGCTATTTTTTCTATTAT
1 TTTTGGTGCTATTTTTT-TATTAT
**
36898674 TTTTCCTGCTATTTT
1 TTTTGGTGCTATTTT
36898689 AGTTGTTTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 16 0.30
23 5 0.09
24 32 0.60
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.67
Consensus pattern (23 bp):
TTTTGGTGCTATTTTTTTATTAT
Found at i:36901260 original size:29 final size:28
Alignment explanation
Indices: 36901228--36901288 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 28
36901218 AAAATGAGAC
36901228 TTTTGGATATC-CGGGGGGCAAAATGGTAA
1 TTTTGGA-ATCAC-GGGGGCAAAATGGTAA
*
36901257 TTTTGGACTCACGGGGGCAAAATGGTAA
1 TTTTGGAATCACGGGGGCAAAATGGTAA
36901285 TTTT
1 TTTT
36901289 CGATGAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.31
Consensus pattern (28 bp):
TTTTGGAATCACGGGGGCAAAATGGTAA
Found at i:36901349 original size:30 final size:30
Alignment explanation
Indices: 36901313--36901520 Score: 107
Period size: 29 Copynumber: 7.1 Consensus size: 30
36901303 TTAAAAAGAG
*
36901313 ATTTTTGGAAAATTTAAGGGTAAAATAGTA
1 ATTTTTGGAAAATTTAGGGGTAAAATAGTA
* * *
36901343 ATTTTTGGTTAAA--TCGGGGTTAAAA-ATGGA
1 ATTTTTGG-AAAATTTAGGGG-TAAAATA-GTA
* *
36901373 A-TTTTGGAAAGTTTAGGGGTAAAATGGTA
1 ATTTTTGGAAAATTTAGGGGTAAAATAGTA
* *
36901402 ATTTTTGGTGAAA--TAGGGGTTAAAAT-GGA
1 ATTTTTGG-AAAATTTAGGGG-TAAAATAGTA
* * ** *
36901431 A-TTTTGGGAAGTTCGGGGGTAAAATGGTA
1 ATTTTTGGAAAATTTAGGGGTAAAATAGTA
* *
36901460 ATTTTTGGTAAAA--TCGGGGTTGAAAAT-GGA
1 ATTTTTGG-AAAATTTAGGGG-T-AAAATAGTA
* *
36901490 A-TTTTGGAAAGTTTAGGGGTAAAATGGTA
1 ATTTTTGGAAAATTTAGGGGTAAAATAGTA
36901519 AT
1 AT
36901521 CTTGGTGAGA
Statistics
Matches: 134, Mismatches: 24, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
27 3 0.02
28 22 0.16
29 49 0.37
30 48 0.36
31 12 0.09
ACGTcount: A:0.35, C:0.01, G:0.29, T:0.35
Consensus pattern (30 bp):
ATTTTTGGAAAATTTAGGGGTAAAATAGTA
Found at i:36901455 original size:58 final size:59
Alignment explanation
Indices: 36901270--36901582 Score: 382
Period size: 59 Copynumber: 5.3 Consensus size: 59
36901260 TGGACTCACG
* * * * * * *
36901270 GGGGCAAAATGGTAATTTTCGATGAAATCGAGGTTAAAAA-GAGATTTTTGGAAAATTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTCA
* * * *
36901329 AGGGTAAAATAGTAATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * *
36901388 GGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTT-AAAATGGAATTTTGGGAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * *
36901446 GGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTGAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
* * **
36901505 GGGGTAAAATGGTAA-TCTTGGTGAGA-CAGGGGTTAAAAATAAAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGGAAAGTTCA
*
36901563 GGGGTAAAATGGTGATTTTT
1 GGGGTAAAATGGTAATTTTT
36901583 AGACCATCCA
Statistics
Matches: 220, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
57 1 0.00
58 101 0.46
59 117 0.53
60 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
Found at i:36901478 original size:117 final size:117
Alignment explanation
Indices: 36901270--36901582 Score: 412
Period size: 117 Copynumber: 2.7 Consensus size: 117
36901260 TGGACTCACG
* * * * * * * * * *
36901270 GGGGCAAAATGGTAATTTTCGATGAAATCGAGGTTAAAAAGAGATTTTTGGAAAATTTAAGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATG-GAATTTTGGAAAGTTCAGGGGTA
* *
36901335 AAATAGTAATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
65 AAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* *
36901388 GGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGGAAGTTCGGGGGTAA
1 GGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAGTTCAGGGGTAA
*
36901453 AATGGTAATTTTTGGTAAAATCGGGGTTGAAAATGGAATTTTGGAAAGTTTA
66 AATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * * **
36901505 GGGGTAAAATGGTAA-TCTTGGTGAGACAGGGGTTAAAAATAAAATTTTGGAAAGTTCAGGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTT-AAAATGGAATTTTGGAAAGTTCAGGGGTA
*
36901569 AAATGGTGATTTTT
65 AAATGGTAATTTTT
36901583 AGACCATCCA
Statistics
Matches: 171, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
116 16 0.09
117 120 0.70
118 35 0.20
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAGTTCAGGGGTAA
AATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:36901494 original size:29 final size:28
Alignment explanation
Indices: 36901345--36901496 Score: 137
Period size: 30 Copynumber: 5.2 Consensus size: 28
36901335 AAATAGTAAT
*
36901345 TTTTGGTTAAATCGGGGTTAAAAATGGAA
1 TTTTGGTAAAATCGGGGTT-AAAATGGAA
* *
36901374 TTTTGG-AAAGTTTAGGGG-TAAAATGGTAA
1 TTTTGGTAAA--ATCGGGGTTAAAATGG-AA
* *
36901403 TTTTTGGTGAAATAGGGGTTAAAATGGAA
1 -TTTTGGTAAAATCGGGGTTAAAATGGAA
* ** *
36901432 TTTTGGGAAGTTCGGGGGTAAAATGGTAA
1 TTTTGGTAAAATCGGGGTTAAAATGG-AA
36901461 TTTTTGGTAAAATCGGGGTTGAAAATGGAA
1 -TTTTGGTAAAATCGGGGTT-AAAATGGAA
36901491 TTTTGG
1 TTTTGG
36901497 AAAGTTTAGG
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
28 29 0.29
29 25 0.25
30 36 0.36
31 9 0.09
ACGTcount: A:0.32, C:0.02, G:0.32, T:0.35
Consensus pattern (28 bp):
TTTTGGTAAAATCGGGGTTAAAATGGAA
Found at i:36901580 original size:29 final size:29
Alignment explanation
Indices: 36901365--36901581 Score: 166
Period size: 29 Copynumber: 7.5 Consensus size: 29
36901355 ATCGGGGTTA
*
36901365 AAAATGG-AATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTGGAAAGTTCAGGGGT
36901393 AAAATGGTAATTTTTGGTGAAA--T-AGGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCAGGGG-T
* *
36901423 AAAATGG-AATTTTGGGAAGTTCGGGGGT
1 AAAATGGTAATTTTGGAAAGTTCAGGGGT
*
36901451 AAAATGGTAATTTTTGGTAAA-ATC-GGGGTT
1 AAAATGGTAA-TTTTGG-AAAGTTCAGGGG-T
*
36901481 GAAAATGG-AATTTTGGAAAGTTTAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCAGGGGT
* ** *
36901510 AAAATGGTAATCTTGGTGAG-ACAGGGGTT
1 AAAATGGTAATTTTGGAAAGTTCAGGGG-T
**
36901539 AAAAAT-AAAATTTTGGAAAGTTCAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCAGGGGT
*
36901568 AAAATGGTGATTTT
1 AAAATGGTAATTTT
36901582 TAGACCATCC
Statistics
Matches: 149, Mismatches: 20, Indels: 39
0.72 0.10 0.19
Matches are distributed among these distances:
26 3 0.02
27 1 0.01
28 40 0.27
29 52 0.35
30 39 0.26
31 10 0.07
32 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTCAGGGGT
Found at i:36903393 original size:14 final size:14
Alignment explanation
Indices: 36903374--36903400 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36903364 TTAAATTTAA
36903374 AGTAAATTTAAATG
1 AGTAAATTTAAATG
36903388 AGTAAATTTAAAT
1 AGTAAATTTAAAT
36903401 TTAAAATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AGTAAATTTAAATG
Found at i:36907676 original size:30 final size:30
Alignment explanation
Indices: 36907586--36907677 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 30
36907576 AAGATCAAAA
* *
36907586 TTATACAT-AAATTTTGATCTAATGTGCAATA
1 TTATACATGAAATTTTGATTTAAT-T-CAATT
* * * **
36907617 TCATACATG-AATTTTTATTTTATAAAATT
1 TTATACATGAAATTTTGATTTAATTCAATT
*
36907646 TTATACATGAAATTTTGATTTGATTCAATT
1 TTATACATGAAATTTTGATTTAATTCAATT
36907676 TT
1 TT
36907678 TATAAGTCAC
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
29 11 0.23
30 18 0.38
31 18 0.38
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (30 bp):
TTATACATGAAATTTTGATTTAATTCAATT
Found at i:36909509 original size:23 final size:23
Alignment explanation
Indices: 36909467--36909527 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
36909457 ATTAACATTG
*
36909467 TTGTGAACATGCTC-ATTTAATGT
1 TTGTGAACATGTTCGATTTAA-GT
36909490 TTGTGAACATGTTCGA-TTAAGT
1 TTGTGAACATGTTCGATTTAAGT
**
36909512 TAAATGAACATGTTCG
1 T-TGTGAACATGTTCG
36909528 TGAGCATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 3 0.09
23 29 0.88
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (23 bp):
TTGTGAACATGTTCGATTTAAGT
Found at i:36910388 original size:16 final size:16
Alignment explanation
Indices: 36910369--36910403 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
36910359 TATTTAAATT
36910369 TATTAATATATGATTA
1 TATTAATATATGATTA
36910385 TATTAATATATGATTA
1 TATTAATATATGATTA
36910401 TAT
1 TAT
36910404 GAAATATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TATTAATATATGATTA
Found at i:36911001 original size:19 final size:20
Alignment explanation
Indices: 36910961--36911003 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
36910951 AAACTGGATC
* *
36910961 AAATCAAAATTTTATGTATA
1 AAATCAAAATTTCATATATA
36910981 AAATCAAAA-TTCATATATA
1 AAATCAAAATTTCATATATA
36911000 AAAT
1 AAAT
36911004 TATACATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATCAAAATTTCATATATA
Found at i:36915558 original size:29 final size:30
Alignment explanation
Indices: 36915502--36915558 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
36915492 ATTAGTTTAA
* * *
36915502 ATCAAAATTTTATGTATAAAATTTCATAAG
1 ATCAAAATTTCATATATAAAATTACATAAG
*
36915532 ATCAAAA-TTCATATATACAATTACATA
1 ATCAAAATTTCATATATAAAATTACATA
36915559 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.37
Consensus pattern (30 bp):
ATCAAAATTTCATATATAAAATTACATAAG
Found at i:36919466 original size:28 final size:28
Alignment explanation
Indices: 36919402--36919462 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
36919392 AGATTCGGAG
* *
36919402 TTTGAGTTTAATGTTTTGGGTTTGAGGT
1 TTTGAGTTTAAAGTTTTAGGTTTGAGGT
36919430 TTTGAGTTTAAAGTTTTAGGTTTGA-GT
1 TTTGAGTTTAAAGTTTTAGGTTTGAGGT
36919457 TTTGAG
1 TTTGAG
36919463 GTTTGAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (28 bp):
TTTGAGTTTAAAGTTTTAGGTTTGAGGT
Found at i:36919467 original size:14 final size:14
Alignment explanation
Indices: 36919414--36919469 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
36919404 TGAGTTTAAT
36919414 GTTTTG-GGTTTGA
1 GTTTTGAGGTTTGA
*
36919427 GGTTTTGA-GTTTAAA
1 -GTTTTGAGGTTT-GA
36919442 GTTTT-AGGTTTGA
1 GTTTTGAGGTTTGA
36919455 GTTTTGAGGTTTGA
1 GTTTTGAGGTTTGA
36919469 G
1 G
36919470 ATAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 7 0.19
14 28 0.78
15 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (14 bp):
GTTTTGAGGTTTGA
Found at i:36925219 original size:30 final size:31
Alignment explanation
Indices: 36925185--36925252 Score: 129
Period size: 30 Copynumber: 2.2 Consensus size: 31
36925175 TTATGCCTTT
36925185 AAGAAAACCATAATTTTTTATAAAG-AAAAA
1 AAGAAAACCATAATTTTTTATAAAGAAAAAA
36925215 AAGAAAACCATAATTTTTTATAAAGAAAAAA
1 AAGAAAACCATAATTTTTTATAAAGAAAAAA
36925246 AAGAAAA
1 AAGAAAA
36925253 ACCAGCGGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 25 0.68
31 12 0.32
ACGTcount: A:0.63, C:0.06, G:0.07, T:0.24
Consensus pattern (31 bp):
AAGAAAACCATAATTTTTTATAAAGAAAAAA
Found at i:36926422 original size:114 final size:113
Alignment explanation
Indices: 36926228--36926437 Score: 291
Period size: 114 Copynumber: 1.8 Consensus size: 113
36926218 TATTGCTTCT
* *
36926228 GTTATTGCATTTAGGGTTCTTTGAATATATTTACCTTAGTTCTCTTCGGGCCATTGCGCCTTGTC
1 GTTATTGCATTTAGGGTTCTTTGAATACATTTACCTTAGTTCTCTTCGGGCCATTGCGCCTTGTA
* *
36926293 TTGCAAGCAACTTCATCTAAACAATATTCTTTTACGAGCTTTTGCTGCA
66 TCGCAAACAACTTCATCTAAAC-ATATTCTTTTACGAGCTTTTGCTGCA
*
36926342 GTTATTGCATTTAGGGTTCTTTGAATACATTTAGCTTAGTT-TACTTTC-GGCCATTGCAG-CTT
1 GTTATTGCATTTAGGGTTCTTTGAATACATTTACCTTAGTTCT-C-TTCGGGCCATTGC-GCCTT
* * *
36926404 GTATCGTAAACAATTTCATCTAAACATGTTCTTT
63 GTATCGCAAACAACTTCATCTAAACATATTCTTT
36926438 CATGAGCTAC
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
113 9 0.11
114 72 0.85
115 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.42
Consensus pattern (113 bp):
GTTATTGCATTTAGGGTTCTTTGAATACATTTACCTTAGTTCTCTTCGGGCCATTGCGCCTTGTA
TCGCAAACAACTTCATCTAAACATATTCTTTTACGAGCTTTTGCTGCA
Found at i:36927165 original size:18 final size:17
Alignment explanation
Indices: 36927123--36927165 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
36927113 TTTTTAAATT
*
36927123 TGTAATTTTTTATTTTA
1 TGTAATTTTTTATCTTA
* *
36927140 TGTTATTTTTATATCTTG
1 TGTAATTTTT-TATCTTA
36927158 TGTAATTT
1 TGTAATTT
36927166 ATAAGACATG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (17 bp):
TGTAATTTTTTATCTTA
Found at i:36927301 original size:23 final size:23
Alignment explanation
Indices: 36927273--36927320 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
36927263 TAATAATTAA
36927273 ATATTTTAAATTTTAAAAATAAT
1 ATATTTTAAATTTTAAAAATAAT
** *
36927296 ATATTTTATTTTTTTAAAATAAT
1 ATATTTTAAATTTTAAAAATAAT
36927319 AT
1 AT
36927321 GGTCGGACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTTAAATTTTAAAAATAAT
Found at i:36927759 original size:19 final size:20
Alignment explanation
Indices: 36927726--36927773 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
36927716 AATAGTTCAT
36927726 TAATTTTTAAAATTT-AATA
1 TAATTTTTAAAATTTGAATA
** *
36927745 TAATTTTTAGTATTTGAATT
1 TAATTTTTAAAATTTGAATA
36927765 TAACTTTTT
1 TAA-TTTTT
36927774 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TAATTTTTAAAATTTGAATA
Found at i:36938021 original size:16 final size:16
Alignment explanation
Indices: 36938000--36938052 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
36937990 AGAGCGAAAA
36938000 GAAAATTGAAAAGGTG
1 GAAAATTGAAAAGGTG
** *
36938016 GAAAATTGAAGGGGTA
1 GAAAATTGAAAAGGTG
*
36938032 GAAAACT-AAAAGGATG
1 GAAAATTGAAAAGG-TG
36938048 GAAAA
1 GAAAA
36938053 CATAATTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.15
Consensus pattern (16 bp):
GAAAATTGAAAAGGTG
Found at i:36938577 original size:2 final size:2
Alignment explanation
Indices: 36938570--36938598 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36938560 ACTAGTGTCA
36938570 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
36938599 ACTAAGTTGT
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:36944216 original size:3 final size:3
Alignment explanation
Indices: 36944208--36944237 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
36944198 GGAAAACATC
*
36944208 GAT GAT GAT GAT GAT GAC GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
36944238 TCATCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:36945365 original size:5 final size:5
Alignment explanation
Indices: 36945331--36945355 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36945321 CTAATAAAAA
36945331 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
36945356 AAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:36950727 original size:90 final size:90
Alignment explanation
Indices: 36950574--36950753 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
36950564 ATTTAACTTA
36950574 AATATTTTCATTTGGAAGTTTAAGACTTCCTTAGAACACTATATTGTTGAATAATATTATTTCTA
1 AATATTTTCATTTGGAAGTTTAAGACTTCCTTAGAACACTATATTGTTGAATAATATTATTTCTA
36950639 TCTCAACTAGAAAAGGCAAAACAAC
66 TCTCAACTAGAAAAGGCAAAACAAC
36950664 AATATTTTCATTTGGAAGTTTAAGACTTCCTTAGAACACTATATTGTTGAATAATATTATTTCTA
1 AATATTTTCATTTGGAAGTTTAAGACTTCCTTAGAACACTATATTGTTGAATAATATTATTTCTA
36950729 TCTCAACTAGAAAAGGCAAAACAAC
66 TCTCAACTAGAAAAGGCAAAACAAC
36950754 TATCAGTTCA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (90 bp):
AATATTTTCATTTGGAAGTTTAAGACTTCCTTAGAACACTATATTGTTGAATAATATTATTTCTA
TCTCAACTAGAAAAGGCAAAACAAC
Found at i:36959335 original size:21 final size:22
Alignment explanation
Indices: 36959311--36959351 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36959301 AAAATGTGGG
36959311 AAAACAACAAC-AAAACATGGA
1 AAAACAACAACAAAAACATGGA
**
36959332 AAAACAGTAACAAAAACATG
1 AAAACAACAACAAAAACATG
36959352 TTTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.66, C:0.17, G:0.10, T:0.07
Consensus pattern (22 bp):
AAAACAACAACAAAAACATGGA
Found at i:36965238 original size:102 final size:101
Alignment explanation
Indices: 36965126--36965318 Score: 334
Period size: 103 Copynumber: 1.9 Consensus size: 101
36965116 AATTACTAAT
36965126 AATTAAATAACTATAGGTATAATTTACCCTTTT-ATATCTAATATGTGATTTATATGTTCAAATT
1 AATTAAATAACTATAGGTATAATTTACCCTTTTAATATCTAATATGTGATTTATATGTTCAAATT
36965190 AAATATATTAATTATTTCAAAATATTTAAAATTTTGAA
66 AAATATATTAATTATTT-AAAA-ATTTAAAATTTTGAA
* * *
36965228 AATTAAATAACTATCGGTATAATTTATCCTTTTAATGTCTAATATGTGATTTATATGTTCAAATT
1 AATTAAATAACTATAGGTATAATTTACCCTTTTAATATCTAATATGTGATTTATATGTTCAAATT
36965293 AAATATATTAATTATTTAAAAATTTA
66 AAATATATTAATTATTTAAAAATTTA
36965319 CTCTTTGACA
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
101 5 0.06
102 35 0.40
103 47 0.54
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (101 bp):
AATTAAATAACTATAGGTATAATTTACCCTTTTAATATCTAATATGTGATTTATATGTTCAAATT
AAATATATTAATTATTTAAAAATTTAAAATTTTGAA
Found at i:36966966 original size:4 final size:4
Alignment explanation
Indices: 36966957--36966983 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36966947 AGCACAAAAA
36966957 GAGG GAGG GAGG GAGG GAGG GAGG GAG
1 GAGG GAGG GAGG GAGG GAGG GAGG GAG
36966984 AGAGAGAGAT
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:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:36974531 original size:20 final size:20
Alignment explanation
Indices: 36974503--36974541 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36974493 TCACATCATT
36974503 TAGCATCAAAATAA-AAAAAA
1 TAGCATC-AAATAAGAAAAAA
*
36974523 TAGCCTCAAATAAGAAAAA
1 TAGCATCAAATAAGAAAAA
36974542 GAAAAGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.64, C:0.13, G:0.08, T:0.15
Consensus pattern (20 bp):
TAGCATCAAATAAGAAAAAA
Found at i:36975702 original size:61 final size:60
Alignment explanation
Indices: 36975614--36975800 Score: 170
Period size: 61 Copynumber: 3.1 Consensus size: 60
36975604 TTGATAAAAT
* * *
36975614 TTTATTGAA-TTTTAAGATTAGAACTAAATTGAT-AGATCTTGT-AACTTTTGAGGGCTAAA
1 TTTATTGAATTTTTTAGATTAGAACTAAAATGATGA-ATCTTGTAAAC-ATTGAGGGCTAAA
* * *
36975673 TTTATTGAATTTTTTAGAATTCGAACTAAAATGATGAATTTTGTAAACATTGAGGGTTAAA
1 TTTATTGAATTTTTTAG-ATTAGAACTAAAATGATGAATCTTGTAAACATTGAGGGCTAAA
* * * * *
36975734 TTTGTTGAATATTTTATATTTA-AGACCAAAATGATTGAATGTT-TAAACATTGGAGGGCT-AA
1 TTTATTGAATTTTTTAGA-TTAGA-ACTAAAATGA-TGAATCTTGTAAACATT-GAGGGCTAAA
36975795 TTTATT
1 TTTATT
36975801 ATTAGACTAA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
59 9 0.08
60 8 0.08
61 72 0.68
62 17 0.16
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (60 bp):
TTTATTGAATTTTTTAGATTAGAACTAAAATGATGAATCTTGTAAACATTGAGGGCTAAA
Found at i:36976855 original size:22 final size:22
Alignment explanation
Indices: 36976825--36976867 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36976815 AGCCTTCAAC
* *
36976825 TATACATACATACATATATATA
1 TATACATACAAACACATATATA
*
36976847 TATATATACAAACACATATAT
1 TATACATACAAACACATATAT
36976868 GGAGATGCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TATACATACAAACACATATATA
Found at i:36978511 original size:10 final size:10
Alignment explanation
Indices: 36978475--36978523 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
36978465 TCCGCCTAAA
*
36978475 ATTAATAATA
1 ATTAATAATT
36978485 ATTAATAATT
1 ATTAATAATT
*
36978495 GTATAATAATT
1 AT-TAATAATT
*
36978506 ATTAATTATT
1 ATTAATAATT
*
36978516 ATAAATAA
1 ATTAATAA
36978524 ATATCTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (10 bp):
ATTAATAATT
Found at i:36986208 original size:23 final size:22
Alignment explanation
Indices: 36986173--36986287 Score: 72
Period size: 23 Copynumber: 5.1 Consensus size: 22
36986163 ACACTAGCGC
* *
36986173 GCTCTATGTTTAGCACGTCTCGT
1 GCTCTCTGATTAGCACGTCT-GT
* *
36986196 GCTCTCTGATTAGCATTGTGTGT
1 GCTCTCTGATTAGCA-CGTCTGT
* * *
36986219 GCT-TTTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCAC-GTCTGT
* *
36986241 GCTCTCTGATTAGTAC-TGTGT
1 GCTCTCTGATTAGCACGTCTGT
* * *
36986262 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCAC-GTCTGT
36986285 GCT
1 GCT
36986288 TTTTGTTTCC
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
21 18 0.24
22 18 0.24
23 35 0.47
24 3 0.04
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.43
Consensus pattern (22 bp):
GCTCTCTGATTAGCACGTCTGT
Found at i:36986266 original size:21 final size:21
Alignment explanation
Indices: 36986197--36986282 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 21
36986187 ACGTCTCGTG
*
36986197 CTCTCTGATTAGCATTGTGT-
1 CTCTCTGATTAGCACTGTGTA
* * *
36986217 GTGCTTTTGATTAGCACTTTGTGTG
1 CT-C-TCTGATTAGCAC--TGTGTA
*
36986242 CTCTCTGATTAGTACTGTGTA
1 CTCTCTGATTAGCACTGTGTA
*
36986263 CTCTCTGTTTAGCACTGTGT
1 CTCTCTGATTAGCACTGTGT
36986283 GTGCTTTTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.02
21 24 0.46
22 10 0.19
23 10 0.19
24 6 0.12
25 1 0.02
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (21 bp):
CTCTCTGATTAGCACTGTGTA
Found at i:36986295 original size:23 final size:23
Alignment explanation
Indices: 36986194--36986287 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
36986184 AGCACGTCTC
*
36986194 GTGCTCTCTGATTAGCATTGTGT
1 GTGCTCTCTGATTAGCACTGTGT
* *
36986217 GTGCT-TTTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTGTGT
*
36986239 GTGCTCTCTGATTAGTAC--TGT
1 GTGCTCTCTGATTAGCACTGTGT
* *
36986260 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTGTGT
36986283 GTGCT
1 GTGCT
36986288 TTTTGTTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
21 18 0.31
22 19 0.32
23 22 0.37
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTGTGT
Found at i:36991585 original size:3 final size:3
Alignment explanation
Indices: 36991577--36991619 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
36991567 ACACACTATT
36991577 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
36991620 TGCTATGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:37018010 original size:2 final size:2
Alignment explanation
Indices: 37017978--37018002 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37017968 TGCATATATA
37017978 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
37018003 ACGTGTGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:37027281 original size:2 final size:2
Alignment explanation
Indices: 37027274--37027299 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37027264 GCTTATTTCC
37027274 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37027300 TAAGATGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37031991 original size:15 final size:16
Alignment explanation
Indices: 37031971--37032000 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37031961 ATGTAGCATG
37031971 TTTTTTGAAT-TTTTA
1 TTTTTTGAATATTTTA
37031986 TTTTTTGAATATTTT
1 TTTTTTGAATATTTT
37032001 TAAATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTTTGAATATTTTA
Found at i:37035595 original size:31 final size:31
Alignment explanation
Indices: 37035560--37035620 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
37035550 ATTAATATAA
37035560 ATTCAAAAT-AGATAAAATAAATCACCTCTAC
1 ATTCAAAATAAG-TAAAATAAATCACCTCTAC
37035591 ATTCAAAATAAGTAAAATAAATCACCTCTA
1 ATTCAAAATAAGTAAAATAAATCACCTCTA
37035621 GACGAATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (31 bp):
ATTCAAAATAAGTAAAATAAATCACCTCTAC
Found at i:37036631 original size:18 final size:18
Alignment explanation
Indices: 37036608--37036646 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37036598 CTAACGTACC
37036608 AAATTG-AATAATAAAATT
1 AAATTGAAAT-ATAAAATT
*
37036626 AAATTGAAATATCAAATT
1 AAATTGAAATATAAAATT
37036644 AAA
1 AAA
37036647 ATAAAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATTGAAATATAAAATT
Found at i:37037671 original size:26 final size:29
Alignment explanation
Indices: 37037642--37037696 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
37037632 TAAACATTAT
*
37037642 AAAAT-TATAAA-ATATTTAAAA-AAATA
1 AAAATATATAAACAGATTTAAAATAAATA
37037668 AAAATAATATAAACAGATTTAAAATAAAT
1 AAAAT-ATATAAACAGATTTAAAATAAAT
37037697 TTAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
28 6 0.25
29 9 0.38
30 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAATATATAAACAGATTTAAAATAAATA
Done.