Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold56
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: 1793205
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 19648 characters in sequence are not A, C, G, or T
File 1 of 11
Found at i:5504 original size:13 final size:13
Alignment explanation
Indices: 5486--5510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5476 ATATTTCTTG
5486 GTATCGATACATT
1 GTATCGATACATT
5499 GTATCGATACAT
1 GTATCGATACAT
5511 ATTCCATGTA
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):
GTATCGATACATT
Found at i:5688 original size:63 final size:63
Alignment explanation
Indices: 5592--5748 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 63
5582 TATTGAATTA
* * * *
5592 TATCAATACATGGT-AAGTTGTATCAATACATTGAGCCCAATGG-CTATAATTTGAAATGCATTG
1 TATCGATACATGGTGAA-TTGTATCGATACATTGAGCCCAATGGCCT-GAATTTCAAATGCATTG
*
5655 TATCGATACGTGGTGAATTGTATCGATACATTGAGCCCAATGGCCTGAATTTCAAATGCATTG
1 TATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCCTGAATTTCAAATGCATTG
**
5718 TATCGATACATTATGAATCT-TATCGATACAT
1 TATCGATACATGGTGAAT-TGTATCGATACAT
5749 AGAAGCGTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 78 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (63 bp):
TATCGATACATGGTGAATTGTATCGATACATTGAGCCCAATGGCCTGAATTTCAAATGCATTG
Found at i:6222 original size:41 final size:41
Alignment explanation
Indices: 6177--6299 Score: 246
Period size: 41 Copynumber: 3.0 Consensus size: 41
6167 CTTTGAAAAG
6177 ATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAAT
1 ATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAAT
6218 ATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAAT
1 ATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAAT
6259 ATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAAT
1 ATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAAT
6300 TCAAGTAGTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (41 bp):
ATAGTGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAAT
Found at i:9082 original size:15 final size:15
Alignment explanation
Indices: 9062--9096 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
9052 AACCATCAAA
9062 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
9077 GATGATGATGATAAT
1 GATGATGAAGATAAT
9092 GATGA
1 GATGA
9097 AGTTGACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:16173 original size:19 final size:20
Alignment explanation
Indices: 16149--16202 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
16139 TATCGATACG
* **
16149 TTGTATCGATTCATGTTC-A
1 TTGTATCGATACATGCACAA
16168 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
16188 TTGTATCGATACATG
1 TTGTATCGATACATG
16203 AAACTGGCAG
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:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:16268 original size:13 final size:13
Alignment explanation
Indices: 16247--16276 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16237 CGATACATGG
*
16247 TACATTGTATCGA
1 TACAATGTATCGA
16260 TACAATGTATCGA
1 TACAATGTATCGA
16273 TACA
1 TACA
16277 TGAATAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:16274 original size:33 final size:33
Alignment explanation
Indices: 16232--16296 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
16222 TACCACTATT
*
16232 TGTATCGATACATG-GTACATTGTATCGATACAA
1 TGTATCGATACATGAATA-ATTGTATCGATACAA
16265 TGTATCGATACATGAATAATTGTATCGATACA
1 TGTATCGATACATGAATAATTGTATCGATACA
16297 TTGTCCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGAATAATTGTATCGATACAA
Found at i:18593 original size:22 final size:22
Alignment explanation
Indices: 18566--18608 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18556 GACAAGTTTA
18566 AATGTTTGTT-AAGTAATAAATC
1 AATGTTTGTTAAAGTAA-AAATC
*
18588 AATGTTTTTTAAAGTAAAAAT
1 AATGTTTGTTAAAGTAAAAAT
18609 ACTTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (22 bp):
AATGTTTGTTAAAGTAAAAATC
Found at i:20454 original size:3 final size:3
Alignment explanation
Indices: 20448--20476 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20438 CATCCAAGAA
20448 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
20477 GCAAGAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:23817 original size:32 final size:32
Alignment explanation
Indices: 23776--23842 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
23766 GGATCAAGCG
23776 AAACCATGCTCTACACCTATGAGTACTTTAAC
1 AAACCATGCTCTACACCTATGAGTACTTTAAC
23808 AAACCATGCTCTACACCTATGAGTACTTTAAC
1 AAACCATGCTCTACACCTATGAGTACTTTAAC
23840 AAA
1 AAA
23843 ATCCAACCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (32 bp):
AAACCATGCTCTACACCTATGAGTACTTTAAC
Found at i:25454 original size:50 final size:51
Alignment explanation
Indices: 25387--25497 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 51
25377 ATTACCTTAT
*
25387 AACATAAAAGGGGGAGAGCTTGCATAAATTTAAGG-TATTCGGTCAAATGAA
1 AACA-AAAAAGGGGAGAGCTTGCATAAATTTAAGGATATTCGGTCAAATGAA
** *
25438 AACAAAAAAGGGGAGAGCTTGCATAAATTTGGGGTATATTCGGTTAAATGAA
1 AACAAAAAAGGGGAGAGCTTGCATAAATTTAAGG-ATATTCGGTCAAATGAA
25490 AACAAAAA
1 AACAAAAA
25498 GGAGGAAAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
50 27 0.50
51 4 0.07
52 23 0.43
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (51 bp):
AACAAAAAAGGGGAGAGCTTGCATAAATTTAAGGATATTCGGTCAAATGAA
Found at i:26737 original size:34 final size:35
Alignment explanation
Indices: 26671--26738 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
26661 CAAGTAATTG
*
26671 AGAGGTTCTATCTTAGCCTTTATAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCATTATAAAAGATAGGGA
26706 AGAGGTTCTATCTTAGCCATTA-AAAAGATAGGG
1 AGAGGTTCTATCTTAGCCATTATAAAAGATAGGG
26739 TTATAAGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 11 0.34
35 21 0.66
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCCATTATAAAAGATAGGGA
Found at i:35088 original size:13 final size:13
Alignment explanation
Indices: 35070--35095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35060 TACAACAAGT
35070 ATGTATCGATACA
1 ATGTATCGATACA
35083 ATGTATCGATACA
1 ATGTATCGATACA
35096 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:37347 original size:21 final size:21
Alignment explanation
Indices: 37314--37358 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37304 TTGCAAGTTG
*
37314 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
37336 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
37356 AAA
1 AAA
37359 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:39181 original size:15 final size:15
Alignment explanation
Indices: 39161--39200 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
39151 ATAAAAATGT
*
39161 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
39176 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
*
39191 TCCAAATGAA
1 TCAAAATGAA
39201 ATTGATGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:41281 original size:13 final size:13
Alignment explanation
Indices: 41263--41301 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
41253 ACATTTTTCT
41263 TTGTATCGATACA
1 TTGTATCGATACA
41276 TTGTATCGATACA
1 TTGTATCGATACA
41289 TTGTATCGATACA
1 TTGTATCGATACA
41302 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:41446 original size:21 final size:21
Alignment explanation
Indices: 41422--41469 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
41412 AAATATTTTG
41422 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
41443 CAAAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
41464 CAAAAT
1 CAAAAT
41470 CAGCATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.52
22 4 0.16
23 8 0.32
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:43132 original size:20 final size:20
Alignment explanation
Indices: 43107--43147 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
43097 TTATATGAAT
43107 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGGGAGAA
43127 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGGGAGAA
43147 T
1 T
43148 TATTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.27
Consensus pattern (20 bp):
TACTTGATTAAGGGGGAGAA
Found at i:43894 original size:13 final size:13
Alignment explanation
Indices: 43876--43901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43866 TATAGCAAGT
43876 ATGTATCGATACA
1 ATGTATCGATACA
43889 ATGTATCGATACA
1 ATGTATCGATACA
43902 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:47351 original size:13 final size:13
Alignment explanation
Indices: 47333--47389 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
47323 TTCAACAATT
47333 TGTATCGATACAA
1 TGTATCGATACAA
47346 TGTATCGATACATAA
1 TGTATCGATAC--AA
47361 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
47378 TGTATCGATACA
1 TGTATCGATACA
47390 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:47370 original size:19 final size:18
Alignment explanation
Indices: 47346--47408 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
47336 ATCGATACAA
47346 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
47365 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
47378 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
*
47397 TGTATCCATACA
1 TGTATCGATACA
47409 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:47373 original size:32 final size:32
Alignment explanation
Indices: 47332--47416 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
47322 TTTCAACAAT
47332 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
47364 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
47396 TTGTATCCATACAATGTATCG
1 TTGTATCGATACAATGTATCG
47417 CTACGAAGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:50677 original size:13 final size:13
Alignment explanation
Indices: 50659--50683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50649 CATTATGCTT
50659 TGTATCGATACAA
1 TGTATCGATACAA
50672 TGTATCGATACA
1 TGTATCGATACA
50684 TGTTCATTGT
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:50683 original size:33 final size:32
Alignment explanation
Indices: 50637--50703 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
50627 TACATACCCA
*
50637 AATGTATCAATACAT-TATGCTTTGTATCGATAC
1 AATGTATCAATACATGT-T-CATTGTATCGATAC
*
50670 AATGTATCGATACATGTTCATTGTATCGATAC
1 AATGTATCAATACATGTTCATTGTATCGATAC
50702 AA
1 AA
50704 GGACAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 15 0.48
33 15 0.48
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (32 bp):
AATGTATCAATACATGTTCATTGTATCGATAC
Found at i:50696 original size:19 final size:20
Alignment explanation
Indices: 50668--50724 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
50658 TTGTATCGAT
*
50668 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
50687 TC-ATTGTATCGATACAAGG
1 ACAATTGTATCGATACATGG
50706 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
50725 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:50796 original size:19 final size:20
Alignment explanation
Indices: 50753--50805 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
50743 CTACCACTGT
* *
50753 TTGTATCGACACATGGTACA
1 TTGTATCGATACATGATACA
50773 TTGTATCGATACATGATA-A
1 TTGTATCGATACATGATACA
50792 TTGTATCGATACAT
1 TTGTATCGATACAT
50806 TACTTCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:51425 original size:16 final size:16
Alignment explanation
Indices: 51400--51430 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51390 TGAATTTTGA
51400 GATAAACACTCAATTG
1 GATAAACACTCAATTG
*
51416 GATAACCACTCAATT
1 GATAAACACTCAATT
51431 TTTGAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (16 bp):
GATAAACACTCAATTG
Found at i:52141 original size:20 final size:20
Alignment explanation
Indices: 52116--52166 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
52106 GTTTAAAGCA
52116 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ATC
52136 ATGTATCGATACAATGTATC
1 ATGTATCGATACAATGTATC
52156 ATGTATCGATA
1 ATGTATCGATA
52167 GAAACAGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTATC
Found at i:57385 original size:3 final size:3
Alignment explanation
Indices: 57379--57412 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
57369 TCTGAGTCAC
*
57379 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
57413 TTTGATAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:59001 original size:20 final size:20
Alignment explanation
Indices: 58976--59029 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
58966 ATTTGAAGCA
58976 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
*
58996 ATGTATCAATACAATGTGCC
1 ATGTATCGATACAATGTGCC
59016 ATGTATCGATACAA
1 ATGTATCGATACAA
59030 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:63810 original size:81 final size:80
Alignment explanation
Indices: 63572--63866 Score: 294
Period size: 81 Copynumber: 3.7 Consensus size: 80
63562 TATATAATTT
* * *
63572 TTTGTGATACTTCAACCCCACTAT-TTCGAGGGGATACTCCAACCCCCATTTTTACTTCCAAAAT
1 TTTGAGATACTCCAACCCCACTATCTTCGAGGGGATACTCCAACCCCTATTTTTACTTCCAAAAT
* *
63636 ATCAAAATTTTCTTC
66 ACCAAAATTTTCATC
* * * * * * *
63651 TTTGGGAATACTCCAACCCTACCA-ATTCTGAGGGGATACTCTAACCCCTATTTTTACTTCTACA
1 TTTGAG-ATACTCCAACCCCACTATCTTC-GAGGGGATACTCCAACCCCTATTTTTACTTCCAAA
*
63715 ATACTAAAATTTTCATC
64 ATACCAAAATTTTCATC
* ** *
63732 TTTAGAGATACTCCAACCCCATTATCTTCGAGGGGATACTCCAA-CTATGTTTTTACTTCCAAAA
1 TTT-GAGATACTCCAACCCCACTATCTTCGAGGGGATACTCCAACCCCTATTTTTACTTCCAAAA
* *
63796 CACCAAATTCTTTCATC
65 TACCAAAAT-TTTCATC
* * * * * *
63813 TCT-AGATGCTCCAACCCCACTATCTCCTAGGGGATACTCTAACCTC-ATTTTTAC
1 TTTGAGATACTCCAACCCCACTATCTTCGAGGGGATACTCCAACCCCTATTTTTAC
63867 ACTAAAATTC
Statistics
Matches: 176, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
79 46 0.26
80 40 0.23
81 85 0.48
82 5 0.03
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (80 bp):
TTTGAGATACTCCAACCCCACTATCTTCGAGGGGATACTCCAACCCCTATTTTTACTTCCAAAAT
ACCAAAATTTTCATC
Found at i:65017 original size:10 final size:10
Alignment explanation
Indices: 65002--65032 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
64992 GCATTTGAAA
65002 TTATGGCCGT
1 TTATGGCCGT
65012 TTATGGCCGT
1 TTATGGCCGT
*
65022 TTATAGCCGT
1 TTATGGCCGT
65032 T
1 T
65033 AGAAGTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (10 bp):
TTATGGCCGT
Found at i:65161 original size:20 final size:20
Alignment explanation
Indices: 65135--65189 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
65125 CTACCGGTTT
*
65135 CATGTATCGATACAATTGTGA
1 CATGTATCGATACAATTG-AA
*
65156 -ATGTATCTATACAA-TGAA
1 CATGTATCGATACAATTGAA
65174 CATGTATCGATACAAT
1 CATGTATCGATACAAT
65190 GTATCGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.52
20 13 0.45
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:65193 original size:13 final size:13
Alignment explanation
Indices: 65175--65200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65165 TACAATGAAC
65175 ATGTATCGATACA
1 ATGTATCGATACA
65188 ATGTATCGATACA
1 ATGTATCGATACA
65201 TCTGGATGTG
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:65713 original size:22 final size:22
Alignment explanation
Indices: 65688--65735 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
65678 AACTTCAAGG
65688 ATCACATTAGAAAAGTTCAAAT
1 ATCACATTAGAAAAGTTCAAAT
65710 ATCACATTAGAAAAGTTCAAAT
1 ATCACATTAGAAAAGTTCAAAT
65732 ATCA
1 ATCA
65736 AAGTTTCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (22 bp):
ATCACATTAGAAAAGTTCAAAT
Found at i:66556 original size:13 final size:13
Alignment explanation
Indices: 66538--66563 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66528 ACATTTCATC
66538 ATGTATCGATACA
1 ATGTATCGATACA
66551 ATGTATCGATACA
1 ATGTATCGATACA
66564 TTCTACCATG
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:66560 original size:33 final size:33
Alignment explanation
Indices: 66518--66584 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
66508 GTTATAAGCT
*
66518 ATGTATCGATACATT-TCATCATGTATCGATACA
1 ATGTATCGATACATTCT-ACCATGTATCGATACA
66551 ATGTATCGATACATTCTACCATGTATCGATACA
1 ATGTATCGATACATTCTACCATGTATCGATACA
66584 A
1 A
66585 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTCTACCATGTATCGATACA
Found at i:66638 original size:20 final size:20
Alignment explanation
Indices: 66613--66672 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
66603 CTGCCAGTTT
66613 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
* *
66633 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATTATC
66652 CATGTATCGATACAATGTATC
1 CATGTATCGATACAAT-TATC
66673 GATACAATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:66657 original size:19 final size:19
Alignment explanation
Indices: 66613--66700 Score: 107
Period size: 19 Copynumber: 4.9 Consensus size: 19
66603 CTGCCAGTTT
* *
66613 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGA-A
66633 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
66652 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
66666 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
66684 CATGTATCGATACAATG
1 CATGTATCGATACAATG
66701 TATCGATACA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.20
14 1 0.02
18 1 0.02
19 29 0.48
20 17 0.28
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:66671 original size:13 final size:13
Alignment explanation
Indices: 66653--66710 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
66643 TACAATGAAC
66653 ATGTATCGATACA
1 ATGTATCGATACA
66666 ATGTATCGATAC-
1 ATGTATCGATACA
66678 A---AT-GA-AC-
1 ATGTATCGATACA
66685 ATGTATCGATACA
1 ATGTATCGATACA
66698 ATGTATCGATACA
1 ATGTATCGATACA
66711 TCTAGGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 25 0.64
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:66675 original size:32 final size:32
Alignment explanation
Indices: 66634--66710 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
66624 ACAATTATCC
66634 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
66666 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
66698 ATGTATCGATACA
1 ATGTATCGATACA
66711 TCTAGGTGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:75327 original size:33 final size:33
Alignment explanation
Indices: 75283--75345 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
75273 GTTATAAGCT
* *
75283 ATGTATTGATACATT-TCATCATGTATCGATGCA
1 ATGTATCGATACATTGT-ACCATGTATCGATGCA
75316 ATGTATCGATACATTGTACCATGTATCGAT
1 ATGTATCGATACATTGTACCATGTATCGAT
75346 ACAAATAGTG
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:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATGCA
Found at i:75422 original size:19 final size:19
Alignment explanation
Indices: 75378--75465 Score: 107
Period size: 19 Copynumber: 4.9 Consensus size: 19
75368 CTGCCAGTTT
**
75378 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
75398 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
75417 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
75431 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
75449 CATGTATCGATACAATG
1 CATGTATCGATACAATG
75466 TATCGATACA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.20
14 1 0.02
18 1 0.02
19 31 0.52
20 15 0.25
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:75436 original size:13 final size:13
Alignment explanation
Indices: 75418--75476 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
75408 TACAATGAAC
75418 ATGTATCGATACA
1 ATGTATCGATACA
75431 ATGTATCGATAC-
1 ATGTATCGATACA
75443 A---AT-GA-AC-
1 ATGTATCGATACA
75450 ATGTATCGATACA
1 ATGTATCGATACA
75463 ATGTATCGATACA
1 ATGTATCGATACA
75476 A
1 A
75477 AGCAAGATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 26 0.65
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:75440 original size:32 final size:32
Alignment explanation
Indices: 75399--75495 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
75389 ACAATTGTCC
75399 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
75431 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
* *
75463 ATGTATCGATACAAAGCAAGATGTATCGATACA
1 ATGTATCGATACAATG-AACATGTATCGATACA
75496 TCTGGGTGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 47 0.76
33 15 0.24
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:83863 original size:19 final size:19
Alignment explanation
Indices: 83819--83874 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
83809 CTGCCAGCTT
**
83819 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
83839 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
83858 CATGTATCGATACAATG
1 CATGTATCGATACAATG
83875 TATGGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:90905 original size:13 final size:13
Alignment explanation
Indices: 90887--90912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90877 CAATTTTTTG
90887 TGTATCGATACAT
1 TGTATCGATACAT
90900 TGTATCGATACAT
1 TGTATCGATACAT
90913 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:90977 original size:21 final size:21
Alignment explanation
Indices: 90951--91026 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
90941 CTGCCAAGAA
*
90951 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
90972 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
90992 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
91013 ATGTATCGATACAT
1 ATGTATCGATACAT
91027 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:90997 original size:20 final size:20
Alignment explanation
Indices: 90972--91044 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
90962 CATCTTTTTT
90972 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
90992 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
91013 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
91033 ATGTATCGATAC
1 ATGTATCGATAC
91045 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:91008 original size:41 final size:41
Alignment explanation
Indices: 90951--91044 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
90941 CTGCCAAGAA
*
90951 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
90992 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
91033 ATGTATCGATAC
1 ATGTATCGATAC
91045 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:91720 original size:59 final size:59
Alignment explanation
Indices: 91641--91758 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
91631 CACGCATTCT
91641 CTCCTTTATCTTCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATCAA
1 CTCCTTTATCTTCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATCAA
91700 CTCCTTTATCTTCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATCAA
1 CTCCTTTATCTTCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATCAA
91759 AATTTATTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (59 bp):
CTCCTTTATCTTCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATCAA
Found at i:93564 original size:13 final size:13
Alignment explanation
Indices: 93546--93584 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
93536 ATAATCACCC
*
93546 TGTATCGATACAG
1 TGTATCGATACAA
93559 TGTATCGATACAA
1 TGTATCGATACAA
93572 TGTATCGATACAA
1 TGTATCGATACAA
93585 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:93595 original size:20 final size:20
Alignment explanation
Indices: 93570--93648 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
93560 GTATCGATAC
93570 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
93590 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
93615 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
93635 CATGTATCGATACA
1 AATGTATCGATACA
93649 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:95683 original size:15 final size:15
Alignment explanation
Indices: 95663--95693 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95653 ATTTCGTTTG
*
95663 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
95678 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
95693 G
1 G
95694 GTCATTTTTA
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:99187 original size:13 final size:13
Alignment explanation
Indices: 99169--99194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99159 CAATTTTTTG
99169 TGTATCGATACAT
1 TGTATCGATACAT
99182 TGTATCGATACAT
1 TGTATCGATACAT
99195 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:99259 original size:21 final size:21
Alignment explanation
Indices: 99233--99308 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
99223 CTGCCAAGAA
*
99233 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
99254 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
99274 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
99295 ATGTATCGATACAT
1 ATGTATCGATACAT
99309 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:99279 original size:20 final size:20
Alignment explanation
Indices: 99254--99326 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
99244 CATCTTTTTT
99254 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
99274 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
99295 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
99315 ATGTATCGATAC
1 ATGTATCGATAC
99327 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:99290 original size:41 final size:41
Alignment explanation
Indices: 99233--99326 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
99223 CTGCCAAGAA
*
99233 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
99274 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
99315 ATGTATCGATAC
1 ATGTATCGATAC
99327 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:102539 original size:13 final size:13
Alignment explanation
Indices: 102521--102548 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102511 TACAAAAGAT
102521 CAATGTATCGATA
1 CAATGTATCGATA
102534 CAATGTATCGATA
1 CAATGTATCGATA
102547 CA
1 CA
102549 TTTCCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:102623 original size:32 final size:32
Alignment explanation
Indices: 102572--102656 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 32
102562 AGCTTCGTAG
* *
102572 CGATACATTCTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
* *
102604 CGATACATTGTATCCATACAACACTTATGCAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
*
102636 CGATACACTGTATCGATACAA
1 CGATACATTGTATCGATACAA
102657 GTTGTTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGCAT
Found at i:103273 original size:13 final size:13
Alignment explanation
Indices: 103255--103279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103245 ATTCTTCATA
103255 TATCGATACAATG
1 TATCGATACAATG
103268 TATCGATACAAT
1 TATCGATACAAT
103280 CTCCTATGTA
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:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:103277 original size:33 final size:33
Alignment explanation
Indices: 103231--103297 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
103221 CGTTAGGCAT
*
103231 AATGTATCAATACAAT-TCTTCATATATCGATAC
1 AATGTATCAATACAATCTCCT-ATATATCGATAC
* *
103264 AATGTATCGATACAATCTCCTATGTATCGATAC
1 AATGTATCAATACAATCTCCTATATATCGATAC
103297 A
1 A
103298 TTTCACTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (33 bp):
AATGTATCAATACAATCTCCTATATATCGATAC
Found at i:103369 original size:19 final size:19
Alignment explanation
Indices: 103334--103381 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
103324 TTCATATATC
*
103334 GATACAATTGAGTATGTATT
1 GATACAA-TGAGCATGTATT
103354 GATACAATGAGCATGTATT
1 GATACAATGAGCATGTATT
103373 GATACAATG
1 GATACAATG
103382 TATCGATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (19 bp):
GATACAATGAGCATGTATT
Found at i:103569 original size:21 final size:21
Alignment explanation
Indices: 103508--103572 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
103498 ATACTTAGAA
*
103508 TTATTT-TTACTCAAAAACAT
1 TTATTTATAACTCAAAAACAT
*
103528 TTGATTCA-AAGCTCAAAAACAT
1 TT-ATTTATAA-CTCAAAAACAT
*
103550 TTATTTATAACTCTAAAACAT
1 TTATTTATAACTCAAAAACAT
103571 TT
1 TT
103573 TAGATATTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 2 0.05
21 20 0.54
22 15 0.41
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (21 bp):
TTATTTATAACTCAAAAACAT
Found at i:104414 original size:20 final size:20
Alignment explanation
Indices: 104391--104464 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
104381 AAGTACCCAG
*
104391 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
104411 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
104431 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
104451 ATGTATCGATACAT
1 ATGTATCGATACAT
104465 CCTGTCTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:106882 original size:32 final size:32
Alignment explanation
Indices: 106846--106910 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
106836 AATAAATTAA
106846 TCCAGACACATCTCCAATATTGTCAATGTGGT
1 TCCAGACACATCTCCAATATTGTCAATGTGGT
*
106878 TCCAGACACGTCTCCAATATTGTCAATGTGGT
1 TCCAGACACATCTCCAATATTGTCAATGTGGT
106910 T
1 T
106911 ATTTTTTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (32 bp):
TCCAGACACATCTCCAATATTGTCAATGTGGT
Found at i:113061 original size:33 final size:33
Alignment explanation
Indices: 113019--113085 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
113009 CGTTGGGCAT
* *
113019 AATGTATCGATACAAT-TCTTCATGTATCGATAC
1 AATGTATCGATAAAATCTCCT-ATGTATCGATAC
113052 AATGTATCGATAAAATCTCCTATGTATCGATAC
1 AATGTATCGATAAAATCTCCTATGTATCGATAC
113085 A
1 A
113086 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCGATAAAATCTCCTATGTATCGATAC
Found at i:113157 original size:19 final size:19
Alignment explanation
Indices: 113114--113169 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
113104 CTGCCAATTT
113114 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
113134 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
113153 CATGTATCGATACAATG
1 CATGTATCGATACAATG
113170 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 20 0.59
20 14 0.41
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:113172 original size:13 final size:13
Alignment explanation
Indices: 113154--113180 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113144 TACAATGAGC
113154 ATGTATCGATACA
1 ATGTATCGATACA
113167 ATGTATCGATACA
1 ATGTATCGATACA
113180 A
1 A
113181 AGCATAATGT
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:113357 original size:21 final size:22
Alignment explanation
Indices: 113309--113360 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
113299 TTTTTACTTA
*
113309 AAAACATTTAATTTAAAGCTCG
1 AAAACATTTAATTCAAAGCTCG
*
113331 AAAACATTT-ATTCATAA-CTCT
1 AAAACATTTAATTCA-AAGCTCG
113352 AAAACATTT
1 AAAACATTT
113361 TAGATATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAACATTTAATTCAAAGCTCG
Found at i:114389 original size:22 final size:22
Alignment explanation
Indices: 114361--114415 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
114351 GAATTATAAA
114361 CAAATGCTTTTGAACCTTAATT
1 CAAATGCTTTTGAACCTTAATT
114383 CAAATGCTTTTGAACCTTAATT
1 CAAATGCTTTTGAACCTTAATT
*
114405 CAAATGTTTTT
1 CAAATGCTTTT
114416 ACGTAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (22 bp):
CAAATGCTTTTGAACCTTAATT
Found at i:114578 original size:19 final size:19
Alignment explanation
Indices: 114554--114608 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
114544 TGTATCGATG
*
114554 CATTGTATCAATACATGTT
1 CATTGTATCGATACATGTT
114573 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
*
114592 CATTATATCGATACATG
1 CATTGTATCGATACATG
114609 AAACTGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:114674 original size:13 final size:13
Alignment explanation
Indices: 114653--114682 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
114643 CGATACATGG
*
114653 TACATTGTATCGA
1 TACAATGTATCGA
114666 TACAATGTATCGA
1 TACAATGTATCGA
114679 TACA
1 TACA
114683 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:114675 original size:33 final size:33
Alignment explanation
Indices: 114638--114702 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
114628 TACCACTGTT
*
114638 TGTATCGATACATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
*
114671 TGTATCGATACATGATGAATTGTATTGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
114703 TTGTTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:118333 original size:13 final size:13
Alignment explanation
Indices: 118315--118340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118305 ACACCAAAGT
118315 ATGTATCGATACA
1 ATGTATCGATACA
118328 ATGTATCGATACA
1 ATGTATCGATACA
118341 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:118338 original size:33 final size:33
Alignment explanation
Indices: 118296--118360 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
118286 TAGCCAAACT
* *
118296 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
118329 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
118361 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:119637 original size:227 final size:227
Alignment explanation
Indices: 119242--119697 Score: 894
Period size: 227 Copynumber: 2.0 Consensus size: 227
119232 AAATATGTCT
119242 CATGGCATTAGAAAACAACTCGAATGCCATAGGACTCGAGGGACACTCAACCATGAGGCCTCCAT
1 CATGGCATTAGAAAACAACTCGAATGCCATAGGACTCGAGGGACACTCAACCATGAGGCCTCCAT
119307 ACTTCAACGGTGACAACTTCTCATATTGGAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGAT
66 ACTTCAACGGTGACAACTTCTCATATTGGAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGAT
119372 TATGAGGTATGGAAGATTATTATCAATAGACCTCGTATTCCATTGATCGAAGGCACTATGGTTCC
131 TATGAGGTATGGAAGATTATTATCAATAGACCTCGTATTCCATTGATCGAAGGCACTATGGTTCC
*
119437 GAAGAGGGAAAAAGATTGGGATGAGCAAGACA
196 AAAGAGGGAAAAAGATTGGGATGAGCAAGACA
119469 CATGGCATTAGAAAACAACTCGAATGCCATAGGACTCGAGGGACACTCAACCATGAGGCCTCCAT
1 CATGGCATTAGAAAACAACTCGAATGCCATAGGACTCGAGGGACACTCAACCATGAGGCCTCCAT
119534 ACTTCAACGGTGACAACTTCTCATATTGGAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGAT
66 ACTTCAACGGTGACAACTTCTCATATTGGAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGAT
*
119599 TATGAGGTATGGAAGATTATTATCAATGGACCTCGTATTCCATTGATCGAAGGCACTATGGTTCC
131 TATGAGGTATGGAAGATTATTATCAATAGACCTCGTATTCCATTGATCGAAGGCACTATGGTTCC
119664 AAAGAGGGAAAAAGATTGGGATGAGCAAGACA
196 AAAGAGGGAAAAAGATTGGGATGAGCAAGACA
119696 CA
1 CA
119698 AAGATGGCAC
Statistics
Matches: 227, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 227 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (227 bp):
CATGGCATTAGAAAACAACTCGAATGCCATAGGACTCGAGGGACACTCAACCATGAGGCCTCCAT
ACTTCAACGGTGACAACTTCTCATATTGGAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGAT
TATGAGGTATGGAAGATTATTATCAATAGACCTCGTATTCCATTGATCGAAGGCACTATGGTTCC
AAAGAGGGAAAAAGATTGGGATGAGCAAGACA
Found at i:122679 original size:16 final size:16
Alignment explanation
Indices: 122643--122684 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
122633 GATAAAAATG
* *
122643 TCCAAATTGAGGAAGC
1 TCCAAAATGAAGAAGC
122659 T-CAAAATGAAGAAGC
1 TCCAAAATGAAGAAGC
*
122674 TCCAAACTGAA
1 TCCAAAATGAA
122685 ATCGATGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (16 bp):
TCCAAAATGAAGAAGC
Found at i:124768 original size:13 final size:13
Alignment explanation
Indices: 124750--124774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124740 CATTTTTCTT
124750 TGTATCGATACAC
1 TGTATCGATACAC
124763 TGTATCGATACA
1 TGTATCGATACA
124775 GGGGGATTAT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:124938 original size:20 final size:20
Alignment explanation
Indices: 124895--124940 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
124885 AAATCTTTTG
124895 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
124916 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
124936 CAAAA
1 CAAAA
124941 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:127377 original size:13 final size:13
Alignment explanation
Indices: 127359--127384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127349 ACACCAAAGT
127359 ATGTATCGATACA
1 ATGTATCGATACA
127372 ATGTATCGATACA
1 ATGTATCGATACA
127385 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:127382 original size:33 final size:33
Alignment explanation
Indices: 127340--127404 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
127330 TAGCCAAACT
* *
127340 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
127373 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
127405 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:131054 original size:13 final size:13
Alignment explanation
Indices: 131036--131061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
131026 CAATATTCCG
131036 TGTATCGATACAT
1 TGTATCGATACAT
131049 TGTATCGATACAT
1 TGTATCGATACAT
131062 GGGTTACTAT
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:132965 original size:21 final size:22
Alignment explanation
Indices: 132921--132964 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
132911 TTTTAACCGA
*
132921 TTATCAAGGGGGAGAAATTTTT
1 TTATCAAGAGGGAGAAATTTTT
132943 TTATCAA-AGGGA-AAATTTTT
1 TTATCAAGAGGGAGAAATTTTT
132963 TT
1 TT
132965 TTAGAGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 4 0.19
22 7 0.33
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (22 bp):
TTATCAAGAGGGAGAAATTTTT
Found at i:135128 original size:13 final size:13
Alignment explanation
Indices: 135110--135135 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
135100 ACATTTTGGG
135110 ATGTATCGATACA
1 ATGTATCGATACA
135123 ATGTATCGATACA
1 ATGTATCGATACA
135136 TATTGTGTGT
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:135152 original size:32 final size:33
Alignment explanation
Indices: 135088--135155 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
135078 CGTTACAAGC
*
135088 CAATATATCGATACATTTTGGGATGTATCGATA
1 CAATATATCGATACATATTGGGATGTATCGATA
* *
135121 CAATGTATCGATACATATTGTG-TGTATCGATA
1 CAATATATCGATACATATTGGGATGTATCGATA
135153 CAA
1 CAA
135156 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATATATCGATACATATTGGGATGTATCGATA
Found at i:135246 original size:20 final size:20
Alignment explanation
Indices: 135196--135281 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 20
135186 GCCAATGACC
**
135196 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATT-TGGTCA
* *
135217 AGTATTGATACATTTGGTCA
1 TGTATCGATACATTTGGTCA
*
135237 TGTATCGAT--A-----TAA
1 TGTATCGATACATTTGGTCA
135250 TGTATCGATACATTTGGTCA
1 TGTATCGATACATTTGGTCA
135270 TGTATCGATACA
1 TGTATCGATACA
135282 ATGTATCGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
13 11 0.22
15 1 0.02
18 1 0.02
20 25 0.50
21 12 0.24
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTGGTCA
Found at i:135265 original size:33 final size:33
Alignment explanation
Indices: 135218--135293 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
135208 TTCTTTTCAA
* *
135218 GTATTGATACATTTGGTCATGTATCGATATAAT
1 GTATCGATACATTTGGTCATGTATCGATACAAT
135251 GTATCGATACATTTGGTCATGTATCGATACAAT
1 GTATCGATACATTTGGTCATGTATCGATACAAT
135284 GTATCGATAC
1 GTATCGATAC
135294 TGTGCAATCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (33 bp):
GTATCGATACATTTGGTCATGTATCGATACAAT
Found at i:135287 original size:13 final size:12
Alignment explanation
Indices: 135235--135293 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 12
135225 TACATTTGGT
135235 CATGTATCGATA
1 CATGTATCGATA
*
135247 TAATGTATCGATA
1 -CATGTATCGATA
*
135260 CAT-T-T-GGT-
1 CATGTATCGATA
135268 CATGTATCGATA
1 CATGTATCGATA
135280 CAATGTATCGATA
1 C-ATGTATCGATA
135293 C
1 C
135294 TGTGCAATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 2 0.05
11 3 0.08
12 3 0.08
13 23 0.62
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:135307 original size:33 final size:33
Alignment explanation
Indices: 135218--135314 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
135208 TTCTTTTCAA
* * * *
135218 GTATTGATACATTTGGTCATGTATCGATATAAT
1 GTATCGATACATGTGATCATGTATCGATACAAT
* *
135251 GTATCGATACATTTGGTCATGTATCGATACAAT
1 GTATCGATACATGTGATCATGTATCGATACAAT
135284 GTATCGATAC-TGTGCAATC-TGTATCGATACA
1 GTATCGATACATGTG--ATCATGTATCGATACA
135315 TTTAAAGGTG
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.05
33 53 0.91
34 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (33 bp):
GTATCGATACATGTGATCATGTATCGATACAAT
Found at i:136879 original size:34 final size:35
Alignment explanation
Indices: 136809--136882 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
136799 CTGGTGTTTG
* *
136809 TGAAGGAATAAGCACAAAGGAATACAAATGAGCTT
1 TGAAAGAATAAGCACAAAGGAATACAAAAGAGCTT
**
136844 TGAAAGAATAA-CAACAAA-GAATACAAAAGCTCTT
1 TGAAAGAATAAGC-ACAAAGGAATACAAAAGAGCTT
136878 TGAAA
1 TGAAA
136883 TGTAGAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (35 bp):
TGAAAGAATAAGCACAAAGGAATACAAAAGAGCTT
Found at i:137157 original size:20 final size:20
Alignment explanation
Indices: 137132--137186 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
137122 GTTGGGCTCA
* *
137132 ATGTATCGATACATTTCACC
1 ATGTATCGATACAATCCACC
**
137152 ATGTATCGATACAATCCTTC
1 ATGTATCGATACAATCCACC
137172 ATGTATCGATACAAT
1 ATGTATCGATACAAT
137187 GTGAGTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATCCACC
Found at i:137540 original size:50 final size:50
Alignment explanation
Indices: 137486--137587 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
137476 AAAACTTGTT
* *
137486 ACGGTTTTTCAAAGTATTTTTCAGTTTTATTCATACGTTGTTATATCAAA
1 ACGGTTTTTCAAAGTATTTTCCAGTTTTATTCATACGTTGTTATAACAAA
*
137536 ACGGTTTTTCAAAGTATTTTCCAGTTTTATTCATACTTTGTTATAACAAA
1 ACGGTTTTTCAAAGTATTTTCCAGTTTTATTCATACGTTGTTATAACAAA
137586 AC
1 AC
137588 TAAGATCCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (50 bp):
ACGGTTTTTCAAAGTATTTTCCAGTTTTATTCATACGTTGTTATAACAAA
Found at i:140994 original size:21 final size:21
Alignment explanation
Indices: 140968--141023 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
140958 AAGATGCTTT
*
140968 ATTTCATCCAACGAGTGCATC
1 ATTTCATCCAACAAGTGCATC
* *
140989 ATTTCATCTAACAAGTGCTTC
1 ATTTCATCCAACAAGTGCATC
*
141010 ATTTAATCCAACAA
1 ATTTCATCCAACAA
141024 ATAAACCCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (21 bp):
ATTTCATCCAACAAGTGCATC
Found at i:144119 original size:165 final size:166
Alignment explanation
Indices: 143884--144189 Score: 377
Period size: 165 Copynumber: 1.8 Consensus size: 166
143874 GCAATGTTAG
* * * * * **
143884 AAAGTTTAGGGGTTTATTTGTAAATAAGCAAAAATTTTGTTCTAAGGCCAAAGGTACTTGGCTGA
1 AAAGTTTAGGGGTTTATTTGTAAATAAGAAAAAATTTTGCTCCAAGGCCAAAGATACTGGGCCAA
* *
143949 ATCTTTCTTGTAAATTTT-GAATCTAATTTTTATGCT-GATTTGAATATATTTGATGCTTAA-TT
66 ATCTTTCTTATAAATTTTGGAA-CTAATTTTTATACTAGATTTG-ATATATTTGATGCTTAATTT
*
144011 TGTGTTTTAATTAGTAAGAGCCAATTTGTATTTTTTTA
129 TGTATTTTAATTAGTAAGAGCCAATTTGTATTTTTTTA
***
144049 AAAGTTTAGGGGTTTATTTGTAAATTTTAAAAAATTTTGCTCCAAGGCCAAAGATGA-TGGGCCA
1 AAAGTTTAGGGGTTTATTTGTAAATAAGAAAAAATTTTGCTCCAAGGCCAAAGAT-ACTGGGCCA
* ** * * * *
144113 AATCTTTTTTATAGCTTTTGGAACTAATTTTTGTATTAGTTTTGATATATTTGATGTTTAATTTT
65 AATCTTTCTTATAAATTTTGGAACTAATTTTTATACTAGATTTGATATATTTGATGCTTAATTTT
144178 GTATTTTAATTA
130 GTATTTTAATTA
144190 TGTAGGGATT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
165 94 0.80
166 23 0.20
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.46
Consensus pattern (166 bp):
AAAGTTTAGGGGTTTATTTGTAAATAAGAAAAAATTTTGCTCCAAGGCCAAAGATACTGGGCCAA
ATCTTTCTTATAAATTTTGGAACTAATTTTTATACTAGATTTGATATATTTGATGCTTAATTTTG
TATTTTAATTAGTAAGAGCCAATTTGTATTTTTTTA
Found at i:144832 original size:30 final size:30
Alignment explanation
Indices: 144770--144832 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
144760 TTTTTTTATT
* *
144770 TTTCACGATGTGTTTGGTATTGGTTTAGGA
1 TTTCACGATGTGCTTGGTATTGATTTAGGA
* * * *
144800 TTTCATGATGTGCTTGGTGTTTATTTATGA
1 TTTCACGATGTGCTTGGTATTGATTTAGGA
144830 TTT
1 TTT
144833 TTCATTATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.06, G:0.25, T:0.52
Consensus pattern (30 bp):
TTTCACGATGTGCTTGGTATTGATTTAGGA
Found at i:145587 original size:155 final size:155
Alignment explanation
Indices: 145256--145778 Score: 490
Period size: 156 Copynumber: 3.4 Consensus size: 155
145246 AAAGTCATTA
* ** **
145256 TTACTTATCATCCTTGTGTCTTTTAAGGTTA-CTAGGATACTTTCACGTTAAAGGTATACCCA-A
1 TTACTTATCATCTTTGTGTCTTTTAAGGTTATC-AGGATACTTTCACGTCGAAGGTATACTTAGA
* * * * * * * *
145319 GAGCATTTTAGTAATCTTCCTTAG-ACTCAAGTCCT-AGGATATTACCAGGTCGCTTTTATGCCG
65 -AGCATTTTGGTAAT-TTCCCTAGAAC-CGAGACTTAAGTA-ATCACCAGGTCACTTTTATGCCG
* *
145382 AAGGTATGCATTTGGGATAGGTTTATCCTT
126 AAGGTATGCATTTAGGATAGGTTTGTCCTT
* * *
145412 TTACTTATCAT-TCTTGTGTCTTTTAGGGTTATCGGGATACTTTCACGTTGAAGGTATACTTAGA
1 TTACTTATCATCT-TTGTGTCTTTTAAGGTTATCAGGATACTTTCACGTCGAAGGTATACTTAGA
* * *
145476 AGCATTTTGGTAATTTCCCTAGAACCGAGACTTAAGTAATCACTAGGTCACTTTTATACTGAAGG
65 AGCATTTTGGTAATTTCCCTAGAACCGAGACTTAAGTAATCACCAGGTCACTTTTATGCCGAAGG
*
145541 TATGCATTTATGATAGGTTTGTCCTT
130 TATGCATTTAGGATAGGTTTGTCCTT
* * * * *
145567 TTACTTATCATCTTTATGTCTTTTAAGGTTATCAAGATATTTTCATGTCGAAGGTAT-GTCTAGA
1 TTACTTATCATCTTTGTGTCTTTTAAGGTTATCAGGATACTTTCACGTCGAAGGTATACT-TAGA
* * * * * * * * *
145631 GGTATTTTGGTAATTTTCCCAAAAACCGA-AGCTTAGGTAGTCACCAGCTCACTTTTACGCCAAA
65 AGCATTTTGGTAA-TTTCCCTAGAACCGAGA-CTTAAGTAATCACCAGGTCACTTTTATGCCGAA
* *
145695 GGTATACATTTAGGATAGGTTTGTCTTT
128 GGTATGCATTTAGGATAGGTTTGTCCTT
* * * * * * *
145723 TTA-TGATC-CCTTTGTGTCCTTT-AGGGTAACGGGATACTTTCATGTCGAAGGTATAC
1 TTACTTATCATCTTTGTGTCTTTTAAGGTTATCAGGATACTTTCACGTCGAAGGTATAC
145779 CCAATGGTAT
Statistics
Matches: 304, Mismatches: 53, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
153 27 0.09
154 12 0.04
155 125 0.41
156 138 0.45
157 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (155 bp):
TTACTTATCATCTTTGTGTCTTTTAAGGTTATCAGGATACTTTCACGTCGAAGGTATACTTAGAA
GCATTTTGGTAATTTCCCTAGAACCGAGACTTAAGTAATCACCAGGTCACTTTTATGCCGAAGGT
ATGCATTTAGGATAGGTTTGTCCTT
Found at i:145815 original size:153 final size:152
Alignment explanation
Indices: 145290--146056 Score: 623
Period size: 153 Copynumber: 5.0 Consensus size: 152
145280 AAGGTTACTA
** * *
145290 GGATACTTTCACGTTAAAGGTATACCCAAGAGCATTTTAGTAATCTTCCTTAG-ACTC-AAGTCC
1 GGATACTTTCACGTCGAAGGTATACCCAAG-GCATTTTAGTAATTTTCCTTAGAAC-CGAAG-CT
* * * * *
145353 TAGGATA-TTACCAGGTCGCTTTTATGCCGAAGGTATGCATTTGGGATAGGTTTATCCTTTTACT
63 TAGG-TAGTCACCAGGTCACTTTTATGCCAAAGGTATACATTTAGGATAGGTTTATCCTTTTA-T
* * * *
145417 TATCATTCTTGTGTCTTTTAGGGTTATCG
126 GATCCTT-TTGTGTCCTTTAGGG-TAACG
* ** * * *
145446 GGATACTTTCACGTTGAAGGTATACTTAGAAGCATTTTGGTAA-TTTCCCTAGAACCG-AGACTT
1 GGATACTTTCACGTCGAAGGTATACCCA-AGGCATTTTAGTAATTTTCCTTAGAACCGAAG-CTT
* * * * ** * * * *
145509 AAGTAATCACTAGGTCACTTTTATACTGAAGGTATGCATTTATGATAGGTTTGTCCTTTTACTTA
64 AGGTAGTCACCAGGTCACTTTTATGCCAAAGGTATACATTTAGGATAGGTTTATCCTTTTA-TGA
* * * * * *
145574 TCATCTTTATGTCTTTTAAGGTTATCA
128 TCCT-TTTGTGTCCTTT-AGGGTAACG
* * * ** * * * ** *
145601 AGATATTTTCATGTCGAAGGTATGTCTAGAGGTATTTTGGTAATTTTCCCAAAAACCGAAGCTTA
1 GGATACTTTCACGTCGAAGGTATACCCA-AGGCATTTTAGTAATTTTCCTTAGAACCGAAGCTTA
* * * *
145666 GGTAGTCACCAGCTCACTTTTACGCCAAAGGTATACATTTAGGATAGGTTTGTCTTTTTATGATC
65 GGTAGTCACCAGGTCACTTTTATGCCAAAGGTATACATTTAGGATAGGTTTATCCTTTTATGATC
*
145731 CCTTTGTGTCCTTTAGGGTAACG
130 CTTTTGTGTCCTTTAGGGTAACG
* * * * *
145754 GGATACTTTCATGTCGAAGGTATACCCAATGGTATTTTAGTAATTTTTCTTAGAATCGAAGCCTA
1 GGATACTTTCACGTCGAAGGTATACCCAA-GGCATTTTAGTAATTTTCCTTAGAACCGAAGCTTA
* * * * *
145819 GGTAGTCACC-GAGCCCCTTTTATGCCAAAGGTATACATTTATGATAGGTTCAT-CTTTTACGAT
65 GGTAGTCACCAG-GTCACTTTTATGCCAAAGGTATACATTTAGGATAGGTTTATCCTTTTATGAT
* *
145882 CCTTTTGTGTCATTTAGAGTAATCG
129 CCTTTTGTGTCCTTTAGGGTAA-CG
* * * ** * *
145907 AGATACTTTCACGTCGAATGTATACACCAAGAGCATTTTAGTAATTTT-TTTAGAACTAAATCTG
1 GGATACTTTCACGTCGAAGGTATAC-CCAAG-GCATTTTAGTAATTTTCCTTAGAACCGAAGCTT
** * * *
145971 AGGTAGTCACTTGGTCACTTTTATGCCAAAGGTATACATTTTGGATAGGTTCATCTTTTTATGAT
64 AGGTAGTCACCAGGTCACTTTTATGCCAAAGGTATACATTTAGGATAGGTTTATCCTTTTATGAT
* *
146036 CTTTTTGTGTCCTTTAAGGTA
129 CCTTTTGTGTCCTTTAGGGTA
146057 GACAAGATTC
Statistics
Matches: 499, Mismatches: 97, Indels: 32
0.79 0.15 0.05
Matches are distributed among these distances:
152 29 0.06
153 182 0.36
154 57 0.11
155 121 0.24
156 107 0.21
157 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (152 bp):
GGATACTTTCACGTCGAAGGTATACCCAAGGCATTTTAGTAATTTTCCTTAGAACCGAAGCTTAG
GTAGTCACCAGGTCACTTTTATGCCAAAGGTATACATTTAGGATAGGTTTATCCTTTTATGATCC
TTTTGTGTCCTTTAGGGTAACG
Found at i:148059 original size:3 final size:3
Alignment explanation
Indices: 148051--148087 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
148041 AAAGAGCTAC
148051 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
148088 AGTCAATCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:151260 original size:31 final size:31
Alignment explanation
Indices: 151219--151284 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
151209 TTTTATATTA
* *
151219 TTATTATTTAATTTATAAAAGATTTAATTTT
1 TTATTATTTAATTTATAAAAAAATTAATTTT
* *
151250 TTATTTTTTAATTTATAAAAAAATTATTTTT
1 TTATTATTTAATTTATAAAAAAATTAATTTT
151281 TTAT
1 TTAT
151285 ATTACTTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
TTATTATTTAATTTATAAAAAAATTAATTTT
Found at i:152187 original size:14 final size:15
Alignment explanation
Indices: 152160--152206 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
152150 CATTTAATTT
152160 AATAATATTATTATA
1 AATAATATTATTATA
152175 AATAATA-TATTATA
1 AATAATATTATTATA
* *
152189 TATAATTTTAATTATA
1 AATAATATT-ATTATA
152205 AA
1 AA
152207 ATATATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.44
15 8 0.30
16 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAATATTATTATA
Found at i:152192 original size:18 final size:18
Alignment explanation
Indices: 152159--152193 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
152149 CCATTTAATT
152159 TAATAATATTATTATAAA
1 TAATAATATTATTATAAA
152177 TAAT-ATATTATATATAA
1 TAATAATATTAT-TATAA
152194 TTTTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATATTATTATAAA
Found at i:152884 original size:7 final size:7
Alignment explanation
Indices: 152874--152924 Score: 54
Period size: 6 Copynumber: 7.4 Consensus size: 7
152864 TAATTTTTAA
152874 TAATTTT
1 TAATTTT
152881 TAATTTT
1 TAATTTT
152888 TAA-TTT
1 TAATTTT
152894 TAATATTT
1 TAAT-TTT
152902 ATAATTTT
1 -TAATTTT
*
152910 TTA-TTT
1 TAATTTT
152916 T-ATTTT
1 TAATTTT
152922 TAA
1 TAA
152925 ATTATGATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
5 1 0.03
6 14 0.37
7 13 0.34
8 6 0.16
9 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TAATTTT
Found at i:152906 original size:22 final size:23
Alignment explanation
Indices: 152868--152917 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
152858 GAAATATAAT
*
152868 TTTTAATAATTTTTAATTTTTAA
1 TTTTAATAATTTATAATTTTTAA
*
152891 TTTTAAT-ATTTATAATTTTTTA
1 TTTTAATAATTTATAATTTTTAA
152913 TTTTA
1 TTTTA
152918 TTTTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTAATAATTTATAATTTTTAA
Found at i:152915 original size:29 final size:29
Alignment explanation
Indices: 152864--152924 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
152854 TCTTGAAATA
*
152864 TAATTTTTAATAATTTTTAATTTTTAATTT
1 TAATATTTAATAATTTTTAA-TTTTAATTT
* *
152894 TAATATTT-ATAATTTTTTATTTTATTTT
1 TAATATTTAATAATTTTTAATTTTAATTT
152922 TAA
1 TAA
152925 ATTATGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.39
29 10 0.36
30 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
TAATATTTAATAATTTTTAATTTTAATTT
Found at i:153578 original size:3 final size:3
Alignment explanation
Indices: 153572--153604 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
153562 TAATAATAAT
153572 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
153605 TTAATGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:155411 original size:16 final size:15
Alignment explanation
Indices: 155390--155424 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
155380 TTCCAGCAGA
155390 AAAAAAAAAGACAAAG
1 AAAAAAAAA-ACAAAG
*
155406 AAAAAAAAAACAAAT
1 AAAAAAAAAACAAAG
155421 AAAA
1 AAAA
155425 TTAACCTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.86, C:0.06, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAACAAAG
Found at i:156105 original size:15 final size:15
Alignment explanation
Indices: 156085--156116 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
156075 ATATATATTA
156085 AAAATAATATAAAAT
1 AAAATAATATAAAAT
*
156100 AAAATATTATAAAAT
1 AAAATAATATAAAAT
156115 AA
1 AA
156117 CTTATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAATATAAAAT
Found at i:158599 original size:13 final size:13
Alignment explanation
Indices: 158581--158605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
158571 TAAGAGCCTA
158581 TAATGCATTAAAC
1 TAATGCATTAAAC
158594 TAATGCATTAAA
1 TAATGCATTAAA
158606 AAGTAAAGTG
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
TAATGCATTAAAC
Found at i:163327 original size:13 final size:13
Alignment explanation
Indices: 163309--163333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163299 CAAAGATCAG
163309 TGTATCGATACAA
1 TGTATCGATACAA
163322 TGTATCGATACA
1 TGTATCGATACA
163334 TGTGAGTAAT
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:163417 original size:13 final size:13
Alignment explanation
Indices: 163399--163423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163389 CAAAAAAATA
163399 TGTATCGATACAT
1 TGTATCGATACAT
163412 TGTATCGATACA
1 TGTATCGATACA
163424 ACATTTTATG
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:163419 original size:33 final size:33
Alignment explanation
Indices: 163377--163443 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
163367 AGTAGCTTAA
163377 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
163410 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
163443 A
1 A
163444 GATCGTTGAA
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:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:164413 original size:55 final size:55
Alignment explanation
Indices: 164315--164636 Score: 232
Period size: 55 Copynumber: 5.8 Consensus size: 55
164305 AAGTGATAAA
* * * * * *
164315 GATGCCAATATGTTGATTCATGGCCA-ATGATATTGGGCCTAAAGATGAGAAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGATGAGAAAAAG
** * *
164370 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT--G---AA-
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
* * *
164419 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AAA-GATGA-GA-AAAAG
* * * * * *
164479 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAA
1 -GAT---G-T--CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
** * * *
164541 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
*
164594 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
164637 GTGCCAATGT
Statistics
Matches: 209, Mismatches: 39, Indels: 41
0.72 0.13 0.14
Matches are distributed among these distances:
49 34 0.16
50 2 0.01
51 3 0.01
52 40 0.19
53 6 0.03
54 1 0.00
55 68 0.33
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
61 6 0.03
62 3 0.01
63 2 0.01
64 6 0.03
65 3 0.01
67 31 0.15
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (55 bp):
GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
Found at i:164441 original size:171 final size:171
Alignment explanation
Indices: 164242--164636 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
164232 TTTTAGAGAT
*
164242 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
* *
164307 GTGATAAAGATGCCAATATGTTGATTCATGGCCAATGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAAGA
164372 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
164413 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
164478 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAAGA
164543 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
164584 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
164637 GTGCCAATGT
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 166 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAAGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:164693 original size:49 final size:49
Alignment explanation
Indices: 164550--165371 Score: 1094
Period size: 49 Copynumber: 16.7 Consensus size: 49
164540 AGATGTCAAC
* * *
164550 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
164602 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
164645 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
164694 ATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * *
164737 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
164786 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
164835 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
164887 ATGCTGATTCAAGGCCAACTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
164936 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
164988 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
165037 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
165089 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
165138 GTGCTGAGTCAAGGCCA-ATGATATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
165190 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
165239 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
165288 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
165340 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTA
165372 GAAGGGTTGC
Statistics
Matches: 686, Mismatches: 55, Indels: 58
0.86 0.07 0.07
Matches are distributed among these distances:
43 76 0.11
45 1 0.00
47 2 0.00
48 2 0.00
49 351 0.51
50 5 0.01
51 4 0.01
52 244 0.36
53 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:164931 original size:101 final size:101
Alignment explanation
Indices: 164550--165371 Score: 1292
Period size: 101 Copynumber: 8.3 Consensus size: 101
164540 AGATGTCAAC
* * *
164550 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
164615 GCCAGCTATATTGGACTT----A--AAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
164645 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
164707 GCCAGCGATATTGGACTT----A--AAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
164737 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
164799 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
164835 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
164900 GCCAACTATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
164936 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
165001 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
165037 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
165102 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
165138 GTGCTGAGTCAAGGCCA-ATGATATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
1 GTGCTGAGTCAAGGCCAGCT-ACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
165202 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
65 GGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
165239 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGAGTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
165301 GCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
* * * *
165340 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTA
165372 GAAGGGTTGC
Statistics
Matches: 693, Mismatches: 20, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
92 130 0.19
94 1 0.00
95 36 0.05
96 1 0.00
98 93 0.13
99 2 0.00
100 2 0.00
101 427 0.62
102 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (101 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:165415 original size:33 final size:33
Alignment explanation
Indices: 165371--165468 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
165361 TATTGGGCTT
165371 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGGA
165405 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT-GGA
165439 AG-A-GTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGG
165469 GAAGGAAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
31 2 0.03
32 25 0.40
33 27 0.43
34 9 0.14
ACGTcount: A:0.17, C:0.18, G:0.37, T:0.28
Consensus pattern (33 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:165451 original size:32 final size:32
Alignment explanation
Indices: 165364--165472 Score: 161
Period size: 32 Copynumber: 3.4 Consensus size: 32
165354 CCAGCTATAT
*
165364 TGGGC-TTA-GAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
165394 TGGGCTTT-GGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAG-A-GTTGCCACCGACTTGTG
165427 TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
*
165459 TGGGCTTTGGGAAG
1 TGGGCTTTAGGAAG
165473 GAAAAAAGAT
Statistics
Matches: 72, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
30 5 0.07
31 6 0.08
32 30 0.42
33 26 0.36
34 5 0.07
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
Found at i:165546 original size:34 final size:33
Alignment explanation
Indices: 165482--166100 Score: 870
Period size: 34 Copynumber: 18.7 Consensus size: 33
165472 GGAAAAAAGA
* *
165482 TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAAAA--GAAGAAG-G
* *
165517 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
165550 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT-AAAA--GAAGAAG-G
*
165587 TGCCATGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
165619 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
165653 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
165685 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
165719 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
165751 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
165785 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
165817 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
165851 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
*
165883 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
*
165917 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAGAAGG
165951 TGCCACGGAGTTGTGGGCTTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGC-TTTAAAAGAAGAAGG
*
165984 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
166017 TGCCACGGAGTTGTGGGCTTT---A-AAG-A-G
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
* *
166044 TGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAA-GAAGAAGG
166077 TGCCACGGAGTTGTGGGCTTTAAA
1 TGCCACGGAGTTGTGGGCTTTAAA
166101 GAAAAAATGC
Statistics
Matches: 538, Mismatches: 21, Indels: 51
0.88 0.03 0.08
Matches are distributed among these distances:
26 2 0.00
27 18 0.03
28 1 0.00
29 3 0.01
30 1 0.00
31 2 0.00
32 141 0.26
33 124 0.23
34 189 0.35
35 20 0.04
36 16 0.03
37 21 0.04
ACGTcount: A:0.30, C:0.12, G:0.37, T:0.21
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGAAGAAGG
Found at i:165669 original size:66 final size:66
Alignment explanation
Indices: 165474--166097 Score: 921
Period size: 66 Copynumber: 9.5 Consensus size: 66
165464 TTTGGGAAGG
* * * *
165474 AAAA-AAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCT
165536 TTAA
63 TTAA
* * * * *
165540 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGC
1 AA-AAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA--GAAGAAG-GTGCCACGGAGTTGTGGGC
165605 TTTAA
62 TTTAA
165610 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
165675 A
66 A
165676 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
165741 A
66 A
165742 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
165807 A
66 A
165808 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
165873 A
66 A
165874 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
165939 GAA
65 -AA
* * *
165942 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-TAAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
166006 A
66 A
* *
166007 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT----A-AAG-A-GTGCCACGGAGTTGTGGAC-TT
1 AA-AAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
166064 AA
65 AA
*
166066 AAGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AA--AAGAAGGTGCCACGGAGTTGTGGGCTTT
166098 AAAGAAAAAA
Statistics
Matches: 534, Mismatches: 16, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
59 6 0.01
60 46 0.09
61 1 0.00
62 3 0.01
63 1 0.00
65 3 0.01
66 314 0.59
67 39 0.07
68 50 0.09
69 32 0.06
70 39 0.07
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (66 bp):
AAAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
A
Done.