Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 242 of 345
Found at i:71192996 original size:34 final size:34
Alignment explanation
Indices: 71192930--71192996 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
71192920 AAACGAGAAA
* **
71192930 AAAAAGAGGAAAAATAATAAAAGAGTGTGAAAAG
1 AAAAAGAGGAAAAAGAATAAAAGAGTAAGAAAAG
*
71192964 AAAAAGATGAAAAAGAA-AAAGAGAGTAAGAAAA
1 AAAAAGAGGAAAAAGAATAAA-AGAGTAAGAAAA
71192997 TAAGTGTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (34 bp):
AAAAAGAGGAAAAAGAATAAAAGAGTAAGAAAAG
Found at i:71193573 original size:26 final size:25
Alignment explanation
Indices: 71193529--71193581 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
71193519 ATATATGTTT
* * *
71193529 TTTAATATGTCTGGTTTAGGACATAA
1 TTTAATATGTCTAGATTAGAACA-AA
*
71193555 TTTAATGTGTCTAGATTAGAACAAA
1 TTTAATATGTCTAGATTAGAACAAA
71193580 TT
1 TT
71193582 AATTAGCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (25 bp):
TTTAATATGTCTAGATTAGAACAAA
Found at i:71195799 original size:30 final size:30
Alignment explanation
Indices: 71195765--71195861 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
71195755 AGCTCACTCC
71195765 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * *
71195795 TAGCTCAACTTCAGCTTAGGAGTTTAACCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
71195825 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
71195855 TAGCTCA
1 TAGCTCA
71195862 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:71197306 original size:14 final size:13
Alignment explanation
Indices: 71197287--71197320 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
71197277 GAATTCGACT
71197287 CAAAAAAATTTGTA
1 CAAAAAAA-TTGTA
71197301 CAAAAAAATTGTA
1 CAAAAAAATTGTA
71197314 -AAAAAAA
1 CAAAAAAA
71197321 GAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 5 0.25
14 8 0.40
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (13 bp):
CAAAAAAATTGTA
Found at i:71201149 original size:14 final size:15
Alignment explanation
Indices: 71201124--71201173 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
71201114 TGGAGAGATC
71201124 AAAAGAAAAAAGAGTG
1 AAAAG-AAAAAGAGTG
* *
71201140 -AAATAAAAAGAATG
1 AAAAGAAAAAGAGTG
71201154 AAAAGAAAAAGAGTGG
1 AAAAGAAAAAGAGT-G
71201170 AAAA
1 AAAA
71201174 AGTGAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 9 0.32
15 14 0.50
16 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (15 bp):
AAAAGAAAAAGAGTG
Found at i:71205265 original size:11 final size:13
Alignment explanation
Indices: 71205239--71205271 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
71205229 ATACAAGTTT
71205239 GAAAAAAAATTCC
1 GAAAAAAAATTCC
71205252 GAAAAAAAA-T-C
1 GAAAAAAAATTCC
71205263 GAAAAAAAA
1 GAAAAAAAA
71205272 AAGTGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 1 0.05
13 9 0.45
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (13 bp):
GAAAAAAAATTCC
Found at i:71210441 original size:10 final size:10
Alignment explanation
Indices: 71210426--71210452 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
71210416 TACTCCTTCA
71210426 AGCTCAAATC
1 AGCTCAAATC
71210436 AGCTCAAATC
1 AGCTCAAATC
71210446 AGCTCAA
1 AGCTCAA
71210453 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:71212081 original size:28 final size:28
Alignment explanation
Indices: 71212033--71212090 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
71212023 CCAGCTAACC
*
71212033 AAAGATGAAAAGAAAATGAGA-AAAGAA
1 AAAGATGAAAAGAAAAAGAGAGAAAGAA
*
71212060 AAAGATGAAAAAGAAAAAGAGAGTAAGAA
1 AAAGATG-AAAAGAAAAAGAGAGAAAGAA
71212089 AA
1 AA
71212091 TAAGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 7 0.26
28 13 0.48
29 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (28 bp):
AAAGATGAAAAGAAAAAGAGAGAAAGAA
Found at i:71212090 original size:14 final size:13
Alignment explanation
Indices: 71212033--71212081 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
71212023 CCAGCTAACC
71212033 AAAGATGAAAAGAA
1 AAAGA-GAAAAGAA
*
71212047 AATGAGAAAAGAA
1 AAAGAGAAAAGAA
71212060 AAAGATGAAAAAGAA
1 AAAGA-G-AAAAGAA
71212075 AAAGAGA
1 AAAGAGA
71212082 GTAAGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 13 0.42
14 6 0.19
15 12 0.39
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.06
Consensus pattern (13 bp):
AAAGAGAAAAGAA
Found at i:71212678 original size:24 final size:26
Alignment explanation
Indices: 71212623--71212675 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
71212613 ATATATGTTT
* *
71212623 TTTAATATGTCTAGTTTAGGACATAA
1 TTTAATATGTCTAGATTAGAACATAA
*
71212649 TTTAATGTGTCTAGATTAGAACA-AA
1 TTTAATATGTCTAGATTAGAACATAA
71212674 TT
1 TT
71212676 AATTAGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (26 bp):
TTTAATATGTCTAGATTAGAACATAA
Found at i:71216117 original size:19 final size:20
Alignment explanation
Indices: 71216085--71216124 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
71216075 GAATGAAATC
71216085 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
71216105 GAGAGAA-AAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
71216124 G
1 G
71216125 GAAAGTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:71220356 original size:20 final size:21
Alignment explanation
Indices: 71220333--71220383 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
71220323 TTAGCTCCCA
*
71220333 TCAGCTCAATTGAGCTCG-AT
1 TCAGCTCAATTGAGCTAGAAT
**
71220353 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCAATTGAGCTAGAAT
*
71220374 TTAGCTCAAT
1 TCAGCTCAAT
71220384 CCAGCTCATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (21 bp):
TCAGCTCAATTGAGCTAGAAT
Found at i:71221789 original size:30 final size:30
Alignment explanation
Indices: 71221767--71221851 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
71221757 GCTCATATTC
71221767 AGCTCACGAGCTAAACCTTAGCTCAACTTT
1 AGCTCACGAGCTAAACCTTAGCTCAACTTT
* * * * * *
71221797 AGCTTAGGAGTTTAATCTCAGCTCAACTTT
1 AGCTCACGAGCTAAACCTTAGCTCAACTTT
* *
71221827 AGCTCACAAGCTAAAGCTTAGCTCA
1 AGCTCACGAGCTAAACCTTAGCTCA
71221852 TTTTAGTTTA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (30 bp):
AGCTCACGAGCTAAACCTTAGCTCAACTTT
Found at i:71223173 original size:30 final size:30
Alignment explanation
Indices: 71223139--71223235 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
71223129 AGCTCACTCC
71223139 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
71223169 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
71223199 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
71223229 TAGCTCA
1 TAGCTCA
71223236 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:71225456 original size:51 final size:50
Alignment explanation
Indices: 71225388--71225573 Score: 223
Period size: 50 Copynumber: 3.7 Consensus size: 50
71225378 TGTGAGGTTG
*
71225388 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-AAACTGTGGTCA
*** *** *
71225439 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTGAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAACTGTGGTCA
* * * * *
71225489 CGTGTGTAGTACTAAGTGCGGGCTACTACGTGTA-CC-AGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAACTG-TGGTCA
71225538 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
71225574 AGATAGCTTT
Statistics
Matches: 112, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.03
49 35 0.31
50 39 0.35
51 35 0.31
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAACTGTGGTCA
Found at i:71225471 original size:26 final size:26
Alignment explanation
Indices: 71225440--71225522 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
71225430 CTGTGATCAC
71225440 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * *
71225466 ATGTGTATTA-GATGGTG-AGG-TCAC-
1 ATGTGTAGTACTA-AGTGCAGGCT-ACT
* *
71225490 GTGTGTAGTACTAAGTGCGGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
*
71225516 ACGTGTA
1 ATGTGTA
71225523 CCAGACTGTT
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
24 12 0.29
25 11 0.27
26 18 0.44
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:71225802 original size:16 final size:19
Alignment explanation
Indices: 71225781--71225817 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
71225771 GAAATGGATT
71225781 AAGTGAA-TTT-GT-GTAA
1 AAGTGAACTTTAGTAGTAA
71225797 AAGTGAACTTTAGTAGTAA
1 AAGTGAACTTTAGTAGTAA
71225816 AA
1 AA
71225818 CAGTATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 2 0.11
19 6 0.33
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (19 bp):
AAGTGAACTTTAGTAGTAA
Found at i:71229800 original size:30 final size:30
Alignment explanation
Indices: 71229724--71229801 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
71229714 TTCAACTTAC
* *
71229724 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
** * * *
71229754 GAG-TTTAGCCTCAGCTCAACTTTAGCTCAT
1 GAGCTAAAG-CTTAGCTCAACTTCAGCTCAG
71229784 GAGCTAAAGCTTAGCTCA
1 GAGCTAAAGCTTAGCTCA
71229802 TTTTAGTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 31 0.86
31 3 0.08
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (30 bp):
GAGCTAAAGCTTAGCTCAACTTCAGCTCAG
Found at i:71232454 original size:30 final size:30
Alignment explanation
Indices: 71232420--71232504 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
71232410 TAAACTAAAA
* *
71232420 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * *
71232450 TGAGCTGAGATTAAACTCCTAAGCTAAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
71232480 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGATTTAGCTCGTGAGCT
71232505 GAATATGAGC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:71232514 original size:30 final size:30
Alignment explanation
Indices: 71232414--71232516 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 30
71232404 CCGAGTTAAA
*
71232414 CTAAA-ATGAGCTAAGCTTTAGCTCGTGAG
1 CTAAATATGAGCTAAGATTTAGCTCGTGAG
* * * * *
71232443 CTAAAGT-TGAGCTGAGATTAAACTCCTAAG
1 CTAAA-TATGAGCTAAGATTTAGCTCGTGAG
** *
71232473 CTAAAGCTGAGCTAAGGTTTAGCTCGTGAG
1 CTAAATATGAGCTAAGATTTAGCTCGTGAG
*
71232503 CTGAATATGAGCTA
1 CTAAATATGAGCTA
71232517 GGAGTGAGCT
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
29 5 0.09
30 50 0.91
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (30 bp):
CTAAATATGAGCTAAGATTTAGCTCGTGAG
Found at i:71234955 original size:10 final size:10
Alignment explanation
Indices: 71234923--71234967 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
71234913 AAATGAAATG
* *
71234923 AGCTGAAACG
1 AGCTAAAACA
71234933 AGCTAAAATCA
1 AGCTAAAA-CA
*
71234944 AGCTCAAACA
1 AGCTAAAACA
71234954 AGCTAAAACA
1 AGCTAAAACA
71234964 AGCT
1 AGCT
71234968 CAAGTGAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (10 bp):
AGCTAAAACA
Found at i:71234977 original size:20 final size:21
Alignment explanation
Indices: 71234923--71234970 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
71234913 AAATGAAATG
*
71234923 AGCTGAAACGAGCTAAAATCA
1 AGCTCAAACGAGCTAAAATCA
*
71234944 AGCTCAAACAAGCTAAAA-CA
1 AGCTCAAACGAGCTAAAATCA
71234964 AGCTCAA
1 AGCTCAA
71234971 GTGAGCTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (21 bp):
AGCTCAAACGAGCTAAAATCA
Found at i:71236523 original size:24 final size:23
Alignment explanation
Indices: 71236476--71236524 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
71236466 TCGGTATTGT
* *
71236476 ATTTGTAAAAAAAAATTGAAAAA
1 ATTTGAAAAAAAAAATTCAAAAA
71236499 ATTTGAAAAAGAAAAATTCATAAAA
1 ATTTGAAAAA-AAAAATTCA-AAAA
71236524 A
1 A
71236525 AAAGAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 8 0.36
25 5 0.23
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (23 bp):
ATTTGAAAAAAAAAATTCAAAAA
Found at i:71236600 original size:22 final size:22
Alignment explanation
Indices: 71236573--71236621 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
71236563 CGAAAATAGT
**
71236573 AAAAAAAATCTCAAAATTAAAAAC
1 AAAAAAAA--TCAAAACCAAAAAC
71236597 AAAAAAAATCAAAACCAAAAAC
1 AAAAAAAATCAAAACCAAAAAC
71236619 AAA
1 AAA
71236622 TGTTCAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
24 8 0.35
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (22 bp):
AAAAAAAATCAAAACCAAAAAC
Found at i:71237752 original size:24 final size:24
Alignment explanation
Indices: 71237722--71237777 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
71237712 TGTGAAAGAA
*
71237722 AAAAAGAAATAGAGAAAGAGAAG-G
1 AAAAAGAAAAAGAGAAAGAG-AGCG
**
71237746 AAAAAGAAAAAGAGATCGAGAGCG
1 AAAAAGAAAAAGAGAAAGAGAGCG
71237770 AAAAAGAA
1 AAAAAGAA
71237778 TGTGAGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.66, C:0.04, G:0.27, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAAAGAGAAAGAGAGCG
Found at i:71238524 original size:10 final size:10
Alignment explanation
Indices: 71238509--71238535 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
71238499 TACTCCTTCA
71238509 AGCTCAAATC
1 AGCTCAAATC
71238519 AGCTCAAATC
1 AGCTCAAATC
71238529 AGCTCAA
1 AGCTCAA
71238536 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:71242311 original size:16 final size:14
Alignment explanation
Indices: 71242292--71242325 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
71242282 AAAGTTGTAA
71242292 AAAAATAAAAGAAGAG
1 AAAAATAAAA-AA-AG
71242308 AAAAATAAAAAAAG
1 AAAAATAAAAAAAG
71242322 AAAA
1 AAAA
71242326 CAAAAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 2 0.11
16 10 0.56
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAAATAAAAAAAG
Found at i:71245353 original size:10 final size:10
Alignment explanation
Indices: 71245338--71245364 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
71245328 TACTCCTTCA
71245338 AGCTCAAATC
1 AGCTCAAATC
71245348 AGCTCAAATC
1 AGCTCAAATC
71245358 AGCTCAA
1 AGCTCAA
71245365 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:71249445 original size:14 final size:14
Alignment explanation
Indices: 71249426--71249456 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
71249416 TGGAATGTTG
71249426 AAGAAAGGTTAAGA
1 AAGAAAGGTTAAGA
71249440 AAGAAAGGTTAAGA
1 AAGAAAGGTTAAGA
71249454 AAG
1 AAG
71249457 GTTCAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (14 bp):
AAGAAAGGTTAAGA
Found at i:71253368 original size:46 final size:47
Alignment explanation
Indices: 71253216--71253428 Score: 211
Period size: 47 Copynumber: 4.6 Consensus size: 47
71253206 GTTATTGTTG
* **
71253216 GCTAGTGTAAGA-CATGTTTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGCATCGGCTACAAGATGAGA
* * ** *
71253262 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGA
1 GCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCTA-CAAGATGAGA
* * *
71253310 GCTAGTGTAAGA-CATGTTTGAGACATGCATAGGCTACAAGATGATA
1 GCTAGTGTAAGACCATGTTTGGGACATGCATCGGCTACAAGATGAGA
* * **
71253356 GTTAGTGTAAGACCATGTTTGGGACATGGCATCGACT-TGAGAT-ATGA
1 GCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCTACAAGATGA-GA
*
71253403 GCTAGTGTAAGACCATGTCTGGGACA
1 GCTAGTGTAAGACCATGTTTGGGACA
71253429 AGGCATTGGC
Statistics
Matches: 135, Mismatches: 25, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
46 35 0.26
47 70 0.52
48 30 0.22
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTTTGGGACATGCATCGGCTACAAGATGAGA
Found at i:71253379 original size:94 final size:93
Alignment explanation
Indices: 71253216--71253420 Score: 270
Period size: 94 Copynumber: 2.2 Consensus size: 93
71253206 GTTATTGTTG
* * **
71253216 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTTTGAGACATGCATAGGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
71253281 TGGGACATGGCATCGGTA-TTGAGACGA-GA
66 TGGGACATGGCATC-G-ACTTGAGA-GATGA
* * ** *
71253310 GCTAGTGTAAGACATGTTTGAGACATGCATAGGCTACAAGATGATAGTTAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTTTGAGACATGCATAGGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
*
71253375 TGGGACATGGCATCGACTTGAGATATGA
66 TGGGACATGGCATCGACTTGAGAGATGA
71253403 GCTAGTGTAAGACCATGT
1 GCTAGTGTAAGA-CATGT
71253421 CTGGGACAAG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
92 2 0.02
93 21 0.21
94 75 0.77
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTTTGAGACATGCATAGGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACTTGAGAGATGA
Found at i:71256306 original size:20 final size:20
Alignment explanation
Indices: 71256265--71256319 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
71256255 AGTTCCCATC
* **
71256265 AGCTCACTTGAGCTCGTTTT
1 AGCTCATTTGAGCTCGAATT
71256285 AGCTCATTTGAGCTCGAATT
1 AGCTCATTTGAGCTCGAATT
* *
71256305 AGCTCGTTTCAGCTC
1 AGCTCATTTGAGCTC
71256320 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
AGCTCATTTGAGCTCGAATT
Found at i:71256562 original size:13 final size:13
Alignment explanation
Indices: 71256544--71256568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71256534 AATAGTTGTG
71256544 TGTTATTTAATTA
1 TGTTATTTAATTA
71256557 TGTTATTTAATT
1 TGTTATTTAATT
71256569 TTGTAGGTTA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:71258747 original size:19 final size:20
Alignment explanation
Indices: 71258715--71258755 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
71258705 GAATGAAATC
71258715 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
71258735 GAGAGAA-AAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
71258754 GA
1 GA
71258756 AAATGAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:71261130 original size:13 final size:13
Alignment explanation
Indices: 71261112--71261136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71261102 AATAGTTGTG
71261112 TGTTATTTAATTA
1 TGTTATTTAATTA
71261125 TGTTATTTAATT
1 TGTTATTTAATT
71261137 TTGTAGGTTA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:71266264 original size:14 final size:14
Alignment explanation
Indices: 71266245--71266289 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
71266235 AACTCATCTT
*
71266245 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
71266259 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
71266272 AATTTAATTTAATG
1 AGTTTAATTTAATG
71266286 AGTT
1 AGTT
71266290 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:71267296 original size:29 final size:29
Alignment explanation
Indices: 71267263--71267322 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
71267253 ATAACCAAAC
*
71267263 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
71267292 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
71267321 CT
1 CT
71267323 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:71267315 original size:15 final size:15
Alignment explanation
Indices: 71267269--71267316 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
71267259 AAACCTACAA
*
71267269 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
71267284 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
71267298 AAACTTCATATCCAT
1 AAACTTCATATCCAT
71267313 AAAC
1 AAAC
71267317 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:71273043 original size:71 final size:65
Alignment explanation
Indices: 71272924--71273114 Score: 232
Period size: 65 Copynumber: 2.9 Consensus size: 65
71272914 CACTTAGTAC
* *
71272924 CACTCATGCGACCTAGC--CGATTTA--TCT--CGTAGCTCTCTTGTCTACATGGTGCCCTTCAC
1 CACTCATGCGACCTAGCTAC-ATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-G--ATACAC
71272983 TTGGAAT
62 ---GAAT
*
71272990 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACACGTAT
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACACGAAT
* *
71273055 CACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACA
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACA
71273115 TCCCGTATCA
Statistics
Matches: 114, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
65 61 0.54
66 17 0.15
67 5 0.04
68 5 0.04
69 3 0.03
70 1 0.01
71 22 0.19
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.32
Consensus pattern (65 bp):
CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACACGAAT
Found at i:71273072 original size:65 final size:66
Alignment explanation
Indices: 71272988--71273142 Score: 258
Period size: 65 Copynumber: 2.3 Consensus size: 66
71272978 TTCACTTGGA
* *
71272988 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACA-CG
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACACCG
71273052 T
66 T
71273053 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACA--C
71273118 CGT
64 CGT
*
71273121 ATCACACATGTGACTTAGCTAC
1 ATCACACATGTGACCTAGCTAC
71273143 TATATAGTAT
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
65 60 0.71
68 24 0.29
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.32
Consensus pattern (66 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACACCG
T
Found at i:71273175 original size:68 final size:64
Alignment explanation
Indices: 71272988--71273168 Score: 213
Period size: 65 Copynumber: 2.7 Consensus size: 64
71272978 TTCACTTGGA
* * * *
71272988 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACACGT
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACACGT
* *
71273053 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACA---
71273118 CGT
62 CGT
*
71273121 ATCACACATGTGACTTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATATA-TATCTACGTAGCTC-TCTTGT
71273169 ACACATGATG
Statistics
Matches: 105, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
65 60 0.57
67 1 0.01
68 36 0.34
69 4 0.04
70 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.34
Consensus pattern (64 bp):
ATCACACATGTGACCTAGCTACATATATATCTACGTAGCTCTCTTGTCTACATGGGATACACGT
Found at i:71275142 original size:27 final size:26
Alignment explanation
Indices: 71275105--71275156 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
71275095 CCAAAACTAA
71275105 TAAATGACTATTATGCCCTTATGAGG
1 TAAATGACTATTATGCCCTTATGAGG
71275131 TAAAGTGACTATTATGCCCTTATGAG
1 TAAA-TGACTATTATGCCCTTATGAG
71275157 ATGTATGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (26 bp):
TAAATGACTATTATGCCCTTATGAGG
Found at i:71275430 original size:18 final size:17
Alignment explanation
Indices: 71275407--71275443 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
71275397 GATTGCAAAT
*
71275407 CTGCACTGTTTACTGTTA
1 CTGCACTGTGTA-TGTTA
71275425 CTGCACTGTGTATGTTA
1 CTGCACTGTGTATGTTA
71275442 CT
1 CT
71275444 ACAATGGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (17 bp):
CTGCACTGTGTATGTTA
Found at i:71280097 original size:30 final size:31
Alignment explanation
Indices: 71280032--71280099 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 31
71280022 TTAAACTAAA
71280032 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* *
71280063 -TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
71280092 ATGAGCTA
1 ATGAGCTA
71280100 GGAATGAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (31 bp):
ATGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:71280110 original size:30 final size:30
Alignment explanation
Indices: 71280046--71280111 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
71280036 GCTAAGCTTT
* *
71280046 AGCTCGTGAGCTAAAGTTGAGCTAAGGTTT
1 AGCTCGTGAGCTAAAGTTGAGCTAAGGATG
*
71280076 AGCTCGTGAGCTGAA-TATGAGCT-AGGAATG
1 AGCTCGTGAGCTAAAGT-TGAGCTAAGG-ATG
71280106 AGCTCG
1 AGCTCG
71280112 GTTTAGCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (30 bp):
AGCTCGTGAGCTAAAGTTGAGCTAAGGATG
Found at i:71281415 original size:13 final size:13
Alignment explanation
Indices: 71281397--71281438 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
71281387 AGGGTCTTAT
*
71281397 TCGTAAACACATA
1 TCGTAATCACATA
71281410 TCGTAATCACATA
1 TCGTAATCACATA
71281423 TCGTAATCACATA
1 TCGTAATCACATA
71281436 TCG
1 TCG
71281439 ATGCCATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (13 bp):
TCGTAATCACATA
Found at i:71289906 original size:10 final size:10
Alignment explanation
Indices: 71289891--71289929 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
71289881 ATCACTCTTT
71289891 TTTTTTTTGA
1 TTTTTTTTGA
71289901 TTTTTTTTCGA
1 TTTTTTTT-GA
*
71289912 TTTTTTTTTA
1 TTTTTTTTGA
71289922 TTTTTTTT
1 TTTTTTTT
71289930 AACTTGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.85
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:71289906 original size:11 final size:11
Alignment explanation
Indices: 71289890--71289929 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
71289880 AATCACTCTT
71289890 TTTTTTTTTGA
1 TTTTTTTTTGA
*
71289901 TTTTTTTTCGA
1 TTTTTTTTTGA
71289912 TTTTTTTTT-A
1 TTTTTTTTTGA
71289922 TTTTTTTT
1 TTTTTTTT
71289930 AACTTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.07, C:0.03, G:0.05, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:71290337 original size:14 final size:14
Alignment explanation
Indices: 71290290--71290337 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
71290280 GTACGAATGG
*
71290290 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
71290304 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
71290318 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
71290332 ATTGGT
1 AATGGT
71290338 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:71299451 original size:30 final size:30
Alignment explanation
Indices: 71299417--71299499 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
71299407 TAAACTAAAA
71299417 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
71299447 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
71299477 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGCTTTAGCTCGTGAG
71299500 TTGAGAGTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 34 0.87
31 3 0.08
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:71301876 original size:30 final size:30
Alignment explanation
Indices: 71301745--71301887 Score: 150
Period size: 30 Copynumber: 4.7 Consensus size: 30
71301735 CTTTTGTTTC
* *
71301745 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
71301776 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* * *
71301805 ATTTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
71301836 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
71301865 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
71301888 GCTTTTCAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
29 12 0.13
30 68 0.72
31 15 0.16
ACGTcount: A:0.13, C:0.23, G:0.01, T:0.62
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:71301887 original size:18 final size:18
Alignment explanation
Indices: 71301838--71301893 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
71301828 CACTCTCAAA
* *
71301838 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
71301855 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
71301873 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
71301892 TT
1 TT
71301894 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:71301894 original size:12 final size:12
Alignment explanation
Indices: 71301803--71301887 Score: 55
Period size: 12 Copynumber: 7.1 Consensus size: 12
71301793 TTTTTCAATC
71301803 TCATTTTCTTTT
1 TCATTTTCTTTT
*
71301815 TCATCTTCTTTT
1 TCATTTTCTTTT
* * **
71301827 TCACTCTCAAATT
1 TCATTTTC-TTTT
* *
71301840 TC-TTTTCGTTC
1 TCATTTTCTTTT
* ** *
71301851 TCTTTTTCAATC
1 TCATTTTCTTTT
71301863 TCATTTTCTTTT
1 TCATTTTCTTTT
71301875 TCATTTTCTTTT
1 TCATTTTCTTTT
71301887 T
1 T
71301888 GCTTTTCAAA
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
11 3 0.06
12 47 0.87
13 4 0.07
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:71301897 original size:60 final size:60
Alignment explanation
Indices: 71301747--71301887 Score: 273
Period size: 60 Copynumber: 2.4 Consensus size: 60
71301737 TTTGTTTCAA
71301747 TTTCTTTTTCATCTTCTTTTTCACTCTCAAATTTCTTTTCGTTCTCTTTTTCAATCTCAT
1 TTTCTTTTTCATCTTCTTTTTCACTCTCAAATTTCTTTTCGTTCTCTTTTTCAATCTCAT
71301807 TTTCTTTTTCATCTTCTTTTTCACTCTCAAATTTCTTTTCGTTCTCTTTTTCAATCTCAT
1 TTTCTTTTTCATCTTCTTTTTCACTCTCAAATTTCTTTTCGTTCTCTTTTTCAATCTCAT
*
71301867 TTTCTTTTTCATTTTCTTTTT
1 TTTCTTTTTCATCTTCTTTTT
71301888 GCTTTTCAAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 80 1.00
ACGTcount: A:0.12, C:0.23, G:0.01, T:0.63
Consensus pattern (60 bp):
TTTCTTTTTCATCTTCTTTTTCACTCTCAAATTTCTTTTCGTTCTCTTTTTCAATCTCAT
Found at i:71301966 original size:5 final size:5
Alignment explanation
Indices: 71301956--71302012 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
71301946 CTCTTGCCTC
*
71301956 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
71302003 TCTTT TCTTT
1 TCTTT TCTTT
71302013 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:71301996 original size:15 final size:14
Alignment explanation
Indices: 71301956--71302012 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
71301946 CTCTTGCCTC
*
71301956 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
71301971 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
71301986 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
71302003 TCTTTTCTTT
1 TCTTTTCTTT
71302013 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:71302022 original size:21 final size:20
Alignment explanation
Indices: 71301954--71302023 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
71301944 GCCTCTTGCC
71301954 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
71301977 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
71301997 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
71302017 TCTCTTT
1 TCTCTTT
71302024 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:71302962 original size:17 final size:17
Alignment explanation
Indices: 71302929--71302967 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
71302919 CATTAAACAC
*
71302929 TTTTTTTTCAGATTTTT
1 TTTTTTTTCAGAATTTT
71302946 TTTTCTTTTC-GAATTTT
1 TTTT-TTTTCAGAATTTT
71302963 TTTTT
1 TTTTT
71302968 GACTTGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.70
18 5 0.25
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCAGAATTTT
Found at i:71303607 original size:14 final size:14
Alignment explanation
Indices: 71303588--71303632 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
71303578 AACTCATCTT
*
71303588 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
71303602 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
71303615 AATTTAATTTAATG
1 AGTTTAATTTAATG
71303629 AGTT
1 AGTT
71303633 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:71304894 original size:12 final size:12
Alignment explanation
Indices: 71304877--71304919 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
71304867 AGTAAGTTTC
71304877 AAAAAAATCGAA
1 AAAAAAATCGAA
71304889 AAAAAAATTC-AA
1 AAAAAAA-TCGAA
* *
71304901 AAAAAATTTGAA
1 AAAAAAATCGAA
71304913 AAAAAAA
1 AAAAAAA
71304920 ACAAAATCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.88
13 2 0.08
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAAAAATCGAA
Found at i:71310523 original size:30 final size:30
Alignment explanation
Indices: 71310453--71310534 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
71310443 TTTTGTTTCA
* *
71310453 ATTTCTTTTTCATCTTCTTTTTCACTCTCAG
1 ATTTCTTTTTCTTC-TCTTTTTCAATCTCAG
71310484 ATTTC-TTTTCGTTCTCTTTTTCAATCTCA-
1 ATTTCTTTTTC-TTCTCTTTTTCAATCTCAG
* *
71310513 TTTTCTTTTTCATTTTCTTTTT
1 ATTTCTTTTTC-TTCTCTTTTT
71310535 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.09
30 33 0.75
31 7 0.16
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (30 bp):
ATTTCTTTTTCTTCTCTTTTTCAATCTCAG
Found at i:71310534 original size:18 final size:18
Alignment explanation
Indices: 71310485--71310540 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
71310475 CACTCTCAGA
* *
71310485 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
71310502 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
71310520 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
71310539 TT
1 TT
71310541 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:71310541 original size:12 final size:12
Alignment explanation
Indices: 71310510--71310534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71310500 TTTTTCAATC
71310510 TCATTTTCTTTT
1 TCATTTTCTTTT
71310522 TCATTTTCTTTT
1 TCATTTTCTTTT
71310534 T
1 T
71310535 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:71310642 original size:6 final size:5
Alignment explanation
Indices: 71310602--71310674 Score: 60
Period size: 5 Copynumber: 14.0 Consensus size: 5
71310592 CTCTTGCCTC
* *
71310602 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTT GGCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-CTTT -TCTTT
*
71310649 TCTTT TCTTT TCTTT GCTTT CTCTTT
1 TCTTT TCTTT TCTTT TCTTT -TCTTT
71310675 ACAAGAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
4 4 0.07
5 34 0.62
6 16 0.29
7 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.05, T:0.73
Consensus pattern (5 bp):
TCTTT
Found at i:71310648 original size:21 final size:19
Alignment explanation
Indices: 71310624--71310673 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
71310614 ATTTCATTTT
71310624 CTTTTTCTTCTTTTGCTTTGG
1 CTTTTTCTTCTTTT-CTTT-G
*
71310645 CTTTTCTTTTCTTTTCTTTG
1 CTTTT-TCTTCTTTTCTTTG
*
71310665 CTTTCTCTT
1 CTTTTTCTT
71310674 TACAAGAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 5 0.20
21 9 0.36
22 8 0.32
ACGTcount: A:0.00, C:0.22, G:0.08, T:0.70
Consensus pattern (19 bp):
CTTTTTCTTCTTTTCTTTG
Found at i:71310674 original size:21 final size:22
Alignment explanation
Indices: 71310631--71310674 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
71310621 TTTCTTTTTC
71310631 TTCTTTTGCTTTGGCTTTTCTT
1 TTCTTTTGCTTTGGCTTTTCTT
71310653 TTCTTTT-CTTT-GCTTTCTCTT
1 TTCTTTTGCTTTGGCTTT-TCTT
71310674 T
1 T
71310675 ACAAGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.00, C:0.20, G:0.09, T:0.70
Consensus pattern (22 bp):
TTCTTTTGCTTTGGCTTTTCTT
Found at i:71310674 original size:26 final size:26
Alignment explanation
Indices: 71310620--71310674 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
71310610 TTTTATTTCA
*
71310620 TTTTCTTTTTCTTCTTTTGCTTTGGC
1 TTTTCTTTTTCTTCTTTTGCTTTCGC
* *
71310646 TTTTC-TTTTCTTTTCTTTGCTTTCTC
1 TTTTCTTTTTCTTCT-TTTGCTTTCGC
71310672 TTT
1 TTT
71310675 ACAAGAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (26 bp):
TTTTCTTTTTCTTCTTTTGCTTTCGC
Found at i:71316228 original size:25 final size:25
Alignment explanation
Indices: 71316191--71316242 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
71316181 AAGGAATTCG
71316191 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
71316216 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
71316241 CA
1 CA
71316243 TTATTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:71316480 original size:40 final size:39
Alignment explanation
Indices: 71316418--71316682 Score: 361
Period size: 40 Copynumber: 6.7 Consensus size: 39
71316408 CCAGCATGAT
** * *
71316418 TGCTCTTCGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
*
71316457 TACTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
* * *
71316497 TGCCCTTCGGGGCTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
71316537 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
* * * *
71316577 TGCCCTTCGGGCTTAGCCTGGATACATCACTAGCACAAA
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
*
71316616 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
*
71316656 TGCTCTTCGGACTTAACCCGGAT-CATC
1 TGCTCTTCGGACTTAGCCCGGATACATC
71316683 GTCGAGACCT
Statistics
Matches: 201, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 4 0.02
39 57 0.28
40 138 0.69
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:71316637 original size:79 final size:78
Alignment explanation
Indices: 71316422--71316670 Score: 390
Period size: 79 Copynumber: 3.1 Consensus size: 78
71316412 CATGATTGCT
* *
71316422 CTTCGGGTTTAGCACGGATATATCACTAGCACGAATACTCTTCGGAACTTAGCCCGGATACATCA
1 CTTCGGGCTTAGC-CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCA
71316487 CTAGCACGAATGCC
65 CTAGCACGAATGCC
71316501 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
1 CTTC-GGGCTTAG-CCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
71316566 ACTAGCACGAATGCC
64 ACTAGCACGAATGCC
* * **
71316581 CTTCGGGCTTAGCCTGGATACATCACTAGCACAAATGCTCTTCGGGGCTTAGCCCGGATACATCA
1 CTTCGGGCTTAGCC-GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCA
*
71316646 CTAGCACGAATGCT
65 CTAGCACGAATGCC
*
71316660 CTTCGGACTTA
1 CTTCGGGCTTA
71316671 ACCCGGATCA
Statistics
Matches: 159, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
78 2 0.01
79 81 0.51
80 75 0.47
81 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (78 bp):
CTTCGGGCTTAGCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCAC
TAGCACGAATGCC
Found at i:71316805 original size:38 final size:38
Alignment explanation
Indices: 71316736--71316810 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
71316726 GAATTTTAAT
*
71316736 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
71316774 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
71316811 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:71319792 original size:14 final size:14
Alignment explanation
Indices: 71319773--71319807 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
71319763 ATACAGTTTG
71319773 AAAAAAAATTCCGA
1 AAAAAAAATTCCGA
*
71319787 AAAAAAAATTCTGA
1 AAAAAAAATTCCGA
71319801 AAAAAAA
1 AAAAAAA
71319808 GTGATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.14
Consensus pattern (14 bp):
AAAAAAAATTCCGA
Found at i:71327028 original size:27 final size:26
Alignment explanation
Indices: 71326998--71327056 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
71326988 AATACATAGT
*
71326998 TTTAATGTGTCTAGTTTA-GGACATCAA
1 TTTAATGTGTCTAGCTTAGGGACA--AA
71327025 TTTAATGTGTCTAGCTTAGGGACAAA
1 TTTAATGTGTCTAGCTTAGGGACAAA
71327051 TTTAAT
1 TTTAAT
71327057 AGTTGCTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 8 0.27
27 17 0.57
28 5 0.17
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (26 bp):
TTTAATGTGTCTAGCTTAGGGACAAA
Found at i:71329876 original size:55 final size:55
Alignment explanation
Indices: 71329792--71329903 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
71329782 TTGACGTCAA
71329792 CTTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
1 CTTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
*
71329847 CTTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTTAAATACAAGG
1 CTTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
71329902 CT
1 CT
71329904 GCCATACAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (55 bp):
CTTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
Found at i:71330960 original size:9 final size:9
Alignment explanation
Indices: 71330946--71330970 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71330936 TGATTTGTTG
71330946 ATTAGTTAA
1 ATTAGTTAA
71330955 ATTAGTTAA
1 ATTAGTTAA
71330964 ATTAGTT
1 ATTAGTT
71330971 TTAACAATTA
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (9 bp):
ATTAGTTAA
Found at i:71331254 original size:17 final size:18
Alignment explanation
Indices: 71331222--71331256 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
71331212 ATAATTTTTA
71331222 AATGTGTCTAAATTAATT
1 AATGTGTCTAAATTAATT
*
71331240 AATGTG-CTGAATTAATT
1 AATGTGTCTAAATTAATT
71331257 TGTGTGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
AATGTGTCTAAATTAATT
Found at i:71331352 original size:24 final size:24
Alignment explanation
Indices: 71331323--71331384 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
71331313 ACAGCATGCC
71331323 TGGACAGATTTAATGAGCTGCTGG
1 TGGACAGATTTAATGAGCTGCTGG
* *
71331347 TTGACAAATTTAATGAGCTGCTGG
1 TGGACAGATTTAATGAGCTGCTGG
71331371 TGGAC-GAATTTAAT
1 TGGACAG-ATTTAAT
71331385 ATGTCCTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.32
Consensus pattern (24 bp):
TGGACAGATTTAATGAGCTGCTGG
Found at i:71332968 original size:14 final size:14
Alignment explanation
Indices: 71332921--71332968 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
71332911 GTACGAATGG
*
71332921 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
71332935 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
71332949 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
71332963 ATTGGT
1 AATGGT
71332969 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:71336721 original size:46 final size:46
Alignment explanation
Indices: 71336622--71336744 Score: 212
Period size: 46 Copynumber: 2.7 Consensus size: 46
71336612 GGTTGAGCAT
*
71336622 CGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
*
71336667 TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
*
71336713 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71336745 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
45 28 0.38
46 45 0.62
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
Found at i:71344221 original size:93 final size:92
Alignment explanation
Indices: 71344058--71344227 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
71344048 GGATGGTTGA
* * *
71344058 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGTT
71344123 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
71344150 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
71344215 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
71344228 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71344230 original size:46 final size:46
Alignment explanation
Indices: 71344062--71344232 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
71344052 GGTTGAGCAT
* * *
71344062 CGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
* * *
71344108 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--C
71344155 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
* *
71344201 CGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71344233 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.55
47 28 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
Found at i:71349711 original size:19 final size:19
Alignment explanation
Indices: 71349685--71349731 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
71349675 TAAATCACTC
71349685 TTTTTTTTTCG-ATTTTTT
1 TTTTTTTTTCGAATTTTTT
71349703 TTATTTTTTTCGAATTTTTT
1 TT-TTTTTTTCGAATTTTTT
71349723 TTTTTTTTT
1 TTTTTTTTT
71349732 TTAACTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.07
19 16 0.59
20 9 0.33
ACGTcount: A:0.09, C:0.04, G:0.04, T:0.83
Consensus pattern (19 bp):
TTTTTTTTTCGAATTTTTT
Found at i:71349711 original size:20 final size:20
Alignment explanation
Indices: 71349685--71349732 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
71349675 TAAATCACTC
71349685 TTTTTTTTTCG-ATTTTTTT
1 TTTTTTTTTCGAATTTTTTT
*
71349704 TATTTTTTTCGAATTTTTTT
1 TTTTTTTTTCGAATTTTTTT
71349724 TTTTTTTTT
1 TTTTTTTTT
71349733 TAACTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.08, C:0.04, G:0.04, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTCGAATTTTTTT
Found at i:71350140 original size:14 final size:14
Alignment explanation
Indices: 71350102--71350148 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
71350092 GTACGAATGG
*
71350102 AATGGTAGGAACGA
1 AATGGTAGGAACAA
71350116 AA-GGTAGGAACAA
1 AATGGTAGGAACAA
*
71350129 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
71350143 ATTGGT
1 AATGGT
71350149 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.45, C:0.06, G:0.30, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:71352047 original size:13 final size:13
Alignment explanation
Indices: 71352029--71352053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71352019 GGCTAACCTA
71352029 CATAATTAAATAG
1 CATAATTAAATAG
71352042 CATAATTAAATA
1 CATAATTAAATA
71352054 ACACACAACT
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
CATAATTAAATAG
Found at i:71353868 original size:19 final size:19
Alignment explanation
Indices: 71353844--71353883 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71353834 AGCTCCCATG
71353844 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
71353863 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
71353882 TA
1 TA
71353884 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:71355676 original size:18 final size:18
Alignment explanation
Indices: 71355655--71355704 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
71355645 AAACTCTTTT
71355655 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
71355673 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
71355691 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
71355705 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:71356394 original size:12 final size:12
Alignment explanation
Indices: 71356373--71356405 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
71356363 GGCACTCACA
*
71356373 CTCGTGTTTTCG
1 CTCGTTTTTTCG
71356385 CTCGTTTTTTCG
1 CTCGTTTTTTCG
71356397 CTCGTTTTT
1 CTCGTTTTT
71356406 GGCTTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.24, G:0.18, T:0.58
Consensus pattern (12 bp):
CTCGTTTTTTCG
Found at i:71357899 original size:13 final size:13
Alignment explanation
Indices: 71357881--71357909 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71357871 CGGCTAACCT
71357881 ACATAATTAAATA
1 ACATAATTAAATA
71357894 ACATAATTAAATA
1 ACATAATTAAATA
71357907 ACA
1 ACA
71357910 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:71365982 original size:30 final size:30
Alignment explanation
Indices: 71365896--71365993 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
71365886 TTAAACTAAA
* * *
71365896 ATGAGCTAAGCTTTAGCTCGAGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
71365926 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
71365956 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
71365986 ATGAGCTA
1 ATGAGCTA
71365994 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:71366830 original size:30 final size:30
Alignment explanation
Indices: 71366750--71366831 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
71366740 CACTTTCAAT
*
71366750 TCACGAGCTAAACCTTAGCTCAACTTCAGC
1 TCACGAGCTAAAGCTTAGCTCAACTTCAGC
* * ** * *
71366780 TTAGGAG-TTTAGCCTCAGCTCAACTTTAGC
1 TCACGAGCTAAAG-CTTAGCTCAACTTCAGC
71366810 TCACGAGCTAAAGCTTAGCTCA
1 TCACGAGCTAAAGCTTAGCTCA
71366832 TTTTAGTTTA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 33 0.87
31 3 0.08
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (30 bp):
TCACGAGCTAAAGCTTAGCTCAACTTCAGC
Found at i:71376954 original size:52 final size:51
Alignment explanation
Indices: 71376890--71377021 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
71376880 ATGAACAAAT
* * *
71376890 GAGTTACTTAATGCATAACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGA
* * * *
71376942 GAGTTACATAATGCATGTCATCATTT-ATGATGCAAACTTAACTTACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* *
71376992 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
71377022 CAAAACACAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 33 0.49
51 14 0.21
52 21 0.31
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:71378450 original size:16 final size:16
Alignment explanation
Indices: 71378431--71378477 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
71378421 TTGAACCAGG
*
71378431 CCGTGCATGAATCTTC
1 CCGTTCATGAATCTTC
71378447 CCGTTCATTGAA-CTTTC
1 CCGTTCA-TGAATC-TTC
*
71378464 CCGTTCATGCATCT
1 CCGTTCATGAATCT
71378478 CTTCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.17, C:0.32, G:0.15, T:0.36
Consensus pattern (16 bp):
CCGTTCATGAATCTTC
Found at i:71382218 original size:18 final size:17
Alignment explanation
Indices: 71382189--71382251 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
71382179 AAGAGGATGA
71382189 GAAAAAGAAAAATGAAATT
1 GAAAAAG-AAAA-GAAATT
*
71382208 GAAAAAGAAAAAGAATTT
1 GAAAAAG-AAAAGAAATT
**
71382226 GATCAAGAAAAGAAGATT
1 GAAAAAGAAAAGAA-ATT
71382244 GAAAAAGA
1 GAAAAAGA
71382252 GAGAGAGACT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 7 0.19
18 18 0.49
19 12 0.32
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.14
Consensus pattern (17 bp):
GAAAAAGAAAAGAAATT
Found at i:71383957 original size:30 final size:31
Alignment explanation
Indices: 71383923--71384019 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
71383913 AGCTCACTCC
*
71383923 TAGCTC-ACTTTCAACTCACGAGCTATACCT
1 TAGCTCAACTTTCAGCTCACGAGCTATACCT
* * *
71383953 TAGCTCAAC-TTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTATA-CCT
* * *
71383983 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTATACCT
71384013 TAGCTCA
1 TAGCTCA
71384020 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
29 3 0.06
30 43 0.83
31 6 0.12
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTATACCT
Found at i:71385648 original size:30 final size:29
Alignment explanation
Indices: 71385614--71385709 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
71385604 AGCTCACTCC
71385614 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAA-CT
* * * *
71385644 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAG-CTAAACT
* *
71385674 CAGCTCAACTTTAGCTCACGAGCTAAACT
1 TAGCTCAACTTCAGCTCACGAGCTAAACT
71385703 TAGCTCA
1 TAGCTCA
71385710 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
29 12 0.23
30 38 0.72
31 3 0.06
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACT
Found at i:71390019 original size:9 final size:10
Alignment explanation
Indices: 71390012--71390068 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
71390002 AGGAGAAAAC
71390012 AAAGAAAAGA
1 AAAGAAAAGA
71390022 AAAGAAAAAGTA
1 AAAG-AAAAG-A
*
71390034 AAAGAAGA-A
1 AAAGAAAAGA
71390043 AAAGAAAACGA
1 AAAGAAAA-GA
71390054 AATA-AAAAGA
1 AA-AGAAAAGA
71390064 AAAGA
1 AAAGA
71390069 GAGGAAGAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:71390036 original size:6 final size:5
Alignment explanation
Indices: 71390012--71390068 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
71390002 AGGAGAAAAC
*
71390012 AAAGA AAAGA AAAGAA AAAGTA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
71390059 AAAGA AAAGA
1 AAAGA AAAGA
71390069 GAGGAAGAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:71390043 original size:15 final size:14
Alignment explanation
Indices: 71390012--71390068 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
71390002 AGGAGAAAAC
71390012 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
71390028 AAAGTAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
71390043 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
71390059 AAAGAAAAGA
1 AAAGAAAAGA
71390069 GAGGAAGAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:71390146 original size:13 final size:12
Alignment explanation
Indices: 71390115--71390146 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
71390105 TTAAGAGAAC
*
71390115 TTGAAAAAGCCT
1 TTGAAAAAGCCA
71390127 TTGAAAAAGCCA
1 TTGAAAAAGCCA
71390139 TTGAAAAA
1 TTGAAAAA
71390147 CAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (12 bp):
TTGAAAAAGCCA
Found at i:71390170 original size:12 final size:12
Alignment explanation
Indices: 71390148--71390172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71390138 ATTGAAAAAC
71390148 AAAAAGAAAATG
1 AAAAAGAAAATG
71390160 AAAAAGAAAATG
1 AAAAAGAAAATG
71390172 A
1 A
71390173 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:71390179 original size:18 final size:18
Alignment explanation
Indices: 71390138--71390184 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
71390128 TGAAAAAGCC
*
71390138 ATTGAAAAACAAAAAGAA
1 ATTGAAAAAGAAAAAGAA
* * *
71390156 AATGAAAAAGAAAATGAG
1 ATTGAAAAAGAAAAAGAA
71390174 ATTGAAAAAGA
1 ATTGAAAAAGA
71390185 GAACGAAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.68, C:0.02, G:0.17, T:0.13
Consensus pattern (18 bp):
ATTGAAAAAGAAAAAGAA
Found at i:71390182 original size:30 final size:31
Alignment explanation
Indices: 71390148--71390228 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
71390138 ATTGAAAAAC
*
71390148 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
71390178 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
71390208 AAAAAGAAGATGAAAAA-AAAT
1 AAAAAGAAAATGAAAAAGAAAT
71390229 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.19
30 30 0.71
31 4 0.10
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:71392376 original size:30 final size:30
Alignment explanation
Indices: 71392342--71392438 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
71392332 AGCTCACTCC
71392342 TAGCTCATA-TTCAGCTCAAGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCAAGAGCTAAACCT
* * * * *
71392372 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCAAGAGCTAAACCT
* * * *
71392402 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCAAGAGCTAAACCT
71392432 TAGCTCA
1 TAGCTCA
71392439 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCAAGAGCTAAACCT
Found at i:71400299 original size:14 final size:14
Alignment explanation
Indices: 71400252--71400299 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
71400242 GTATGAATGG
*
71400252 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
71400266 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
71400280 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
71400294 ATTGGT
1 AATGGT
71400300 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:71407239 original size:14 final size:14
Alignment explanation
Indices: 71407192--71407239 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
71407182 GTACGAATGG
*
71407192 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
71407206 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
71407220 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
71407234 ATTGGT
1 AATGGT
71407240 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:71416110 original size:71 final size:71
Alignment explanation
Indices: 71416026--71416189 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
71416016 CGATTTGTCT
71416026 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
71416091 CTTTCA
66 CTTTCA
71416097 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
71416162 CTTTCA
66 CTTTCA
71416168 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
71416190 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:71416227 original size:71 final size:70
Alignment explanation
Indices: 71416026--71416223 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
71416016 CGATTTGTCT
* * * *
71416026 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
71416091 CTTTCA
65 CTTTCA
* * * *
71416097 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
71416162 CTTTCA
65 CTTTCA
* *
71416168 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
71416224 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:71418616 original size:18 final size:18
Alignment explanation
Indices: 71418597--71418631 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
71418587 AACAATAATA
*
71418597 AAATAAAGCA-AAGAAAT
1 AAATAAAACACAAGAAAT
71418614 AAATAAAACACAAGAAAT
1 AAATAAAACACAAGAAAT
71418632 CAAAGAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (18 bp):
AAATAAAACACAAGAAAT
Found at i:71420141 original size:29 final size:29
Alignment explanation
Indices: 71420088--71420163 Score: 125
Period size: 29 Copynumber: 2.5 Consensus size: 29
71420078 GTATCTCAAT
71420088 ATTCAAAAATTTAGTCAACCAAACAATCAAAA
1 ATTC-AAAATTTA-TC-ACCAAACAATCAAAA
71420120 ATTCAAAATTTATCACCAAACAATCAAAA
1 ATTCAAAATTTATCACCAAACAATCAAAA
71420149 ATTCAAAATTTATCA
1 ATTCAAAATTTATCA
71420164 TTCATACTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
29 30 0.68
30 2 0.05
31 8 0.18
32 4 0.09
ACGTcount: A:0.54, C:0.18, G:0.01, T:0.26
Consensus pattern (29 bp):
ATTCAAAATTTATCACCAAACAATCAAAA
Found at i:71424221 original size:27 final size:28
Alignment explanation
Indices: 71424165--71424234 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
71424155 AAATTTGTAC
*
71424165 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
71424193 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
71424220 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71424235 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:71424245 original size:27 final size:27
Alignment explanation
Indices: 71424165--71424246 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
71424155 AAATTTGTAC
* * * *
71424165 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
71424193 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
71424220 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
71424247 GTTTTTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 32 0.65
28 16 0.33
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:71435019 original size:25 final size:26
Alignment explanation
Indices: 71434972--71435031 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
71434962 TTTAATTAAA
* *
71434972 TAAAAATTATTAATGATTCAAT-AAAT
1 TAAAAATTA-TAATAATTAAATAAAAT
71434998 TGAAAAATTA-AATAATTAAATAAAAT
1 T-AAAAATTATAATAATTAAATAAAAT
71435024 TAAAAATT
1 TAAAAATT
71435032 GAAGAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 16 0.53
26 6 0.20
27 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (26 bp):
TAAAAATTATAATAATTAAATAAAAT
Found at i:71443173 original size:48 final size:48
Alignment explanation
Indices: 71443116--71443304 Score: 257
Period size: 48 Copynumber: 4.0 Consensus size: 48
71443106 ACATCAGTGA
* * *
71443116 GATATGTGATTCGGGTAAGACCATAGCTGGGCTATGGCATTGATATAT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
* *
71443164 GATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
*
71443212 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
71443261 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGT
71443303 GA
1 GA
71443305 AGATGTATAA
Statistics
Matches: 131, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 36 0.27
44 1 0.01
45 1 0.01
46 1 0.01
48 54 0.41
49 37 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
Found at i:71443271 original size:42 final size:42
Alignment explanation
Indices: 71443212--71443319 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
71443202 ATCGATATGT
*
71443212 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
71443254 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* *
71443296 -ATTATGTGAAGATGTATAAGACCA
1 GA-TATGTGAATATGTGTAAGACCA
71443320 GAGTTGAACT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 1 0.02
42 61 0.98
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:71443332 original size:42 final size:42
Alignment explanation
Indices: 71443212--71443336 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
71443202 ATCGATATGT
** * * **
71443212 GATATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAAGATGTATAAGACCAGAGCTGAACTATGGCATC
* * * **
71443254 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAAGATGTATAAGACCAGAGCTGAACTATGGCATC
*
71443296 -ATTATGTGAAGATGTATAAGACCAGAGTTGAACTATGGCAT
1 GA-TATGTGAAGATGTATAAGACCAGAGCTGAACTATGGCAT
71443337 TGAGAAAACA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGTGAAGATGTATAAGACCAGAGCTGAACTATGGCATC
Found at i:71448504 original size:27 final size:27
Alignment explanation
Indices: 71448466--71448701 Score: 375
Period size: 27 Copynumber: 8.7 Consensus size: 27
71448456 TGTACCTAAA
*
71448466 CCCTTATGTGATAAAATGACGATATTT
1 CCCTTATGTGATAAAATGACGATATTG
71448493 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
71448520 CCCTTATGTGATAAAATGATGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
71448547 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
71448574 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
71448601 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
* *
71448628 CCCTTATGTGATAAAATGACAATATTA
1 CCCTTATGTGATAAAATGACGATATTG
* * * *
71448655 TCCTTATGTGATAAAATAACGATTTTA
1 CCCTTATGTGATAAAATGACGATATTG
*
71448682 CCCTTATAG-GGTAAAATGAC
1 CCCTTAT-GTGATAAAATGAC
71448702 TGAAGTACCC
Statistics
Matches: 196, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 195 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATATTG
Found at i:71448710 original size:27 final size:27
Alignment explanation
Indices: 71448680--71448754 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
71448670 ATAACGATTT
* *
71448680 TACCCTTATAGGGTAAAATGACTG-AA
1 TACCCCTATAAGGTAAAATGACTGTAA
71448706 GTACCCCTATAAGGTAAAATGACTGTAA
1 -TACCCCTATAAGGTAAAATGACTGTAA
71448734 TACCCCTATAAGGTAAAATGA
1 TACCCCTATAAGGTAAAATGA
71448755 ATGATTTGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (27 bp):
TACCCCTATAAGGTAAAATGACTGTAA
Found at i:71452343 original size:27 final size:27
Alignment explanation
Indices: 71452305--71452489 Score: 316
Period size: 27 Copynumber: 6.9 Consensus size: 27
71452295 CATACCTGAA
71452305 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
71452332 CCCTTATGTGATAAAATGACAATATTG
1 CCCTTATGTGATAAAATGACGATATTG
71452359 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
* * *
71452386 CCCTTATATGATAAAATGACGATACTA
1 CCCTTATGTGATAAAATGACGATATTG
71452413 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
71452440 CCCTTATGTGATAAAATGATGATATTG
1 CCCTTATGTGATAAAATGACGATATTG
*
71452467 TCCTTATGTGATAAAATGACGAT
1 CCCTTATGTGATAAAATGACGAT
71452490 TTTACCCTCA
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATATTG
Found at i:71452513 original size:54 final size:54
Alignment explanation
Indices: 71452305--71452512 Score: 308
Period size: 54 Copynumber: 3.9 Consensus size: 54
71452295 CATACCTGAA
* *
71452305 CCCTTATGTGATAAAATGACGATATTGCCCTTATGTGATAAAATGACAATATTG
1 CCCTTATGTGATAAAATGACGATATTGCCCTTATATGATAAAATGACGATATTG
* *
71452359 CCCTTATGTGATAAAATGACGATATTGCCCTTATATGATAAAATGACGATACTA
1 CCCTTATGTGATAAAATGACGATATTGCCCTTATATGATAAAATGACGATATTG
* *
71452413 CCCTTATGTGATAAAATGACGATATTGCCCTTATGTGATAAAATGATGATATTG
1 CCCTTATGTGATAAAATGACGATATTGCCCTTATATGATAAAATGACGATATTG
* * * * * *
71452467 TCCTTATGTGATAAAATGACGATTTTACCCTCATAAGGTAAAATGA
1 CCCTTATGTGATAAAATGACGATATTGCCCTTATATGATAAAATGA
71452513 TAGAAATACC
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 139 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (54 bp):
CCCTTATGTGATAAAATGACGATATTGCCCTTATATGATAAAATGACGATATTG
Done.