Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 61 of 106
Found at i:23020020 original size:54 final size:54
Alignment explanation
Indices: 23019949--23020151 Score: 316
Period size: 54 Copynumber: 3.7 Consensus size: 54
23019939 ATAAGCACAT
*
23019949 ACACCACCATCTCACCCAGCTCATGTACATCCCCCCACATCGTGCACATAGCCGG
1 ACACC-CCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGG
* *
23020004 ACACCCCGTCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGTCGG
1 ACACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGG
* * * * *
23020058 ACACCTCGTCTCACCAAACTCATGTGCATCCCCCCACATCGTGCACATAGCCAG
1 ACACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGG
*
23020112 ACATCCCATCTCACCCAGCTCATGTGCATCCCCCCACATC
1 ACACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATC
23020152 ANNNNNNNNN
Statistics
Matches: 135, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
54 130 0.96
55 5 0.04
ACGTcount: A:0.24, C:0.45, G:0.13, T:0.18
Consensus pattern (54 bp):
ACACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGG
Found at i:23024088 original size:35 final size:35
Alignment explanation
Indices: 23024042--23024116 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
23024032 CTTTCAACCA
* *
23024042 CAAAAATCAGCAGCCAAAGCTGGTCATCTCAGCCT
1 CAAAAATCAGCAGCCAAAGCTGCTCATCTCACCCT
* * *
23024077 CAAAAATCAGCAGCCGAAGCTGCTTATTTCACCCT
1 CAAAAATCAGCAGCCAAAGCTGCTCATCTCACCCT
23024112 CAAAA
1 CAAAA
23024117 CCAGCAACCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.19
Consensus pattern (35 bp):
CAAAAATCAGCAGCCAAAGCTGCTCATCTCACCCT
Found at i:23024200 original size:91 final size:91
Alignment explanation
Indices: 23024037--23024205 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 91
23024027 TGCTCCTTTC
* * * *
23024037 AACCACAAAAATCAGCAGCCAAAGCTGGTCATCTCAGCCTCAAAAATCAGCAGCCGAAGCTGCTT
1 AACCACAAAAATCAGCAGCCAAAGCTGCTCATCTCAGCCTCAAAAATCAGCAGCCAAAGCTACTC
*
23024102 ATTTCACCCTCAAAACCAGCAACCAA
66 ATCTCACCCTCAAAACCAGCAACCAA
* * * *
23024128 AACCTCAAAAATCAGTAGCCAAAGCTGCTCATTTCAGCCTTC-AAAATTAGCAGCCAAAGCTACT
1 AACCACAAAAATCAGCAGCCAAAGCTGCTCATCTCAGCC-TCAAAAATCAGCAGCCAAAGCTACT
23024192 CATCTCACCCTCAA
65 CATCTCACCCTCAA
23024206 TACTGACAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
91 66 0.97
92 2 0.03
ACGTcount: A:0.37, C:0.33, G:0.12, T:0.18
Consensus pattern (91 bp):
AACCACAAAAATCAGCAGCCAAAGCTGCTCATCTCAGCCTCAAAAATCAGCAGCCAAAGCTACTC
ATCTCACCCTCAAAACCAGCAACCAA
Found at i:23024309 original size:34 final size:34
Alignment explanation
Indices: 23024271--23024422 Score: 241
Period size: 34 Copynumber: 4.4 Consensus size: 34
23024261 TGTTTTCCTC
* *
23024271 TCAAAATTTACAGCAAAACTCTTTCTTTCCCTTT
1 TCAAAATTTGCAGCAAAACTCTTTCTTTCCCCTT
23024305 TCAAAATTTGCAGCAAAACTCTTTCTTTCCCCTT
1 TCAAAATTTGCAGCAAAACTCTTTCTTTCCCCTT
*
23024339 TCAAAATTTGTAGCAAAACTCTTTCTTTCCCCTT
1 TCAAAATTTGCAGCAAAACTCTTTCTTTCCCCTT
* *
23024373 TCAAAATTTGCAGCAAAACTCTTTCTTTTTCCCTC
1 TCAAAATTTGCAGCAAAACTCTTTC-TTTCCCCTT
*
23024408 TCAAAAATTGCAGCA
1 TCAAAATTTGCAGCA
23024423 CAAAGCCCCT
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 89 0.81
35 21 0.19
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (34 bp):
TCAAAATTTGCAGCAAAACTCTTTCTTTCCCCTT
Found at i:23027658 original size:62 final size:62
Alignment explanation
Indices: 23027547--23027787 Score: 215
Period size: 62 Copynumber: 3.9 Consensus size: 62
23027537 TACAAAGAAC
* * * * *
23027547 ATCATTTTTGTCGTAGCCAAATTGATTTTCGCTGTGGCAAGAAACTTTCTGCTTTAGGAGTT
1 ATCATTCTCGTCGCAGCCAAATTGATTTTCGCTGTGACAAGAAACTTTCTGCCTTAGGAGTT
* *
23027609 A-CAGTTCTCG-CTGCAGCCAAATTGATTTTC-ATCGTGACGAGAAACTTTCTGCCTTAGGAGTT
1 ATCA-TTCTCGTC-GCAGCCAAATTGATTTTCGCT-GTGACAAGAAACTTTCTGCCTTAGGAGTT
* * *** * *
23027671 ATTATTCTCGTCGCAGCCAAATTGATTTTCCCCACGGCTAA-AAACTTTTTGCCTTAGGAGTT
1 ATCATTCTCGTCGCAGCCAAATTGATTTTCGCTGTGAC-AAGAAACTTTCTGCCTTAGGAGTT
*** * *
23027733 A-CTATTCTTACCGTAGCCAAATTGATTTTCGCTGCGACAAGAAACGTTT-TGCCTT
1 ATC-ATTCTCGTCGCAGCCAAATTGATTTTCGCTGTGACAAGAAAC-TTTCTGCCTT
23027788 GGGGAGGCAC
Statistics
Matches: 145, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
61 6 0.04
62 133 0.92
63 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (62 bp):
ATCATTCTCGTCGCAGCCAAATTGATTTTCGCTGTGACAAGAAACTTTCTGCCTTAGGAGTT
Found at i:23027786 original size:124 final size:124
Alignment explanation
Indices: 23027556--23027787 Score: 274
Period size: 124 Copynumber: 1.9 Consensus size: 124
23027546 CATCATTTTT
* * *** * * *
23027556 GTCGTAGCCAAATTGATTTTCGCTGTGGCAAGAAACTTTCTGCTTTAGGAGTTACAGTTCTCGCT
1 GTCGCAGCCAAATTGATTTTCCCCACGGCAAGAAACTTTCTGCCTTAGGAGTTACAGTTCTCACC
* *
23027621 GCAGCCAAATTGATTTTCATCGTGACGAGAAACTTTCTGCCTTAGGAGTTATTATTCTC
66 GCAGCCAAATTGATTTTCATCGCGACAAGAAACTTTCTGCCTTAGGAGTTATTATTCTC
* *
23027680 GTCGCAGCCAAATTGATTTTCCCCACGGCTAA-AAACTTTTTGCCTTAGGAGTTACTA-TTCTTA
1 GTCGCAGCCAAATTGATTTTCCCCACGGC-AAGAAACTTTCTGCCTTAGGAGTTAC-AGTTCTCA
* *
23027743 CCGTAGCCAAATTGATTTTC-GCTGCGACAAGAAACGTTT-TGCCTT
64 CCGCAGCCAAATTGATTTTCATC-GCGACAAGAAAC-TTTCTGCCTT
23027788 GGGGAGGCAC
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
123 1 0.01
124 83 0.92
125 6 0.07
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (124 bp):
GTCGCAGCCAAATTGATTTTCCCCACGGCAAGAAACTTTCTGCCTTAGGAGTTACAGTTCTCACC
GCAGCCAAATTGATTTTCATCGCGACAAGAAACTTTCTGCCTTAGGAGTTATTATTCTC
Found at i:23029631 original size:37 final size:37
Alignment explanation
Indices: 23029590--23029667 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
23029580 CATATGCATT
*
23029590 CATCATCATGTGTGCACTCCCTACTCTCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
* *
23029627 CATCATTATGTGTGGACTCCCTACTCACACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
23029664 CATC
1 CATC
23029668 CTCACACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.26, C:0.36, G:0.09, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
Found at i:23033915 original size:43 final size:43
Alignment explanation
Indices: 23033854--23033959 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 43
23033844 TGGACTCGAC
* *
23033854 TATGTGCGAGTAGAGAGTGCGCATAAGCCGATGATGACCCGGT
1 TATGTGCGAGTAGAGAGTGCACATAAACCGATGATGACCCGGT
* * ***
23033897 TATGTGCGAGTAGGGAGTGCACATAAACCGGTGATGACCCAAC
1 TATGTGCGAGTAGAGAGTGCACATAAACCGATGATGACCCGGT
* *
23033940 CATGTGCAAGTAGAGAGTGC
1 TATGTGCGAGTAGAGAGTGC
23033960 GATGAGTTGG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.20
Consensus pattern (43 bp):
TATGTGCGAGTAGAGAGTGCACATAAACCGATGATGACCCGGT
Found at i:23034000 original size:23 final size:23
Alignment explanation
Indices: 23033970--23034025 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
23033960 GATGAGTTGG
23033970 TGATGATGGGATGGTGCGCATGA
1 TGATGATGGGATGGTGCGCATGA
* *
23033993 TGATGATGGAATGGTGTGCATGA
1 TGATGATGGGATGGTGCGCATGA
*
23034016 TAATGATGGG
1 TGATGATGGG
23034026 TATATGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.41, T:0.29
Consensus pattern (23 bp):
TGATGATGGGATGGTGCGCATGA
Found at i:23040176 original size:31 final size:30
Alignment explanation
Indices: 23040130--23040198 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
23040120 ATCATAAAAT
*
23040130 GCCCAAGGGCAATGGGGATATACGTTGCTA
1 GCCCAAGGGCAATGGGGATATACATTGCTA
* * *
23040160 GCCCTAGGTGCAATGGGGATGTACATTGCCA
1 GCCCAAGG-GCAATGGGGATATACATTGCTA
*
23040191 ACCCAAGG
1 GCCCAAGG
23040199 TTGATGGGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (30 bp):
GCCCAAGGGCAATGGGGATATACATTGCTA
Found at i:23049021 original size:15 final size:15
Alignment explanation
Indices: 23049001--23049043 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
23048991 TTAAAACAAT
23049001 TTTAAAATCAAAAAC
1 TTTAAAATCAAAAAC
* *
23049016 TTTAAAATCCAAAGC
1 TTTAAAATCAAAAAC
23049031 TTTAAAATCAAAA
1 TTTAAAATCAAAA
23049044 TATTTGATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (15 bp):
TTTAAAATCAAAAAC
Found at i:23053274 original size:21 final size:21
Alignment explanation
Indices: 23053250--23053301 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
23053240 AGTTTTAGAG
23053250 TAGAAAAATAAAAGTAAAAAA
1 TAGAAAAATAAAAGTAAAAAA
* ** *
23053271 TAGAAAACTGTATGTAAAAAA
1 TAGAAAAATAAAAGTAAAAAA
*
23053292 TAGATAAATA
1 TAGAAAAATA
23053302 TTTAACTATA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.65, C:0.02, G:0.12, T:0.21
Consensus pattern (21 bp):
TAGAAAAATAAAAGTAAAAAA
Found at i:23056930 original size:19 final size:19
Alignment explanation
Indices: 23056906--23056943 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23056896 CCATTTGACT
*
23056906 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
23056925 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
23056944 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:23064002 original size:19 final size:19
Alignment explanation
Indices: 23063978--23064015 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23063968 CCATTTGACT
*
23063978 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
23063997 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
23064016 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:23066881 original size:20 final size:19
Alignment explanation
Indices: 23066824--23066886 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
23066814 TATATACCTA
* *
23066824 TCATCATCATTTCACCAAC
1 TCATCATCATATCACCAGC
*
23066843 CCATCATCATGATCACCAGC
1 TCATCATCAT-ATCACCAGC
23066863 TCATCATCATCATCACCAGC
1 TCATCATCAT-ATCACCAGC
23066883 TCAT
1 TCAT
23066887 GCGCACTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 9 0.24
20 29 0.76
ACGTcount: A:0.30, C:0.38, G:0.05, T:0.27
Consensus pattern (19 bp):
TCATCATCATATCACCAGC
Found at i:23066936 original size:43 final size:43
Alignment explanation
Indices: 23066885--23067037 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 43
23066875 TCACCAGCTC
* * ** *
23066885 ATGCGCACTCCTTACTCGCAGAT-GGCTGGGTCATCACCTGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-GGGTCATCACCGGGTT
* *
23066928 ATGTGCACTCCCTACTCGTACATAATCGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCACCGGGTT
* * * * * *
23066971 ATGCGCACTCCCTGCTAGTACATAACCGAGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCAC-CGGGTT
*
23067014 ATGCGCACTTCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
23067038 GCCAAGTCAA
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 89 0.98
44 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCGGGTCATCACCGGGTT
Found at i:23074800 original size:20 final size:20
Alignment explanation
Indices: 23074743--23074805 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
23074733 CATATACCCA
*
23074743 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
23074762 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
23074782 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
23074802 TCAT
1 TCAT
23074806 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:23074852 original size:43 final size:43
Alignment explanation
Indices: 23074804--23074965 Score: 254
Period size: 43 Copynumber: 3.8 Consensus size: 43
23074794 TCACCAGCTC
** *
23074804 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
23074847 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
*
23074890 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCAC-CGGGTT
* *
23074933 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
23074966 ACATAATTAC
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 1 0.01
43 111 0.99
ACGTcount: A:0.20, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
Found at i:23088003 original size:107 final size:107
Alignment explanation
Indices: 23087821--23088081 Score: 355
Period size: 107 Copynumber: 2.4 Consensus size: 107
23087811 AGTTATTCCT
* * * *
23087821 AATTAATTAAATTAGTTAATTAAATCACTGGGCCTAATTAATTAAA-TTGTTTAATTAAGTCATT
1 AATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCATT
* *
23087885 GGGCCTGATTGATT-AAATTAAACAATTAAGTTATTGGGCCA
66 GGGCCTAATTGATTAAAATTAAACAATTAAATTATTGGGCCA
* * *
23087926 AATTGATTACATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCAT
1 AATTAATTA-AATTATTTAATTAAGTCATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCAT
*** ***
23087991 TGGGCCTAATTGATTAAAATTATTTAATTAAATTATTGGGTTT
65 TGGGCCTAATTGATTAAAATTAAACAATTAAATTATTGGGCCA
*
23088034 AATTAATTAAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATT
1 AATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTGATTAAATT
23088082 AAACAATTAA
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
105 8 0.06
106 31 0.23
107 67 0.50
108 28 0.21
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (107 bp):
AATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCATT
GGGCCTAATTGATTAAAATTAAACAATTAAATTATTGGGCCA
Found at i:23088095 original size:35 final size:35
Alignment explanation
Indices: 23087790--23088082 Score: 322
Period size: 35 Copynumber: 8.3 Consensus size: 35
23087780 TCTCAAGCAC
*
23087790 TTGATTAAAATTGTTTAATTAAGTTATT---CCTAA
1 TTGATT-AAATTATTTAATTAAGTTATTGGGCCTAA
* * * * *
23087823 TTAATTAAATTAGTTAATTAAATCACTGGGCCTAA
1 TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
* * * *
23087858 TTAATTAAATTGTTTAATTAAGTCATTGGGCCTGA
1 TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
*** *
23087893 TTGATTAAATTAAACAATTAAGTTATTGGGCCAAA
1 TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
* * *
23087928 TTGATTACATTTGTTTAATTAAGTCATTGGGCCTAA
1 TTGATTA-AATTATTTAATTAAGTTATTGGGCCTAA
* *
23087964 TTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAA
1 TTGATTAAA-TTATTTAATTAAGTTATTGGGCCTAA
* **
23088000 TTGATTAAAATTATTTAATTAAATTATTGGGTTTAA
1 TTGATT-AAATTATTTAATTAAGTTATTGGGCCTAA
*
23088036 TTAATTAAATTATTTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
23088071 TTGATTAAATTA
1 TTGATTAAATTA
23088083 AACAATTAAG
Statistics
Matches: 217, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
32 16 0.07
33 5 0.02
35 107 0.49
36 86 0.40
37 3 0.01
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (35 bp):
TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
Found at i:23092010 original size:43 final size:44
Alignment explanation
Indices: 23091956--23092061 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 44
23091946 GCTATGTGAA
**
23091956 AGTAGGGAGTGCGCATAAGCCAAG-GATGACCTAA-TTATGTGCG
1 AGTAGGGAGTGCGCATAAGCCAAGTGATGACC-AAGCCATGTGCG
* * ** *
23091999 AGTAGGAAGTGCGCA-AAACCCGGTGATGACCAAGCCATGTGTG
1 AGTAGGGAGTGCGCATAAGCCAAGTGATGACCAAGCCATGTGCG
23092042 AGTAGGGAGTGCGCATAAGC
1 AGTAGGGAGTGCGCATAAGC
23092062 TGGTGATGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 7 0.14
43 41 0.80
44 3 0.06
ACGTcount: A:0.30, C:0.18, G:0.34, T:0.18
Consensus pattern (44 bp):
AGTAGGGAGTGCGCATAAGCCAAGTGATGACCAAGCCATGTGCG
Found at i:23094420 original size:24 final size:24
Alignment explanation
Indices: 23094388--23094439 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
23094378 TCCTCTTGTA
* * *
23094388 GCTCTTCATGGTGCTTCTCCTACT
1 GCTCATCATGCTGCTACTCCTACT
*
23094412 GCTCATCATGCTGCTACTCCTGCT
1 GCTCATCATGCTGCTACTCCTACT
23094436 GCTC
1 GCTC
23094440 CTCCTCCTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.37, G:0.17, T:0.37
Consensus pattern (24 bp):
GCTCATCATGCTGCTACTCCTACT
Found at i:23094443 original size:12 final size:12
Alignment explanation
Indices: 23094399--23094450 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
23094389 CTCTTCATGG
* *
23094399 TGCTTCTCCTAC
1 TGCTCCTCCTGC
* *
23094411 TGCTCATCATGC
1 TGCTCCTCCTGC
*
23094423 TGCTACTCCTGC
1 TGCTCCTCCTGC
*
23094435 TGCTCCTCCTCC
1 TGCTCCTCCTGC
23094447 TGCT
1 TGCT
23094451 TCAAGTGCTG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.08, C:0.42, G:0.13, T:0.37
Consensus pattern (12 bp):
TGCTCCTCCTGC
Found at i:23094449 original size:24 final size:24
Alignment explanation
Indices: 23094399--23094450 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
23094389 CTCTTCATGG
* *
23094399 TGCTTCTCCTACTGCTCATCATGC
1 TGCTACTCCTACTGCTCATCATCC
* * *
23094423 TGCTACTCCTGCTGCTCCTCCTCC
1 TGCTACTCCTACTGCTCATCATCC
23094447 TGCT
1 TGCT
23094451 TCAAGTGCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.42, G:0.13, T:0.37
Consensus pattern (24 bp):
TGCTACTCCTACTGCTCATCATCC
Found at i:23094461 original size:27 final size:24
Alignment explanation
Indices: 23094432--23094487 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
23094422 CTGCTACTCC
*
23094432 TGCTGCTCCTCCTCCTGCTTCAAG
1 TGCTGCCCCTCCTCCTGCTTCAAG
* *
23094456 TGCTGCCCCTCCTCTTGCTTCAGG
1 TGCTGCCCCTCCTCCTGCTTCAAG
23094480 TGCTGCCC
1 TGCTGCCC
23094488 TTCATGCTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.05, C:0.43, G:0.20, T:0.32
Consensus pattern (24 bp):
TGCTGCCCCTCCTCCTGCTTCAAG
Found at i:23096775 original size:23 final size:23
Alignment explanation
Indices: 23096741--23096784 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
23096731 GAGTAGTAAA
**
23096741 TATGGAGTGGCATTACTAGTTAT
1 TATGGAGTGGCACGACTAGTTAT
23096764 TATGGAAG-GGCACGACTAGTT
1 TATGG-AGTGGCACGACTAGTT
23096785 GATATTGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (23 bp):
TATGGAGTGGCACGACTAGTTAT
Found at i:23096996 original size:23 final size:23
Alignment explanation
Indices: 23096970--23097055 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
23096960 TACCAATTCT
23096970 TATGGAATCGCGTGACTAGATGA
1 TATGGAATCGCGTGACTAGATGA
23096993 TATGGAATCGCGTGACTAGATGA
1 TATGGAATCGCGTGACTAGATGA
* * *
23097016 TATGGAGTCACGTGACTAGTTGA
1 TATGGAATCGCGTGACTAGATGA
* *
23097039 TCTTGAATCGCGTGACT
1 TATGGAATCGCGTGACT
23097056 CACCTATTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (23 bp):
TATGGAATCGCGTGACTAGATGA
Found at i:23109272 original size:37 final size:37
Alignment explanation
Indices: 23109212--23109330 Score: 186
Period size: 37 Copynumber: 3.2 Consensus size: 37
23109202 AATGCAATAT
* *
23109212 CATCATCATGTGTGCACTTCCTACTTGCACACCTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACCTCAA
*
23109249 CATCGTCATGTGTGCACTCCCTACTCGCACA-CTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACCTC-AA
*
23109286 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACCTCAA
23109323 CATCATCA
1 CATCATCA
23109331 CACAACATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
36 3 0.04
37 70 0.93
38 2 0.03
ACGTcount: A:0.24, C:0.37, G:0.11, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACCTCAA
Found at i:23114943 original size:115 final size:116
Alignment explanation
Indices: 23114770--23115015 Score: 359
Period size: 115 Copynumber: 2.1 Consensus size: 116
23114760 AACAAGAGGC
** * * * *
23114770 GAATTGCACAAATCACGCACCAACTCTCTTGCAATACATAACAACAGGTCACGTAATATATAAAA
1 GAATTGCACAAGCCACGCACCAACACTCTCGCAATACATAACAACAGGTAACGCAATATATAAAA
23114835 ACCAGTC-AATGCCTAAAAAACTACTAAACAAAAGCCTCAAAACAACACAT
66 ACCAGTCGAATGCCTAAAAAACTACTAAACAAAAGCCTCAAAACAACACAT
* *
23114885 GAATTGCACAAGCCACGCACCACCACTCTCGCAATACATAACAACAGGTAATGCAATATATAAAA
1 GAATTGCACAAGCCACGCACCAACACTCTCGCAATACATAACAACAGGTAACGCAATATATAAAA
* * *
23114950 ACTAGTCATGGAATGCCTTAAAAACTACTGAACAAAAGCCTCAAAACAACACAT
66 ACCAGTC---GAATGCCTAAAAAACTACTAAACAAAAGCCTCAAAACAACACAT
23115004 GAATTGCACAAG
1 GAATTGCACAAG
23115016 TCAATCACGT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
115 63 0.54
119 53 0.46
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.18
Consensus pattern (116 bp):
GAATTGCACAAGCCACGCACCAACACTCTCGCAATACATAACAACAGGTAACGCAATATATAAAA
ACCAGTCGAATGCCTAAAAAACTACTAAACAAAAGCCTCAAAACAACACAT
Found at i:23115934 original size:67 final size:68
Alignment explanation
Indices: 23115856--23116031 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 68
23115846 AAGTTATTTG
* * *
23115856 TTGGGTTTTGGTTGATCCCGTGAAAAATCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTGATTGAGCCTTTGAAAAACC
23115920 ACT
66 ACT
* *
23115923 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTG-TGAAAGGTTGTGATTGAGCCTTTGAAAAATC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTGATTGAGCCTTTGAAAAACC
23115987 ACT
66 ACT
23115990 TTGGGTTTTGGTTGATCCCAGT-AAAAACCATTG-TGAAAGGTT
1 TTGGGTTTTGGTTGATCCC-GTGAAAAACCATTGTTGAAAGGTT
23116032 TTAGCTAAGC
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
66 2 0.02
67 97 0.96
68 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTGATTGAGCCTTTGAAAAACC
ACT
Found at i:23115940 original size:32 final size:32
Alignment explanation
Indices: 23115856--23116019 Score: 134
Period size: 35 Copynumber: 4.9 Consensus size: 32
23115846 AAGTTATTTG
* * *
23115856 TTGGGTTTTGGTTGATCCCGTGAAAAATCATT
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCACT
* **
23115888 GTTGTAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 -TTG--GGTTTTGGTTGAGCCCGTGAAAAACCACT
23115923 TTGGGTTTTGGTTGAGCCCGTGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCACT
* * ** *
23115954 TGTGAAAGGTTGTGATTGAGCCTTTGAAAAATCACT
1 T-TG---GGTTTTGGTTGAGCCCGTGAAAAACCACT
*
23115990 TTGGGTTTTGGTTGATCCCAGT-AAAAACCA
1 TTGGGTTTTGGTTGAGCCC-GTGAAAAACCA
23116020 TTGTGAAAGG
Statistics
Matches: 103, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
31 2 0.02
32 45 0.44
33 4 0.04
34 3 0.03
35 47 0.46
36 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCCGTGAAAAACCACT
Found at i:23125463 original size:20 final size:21
Alignment explanation
Indices: 23125422--23125466 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
23125412 CCTAGGTGGA
*
23125422 AAAATTCAAAGGAAAAGTGTG
1 AAAATTCAAAGGAAAAGAGTG
23125443 AAAATTC-AAGGAAACA-AGTG
1 AAAATTCAAAGGAAA-AGAGTG
23125463 AAAA
1 AAAA
23125467 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.58, C:0.07, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAATTCAAAGGAAAAGAGTG
Found at i:23125467 original size:21 final size:20
Alignment explanation
Indices: 23125420--23125467 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
23125410 ACCCTAGGTG
23125420 GAAAAATTCAAAGGAAAAGT
1 GAAAAATTCAAAGGAAAAGT
*
23125440 GTGAAAATTC-AAGGAAACAAGT
1 G-AAAAATTCAAAGG-AA-AAGT
23125462 GAAAAA
1 GAAAAA
23125468 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAAGGAAAAGT
Found at i:23128290 original size:25 final size:25
Alignment explanation
Indices: 23128256--23128304 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
23128246 TCCAACTTTT
23128256 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATA-TAATATTTAAATTATA
23128281 AATAAAATATAATATTTAAATTAT
1 AATAAAATATAATATTTAAATTAT
23128305 CATTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATAAAATATAATATTTAAATTATA
Found at i:23128318 original size:32 final size:30
Alignment explanation
Indices: 23128276--23128334 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
23128266 TAATATTAAA
*
23128276 TTATAAATAAAATATAATATTTAAATTATCAT
1 TTATAAATAAAATA-AAT-TATAAATTATCAT
*
23128308 TTATTAATAAAATAAATTATAAATTAT
1 TTATAAATAAAATAAATTATAAATTAT
23128335 TCCTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 3 0.12
32 13 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TTATAAATAAAATAAATTATAAATTATCAT
Found at i:23128399 original size:113 final size:109
Alignment explanation
Indices: 23128279--23128628 Score: 283
Period size: 113 Copynumber: 3.2 Consensus size: 109
23128269 TATTAAATTA
23128279 TAAATAAAATA-TAATATTTAAATTATCATTTATTAATAAAATAAATTATAAATTATTCCTATTT
1 TAAATAAAATATTAATATTTAAATTATCATTTATTAAT-AAATAAA-TATAAATTATTCCTATTT
23128343 TAATAAATAATAACTAAATTAAAATAAATAAACATAATATCATTTAAAT
64 TAATAAATAA-AA-TAAATTAAAATAAATAAACATAATAT-ATTTAAAT
* * ** * * *
23128392 TAGATAAACAATATTAATAATTAAATTA--A-TTATTAATATTTTAA-ATAAATTA--CCAATTA
1 TAAAT-AA-AATATTAATATTTAAATTATCATTTATTAATAAATAAATATAAATTATTCCTATTT
** * * *
23128451 TAATATTTAAAAATAAAATAAAAATTAATCAA-ATAAT-T-TTTAAAT
64 TAATAAAT-AAAAT-AAATTAAAATAAATAAACATAATATATTTAAAT
** * **
23128496 TAAATAAAATATTAATATTTAAATTATCTATTATAATATTTTAAATAAATAATCAATTATTAAT-
1 TAAATAAAATATTAATATTTAAATTATC-ATT-T-AT-TAATAAATAAAT-ATAAATTATTCCTA
* * * * *
23128560 TTTTAA-AAATAAAATAAAATAAAATAATTGATCATCATAATATTTAAAT
61 TTTTAATAAATAAAATAAATTAAAATAAATAAACATAAT-ATATTTAAAT
23128609 TAAATAAAATATTAATATTT
1 TAAATAAAATATTAATATTT
23128629 TAAAATATAA
Statistics
Matches: 184, Mismatches: 33, Indels: 40
0.72 0.13 0.16
Matches are distributed among these distances:
102 18 0.10
103 2 0.01
104 11 0.06
105 1 0.01
106 2 0.01
107 7 0.04
108 29 0.16
109 19 0.10
110 17 0.09
111 9 0.05
112 10 0.05
113 39 0.21
114 3 0.02
115 4 0.02
116 13 0.07
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (109 bp):
TAAATAAAATATTAATATTTAAATTATCATTTATTAATAAATAAATATAAATTATTCCTATTTTA
ATAAATAAAATAAATTAAAATAAATAAACATAATATATTTAAAT
Found at i:23128425 original size:19 final size:20
Alignment explanation
Indices: 23128403--23128443 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23128393 AGATAAACAA
*
23128403 TATTAATA-ATTAAATTAAT
1 TATTAATATATTAAATAAAT
*
23128422 TATTAATATTTTAAATAAAT
1 TATTAATATATTAAATAAAT
23128442 TA
1 TA
23128444 CCAATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTAATATATTAAATAAAT
Found at i:23128449 original size:27 final size:27
Alignment explanation
Indices: 23128419--23128566 Score: 84
Period size: 26 Copynumber: 5.7 Consensus size: 27
23128409 TAATTAAATT
*
23128419 AATTATTAATATTTTAAATAAATTACC
1 AATTATTAATATTTTAAATAAATTATC
* * **
23128446 AATTA-TAATATTTAAAAATAAAATAAA
1 AATTATTAATATTT-TAAATAAATTATC
*
23128473 AATTAATCAAATAATTTTTAAATTAAA-TA--
1 AATT-AT-TAAT-A-TTTTAAA-TAAATTATC
*
23128502 AAATATTAATA--TT---TAAATTATC
1 AATTATTAATATTTTAAATAAATTATC
* *
23128524 TATTA-TAATATTTTAAATAAATAATC
1 AATTATTAATATTTTAAATAAATTATC
23128550 AATTATTAAT-TTTTAAA
1 AATTATTAATATTTTAAA
23128567 AATAAAATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
19 4 0.04
20 2 0.02
21 5 0.05
22 3 0.03
23 4 0.04
26 28 0.30
27 25 0.27
28 3 0.03
29 3 0.03
30 3 0.03
31 6 0.06
32 7 0.08
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTATTAATATTTTAAATAAATTATC
Found at i:23128503 original size:104 final size:105
Alignment explanation
Indices: 23128385--23128578 Score: 288
Period size: 104 Copynumber: 1.9 Consensus size: 105
23128375 CATAATATCA
* *
23128385 TTTAAATTAGATAAACAATATTAATAATTAAATTA---ATTATTAATATTTTAAATAAATTACCA
1 TTTAAATTAAAT-AA-AATATTAATAATTAAATTATCTATTA-TAATATTTTAAATAAATAACCA
23128447 ATTA-TAATATTTAAAAATAAAATAAAAATTAATCAAATAATT
63 ATTATTAATATTTAAAAATAAAATAAAAATTAATCAAATAATT
* *
23128489 TTTAAATTAAATAAAATATTAATATTTAAATTATCTATTATAATATTTTAAATAAATAATCAATT
1 TTTAAATTAAATAAAATATTAATAATTAAATTATCTATTATAATATTTTAAATAAATAACCAATT
*
23128554 ATTAATTTTTAAAAATAAAATAAAA
66 ATTAATATTTAAAAATAAAATAAAA
23128579 TAAAATAATT
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
102 18 0.22
103 2 0.02
104 35 0.43
105 26 0.32
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (105 bp):
TTTAAATTAAATAAAATATTAATAATTAAATTATCTATTATAATATTTTAAATAAATAACCAATT
ATTAATATTTAAAAATAAAATAAAAATTAATCAAATAATT
Found at i:23128554 original size:26 final size:26
Alignment explanation
Indices: 23128419--23128566 Score: 98
Period size: 27 Copynumber: 5.7 Consensus size: 26
23128409 TAATTAAATT
*
23128419 AATTATTAATATTTTAAATAAATTACC
1 AATTATTAATATTTTAAATAAA-TAAC
* *
23128446 AATTA-TAATATTTAAAAATAAAATAAA
1 AATTATTAATATTT-TAAAT-AAATAAC
*
23128473 AATTAATCAAATAATTTTTAAATTAAATAA-
1 AATT-AT-TAAT-A-TTTTAAA-TAAATAAC
*
23128503 AA-TATTAATA-TTTAAAT---TATC
1 AATTATTAATATTTTAAATAAATAAC
*
23128524 TATTA-TAATATTTTAAATAAATAATC
1 AATTATTAATATTTTAAATAAATAA-C
23128550 AATTATTAAT-TTTTAAA
1 AATTATTAATATTTTAAA
23128567 AATAAAATAA
Statistics
Matches: 95, Mismatches: 10, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
20 2 0.02
21 6 0.06
22 9 0.09
23 1 0.01
24 6 0.06
25 2 0.02
26 21 0.22
27 22 0.23
28 6 0.06
29 1 0.01
30 5 0.05
31 10 0.11
32 4 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTATTAATATTTTAAATAAATAAC
Found at i:23128675 original size:154 final size:154
Alignment explanation
Indices: 23128496--23128781 Score: 452
Period size: 154 Copynumber: 1.9 Consensus size: 154
23128486 ATTTTTAAAT
* * *
23128496 TAAATAAAATATTAATATTTAAATTATCTATTA-TAATATTTTAAATAAATAATCAATTATTAAT
1 TAAATAAAATATAAATATTAAAATTATCAATTATTAATATTTTAAATAAATAATCAATTATTAAT
* *
23128560 -TTTTAAAAATAAAATAAAATAAAATAATTGATCATCATAATATTTAAATTAAATAAAATATTAA
66 ATTTTAAAAATAAAATAAAATAAAAT--TTAATCATAATAATATTTAAATTAAAT-AAATATTAA
23128624 TATTTTAAAATATAAATAATCAAATTA
128 TATTTTAAAATATAAATAATCAAATTA
*
23128651 TAAAT-AAATATAAATATTAAAATTATCAATTATTAATATTTTAAATAAATTATCAATTATTAAT
1 TAAATAAAATATAAATATTAAAATTATCAATTATTAATATTTTAAATAAATAATCAATTATTAAT
* *
23128715 ATTTTAAAAATAAAATAAAATAAAATTTAATCATAATACTATTTAAATTAAATAAATGTTAATAT
66 ATTTTAAAAATAAAATAAAATAAAATTTAATCATAATAATATTTAAATTAAATAAATATTAATAT
23128780 TT
131 TT
23128782 AAATGATTAA
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
153 13 0.11
154 48 0.40
155 35 0.29
156 25 0.21
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (154 bp):
TAAATAAAATATAAATATTAAAATTATCAATTATTAATATTTTAAATAAATAATCAATTATTAAT
ATTTTAAAAATAAAATAAAATAAAATTTAATCATAATAATATTTAAATTAAATAAATATTAATAT
TTTAAAATATAAATAATCAAATTA
Found at i:23128696 original size:41 final size:41
Alignment explanation
Indices: 23128608--23128713 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 41
23128598 AATATTTAAA
*
23128608 TTAAATAAAATATTAATATTTTAAAATATAAATAATCAAATT
1 TTAAAT-AAATATTAATATATTAAAATATAAATAATCAAATT
* * * *
23128650 ATAAATAAATA-TAA-ATATTAAAATTATCAATTATTAATATT
1 TTAAATAAATATTAATATATTAAAA-TATAAATAATCAA-ATT
*
23128691 TTAAATAAATTATCAAT-TATTAA
1 TTAAATAAA-TATTAATATATTAA
23128714 TATTTTAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
39 8 0.15
40 13 0.25
41 16 0.31
42 7 0.13
43 8 0.15
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (41 bp):
TTAAATAAATATTAATATATTAAAATATAAATAATCAAATT
Found at i:23128705 original size:27 final size:27
Alignment explanation
Indices: 23128670--23128722 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
23128660 ATAAATATTA
23128670 AAATTATCAATTATTAATATTTTAAAT
1 AAATTATCAATTATTAATATTTTAAAT
23128697 AAATTATCAATTATTAATATTTTAAA
1 AAATTATCAATTATTAATATTTTAAA
23128723 AATAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTATCAATTATTAATATTTTAAAT
Found at i:23128767 original size:112 final size:113
Alignment explanation
Indices: 23128651--23128853 Score: 293
Period size: 112 Copynumber: 1.8 Consensus size: 113
23128641 AATCAAATTA
*
23128651 TAAATAAATATAAATATTAAAATTATCAATTATTAATATTTTAAATAAATTATCA-ATTATTAAT
1 TAAATAAATATAAATATTAAAATGATCAATTATTAATATTTTAAATAAATTAT-AGATTATTAAT
*
23128715 ATTTTAAAAATAAAAT-AAAATAAAATTTAATCATAATACTATTTAAAT
65 ATTTAAAAAATAAAATAAAAATAAAATTTAATCATAATACTATTTAAAT
* * * * * *
23128763 TAAATAAATGTTAATATTTAAATGATTAATTATTAATATTTTAATTAAATTCTAGATTATTAATA
1 TAAATAAATATAAATATTAAAATGATCAATTATTAATATTTTAAATAAATTATAGATTATTAATA
**
23128828 TTTAAAAAATCTAATAAAAATAAAAT
66 TTTAAAAAATAAAATAAAAATAAAAT
23128854 GTCACATAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
111 1 0.01
112 68 0.86
113 10 0.13
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (113 bp):
TAAATAAATATAAATATTAAAATGATCAATTATTAATATTTTAAATAAATTATAGATTATTAATA
TTTAAAAAATAAAATAAAAATAAAATTTAATCATAATACTATTTAAAT
Found at i:23132152 original size:35 final size:33
Alignment explanation
Indices: 23132101--23132271 Score: 161
Period size: 35 Copynumber: 5.1 Consensus size: 33
23132091 GAAAAGTTAG
*
23132101 TTGTTGGGTTTTGGTTGATCCCGTGAAAAACCA
1 TTGTTGGGTTTTGGTTGAGCCCGTGAAAAACCA
* ** *
23132134 TTGTTGTAGGTTATGGTTGAGCCTTTGAAAAACTA
1 TTGTTG--GGTTTTGGTTGAGCCCGTGAAAAACCA
* *
23132169 CT-TTGGGTTTTAGTTGAGCCCGTGAAAAACCA
1 TTGTTGGGTTTTGGTTGAGCCCGTGAAAAACCA
* **
23132201 TTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGTTG---GGTTTTGGTTGAGCCCGTGAAAAACCA
*
23132236 TT-TTGGGTTTTGGTTGATCCCG-GTAAAAACCA
1 TTGTTGGGTTTTGGTTGAGCCCGTG-AAAAACCA
23132268 TTGT
1 TTGT
23132272 GAAAGGTTTT
Statistics
Matches: 109, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.01
32 48 0.44
33 7 0.06
34 3 0.03
35 50 0.46
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.36
Consensus pattern (33 bp):
TTGTTGGGTTTTGGTTGAGCCCGTGAAAAACCA
Found at i:23132304 original size:67 final size:67
Alignment explanation
Indices: 23132104--23132279 Score: 266
Period size: 67 Copynumber: 2.6 Consensus size: 67
23132094 AAGTTAGTTG
* *
23132104 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTG-TAGGTTATGGTTGAGCCTTTGAAAAACT
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTG-TGAAAGGTTATGGTTGAGCCTTTGAAAAACC
*
23132168 ACT
65 ATT
* * *
23132171 TTGGGTTTTAGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTGAAAAACCA
23132236 TT
66 TT
23132238 TTGGGTTTTGGTTGATCCCG-GTAAAAACCATTGTGAAAGGTT
1 TTGGGTTTTGGTTGATCCCGTG-AAAAACCATTGTGAAAGGTT
23132280 TTGACTAAGC
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
66 3 0.03
67 96 0.97
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTGAAAAACCA
TT
Found at i:23136425 original size:24 final size:23
Alignment explanation
Indices: 23136397--23136448 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
23136387 TCAATTTTAA
23136397 ATTTTT-GTTTTACTTTATATTATT
1 ATTTTTAGTTTTA-TTTAT-TTATT
*
23136421 ATTTTTATTTTTATTTATTTATT
1 ATTTTTAGTTTTATTTATTTATT
23136444 -TTTTT
1 ATTTTT
23136449 CATTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 11 0.42
25 5 0.19
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (23 bp):
ATTTTTAGTTTTATTTATTTATT
Found at i:23136442 original size:23 final size:23
Alignment explanation
Indices: 23136404--23136467 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
23136394 TAAATTTTTG
23136404 TTTTACTTTATATTATTATTTTT-AT
1 TTTTA-TTTAT-TTATT-TTTTTCAT
23136429 TTTTATTTATTTATTTTTTTCAT
1 TTTTATTTATTTATTTTTTTCAT
* *
23136452 TTCTATTCCATTTATT
1 TTTTATT-TATTTATT
23136468 CATATATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 5 0.14
23 13 0.37
24 12 0.34
25 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTATTTATTTATTTTTTTCAT
Found at i:23138800 original size:19 final size:19
Alignment explanation
Indices: 23138776--23138812 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23138766 GGGGTTTTAG
*
23138776 TGAGAAACCCTCGGCCAGT
1 TGAGAAACCCTCGACCAGT
23138795 TGAGAAACCCTCGACCAG
1 TGAGAAACCCTCGACCAG
23138813 CTTATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (19 bp):
TGAGAAACCCTCGACCAGT
Found at i:23139410 original size:60 final size:60
Alignment explanation
Indices: 23139317--23139443 Score: 254
Period size: 60 Copynumber: 2.1 Consensus size: 60
23139307 GCCACTATGA
23139317 GATGGAAATTGTTAGTATTATTTTGAATTGGAATTATGAAATATAATTTTAGCAACTTTT
1 GATGGAAATTGTTAGTATTATTTTGAATTGGAATTATGAAATATAATTTTAGCAACTTTT
23139377 GATGGAAATTGTTAGTATTATTTTGAATTGGAATTATGAAATATAATTTTAGCAACTTTT
1 GATGGAAATTGTTAGTATTATTTTGAATTGGAATTATGAAATATAATTTTAGCAACTTTT
23139437 GATGGAA
1 GATGGAA
23139444 TGATGAATAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.43
Consensus pattern (60 bp):
GATGGAAATTGTTAGTATTATTTTGAATTGGAATTATGAAATATAATTTTAGCAACTTTT
Found at i:23143059 original size:29 final size:28
Alignment explanation
Indices: 23142965--23143059 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
23142955 TCAGAAAAAT
* *
23142965 TTAAATAAGTCTTTATACTTTTATTACT-T
1 TTAAATAAGTCTTTATAATTTTATT--TGG
* *
23142994 TTAATTAAGTTTTTATAATTTTATTTTGAG
1 TTAAATAAGTCTTTATAATTTTA-TTTG-G
* *
23143024 TCAAATAAGTCTTTATATTTTTATTTGG
1 TTAAATAAGTCTTTATAATTTTATTTGG
23143052 TTACAATA
1 TTA-AATA
23143060 CCCTCACCTC
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.08
29 28 0.53
30 21 0.40
ACGTcount: A:0.32, C:0.06, G:0.07, T:0.55
Consensus pattern (28 bp):
TTAAATAAGTCTTTATAATTTTATTTGG
Found at i:23144180 original size:42 final size:42
Alignment explanation
Indices: 23144120--23144203 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
23144110 ATTGTTGTAC
23144120 ATAATAATTGCTCACTAATATGGCATTGTTATAACATCACTT
1 ATAATAATTGCTCACTAATATGGCATTGTTATAACATCACTT
* * *
23144162 ATAATAATTGCTCCCTAATATGGCATTGTTGTGACATCACTT
1 ATAATAATTGCTCACTAATATGGCATTGTTATAACATCACTT
23144204 TGCTTTCTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (42 bp):
ATAATAATTGCTCACTAATATGGCATTGTTATAACATCACTT
Found at i:23144599 original size:29 final size:28
Alignment explanation
Indices: 23144469--23144599 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 28
23144459 TTTACACTTA
23144469 TATGATATTAATTTCTAGATTTACACAGG
1 TATGATATTAATTT-TAGATTTACACAGG
* *
23144498 TATGATATTAATATCTAGATTTACATAGG
1 TATGATATTAAT-TTTAGATTTACACAGG
* * *
23144527 TATTATATTAATTTTTATAATTACACAGG
1 TATGATATTAA-TTTTAGATTTACACAGG
* *
23144556 TATGATATTAATTTTTGTATTTACACAGA
1 TATGATATTAATTTTAG-ATTTACACAGG
23144585 TATGATATTAATTTT
1 TATGATATTAATTTT
23144600 CATATTTATA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
28 4 0.05
29 81 0.93
30 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (28 bp):
TATGATATTAATTTTAGATTTACACAGG
Found at i:23147766 original size:3 final size:3
Alignment explanation
Indices: 23147758--23147785 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23147748 TTTCCCTCAT
23147758 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23147786 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23148422 original size:14 final size:14
Alignment explanation
Indices: 23148403--23148429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23148393 TCCATTTTCC
23148403 TCTCTTTCTCTTTG
1 TCTCTTTCTCTTTG
23148417 TCTCTTTCTCTTT
1 TCTCTTTCTCTTT
23148430 CTTTTTCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.67
Consensus pattern (14 bp):
TCTCTTTCTCTTTG
Found at i:23148490 original size:11 final size:11
Alignment explanation
Indices: 23148474--23148522 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
23148464 TTCTTCTCTC
23148474 CTTTTTTCTTT
1 CTTTTTTCTTT
23148485 CTTTTTTCTTT
1 CTTTTTTCTTT
* *
23148496 CTTCTTTCTCT
1 CTTTTTTCTTT
* *
23148507 C-TCTTTCATT
1 CTTTTTTCTTT
23148517 CTTTTT
1 CTTTTT
23148523 CTCCTTTCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.25
11 24 0.75
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:23148518 original size:18 final size:17
Alignment explanation
Indices: 23148454--23148531 Score: 72
Period size: 18 Copynumber: 4.6 Consensus size: 17
23148444 GCCAATCTCT
*
23148454 TCTCTCTCTCTTC-TTC
1 TCTCTCTTTCTTCTTTC
*
23148470 TCTC-CTTTTTTCTTTC
1 TCTCTCTTTCTTCTTTC
* *
23148486 TTTTTTCTTTCTTCTTTC
1 -TCTCTCTTTCTTCTTTC
*
23148504 TCTCTCTTTCATTCTTTT
1 TCTCTCTTTC-TTCTTTC
23148522 TCTC-CTTTCT
1 TCTCTCTTTCT
23148532 CCCCTTTGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.12
16 8 0.16
17 15 0.30
18 21 0.42
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (17 bp):
TCTCTCTTTCTTCTTTC
Found at i:23149142 original size:7 final size:7
Alignment explanation
Indices: 23149130--23149175 Score: 58
Period size: 7 Copynumber: 6.3 Consensus size: 7
23149120 CCTCTCTATT
23149130 TTTTTTA
1 TTTTTTA
23149137 TTTTTTA
1 TTTTTTA
23149144 TTATTATT-
1 TT-TT-TTA
23149152 TTTTTTA
1 TTTTTTA
23149159 TTTTTTA
1 TTTTTTA
23149166 GTTTTTTA
1 -TTTTTTA
23149174 TT
1 TT
23149176 ATATTTCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 2 0.06
7 20 0.57
8 11 0.31
9 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:23149196 original size:7 final size:7
Alignment explanation
Indices: 23149134--23149217 Score: 58
Period size: 6 Copynumber: 12.9 Consensus size: 7
23149124 TCTATTTTTT
*
23149134 TTATTTT
1 TTATTTA
23149141 TTA-TTA
1 TTATTTA
23149147 TTATTT-
1 TTATTTA
23149153 TT-TTTA
1 TTATTTA
*
23149159 TTTTTTA
1 TTATTTA
*
23149166 GTTTTTTA
1 -TTATTTA
23149174 TTATATT-
1 TTAT-TTA
*
23149181 TCA-TTA
1 TTATTTA
23149187 TTATTTA
1 TTATTTA
23149194 TTATTTA
1 TTATTTA
23149201 -TATTTA
1 TTATTTA
23149207 -TATTTA
1 TTATTTA
23149213 -TATTT
1 TTATTT
23149218 TTTAAAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 15
0.78 0.05 0.18
Matches are distributed among these distances:
5 5 0.08
6 28 0.42
7 24 0.36
8 9 0.14
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:23149204 original size:13 final size:12
Alignment explanation
Indices: 23149126--23149217 Score: 70
Period size: 12 Copynumber: 7.8 Consensus size: 12
23149116 GTTTCCTCTC
*
23149126 TATTTTTTTTAT
1 TATTTTATTTAT
23149138 T-TTTTA-TTAT
1 TATTTTATTTAT
*
23149148 TATTTTTTTTAT
1 TATTTTATTTAT
*
23149160 T-TTTTAGTTTTT
1 TATTTTA-TTTAT
*
23149172 TATTATATTTCAT
1 TATTTTATTT-AT
23149185 TA--TTATTTAT
1 TATTTTATTTAT
23149195 TATTTATATTTA-
1 TATTT-TATTTAT
23149207 TATTTATATTT
1 TATTT-TATTT
23149218 TTTAAAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
10 9 0.14
11 17 0.26
12 26 0.40
13 13 0.20
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:23150123 original size:63 final size:61
Alignment explanation
Indices: 23149939--23150216 Score: 307
Period size: 63 Copynumber: 4.6 Consensus size: 61
23149929 NNNNNNNNNN
* * * * *
23149939 GGCTCGATCTATCTCAAAACAGGTTCGATTT--AAAAATTAAAACTCCTA-ACTTAAT-TT
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAAACTGAAATTCCTAGACTTAATCTA
* *
23149996 GGACTCGACCTATCTCAAAACATGTTCGATTTAAAAAAACTGAAATTCCTAGACTTAATATA
1 GG-CTCGACCTATCTCAAAACAGGTTCGATTTAAAAAAACTGAAATTCCTAGACTTAATCTA
* * **
23150058 GGCTCGACCTATCTCATAACAGGTTTGATTTAAAAAAAAACTGAAATTTTTAGACTTAATCTA
1 GGCTCGACCTATCTCAAAACAGGTTCGATTT--AAAAAAACTGAAATTCCTAGACTTAATCTA
* * * * * * *
23150121 GGCTCAACCTATCTTATAATAGGTTCGATTT--AAAAATTAAAATTCCTAGACTTGATCTA
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAAACTGAAATTCCTAGACTTAATCTA
* *
23150180 GGCTCGACTTATCTCAAAACATGTTCGATTTAAAAAA
1 GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAA
23150217 TTGATGCTAA
Statistics
Matches: 185, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
57 2 0.01
58 27 0.15
59 48 0.26
60 14 0.08
61 37 0.20
62 3 0.02
63 54 0.29
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (61 bp):
GGCTCGACCTATCTCAAAACAGGTTCGATTTAAAAAAACTGAAATTCCTAGACTTAATCTA
Found at i:23151158 original size:10 final size:10
Alignment explanation
Indices: 23151145--23151183 Score: 60
Period size: 11 Copynumber: 3.7 Consensus size: 10
23151135 ATATTTTTTG
23151145 TTTTTTTGTT
1 TTTTTTTGTT
23151155 TTTTTTTGTT
1 TTTTTTTGTT
23151165 TTATTTTTGTT
1 TT-TTTTTGTT
23151176 TGTTTTTT
1 T-TTTTTT
23151184 TTAAGCATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 12 0.44
11 14 0.52
12 1 0.04
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:23152542 original size:20 final size:20
Alignment explanation
Indices: 23152517--23152562 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
23152507 TTTTGGCCCC
23152517 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
23152537 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
23152557 ATTTGA
1 ATTTGA
23152563 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:23171245 original size:20 final size:20
Alignment explanation
Indices: 23171220--23171268 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
23171210 TGTGGGTTTT
23171220 GGTGTTGGTGTTTGTGGGTG
1 GGTGTTGGTGTTTGTGGGTG
23171240 GGTGTTGGTGTTTGTGGGTG
1 GGTGTTGGTGTTTGTGGGTG
23171260 GGTGTTGGT
1 GGTGTTGGT
23171269 TCAAAATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.55, T:0.45
Consensus pattern (20 bp):
GGTGTTGGTGTTTGTGGGTG
Found at i:23176634 original size:3 final size:3
Alignment explanation
Indices: 23176626--23176668 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
23176616 TTTCCCTCAT
23176626 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23176669 ATGTCCTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23177258 original size:13 final size:13
Alignment explanation
Indices: 23177240--23177275 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
23177230 CCGTTTGAGG
23177240 TTTTTTTCTCTTT
1 TTTTTTTCTCTTT
23177253 TTTTTTTCT-TTT
1 TTTTTTTCTCTTT
*
23177265 TCTTTTTCTCT
1 TTTTTTTCTCT
23177276 CATTTCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:23177281 original size:15 final size:14
Alignment explanation
Indices: 23177242--23177304 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
23177232 GTTTGAGGTT
23177242 TTTTTCTCT-TTT-
1 TTTTTCTCTATTTC
*
23177254 TTTTT-TCTTTTTC
1 TTTTTCTCTATTTC
23177267 TTTTTCTCTCATTTC
1 TTTTTCTCT-ATTTC
* * *
23177282 TTATTCTCTATCTA
1 TTTTTCTCTATTTC
23177296 TTTTTCTCT
1 TTTTTCTCT
23177305 TTCTCTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
11 3 0.07
12 8 0.19
13 5 0.12
14 14 0.33
15 12 0.29
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCTCTATTTC
Found at i:23177319 original size:12 final size:12
Alignment explanation
Indices: 23177242--23177405 Score: 50
Period size: 13 Copynumber: 13.1 Consensus size: 12
23177232 GTTTGAGGTT
*
23177242 TTTTTCTCTTTTT
1 TTTTTCTC-TTTC
*
23177255 TTTTTCTTTTTC
1 TTTTTCTCTTTC
23177267 TTTTTCTCTCATTTC
1 -TTTT-TCTC-TTTC
* *
23177282 TTATTCTCTATCTA
1 TTTTTCTCT-T-TC
23177296 TTTTTCTCTTTC
1 TTTTTCTCTTTC
* *
23177308 TCTTTCTTTTTCC
1 TTTTTCTCTTT-C
* * * *
23177321 CTTGTCACTGATC
1 TTTTTCTCT-TTC
* *
23177334 TCTTCTCTCTCTC
1 T-TTTTCTCTTTC
*
23177347 TTCTTCTC--TC
1 TTTTTCTCTTTC
23177357 ATTTTT-TCTTTC
1 -TTTTTCTCTTTC
*
23177369 CTTTT-TCTTTC
1 TTTTTCTCTTTC
*
23177380 TTCCTTCTCTTTC
1 TT-TTTCTCTTTC
23177393 TTTCTT-TCTTTC
1 TTT-TTCTCTTTC
23177405 T
1 T
23177406 CTCCTTTATC
Statistics
Matches: 111, Mismatches: 26, Indels: 29
0.67 0.16 0.17
Matches are distributed among these distances:
10 4 0.04
11 15 0.14
12 30 0.27
13 36 0.32
14 22 0.20
15 4 0.04
ACGTcount: A:0.04, C:0.27, G:0.01, T:0.67
Consensus pattern (12 bp):
TTTTTCTCTTTC
Found at i:23177379 original size:4 final size:4
Alignment explanation
Indices: 23177361--23177405 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
23177351 TCTCTCATTT
* *
23177361 TTTC TTTC CTT- TTTC TTTC TTCC TTCTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTTC TTTC TTTC T
23177406 CTCCTTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 2 0.06
4 30 0.86
5 3 0.09
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:23177989 original size:7 final size:7
Alignment explanation
Indices: 23177977--23178072 Score: 58
Period size: 7 Copynumber: 13.9 Consensus size: 7
23177967 TTCCTCTCTT
23177977 TTTTTTA
1 TTTTTTA
23177984 TTTTTT-
1 TTTTTTA
*
23177990 TATTATTA
1 T-TTTTTA
**
23177998 TTTTAAA
1 TTTTTTA
*
23178005 TTTATT-
1 TTTTTTA
23178011 TTTTTTA
1 TTTTTTA
23178018 GTTTTTTA
1 -TTTTTTA
*
23178026 --TTATA
1 TTTTTTA
23178031 TTTTATTA
1 TTTT-TTA
*
23178039 TTATTTA
1 TTTTTTA
*
23178046 TTATTTA
1 TTTTTTA
23178053 -TTTTTA
1 TTTTTTA
23178059 TATTTTTA
1 T-TTTTTA
23178067 TTTTTT
1 TTTTTT
23178073 GAAATAGGTG
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
5 4 0.06
6 11 0.16
7 33 0.49
8 20 0.29
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:23177990 original size:10 final size:10
Alignment explanation
Indices: 23177975--23178070 Score: 59
Period size: 10 Copynumber: 8.8 Consensus size: 10
23177965 GTTTCCTCTC
23177975 TTTTTTTTAT
1 TTTTTTTTAT
23177985 TTTTTTATTAT
1 TTTTTT-TTAT
23177996 TATTTTAAATTTA-
1 T-TTTT---TTTAT
23178009 TTTTTTTTAGT
1 TTTTTTTTA-T
*
23178020 TTTTTATTAT
1 TTTTTTTTAT
* *
23178030 ATTTTATTAT
1 TTTTTTTTAT
* *
23178040 TATTTATTAT
1 TTTTTTTTAT
23178050 TTATTTTTATAT
1 TT-TTTTT-TAT
23178062 TTTTATTTT
1 TTTT-TTTT
23178071 TTGAAATAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
9 4 0.06
10 25 0.36
11 20 0.29
12 16 0.23
13 1 0.01
14 3 0.04
15 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:23178057 original size:41 final size:40
Alignment explanation
Indices: 23177977--23178072 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 40
23177967 TTCCTCTCTT
23177977 TTTTTTATTTTTTTATTATTATTTTAAATTTATTTTTTTTA
1 TTTTTTATTTTTTTATTATTATTTT-AATTTATTTTTTTTA
23178018 GTTTTTTATTATATTTTATTATTA-TTT-A-TTATTTATTTTTA
1 -TTTTTTATT-T-TTTTATTATTATTTTAATTTATTT-TTTTTA
23178059 TATTTTTATTTTTT
1 T-TTTTTATTTTTT
23178073 GAAATAGGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
39 3 0.06
40 8 0.16
41 15 0.30
42 9 0.18
43 4 0.08
44 11 0.22
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (40 bp):
TTTTTTATTTTTTTATTATTATTTTAATTTATTTTTTTTA
Found at i:23184695 original size:2 final size:2
Alignment explanation
Indices: 23184688--23184736 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
23184678 TTATGGTTTG
* *
23184688 TA TA TA TA TA TA TA TA TA TA NT- TA TG T- TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
23184729 TA TA TA TA
1 TA TA TA TA
23184737 GCCTTCAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.93
3 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23219185 original size:34 final size:34
Alignment explanation
Indices: 23219133--23219600 Score: 228
Period size: 34 Copynumber: 13.8 Consensus size: 34
23219123 GTGTAAGGGT
* * * * *
23219133 TCTTGCAAGCTTAGAAGGTTTCATGATTGGAACG
1 TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* **
23219167 TCTTGTAAGGTTAAAAGGTGT-AAGAATTATAAA-
1 TCTTGTAAGGTTAAAAGGTTTCAAG-ATTGGAAAG
* * * * *
23219200 CCTTGCAAGGTTAGAAGGTTTCAATAATGGAAAG
1 TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* * *
23219234 TATTGTAAGGTTAAAAGAG--TC-AGAACTGTAAAG
1 TCTTGTAAGGTTAAAAG-GTTTCAAG-ATTGGAAAG
** *
23219267 -CTTGTAAGGTTTCAAGGTTTCAAGATCGGAAAG
1 TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* *
23219300 TATTGTAAGGTTAAAAGGTTTTAAGATTGGAAAG
1 TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* * **
23219334 -CATTGTAAGGTTCAAAGGTGTCGGGATTGGAAA-
1 TC-TTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* * * * *
23219367 ACGTGTGAGGTTAGAAGGTTTCAAGATCGGAAAG
1 TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* * *
23219401 -CATTGAAAGGTTAAAACTTCAAAGCTTTCAAGATTGGGAAG
1 TC-TTGTAAGGTT---A----AAAGGTTTCAAGATTGGAAAG
*
23219442 -CTTGTAAGGTTAGAAGGTTTCAAGATTGGAAAG
1 TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* ** ** * *
23219475 -CATTGTAAGCTTAAAAGGTCACTGGGTTTGAGAA-
1 TC-TTGTAAGGTTAAAAGGTTTCAAGATTGGA-AAG
* * * *
23219509 -CTTGTAAAGTTACAAGGTTTCAAGATGGGAAAC
1 TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
* * *
23219542 TATTGTAAGATTAAAAAGTTTCAAGATTTGGAAA-
1 TCTTGTAAGGTTAAAAGGTTTCAAGA-TTGGAAAG
* * * *
23219576 -ATTATAAGGTTATAAGATTTCAAGA
1 TCTTGTAAGGTTAAAAGGTTTCAAGA
23219601 ATGAAAGGTA
Statistics
Matches: 321, Mismatches: 88, Indels: 51
0.70 0.19 0.11
Matches are distributed among these distances:
31 1 0.00
32 16 0.05
33 123 0.38
34 143 0.45
35 9 0.03
37 2 0.01
40 9 0.03
41 18 0.06
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (34 bp):
TCTTGTAAGGTTAAAAGGTTTCAAGATTGGAAAG
Found at i:23219242 original size:67 final size:67
Alignment explanation
Indices: 23219134--23219318 Score: 214
Period size: 66 Copynumber: 2.8 Consensus size: 67
23219124 TGTAAGGGTT
* * * * *
23219134 CTTGCAAGCTTAGAAGGTTTC-ATGATTGGAACGTCTTGTAAGGTTAAAAGGTGTAAGAATTATA
1 CTTGCAAGGTTAGAAGGTTTCAAT-AATGGAAAGTATTGTAAGGTTAAAAGGTGTAAGAACTATA
23219198 AAC
65 AAC
* * *
23219201 CTTGCAAGGTTAGAAGGTTTCAATAATGGAAAGTATTGTAAGGTTAAAA-GAGTCAGAACTGTAA
1 CTTGCAAGGTTAGAAGGTTTCAATAATGGAAAGTATTGTAAGGTTAAAAGGTGTAAGAACTATAA
*
23219265 AG
66 AC
* ** *
23219267 CTTGTAAGGTTTCAAGGTTTCAA-GATCGGAAAGTATTGTAAGGTTAAAAGGT
1 CTTGCAAGGTTAGAAGGTTTCAATAAT-GGAAAGTATTGTAAGGTTAAAAGGT
23219319 TTTAAGATTG
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 54 0.53
67 43 0.43
68 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (67 bp):
CTTGCAAGGTTAGAAGGTTTCAATAATGGAAAGTATTGTAAGGTTAAAAGGTGTAAGAACTATAA
AC
Found at i:23219468 original size:33 final size:33
Alignment explanation
Indices: 23219421--23219600 Score: 123
Period size: 33 Copynumber: 5.4 Consensus size: 33
23219411 TTAAAACTTC
* *
23219421 AAAGCTTTCAAGATTGGGAAGCTTGTAAGGTTA
1 AAAGGTTTCAAGATTGGGAAACTTGTAAGGTTA
* *
23219454 GAAGGTTTCAAGATT-GGAAAGCATTGTAAGCTTA
1 AAAGGTTTCAAGATTGGGAAA-C-TTGTAAGGTTA
** ** * * *
23219488 AAAGGTCACTGGGTT-TGAGAACTTGTAAAGTTA
1 AAAGGTTTCAAGATTGGGA-AACTTGTAAGGTTA
* *
23219521 CAAGGTTTCAAGA-TGGGAAACTATTGTAAGATTA
1 AAAGGTTTCAAGATTGGGAAAC--TTGTAAGGTTA
* * * *
23219555 AAAAGTTTCAAGATTTGGAAAATTATAAGGTTA
1 AAAGGTTTCAAGATTGGGAAACTTGTAAGGTTA
* *
23219588 TAAGATTTCAAGA
1 AAAGGTTTCAAGA
23219601 ATGAAAGGTA
Statistics
Matches: 109, Mismatches: 31, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
32 8 0.07
33 51 0.47
34 42 0.39
35 8 0.07
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (33 bp):
AAAGGTTTCAAGATTGGGAAACTTGTAAGGTTA
Found at i:23219526 original size:141 final size:142
Alignment explanation
Indices: 23219284--23219557 Score: 347
Period size: 141 Copynumber: 1.9 Consensus size: 142
23219274 GGTTTCAAGG
* * *
23219284 TTTCAAGATCGGAAAGTATTGTAAGGTTAAAAGGTTTTAAGATTGGAAAGCATTGTAAGGTTCAA
1 TTTCAAGATCGGAAAGTATTGTAAGGTTAAAAGGTTTCAAGATTGGAAAGCATTGTAAGCTTAAA
** * * * *
23219349 AGGTGTCGGGATTGGAAAACGTGTGAGGTTAGAAGGTTTCAAGATCGGAAAGC-ATTGAAAGGTT
66 AGGTCACGGGATTGGAAAACGTGTAAAGTTACAAGGTTTCAAGATCGGAAA-CTATTGAAAGATT
23219413 AAAACTTCAAAGC
130 AAAACTTCAAAGC
* * * *
23219426 TTTCAAGATTGGGAAG-CTTGTAAGGTTAGAAGGTTTCAAGATTGGAAAGCATTGTAAGCTTAAA
1 TTTCAAGATCGGAAAGTATTGTAAGGTTAAAAGGTTTCAAGATTGGAAAGCATTGTAAGCTTAAA
* * * * *
23219490 AGGTCACTGGG-TTTGAGAACTTGTAAAGTTACAAGGTTTCAAGATGGGAAACTATTGTAAGATT
66 AGGTCAC-GGGATTGGAAAACGTGTAAAGTTACAAGGTTTCAAGATCGGAAACTATTGAAAGATT
23219554 AAAA
130 AAAA
23219558 AGTTTCAAGA
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
140 1 0.01
141 94 0.84
142 17 0.15
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (142 bp):
TTTCAAGATCGGAAAGTATTGTAAGGTTAAAAGGTTTCAAGATTGGAAAGCATTGTAAGCTTAAA
AGGTCACGGGATTGGAAAACGTGTAAAGTTACAAGGTTTCAAGATCGGAAACTATTGAAAGATTA
AAACTTCAAAGC
Found at i:23225895 original size:30 final size:30
Alignment explanation
Indices: 23225861--23225924 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
23225851 AACAGAAAAA
23225861 AAGAAATCTACAGCTTACGTGAAGATTCTC
1 AAGAAATCTACAGCTTACGTGAAGATTCTC
23225891 AAGAAATCTACAGCTTACGTGAAGATTCTC
1 AAGAAATCTACAGCTTACGTGAAGATTCTC
23225921 AAGA
1 AAGA
23225925 TGTCATATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (30 bp):
AAGAAATCTACAGCTTACGTGAAGATTCTC
Found at i:23240852 original size:10 final size:10
Alignment explanation
Indices: 23240823--23240855 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23240813 TATTTCTTAC
23240823 TTTTATATAT
1 TTTTATATAT
23240833 TTTT-TA-AT
1 TTTTATATAT
23240841 TTTTATATAT
1 TTTTATATAT
23240851 TTTTA
1 TTTTA
23240856 ATCTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.29
9 4 0.19
10 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATATAT
Found at i:23254893 original size:30 final size:30
Alignment explanation
Indices: 23254859--23255075 Score: 373
Period size: 30 Copynumber: 7.2 Consensus size: 30
23254849 CACGATAAGT
*
23254859 GCATTTGTAGTCTGGGCAGCCTCTCTATTA
1 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
23254889 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
1 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
* *
23254919 GCATTTGTAGTCTGGGCAGCCTCTATATCG
1 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
23254949 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
1 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
*
23254979 GCATTTGTAGTCTGGGCAGCCTCTAC-ATCG
1 GCATTTGTAGTCTGGGCAGCCTCT-CTATTG
*
23255009 GCATTTGTAGTCTGGGCAGCCTCTCTATCG
1 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
23255039 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
1 GCATTTGTAGTCTGGGCAGCCTCTCTATTG
23255069 GCATTTG
1 GCATTTG
23255076 CCTCCTCCAG
Statistics
Matches: 178, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
29 1 0.01
30 176 0.99
31 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (30 bp):
GCATTTGTAGTCTGGGCAGCCTCTCTATTG
Found at i:23257507 original size:4 final size:4
Alignment explanation
Indices: 23257498--23257531 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
23257488 TTTTCTCCAG
*
23257498 AAGA AAGA AAGA AAGA AAGA AAGA TAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
23257532 AGCTATTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:23261707 original size:19 final size:19
Alignment explanation
Indices: 23261683--23261746 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
23261673 TAGCCGACGC
*
23261683 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
****
23261702 CATCGTGTACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
23261721 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
23261740 CATCGTG
1 CATCGTG
23261747 CACACACACG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 4 0.12
19 26 0.76
20 4 0.12
ACGTcount: A:0.20, C:0.39, G:0.17, T:0.23
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:23261802 original size:2 final size:2
Alignment explanation
Indices: 23261791--23261823 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23261781 AATCATCATG
23261791 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
23261824 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:23263423 original size:23 final size:23
Alignment explanation
Indices: 23263390--23263443 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
23263380 TACATATACT
*
23263390 CATCATTATCATGCACACCATCC
1 CATCATCATCATGCACACCATCC
*
23263413 CATCATCATCATGCACACCATCT
1 CATCATCATCATGCACACCATCC
23263436 CATCATCA
1 CATCATCA
23263444 CTAGCTCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.39, G:0.04, T:0.26
Consensus pattern (23 bp):
CATCATCATCATGCACACCATCC
Found at i:23263525 original size:43 final size:43
Alignment explanation
Indices: 23263461--23263560 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
23263451 ATGCGTACTG
** * ***
23263461 CCTACTCGCACATGGCTGGGTCATCACCGGGTTATGCACACTC
1 CCTACTCGCACATAACCGGGTCATCACCGACCTATGCACACTC
* * * *
23263504 TCTACTCGCACATAACCGGGTCTTCATCGACCTATGCGCACTC
1 CCTACTCGCACATAACCGGGTCATCACCGACCTATGCACACTC
23263547 CCTACTCGCACATA
1 CCTACTCGCACATA
23263561 GTCGAGTCAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (43 bp):
CCTACTCGCACATAACCGGGTCATCACCGACCTATGCACACTC
Found at i:23265284 original size:19 final size:19
Alignment explanation
Indices: 23265234--23265286 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
23265224 GAAGAAGAAG
*
23265234 AAGAAGCTGCTGAAATTTC
1 AAGAAGCTGCTGGAATTTC
23265253 AAGAAGCTGCTGGAATTTC
1 AAGAAGCTGCTGGAATTTC
23265272 AAGAAGCTGCTGGAA
1 AAGAAGCTGCTGGAA
23265287 GGAGAAGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (19 bp):
AAGAAGCTGCTGGAATTTC
Found at i:23265294 original size:19 final size:19
Alignment explanation
Indices: 23265252--23265294 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
23265242 GCTGAAATTT
***
23265252 CAAGAAGCTGCTGGAATTT
1 CAAGAAGCTGCTGGAAGGA
23265271 CAAGAAGCTGCTGGAAGGA
1 CAAGAAGCTGCTGGAAGGA
*
23265290 GAAGA
1 CAAGA
23265295 TATTTATAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.33, T:0.16
Consensus pattern (19 bp):
CAAGAAGCTGCTGGAAGGA
Found at i:23266950 original size:43 final size:43
Alignment explanation
Indices: 23266902--23267063 Score: 193
Period size: 43 Copynumber: 3.8 Consensus size: 43
23266892 ATCGTCATGT
* *
23266902 GCACTCCCTACTGGCACATAATCGGGTCATCATCGACTTATGC
1 GCACTCCCTACTCGCACATAACCGGGTCATCATCGACTTATGC
* * *
23266945 GCACTCCCTACTCGCACATAGCCGGATCATCATCGGCTTATGC
1 GCACTCCCTACTCGCACATAACCGGGTCATCATCGACTTATGC
* * * *
23266988 GCACTCCCTACTCACACATAGCCGGGTCATCATC-AGCTCATGT
1 GCACTCCCTACTCGCACATAACCGGGTCATCATCGA-CTTATGC
* *
23267031 GCACTCCCATA-TCGCACATAGCTGGGTCATCAT
1 GCACTCCC-TACTCGCACATAACCGGGTCATCAT
23267064 TATCACACAA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 103 0.98
44 2 0.02
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAACCGGGTCATCATCGACTTATGC
Found at i:23267047 original size:86 final size:86
Alignment explanation
Indices: 23266902--23267063 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 86
23266892 ATCGTCATGT
** * *
23266902 GCACTCCCTACTGGCACATAATCGGGTCATCATCGACTTATGCGCACTCCCTACTCGCACATAGC
1 GCACTCCCTACTCACACATAACCGGGTCATCATCGACTCATGCGCACTCCCTACTCGCACATAGC
23266967 CGGATCATCATCGGCTTATGC
66 CGGATCATCATCGGCTTATGC
* *
23266988 GCACTCCCTACTCACACATAGCCGGGTCATCATC-AGCTCATGTGCACTCCCATA-TCGCACATA
1 GCACTCCCTACTCACACATAACCGGGTCATCATCGA-CTCATGCGCACTCCC-TACTCGCACATA
* *
23267051 GCTGGGTCATCAT
64 GCCGGATCATCAT
23267064 TATCACACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 1 0.02
86 63 0.95
87 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (86 bp):
GCACTCCCTACTCACACATAACCGGGTCATCATCGACTCATGCGCACTCCCTACTCGCACATAGC
CGGATCATCATCGGCTTATGC
Found at i:23288567 original size:43 final size:43
Alignment explanation
Indices: 23288516--23288668 Score: 209
Period size: 43 Copynumber: 3.6 Consensus size: 43
23288506 ATTCATCGTC
* * *
23288516 ATGTGCACTCCCTACCCGCATATAACCGGGTCATCATCAGCTT
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCAGCTT
* * * *
23288559 GTGTGCACTCCCTACTAGCACATAGCCGAGTCATCATCGGCTT
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCAGCTT
* *
23288602 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCATCAGCTC
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCAGCTT
23288645 ATGTGCACTCCC-ACATCGCACATA
1 ATGTGCACTCCCTAC-TCGCACATA
23288669 ACTAGGTCAT
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
42 2 0.02
43 93 0.98
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCAGCTT
Found at i:23290771 original size:39 final size:40
Alignment explanation
Indices: 23290713--23290796 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
23290703 GCATTGTGAA
23290713 AACACCAATTGTGACGAGGTTAG-AAACCCCACTAAGGTG
1 AACACCAATTGTGACGAGGTTAGAAAACCCCACTAAGGTG
* *
23290752 AACACCAATCT-TGAGGAGGTTAGAAAACTCCACTAAGGTG
1 AACACCAAT-TGTGACGAGGTTAGAAAACCCCACTAAGGTG
23290792 AACAC
1 AACAC
23290797 TAGCCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
39 20 0.49
40 21 0.51
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (40 bp):
AACACCAATTGTGACGAGGTTAGAAAACCCCACTAAGGTG
Found at i:23294141 original size:63 final size:63
Alignment explanation
Indices: 23294031--23294189 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 63
23294021 GCACATCATT
* * * *
23294031 ACCGGCATGTGCACTGCCCACTCCGCACATGCATAGTTATAAGTGTCACAACATCTTCATTCG
1 ACCGGCATATGCACTGCCCACTCCGCACATGCACAGTTATAAGTGTCACAACATCGTCATTCA
* * * * *
23294094 ACCGGCATATGCATTGCCCACTCCGTATATGCACGGTTGT-AGTTGTCACAACATCGTCATTCA
1 ACCGGCATATGCACTGCCCACTCCGCACATGCACAGTTATAAG-TGTCACAACATCGTCATTCA
* *
23294157 ACCGGCATATGCACTACCCACTCTGCACATGCA
1 ACCGGCATATGCACTGCCCACTCCGCACATGCA
23294190 TGGTTACATC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 2 0.02
63 79 0.98
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (63 bp):
ACCGGCATATGCACTGCCCACTCCGCACATGCACAGTTATAAGTGTCACAACATCGTCATTCA
Found at i:23307475 original size:108 final size:108
Alignment explanation
Indices: 23307286--23307500 Score: 405
Period size: 108 Copynumber: 2.0 Consensus size: 108
23307276 CTTAAATTAA
23307286 TGTCAAATGTTGACTCTTTCGTGTTAGGTGATATGGAATCCTGAATTTTGCTTGGCATGGAGCAG
1 TGTCAAATGTTGACTCTTTCGTGTTAGGTGATATGGAATCCTGAATTTTGCTTGGCATGGAGCAG
23307351 CCATCCAATGACCCAAAAACAGGGCTCTAGCCTAGAGTAGTAC
66 CCATCCAATGACCCAAAAACAGGGCTCTAGCCTAGAGTAGTAC
23307394 TGTCAAATGTTGACTC-TTCAGTGTTAGGTGATATGGAATCCTGAATTTTGCTTGGCATGGAGCA
1 TGTCAAATGTTGACTCTTTC-GTGTTAGGTGATATGGAATCCTGAATTTTGCTTGGCATGGAGCA
*
23307458 GCCATCCGATGACCCAAAAACAGGGCTCTAGCCTAGAGTAGTA
65 GCCATCCAATGACCCAAAAACAGGGCTCTAGCCTAGAGTAGTA
23307501 GATTCGTAAT
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 3 0.03
108 102 0.97
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (108 bp):
TGTCAAATGTTGACTCTTTCGTGTTAGGTGATATGGAATCCTGAATTTTGCTTGGCATGGAGCAG
CCATCCAATGACCCAAAAACAGGGCTCTAGCCTAGAGTAGTAC
Found at i:23315058 original size:28 final size:28
Alignment explanation
Indices: 23315001--23315056 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23314991 TTTCGAACAT
* *
23315001 AAGGGCAAAATAGTTATTTTGCCACCCC
1 AAGGGCAAAATAGTAATTTTACCACCCC
*
23315029 AAGGGCAAAATGGTAATTTTACACACCC
1 AAGGGCAAAATAGTAATTTTAC-CACCC
23315057 AACACTTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (28 bp):
AAGGGCAAAATAGTAATTTTACCACCCC
Found at i:23315275 original size:11 final size:11
Alignment explanation
Indices: 23315261--23315299 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
23315251 CAGCCAAAAC
23315261 AAGAACAAAGG
1 AAGAACAAAGG
23315272 AAGAACAAAGG
1 AAGAACAAAGG
23315283 AAG-A-AAA-G
1 AAGAACAAAGG
23315291 AAGAACAAA
1 AAGAACAAA
23315300 AACCCTAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 4 0.15
11 14 0.54
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAACAAAGG
Found at i:23315338 original size:21 final size:22
Alignment explanation
Indices: 23315313--23315353 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23315303 CCTAGGTGGA
*
23315313 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
23315334 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
23315354 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:23315354 original size:20 final size:21
Alignment explanation
Indices: 23315313--23315357 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
23315303 CCTAGGTGGA
*
23315313 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
23315334 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
23315354 AAAA
1 AAAA
23315358 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:23315358 original size:21 final size:20
Alignment explanation
Indices: 23315311--23315358 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
23315301 ACCCTAGGTG
*
23315311 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
23315331 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
23315353 GAAAAA
1 GAAAAA
23315359 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:23316983 original size:28 final size:29
Alignment explanation
Indices: 23316942--23317006 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
23316932 GTCTATGGGC
* *
23316942 AATTTTTCAGTTTT-TGGGGTAAAAATGT
1 AATTTTTCACTTTTAGGGGGTAAAAATGT
* *
23316970 AATTTTTGACTTTTACGGGGGTAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGTAAAAATGT
*
23317000 AAATTTT
1 AATTTTT
23317007 AAAAATTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.45
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGTAAAAATGT
Found at i:23318158 original size:13 final size:13
Alignment explanation
Indices: 23318140--23318164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23318130 AGAGAAATTG
23318140 TGATTTTATAAAA
1 TGATTTTATAAAA
23318153 TGATTTTATAAA
1 TGATTTTATAAA
23318165 TTTATTGAAG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23319408 original size:15 final size:15
Alignment explanation
Indices: 23319364--23319409 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
23319354 AGATCAGAGA
* *
23319364 TTTTAATTTTAAAGC
1 TTTTGATTTTAAAGT
*
23319379 TTTGGATTTTAAAGT
1 TTTTGATTTTAAAGT
23319394 TTTTGATTTTAAAGT
1 TTTTGATTTTAAAGT
23319409 T
1 T
23319410 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTTGATTTTAAAGT
Found at i:23324850 original size:13 final size:13
Alignment explanation
Indices: 23324832--23324856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23324822 AGAGAAATTG
23324832 TGATTTTATAAAA
1 TGATTTTATAAAA
23324845 TGATTTTATAAA
1 TGATTTTATAAA
23324857 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23327477 original size:77 final size:77
Alignment explanation
Indices: 23327388--23327615 Score: 302
Period size: 77 Copynumber: 3.0 Consensus size: 77
23327378 ATTAAATGCT
* * *
23327388 ATCCTTAATTTTAGGAATTTCTTTTAAGGTAGAAAATAATTT-TTGTTTCTTTATGAATCACCCA
1 ATCCTTAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCTTG-TTCTTTATGAATCACCCA
23327452 AAATTAAAATTCC
65 AAATTAAAATTCC
* *
23327465 AT-CTGTAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTCTTTATGAATCACCCA
1 ATCCT-TAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCTTGTTCTTTATGAATCACCCA
*
23327529 AAATTAAAATTCT
65 AAATTAAAATTCC
* * * *
23327542 ATCCTTAATTTTAAGAA-TTCACTTTAAAGTAGGAAACAATTTCCTAGTT-TTTATGAATTACCC
1 ATCCTTAATTTTAGGAATTTC-TTTTAAAGTAGGAAACAATTT-CTTGTTCTTTATGAATCACCC
23327605 AAAATTAAAAT
64 AAAATTAAAAT
23327616 AGATGGCATT
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
76 5 0.04
77 123 0.92
78 6 0.04
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (77 bp):
ATCCTTAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCTTGTTCTTTATGAATCACCCAA
AATTAAAATTCC
Found at i:23327605 original size:154 final size:145
Alignment explanation
Indices: 23327325--23327615 Score: 345
Period size: 154 Copynumber: 1.9 Consensus size: 145
23327315 TGCTATCATA
* **
23327325 TAATTTTAGAAATTTCTTTTAAAGTAGGAAACTATTTCCTATGAATCTTCCAAATTAAATGCTAT
1 TAATTTTAGAAATTTCTTTTAAAGTAGGAAACAATTTCCTATGAATCACCCAAATTAAATGCTAT
* * * * *
23327390 CCTTAATTTTAGGAATTTCTTTTAAGGTAGAAAATAATTTTTGTTTCTTTATGAATCACCCAAAA
66 CCTTAATTTTAAGAATTTCCTTTAAAGTAGAAAACAATTTTAGTTTCTTTATGAATCACCCAAAA
23327455 TTAAAATTCCATCTG
131 TTAAAATTCCATCTG
*
23327470 TAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTCTTTATGAATCACCCAAAATTA
1 TAATTTTAGAAATTTCTTTTAAAGTAGGAAACAATTT-C----C--TATGAATCACCC-AAATT-
* *
23327535 AAATTCTATCCTTAATTTTAAGAA-TTCACTTTAAAGTAGGAAACAATTTCCTAG-TT-TTTATG
57 AAATGCTATCCTTAATTTTAAGAATTTC-CTTTAAAGTAGAAAACAATTT--TAGTTTCTTTATG
*
23327597 AATTACCCAAAATTAAAAT
119 AATCACCCAAAATTAAAAT
23327616 AGATGGCATT
Statistics
Matches: 122, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
145 35 0.29
146 1 0.01
150 1 0.01
152 10 0.08
153 8 0.07
154 63 0.52
155 2 0.02
156 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (145 bp):
TAATTTTAGAAATTTCTTTTAAAGTAGGAAACAATTTCCTATGAATCACCCAAATTAAATGCTAT
CCTTAATTTTAAGAATTTCCTTTAAAGTAGAAAACAATTTTAGTTTCTTTATGAATCACCCAAAA
TTAAAATTCCATCTG
Found at i:23336999 original size:16 final size:17
Alignment explanation
Indices: 23336978--23337018 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
23336968 TGAAAAGTTC
*
23336978 TTAAAAAAAT-AACTTT
1 TTAAAAAAATAAAATTT
23336994 TT-AAAAAATAAAATTT
1 TTAAAAAAATAAAATTT
23337010 TTAAAAAAA
1 TTAAAAAAA
23337019 AGAGTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAAAAAATAAAATTT
Found at i:23339741 original size:43 final size:43
Alignment explanation
Indices: 23339693--23339774 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
23339683 TTGACTCGGC
*
23339693 TATGTGCGAGTAAGGAGTGCGCATAAGCCGATGATGACCAGGT
1 TATGTGCGAGTAAGGAGTGCGCATAAACCGATGATGACCAGGT
* *
23339736 TATGTGCGAGTAGGGAGTGCGCATAAACCGGTGATGACC
1 TATGTGCGAGTAAGGAGTGCGCATAAACCGATGATGACC
23339775 CAGCCATGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (43 bp):
TATGTGCGAGTAAGGAGTGCGCATAAACCGATGATGACCAGGT
Found at i:23339784 original size:43 final size:43
Alignment explanation
Indices: 23339694--23339798 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
23339684 TGACTCGGCT
* * **
23339694 ATGTGCGAGTAAGGAGTGCGCATAAGCCGATGATGACCAGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAACCGATGATGACCAGGCC
*
23339737 ATGTGCGAGTAGGGAGTGCGCATAAACCGGTGATGACCCA-GCC
1 ATGTGCGAGTAGGGAGTGCGCATAAACCGATGATGA-CCAGGCC
* *
23339780 ATGTGAGAGTAGAGAGTGC
1 ATGTGCGAGTAGGGAGTGC
23339799 ACATGAGCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 51 0.94
44 3 0.06
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAACCGATGATGACCAGGCC
Found at i:23341246 original size:35 final size:35
Alignment explanation
Indices: 23341200--23341281 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
23341190 GGGATTGCGT
*
23341200 GTGATGATATTGAAGCGTGCGTGTAGGGAGCGCAC
1 GTGATGATATTGAAACGTGCGTGTAGGGAGCGCAC
* *
23341235 GTGATGATATTGAAATGTGCGTGTAGGGAGTGCAC
1 GTGATGATATTGAAACGTGCGTGTAGGGAGCGCAC
* *
23341270 ATGATAATATTG
1 GTGATGATATTG
23341282 CTTTGCGCGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.35, T:0.28
Consensus pattern (35 bp):
GTGATGATATTGAAACGTGCGTGTAGGGAGCGCAC
Found at i:23341292 original size:35 final size:35
Alignment explanation
Indices: 23341218--23341308 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
23341208 ATTGAAGCGT
* * * *
23341218 GCGTGTAGGGAGCGCACGTGATGATATTGAAATGT
1 GCGTGTAGGGAGTGCACATGATAATATTGAAATGC
***
23341253 GCGTGTAGGGAGTGCACATGATAATATTGCTTTGC
1 GCGTGTAGGGAGTGCACATGATAATATTGAAATGC
23341288 GCGTGTAGGGAGTGCACATGA
1 GCGTGTAGGGAGTGCACATGA
23341309 GTTGAGTAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.26
Consensus pattern (35 bp):
GCGTGTAGGGAGTGCACATGATAATATTGAAATGC
Found at i:23342624 original size:10 final size:9
Alignment explanation
Indices: 23342601--23342625 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23342591 AATGGCATAA
23342601 GAAAAAGAC
1 GAAAAAGAC
23342610 GAAAAAGAC
1 GAAAAAGAC
23342619 GAAAAAG
1 GAAAAAG
23342626 GCAATTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (9 bp):
GAAAAAGAC
Found at i:23344942 original size:2 final size:2
Alignment explanation
Indices: 23344935--23344963 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23344925 ATTATATTGG
23344935 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23344964 GTTGTGCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23345161 original size:78 final size:80
Alignment explanation
Indices: 23345079--23345224 Score: 206
Period size: 78 Copynumber: 1.9 Consensus size: 80
23345069 ATAGTGCCCG
* * * * * *
23345079 TGTGCACGATGTGGGGGGATGTACATGATGGC-ACTGAT-TGTGCACAATGTGGGGGGATGCACA
1 TGTGCACAATGTGGGGGGATGCACATGATGACTACGGATATGAGCACAATGTAGGGGGATGCACA
23345142 TGATGACTCCGGCTA
66 TGATGACTCCGGCTA
* *
23345157 TGTGCACAATGTGGGGGGATGCACATGATGACTCCGGCTATGAGCACAATGTAGGGGGATGCACA
1 TGTGCACAATGTGGGGGGATGCACATGATGACTACGGATATGAGCACAATGTAGGGGGATGCACA
23345222 TGA
66 TGA
23345225 GCTGGATGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 29 0.50
79 3 0.05
80 26 0.45
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (80 bp):
TGTGCACAATGTGGGGGGATGCACATGATGACTACGGATATGAGCACAATGTAGGGGGATGCACA
TGATGACTCCGGCTA
Found at i:23345172 original size:40 final size:40
Alignment explanation
Indices: 23345079--23345224 Score: 206
Period size: 40 Copynumber: 3.7 Consensus size: 40
23345069 ATAGTGCCCG
* * * * * *
23345079 TGTGCACGATGTGGGGGGATGTACATGATGGC-ACTGAT-
1 TGTGCACAATGTGGGGGGATGCACATGATGACTCCGGCTA
23345117 TGTGCACAATGTGGGGGGATGCACATGATGACTCCGGCTA
1 TGTGCACAATGTGGGGGGATGCACATGATGACTCCGGCTA
23345157 TGTGCACAATGTGGGGGGATGCACATGATGACTCCGGCTA
1 TGTGCACAATGTGGGGGGATGCACATGATGACTCCGGCTA
* *
23345197 TGAGCACAATGTAGGGGGATGCACATGA
1 TGTGCACAATGTGGGGGGATGCACATGA
23345225 GCTGGATGTG
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 29 0.30
39 3 0.03
40 66 0.67
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (40 bp):
TGTGCACAATGTGGGGGGATGCACATGATGACTCCGGCTA
Found at i:23364110 original size:35 final size:35
Alignment explanation
Indices: 23364018--23364132 Score: 131
Period size: 35 Copynumber: 3.3 Consensus size: 35
23364008 ATGATGTGGC
* *** *
23364018 GGGAGTGCATGTGATGATATTGAAATGTGTGTGTA
1 GGGAGTGCACGTGATGATATTGCCTTGTGAGTGTA
** *
23364053 GGGAGTGCATATGATGATATTGCCTTGTGCGTGTA
1 GGGAGTGCACGTGATGATATTGCCTTGTGAGTGTA
* *
23364088 GGGAGTGCACGTGATGGTATTGCCTTATGAGTGTA
1 GGGAGTGCACGTGATGATATTGCCTTGTGAGTGTA
*
23364123 AGGAGTGCAC
1 GGGAGTGCAC
23364133 ATGAGCTGAG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.23, C:0.10, G:0.37, T:0.31
Consensus pattern (35 bp):
GGGAGTGCACGTGATGATATTGCCTTGTGAGTGTA
Found at i:23365043 original size:6 final size:6
Alignment explanation
Indices: 23365032--23365059 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23365022 AGATTACTAG
23365032 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
23365060 CCTGACAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:23367568 original size:2 final size:2
Alignment explanation
Indices: 23367525--23367560 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23367515 TTGTTTTTGT
23367525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23367561 AGTATATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23368765 original size:2 final size:2
Alignment explanation
Indices: 23368758--23368803 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
23368748 AAATCAAAAT
* *
23368758 TA TA TA TA TA TA CA TA TA TA TA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23368800 TA TA
1 TA TA
23368804 CAAACAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:23368779 original size:16 final size:16
Alignment explanation
Indices: 23368758--23368801 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
23368748 AAATCAAAAT
23368758 TATATATATATACATA
1 TATATATATATACATA
23368774 TATATATATATACATA
1 TATATATATATACATA
23368790 TATATATATATA
1 TATATATATATA
23368802 TACAAACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATATATATACATA
Found at i:23371489 original size:40 final size:38
Alignment explanation
Indices: 23371445--23371547 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
23371435 CCCCAGCTCA
* *
23371445 TGTGCATCCCCCCACATCGTGCACATAGCTGGA-GTCATCG
1 TGTGCATCCCCCCACATCGTGCACAT--CT-AATGCCATCG
* * * *
23371485 TGTGCATTCCCCTACATCGTACACATCTAATGCCGTCG
1 TGTGCATCCCCCCACATCGTGCACATCTAATGCCATCG
*
23371523 TGTACATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
23371548 CGGGCAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.02
38 28 0.54
40 23 0.44
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.24
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACATCTAATGCCATCG
Found at i:23380180 original size:68 final size:68
Alignment explanation
Indices: 23380071--23380332 Score: 290
Period size: 68 Copynumber: 3.9 Consensus size: 68
23380061 ACATGCTTAC
* * * *
23380071 TCATCTCATAAGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCAAGCTTTCT
1 TCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACT
*
23380136 CAA
66 AAA
* * * * * *
23380139 TCATCTAATGTAGTATATGGAATATACATCATATACATAATCGCATGGCATTTATCATGCATACT
1 TCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACT
*
23380204 TAA
66 AAA
* * * * * * * *
23380207 TCACCTCATATGGTATAGGGAATTTACATCATATCCACAATCTTATAGTATACATCATGCATACT
1 TCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACT
23380272 AAA
66 AAA
* * * * * *
23380275 TCATCCCATATGGTATAAGAAATTTACATGATACACATAATCTTATGGCATTCATCAT
1 TCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCAT
23380333 ACCAAACATG
Statistics
Matches: 157, Mismatches: 37, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 157 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (68 bp):
TCATCTCATATGGTATATGGAATTTACATCATATACATAATCTCATGGCATTCATCATGCATACT
AAA
Done.