Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 7 of 211
Found at i:2182576 original size:30 final size:30
Alignment explanation
Indices: 2182542--2182599 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
2182532 TCTGAGATTT
*
2182542 GGGGCAAAAGTGTAAATATATAAAAGTTTA
1 GGGGCAAAAGTGTAAATATACAAAAGTTTA
*
2182572 GGGGCAAAAGTGTAAATATGCAAAAGTT
1 GGGGCAAAAGTGTAAATATACAAAAGTT
2182600 CGAGTCAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATACAAAAGTTTA
Found at i:2183028 original size:42 final size:41
Alignment explanation
Indices: 2182930--2183125 Score: 173
Period size: 41 Copynumber: 4.7 Consensus size: 41
2182920 CATTGAATGT
* * *
2182930 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCACT-AATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATC-TA
* * *
2182971 AAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATCTA
* * *
2183012 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCAC-TGAATCT-A
* * * * *
2183056 AAGGGGTTGATATGTGTTGATTCCCCGTATCACTGAATAT-
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATCTA
*
2183096 AAGGTGGTTGCTAAGTGTTGATTCCACCGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGA
2183126 GTAACGGTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
40 4 0.03
41 53 0.41
42 38 0.29
43 29 0.22
44 5 0.04
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATCTA
Found at i:2183118 original size:84 final size:85
Alignment explanation
Indices: 2182970--2183124 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 85
2182960 CACTAATCAA
* * * * *
2182970 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGATAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATT
2183035 CCACCGTATCCTTGATTGTG
66 CCACCGTATCCTTGATTGTG
* * * *
2183055 AAAGGGGTTGATATGTGTTGATTCCCCGTATCACTGAATAT-AAGGTGGTTGCTAAGTGTTGATT
1 AAAGGGGTTGATAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATT
2183119 CCACCG
66 CCACCG
2183125 AGTAACGGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 28 0.46
85 33 0.54
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (85 bp):
AAAGGGGTTGATAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATT
CCACCGTATCCTTGATTGTG
Found at i:2185820 original size:42 final size:43
Alignment explanation
Indices: 2185761--2185925 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 43
2185751 TTAGGGTTAC
2185761 TGAGATTACGTGTAAGACCATATCTAGGATA-TGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATTGGCATCGATA
* * *
2185803 TGAGACTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTAGGATATTGGCATCGATA
* * * ** * * *
2185846 TGTGATTTCGTGTAAGACTATGGCTGGGCTATTGGCATCAATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATTGGCATCGATA
** * * *
2185889 CAATATTACATGTAATACCATATCTAGGATA-TGGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATTGGCAT
2185926 TGTTACGGTA
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
42 33 0.33
43 66 0.67
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATTGGCATCGATA
Found at i:2186201 original size:12 final size:12
Alignment explanation
Indices: 2186184--2186215 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
2186174 GAAATGAGAA
2186184 AGATATGTGTTT
1 AGATATGTGTTT
2186196 AGATATGTGTTT
1 AGATATGTGTTT
2186208 AGATATGT
1 AGATATGT
2186216 TGTATACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (12 bp):
AGATATGTGTTT
Found at i:2188405 original size:30 final size:30
Alignment explanation
Indices: 2188336--2188416 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
2188326 GATATACGGG
* * *
2188336 AATA-AGTTGCTCGCACGAGCTGACAGTAT
1 AATAGAGTTGCTCACACAAGCTAACAGTAT
** * *
2188365 ACCAGGGTTGCTCACACAAGCTAACATTAT
1 AATAGAGTTGCTCACACAAGCTAACAGTAT
2188395 AATAGAGTTGCTCACACAAGCT
1 AATAGAGTTGCTCACACAAGCT
2188417 GGTATTATAT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 2 0.05
30 39 0.95
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (30 bp):
AATAGAGTTGCTCACACAAGCTAACAGTAT
Found at i:2190892 original size:9 final size:9
Alignment explanation
Indices: 2190878--2190908 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2190868 GTTAAATGAA
2190878 TCGAGTTAT
1 TCGAGTTAT
*
2190887 TCGAGTTAA
1 TCGAGTTAT
2190896 TCGAGTTAT
1 TCGAGTTAT
2190905 TCGA
1 TCGA
2190909 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:2194602 original size:27 final size:29
Alignment explanation
Indices: 2194532--2194603 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 29
2194522 CCGAATATAA
*
2194532 TAAATATATATTTTTAATTTTTAATTATTTT
1 TAAA-ATAAATTTTTAATTTTT-ATTATTTT
* *
2194563 TAAAAT-ACTTTTTTATTTTT-TTATTTT
1 TAAAATAAATTTTTAATTTTTATTATTTT
2194590 TAAAATAAATTTTT
1 TAAAATAAATTTTT
2194604 GGTGTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.36
28 6 0.17
29 11 0.31
30 2 0.06
31 4 0.11
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TAAAATAAATTTTTAATTTTTATTATTTT
Found at i:2198399 original size:21 final size:22
Alignment explanation
Indices: 2198373--2198419 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
2198363 CTCTGCTCAA
*
2198373 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
2198394 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
2198416 ACTC
1 ACTC
2198420 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:2205632 original size:16 final size:16
Alignment explanation
Indices: 2205611--2205657 Score: 69
Period size: 15 Copynumber: 2.9 Consensus size: 16
2205601 GGACCAACCT
2205611 TATTAATTAATTTTAC
1 TATTAATTAATTTTAC
*
2205627 TATTAAATTAATTTT-T
1 TATT-AATTAATTTTAC
2205643 TATTAATTAATTTTA
1 TATTAATTAATTTTA
2205658 GAGATAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 10 0.36
16 8 0.29
17 10 0.36
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTAATTAATTTTAC
Found at i:2217157 original size:42 final size:43
Alignment explanation
Indices: 2217110--2217196 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 43
2217100 AATTTAATAA
* *
2217110 ATAAA-TAATAAATAATAAAATCA-TATTTTAATATTATT-AAAT
1 ATAAATTAATAAA-AATAAAAT-AGAATTTTAATATAATTCAAAT
*
2217152 ATAAATTAATAAAAATAATATAGAATTTTAATATAATTCAAAT
1 ATAAATTAATAAAAATAAAATAGAATTTTAATATAATTCAAAT
2217195 AT
1 AT
2217197 TTTATTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.03
42 25 0.64
43 13 0.33
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (43 bp):
ATAAATTAATAAAAATAAAATAGAATTTTAATATAATTCAAAT
Found at i:2219982 original size:25 final size:25
Alignment explanation
Indices: 2219954--2220015 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
2219944 TTGAGCCTTG
2219954 TAACAGGAAGCTTATCC-GAGCAATA
1 TAACAGGAAGCTTATCCAG-GCAATA
*
2219979 TAACACGAAGCTTATCCAGGCAATA
1 TAACAGGAAGCTTATCCAGGCAATA
*
2220004 TAACGGGAAGCT
1 TAACAGGAAGCT
2220016 CACAAAGAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (25 bp):
TAACAGGAAGCTTATCCAGGCAATA
Found at i:2220048 original size:24 final size:24
Alignment explanation
Indices: 2220033--2220080 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2220023 AGTCTATAAT
2220033 GGGTAGATCCGAAGAGCAATTAAC
1 GGGTAGATCCGAAGAGCAATTAAC
2220057 GGGTAGATCCGAAGAGCAATTAAC
1 GGGTAGATCCGAAGAGCAATTAAC
2220081 AGGAAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.17
Consensus pattern (24 bp):
GGGTAGATCCGAAGAGCAATTAAC
Found at i:2221103 original size:25 final size:25
Alignment explanation
Indices: 2221075--2221126 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2221065 ACATAAAAAT
2221075 TTCAAGGAAAGAACAAGAATTAAAC
1 TTCAAGGAAAGAACAAGAATTAAAC
2221100 TTCAAGGAAAGAACAAGAATTAAAC
1 TTCAAGGAAAGAACAAGAATTAAAC
2221125 TT
1 TT
2221127 ACATGAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (25 bp):
TTCAAGGAAAGAACAAGAATTAAAC
Found at i:2231322 original size:32 final size:32
Alignment explanation
Indices: 2231286--2231350 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
2231276 ACATGGATCC
*
2231286 TTTGTTCAATTATTGTAAATGTAAATTCTCTT
1 TTTGTTCAATCATTGTAAATGTAAATTCTCTT
*
2231318 TTTGTTCAATCATTGTCAATGTAAATTCTCTT
1 TTTGTTCAATCATTGTAAATGTAAATTCTCTT
2231350 T
1 T
2231351 CTCTTGCTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.52
Consensus pattern (32 bp):
TTTGTTCAATCATTGTAAATGTAAATTCTCTT
Found at i:2235388 original size:32 final size:32
Alignment explanation
Indices: 2235352--2235415 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
2235342 GAGTGTTAGT
* *
2235352 TCAATTGGTATGAGTATTGTTCCCAATACAAG
1 TCAATTGGTATGACTATTATTCCCAATACAAG
*
2235384 TCAATTGGTATGACTATTATTCTCAATACAAG
1 TCAATTGGTATGACTATTATTCCCAATACAAG
2235416 AAAATGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (32 bp):
TCAATTGGTATGACTATTATTCCCAATACAAG
Found at i:2236963 original size:148 final size:148
Alignment explanation
Indices: 2236700--2237029 Score: 343
Period size: 148 Copynumber: 2.2 Consensus size: 148
2236690 TGCGTGCTGA
* *
2236700 CGTGTAGCATCGAGAAATGCCTTCTTTTTC---TTGGGGGGGAGGGGTAGGCTGGCGACTTTTTG
1 CGTGTAGCATCGAGAAATGTCTTCTTTTTCTTGTTGGGGGGGAGGGGTAGGCGGGCGACTTTTTG
* * * * *
2236762 AGCGATCCTCGTAAATGATATGGAAATCTTGTAAATGCTTGATCAAGGATGCTTATTTTTTGTGT
66 AGCGATCCTCATAAATGAAACGGAAATCTAGTAAATGCTTGATAAAGGATGCTTATTTTTTGTGT
2236827 C-A-TGTGTGC-G-TGCG
131 CAAGTGTGTGCAGATGCG
* * * *
2236841 TGTGTAGCATCGAGAAATGTCTTCTTTTTCTTGGGTTGGGGGGGGGGAGGTAGGCGGGCTAGTTT
1 CGTGTAGCATCGAGAAATGTCTTCTTTTTCTT--GTTGGGGGGGAGG-GGTAGGCGGGCGACTTT
* * ** * * *
2236906 TTGTGTGGATTGTCATAAATGAAACGGAAAT-TGAGTAAATGCTTGTTAAAGGTTGCTTTTTTTT
63 TTGAG-CGATCCTCATAAATGAAACGGAAATCT-AGTAAATGCTTGATAAAGGATGCTTATTTTT
*
2236970 TTTGTCATATGTGTGTGCATGCATGCG
126 TGTGTCA-A-GTGTGTGCA-G-ATGCG
*
2236997 CGTGTATCATCGAGAAATGTCTTCTTTTTCTTG
1 CGTGTAGCATCGAGAAATGTCTTCTTTTTCTTG
2237030 ACGGGGTAGT
Statistics
Matches: 152, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
141 28 0.18
146 11 0.07
147 19 0.12
148 50 0.33
150 1 0.01
152 7 0.05
154 2 0.01
156 34 0.22
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.38
Consensus pattern (148 bp):
CGTGTAGCATCGAGAAATGTCTTCTTTTTCTTGTTGGGGGGGAGGGGTAGGCGGGCGACTTTTTG
AGCGATCCTCATAAATGAAACGGAAATCTAGTAAATGCTTGATAAAGGATGCTTATTTTTTGTGT
CAAGTGTGTGCAGATGCG
Found at i:2245942 original size:3 final size:3
Alignment explanation
Indices: 2245934--2245966 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2245924 AGAAACGAAA
2245934 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2245967 TTATCCACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2246299 original size:18 final size:19
Alignment explanation
Indices: 2246253--2246300 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
2246243 ATTGGATTTT
*
2246253 ATAATATTATATATTTTTAA
1 ATAAT-TTATATATATTTAA
*
2246273 AAAATTT-TATAATATTTAA
1 ATAATTTATAT-ATATTTAA
2246292 ATAATTTAT
1 ATAATTTAT
2246301 TTAATTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 15 0.65
20 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATTTATATATATTTAA
Found at i:2262769 original size:32 final size:32
Alignment explanation
Indices: 2262728--2262789 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2262718 AATTTGAAAC
2262728 CCGAGAAGCCAATTCTGAGGAGAATCCACATT
1 CCGAGAAGCCAATTCTGAGGAGAATCCACATT
*
2262760 CCGAGAAGCCAATTCTGAGGGGAATCCACA
1 CCGAGAAGCCAATTCTGAGGAGAATCCACA
2262790 ATTTGAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (32 bp):
CCGAGAAGCCAATTCTGAGGAGAATCCACATT
Found at i:2263546 original size:98 final size:98
Alignment explanation
Indices: 2263372--2263568 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
2263362 GTACAATAAA
* * *
2263372 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAAATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
* *
2263437 CCTTTAGAATCCCAAATTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
2263470 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAAATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
2263535 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
2263568 A
1 A
2263569 TTATTTTTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAAATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:2264725 original size:19 final size:19
Alignment explanation
Indices: 2264701--2264864 Score: 169
Period size: 19 Copynumber: 8.8 Consensus size: 19
2264691 AATCATATAT
2264701 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
2264720 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
2264739 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
2264758 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
2264779 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
2264798 TCTAAGATTGCATATCCTA
1 TCTAAGATTGCATATCATA
* * *
2264817 ---AAAAAT---TATGATA
1 TCTAAGATTGCATATCATA
**
2264830 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
2264849 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
2264865 CTAAAAAATT
Statistics
Matches: 115, Mismatches: 22, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
13 5 0.04
16 6 0.05
19 87 0.76
21 17 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:2264789 original size:40 final size:40
Alignment explanation
Indices: 2264701--2264812 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
2264691 AATCATATAT
2264701 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
2264739 TCTAATATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
2264779 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
2264813 CCTAAAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 27 0.40
40 41 0.60
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:2264838 original size:51 final size:51
Alignment explanation
Indices: 2264776--2264877 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
2264766 TGCATATATC
2264776 ATATCTTGGATTGCATATCATATCTAAGATTGCATATCCTAAAAAATTATG
1 ATATCTTGGATTGCATATCATATCTAAGATTGCATATCCTAAAAAATTATG
2264827 ATATCTTGGATTGCATATCATATCTAAGATTGCATATCCTAAAAAATTATG
1 ATATCTTGGATTGCATATCATATCTAAGATTGCATATCCTAAAAAATTATG
2264878 TTTCCATATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (51 bp):
ATATCTTGGATTGCATATCATATCTAAGATTGCATATCCTAAAAAATTATG
Found at i:2265468 original size:30 final size:30
Alignment explanation
Indices: 2265429--2265485 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
2265419 TTTTATAAAT
2265429 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
2265459 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
2265486 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:2265742 original size:101 final size:100
Alignment explanation
Indices: 2265588--2265792 Score: 340
Period size: 101 Copynumber: 2.0 Consensus size: 100
2265578 TAACATGTCT
2265588 AAAATTGACATTTTATTTCTCAAAAAACTTTTTGAAAGCAATGCTAAACATTCAAATTTTAAAAC
1 AAAATTGACATTTTATTTCTCAAAAAACTTTTTGAAAGCAATGCTAAACATTCAAATTTTAAAAC
2265653 AAACTTCTCAAAAGCACTTTTAAACAACACTTTTC
66 AAACTTCTCAAAAGCACTTTTAAACAACACTTTTC
* *
2265688 AAAATTGACATTTTATTTCTCAAAATTACTTTTT-AACAGCAATGCTAAAGATTCAAATTTTAAA
1 AAAATTGACATTTTATTTCTCAAAA-AACTTTTTGAA-AGCAATGCTAAACATTCAAATTTTAAA
* **
2265752 ACAAGCTTCTCAAAAGCACTTTTTTACAACACTTTTC
64 ACAAACTTCTCAAAAGCACTTTTAAACAACACTTTTC
2265789 AAAA
1 AAAA
2265793 GCATTGTCAA
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
100 27 0.28
101 71 0.72
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (100 bp):
AAAATTGACATTTTATTTCTCAAAAAACTTTTTGAAAGCAATGCTAAACATTCAAATTTTAAAAC
AAACTTCTCAAAAGCACTTTTAAACAACACTTTTC
Found at i:2269225 original size:33 final size:35
Alignment explanation
Indices: 2269188--2269284 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
2269178 AAGGTTATAT
2269188 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
2269221 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
2269256 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
2269285 AAAATATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:2270164 original size:15 final size:15
Alignment explanation
Indices: 2270144--2270178 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
2270134 TTTTCGTCTC
2270144 TTTTATCACAAACAA
1 TTTTATCACAAACAA
2270159 TTTTATCACAAACAA
1 TTTTATCACAAACAA
2270174 TTTTA
1 TTTTA
2270179 CCGACGTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTTATCACAAACAA
Found at i:2279866 original size:39 final size:39
Alignment explanation
Indices: 2279812--2279891 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
2279802 GAAAGAAAGA
2279812 TTAACTAAGTTGGCAAATGCTAAAATATGAGCCCCAAAC
1 TTAACTAAGTTGGCAAATGCTAAAATATGAGCCCCAAAC
2279851 TTAACTAAGTTGGCAAATGCTAAAATATGAGCCCCAAAC
1 TTAACTAAGTTGGCAAATGCTAAAATATGAGCCCCAAAC
2279890 TT
1 TT
2279892 GCCGGACATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (39 bp):
TTAACTAAGTTGGCAAATGCTAAAATATGAGCCCCAAAC
Found at i:2283957 original size:12 final size:12
Alignment explanation
Indices: 2283937--2283970 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2283927 TCTAATAAGT
*
2283937 TTATTATTATGA
1 TTATTATTATCA
*
2283949 TTGTTATTATCA
1 TTATTATTATCA
2283961 TTATTATTAT
1 TTATTATTAT
2283971 TATTTCTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (12 bp):
TTATTATTATCA
Found at i:2295379 original size:1 final size:1
Alignment explanation
Indices: 2295373--2295407 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
2295363 TTTGCTTCCT
2295373 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2295408 CTTTGGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2296709 original size:44 final size:44
Alignment explanation
Indices: 2296649--2297022 Score: 314
Period size: 44 Copynumber: 8.6 Consensus size: 44
2296639 AAAGAATTTC
*
2296649 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
2296693 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * * * *
2296736 CTATCCTATCTCCCTGAAGTTACAGTGGAACGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * *
2296779 AGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-CCAG
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * * *
2296823 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGA-ATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---G
*
2296867 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
2296911 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
2296954 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
*
2296997 AGGATCTTATCTCTCTGAGGTTACAG
1 A-GATCTTATCTCCCTGAGGTTACAG
2297023 CAGAGTAGAT
Statistics
Matches: 255, Mismatches: 63, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
41 28 0.11
42 9 0.04
43 55 0.22
44 128 0.50
45 2 0.01
46 32 0.13
47 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
Found at i:2296877 original size:131 final size:131
Alignment explanation
Indices: 2296614--2296950 Score: 339
Period size: 131 Copynumber: 2.6 Consensus size: 131
2296604 GGTCTTATTC
* ** *
2296614 CCCTG-AGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGA
1 CCCTGAAG-TTACAGTGGAACAGATTAAAGAA--AGAGATCTTATCTCCCTGAAGTTACAGTGGA
* * * *
2296678 GCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCT
63 GCAGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGATCAAAGACACGATCCT
2296743 ATCT
128 ATCT
* * *
2296747 CCCTGAAGTTACAGTGGAACGGATTAAAATAAAG-GATCTTATCTCCCTGAAGTTACAGTAGAGC
1 CCCTGAAGTTACAGTGGAACAGATT-AAAGAAAGAGATCTTATCTCCCTGAAGTTACAGTGGAGC
* * *
2296811 AGATCGCA-CCAG-G-TCTTATTTCCCTGAGATTACAGTGGAACAGA-CTAAAGA-ATTTCAGAT
65 AGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGATC-AAAGACA---C-GAT
*
2296871 CTTATCT
125 CCTATCT
* * * ** *
2296878 CCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGCGGAGC
1 CCCTGAAGTTACAGTGGAACAGATTAAAGAAAGAGATCTTATCTCCCTGAAG-TTACAGTGGAGC
2296942 AGATCGAAG
65 AGATCGAAG
2296951 ACACTATCCT
Statistics
Matches: 169, Mismatches: 25, Indels: 21
0.79 0.12 0.10
Matches are distributed among these distances:
127 2 0.01
128 32 0.19
129 1 0.01
130 11 0.07
131 96 0.57
133 20 0.12
134 7 0.04
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (131 bp):
CCCTGAAGTTACAGTGGAACAGATTAAAGAAAGAGATCTTATCTCCCTGAAGTTACAGTGGAGCA
GATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGATCAAAGACACGATCCTATC
T
Found at i:2296964 original size:87 final size:88
Alignment explanation
Indices: 2296649--2296984 Score: 287
Period size: 87 Copynumber: 3.9 Consensus size: 88
2296639 AAAGAATTTC
* * * **
2296649 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACATCGATCTTATCTCCCTGAAG-T
*
2296713 TACAGCGGAGCAGATCGAAGACA-
65 TACAGTGGAGCAGATCGAAGACAG
** * * * * * * **
2296736 CTATCCTATCTCCCTGA-AGTTACAGTGGAACGGAT-TAAAATAAAGGATCTTATCTCCCTGAAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGA-CATCGATCTTATCTCCCTGAAG
* * *
2296799 TTACAGTAGAGCAGATCGCA-CCAG
64 TTACAGTGGAGCAGATCGAAGACAG
* * *
2296823 -G-TCTTATTTCCCTGAGATTACAGTGGAACAGA-CTAAAGA-ATTTCAGATCTTATCTCCCTGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGACA--TC-GATCTTATCTCCCTGA
* * *
2296884 GGTTACAGTGGAGCAGATTGAAGCCAG
62 AGTTACAGTGGAGCAGATCGAAGACAG
* * *
2296911 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACATCGATCTTATCTCCCTGAAGTT
2296975 ACAGTGGAGC
66 ACAGTGGAGC
2296985 GGATTAAAAT
Statistics
Matches: 199, Mismatches: 35, Indels: 30
0.75 0.13 0.11
Matches are distributed among these distances:
84 1 0.01
85 26 0.13
86 8 0.04
87 122 0.61
88 7 0.04
89 1 0.01
90 32 0.16
91 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (88 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACATCGATCTTATCTCCCTGAAGTT
ACAGTGGAGCAGATCGAAGACAG
Found at i:2296981 original size:218 final size:218
Alignment explanation
Indices: 2296603--2297074 Score: 847
Period size: 218 Copynumber: 2.2 Consensus size: 218
2296593 TCATTATAAA
*
2296603 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
2296668 TTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
66 TTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
2296733 ACACTATCCTATCTCCCTGAAGTTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCCCTGAA
131 ACACTATCCTATCTCCCTGAAGTTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCCCTGAA
*
2296798 GTTACAGTAGAGCAGATCGCACC
196 GTTACAGCAGAGCAGATCGCACC
2296821 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
2296886 TTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
66 TTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
* * *
2296951 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAG
131 ACACTATCCTATCTCCCTGAAGTTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCCCTGAA
* *
2297016 GTTACAGCAGAGTAGATCGCATC
196 GTTACAGCAGAGCAGATCGCACC
* *
2297039 AGGTCTTATTTCCCTGAAGA-TGCAGTGGAATAGACT
1 AGGTCTTATTTCCCTG-AGATTACAGTGGAACAGACT
2297075 GAACACAACA
Statistics
Matches: 244, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
218 241 0.99
219 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (218 bp):
AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
TTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
ACACTATCCTATCTCCCTGAAGTTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCCCTGAA
GTTACAGCAGAGCAGATCGCACC
Found at i:2297003 original size:87 final size:87
Alignment explanation
Indices: 2296873--2297034 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
2296863 TTTCAGATCT
* * ** *
2296873 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
2296938 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * * *
2296960 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATTACAGC
*
2297024 AGAGTAGATCG
65 AGAGCAGATCG
2297035 CATCAGGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 60 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:2298489 original size:12 final size:12
Alignment explanation
Indices: 2298469--2298502 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2298459 CTTAATAAGT
*
2298469 TTATTATTATGA
1 TTATTATTATCA
*
2298481 TTGTTATTATCA
1 TTATTATTATCA
2298493 TTATTATTAT
1 TTATTATTAT
2298503 TATTTCTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (12 bp):
TTATTATTATCA
Found at i:2298732 original size:21 final size:23
Alignment explanation
Indices: 2298702--2298747 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2298692 ACATATTTAT
2298702 ATATAATC-TTTATA-GTTTAAA
1 ATATAATCTTTTATATGTTTAAA
* *
2298723 ATATACTCTTTTATATTTTTAAA
1 ATATAATCTTTTATATGTTTAAA
2298746 AT
1 AT
2298748 CCATATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 6 0.29
23 8 0.38
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATAATCTTTTATATGTTTAAA
Found at i:2301572 original size:51 final size:52
Alignment explanation
Indices: 2301513--2301628 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 52
2301503 ATTGGTATAA
***
2301513 TAATAAATTTAGCCTTTAAAATTTACACATTCTAAT-AATTT-GATCTTAATT
1 TAATAAATTTAGCCAGCAAAATTTACACATTCTAATCAATTTGGATC-TAATT
** * **
2301564 TAATAAATTTAGCCAGCAGCATTTACACATTTTTGTCAATTTGGATCTAATT
1 TAATAAATTTAGCCAGCAAAATTTACACATTCTAATCAATTTGGATCTAATT
2301616 TAATAAATTTAGC
1 TAATAAATTTAGC
2301629 TTGCAACAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 28 0.51
52 23 0.42
53 4 0.07
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (52 bp):
TAATAAATTTAGCCAGCAAAATTTACACATTCTAATCAATTTGGATCTAATT
Found at i:2312649 original size:29 final size:29
Alignment explanation
Indices: 2312603--2312667 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
2312593 ATCTAATTTC
* **
2312603 AAAATAATTCGAAAAAAATAATTAAATCT
1 AAAATAATTCGAAAAAAATAACTAAAAAT
* *
2312632 AAAATAATTCTAACAAAATAACTAAAAAT
1 AAAATAATTCGAAAAAAATAACTAAAAAT
2312661 AAAATAA
1 AAAATAA
2312668 AATTCACCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (29 bp):
AAAATAATTCGAAAAAAATAACTAAAAAT
Found at i:2312651 original size:14 final size:14
Alignment explanation
Indices: 2312602--2312652 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
2312592 CATCTAATTT
2312602 CAAAATAATTCGAAA
1 CAAAATAATTC-AAA
2312617 -AAAATAATT-AAA
1 CAAAATAATTCAAA
*
2312629 TCTAAAATAATTCTAA
1 -C-AAAATAATTCAAA
2312645 CAAAATAA
1 CAAAATAA
2312653 CTAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.10
14 16 0.52
15 10 0.32
16 2 0.06
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (14 bp):
CAAAATAATTCAAA
Found at i:2319506 original size:30 final size:30
Alignment explanation
Indices: 2319472--2319534 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2319462 ACTTATTTTA
*
2319472 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
2319502 TTGTTAATTTTATTATTATTTTAGAGTCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
2319532 TTG
1 TTG
2319535 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:2319642 original size:18 final size:18
Alignment explanation
Indices: 2319619--2319657 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2319609 AAATATTTAT
*
2319619 TTTGATGT-TTTTAGTATA
1 TTTGATGTATTATA-TATA
2319637 TTTGATGTATTATATATA
1 TTTGATGTATTATATATA
2319655 TTT
1 TTT
2319658 TAAAATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (18 bp):
TTTGATGTATTATATATA
Found at i:2323311 original size:119 final size:119
Alignment explanation
Indices: 2323170--2323401 Score: 403
Period size: 119 Copynumber: 1.9 Consensus size: 119
2323160 TTTAAATTTT
*
2323170 TTAAACGAGAAAAAGGCCTCCGCAGTCCCTCTCAATTTCGAAATTGAGAAGATTTGT-CTCTTTA
1 TTAAACGAGAAAAAGGCCTCCGCAGTCCCTCTCAATTTCAAAATTGAGAAGATTTGTCCT-TTTA
*
2323234 AAAAATTAAAGCAATTTAATTCTTGTCAATTTTAAAAGTGAGCAATTAAAAATAA
65 AAAAATCAAAGCAATTTAATTCTTGTCAATTTTAAAAGTGAGCAATTAAAAATAA
* *
2323289 TTAAACGATAAAAAGGTCTCCGCAGTCCCTCTCAATTTCAAAATTGAGAAGATTTGTCCTTTTAA
1 TTAAACGAGAAAAAGGCCTCCGCAGTCCCTCTCAATTTCAAAATTGAGAAGATTTGTCCTTTTAA
*
2323354 AAAATCAAAGCAATTTAATTCTTGTCAATTTTGAAAGTGAGCAATTAA
66 AAAATCAAAGCAATTTAATTCTTGTCAATTTTAAAAGTGAGCAATTAA
2323402 GAATCACGAC
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
119 105 0.98
120 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (119 bp):
TTAAACGAGAAAAAGGCCTCCGCAGTCCCTCTCAATTTCAAAATTGAGAAGATTTGTCCTTTTAA
AAAATCAAAGCAATTTAATTCTTGTCAATTTTAAAAGTGAGCAATTAAAAATAA
Found at i:2326468 original size:20 final size:19
Alignment explanation
Indices: 2326432--2326477 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2326422 TTATTTAAAT
2326432 TTAATTATAAAAAATATATA
1 TTAA-TATAAAAAATATATA
* *
2326452 TTAATATAAAATCATATATT
1 TTAATATAAAA-AATATATA
2326472 TTAATA
1 TTAATA
2326478 CTATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATATAAAAAATATATA
Found at i:2331270 original size:27 final size:27
Alignment explanation
Indices: 2331214--2331274 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
2331204 TTGATTGTGT
* *
2331214 TTTTTTTTTAAAAAGATTTGTTTTCAA
1 TTTTATTTTAAAAAGATTTGTTTACAA
**
2331241 TTTTATTTTAAAAATGATTT-TTTAGGA
1 TTTTATTTTAAAAA-GATTTGTTTACAA
2331268 TTTTATT
1 TTTTATT
2331275 AAAAAATAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (27 bp):
TTTTATTTTAAAAAGATTTGTTTACAA
Found at i:2336284 original size:17 final size:17
Alignment explanation
Indices: 2336254--2336287 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2336244 TTGGATGAAC
*
2336254 TTATATTATAATTTTAT
1 TTATAATATAATTTTAT
*
2336271 TTATAATATTATTTTAT
1 TTATAATATAATTTTAT
2336288 ATCTTGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATAATATAATTTTAT
Found at i:2336800 original size:20 final size:20
Alignment explanation
Indices: 2336753--2336790 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2336743 TTAATAATGT
2336753 TAAAATT-TTAATTTTAACC
1 TAAAATTCTTAATTTTAACC
2336772 TAAAATTCTTAATTTTAAC
1 TAAAATTCTTAATTTTAAC
2336791 TTAATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAATTCTTAATTTTAACC
Found at i:2337381 original size:14 final size:14
Alignment explanation
Indices: 2337364--2337398 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2337354 TATACAATAT
2337364 CAAAATAATACTAA
1 CAAAATAATACTAA
*
2337378 CAAAATAATATTAA
1 CAAAATAATACTAA
*
2337392 CATAATA
1 CAAAATA
2337399 GTAAAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (14 bp):
CAAAATAATACTAA
Found at i:2342568 original size:22 final size:22
Alignment explanation
Indices: 2342540--2342584 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2342530 AATACATGCT
2342540 AATGTTTATTTTCTTTTATTTA
1 AATGTTTATTTTCTTTTATTTA
2342562 AATGTTTATTTTCTTTTATTTA
1 AATGTTTATTTTCTTTTATTTA
2342584 A
1 A
2342585 TAGTTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (22 bp):
AATGTTTATTTTCTTTTATTTA
Found at i:2347285 original size:20 final size:20
Alignment explanation
Indices: 2347260--2347300 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2347250 AATAAACATC
2347260 TATACACATTCGCGCTTAGT
1 TATACACATTCGCGCTTAGT
2347280 TATACACATTCGCGCTTAGT
1 TATACACATTCGCGCTTAGT
2347300 T
1 T
2347301 TGACAACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (20 bp):
TATACACATTCGCGCTTAGT
Found at i:2348669 original size:22 final size:22
Alignment explanation
Indices: 2348616--2348658 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2348606 CCCCAGTTTT
2348616 TACTGGTTTAGTCCGTTCTTTG
1 TACTGGTTTAGTCCGTTCTTTG
2348638 TACTGGTTTAGTCCGTTCTTT
1 TACTGGTTTAGTCCGTTCTTT
2348659 TGTCGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (22 bp):
TACTGGTTTAGTCCGTTCTTTG
Found at i:2354997 original size:22 final size:22
Alignment explanation
Indices: 2354972--2355017 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2354962 AAAAAGATAC
*
2354972 AAATA-AAATAATATTTAATTAA
1 AAATACAAATAATA-TTAAATAA
2354994 AAATACAAATAATATTAAATAA
1 AAATACAAATAATATTAAATAA
2355016 AA
1 AA
2355018 TATCGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATACAAATAATATTAAATAA
Found at i:2356299 original size:21 final size:21
Alignment explanation
Indices: 2356283--2356324 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2356273 GTTATAATTT
2356283 TTTTATTTACCAATATATATA
1 TTTTATTTACCAATATATATA
*
2356304 TTTTATTTACCAAAATATATA
1 TTTTATTTACCAATATATATA
2356325 AAAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTTACCAATATATATA
Found at i:2356408 original size:27 final size:27
Alignment explanation
Indices: 2356370--2356445 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
2356360 GCCTGATCAG
*
2356370 GCCAATTAAATTGGCGGCACCAA-AGGT
1 GCCAAATAAATTGGCGGCACCAATA-GT
*
2356397 GCCAAATAAATTGGTGGCACCAATAGT
1 GCCAAATAAATTGGCGGCACCAATAGT
* *
2356424 GCCAAAGACATTGGCGGCACCA
1 GCCAAATAAATTGGCGGCACCA
2356446 CCAAAGGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (27 bp):
GCCAAATAAATTGGCGGCACCAATAGT
Found at i:2356540 original size:19 final size:19
Alignment explanation
Indices: 2356518--2356594 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
2356508 ATTCCCTTTC
* *
2356518 AACTCTTTTTTTATTTAAT
1 AACTCTATTTTAATTTAAT
*
2356537 AACTTTATTTTAATTTAAT
1 AACTCTATTTTAATTTAAT
* * *
2356556 AA-ACTATTCTCATTTAAT
1 AACTCTATTTTAATTTAAT
2356574 AACTCTATTTTAATTTAAT
1 AACTCTATTTTAATTTAAT
2356593 AA
1 AA
2356595 ACTATTAAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
18 14 0.30
19 33 0.70
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
AACTCTATTTTAATTTAAT
Found at i:2356563 original size:18 final size:18
Alignment explanation
Indices: 2356542--2356600 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
2356532 TTAATAACTT
2356542 TATTTTAATTTAATAAAC
1 TATTTTAATTTAATAAAC
* * *
2356560 TATTCTCATTTAATAACTC
1 TATTTTAATTTAATAA-AC
2356579 TATTTTAATTTAATAAAC
1 TATTTTAATTTAATAAAC
2356597 TATT
1 TATT
2356601 AAGTAATACT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTAATTTAATAAAC
Found at i:2356574 original size:37 final size:37
Alignment explanation
Indices: 2356530--2356600 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
2356520 CTCTTTTTTT
*
2356530 ATTTAATAACTTTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
2356567 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
2356601 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:2356829 original size:20 final size:19
Alignment explanation
Indices: 2356800--2356840 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2356790 ATTCCCCTTC
*
2356800 AACTCAATTTTTTATTTAAT
1 AACTCAA-TTTTAATTTAAT
*
2356820 AACTCTATTTTAATTTAAT
1 AACTCAATTTTAATTTAAT
2356839 AA
1 AA
2356841 AATATTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
AACTCAATTTTAATTTAAT
Found at i:2357143 original size:19 final size:19
Alignment explanation
Indices: 2357119--2357176 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
2357109 ACTTAATATT
*
2357119 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAATAGAG
* * *
2357138 TTATTAAATGAGAATAG-T
1 TTATTAAATAAAAATAGAG
*
2357156 TTATTAAATAAAAAAAGAG
1 TTATTAAATAAAAATAGAG
2357175 TT
1 TT
2357177 GAAGGGGAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (19 bp):
TTATTAAATAAAAATAGAG
Found at i:2357161 original size:18 final size:18
Alignment explanation
Indices: 2357113--2357168 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
2357103 AGTATTACTT
* *
2357113 AATATTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
* *
2357131 AATAGAGTTATTAAATGAG
1 AATAG-TTTATTAAATGAA
2357150 AATAGTTTATTAAAT-AA
1 AATAGTTTATTAAATGAA
2357167 AA
1 AA
2357169 AAAGAGTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 3 0.10
18 13 0.42
19 15 0.48
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (18 bp):
AATAGTTTATTAAATGAA
Found at i:2357676 original size:18 final size:18
Alignment explanation
Indices: 2357653--2357689 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2357643 GATTGGTATC
2357653 GATATTGTTATCAATGTA
1 GATATTGTTATCAATGTA
2357671 GATATTGTTATCAATGTA
1 GATATTGTTATCAATGTA
2357689 G
1 G
2357690 GAAGTCGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
GATATTGTTATCAATGTA
Found at i:2358416 original size:16 final size:16
Alignment explanation
Indices: 2358387--2358431 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
2358377 GTTTATTTTA
2358387 TAATTGA-A-TATATC
1 TAATTGATATTATATC
2358401 TAATTGATATTATATC
1 TAATTGATATTATATC
2358417 TAATTGATATTATAT
1 TAATTGATATTATAT
2358432 TTTTATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.24
15 1 0.03
16 21 0.72
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (16 bp):
TAATTGATATTATATC
Found at i:2359023 original size:49 final size:49
Alignment explanation
Indices: 2358966--2359060 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
2358956 TAGTAAATTG
* *
2358966 GCATGACATTACACATGTGATAATATGTTTGATGCATCAGATTTTAGAA
1 GCATGACATTACACATCTGATAATATGTTTGACGCATCAGATTTTAGAA
2359015 GCATGACATTACACATCTGATAATATGTTTGACGCATCAGATTTTA
1 GCATGACATTACACATCTGATAATATGTTTGACGCATCAGATTTTA
2359061 TAAGTAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (49 bp):
GCATGACATTACACATCTGATAATATGTTTGACGCATCAGATTTTAGAA
Found at i:2360186 original size:17 final size:17
Alignment explanation
Indices: 2360144--2360190 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
2360134 AATTCAAATT
2360144 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
2360160 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
2360178 TAATATAAATAAT
1 TAATATAAATAAT
2360191 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:2360494 original size:30 final size:31
Alignment explanation
Indices: 2360455--2360514 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
2360445 AGAGGTGAGA
*
2360455 TGGGAAGGGAATAAAAGTTTTAGG-GGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGTGGAAAAG
*
2360486 TGGG-AGGGAGTAAAAATTTTGGTGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGTGGAAAA
2360515 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGTGGAAAAG
Found at i:2360683 original size:21 final size:21
Alignment explanation
Indices: 2360649--2360689 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2360639 GGGAGAAAGT
*
2360649 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
2360670 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
2360690 GGAGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:2361151 original size:27 final size:29
Alignment explanation
Indices: 2361111--2361170 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
2361101 GTACAATTAA
2361111 TTTTATATGATTAATTACA-ATTTTTATT
1 TTTTATATGATTAATTACATATTTTTATT
* *
2361139 TTTTATAT-TTTAATTAGATATTTTTATT
1 TTTTATATGATTAATTACATATTTTTATT
2361167 TTTT
1 TTTT
2361171 TAAGTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTATATGATTAATTACATATTTTTATT
Found at i:2361178 original size:28 final size:27
Alignment explanation
Indices: 2361111--2361181 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
2361101 GTACAATTAA
*
2361111 TTTTATATGATTAATTACAATTTTTATT
1 TTTTATA-GTTTAATTACAATTTTTATT
* *
2361139 TTTTATATTTTAATTAGATATTTTTATT
1 TTTTATAGTTTAATTACA-ATTTTTATT
2361167 TTTT-TAAGTTTAATT
1 TTTTAT-AGTTTAATT
2361182 TATAAAGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.24
28 28 0.76
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTTATAGTTTAATTACAATTTTTATT
Found at i:2367228 original size:31 final size:33
Alignment explanation
Indices: 2367163--2367230 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
2367153 TAAAAAATTC
*
2367163 ATTTGGACTCTTTTTCAAAAAATTGATGACCAA
1 ATTTGGACTCTTTTTCAAAAAATTGAGGACCAA
* *
2367196 ATTT-GACTCTTTTT-AAAATATTGAGGATCAA
1 ATTTGGACTCTTTTTCAAAAAATTGAGGACCAA
2367227 ATTT
1 ATTT
2367231 AACTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 18 0.56
32 10 0.31
33 4 0.12
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (33 bp):
ATTTGGACTCTTTTTCAAAAAATTGAGGACCAA
Found at i:2368534 original size:109 final size:108
Alignment explanation
Indices: 2368330--2368540 Score: 316
Period size: 109 Copynumber: 1.9 Consensus size: 108
2368320 TGCACAATAA
* *
2368330 TCCACCCAACATGTTTCCCACATCTTTTTTTCATTAATTTATTTTGTTTTTATTTTATTAACTAA
1 TCCACCCAACATGTCTCCCACATCTTTTTTTCATTAATTTATTTTGTTTTTATCTTATTAACTAA
* ***
2368395 TAATGTTAAATTTTATAAAAATATTTCATTTACCACTAGATGTG
66 TAAAGTTAAATTTTATAAAAATAAAACATTTA-CACTAGATGTG
* * *
2368439 TCCACCCAACATGTCTCTCACATCTTTTTTTTATTAATTTATTTTGTTTTTATCTTATTAATTAA
1 TCCACCCAACATGTCTCCCACATCTTTTTTTCATTAATTTATTTTGTTTTTATCTTATTAACTAA
2368504 TAAAAGTTAAATTTTATAAAAA-AAAACATTTACACTA
66 T-AAAGTTAAATTTTATAAAAATAAAACATTTACACTA
2368541 AAGGTGCCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 5 0.05
109 68 0.74
110 19 0.21
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.47
Consensus pattern (108 bp):
TCCACCCAACATGTCTCCCACATCTTTTTTTCATTAATTTATTTTGTTTTTATCTTATTAACTAA
TAAAGTTAAATTTTATAAAAATAAAACATTTACACTAGATGTG
Found at i:2369770 original size:39 final size:39
Alignment explanation
Indices: 2369726--2369816 Score: 157
Period size: 39 Copynumber: 2.3 Consensus size: 39
2369716 AATATATTTA
2369726 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTTTAATTTTTT-ATTTTAAAATATTTTTAAAATACTT
*
2369766 TTTTTTTATTTTTTATTTTAAAATATTTTTAAAATAC-T
1 TTTTTTAATTTTTTATTTTAAAATATTTTTAAAATACTT
2369804 TTTTTTAATTTTT
1 TTTTTTAATTTTT
2369817 AAAATAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 13 0.27
39 23 0.47
40 13 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (39 bp):
TTTTTTAATTTTTTATTTTAAAATATTTTTAAAATACTT
Found at i:2387623 original size:20 final size:19
Alignment explanation
Indices: 2387598--2387635 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
2387588 AGTATATATT
2387598 AAAAAA-TTCAATAAGATTTC
1 AAAAAAGTT-AATAA-ATTTC
2387618 AAAAAAGTTAATAAATTT
1 AAAAAAGTTAATAAATTT
2387636 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 11 0.65
21 2 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAAAGTTAATAAATTTC
Found at i:2392397 original size:8 final size:8
Alignment explanation
Indices: 2392384--2392420 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
2392374 ATAATAAATA
2392384 TATTTTTT
1 TATTTTTT
2392392 TA--TTTT
1 TATTTTTT
2392398 TATTTTTT
1 TATTTTTT
2392406 TATTTTTT
1 TATTTTTT
*
2392414 AATTTTT
1 TATTTTT
2392421 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.23
8 20 0.77
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TATTTTTT
Found at i:2392403 original size:14 final size:14
Alignment explanation
Indices: 2392384--2392426 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
2392374 ATAATAAATA
2392384 TATTTTTTTATTTT
1 TATTTTTTTATTTT
2392398 TATTTTTTTATTTTT
1 TATTTTTTTA-TTTT
* *
2392413 TAATTTTTAATTTT
1 TATTTTTTTATTTT
2392427 AAAATACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TATTTTTTTATTTT
Found at i:2392923 original size:32 final size:31
Alignment explanation
Indices: 2392875--2393004 Score: 103
Period size: 32 Copynumber: 4.3 Consensus size: 31
2392865 TTAATATCAT
* *
2392875 ATTTGGTATCTGAACTTACCACTTTTTTTCTA
1 ATTTGGTACCTAAACTTA-CACTTTTTTTCTA
* * *
2392907 ATTTGGTACATAAAC-T----TTTTTGTCCA
1 ATTTGGTACCTAAACTTACACTTTTTTTCTA
* *
2392933 ATTTGGTACCTAAGCTTAACACTTTTTTCCTA
1 ATTTGGTACCTAAACTT-ACACTTTTTTTCTA
2392965 ATTTGGTACCTAAACTTGACA--TTTTTTCTTA
1 ATTTGGTACCTAAACTT-ACACTTTTTTTC-TA
*
2392996 AGTTGGTAC
1 ATTTGGTAC
2393005 TTAATCTTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
26 21 0.27
27 1 0.01
30 6 0.08
31 11 0.14
32 38 0.49
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTACACTTTTTTTCTA
Found at i:2393041 original size:60 final size:59
Alignment explanation
Indices: 2392963--2393101 Score: 142
Period size: 60 Copynumber: 2.3 Consensus size: 59
2392953 ACTTTTTTCC
* * *
2392963 TAATTTGGTACCTAAACTTGACA-TTTTTT-CTTAAGTTGGTA-CTTAATCTTTTTTGGGGT
1 TAATTTGGTACTTGAACTTGA-ATTTTTTTCCCTAAGTTGGTATC-TAATCTTTTTT-GGGT
* **
2393022 ATAATTTGGTACTTGAACTT-AATTTTTTTCCCTAATTTGGTATCTAATCTTTTTTTTGT
1 -TAATTTGGTACTTGAACTTGAATTTTTTTCCCTAAGTTGGTATCTAATCTTTTTTGGGT
*
2393081 TCAATTTGATACTTGAACTTG
1 T-AATTTGGTACTTGAACTTG
2393102 TCAAACATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
58 2 0.03
59 26 0.39
60 38 0.57
61 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (59 bp):
TAATTTGGTACTTGAACTTGAATTTTTTTCCCTAAGTTGGTATCTAATCTTTTTTGGGT
Found at i:2393533 original size:58 final size:57
Alignment explanation
Indices: 2393447--2393614 Score: 185
Period size: 58 Copynumber: 2.9 Consensus size: 57
2393437 TTAAACCTAA
* * * * * *
2393447 AAAAAAGCTTAGGTATCATATTAGGAAAAAATATCAAGTTCAAGTACCAAATAGGGCC
1 AAAAAAGATTAAGTACCATATTAAGAAAAAATATCAAGTTCATGTACCAAATA-AGCC
* * * * * *
2393505 CAAAAAGTTTATGTACCAAATTAAGAAAAAATGTCAAGTTCATGTATCAAATTAAGCC
1 AAAAAAGATTAAGTACCATATTAAGAAAAAATATCAAGTTCATGTACCAAA-TAAGCC
* *
2393563 AAAAAAAATTAAGTACCATATTAA-AAAAAATATCAAATTCATGTACCAAATA
1 AAAAAAGATTAAGTACCATATTAAGAAAAAATATCAAGTTCATGTACCAAATA
2393615 TTATATTAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
56 2 0.02
57 23 0.25
58 64 0.70
59 2 0.02
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (57 bp):
AAAAAAGATTAAGTACCATATTAAGAAAAAATATCAAGTTCATGTACCAAATAAGCC
Found at i:2393550 original size:31 final size:30
Alignment explanation
Indices: 2393509--2393613 Score: 87
Period size: 31 Copynumber: 3.6 Consensus size: 30
2393499 AGGGCCCAAA
*
2393509 AAGTTTATGTACCAAATTAAGAAAAAATGTC
1 AAGTTCATGTACCAAATTAAGAAAAAAT-TC
*
2393540 AAGTTCATGTATCAAATTAAGCCAAAAAA---
1 AAGTTCATGTACCAAATTAAG--AAAAAATTC
* *
2393569 AA-TT-AAGTACCATATTAA-AAAAAATATC
1 AAGTTCATGTACCAAATTAAGAAAAAAT-TC
*
2393597 AAATTCATGTACCAAAT
1 AAGTTCATGTACCAAAT
2393614 ATTATATTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
24 6 0.10
27 11 0.19
28 4 0.07
29 4 0.07
30 9 0.15
31 19 0.32
33 6 0.10
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (30 bp):
AAGTTCATGTACCAAATTAAGAAAAAATTC
Found at i:2393797 original size:22 final size:21
Alignment explanation
Indices: 2393761--2393820 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
2393751 GACCCAGGCC
*
2393761 ATTT-TTTTAATAAATACTAAAA
1 ATTTATTTTAA-AAATA-AAAAA
2393783 ATTTATTTTAAAAATTAAAAAA
1 ATTTATTTTAAAAA-TAAAAAA
**
2393805 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
2393821 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 23 0.70
23 8 0.24
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTATTTTAAAAATAAAAAA
Found at i:2393817 original size:11 final size:11
Alignment explanation
Indices: 2393802--2393869 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
2393792 AAAAATTAAA
2393802 AAAAAGTATTTT
1 AAAAA-TATTTT
2393814 AAAAATATTTT
1 AAAAATATTTT
2393825 --AAA-A--TT
1 AAAAATATTTT
* *
2393831 AAAAAAATTTAA
1 AAAAATATTT-T
2393843 AAAAAGTATTTT
1 AAAAA-TATTTT
2393855 AAAAATATTTT
1 AAAAATATTTT
2393866 AAAA
1 AAAA
2393870 TTAAAAAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
6 2 0.04
8 4 0.09
9 4 0.09
11 17 0.37
12 15 0.33
13 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:2393845 original size:17 final size:17
Alignment explanation
Indices: 2393812--2393845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2393802 AAAAAGTATT
* *
2393812 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
2393829 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
2393846 AAGTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:2393888 original size:41 final size:41
Alignment explanation
Indices: 2393792--2393888 Score: 169
Period size: 41 Copynumber: 2.4 Consensus size: 41
2393782 AATTTATTTT
2393792 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
*
2393833 AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATT-A
1 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
2393873 AAAAATGTAAAAAAAA
1 AAAAAT-TAAAAAAAA
2393889 TAAATATATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 7 0.13
41 46 0.87
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (41 bp):
AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:2397951 original size:29 final size:29
Alignment explanation
Indices: 2397918--2397975 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2397908 TTTAAAAATA
*
2397918 AAAAAATATTTTAAAAATATTTATTATATT
1 AAAAAAT-TTTAAAAAATATTTATTATATT
2397948 AAAAAATTTTAAAAAATATTTATTATAT
1 AAAAAATTTTAAAAAATATTTATTATAT
2397976 ATTTGGCCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAAAATTTTAAAAAATATTTATTATATT
Found at i:2403126 original size:30 final size:30
Alignment explanation
Indices: 2403066--2403128 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
2403056 AATTTGGAAG
* *
2403066 TTAATTTATATATTTTTTATTTTTAGAAAT
1 TTAATTTATATATTTTTTAATTTCAGAAAT
*
2403096 TTAATTTATTTATTTTTTAGATTTCA-AAAT
1 TTAATTTATATATTTTTTA-ATTTCAGAAAT
2403126 TTA
1 TTA
2403129 TGTTCAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (30 bp):
TTAATTTATATATTTTTTAATTTCAGAAAT
Found at i:2405414 original size:40 final size:40
Alignment explanation
Indices: 2405359--2405443 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
2405349 CATGTTCACA
2405359 AAATATACAAACTTCTTACTTGCCTAGATTTGCATCTAAT
1 AAATATACAAACTTCTTACTTGCCTAGATTTGCATCTAAT
2405399 AAATATACAAACTTCTTACTTGCCTAGATTTGCATCTAAT
1 AAATATACAAACTTCTTACTTGCCTAGATTTGCATCTAAT
2405439 AAATA
1 AAATA
2405444 GTTCTCGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (40 bp):
AAATATACAAACTTCTTACTTGCCTAGATTTGCATCTAAT
Found at i:2406950 original size:36 final size:36
Alignment explanation
Indices: 2406910--2406984 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
2406900 TCATGTTTCT
2406910 TCAAGAAACTGGATTTGCTTCGCTCCAAGAACTGCA
1 TCAAGAAACTGGATTTGCTTCGCTCCAAGAACTGCA
*
2406946 TCAAGAAAGTGGATTTGCTTCGCTCCAAGAACTGCA
1 TCAAGAAACTGGATTTGCTTCGCTCCAAGAACTGCA
2406982 TCA
1 TCA
2406985 TCGTTTGCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (36 bp):
TCAAGAAACTGGATTTGCTTCGCTCCAAGAACTGCA
Found at i:2414125 original size:65 final size:65
Alignment explanation
Indices: 2414055--2414185 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
2414045 GATTTTGATT
*
2414055 TGATATAATTATATAAATAAAATTTCGATTTAATTTAAAATTTCACATATCTCTAATTAGATTTG
1 TGATATAATTATATAAATAAAATTTCGACTTAATTTAAAATTTCACATATCTCTAATTAGATTTG
* *
2414120 TGATATAATTATATAAATAAAATTTTGACTTAATTTAAAATTTCACATATTTCTAATTAGATTTG
1 TGATATAATTATATAAATAAAATTTCGACTTAATTTAAAATTTCACATATCTCTAATTAGATTTG
2414185 T
1 T
2414186 CTATGGGTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (65 bp):
TGATATAATTATATAAATAAAATTTCGACTTAATTTAAAATTTCACATATCTCTAATTAGATTTG
Found at i:2422302 original size:21 final size:21
Alignment explanation
Indices: 2422276--2422316 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2422266 ATCTGCTCAA
* *
2422276 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
2422297 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
2422317 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:2431474 original size:21 final size:21
Alignment explanation
Indices: 2431448--2431488 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2431438 AGACGAGCAA
* *
2431448 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2431469 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2431489 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2433426 original size:16 final size:16
Alignment explanation
Indices: 2433393--2433426 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2433383 GGAGATTGTT
* *
2433393 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
2433409 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
2433425 AA
1 AA
2433427 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:2435353 original size:24 final size:24
Alignment explanation
Indices: 2435320--2435371 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2435310 TTTCTAAAAG
2435320 ATTTAATATTTA-TGAGTATAATAT
1 ATTTAATATTTATTG-GTATAATAT
*
2435344 ATTTAGTATTTATTGGTATAATAT
1 ATTTAATATTTATTGGTATAATAT
2435368 ATTT
1 ATTT
2435372 GACTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (24 bp):
ATTTAATATTTATTGGTATAATAT
Found at i:2435379 original size:24 final size:24
Alignment explanation
Indices: 2435320--2435381 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
2435310 TTTCTAAAAG
*
2435320 ATTTAATATTTA-TGAGTATAATAT
1 ATTTACTATTTATTG-GTATAATAT
*
2435344 ATTTAGTATTTATTGGTATAATAT
1 ATTTACTATTTATTGGTATAATAT
2435368 ATTTGACT-TTTATT
1 ATTT-ACTATTTATT
2435382 AGAATTAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.55
Consensus pattern (24 bp):
ATTTACTATTTATTGGTATAATAT
Found at i:2439264 original size:14 final size:15
Alignment explanation
Indices: 2439237--2439265 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2439227 ACTTGATTTC
2439237 TATTGATGTAATAAT
1 TATTGATGTAATAAT
2439252 TATTGAT-TAATAAT
1 TATTGATGTAATAAT
2439266 ATGCAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TATTGATGTAATAAT
Found at i:2449359 original size:17 final size:17
Alignment explanation
Indices: 2449282--2449359 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
2449272 TATCTTCATA
*
2449282 AATATTAGATTTAATTT
1 AATATTAAATTTAATTT
** *
2449299 AATATTAACGTTAAATT
1 AATATTAAATTTAATTT
* * **
2449316 AA-ATTTAATGCTAAGAT
1 AATATTAAAT-TTAATTT
2449333 AATTATTAAATTTAATTT
1 AA-TATTAAATTTAATTT
2449351 AATATTAAA
1 AATATTAAA
2449360 CTATTAAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
16 4 0.09
17 28 0.64
18 6 0.14
19 6 0.14
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (17 bp):
AATATTAAATTTAATTT
Found at i:2450732 original size:29 final size:29
Alignment explanation
Indices: 2450668--2450734 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
2450658 ATTTAGTCAT
** *
2450668 ATTTAATCTTTTTAATAATAACAAAACTA
1 ATTTAATCCATTTAATAAAAACAAAACTA
** * *
2450697 AAGTAATCCATTTAATAAAAATAAGACTA
1 ATTTAATCCATTTAATAAAAACAAAACTA
2450726 ATTTAATCC
1 ATTTAATCC
2450735 GGTTTTTATA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (29 bp):
ATTTAATCCATTTAATAAAAACAAAACTA
Found at i:2451299 original size:11 final size:11
Alignment explanation
Indices: 2451283--2451324 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
2451273 ATATTTTTAA
2451283 TTTTAAAATAT
1 TTTTAAAATAT
2451294 TTTTAAAATACT
1 TTTTAAAATA-T
*
2451306 TTTT--TATAT
1 TTTTAAAATAT
2451315 TTTTAAAATA
1 TTTTAAAATA
2451325 AATTTTTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 5 0.19
10 3 0.12
11 13 0.50
12 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:2451330 original size:21 final size:21
Alignment explanation
Indices: 2451290--2451331 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2451280 TAATTTTAAA
**
2451290 ATATTTTTAAAATACTTTTTT
1 ATATTTTTAAAATAAATTTTT
2451311 ATATTTTTAAAATAAATTTTT
1 ATATTTTTAAAATAAATTTTT
2451332 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTTTTAAAATAAATTTTT
Found at i:2458248 original size:13 final size:13
Alignment explanation
Indices: 2458230--2458254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2458220 GGTCCTTTTG
2458230 TTATTTTAAATTT
1 TTATTTTAAATTT
2458243 TTATTTTAAATT
1 TTATTTTAAATT
2458255 ATGTTACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTTAAATTT
Found at i:2463319 original size:15 final size:15
Alignment explanation
Indices: 2463299--2463346 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
2463289 TGTTTATAAA
*
2463299 TATTTAATTATTATT
1 TATTTAAATATTATT
*
2463314 TATTTAAATATTATG
1 TATTTAAATATTATT
* * *
2463329 AATTTCAATAATATT
1 TATTTAAATATTATT
2463344 TAT
1 TAT
2463347 ATCAGCATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (15 bp):
TATTTAAATATTATT
Found at i:2464041 original size:83 final size:83
Alignment explanation
Indices: 2463887--2464041 Score: 188
Period size: 83 Copynumber: 1.9 Consensus size: 83
2463877 CCACCTCGCG
* * * * *
2463887 AGGTGGAGCATAAGGGAGATGCGTGAGCCGCGAGATGGACTGCCTCATCGCGTCTCACATCCCAT
1 AGGTGGAGCACAAGAGAGATGCGTGAGCCGCGAGATGGACTACCTCATCGCGTCTCACACCCCAC
2463952 CAACATGATGACCTGGCT
66 CAACATGATGACCTGGCT
* * * *
2463970 AGGTGGAGCACAAGAGAGATGTGTGAGTCGTGAGATGGA-TCACCTCATTGTC-TCTCACACCCC
1 AGGTGGAGCACAAGAGAGATGCGTGAGCCGCGAGATGGACT-ACCTCATCG-CGTCTCACACCCC
*
2464033 ACCGACATG
64 ACCAACATG
2464042 GCGACCTCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
82 1 0.02
83 58 0.97
84 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (83 bp):
AGGTGGAGCACAAGAGAGATGCGTGAGCCGCGAGATGGACTACCTCATCGCGTCTCACACCCCAC
CAACATGATGACCTGGCT
Found at i:2466004 original size:22 final size:22
Alignment explanation
Indices: 2465952--2466004 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
2465942 GTTACTGTTA
* *
2465952 TGTTGTTGTTTTGCTACTATTT
1 TGTTGTTATATTGCTACTATTT
*** *
2465974 CACTATTATATTGCTACTATTT
1 TGTTGTTATATTGCTACTATTT
2465996 TGTTGTTAT
1 TGTTGTTAT
2466005 TGTTTGAATC
Statistics
Matches: 21, Mismatches: 10, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.58
Consensus pattern (22 bp):
TGTTGTTATATTGCTACTATTT
Found at i:2467071 original size:15 final size:16
Alignment explanation
Indices: 2467051--2467086 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2467041 TAAAAAAAAA
2467051 ATTGAGTTATAGCT-G
1 ATTGAGTTATAGCTCG
*
2467066 ATTGAGTTTTAGCTCG
1 ATTGAGTTATAGCTCG
2467082 ATTGA
1 ATTGA
2467087 CATGGGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (16 bp):
ATTGAGTTATAGCTCG
Found at i:2470344 original size:4 final size:4
Alignment explanation
Indices: 2470335--2470362 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2470325 TACAAACTAA
2470335 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
2470363 CTTAAGGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:2479695 original size:18 final size:18
Alignment explanation
Indices: 2479675--2479787 Score: 66
Period size: 18 Copynumber: 5.8 Consensus size: 18
2479665 TATATTTATT
2479675 TTTTAAAA-ATTTTTTAA
1 TTTTAAAATATTTTTTAA
*
2479692 TTTTAAAATATTTTTAAAATACT
1 TTTTAAAATATTTTT----TA-A
** *
2479715 TTTTTTATTATTTTTTAA
1 TTTTAAAATATTTTTTAA
*
2479733 TTTTAAAATATTTTTAAAATAC
1 TTTTAAAATATTTTT----TAA
** *
2479755 TTTTTTATTATTTTTTAA
1 TTTTAAAATATTTTTTAA
2479773 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
2479788 AAAATACTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 19
0.67 0.15 0.18
Matches are distributed among these distances:
17 8 0.11
18 32 0.46
19 2 0.03
22 16 0.23
23 12 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTAAAATATTTTTTAA
Found at i:2479706 original size:11 final size:11
Alignment explanation
Indices: 2479692--2479799 Score: 63
Period size: 11 Copynumber: 10.4 Consensus size: 11
2479682 AATTTTTTAA
2479692 TTTTAAAATAT
1 TTTTAAAATAT
2479703 TTTTAAAATACT
1 TTTTAAAATA-T
** *
2479715 TTTTTTATTAT
1 TTTTAAAATAT
*
2479726 TTTT----TAA
1 TTTTAAAATAT
2479733 TTTTAAAATAT
1 TTTTAAAATAT
2479744 TTTTAAAATACT
1 TTTTAAAATA-T
* *
2479756 TTTT-TATTAT
1 TTTTAAAATAT
*
2479766 TTTT----TAA
1 TTTTAAAATAT
2479773 TTTTAAAATAT
1 TTTTAAAATAT
2479784 TTTTAAAATACT
1 TTTTAAAATA-T
2479796 TTTT
1 TTTT
2479800 TAATTTTTAA
Statistics
Matches: 77, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
7 12 0.16
10 5 0.06
11 42 0.55
12 18 0.23
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:2479718 original size:41 final size:41
Alignment explanation
Indices: 2479673--2479804 Score: 230
Period size: 41 Copynumber: 3.2 Consensus size: 41
2479663 AATATATTTA
**
2479673 TTTTTTAAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
*
2479714 TTTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
2479755 TTTTTT-ATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
2479795 TTTTTTAATT
1 TTTTTTAATT
2479805 TTTAAAATAA
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 40 0.46
41 47 0.54
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTTTAATTATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:2479759 original size:30 final size:30
Alignment explanation
Indices: 2479703--2479761 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2479693 TTTAAAATAT
** *
2479703 TTTTAAAATACTTTTTTTATTATTTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTTAA
2479733 TTTTAAAATA-TTTTTAAAATACTTTTTTA
1 TTTTAAAATACTTTTTAAAATA-TTTTTTA
2479762 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATATTTTTTAA
Found at i:2479776 original size:30 final size:31
Alignment explanation
Indices: 2479742--2479813 Score: 96
Period size: 29 Copynumber: 2.4 Consensus size: 31
2479732 ATTTTAAAAT
* *
2479742 ATTTTTAAAATACTTTTT-TATTA-TTTTTTA
1 ATTTTTAAAATA-TTTTTAAAATACTTTTTTA
2479772 A-TTTTAAAATATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATATTTTTAAAATACTTTTTTA
2479802 ATTTTTAAAATA
1 ATTTTTAAAATA
2479814 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.14
29 13 0.35
30 9 0.24
31 10 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:2479801 original size:40 final size:40
Alignment explanation
Indices: 2479683--2479801 Score: 229
Period size: 40 Copynumber: 3.0 Consensus size: 40
2479673 TTTTTTAAAA
2479683 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTATT
1 ATTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTATT
2479724 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATT
1 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATT
2479764 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
1 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
2479802 ATTTTTAAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
40 47 0.60
41 31 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTATT
Found at i:2479819 original size:20 final size:20
Alignment explanation
Indices: 2479782--2479820 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2479772 ATTTTAAAAT
**
2479782 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
2479802 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
2479821 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:2479827 original size:22 final size:20
Alignment explanation
Indices: 2479781--2479838 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
2479771 AATTTTAAAA
*
2479781 TATTTTTAAAAT-ACTTTTT
1 TATTTTTAAAATAAATTTTT
2479800 TAATTTTTAAAATAAATTTTT
1 T-ATTTTTAAAATAAATTTTT
2479821 GGTATTTATTAAAA-AAAT
1 --TATTT-TTAAAATAAAT
2479839 GGACCGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 6 0.18
22 8 0.24
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:2480158 original size:9 final size:11
Alignment explanation
Indices: 2480136--2480167 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2480126 ATTATTTATT
2480136 TATTTTAAATA
1 TATTTTAAATA
2480147 TATTTTAAATA
1 TATTTTAAATA
*
2480158 TAATTTAAAT
1 TATTTTAAAT
2480168 TAATCCGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATTTTAAATA
Found at i:2480938 original size:28 final size:28
Alignment explanation
Indices: 2480896--2480955 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
2480886 CTGATTATTC
* *
2480896 AACTAGTAAGTGAAGTACGAGACCATTT
1 AACTAGTAAGCGAAGTACAAGACCATTT
* **
2480924 AACTAGTAGGCGAAGTACAAGATTATTT
1 AACTAGTAAGCGAAGTACAAGACCATTT
2480952 AACT
1 AACT
2480956 TAATGATTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (28 bp):
AACTAGTAAGCGAAGTACAAGACCATTT
Found at i:2487462 original size:2 final size:2
Alignment explanation
Indices: 2487450--2487483 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2487440 ATCTTATTAC
*
2487450 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2487484 GTGGAAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2487568 original size:31 final size:30
Alignment explanation
Indices: 2487519--2487577 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
2487509 AAATTATATT
*
2487519 TAAAAATAATATATAATAA-ATAATGAAACA
1 TAAAAATAAAATATAATAATA-AATGAAACA
*
2487549 TAAAATATAAAATTTAATAATAAATGAAA
1 TAAAA-ATAAAATATAATAATAAATGAAA
2487578 TATATACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.20
31 19 0.76
32 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (30 bp):
TAAAAATAAAATATAATAATAAATGAAACA
Found at i:2490845 original size:97 final size:96
Alignment explanation
Indices: 2490722--2490915 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 96
2490712 TATAAAATGA
2490722 CTGTTTTACCCTAATGGTGAGCCCTTTTAGGAAGGGTAGCTCAAGTTTGATCCCATAGGGTTAGA
1 CTGTTTTACCCTAATGGTGAGCCCTTTTAGGAAGGGTAGCTCAAGTTTGATCCCATAGGGTTAGA
2490787 CCATGGAACAAAAACAAATCGGGCCAAAAACC
66 CCATGGAACAAAAACAAAT-GGGCCAAAAACC
2490819 CTGTTTTACCCTAATGGTGAGCCCTTTTAGGAAGGGTAGCTCAAGTTTGATCCCATAGGGTTAGA
1 CTGTTTTACCCTAATGGTGAGCCCTTTTAGGAAGGGTAGCTCAAGTTTGATCCCATAGGGTTAGA
2490884 CCATGGAACAAAAACAAATGGGCCAAAAACC
66 CCATGGAACAAAAACAAATGGGCCAAAAACC
2490915 C
1 C
2490916 AAAGCTCTCT
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 13 0.13
97 84 0.87
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (96 bp):
CTGTTTTACCCTAATGGTGAGCCCTTTTAGGAAGGGTAGCTCAAGTTTGATCCCATAGGGTTAGA
CCATGGAACAAAAACAAATGGGCCAAAAACC
Found at i:2492646 original size:45 final size:45
Alignment explanation
Indices: 2492577--2492679 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
2492567 AATCAGTAAC
*
2492577 GGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAAT-T
* * *
2492623 -GTAACAGTAACGGTAACAGTATTCGACACACAAGGTGTCGAATT
1 GGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATT
2492667 GGTAACAGTAACA
1 GGTAACAGTAACA
2492680 ATAGTCAGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
44 1 0.02
45 48 0.96
46 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (45 bp):
GGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATT
Found at i:2494458 original size:21 final size:21
Alignment explanation
Indices: 2494423--2494475 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
2494413 TTCTTTTAAA
*
2494423 ATATATTAATTTTAT-ATTTATT
1 ATATATT-TTTTTATCATTT-TT
2494445 AT-TAATTTTTTTATCATTTTT
1 ATAT-ATTTTTTTATCATTTTT
2494466 ATATATTTTT
1 ATATATTTTT
2494476 AAATAACATG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATATTTTTTTATCATTTTT
Found at i:2502800 original size:20 final size:20
Alignment explanation
Indices: 2502772--2502823 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
2502762 TTTTTTAAAT
2502772 ATTTG-TATAAAATTTTACA
1 ATTTGTTATAAAATTTTACA
**
2502791 ATTTGTTATAATTCTTTTACA
1 ATTTGTTATAA-AATTTTACA
2502812 ATTT-TTATAAAA
1 ATTTGTTATAAAA
2502824 AAAATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 11 0.41
21 11 0.41
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTTGTTATAAAATTTTACA
Done.