Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 168 of 216
Found at i:52985924 original size:125 final size:124
Alignment explanation
Indices: 52985779--52986059 Score: 327
Period size: 125 Copynumber: 2.3 Consensus size: 124
52985769 TTTTTTCGAG
* ** ** * *
52985779 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* *
52985843 GAAATAGTGGC-CTTGTGGACAAGATTTCGCTAC-AGTGGTCATGT-GAGAAATAATTTTTTT
65 GAAATAG-CGCTCTCGTGGACAAGATTTCGCTACAAGTGGTCATGTAG-GAAATAA-TTTTTT
* * * *
52985903 TTGATGTTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* ** *
52985968 GAAATCGCGCTCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAGGAAATAATTTTTT
65 GAAATAGCGCTCTCGTGGACAAGATTTCGCTACAAGTGGTCATGTAGGAAATAATTTTTT
*
52986028 TTGACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
52986060 GCCCTCGTGG
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
124 30 0.23
125 83 0.63
126 18 0.14
127 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
AAATAGCGCTCTCGTGGACAAGATTTCGCTACAAGTGGTCATGTAGGAAATAATTTTTT
Found at i:52989264 original size:29 final size:27
Alignment explanation
Indices: 52989231--52989892 Score: 507
Period size: 29 Copynumber: 25.0 Consensus size: 27
52989221 AACTAGGGTT
52989231 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
52989260 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989283 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989306 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
52989335 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATT-AAGTAGGTTAGGGTT---TTTAA
52989364 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
52989393 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989416 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989439 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
52989468 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATT-AAGTAGGTTAGGGTT---TTTAA
52989497 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
52989526 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989549 -TTAAGT-A--AGGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989572 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
52989601 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989624 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989647 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
*
52989676 TTTAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAG-TAGGTTAGGGTTTTTAA
* *
52989704 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAG-TAGGTTAGGGTTTTTAA
* * *
52989732 TTTAATAAAATAAGGTTAGGGTTTTAAA
1 TTTAATTAAGT-AGGTTAGGGTTTTTAA
* *
52989760 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAG-TAGGTTAGGGTTTTTAA
* *
52989788 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATT-AAGTAGGTTAGGGTT---TTTAA
52989817 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
52989846 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
52989869 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
52989892 T
1 T
52989893 CAAATAATGT
Statistics
Matches: 530, Mismatches: 39, Indels: 133
0.75 0.06 0.19
Matches are distributed among these distances:
21 6 0.01
22 25 0.05
23 130 0.25
24 20 0.04
25 1 0.00
26 4 0.01
27 11 0.02
28 140 0.26
29 163 0.31
30 24 0.05
31 6 0.01
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (27 bp):
TTTAATTAAGTAGGTTAGGGTTTTTAA
Found at i:52989293 original size:17 final size:18
Alignment explanation
Indices: 52989260--52989294 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52989250 GGGTTTTTAA
*
52989260 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989278 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989295 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:52989341 original size:34 final size:34
Alignment explanation
Indices: 52989301--52989370 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
52989291 GGTTAGGGTT
*
52989301 TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAAAATAAGGTTAGGGTTTTTAA
*** *
52989335 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTTAATTAAATTAAAATAAGGTTAGGGTTTTTAA
52989369 TT
1 TT
52989371 AAGTAGGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49
Consensus pattern (34 bp):
TTTAATTAAATTAAAATAAGGTTAGGGTTTTTAA
Found at i:52989426 original size:17 final size:18
Alignment explanation
Indices: 52989393--52989427 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52989383 GGGTTTTTAA
*
52989393 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989411 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989428 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:52989462 original size:133 final size:133
Alignment explanation
Indices: 52989224--52989802 Score: 803
Period size: 133 Copynumber: 4.4 Consensus size: 133
52989214 ACAATTTAAC
52989224 TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGT
1 TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGT
52989289 AGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAG
66 AGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAG
52989354 GGT
131 GGT
52989357 TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGT
1 TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGT
52989422 AGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAG
66 AGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAG
52989487 GGT
131 GGT
52989490 TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGT
1 TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGT
*
52989555 AAGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATT--A--A----A-
66 AGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAG
52989611 --T
131 GGT
52989612 TAGGGTTTTTAATTAAGTAGGG-TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATT---A-AA--TTAGGGTTTTTAA
* * ** * *
52989676 TTTAATTAGGTTAGGTTAGGGTTTTTAATTTAAGT-AGGTTAGGTTAGGGTTTTTAATTTAATAA
60 -TTAAGTA-G---GGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
*
52989740 AATAAGGTTAGGGT
120 AATTAGGTTAGGGT
***** * *
52989754 T-TTAAATTAAATTAGGTTA-GG-TTAGGGTTTTTAATTTAATTAAATTAGG
1 TAGGGTTTTTAATTAAG-TAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
52989803 TTAGGGTTAG
Statistics
Matches: 408, Mismatches: 15, Indels: 44
0.87 0.03 0.09
Matches are distributed among these distances:
121 20 0.05
122 23 0.06
124 1 0.00
125 3 0.01
127 13 0.03
128 6 0.01
129 1 0.00
131 25 0.06
132 21 0.05
133 251 0.62
135 6 0.01
137 2 0.00
138 1 0.00
139 1 0.00
141 30 0.07
142 4 0.01
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.46
Consensus pattern (133 bp):
TAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATTAAGT
AGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAG
GGT
Found at i:52989474 original size:34 final size:34
Alignment explanation
Indices: 52989434--52989503 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
52989424 GGTTAGGGTT
*
52989434 TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAAAATAAGGTTAGGGTTTTTAA
*** *
52989468 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTTAATTAAATTAAAATAAGGTTAGGGTTTTTAA
52989502 TT
1 TT
52989504 AAGTAGGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49
Consensus pattern (34 bp):
TTTAATTAAATTAAAATAAGGTTAGGGTTTTTAA
Found at i:52989634 original size:17 final size:18
Alignment explanation
Indices: 52989601--52989635 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52989591 GGGTTTTTAA
*
52989601 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989619 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989636 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:52989686 original size:23 final size:23
Alignment explanation
Indices: 52989487--52989892 Score: 210
Period size: 23 Copynumber: 15.7 Consensus size: 23
52989477 ATTAGGTTAG
*
52989487 GGTTAGGGTTTTTAA-TTAAGTA
1 GGTTAGGGTTTTTAATTTAATTA
52989509 GGGTTTAGGGTTTTTAATTTAATTA
1 -GG-TTAGGGTTTTTAATTTAATTA
** *
52989534 AATTAGGGTTTTTAA-TTAAGTAA
1 GGTTAGGGTTTTTAATTTAA-TTA
52989557 GGTTAGGGTTTTTAATTTAATTAAAATAA
1 GGTTAGGGTTTTTAATTTAA-T----T-A
52989586 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
** *
52989609 AATTAGGGTTTTTAA-TTAAGTA
1 GGTTAGGGTTTTTAATTTAATTA
52989631 GGGTTAGGGTTTTTAATTTAATTAAAATAA
1 -GGTTAGGGTTTTTAATTTAA-T----T-A
52989661 GGTTAGGGTTTTTAATTTAATTAGGTTA
1 GGTTAGGGTTTTTAATTT-A--A--TTA
52989689 GGTTAGGGTTTTTAATTTAAGTAGGTTA
1 GGTTAGGGTTTTTAATTT-A--A--TTA
52989717 GGTTAGGGTTTTTAATTTAATAAAATAA
1 GGTTAGGGTTTTTAATTTAAT----T-A
* *
52989745 GGTTAGGGTTTTAAATTAAATTAGGTTA
1 GGTTAGGG-TTT---TTAATTTA-ATTA
52989773 GGTTAGGGTTTTTAATTTAATTAAATTA
1 GGTTAGGGTTTTTAA--T--TT-AATTA
*
52989801 GGTTAGGGTTAGGGTTTTTAA-TTAAGTA
1 GGTTAGGG------TTTTTAATTTAATTA
52989829 GGGTTTAGGGTTTTTAATTTAATTA
1 -GG-TTAGGGTTTTTAATTTAATTA
** *
52989854 AATTAGGGTTTTTAA-TTAAGTA
1 GGTTAGGGTTTTTAATTTAATTA
52989876 GGGTTAGGGTTTTTAAT
1 -GGTTAGGGTTTTTAAT
52989893 CAAATAATGT
Statistics
Matches: 309, Mismatches: 27, Indels: 93
0.72 0.06 0.22
Matches are distributed among these distances:
22 16 0.05
23 84 0.27
24 34 0.11
25 13 0.04
27 5 0.02
28 82 0.27
29 50 0.16
30 8 0.03
32 8 0.03
33 2 0.01
34 7 0.02
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTTAATTA
Found at i:52989879 original size:17 final size:18
Alignment explanation
Indices: 52989846--52989880 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52989836 GGGTTTTTAA
*
52989846 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989864 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
52989881 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:52992222 original size:29 final size:30
Alignment explanation
Indices: 52992165--52992221 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
52992155 TGAAAATATT
52992165 AAAAATTTTAAAATTATTTTAAAAAAAATA
1 AAAAATTTTAAAATTATTTTAAAAAAAATA
52992195 AAAAATTTTAAAATT-TTCTTAAAAAAA
1 AAAAATTTTAAAATTATT-TTAAAAAAA
52992222 TGAAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAATTTTAAAATTATTTTAAAAAAAATA
Found at i:52992294 original size:22 final size:22
Alignment explanation
Indices: 52992264--52992305 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52992254 ATTTGGAGAT
*
52992264 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
52992286 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
52992306 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:52992326 original size:52 final size:51
Alignment explanation
Indices: 52992255--52992357 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
52992245 TTAATATGGA
* * *
52992255 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
52992306 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
52992358 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:52992332 original size:22 final size:23
Alignment explanation
Indices: 52992307--52992398 Score: 102
Period size: 22 Copynumber: 4.2 Consensus size: 23
52992297 ATTTGAGAGT
52992307 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
52992329 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
52992351 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* * *
52992373 TTGAGA-TAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
52992395 TTGA
1 TTGA
52992399 TATTGAATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.15
22 40 0.68
23 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:52992387 original size:44 final size:44
Alignment explanation
Indices: 52992307--52992398 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
52992297 ATTTGAGAGT
* * * *
52992307 TTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTGAAAGGAAATTGAGAGAAATTTTGAAAGAAA
* *
52992351 TTGAGAGAAATTTTGAAAGG-AATTGAGATAATTTTTGAAAGAAA
1 TTGAGAG-AATTTTGAAAGGAAATTGAGAGAAATTTTGAAAGAAA
52992395 TTGA
1 TTGA
52992399 TATTGAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 30 0.73
45 11 0.27
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (44 bp):
TTGAGAGAATTTTGAAAGGAAATTGAGAGAAATTTTGAAAGAAA
Found at i:52993149 original size:23 final size:23
Alignment explanation
Indices: 52993123--52993175 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
52993113 ACCAACAAAT
52993123 TTAACAGA-AGAATTTTAATGGTG
1 TTAACA-ATAGAATTTTAATGGTG
*
52993146 TTAACAATTGAATTTTAATGGTG
1 TTAACAATAGAATTTTAATGGTG
52993169 TTAACAA
1 TTAACAA
52993176 CTGAACCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (23 bp):
TTAACAATAGAATTTTAATGGTG
Found at i:52993180 original size:23 final size:23
Alignment explanation
Indices: 52993132--52993180 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
52993122 TTTAACAGAA
*
52993132 GAATTTTAATGGTGTTAACAATT
1 GAATTTTAATGGTGTTAACAACT
52993155 GAATTTTAATGGTGTTAACAACT
1 GAATTTTAATGGTGTTAACAACT
52993178 GAA
1 GAA
52993181 CCTAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (23 bp):
GAATTTTAATGGTGTTAACAACT
Found at i:52994575 original size:3 final size:3
Alignment explanation
Indices: 52994569--52994599 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
52994559 ATTGCAGCAG
52994569 ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
52994600 TATGATTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:53002283 original size:40 final size:41
Alignment explanation
Indices: 53002195--53002284 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
53002185 ATTTTTCGTG
* * *
53002195 AAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGTGTCAG
1 AAATCGCGTCCACGTCAGCGCGATGTCAGCGTACGTGACAC
* *
53002236 AACATCGCGTCCACGTCAGCGCGAT-T-TGCTTACGTGGACAC
1 AA-ATCGCGTCCACGTCAGCGCGATGTCAGCGTACGT-GACAC
53002277 AAATCGCG
1 AAATCGCG
53002285 CCTATGAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
40 12 0.29
41 8 0.19
42 22 0.52
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (41 bp):
AAATCGCGTCCACGTCAGCGCGATGTCAGCGTACGTGACAC
Found at i:53012134 original size:18 final size:20
Alignment explanation
Indices: 53012067--53012145 Score: 89
Period size: 18 Copynumber: 4.2 Consensus size: 20
53012057 GCGAGCTTTA
*
53012067 TATAACATGCGAA-CC-ATG
1 TATATCATGCGAACCCTATG
*
53012085 TATATCATGCGAACCCTAGG
1 TATATCATGCGAACCCTATG
*
53012105 TAT-T-ATGTGAA-CCT-TG
1 TATATCATGCGAACCCTATG
53012121 TATATCATGCGAACCCTATG
1 TATATCATGCGAACCCTATG
53012141 TATAT
1 TATAT
53012146 TGTGAACCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.08
17 4 0.08
18 24 0.48
19 6 0.12
20 12 0.24
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (20 bp):
TATATCATGCGAACCCTATG
Found at i:53012152 original size:18 final size:19
Alignment explanation
Indices: 53012082--53012160 Score: 76
Period size: 18 Copynumber: 4.3 Consensus size: 19
53012072 CATGCGAACC
*
53012082 ATGTATATCATGCGAACCCT
1 ATGTATAT-ATGTGAACCCT
*
53012102 AGGTAT-TATGTGAA-CCT
1 ATGTATATATGTGAACCCT
*
53012119 -TGTATATCATGCGAACCCT
1 ATGTATAT-ATGTGAACCCT
*
53012138 ATGTATAT-TGTGAACCTT
1 ATGTATATATGTGAACCCT
53012156 ATGTA
1 ATGTA
53012161 AATCAGTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
16 4 0.08
17 4 0.08
18 25 0.51
19 4 0.08
20 12 0.24
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
ATGTATATATGTGAACCCT
Found at i:53012154 original size:36 final size:36
Alignment explanation
Indices: 53012077--53012155 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
53012067 TATAACATGC
*
53012077 GAACCATGTATATCATGCGAACCCTAGGTATTATGT
1 GAACCTTGTATATCATGCGAACCCTAGGTATTATGT
*
53012113 GAACCTTGTATATCATGCGAACCCTATGTA-TATTGT
1 GAACCTTGTATATCATGCGAACCCTAGGTATTA-TGT
53012149 GAACCTT
1 GAACCTT
53012156 ATGTAAATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (36 bp):
GAACCTTGTATATCATGCGAACCCTAGGTATTATGT
Found at i:53012381 original size:22 final size:21
Alignment explanation
Indices: 53012355--53012437 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
53012345 CAGGTACAAC
53012355 TATGCGAACCCTATGTGTTAT
1 TATGCGAACCCTATGTGTTAT
* *
53012376 TCATGCCAACCCTACATGTGGTA-
1 T-ATGCGAACCCT--ATGTGTTAT
*
53012399 TATGCGAACCCTATTTGTTGAT
1 TATGCGAACCCTATGTGTT-AT
* *
53012421 TATGCAAACCATATGTG
1 TATGCGAACCCTATGTG
53012438 GGAATCCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.10
21 2 0.04
22 34 0.69
23 1 0.02
24 7 0.14
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (21 bp):
TATGCGAACCCTATGTGTTAT
Found at i:53012460 original size:14 final size:14
Alignment explanation
Indices: 53012429--53012515 Score: 84
Period size: 14 Copynumber: 6.1 Consensus size: 14
53012419 ATTATGCAAA
* *
53012429 CCATATGTGGGAAT
1 CCATATGTGCGAAC
*
53012443 CCATAGGTGCGAAC
1 CCATATGTGCGAAC
*
53012457 CCATATATGCGAAC
1 CCATATGTGCGAAC
* * *
53012471 TCTATATGTGTGAAT
1 -CCATATGTGCGAAC
*
53012486 CCATATGAGCGAAC
1 CCATATGTGCGAAC
*
53012500 CTATATGTGCGAAC
1 CCATATGTGCGAAC
53012514 CC
1 CC
53012516 TACTTATGTA
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
14 46 0.82
15 10 0.18
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (14 bp):
CCATATGTGCGAAC
Found at i:53012479 original size:43 final size:43
Alignment explanation
Indices: 53012431--53012513 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
53012421 TATGCAAACC
*
53012431 ATATGTGGGAATCCATAGGTGCGAACCCATATATGCGAACTCT
1 ATATGTGGGAATCCATAGGAGCGAACCCATATATGCGAACTCT
* * * *
53012474 ATATGTGTGAATCCATATGAGCGAACCTATATGTGCGAAC
1 ATATGTGGGAATCCATAGGAGCGAACCCATATATGCGAAC
53012514 CCTACTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
ATATGTGGGAATCCATAGGAGCGAACCCATATATGCGAACTCT
Found at i:53013415 original size:13 final size:14
Alignment explanation
Indices: 53013399--53013439 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
53013389 ATTTCAGATA
53013399 CAAATA-ACAGAAT
1 CAAATATACAGAAT
*
53013412 CAAATATGCAGAA-
1 CAAATATACAGAAT
*
53013425 CAGATATACAGAAT
1 CAAATATACAGAAT
53013439 C
1 C
53013440 CTACCCCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (14 bp):
CAAATATACAGAAT
Found at i:53021500 original size:14 final size:14
Alignment explanation
Indices: 53021481--53021510 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53021471 AAAATAAATA
*
53021481 ATATACAGATATAT
1 ATATACACATATAT
53021495 ATATACACATATAT
1 ATATACACATATAT
53021509 AT
1 AT
53021511 GAAAGTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (14 bp):
ATATACACATATAT
Found at i:53024150 original size:45 final size:44
Alignment explanation
Indices: 53023821--53024298 Score: 255
Period size: 44 Copynumber: 10.9 Consensus size: 44
53023811 GATTATCGAC
* *
53023821 TTCAATCTGCTCCACTGC-ACTCTCAGGGAGATAAGATTTGCTT-C
1 TTCAATCTGCTCCACTACAACT-TCAGGGAGATAAGATTTG-TTAT
* * *** * *
53023865 TTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGAATTGTT-T
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTAT
* * * * *
53023908 TCTCAGTCTGCTCCACTGCAACTTTAGGGGGATAAGATCTGCTTA-
1 T-TCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-TTAT
* * * ** ***
53023953 CTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGA--CCCTA-
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTAT
* * ** ** * * *
53023994 TGCGATCCACTCTGCTGCAACTTCAGAGAGATAAGATATGTTACT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTA-T
**
53024039 TT-AATCTGCTCCACTACAACTTCAGGGAGATAAGATTATCG--GC
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT-T-GTTAT
**
53024082 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTTAT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTAT
* * * * ** *
53024126 ATTCGATCTGCCCCACTACAACTTCAGGGGGATAAAACCTGCTCA-
1 -TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-TTAT
* * * * ** *
53024171 CTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTATTACT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTA-T
* * * * *
53024216 TT-AATCCGCTCCACTACAATTTTAGGGAGATAGGATTATCG--AC
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT-T-GTTAT
*
53024259 TTCAATCTGCTCCACTACATCTTCAGGGAGATAAGATTTG
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG
53024299 CCCTCTTCGA
Statistics
Matches: 331, Mismatches: 83, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
41 29 0.09
42 2 0.01
43 13 0.04
44 243 0.73
45 41 0.12
46 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTAT
Found at i:53024283 original size:88 final size:88
Alignment explanation
Indices: 53023737--53024295 Score: 415
Period size: 88 Copynumber: 6.4 Consensus size: 88
53023727 ACTTGATGCG
* * * * * * * ****
53023737 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACCACAACCGGG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGTTACTTTAATCTGCTCCACTACAACTTCA
*
53023802 GGGAGATAGGATTATCGACTTCA
66 GGGAGATAAGATTATCGACTTCA
* * * * ***
53023825 ATCTGCTCCACTGC-ACTCTCAGGGAGATAAGATTTGCTT-CTTCAGTCTGCCCCACTGTGACTT
1 ATCTGCTCCACTGCAACT-TCAGGGAGATAAGATATG-TTACTTTAATCTGCTCCACTACAACTT
* * ***
53023888 CAGGGGGATAAGAATTGTTTTC-TCA
64 CAGGGAGATAAG-ATTATCGACTTCA
* * * * * * * **
53023913 GTCTGCTCCACTGCAACTTTAGGGGGATAAGATCTGCTTAC-TCAGTCTGCTCCGCTGTAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATG-TTACTTTAATCTGCTCCACTACAACTTC
* *
53023977 AGGGAGATAAGACCCTATGCGA--TCC
65 AGGGAGATAAGA--TTAT-CGACTTCA
* *
53024002 A-CT-CT--GCTGCAACTTCAGAGAGATAAGATATGTTACTTTAATCTGCTCCACTACAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGTTACTTTAATCTGCTCCACTACAACTTCA
*
53024063 GGGAGATAAGATTATCGGCTTCA
66 GGGAGATAAGATTATCGACTTCA
* * * *
53024086 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTTA-TATTCGATCTGCCCCACTACAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGTTACT-TT-AATCTGCTCCACTACAACTT
* * **
53024150 CAGGGGGATAAAACCTGCTC-AC-TCA
64 CAGGGAGATAAGA--TTATCGACTTCA
* * ** * * * *
53024175 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTATTACTTTAATCCGCTCCACTACAATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGTTACTTTAATCTGCTCCACTACAACTTCA
*
53024240 GGGAGATAGGATTATCGACTTCA
66 GGGAGATAAGATTATCGACTTCA
* *
53024263 ATCTGCTCCACTACATCTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
53024296 TTGCCCTCTT
Statistics
Matches: 366, Mismatches: 83, Indels: 44
0.74 0.17 0.09
Matches are distributed among these distances:
82 2 0.01
83 3 0.01
84 7 0.02
85 54 0.15
86 5 0.01
87 9 0.02
88 199 0.54
89 82 0.22
90 2 0.01
91 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (88 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATATGTTACTTTAATCTGCTCCACTACAACTTCA
GGGAGATAAGATTATCGACTTCA
Found at i:53024568 original size:43 final size:43
Alignment explanation
Indices: 53024521--53024991 Score: 221
Period size: 43 Copynumber: 10.9 Consensus size: 43
53024511 AGGACTTGTG
* *
53024521 GCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* * *
53024564 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAA
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG-CA
* * * * * * * * **
53024608 TCTTCAA-C-CTATCCC-ACTGCC-GACCAAGG-AGATAGGACTAGTG
1 GCTTAAATCTGTTTCCCTACT-CCTG----GGGAAGATAAGATTCGCA
* * *
53024651 GCTTAAATCTGTTTCCCTACTCCTAGGGAATATAAGATTCGCT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* * *
53024694 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAA
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCG-CA
* * * * * * * * * * *
53024738 TCTTCAACCT-ATCCCACCACTGACC-AGGG-AGATAGGACTAGCG
1 GCTTAAATCTGTTTCC-CTACT--CCTGGGGAAGATAAGATTCGCA
** * *
53024781 GCTTAAATCTGTTTCCCTACTTTTGGAGAAGATAAGATTCGCC
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* * *
53024824 GCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGA-TCTGTAA
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTC-G-CA
* * * * * * * * **
53024868 TCTTCAA-C-CTATCCC-ACTGCTGACCAGGG-AGATAGGACTAGTG
1 GCTTAAATCTGTTTCCCTACTCCTG----GGGAAGATAAGATTCGCA
* * *
53024911 GCTTAAATCTGTTTCCCTACTCTTGGGAAAGATAAGATTCGCC
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* *
53024954 GCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGAT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
53024992 CAATAATCTT
Statistics
Matches: 306, Mismatches: 93, Indels: 58
0.67 0.20 0.13
Matches are distributed among these distances:
41 9 0.03
42 20 0.07
43 199 0.65
44 47 0.15
45 21 0.07
46 10 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
Found at i:53024625 original size:130 final size:130
Alignment explanation
Indices: 53024474--53025003 Score: 830
Period size: 130 Copynumber: 4.1 Consensus size: 130
53024464 GACAAGACCT
* * * *
53024474 GTAAT-TTCCAACCTATTCCACTGCTG-CTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCC
1 GTAATCTT-CAACCTATCCCACTGCTGAC-CAGGGAGATAGGACTAGTGGCTTAAATCTGTTTCC
53024537 CTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
64 CTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
53024602 CC
129 CC
* *
53024604 GTAATCTTCAACCTATCCCACTGCCGACCAAGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCT
1 GTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCT
* * *
53024669 ACTCCTAGGGAATATAAGATTCGCTGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCC
66 ACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCC
** *
53024734 GTAATCTTCAACCTATCCCACCACTGACCAGGGAGATAGGACTAGCGGCTTAAATCTGTTTCCCT
1 GTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCT
** * * *
53024799 ACTTTTGGAGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGATCT
66 ACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCC
53024864 GTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCT
1 GTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCT
* * * *
53024929 ACTCTTGGGAAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGATCA
66 ACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCC
*
53024994 ATAATCTTCA
1 GTAATCTTCA
53025004 TTGATCTATT
Statistics
Matches: 368, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
130 365 0.99
131 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (130 bp):
GTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCT
ACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCC
Found at i:53024948 original size:260 final size:260
Alignment explanation
Indices: 53024335--53025003 Score: 854
Period size: 260 Copynumber: 2.6 Consensus size: 260
53024325 TTAAGGAGAC
* * * * * * *
53024335 AAGATTTGTAAT-TTCCAACCTATTCCATTGCTGGCCAGGAAGATAAGG-CTTGGTGGCATAAAT
1 AAGATCTGTAATCTT-CAACCTATCCCACTGCTGACCAGGGAGAT-AGGAC-TAGTGGCTTAAAT
* ** * * *
53024398 CTGCTTCCC-ACTATCTT-GGAAAGATAAGATTTTCCGTCTTCGATCTG-CTCCACTACTTCTTA
63 CTGTTTCCCTAC--TCTTGGGAAAGATAAGATTCGCCG-CTTAGATCTGTTTCC-CTAC-TCTTG
* * ** * *
53024460 GGG-AGACAAGA-CCTGTAAT-TTCCAACCTATTCCACTGCTGCTCAGGGAAATAGGACTTGTGG
123 GGGAAGATAAGATCC-GTAATCTT-CAACCTATCCCACCACTGCTCAGGGAAATAGGACTAGCGG
*
53024522 CTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCC
186 CTTAAATCTATTTCCCTACTCCTGGAGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCC
53024587 TGGGGAAGAT
251 TGGGGAAGAT
* * *
53024597 AAGATCCGTAATCTTCAACCTATCCCACTGCCGACCAAGGAGATAGGACTAGTGGCTTAAATCTG
1 AAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTG
* * * *
53024662 TTTCCCTACTCCTAGGG-AATATAAGATTCGCTGCTTAGATCTGTTTCCCTACTCCTGGGGAAGA
66 TTTCCCTACT-CTTGGGAAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGA
*
53024726 TAAGATCCGTAATCTTCAACCTATCCCACCACTGAC-CAGGGAGATAGGACTAGCGGCTTAAATC
130 TAAGATCCGTAATCTTCAACCTATCCCACCACTG-CTCAGGGAAATAGGACTAGCGGCTTAAATC
* ** *
53024790 TGTTTCCCTACTTTTGGAGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAG
194 TATTTCCCTACTCCTGGAGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAG
53024855 AT
259 AT
53024857 AAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTG
1 AAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTG
53024922 TTTCCCTACTCTTGGGAAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGAT
66 TTTCCCTACTCTTGGGAAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGAT
**
53024987 AAGATCAATAATCTTCA
131 AAGATCCGTAATCTTCA
53025004 TTGATCTATT
Statistics
Matches: 355, Mismatches: 41, Indels: 24
0.85 0.10 0.06
Matches are distributed among these distances:
259 11 0.03
260 260 0.73
261 44 0.12
262 38 0.11
263 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (260 bp):
AAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAGATAGGACTAGTGGCTTAAATCTG
TTTCCCTACTCTTGGGAAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGAT
AAGATCCGTAATCTTCAACCTATCCCACCACTGCTCAGGGAAATAGGACTAGCGGCTTAAATCTA
TTTCCCTACTCCTGGAGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGAT
Found at i:53026211 original size:6 final size:7
Alignment explanation
Indices: 53026193--53026242 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
53026183 TAGCCTCTCC
53026193 ATTTTTA
1 ATTTTTA
53026200 ATTTTTA
1 ATTTTTA
*
53026207 ATTTTTTC
1 A-TTTTTA
53026215 ATTTTTA
1 ATTTTTA
*
53026222 ATTTTCA
1 ATTTTTA
*
53026229 TTTTTTA
1 ATTTTTA
53026236 ATCTTTT
1 AT-TTTT
53026243 TTCTATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
7 25 0.71
8 10 0.29
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:53026217 original size:22 final size:21
Alignment explanation
Indices: 53026192--53026234 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
53026182 TTAGCCTCTC
53026192 CATTTTTAATTTTTAATTTTTT
1 CATTTTTAA-TTTTAATTTTTT
*
53026214 CATTTTTAATTTTCATTTTTT
1 CATTTTTAATTTTAATTTTTT
53026235 AATCTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
CATTTTTAATTTTAATTTTTT
Found at i:53026218 original size:15 final size:15
Alignment explanation
Indices: 53026194--53026243 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
53026184 AGCCTCTCCA
*
53026194 TTTTTAATTTTTAAT
1 TTTTTCATTTTTAAT
53026209 TTTTTCATTTTTAA-
1 TTTTTCATTTTTAAT
53026223 -TTTTCATTTTTTAAT
1 TTTTTCA-TTTTTAAT
53026238 CTTTTT
1 -TTTTT
53026244 TCTATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 6 0.20
14 7 0.23
15 13 0.43
17 4 0.13
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTCATTTTTAAT
Found at i:53026242 original size:22 final size:22
Alignment explanation
Indices: 53026193--53026242 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
53026183 TAGCCTCTCC
*
53026193 ATTTTTAATTTTTAATTTTTTC
1 ATTTTTAATTTTTAATTTTTTA
*
53026215 ATTTTTAA-TTTTCATTTTTTA
1 ATTTTTAATTTTTAATTTTTTA
53026236 ATCTTTT
1 AT-TTTT
53026243 TTCTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (22 bp):
ATTTTTAATTTTTAATTTTTTA
Found at i:53027188 original size:26 final size:26
Alignment explanation
Indices: 53027137--53027188 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
53027127 TTGACTTTGA
* * *
53027137 TTGATTTTTCTTTTTTGCTTTTAACT
1 TTGATTTTTCTTTTTTGATCTGAACT
53027163 TTGATTTTT-TTTTTTGGATCTGAACT
1 TTGATTTTTCTTTTTT-GATCTGAACT
53027189 CTTGGGATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.13, C:0.10, G:0.12, T:0.65
Consensus pattern (26 bp):
TTGATTTTTCTTTTTTGATCTGAACT
Found at i:53035683 original size:12 final size:11
Alignment explanation
Indices: 53035654--53035687 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
53035644 TTTTTTTAAA
53035654 AATATTATTTT
1 AATATTATTTT
53035665 AATATTATATTT
1 AATATTAT-TTT
*
53035677 TATATTATTTT
1 AATATTATTTT
53035688 GGTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATATTATTTT
Found at i:53035842 original size:13 final size:13
Alignment explanation
Indices: 53035824--53035855 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
53035814 TGAAGTATTG
53035824 TATTTAGGAATAA
1 TATTTAGGAATAA
53035837 TATTTAGGAATAA
1 TATTTAGGAATAA
*
53035850 TTTTTA
1 TATTTA
53035856 AACAGGGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (13 bp):
TATTTAGGAATAA
Found at i:53036156 original size:7 final size:7
Alignment explanation
Indices: 53036144--53036170 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
53036134 AGCTGACTAA
53036144 AAATAAT
1 AAATAAT
53036151 AAATAAT
1 AAATAAT
53036158 AAATAAT
1 AAATAAT
53036165 AAATAA
1 AAATAA
53036171 AAGAGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:53038086 original size:21 final size:21
Alignment explanation
Indices: 53038036--53038087 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
53038026 TAATTAAATT
* *
53038036 TTTTGGGTTTTCGGTTTCGAG
1 TTTTGGATTTTCGGTTTCAAG
* *
53038057 TATTAGATTTT-GGATTTCAAG
1 TTTTGGATTTTCGG-TTTCAAG
53038078 TTTTGGATTT
1 TTTTGGATTT
53038088 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.15, C:0.06, G:0.25, T:0.54
Consensus pattern (21 bp):
TTTTGGATTTTCGGTTTCAAG
Found at i:53039217 original size:23 final size:21
Alignment explanation
Indices: 53039164--53039217 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
53039154 ATTAAATTAT
* *
53039164 TTTAATTAAAAAAGAGACTAA
1 TTTAAATAAAAAAGAGACAAA
*
53039185 TTTAATATAAAAATAGAGAGAAA
1 TTTAA-ATAAAAA-AGAGACAAA
53039208 TCTTAAATAA
1 T-TTAAATAA
53039218 TGTATTTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.19
22 6 0.22
23 12 0.44
24 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (21 bp):
TTTAAATAAAAAAGAGACAAA
Found at i:53041617 original size:29 final size:30
Alignment explanation
Indices: 53041565--53041636 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
53041555 TTCATATAAA
* *
53041565 AAAATATTTAATAATAGTATATTATATTATTT
1 AAAA-ATTTAA-AATAGCATATTAAATTATTT
53041597 AAAAATTTAAAATA-CATATTAAATTATTT
1 AAAAATTTAAAATAGCATATTAAATTATTT
53041626 --AAATTTAAAAT
1 AAAAATTTAAAAT
53041637 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 11 0.29
29 13 0.34
30 4 0.11
31 6 0.16
32 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
AAAAATTTAAAATAGCATATTAAATTATTT
Found at i:53046135 original size:25 final size:26
Alignment explanation
Indices: 53046107--53046162 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
53046097 CATAGAAGTC
53046107 TATATAAATAAAA-AAAAT-TTAAAAA
1 TATAT-AATAAAATAAAATATTAAAAA
*
53046132 TATATTATAAAATAAAATCATTAAAAA
1 TATATAATAAAATAAAAT-ATTAAAAA
53046159 TATA
1 TATA
53046163 GACGATATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 6 0.22
25 10 0.37
27 11 0.41
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TATATAATAAAATAAAATATTAAAAA
Found at i:53046284 original size:3 final size:3
Alignment explanation
Indices: 53046276--53046320 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
53046266 TGACTATTAC
* *
53046276 AAT AAT AAT AAT AAC AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53046321 CTAATTAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:53048149 original size:29 final size:29
Alignment explanation
Indices: 53048116--53048217 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
53048106 ACTGTTGACA
* *
53048116 CCACACGATCGTGTGCCATGCTGTGTAAG
1 CCACACGATCGTGTGACAGGCTGTGTAAG
* ** * *
53048145 CCACACGA-CTGTGTGTCAGGCCATGTGAT
1 CCACACGATC-GTGTGACAGGCTGTGTAAG
53048174 CCACACGATCGTGTGACAGGCTGTGTAAG
1 CCACACGATCGTGTGACAGGCTGTGTAAG
53048203 CCACACGATCGTGTG
1 CCACACGATCGTGTG
53048218 GTAGGCTAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.02
29 58 0.97
30 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (29 bp):
CCACACGATCGTGTGACAGGCTGTGTAAG
Found at i:53048223 original size:29 final size:29
Alignment explanation
Indices: 53048116--53048230 Score: 124
Period size: 29 Copynumber: 3.9 Consensus size: 29
53048106 ACTGTTGACA
* *
53048116 CCACACGATCGTGTGCCATGCTGTGTAAG
1 CCACACGATCGTGTGGCAGGCTGTGTAAG
* ** * *
53048145 CCACACGA-CTGTGTGTCAGGCCATGTGAT
1 CCACACGATC-GTGTGGCAGGCTGTGTAAG
*
53048174 CCACACGATCGTGTGACAGGCTGTGTAAG
1 CCACACGATCGTGTGGCAGGCTGTGTAAG
*
53048203 CCACACGATCGTGTGGTAGGCTAGTGTA
1 CCACACGATCGTGTGGCAGGCT-GTGTA
53048231 GCTCACTGTT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 63 0.90
30 6 0.09
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (29 bp):
CCACACGATCGTGTGGCAGGCTGTGTAAG
Found at i:53052346 original size:21 final size:21
Alignment explanation
Indices: 53052322--53052493 Score: 114
Period size: 21 Copynumber: 8.1 Consensus size: 21
53052312 AGTTGAATAG
53052322 AAGCTCATGAA-AGCTAAACAA
1 AAGCTCAT-AAGAGCTAAACAA
*
53052343 AAGCTTATAAGAGCTAAACAA
1 AAGCTCATAAGAGCTAAACAA
* * * * * *
53052364 AAACACATAAGGGTTGAACAG
1 AAGCTCATAAGAGCTAAACAA
* *
53052385 AAGCTCGTAAGAGCTGAACAA
1 AAGCTCATAAGAGCTAAACAA
* *
53052406 AAACTCATAAGAGTTGAAA-AA
1 AAGCTCATAAGAGCT-AAACAA
* * *
53052427 AAACTCGTAAGAGCTGAACAA
1 AAGCTCATAAGAGCTAAACAA
* * * * *
53052448 AAACTCGTATGAGTTAAACAT
1 AAGCTCATAAGAGCTAAACAA
* *
53052469 AAGCTCGTAAGAGCTTAACAGA
1 AAGCTCATAAGAGCTAAACA-A
53052491 AAG
1 AAG
53052494 TAAACACAAG
Statistics
Matches: 117, Mismatches: 30, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
20 4 0.03
21 108 0.92
22 5 0.04
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (21 bp):
AAGCTCATAAGAGCTAAACAA
Found at i:53052405 original size:42 final size:42
Alignment explanation
Indices: 53052338--53052488 Score: 185
Period size: 42 Copynumber: 3.6 Consensus size: 42
53052328 ATGAAAGCTA
** * * *
53052338 AACAAAAGCTTATAAGAGCTAAACAAAAACACATAAGGGTTG
1 AACAAAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTG
*
53052380 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTG
1 AACAAAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTG
* * * * *
53052422 AAAAAAAACTCGTAAGAGCTGAACAAAAACTCGTATGAGTTA
1 AACAAAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTG
* *
53052464 AACATAAGCTCGTAAGAGCTTAACA
1 AACAAAAGCTCGTAAGAGCTGAACA
53052489 GAAAGTAAAC
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (42 bp):
AACAAAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTG
Found at i:53052445 original size:63 final size:62
Alignment explanation
Indices: 53052315--53052488 Score: 143
Period size: 63 Copynumber: 2.8 Consensus size: 62
53052305 GCTCAAAAGT
* * * * * *
53052315 TGAATAGAAGCTCATGAAAGCTAAACAAAAGCTTATAAGAGCTAAACAAAAACACATAAGGGT
1 TGAACAGAAGCTCGT-AAAGCTAAACAAAAACTCATAAGAGCTAAACAAAAACACATAAGAGC
* * * *
53052378 TGAACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGTTGAAA-AAAAACTCGTAAGAGC
1 TGAACAGAAGCTCGTAA-AGCTAAACAAAAACTCATAAGAGCT-AAACAAAAACACATAAGAGC
* * * * * * * *
53052441 TGAACAAAAACTCGTATGAGTTAAACATAAGCTCGTAAGAGCTTAACA
1 TGAACAGAAGCTCGTA-AAGCTAAACAAAAACTCATAAGAGCTAAACA
53052489 GAAAGTAAAC
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
62 4 0.05
63 80 0.92
64 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (62 bp):
TGAACAGAAGCTCGTAAAGCTAAACAAAAACTCATAAGAGCTAAACAAAAACACATAAGAGC
Found at i:53057741 original size:44 final size:44
Alignment explanation
Indices: 53057684--53057926 Score: 192
Period size: 44 Copynumber: 5.4 Consensus size: 44
53057674 TATTATTAAG
* * *
53057684 AATTATATGAAATTATATATCATTATTAAATTATATTTAATATT
1 AATTATTTTAAATTATATATAATTATTAAATTATATTTAATATT
* * *
53057728 AATTATTTTAAATTATATA-AATTCATATAAGA--AAATTTATTATC
1 AATTATTTTAAATTATATATAATT-AT-TAA-ATTATATTTAATATT
* *
53057772 AATAATTTTATGAAATTATATATCATTATTAAATTATATTTAATATT
1 AATTA-TTT-T-AAATTATATATAATTATTAAATTATATTTAATATT
* * *
53057819 AATTATTTTAAATTATATA-AATTCATATAAGA--AAATTTATTATC
1 AATTATTTTAAATTATATATAATT-AT-TAA-ATTATATTTAATATT
** * *
53057863 AAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAATAAT
1 AATTA-TTT-T-AAATTATATATAATTATTAAATTATATTTAATATT
*
53057910 AATTCTTTTAAATTATA
1 AATTATTTTAAATTATA
53057927 CAAATTCATA
Statistics
Matches: 155, Mismatches: 26, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
43 6 0.04
44 64 0.41
45 16 0.10
46 16 0.10
47 47 0.30
48 6 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (44 bp):
AATTATTTTAAATTATATATAATTATTAAATTATATTTAATATT
Found at i:53057789 original size:101 final size:98
Alignment explanation
Indices: 53057684--53058028 Score: 400
Period size: 91 Copynumber: 3.6 Consensus size: 98
53057674 TATTATTAAG
53057684 AATTATATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAA
1 AATTATATGAAATTATATAT-ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAA
53057749 TTCATATAAGAAAATTTATTATCAAT-A----AT
65 TTCATATAAGAAAATTTATTATCAATAATTTTAT
53057778 --TT-TATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAA
1 AATTATATGAAATTATATAT-ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAA
*
53057840 TTCATATAAGAAAATTTATTATCAA-GA----AT
65 TTCATATAAGAAAATTTATTATCAATAATTTTAT
* * *
53057869 --TT-TATGAAATTATATATTATTATTAAATTATATTTAATAATAATTCTTTTAAATTATACAAA
1 AATTATATGAAATTATATA-TATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAA
* *
53057931 TTCATATAAGAAAATTTATTAGT-TATAATTATTTT
65 TTCATATAAGAAAATTTATTA-TCAATAATT-TTAT
* * * * * *
53057966 AAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATAT
1 -AATTATATGAAATTATATATATT-ATTAAATTATATTTAATATTAATTATTTTAAATTATAT
53058029 TTTATAGTAT
Statistics
Matches: 223, Mismatches: 14, Indels: 21
0.86 0.05 0.08
Matches are distributed among these distances:
91 167 0.75
92 5 0.02
97 1 0.00
100 5 0.02
101 45 0.20
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (98 bp):
AATTATATGAAATTATATATATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAAT
TCATATAAGAAAATTTATTATCAATAATTTTAT
Found at i:53057948 original size:44 final size:43
Alignment explanation
Indices: 53057718--53057985 Score: 181
Period size: 47 Copynumber: 5.9 Consensus size: 43
53057708 ATTAAATTAT
*
53057718 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAA
1 ATTTAATAATAATT-TTTTAAATTATATAAATTCATATAAGAAA
* * *
53057762 ATTTATTATCAATAATTTTATGAAATTATATATCATT-AT-TAA-ATTAT
1 ATTTA--AT-AATAATTTT-TTAAATTATATA-AATTCATATAAGA--AA
*
53057809 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAA
1 ATTTAATAATAATT-TTTTAAATTATATAAATTCATATAAGAAA
* * * *
53057853 ATTTATTATCAAGAATTTTATGAAATTATATATTATT-AT-TAA-ATTAT
1 ATTTA--AT-AATAATTTT-TTAAATTATATA-AATTCATATAAGA--AA
*
53057900 ATTTAATAATAATTCTTTTAAATTATACAAATTCATATAAGAAA
1 ATTTAATAATAATT-TTTTAAATTATATAAATTCATATAAGAAA
* *
53057944 ATTTATTAGTTATAATTATTTTAAATTTTATTAAA-TCATATA
1 ATTTA--A-TAATAATT-TTTTAAATTATA-TAAATTCATATA
53057986 TTTTAATTAA
Statistics
Matches: 176, Mismatches: 22, Indels: 49
0.71 0.09 0.20
Matches are distributed among these distances:
43 6 0.03
44 54 0.31
45 16 0.09
46 17 0.10
47 74 0.42
48 9 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (43 bp):
ATTTAATAATAATTTTTTAAATTATATAAATTCATATAAGAAA
Found at i:53057970 original size:91 final size:91
Alignment explanation
Indices: 53057654--53057951 Score: 524
Period size: 91 Copynumber: 3.3 Consensus size: 91
53057644 ATGATTTTAG
* * *
53057654 TAAATTCATATAAGAACATTTATTATTAAGAATTATATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
53057719 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
53057745 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
53057810 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
53057836 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
53057901 TTTAATAATAATTCTTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
53057927 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
53057952 GTTATAATTA
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 198 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:53058722 original size:52 final size:52
Alignment explanation
Indices: 53058658--53058762 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
53058648 AAGAAAATAG
53058658 TAAGAATTGAACTCACATGAAGCAAAAATATAAAAACCAGCTTAAAAAGCTC
1 TAAGAATTGAACTCACATGAAGCAAAAATATAAAAACCAGCTTAAAAAGCTC
53058710 TAAGAATTGAACTCACATGAAGCAAAAATATAAAAACCAGCTTAAAAAGCTC
1 TAAGAATTGAACTCACATGAAGCAAAAATATAAAAACCAGCTTAAAAAGCTC
53058762 T
1 T
53058763 CCTATGGCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.20
Consensus pattern (52 bp):
TAAGAATTGAACTCACATGAAGCAAAAATATAAAAACCAGCTTAAAAAGCTC
Found at i:53059747 original size:121 final size:121
Alignment explanation
Indices: 53059599--53059841 Score: 468
Period size: 121 Copynumber: 2.0 Consensus size: 121
53059589 TTCTTCCACA
53059599 AAAGAATGCTATCAAGGATACCATTTTTACTATAGTCAAATTACAATTTCTTATTTGGCTACTTT
1 AAAGAATGCTATCAAGGATACCATTTTTACTATAGTCAAATTACAATTTCTTATTTGGCTACTTT
*
53059664 ATTTATTTCTTGATATCCAAGAAATTAATTTCACAATCACCAAAATATATGAAACC
66 ATTTATTTCTTAATATCCAAGAAATTAATTTCACAATCACCAAAATATATGAAACC
*
53059720 AAAGAATGCTATCAAGGATACCCTTTTTACTATAGTCAAATTACAATTTCTTATTTGGCTACTTT
1 AAAGAATGCTATCAAGGATACCATTTTTACTATAGTCAAATTACAATTTCTTATTTGGCTACTTT
53059785 ATTTATTTCTTAATATCCAAGAAATTAATTTCACAATCACCAAAATATATGAAACC
66 ATTTATTTCTTAATATCCAAGAAATTAATTTCACAATCACCAAAATATATGAAACC
53059841 A
1 A
53059842 TGCTTCATGT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (121 bp):
AAAGAATGCTATCAAGGATACCATTTTTACTATAGTCAAATTACAATTTCTTATTTGGCTACTTT
ATTTATTTCTTAATATCCAAGAAATTAATTTCACAATCACCAAAATATATGAAACC
Found at i:53061762 original size:86 final size:86
Alignment explanation
Indices: 53061662--53061834 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
53061652 TGCAATTATT
53061662 AAAACACTACATATATTTTAAAAATATTCCAACATTATTGTGATCTCAATTTTTCATTTTGAAAA
1 AAAACACTACATATATTTTAAAAATATTCCAACATTATTGTGATCTCAATTTTTCATTTTGAAAA
53061727 ACCTTTTTAATTTTGATTACA
66 ACCTTTTTAATTTTGATTACA
53061748 AAAACACTACATATATTTTAAAAATATTCCAACATTATTGTGATCTCAATTTTTCATTTTGAAAA
1 AAAACACTACATATATTTTAAAAATATTCCAACATTATTGTGATCTCAATTTTTCATTTTGAAAA
53061813 ACCTTTTTAATTTTGATTACA
66 ACCTTTTTAATTTTGATTACA
53061834 A
1 A
53061835 TAGTTTTGAG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (86 bp):
AAAACACTACATATATTTTAAAAATATTCCAACATTATTGTGATCTCAATTTTTCATTTTGAAAA
ACCTTTTTAATTTTGATTACA
Found at i:53062897 original size:30 final size:31
Alignment explanation
Indices: 53062863--53062931 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
53062853 TAGTAATAAT
*
53062863 AAAATTATATTTTAAT-TCTTAAAAA-TAGTA
1 AAAATTATAATTTAATCTCTTAAAAAGTA-TA
*
53062893 AAAATT-TAATTTAATCTTTTAAAAAGTATA
1 AAAATTATAATTTAATCTCTTAAAAAGTATA
*
53062923 AAAAATATA
1 AAAATTATA
53062932 GACTATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 8 0.24
30 21 0.64
31 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (31 bp):
AAAATTATAATTTAATCTCTTAAAAAGTATA
Found at i:53069040 original size:5 final size:6
Alignment explanation
Indices: 53069012--53069041 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
53069002 TCATATATCT
53069012 AAATCA AAATCA AAATCA AAATC- AAATCA A
1 AAATCA AAATCA AAATCA AAATCA AAATCA A
53069042 TCAATTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:53070979 original size:12 final size:13
Alignment explanation
Indices: 53070954--53070982 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
53070944 TTTTTGAAGT
53070954 TTTTAATATTTTA
1 TTTTAATATTTTA
53070967 TTTTAAT-TTTTA
1 TTTTAATATTTTA
53070979 TTTT
1 TTTT
53070983 TTATGAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTAATATTTTA
Found at i:53075423 original size:44 final size:44
Alignment explanation
Indices: 53075396--53075844 Score: 330
Period size: 44 Copynumber: 10.1 Consensus size: 44
53075386 GGGGCATAGA
*
53075396 ATTAGTAGCTTC-ATCTTGTTCCACTGCAACTTCATGGAGATAAG
1 ATTAGCAGCTTCAATC-TGTTCCACTGCAACTTCATGGAGATAAG
* *
53075440 ATTTGCAGCTTCAATCTGTTCCACTGCAACTTCAAGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGATAAG
* * **** * ** * *
53075484 ATTCACTATGGTAGATTCAATCCAACCCAATATAACTTCA-GGGGTATAGG
1 A-T---TA--GCAGCTTCAATCTGTTCCACTGCAACTTCATGGAG-ATAAG
* * * *
53075534 ATTTGTAGCTTCAATCTGCTCCACTGTAACTTCA-GGAAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGG-AGATAAG
* * * * *
53075578 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGATAAG
* ** * *
53075622 ATTTGTTGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGATAAG
* * * * *
53075666 ATTCGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGATAAG
* ** * *
53075710 ATTTGTTGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGATAAG
* * * * *
53075754 ATTCGTAGCTTCAATCTGCTCCACTACAACTTTA-GGAAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGG-AGATAAG
*** * * * *
53075798 ATTTTTAGCTTTAATCTGCTCCACTGCAATTTCAAGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGATAAG
53075842 ATT
1 ATT
53075845 CGCTATGGTA
Statistics
Matches: 348, Mismatches: 45, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.01
44 305 0.88
45 9 0.03
46 1 0.00
48 1 0.00
49 4 0.01
50 26 0.07
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGATAAG
Found at i:53075640 original size:88 final size:87
Alignment explanation
Indices: 53075360--53075846 Score: 543
Period size: 88 Copynumber: 5.5 Consensus size: 87
53075350 GCGACTGTAA
* * * * * *
53075360 CTTCATTCTGCACCACTGCAACTTTAGGGGCAT-AGAATTAGTAGCTTC-ATCTTGTTCCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAGGAG-ATAAG-ATTCGTAGCTTCAATC-TGCTCCACTGC
* * **
53075423 AACTTCATGGAGATAAGATTTGCAG
63 AACTTCAGGGAAATAAGATTTGTTG
* * **
53075448 CTTCAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCACTATGGTAGATTCAATCCAAC-CC
1 CTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGATT--C----GTAGCTTCAAT-CTGCTCC
* ** ** * *
53075512 AATATAACTTCAGGGGTATAGGATTTGTAG
58 ACTGCAACTTCAGGGAAATAAGATTTGTTG
* *
53075542 CTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGG-AGATAAGATTCGTAGCTTCAATCTGCTCCACTGCAA
53075607 CTTCAGGGAAATAAGATTTGTTG
65 CTTCAGGGAAATAAGATTTGTTG
53075630 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAGATAAGATTCGTAGCTTCAATCTGCTCCACTGCAA
53075695 CTTCAGGGAAATAAGATTTGTTG
65 CTTCAGGGAAATAAGATTTGTTG
*
53075718 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTACAA
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAGATAAGATTCGTAGCTTCAATCTGCTCCACTGCAA
*
53075783 CTTTA-GGAAGATAAGATTT-TTAG
65 CTTCAGGGAA-ATAAGATTTGTT-G
* *
53075806 CTTTAATCTGCTCCACTGCAATTTCAAGGAGATAAGATTCG
1 CTTCAATCTGCTCCACTGCAACTTC-AGGAGATAAGATTCG
53075847 CTATGGTAGA
Statistics
Matches: 346, Mismatches: 37, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
87 8 0.02
88 259 0.75
89 9 0.03
93 3 0.01
94 64 0.18
95 2 0.01
96 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (87 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTGCAAC
TTCAGGGAAATAAGATTTGTTG
Found at i:53075709 original size:132 final size:133
Alignment explanation
Indices: 53075225--53075844 Score: 576
Period size: 132 Copynumber: 4.6 Consensus size: 133
53075215 AGTTTCATCT
* * * **
53075225 TGCTCCATTGCAACTTCAAGGAGATAAGATTGTTGTTGTAGTTTCAATCTAATCCACTGCAACTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA----T-TTGTAGCTTCAATCTGCTCCACTGCAACTT
* * * * * *
53075290 TAAGGATATAGGATTTGTAGCCTC-ATCTTGCTCCAC-GAAAACTTTAGGGAGATAAGATTTGCG
61 CAAGGAAATAAGATTTGTAGCTTCAATC-TGCTCCACTG-CAACTTCAGGGAGATAAGATTT--G
* *
53075353 ACTGTAACTTCATTC
122 ---GTAGCTTCAATC
* * * *
53075368 TGCACCACTGCAACTTTAGGG-GCAT-AGAATTAGTAGCTTC-ATCTTGTTCCACTGCAACTTCA
1 TGCTCCACTGCAACTTCAGGGAG-ATAAG-ATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCA
* * * * *
53075430 TGGAGATAAGATTTGCAGCTTCAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCACTATGG
63 AGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T---T-TGG
*
53075495 TAGATTCAATCC
123 TAGCTTCAAT-C
** * ** * *
53075507 AAC-CCAATATAACTTCAGGG-GTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTC-AG
1 TGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAG
* *
53075569 GAAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTT-GTTGCTT
65 GAA-ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGGTAGCTT
53075633 CAATC
129 CAATC
* *
53075638 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGG
* *
53075703 AAATAAGATTTGTTGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAGCTTCA
66 AAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGGTAGCTTCA
53075767 ATC
131 ATC
* * * * * *
53075770 TGCTCCACTACAACTTTAGGAAGATAAGATTTTTAGCTTTAATCTGCTCCACTGCAATTTCAAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGG
*
53075835 AGATAAGATT
66 AAATAAGATT
53075845 CGCTATGGTA
Statistics
Matches: 398, Mismatches: 61, Indels: 47
0.79 0.12 0.09
Matches are distributed among these distances:
131 4 0.01
132 183 0.46
133 6 0.02
134 1 0.00
137 7 0.02
138 159 0.40
139 12 0.03
141 1 0.00
142 4 0.01
143 21 0.05
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (133 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGG
AAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGGTAGCTTCA
ATC
Found at i:53088945 original size:17 final size:18
Alignment explanation
Indices: 53088913--53088949 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
53088903 TCGTTTTTAT
53088913 TTTCTCTTTTGCTATTTC
1 TTTCTCTTTTGCTATTTC
*
53088931 TTTCTC-TTTGTTATTTC
1 TTTCTCTTTTGCTATTTC
53088948 TT
1 TT
53088950 CTGTTCTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTCTCTTTTGCTATTTC
Found at i:53090199 original size:14 final size:13
Alignment explanation
Indices: 53090180--53090210 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
53090170 AATGGATTAG
53090180 TATAATTCTTATCA
1 TATAATTCTTAT-A
53090194 TATAATTCTTATA
1 TATAATTCTTATA
53090207 TATA
1 TATA
53090211 TTGTACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATTCTTATA
Found at i:53092139 original size:7 final size:7
Alignment explanation
Indices: 53092127--53092160 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
53092117 TAAAATTACA
*
53092127 ACATTCT
1 ACATTCC
53092134 ACATTCC
1 ACATTCC
53092141 ACATTCC
1 ACATTCC
53092148 ACATTCC
1 ACATTCC
53092155 ACATTC
1 ACATTC
53092161 ATATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.32
Consensus pattern (7 bp):
ACATTCC
Found at i:53093406 original size:13 final size:13
Alignment explanation
Indices: 53093390--53093414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53093380 TAAATTAAAA
53093390 AAATAAAAATATC
1 AAATAAAAATATC
53093403 AAATAAAAATAT
1 AAATAAAAATAT
53093415 TGCTACTGTA
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAAATATC
Found at i:53096208 original size:20 final size:19
Alignment explanation
Indices: 53096183--53096254 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
53096173 TAAGATATAA
53096183 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTA-AAATT
*
53096203 ATTTTGAA-ATTTAAAATTT
1 ATTTTGAATTTTTAAAA-TT
53096222 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
53096242 ATTTTGAATTTTT
1 ATTTTGAATTTTT
53096255 TTTGGTAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 11 0.24
20 24 0.52
21 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:53104861 original size:20 final size:20
Alignment explanation
Indices: 53104836--53104875 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53104826 CGTAAAATAA
*
53104836 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
53104856 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
53104876 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:53104865 original size:34 final size:35
Alignment explanation
Indices: 53104821--53104887 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53104811 CAGTAAAATG
*
53104821 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
53104855 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
53104888 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:53105070 original size:22 final size:24
Alignment explanation
Indices: 53105045--53105095 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
53105035 TTATTTATAA
53105045 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
53105065 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
53105091 ATAAA
1 ATAAA
53105096 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:53108285 original size:21 final size:21
Alignment explanation
Indices: 53108259--53108302 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
53108249 TGTAAAAAAG
53108259 TTGATTCCAACTGGAAATTCT
1 TTGATTCCAACTGGAAATTCT
53108280 TTGATTCCAACTGGAAATTCT
1 TTGATTCCAACTGGAAATTCT
53108301 TT
1 TT
53108303 TAAAGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (21 bp):
TTGATTCCAACTGGAAATTCT
Found at i:53108455 original size:16 final size:17
Alignment explanation
Indices: 53108423--53108455 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53108413 AACTAACAGT
53108423 TATAAAATTTATATTTA
1 TATAAAATTTATATTTA
53108440 TATAAAATTT-TATTTA
1 TATAAAATTTATATTTA
53108456 AATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATAAAATTTATATTTA
Found at i:53108750 original size:108 final size:108
Alignment explanation
Indices: 53108558--53108778 Score: 354
Period size: 108 Copynumber: 2.0 Consensus size: 108
53108548 TGTGGCTGAG
* *
53108558 GAGTCTTTCTAGATGTTGAAGATGTACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
1 GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
* *
53108623 TACCTCTCATTGAAATGGGATAGGAGTATTTATAGGTGGAGGA
66 TACCTATCATTGAAATGGGATAGGAGTATTTATAGGTAGAGGA
*
53108666 GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAGTGGAGGAAGAAGAA
1 GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
* * *
53108731 TACCTATCCTT-AAGGTGGGATAGGAGTATTTGTAGGTAGAGGA
66 TACCTATCATTGAA-ATGGGATAGGAGTATTTATAGGTAGAGGA
53108774 GAGTC
1 GAGTC
53108779 CACTCTTTCG
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 2 0.02
108 102 0.98
ACGTcount: A:0.39, C:0.07, G:0.29, T:0.25
Consensus pattern (108 bp):
GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
TACCTATCATTGAAATGGGATAGGAGTATTTATAGGTAGAGGA
Found at i:53111846 original size:39 final size:40
Alignment explanation
Indices: 53111803--53111889 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
53111793 GAATTATGGG
* * *
53111803 ATACTGGATATTGTTTTG-ATTACTG-AGTGAATTGTGAAA
1 ATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAAA
*
53111842 ATACTGAATATTGTTATGTATAATGCATTGAATTGTGAAA
1 ATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAAA
*
53111882 TTACTGAA
1 ATACTGAA
53111890 GTAAAGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 20 0.49
40 21 0.51
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (40 bp):
ATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAAA
Found at i:53112116 original size:38 final size:39
Alignment explanation
Indices: 53112064--53112146 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
53112054 ATTTGCCGGC
*
53112064 TTACTGATCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
* *
53112102 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACTGTTACTG
53112141 TTACTG
1 TTACTG
53112147 TTACTGACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 12 0.30
39 28 0.70
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
Found at i:53112144 original size:39 final size:39
Alignment explanation
Indices: 53112064--53112236 Score: 134
Period size: 45 Copynumber: 4.2 Consensus size: 39
53112054 ATTTGCCGGC
* * *
53112064 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
53112102 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
*
53112141 TTACTGTTACTGACTCGGCACTTTGTGTGTTGAATACAGTTACCGTTACTG
1 TTACTG--A-T---TCGGCACTTTGTGTGTCGAATAC---T---GTTACTG
* * * * *
53112192 TTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTA
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
53112231 TTACTG
1 TTACTG
53112237 TTACTGATTA
Statistics
Matches: 112, Mismatches: 9, Indels: 27
0.76 0.06 0.18
Matches are distributed among these distances:
38 12 0.11
39 39 0.35
41 1 0.01
42 2 0.02
45 44 0.39
48 2 0.02
51 12 0.11
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.39
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:53112159 original size:45 final size:45
Alignment explanation
Indices: 53112091--53112245 Score: 238
Period size: 45 Copynumber: 3.4 Consensus size: 45
53112081 ATGTGCCGAC
*
53112091 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
* *
53112136 TACTGTTACTGTTACTGACTCGGCACTTTGTGTGTTGAATACAGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
* * * *
53112181 TACCGTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
*
53112226 TACTATTACTGTTACTGATT
1 TACTGTTACTGTTACTGATT
53112246 ACTGTATACT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTTGAATACTGT
Found at i:53112237 original size:12 final size:13
Alignment explanation
Indices: 53112220--53112256 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
53112210 GTGTGTTGAA
53112220 TACTGTTACT-AT
1 TACTGTTACTGAT
53112232 TACTGTTACTGAT
1 TACTGTTACTGAT
53112245 TACTGTATACTG
1 TACTGT-TACTG
53112257 GTGTGTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.43
13 8 0.35
14 5 0.22
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (13 bp):
TACTGTTACTGAT
Found at i:53117670 original size:38 final size:39
Alignment explanation
Indices: 53117618--53117700 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
53117608 ATTTGCCGGC
* * *
53117618 TTACTGATCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACAGTTACCG
* *
53117656 TTACTGATTC-GGCACTTTGTGTGTCGAATACAGTTACCG
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACAGTTACCG
53117695 TTACTG
1 TTACTG
53117701 TTACAGGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 12 0.32
39 26 0.68
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACAGTTACCG
Found at i:53117716 original size:45 final size:45
Alignment explanation
Indices: 53117649--53117749 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
53117639 GCCGACTACT
* *
53117649 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACAGTTACC
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACAGTTACC
* * * *
53117694 GTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACAGTTACC
53117739 GTTACTGTTAC
1 GTTACTGTTAC
53117750 TGTTACTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACAGTTACC
Found at i:53117737 original size:39 final size:39
Alignment explanation
Indices: 53117636--53117743 Score: 108
Period size: 45 Copynumber: 2.6 Consensus size: 39
53117626 CAGGCACTTA
* * * *
53117636 TGTGCCGACTACTGTTACTGTTACTGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACAGATTCAGCACTTTG
*
53117675 TGTGTCGAATACAGTTACCGTTACTGTTACAGGTTCAGCACTTTG
1 TGTGTCGAATAC---T---GTTACTGTTACAGATTCAGCACTTTG
*
53117720 TGTGTTGAATACTGTTACTGTTAC
1 TGTGTCGAATACTGTTACTGTTAC
53117744 TGTTACTGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
39 21 0.37
42 2 0.04
45 34 0.60
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACAGATTCAGCACTTTG
Found at i:53117740 original size:6 final size:6
Alignment explanation
Indices: 53117729--53117777 Score: 80
Period size: 6 Copynumber: 7.8 Consensus size: 6
53117719 GTGTGTTGAA
53117729 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGGT TACTGT ATACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT-GT TACTGT -TACTG
53117778 GTGTGTTTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 30 0.73
7 11 0.27
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:53119224 original size:105 final size:105
Alignment explanation
Indices: 53119042--53119252 Score: 395
Period size: 105 Copynumber: 2.0 Consensus size: 105
53119032 TTTTCCTATC
53119042 CTATGGCATGCCATCCATATCCTACTCAACCCGATACAGTTAATAGAGTTTCATTTCACTTTTCA
1 CTATGGCATGCCATCCATATCCTACTCAACCCGATACAGTTAATAGAGTTTCATTTCACTTTTCA
53119107 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
66 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
* * *
53119147 CTATGGCATGCCATCTATATCCTACTCAACCCGATATAGTTAATAGGGTTTCATTTCACTTTTCA
1 CTATGGCATGCCATCCATATCCTACTCAACCCGATACAGTTAATAGAGTTTCATTTCACTTTTCA
53119212 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
66 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
53119252 C
1 C
53119253 ATTTCAATTT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (105 bp):
CTATGGCATGCCATCCATATCCTACTCAACCCGATACAGTTAATAGAGTTTCATTTCACTTTTCA
AATACAACCAATATCCAATTCTCATATTTGCACATATATT
Found at i:53123035 original size:33 final size:31
Alignment explanation
Indices: 53122942--53123027 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 31
53122932 ATAAAACATG
* * *
53122942 CAGTAACAGTCTGGGCCTGAGCCCTATTCAGTAA
1 CAGTAACAGTGTGGGCCTTAGCCC-A-TCAAT-A
*
53122976 CAGT-ATAGTGTGGGCCTTAG-CC--CAATA
1 CAGTAACAGTGTGGGCCTTAGCCCATCAATA
53123003 CAGTAACAGTGTGGGCCTTAGCCCA
1 CAGTAACAGTGTGGGCCTTAGCCCA
53123028 ATACAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
27 5 0.11
28 18 0.41
29 2 0.05
32 2 0.05
33 13 0.30
34 4 0.09
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (31 bp):
CAGTAACAGTGTGGGCCTTAGCCCATCAATA
Found at i:53123045 original size:33 final size:32
Alignment explanation
Indices: 53122947--53123046 Score: 91
Period size: 33 Copynumber: 3.2 Consensus size: 32
53122937 ACATGCAGTA
* * * * *
53122947 ACAGTCTGGGCCTGAGCCCTATTCAGTAACAGT
1 ACAGTGTGGGCCTTAGCCCAATACA-TAATAGT
* *
53122980 ATAGTGTGGGCCTTAGCCCAATAC--AGTA--
1 ACAGTGTGGGCCTTAGCCCAATACATAATAGT
53123008 ACAGTGTGGGCCTTAGCCCAATACAATAATAGT
1 ACAGTGTGGGCCTTAGCCCAATAC-ATAATAGT
53123041 ACAGTG
1 ACAGTG
53123047 CAATAATGCA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 23 0.43
30 2 0.04
31 3 0.06
33 25 0.47
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (32 bp):
ACAGTGTGGGCCTTAGCCCAATACATAATAGT
Found at i:53131263 original size:70 final size:67
Alignment explanation
Indices: 53131171--53131303 Score: 196
Period size: 70 Copynumber: 1.9 Consensus size: 67
53131161 TCCGAATAAG
* *
53131171 AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTACCTTTTC-TAAAGTTAAAAGTCAAAACCAT
1 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTA----TTCATAAAGTTAAAAGGCAAAACCAT
53131235 TAAGTT
62 TAAGTT
*
53131241 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTATTCATTAAGTTAAAAGGCAAAACCATTA
1 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTATTCATAAAGTTAAAAGGCAAAACCATTA
53131304 TATTGTTTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
66 3 0.05
67 22 0.37
70 34 0.58
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (67 bp):
AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTATTCATAAAGTTAAAAGGCAAAACCATTAAG
TT
Found at i:53135326 original size:123 final size:122
Alignment explanation
Indices: 53135199--53136613 Score: 934
Period size: 123 Copynumber: 11.6 Consensus size: 122
53135189 CTTTGTAGGA
* *
53135199 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTATTGATACGCGGCCATT-AGTGACCTCATCATAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGC-GCCATTGA-TGACCTCATTATAAG
* * * * *
53135263 CTGTGTCATTGACAAGCTTTTCATTGTGATCATGCCCAATATTAAAGAATTCTAC-GGGG
64 CTGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCT-CTGGGG
* * * ** * * * * * * *
53135322 AGCTTTACTTCGTTATGATCAGTTTCAACTATTAATATGTCGCTATTGATGACCTCTTTGTAAGG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACG-CGCCATTGATGACCTCATTATAAGC
* * * * * *
53135387 TGTGTCAACGACAAGC-TTTCTGTTACCATCATGCTCAATATTAAAGGATTCTGTGGGG
65 TGTGTCAATGACAAGCTTTTC-ATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
** * * * *
53135445 AGCTTCACTTCGTTTTGCTCAGTTTCCGCTACTGATATGC-CATCACTGATGACTTCATTACAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCGC--CATTGATGACCTCATTATAAG
* * * * *
53135509 ATGTGTCAATGACGAAG-TTTCCGTTATCATCATACCCAACATT-AAGAGATT-TACTGGCG
64 CTGTGTCAATGAC-AAGCTTTTCATTATCATCATGCCCAACATTAAAG-GATTCT-CTGGGG
* * * * * * * *
53135568 AGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATTGGTGACATCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGC-GCCATTGATGACCTCATTATAAGC
* * * * * *
53135633 TGTGTCAAAGACAAGTTTTTGATTATCATCATGCCGAACATTAAGGGATTCTGTGGGG
65 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * * * *
53135691 AGCTTTACTTCATTATGCTCAGCTTCAC-TTACTAATACGTCGCCATTGATGATCTCATTGTAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTC-CGCTACTGATACG-CGCCATTGATGACCTCATTATAAG
* ** * *
53135755 -TCGTGTCAATGACAAACTTTTTGTTATCGTCATGCCCAACATTAAGGGATTCTCTGGGG
64 CT-GTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * * * *
53135814 AGCTTCGCTACGTTTTGCTCCA-TTTCCACTATTGATACACGGTCATTCATGACTTCATTATAAG
1 AGCTTTGCTTCGTTTTGCT-CAGTTTCCGCTACTGATACGC-GCCATTGATGACCTCATTATAAG
* * * * * * * *
53135878 CTGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGG
64 CTGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * *
53135937 AGCTGTGCGTCATTTTGCTCAGTTTCCGCTACTGATATGCCGCCATTGATGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACG-CGCCATTGATGACCTCATTATAAGC
* * * * * * *
53136002 TATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGTATTCTCTGGAG
65 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * *
53136060 AGCTTTGCTTCGTTTTGCTTAGTTTCCACTACTGATACGCCGTCATTGATGACTTCATTATAAG-
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACG-CGCCATTGATGACCTCATTATAAGC
* * * * * *
53136124 TCGAGTAAATGACAAAC-TTTC--CATCATCATGCCCAACATTAAAGGGTTCTTTGGGG
65 T-GTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * * * *
53136180 AGCTTTGCTTCGATATCCTCAGGTTCAGCTACTAATACGTCGCCATTGATGACCTCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACG-CGCCATTGATGACCTCATTATAAGC
* ** * * * * * * * *
53136245 TGTGTCAACGACAAG-TTTATTTTTATCGTAATGTCCAACATCAAGGGATTTTATGGAG
65 TGTGTCAATGACAAGCTTT-TCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* ** * * * *
53136303 AGCTTTACTTCGTTCGGCTTAGTTTCCGCTATTGATACGCCGCCA-T--TGACCTCGTTATAAAC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACG-CGCCATTGATGACCTCATTATAAGC
* * ** * ** *
53136365 T-TTTCCGATGACAAGCTTTTTGTTATCATCATGCCTAACATTAACCGATTCTGTGGAGG
65 TGTGT-CAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGG-GG
* * ** * * * * * *
53136424 -GTTTTGCTTTGTTCCGGTCAG-TTCTCGCTATTGATACATCACC---GTTGACCTCATTGTAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTC-CGCTACTGATAC-GCGCCATTGATGACCTCATTATAAG
* * ** * * ** ** * *
53136484 TTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAATGTTAGGGGATTGTGTGGGG
64 CTGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * ** * * **
53136543 AGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTGGCACATCGCCATTGATGACCTCGTCGTAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATAC-GCGCCATTGATGACCTCATTATAAGC
53136608 TGTGTC
65 TGTGTC
53136614 GACTGCAATC
Statistics
Matches: 1013, Mismatches: 236, Indels: 86
0.76 0.18 0.06
Matches are distributed among these distances:
119 7 0.01
120 257 0.25
121 12 0.01
122 22 0.02
123 697 0.69
124 17 0.02
125 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (122 bp):
AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCGCCATTGATGACCTCATTATAAGCT
GTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
Found at i:53136422 original size:120 final size:120
Alignment explanation
Indices: 53136229--53136522 Score: 267
Period size: 120 Copynumber: 2.5 Consensus size: 120
53136219 TCGCCATTGA
* * * * * * **
53136229 TGACCTCATTGTAAGTTGTGTCAACGACAAG-TTTATTTTTATCGTAATGTCC-AACATCAAGGG
1 TGACCTCATTATAACTTGTGTCAACGACAAGCTTT-TTGTTATCATCATG-CCTAACATTAACCG
* * * * *
53136292 ATTTTATGGAGAGCTTTACTTCGTT-CGGCTTAGTT-TCCGCTATTGATACGCCGCCAT
64 ATTCTGTGGAGAGCTTTACTTCGTTCCGG-TCAGTTCT-CGCTATTGATACACCACCAT
* * *
53136349 TGACCTCGTTATAAACTT-T-TCCGATGACAAGCTTTTTGTTATCATCATGCCTAACATTAACCG
1 TGACCTCATTAT-AACTTGTGT-CAACGACAAGCTTTTTGTTATCATCATGCCTAACATTAACCG
* * * * * *
53136412 ATTCTGTGGAGGGTTTTGCTTTGTTCCGGTCAGTTCTCGCTATTGATACATCACCGT
64 ATTCTGTGGAGAGCTTTACTTCGTTCCGGTCAGTTCTCGCTATTGATACACCACCAT
* * *
53136469 TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAA
1 TGACCTCATTATAACTTGTGTCAACGACAAGCTTTTTGTTATCATCATGCCTAA
53136523 TGTTAGGGGA
Statistics
Matches: 138, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
119 7 0.05
120 119 0.86
121 12 0.09
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (120 bp):
TGACCTCATTATAACTTGTGTCAACGACAAGCTTTTTGTTATCATCATGCCTAACATTAACCGAT
TCTGTGGAGAGCTTTACTTCGTTCCGGTCAGTTCTCGCTATTGATACACCACCAT
Found at i:53139231 original size:5 final size:5
Alignment explanation
Indices: 53139221--53139245 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
53139211 AAATGACTTC
53139221 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
53139246 ATTCATGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:53146411 original size:8 final size:8
Alignment explanation
Indices: 53146398--53146426 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
53146388 GTCCTTTTTT
53146398 TTCTTCTC
1 TTCTTCTC
53146406 TTCTTCTC
1 TTCTTCTC
53146414 TTCTTCTC
1 TTCTTCTC
53146422 TTCTT
1 TTCTT
53146427 TTTTTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (8 bp):
TTCTTCTC
Found at i:53151850 original size:30 final size:31
Alignment explanation
Indices: 53151814--53151876 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
53151804 TTTTATACTT
*
53151814 AAACTTTGATT-TGGTGCAATTATACACATG
1 AAACTTTGATTATGGTGCAAATATACACATG
* *
53151844 AAACTTTGATTATGGTTCAAATATATACATG
1 AAACTTTGATTATGGTGCAAATATACACATG
53151875 AA
1 AA
53151877 CATTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (31 bp):
AAACTTTGATTATGGTGCAAATATACACATG
Found at i:53152516 original size:12 final size:13
Alignment explanation
Indices: 53152495--53152522 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53152485 TGTGTAAAAT
53152495 AAATTTTTTTATG
1 AAATTTTTTTATG
53152508 AAATTTTTTTATG
1 AAATTTTTTTATG
53152521 AA
1 AA
53152523 CATTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
AAATTTTTTTATG
Found at i:53154035 original size:26 final size:25
Alignment explanation
Indices: 53154005--53154068 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 25
53153995 TAAACACCAA
*
53154005 AAAAATTATTTTAAAAATAAAAAGAAT
1 AAAAAGTATTTT-AAAAT-AAAAGAAT
*
53154032 AAAAAAGTATTTTAAAATTAAAGAAT
1 -AAAAAGTATTTTAAAATAAAAGAAT
*
53154058 AAAAAATATTT
1 AAAAAGTATTT
53154069 ATTTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.30
26 7 0.21
27 5 0.15
28 11 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (25 bp):
AAAAAGTATTTTAAAATAAAAGAAT
Found at i:53154076 original size:25 final size:26
Alignment explanation
Indices: 53154004--53154068 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
53153994 ATAAACACCA
* *
53154004 AAAAAATTATTTTAAAAATAAAAAGAAT
1 AAAAAAGTATTTT-AAAAT-TAAAGAAT
53154032 AAAAAAGTATTTTAAAATTAAAGAAT
1 AAAAAAGTATTTTAAAATTAAAGAAT
53154058 AAAAAA-TATTT
1 AAAAAAGTATTT
53154069 ATTTATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 5 0.14
26 13 0.37
27 5 0.14
28 12 0.34
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (26 bp):
AAAAAAGTATTTTAAAATTAAAGAAT
Found at i:53154391 original size:6 final size:6
Alignment explanation
Indices: 53154380--53154405 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
53154370 AAAAATTAGA
53154380 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
53154406 TTTGTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:53154755 original size:230 final size:232
Alignment explanation
Indices: 53154237--53154796 Score: 930
Period size: 230 Copynumber: 2.4 Consensus size: 232
53154227 GAACACCTCT
*
53154237 AGTTTAGGGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGAGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
*
53154302 TATTTTTTAATAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAAT
66 TATTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAAT
53154367 TTTAAAAATTAGATTAGGGTTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAG
131 TTTAAAAATTAGA-T---GTTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAG
53154432 TTAAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAA
192 TTAAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAA
*
53154473 AGTTTA-AGGTTTGTCAATTAAATTATTTAAAAAAATTTCAAAATTGGATTAGTTTTCGTGTTTA
1 AGTTTAGA-GTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTA
*
53154537 TTATTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAA
65 TTATTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATT-AAAAA
53154602 ATTTTAAAAATTAG-T-TTAGGGTTAGGGTTAGGGTTTTTGTTA-GGTTTTGGTGTTTTTAAGTT
129 ATTTTAAAAATTAGATGTTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTT
* *
53154664 AAGGGTTTTTAAGGAAAAATCAAATAAGTTAGGGTTTAG
194 AAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAA
* * *
53154703 AGTTTAGAGTTTGTCAATTAAATTATTTACAAATTTTTCAAAATTAGATTAGTTTTCGTGTTTAT
1 AGTTTAGAGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
* * *
53154768 TATTTTTTAAGAAAATATGAATTCAATTA
66 TATTTTTTAAGAAAAAATTAATTAAATTA
53154797 TAGGGTTTTG
Statistics
Matches: 308, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
230 142 0.46
231 28 0.09
235 1 0.00
236 118 0.38
237 19 0.06
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (232 bp):
AGTTTAGAGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
TATTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAAT
TTTAAAAATTAGATGTTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTAA
GGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAA
Found at i:53156325 original size:20 final size:21
Alignment explanation
Indices: 53156302--53156344 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
53156292 TCCAGCTTCC
* *
53156302 GGCGGGG-TTGTGGTTGCTCT
1 GGCGGGGATTCTGGTTCCTCT
53156322 GGCGGGGATTCTGGTTCCTCT
1 GGCGGGGATTCTGGTTCCTCT
53156343 GG
1 GG
53156345 TAGGGTATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.02, C:0.19, G:0.47, T:0.33
Consensus pattern (21 bp):
GGCGGGGATTCTGGTTCCTCT
Found at i:53156342 original size:21 final size:20
Alignment explanation
Indices: 53156302--53156358 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
53156292 TCCAGCTTCC
* *
53156302 GGCGGGGTTGTGGTTGCTCT
1 GGCGGGGTTCTGGTTCCTCT
53156322 GGCGGGGATTCTGGTTCCTCT
1 GGCGGGG-TTCTGGTTCCTCT
**
53156343 GGTAGGGTATCTGGTT
1 GGCGGGGT-TCTGGTT
53156359 GTCGATGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 8 0.26
21 23 0.74
ACGTcount: A:0.05, C:0.16, G:0.44, T:0.35
Consensus pattern (20 bp):
GGCGGGGTTCTGGTTCCTCT
Found at i:53159257 original size:19 final size:18
Alignment explanation
Indices: 53159235--53159277 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
53159225 TACATAAGTT
53159235 TTAAAA-AATTAATATAATA
1 TTAAAATAATTAA-ATAA-A
53159254 TTAAAATTAATTAAATAAA
1 TTAAAA-TAATTAAATAAA
53159273 TTAAA
1 TTAAA
53159278 CATGTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 4 0.18
21 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAATAATTAAATAAA
Found at i:53160029 original size:19 final size:19
Alignment explanation
Indices: 53160005--53160096 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
53159995 AATCATATCT
53160005 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
53160024 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
** *
53160043 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
53160062 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53160081 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
53160097 CCTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:53160063 original size:38 final size:38
Alignment explanation
Indices: 53159982--53160096 Score: 140
Period size: 38 Copynumber: 2.9 Consensus size: 38
53159972 AAATTAAATC
* *
53159982 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTACATATCATA
* *
53160024 TCTAAGATTACATATCATATCTAAGATTATATATTATA
1 TCTAAGATTACATATCATATCTAAGATTACATATCATA
* *
53160062 TCTAAGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTACATATC
53160097 CCTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
38 47 0.72
41 7 0.11
42 11 0.17
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTACATATCATA
Found at i:53160447 original size:11 final size:11
Alignment explanation
Indices: 53160428--53160523 Score: 87
Period size: 11 Copynumber: 9.0 Consensus size: 11
53160418 GGATTTAAGA
53160428 GAAATTTGAGAG
1 GAAA-TTGAGAG
53160440 GAAATTGAGAG
1 GAAATTGAGAG
* *
53160451 CAAATTGAGAT
1 GAAATTGAGAG
*
53160462 TAAA-T-AGA-
1 GAAATTGAGAG
*
53160470 G-ATTTGAGA-
1 GAAATTGAGAG
53160479 GAAATTTG-GAAG
1 GAAA-TTGAG-AG
53160491 GAAATTGAGAG
1 GAAATTGAGAG
53160502 GAAATTGAGAG
1 GAAATTGAGAG
53160513 GAAATTGAGAG
1 GAAATTGAGAG
53160524 AATAATAGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 7 0.10
10 3 0.04
11 50 0.70
12 9 0.13
ACGTcount: A:0.45, C:0.01, G:0.31, T:0.23
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:53160480 original size:51 final size:51
Alignment explanation
Indices: 53160412--53160511 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
53160402 AATAATTAAA
*
53160412 AAATAGGGATTTAAGAGAAATTT-GAGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGAGATTTAAGAGAAATTTGGA-AGGAAATTGAGAGCAAATTGAGATT
* *
53160463 AAATAGAGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGA
1 AAATAGAGATTTAAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGAGA
53160512 GGAAATTGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.29, T:0.24
Consensus pattern (51 bp):
AAATAGAGATTTAAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:53161637 original size:34 final size:35
Alignment explanation
Indices: 53161582--53161648 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53161572 CAAACACCAG
*
53161582 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
53161617 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
53161649 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:53165277 original size:13 final size:13
Alignment explanation
Indices: 53165259--53165283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53165249 AAATCTATTT
53165259 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
53165272 TGAGTGCTGCTC
1 TGAGTGCTGCTC
53165284 TTGTTAAGGC
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:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:53165880 original size:157 final size:157
Alignment explanation
Indices: 53165698--53166004 Score: 533
Period size: 157 Copynumber: 2.0 Consensus size: 157
53165688 AGAATATTAG
* *
53165698 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAGTAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
* *
53165763 TATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAAATTAAATAACAATAACAATAA
66 TATGATTAAATTATTAATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
53165828 TAATTTACCAAAACAAATTTCTGCTAA
131 TAATTTACCAAAACAAATTTCTGCTAA
53165855 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
* * *
53165920 TATGATTAAATTATTAATTATTGATAATAGTAATCTTATTAAAATTTAAATAACAATAATAATAA
66 TATGATTAAATTATTAATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
* *
53165985 TCATTTACCAAAATAAATTT
131 TAATTTACCAAAACAAATTT
53166005 ATGTTAAAGG
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 141 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (157 bp):
TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
TATGATTAAATTATTAATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
TAATTTACCAAAACAAATTTCTGCTAA
Found at i:53165892 original size:18 final size:17
Alignment explanation
Indices: 53165864--53165898 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53165854 ATTATTAAGA
*
53165864 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
53165881 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
53165899 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:53175117 original size:101 final size:102
Alignment explanation
Indices: 53175000--53175184 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
53174990 AAAGTGATGG
*
53175000 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
53175063 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
53175101 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
53175166 CTATGTTCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
53175185 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:53175130 original size:51 final size:49
Alignment explanation
Indices: 53174997--53175192 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 49
53174987 GTGAAAGTGA
* *
53174997 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-T
* * * *
53175047 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * *
53175097 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
* * *
53175147 GATGGTCACATGTGTAGTACTATGTTCAGGCTACTATGTGAACCGG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
53175193 TATCATTAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 42 0.34
51 79 0.65
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
Found at i:53175223 original size:101 final size:100
Alignment explanation
Indices: 53175002--53175192 Score: 276
Period size: 102 Copynumber: 1.9 Consensus size: 100
53174992 AGTGATGGTC
*
53175002 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTA-TATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTA
* *
53175067 TGTGCAGGCTACTATGCGTACCGGATAGCTTCGATC
65 TGTGCAGGCTACTATGCGAACCGGATAGCTTCGATA
* *
53175103 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGTAC
1 ACGTGTGTAGTA-TATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTAC
* *
53175167 TATGTTCAGGCTACTATGTGAACCGG
63 TATGTGCAGGCTACTATGCGAACCGG
53175193 TATCATTAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (100 bp):
ACGTGTGTAGTATATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTAT
GTGCAGGCTACTATGCGAACCGGATAGCTTCGATA
Found at i:53175279 original size:46 final size:43
Alignment explanation
Indices: 53175188--53175286 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
53175178 TACTATGTGA
* *
53175188 ACCGGTATCATTAATTATAAGGTGGTTGTTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
53175231 ACCGGATATCATTGATTACAAAGGGTGGTTGCTATGTGTTGAAT-CC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTG-ATCCC
53175277 ACCGTGTATC
1 ACCG-GTATC
53175287 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:53175431 original size:16 final size:16
Alignment explanation
Indices: 53175410--53175441 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53175400 TAATTGAAAG
*
53175410 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
53175426 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
53175442 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:53180492 original size:18 final size:18
Alignment explanation
Indices: 53180469--53180526 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
53180459 TTCCAAGTCC
53180469 CGTTTTTAATGTTCTTTA
1 CGTTTTTAATGTTCTTTA
*
53180487 CGTTTTTAGA-G-TC---C
1 CGTTTTTA-ATGTTCTTTA
53180501 CGTTTTTAATGTTCTTTA
1 CGTTTTTAATGTTCTTTA
53180519 CGTTTTTA
1 CGTTTTTA
53180527 GAGTCCCGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 1 0.03
14 9 0.28
15 2 0.06
17 2 0.06
18 17 0.53
19 1 0.03
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (18 bp):
CGTTTTTAATGTTCTTTA
Found at i:53180505 original size:32 final size:32
Alignment explanation
Indices: 53180464--53180534 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
53180454 AGTGATTCCA
53180464 AGTCCCGTTTTTAATGTTCTTTACGTTTTTAG
1 AGTCCCGTTTTTAATGTTCTTTACGTTTTTAG
53180496 AGTCCCGTTTTTAATGTTCTTTACGTTTTTAG
1 AGTCCCGTTTTTAATGTTCTTTACGTTTTTAG
53180528 AGTCCCG
1 AGTCCCG
53180535 GTAACTTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.49
Consensus pattern (32 bp):
AGTCCCGTTTTTAATGTTCTTTACGTTTTTAG
Found at i:53181119 original size:6 final size:6
Alignment explanation
Indices: 53181108--53181135 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
53181098 AGGCTACTAT
53181108 GTGAAA GTGAAA GTGAAA GTGAAA GTGA
1 GTGAAA GTGAAA GTGAAA GTGAAA GTGA
53181136 TGGTCACGTG
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:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (6 bp):
GTGAAA
Found at i:53181194 original size:51 final size:51
Alignment explanation
Indices: 53181131--53181273 Score: 189
Period size: 51 Copynumber: 2.8 Consensus size: 51
53181121 TGAAAGTGAA
*
53181131 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
* * * * *
53181182 AGCT-TTGATCACGTGTGTAGTTCTATGTGCAGGCTACTACGTGTATCGGAT
1 AG-TGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
* * *
53181233 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTATG
1 AGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
53181274 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 76 0.97
52 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (51 bp):
AGTGATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
Found at i:53190304 original size:25 final size:26
Alignment explanation
Indices: 53190276--53190339 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
53190266 CAGTATCGAG
53190276 AAGCTTCAGAA-AGCTA-TTAATCAGA
1 AAGCTTCAGAAGAGCTAGTT-ATCAGA
* *
53190301 AAGC-TCATAAGAGCTAGTTATCAGG
1 AAGCTTCAGAAGAGCTAGTTATCAGA
*
53190326 AAGC-TCCGAAGAGC
1 AAGCTTCAGAAGAGC
53190340 CATATATCGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.15
25 26 0.79
26 2 0.06
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (26 bp):
AAGCTTCAGAAGAGCTAGTTATCAGA
Found at i:53190362 original size:25 final size:25
Alignment explanation
Indices: 53190295--53190364 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
53190285 AAAGCTATTA
* *
53190295 ATCAGAAAGCTCATAAGAGCTAGTT
1 ATCAGGAAGCTCATAAGAGCCAGTT
**
53190320 ATCAGGAAGCTCCGAAGAGCCA-TAT
1 ATCAGGAAGCTCATAAGAGCCAGT-T
* *
53190345 ATCGGGACGCTCATAAGAGC
1 ATCAGGAAGCTCATAAGAGC
53190365 TGCTGTGTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (25 bp):
ATCAGGAAGCTCATAAGAGCCAGTT
Found at i:53192851 original size:13 final size:13
Alignment explanation
Indices: 53192833--53192858 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53192823 ATATTACATA
53192833 GTCAAATATTTTG
1 GTCAAATATTTTG
53192846 GTCAAATATTTTG
1 GTCAAATATTTTG
53192859 CTATCAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTCAAATATTTTG
Done.