Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 15 of 38
Found at i:2341761 original size:32 final size:34
Alignment explanation
Indices: 2341702--2341765 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
2341692 TACAAGCCAA
* *
2341702 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTATATCGATACAT
2341736 TGTATCGATAC-A-TATTTTGTATATCGATAC
1 TGTATCGATACAATTATTTTGTATATCGATAC
2341766 TGTGAGCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.57
33 1 0.04
34 11 0.39
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTATATCGATACAT
Found at i:2342561 original size:13 final size:13
Alignment explanation
Indices: 2342543--2342568 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2342533 CAATTTTTTG
2342543 TGTATCGATACAT
1 TGTATCGATACAT
2342556 TGTATCGATACAT
1 TGTATCGATACAT
2342569 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2342583 original size:32 final size:33
Alignment explanation
Indices: 2342523--2342586 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2342513 TACAAGCCAA
** *
2342523 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2342556 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2342587 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2343329 original size:12 final size:12
Alignment explanation
Indices: 2343312--2343337 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2343302 TAATTCACAC
2343312 ATATCAAAATTT
1 ATATCAAAATTT
2343324 ATATCAAAATTT
1 ATATCAAAATTT
2343336 AT
1 AT
2343338 TTGCATATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:2345544 original size:84 final size:84
Alignment explanation
Indices: 2345389--2345553 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
2345379 CATTTTCCAC
* * * *
2345389 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
2345454 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
2345473 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
2345535 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
2345554 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:2348607 original size:13 final size:13
Alignment explanation
Indices: 2348589--2348626 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2348579 ATAATCCCCC
2348589 TGTATCGATACAG
1 TGTATCGATACAG
*
2348602 TGTATCGATACAT
1 TGTATCGATACAG
2348615 TGTATCGATACA
1 TGTATCGATACA
2348627 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2350728 original size:15 final size:15
Alignment explanation
Indices: 2350708--2350738 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2350698 ATTTCGTTTG
*
2350708 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2350723 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2350738 G
1 G
2350739 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2354401 original size:13 final size:13
Alignment explanation
Indices: 2354383--2354408 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2354373 AATTTTTTTG
2354383 TGTATCGATACAT
1 TGTATCGATACAT
2354396 TGTATCGATACAT
1 TGTATCGATACAT
2354409 ATTTTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2354424 original size:32 final size:34
Alignment explanation
Indices: 2354362--2354426 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
2354352 TACAAGCCAA
*
2354362 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTTGTGTATCGATACAT
2354396 TGTATCGATAC-ATATTTTT-TGTATCGATACA
1 TGTATCGATACAATATTTTTGTGTATCGATACA
2354427 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
33 7 0.23
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (34 bp):
TGTATCGATACAATATTTTTGTGTATCGATACAT
Found at i:2354531 original size:20 final size:20
Alignment explanation
Indices: 2354478--2354533 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2354468 ACATCTTTTT
*
2354478 CATGTATCGATACCTTGCAA
1 CATGTATCGATACTTTGCAA
2354498 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
2354517 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
2354534 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:2359212 original size:10 final size:10
Alignment explanation
Indices: 2359199--2359228 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2359189 CCATTTCATA
2359199 TTTTTTCTTT
1 TTTTTTCTTT
2359209 TTTTTTCTTT
1 TTTTTTCTTT
*
2359219 TTCTTTCTTT
1 TTTTTTCTTT
2359229 CTCCTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2359642 original size:25 final size:23
Alignment explanation
Indices: 2359614--2359660 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
2359604 TCCTCAATCG
2359614 AAAAACCCACTTTGGTTTTTTTTTT
1 AAAAACCCACTTT--TTTTTTTTTT
* *
2359639 AAAAGCCCTCTTTTTTTTTTTT
1 AAAAACCCACTTTTTTTTTTTT
2359661 CGACCCCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.55
Consensus pattern (23 bp):
AAAAACCCACTTTTTTTTTTTTT
Found at i:2361088 original size:88 final size:87
Alignment explanation
Indices: 2360990--2361268 Score: 255
Period size: 88 Copynumber: 3.2 Consensus size: 87
2360980 TTATTTTGGA
*
2360990 GAAACTCCATCCTCTCTATTCTAAAGGGATACTCTAACCCCATTCTAACAAAAATTCAAAATTTT
1 GAAACTCCATCC-CTCTATTCTAAAGGGATACTCTAACCCCATTCTAACAAAAAATC-AAATTTT
2361055 C-ATCGTACAATTTTATCCTT-GG
64 CTATCGTACAATTTTATCCTTAGG
** * * * *
2361077 GCAAACTCCATCCCTACTATTCCGAGGGGATACTCCAACCTCATTCTAATAAAAAATCAAATTTT
1 G-AAACTCCATCCCT-CTATTCTAAAGGGATACTCTAACCCCATTCTAACAAAAAATCAAATTTT
* **
2361142 CTTTCGTGTAATTTTATCCTTAGG
64 CTATCGTACAATTTTATCCTTAGG
* * * *
2361166 GAAACTCCATCCC-CATTATTTTGAAA-GAATA-TACTAACCCCGTTCTAACAAAAAAAT-TAAT
1 GAAACTCCATCCCTC--TATTCT-AAAGGGATACT-CTAACCCCATTCTAAC-AAAAAATCAAAT
* * * *
2361227 ATTTCTTTTGTATAATTTTATCTTTAGG
61 -TTTCTATCGTACAATTTTATCCTTAGG
*
2361255 GAAACTCTATCCCT
1 GAAACTCCATCCCT
2361269 ACTCTTTCAA
Statistics
Matches: 157, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
86 1 0.01
87 12 0.08
88 97 0.62
89 47 0.30
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (87 bp):
GAAACTCCATCCCTCTATTCTAAAGGGATACTCTAACCCCATTCTAACAAAAAATCAAATTTTCT
ATCGTACAATTTTATCCTTAGG
Found at i:2365383 original size:146 final size:153
Alignment explanation
Indices: 2365182--2365503 Score: 374
Period size: 159 Copynumber: 2.1 Consensus size: 153
2365172 GTACCTTATC
* * *
2365182 GGAAGCCCGAAAAGATAC-GAA-AGGTTTTTGAAATCTTTTATACCCCAACGGATGCCCATAGGA
1 GGAAGCCCGAAAGGATACAGAATA--TTTTTGAAATCTTTTACACCCCAACGAATGCCCATAGGA
* * *
2365245 ATATAAAAG-TT-TAAAATT-TT-T-TGT-C-GAAGTATTAATTCAACTTAATTTTATTTATTTT
64 ATATAAAAGATTAAAAAATTATTATCTATCCAAAAGTATTAATTCAACTTAATTTTATTTATTTT
*
2365303 CGAAAACACCATTTCGTACCCTAAT
129 CAAAAACACCATTTCGTACCCTAAT
* *
2365328 GGAAGCCTGAAAGGATACAGAATATTTTTGAAATCTTTTACACCCCTACGAATGCCCATAGGAAT
1 GGAAGCCCGAAAGGATACAGAATATTTTTGAAATCTTTTACACCCCAACGAATGCCCATAGGAAT
* * *
2365393 ATGAAAGATTAGAAAAATTAATTAAAATCTATCCCAAAAGTATTAATTTAATTTAATTTTATTTA
66 ATAAAAGATTA-AAAAATT-ATT---ATCTAT-CCAAAAGTATTAATTCAACTTAATTTTATTTA
* * *
2365458 TTTTTAAAAATACCATTTCGTATCCTAAT
125 TTTTCAAAAACACCATTTCGTACCCTAAT
2365487 GGAAGCCCGAAAGGATA
1 GGAAGCCCGAAAGGATA
2365504 TGAAACTTTT
Statistics
Matches: 145, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
146 60 0.41
147 5 0.03
148 1 0.01
149 6 0.04
151 2 0.01
155 1 0.01
156 2 0.01
158 1 0.01
159 67 0.46
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (153 bp):
GGAAGCCCGAAAGGATACAGAATATTTTTGAAATCTTTTACACCCCAACGAATGCCCATAGGAAT
ATAAAAGATTAAAAAATTATTATCTATCCAAAAGTATTAATTCAACTTAATTTTATTTATTTTCA
AAAACACCATTTCGTACCCTAAT
Found at i:2366372 original size:11 final size:10
Alignment explanation
Indices: 2366336--2366369 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
2366326 AACTAGCTTA
2366336 TTTTTTCTAT
1 TTTTTTCTAT
2366346 TTTTTTCTAT
1 TTTTTTCTAT
*
2366356 TTTCTTCTAT
1 TTTTTTCTAT
2366366 TTTT
1 TTTT
2366370 CTTTCTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTCTAT
Found at i:2366378 original size:10 final size:11
Alignment explanation
Indices: 2366339--2366384 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
2366329 TAGCTTATTT
2366339 TTTCTATTTT-
1 TTTCTATTTTC
2366349 TTTCTATTTTC
1 TTTCTATTTTC
2366360 -TTCTATTTTTC
1 TTTCTA-TTTTC
2366371 TTTC--TTTTC
1 TTTCTATTTTC
2366380 TTTCT
1 TTTCT
2366385 CTCTTTTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 9 0.28
10 15 0.47
11 5 0.16
12 3 0.09
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTATTTTC
Found at i:2367237 original size:20 final size:20
Alignment explanation
Indices: 2367222--2367260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2367212 TAATACATTT
2367222 CACCATGTATCGATACAATC
1 CACCATGTATCGATACAATC
**
2367242 CTTCATGTATCGATACAAT
1 CACCATGTATCGATACAAT
2367261 GTGAGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (20 bp):
CACCATGTATCGATACAATC
Found at i:2367331 original size:19 final size:20
Alignment explanation
Indices: 2367307--2367357 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2367297 TATTTTAGTG
*
2367307 TGTATCGATACAATG-AACA
1 TGTATCGATACAAAGCAACA
*
2367326 TGTATCGATACAAAGCAATA
1 TGTATCGATACAAAGCAACA
2367346 TGTATCGATACA
1 TGTATCGATACA
2367358 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:2368375 original size:164 final size:163
Alignment explanation
Indices: 2368157--2368769 Score: 649
Period size: 164 Copynumber: 3.7 Consensus size: 163
2368147 TTGGGAAAAT
* * * ** * ** *
2368157 GGGAATTTCAAAGAAATAAATCCAAAACTCATGAAAATGAATTATTTTTTGAAAACCAAATTAAT
1 GGGAATTTCAAAGAAA-AATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAATTAATTTAAT
2368222 ATTG-AATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACTAAGAAAAATCCCCTGAAAA
65 -TTGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACTAAGAAAAATCCCC-GAAAA
*
2368286 AATTTTACGGAGTAGAAAACTCTGTATTTCAAAAATAG
128 AA-ATTACGGAGTAGAAAACTCT-TATTTCAAAAATAG
2368324 GGGAATTTC-AA-AAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAATTAATTTAATT
1 GGGAATTTCAAAGAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAATTAATTTAATT
2368387 TGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAA-TCAAGAAAAATTCTCCC-AAAA
66 TGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACT-AAGAAAAA-TC-CCCGAAAA
* * * *
2368450 AAATTACGGAGTAGCAAACTTTATATTTCGAAAGTAG
128 AAATTACGGAGTAGAAAACTCT-TATTTCAAAAATAG
** * * *
2368487 AAGAATTTTAAGGAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTT-AAAAATAGATTTAAT
1 GGGAATTTCAAAGAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAATTA-ATTTAAT
* * * * *
2368551 TTGATATATATAATAATATTTTATGAATTCAAAAAATGAAAAACTAAGAACAATCCCCCCGAAAA
65 TTGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACTAAGAAAAAT--CCCCGAAAA
* * *
2368616 AAATTACGGAGAAGAAAACTTCATTTTTTGAAAAA-A-
128 AAATTACGGAGTAGAAAAC-TC-TTATTTCAAAAATAG
* * ** * * * *
2368652 ---AGTTTCAAGGAAAAAATT-TGAAACTCATGAAAATGAATGAATTTTTGAAAATTGATTTAGT
1 GGGAATTTCAAAG-AAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAATTAATTTAAT
* * * *
2368713 GTGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAA-AAAAATCCCC
65 TTGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACTAAGAAAAATCCCC
2368770 CTAAATAAAG
Statistics
Matches: 381, Mismatches: 50, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
159 4 0.01
161 5 0.01
162 77 0.20
163 51 0.13
164 100 0.26
165 97 0.25
166 29 0.08
167 17 0.04
168 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (163 bp):
GGGAATTTCAAAGAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTGAAAATTAATTTAATT
TGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACTAAGAAAAATCCCCGAAAAAAA
TTACGGAGTAGAAAACTCTTATTTCAAAAATAG
Found at i:2373262 original size:13 final size:13
Alignment explanation
Indices: 2373244--2373269 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2373234 TACACCAAGT
2373244 ATGTATCGATACA
1 ATGTATCGATACA
2373257 ATGTATCGATACA
1 ATGTATCGATACA
2373270 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2375592 original size:157 final size:154
Alignment explanation
Indices: 2375419--2375891 Score: 510
Period size: 156 Copynumber: 3.0 Consensus size: 154
2375409 AAGGACTTGG
* *
2375419 AAAGAATTATAAATGGGATGAACCTATCCTAAATACCCATCTTCGGTATAAAAGCGAACCTGATG
1 AAAGAATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGTATAAAAGCGAACCTGATG
*
2375484 ACAACCTAGGACTCAGTTATGGAAAAATTATGAAAATTGCCCCTATGGGATACCTTCGACTTAGA
66 ACAACCTAGGACT-AGTTATGGAAAAATTATGAAAA-TGCCCCTATGGGATACCTTCGACATAGA
* *
2375549 AGTGCTCGATACCCTTAAAAGACTTAA
129 AGTACTCGATACCC-TAAAAGACATAA
* * * * *
2375576 AAAGGATTATAGATGGGATGAACCAATCCTAAATGCCCACCTTC-GTCATAAAACCGAACCCGAT
1 AAAGAATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGT-ATAAAAGCGAACCTGAT
* * ** * * *
2375640 GACAACCTAGGACTTGATTTTGGAAAAATTACAAAAATACACCTA-GAAGG-TACTTTCGACATA
65 GACAACCTAGGACTAG-TTATGGAAAAATTATGAAAATGCCCCTATG--GGATACCTTCGACATA
*
2375703 GAAGTAC-CCATTATCCCTAAAAGACATAA
127 GAAGTACTCGA-TA-CCCTAAAAGACATAA
* * * *
2375732 AAAGTATTATAGATGGGATGAACCTATTCTAAATACCCACCTTCGATATAAAAGCGGACCT-AGT
1 AAAGAATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGTATAAAAGCGAACCTGA-T
* * * * *
2375796 GACAACCTAAGACTTGGTTCT-AAAATAATTATGAAAATGCCCCTATGGGTATACCTTTGACATA
65 GACAACCTAGGAC-TAGTTATGGAAA-AATTATGAAAATGCCCCTATGGG-ATACCTTCGACATA
*
2375860 -AAGTATCTCGATAACCCTAAAAGACCTAA
127 GAAGTA-CTCGAT-ACCCTAAAAGACATAA
2375889 AAA
1 AAA
2375892 TGATAAGTAA
Statistics
Matches: 262, Mismatches: 38, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
155 9 0.03
156 126 0.48
157 124 0.47
158 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (154 bp):
AAAGAATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGTATAAAAGCGAACCTGATG
ACAACCTAGGACTAGTTATGGAAAAATTATGAAAATGCCCCTATGGGATACCTTCGACATAGAAG
TACTCGATACCCTAAAAGACATAA
Found at i:2376359 original size:12 final size:13
Alignment explanation
Indices: 2376328--2376359 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2376318 TAAAATAATA
2376328 TTTA-TTTATTAT
1 TTTATTTTATTAT
2376340 TTTATTTTATT-T
1 TTTATTTTATTAT
2376352 TTTATTTT
1 TTTATTTT
2376360 CAAAACTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:2376488 original size:20 final size:19
Alignment explanation
Indices: 2376465--2376539 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 19
2376455 AGACTAAAAA
2376465 ATGATTCAAAATTGATTTTT
1 ATGA-TCAAAATTGATTTTT
*
2376485 ATGACCAAACATTGGAATTTGCTAT
1 ATGATCAAA-ATT-G-ATTT--T-T
2376510 ATGATTCAAAATTGATTTTT
1 ATGA-TCAAAATTGATTTTT
2376530 ATGATCAAAA
1 ATGATCAAAA
2376540 ATTGGAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
19 10 0.22
20 12 0.26
21 2 0.04
22 4 0.09
23 4 0.09
24 2 0.04
25 8 0.17
26 4 0.09
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
ATGATCAAAATTGATTTTT
Found at i:2376512 original size:25 final size:24
Alignment explanation
Indices: 2376484--2376554 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 24
2376474 AATTGATTTT
*
2376484 TATGACCAAACATTGGAATTTGCTA
1 TATGATCAAA-ATTGGAATTTGCTA
2376509 TATGATTCAAAATT-G-ATTT--T-
1 TATGA-TCAAAATTGGAATTTGCTA
2376529 TATGATCAAAAATTGGAATTTGCTA
1 TATGATC-AAAATTGGAATTTGCTA
2376554 T
1 T
2376555 TTTGTCCTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
19 2 0.05
20 11 0.29
21 2 0.05
22 4 0.11
23 4 0.11
24 2 0.05
25 9 0.24
26 4 0.11
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (24 bp):
TATGATCAAAATTGGAATTTGCTA
Found at i:2376529 original size:45 final size:45
Alignment explanation
Indices: 2376465--2376554 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
2376455 AGACTAAAAA
*
2376465 ATGATTCAAAATTGATTTTTATGACCAAACATTGGAATTTGCTAT
1 ATGATTCAAAATTGATTTTTATGACCAAAAATTGGAATTTGCTAT
*
2376510 ATGATTCAAAATTGATTTTTATGATCAAAAATTGGAATTTGCTAT
1 ATGATTCAAAATTGATTTTTATGACCAAAAATTGGAATTTGCTAT
2376555 TTTGTCCTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (45 bp):
ATGATTCAAAATTGATTTTTATGACCAAAAATTGGAATTTGCTAT
Found at i:2377261 original size:10 final size:10
Alignment explanation
Indices: 2377248--2377278 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2377238 TTTCTCACTT
2377248 TTTTTCTTTC
1 TTTTTCTTTC
2377258 TTTTTCTTTC
1 TTTTTCTTTC
*
2377268 TTTTTTTTTC
1 TTTTTCTTTC
2377278 T
1 T
2377279 CTCTTGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:2377269 original size:14 final size:14
Alignment explanation
Indices: 2377246--2377283 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2377236 ATTTTCTCAC
2377246 TTTT-TTTCTTTCT
1 TTTTCTTTCTTTCT
*
2377259 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTCT
*
2377273 TTTTCTCTCTT
1 TTTTCTTTCTT
2377284 GCAAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:2377270 original size:22 final size:23
Alignment explanation
Indices: 2377231--2377274 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2377221 TTGGCTTATT
2377231 TTTCTATTTTCTCACTTTTTTTC
1 TTTCTATTTTCTCACTTTTTTTC
**
2377254 TTTCT-TTTTCTTTCTTTTTTT
1 TTTCTATTTTCTCACTTTTTTT
2377275 TTCTCTCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTCTATTTTCTCACTTTTTTTC
Found at i:2379855 original size:45 final size:45
Alignment explanation
Indices: 2379736--2379949 Score: 119
Period size: 45 Copynumber: 4.7 Consensus size: 45
2379726 TGATGGTGGG
* * * * * *
2379736 AAAAGTTTAACCAAGTCCTAACGCCAATATAGCCAAATGAA-GAA
1 AAAAGTTTGACTAGGTCCTAACACTAATACAGCCAAATGAAGGAA
* * * * ** *
2379780 AGACAGTTTAACCAAGTCCTAATGCCAATACAGCCAAATGAAGGAA
1 A-AAAGTTTGACTAGGTCCTAACACTAATACAGCCAAATGAAGGAA
* * ** * *
2379826 AATAGTTTGAGTAGGTCCTAACACTAATACAATCAAACGAGGGCGAGA
1 AAAAGTTTGACTAGGTCCTAACACTAATACAGCCAAATGA-AG-GA-A
** *
2379874 AAAAGTTTGACCGGGAT--TAACACTAATATAGCCAAATGAAGGAA
1 AAAAGTTTGACTAGG-TCCTAACACTAATACAGCCAAATGAAGGAA
* ** * *
2379918 GACCGTTTGACTAGGACCTAACGCTAATACAG
1 AAAAGTTTGACTAGGTCCTAACACTAATACAG
2379950 TCAACTAGGG
Statistics
Matches: 130, Mismatches: 32, Indels: 15
0.73 0.18 0.08
Matches are distributed among these distances:
44 12 0.09
45 79 0.61
46 6 0.05
47 20 0.15
48 12 0.09
49 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
AAAAGTTTGACTAGGTCCTAACACTAATACAGCCAAATGAAGGAA
Found at i:2380015 original size:46 final size:47
Alignment explanation
Indices: 2379943--2380064 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 47
2379933 ACCTAACGCT
* * * * *
2379943 AATACAGTCAACTAGGGGTGAGAAGAGTTTGACCAAGAC-TAAAGCC
1 AATACAGTCAAATAAGGGTAAAAAGAGTTTAACCAAGACTTAAAGCC
* * * * * *
2379989 AATATAGTCATATAAGGGTAAAAAGAGTTTAACTAGGTCTTAATGCC
1 AATACAGTCAAATAAGGGTAAAAAGAGTTTAACCAAGACTTAAAGCC
*
2380036 AATACAGTCAAATGAGGGTAAAAAGAGTT
1 AATACAGTCAAATAAGGGTAAAAAGAGTT
2380065 CGGTTAAGAG
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
46 29 0.48
47 32 0.52
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (47 bp):
AATACAGTCAAATAAGGGTAAAAAGAGTTTAACCAAGACTTAAAGCC
Found at i:2383107 original size:69 final size:67
Alignment explanation
Indices: 2382996--2383134 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 67
2382986 AAAGCTATTT
*
2382996 GGATATTCCCACATACAATTATGTATAGGTATGGTGACTTGACTTGTGTACCACTTATGGGATTA
1 GGATATTCCCACATACAATTATGTATAGGTATGGAGACTTGACTTGTGTACCACTTAT-GGATTA
2383061 TAAG
65 T-AG
*
2383065 GGATATTCCCACATACAATTGTGTATAGGTATGGAGACTTGACTTGTGTACCACTTATGGATTAT
1 GGATATTCCCACATACAATTATGTATAGGTATGGAGACTTGACTTGTGTACCACTTATGGATTAT
2383130 AG
66 AG
2383132 GGA
1 GGA
2383135 GGCACTTGCT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 5 0.07
68 7 0.10
69 56 0.82
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (67 bp):
GGATATTCCCACATACAATTATGTATAGGTATGGAGACTTGACTTGTGTACCACTTATGGATTAT
AG
Found at i:2391652 original size:21 final size:21
Alignment explanation
Indices: 2391628--2391672 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2391618 TTTGGCATAA
2391628 AAACGACT-CAGGTGATAACTT
1 AAACGACTCCA-GTGATAACTT
*
2391649 AAACGGCTCCAGTGATAACTT
1 AAACGACTCCAGTGATAACTT
2391670 AAA
1 AAA
2391673 ATCCGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (21 bp):
AAACGACTCCAGTGATAACTT
Found at i:2393964 original size:3 final size:3
Alignment explanation
Indices: 2393956--2394040 Score: 88
Period size: 3 Copynumber: 29.3 Consensus size: 3
2393946 ACCATTCCTT
* *
2393956 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTG TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
2394002 TTA TTT TTA -TA TT- TTG TTA TT- TTA TTA TTT TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2394041 ATTTAAATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
2 8 0.12
3 59 0.86
4 2 0.03
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:2394800 original size:43 final size:43
Alignment explanation
Indices: 2394598--2395303 Score: 174
Period size: 43 Copynumber: 16.6 Consensus size: 43
2394588 AAATTCGACG
* * * * *
2394598 GGTAAACAAAGAGAGAAATGGTAGACTGGGAACAAAGTCGATA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * * *
2394641 GGT-CA-AAAGGGTA-AAAT-GTTTACCAGGGACAAAGTCGATG
1 GGTAAACAAAGAG-AGGAATGGTTGACCGGGGACAAAGCCGATA
* * * *
2394681 GGTAAACAAAGATAGGAATGGTTGACCGGGGAAAAAGCCAACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * * * **
2394724 GATCACCAAGGGGTAAGAA--GTTTACCAAGGACAAAGCCGATA
1 GGTAAACAAAGAG-AGGAATGGTTGACCGGGGACAAAGCCGATA
*
2394766 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGATA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * ** * *
2394809 GGTCACCAAA-AG-GGTAA-GAAATTTACCAAGGACAAAGCTGATG
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* * *
2394852 GGTAAACAAAGAGAGGAATGGTTGACTGGGGATAAA-CCTGACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCC-GATA
** * * * * **
2394895 CATCACCAAA-AG-GGTAA-GAAGTTTACCGAGGACAAAGTTGATA
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* * * * *
2394938 GGTAAACAAAAAGAGAAATGGTTGATCGGGGACAAAGCTGACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * ** * *
2394981 CGTCACCAAAG-G-GGTAA-GAAGTTTACTAGTGACAAAGTCGATA
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* * * *
2395024 GGTAAACAAAGGGAGGAATAGTTAATCGGGGACAAAGCC-A-A
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * * *
2395065 -CTGACACCAAAG-G-GGTAA-GAAGTTTACC-AGGACAAAGTCAACA
1 GGT-A-AACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
* ** * *
2395108 TGTAAACAAAGAGAGGAATGGTTGACTAGGGACAAAGTCAATA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * ** *
2395151 GGCT-ACCAAGGGGTAAGAA--GTTTACCAAGGACAAAGCTGATA
1 GG-TAAACAAAGAG-AGGAATGGTTGACCGGGGACAAAGCCGATA
* * * *
2395193 GATAAACAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGACA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
* * * * * **
2395236 GGTCACCAAA-AG-GGTAA-GAAGTTTACTGGGGACAAAGCTGACG
1 GGTAAACAAAGAGAGG-AATG--GTTGACCGGGGACAAAGCCGATA
2395279 GGTAAACAAAGAGAGGAATGGTTGA
1 GGTAAACAAAGAGAGGAATGGTTGA
2395304 TTGAGGACAA
Statistics
Matches: 466, Mismatches: 146, Indels: 102
0.65 0.20 0.14
Matches are distributed among these distances:
40 23 0.05
41 45 0.10
42 98 0.21
43 262 0.56
44 28 0.06
45 10 0.02
ACGTcount: A:0.41, C:0.14, G:0.29, T:0.16
Consensus pattern (43 bp):
GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCCGATA
Found at i:2394862 original size:86 final size:86
Alignment explanation
Indices: 2394598--2395838 Score: 1064
Period size: 86 Copynumber: 14.6 Consensus size: 86
2394588 AAATTCGACG
* * * * *
2394598 GGTAAACAAAGAGAGAAATGGTAGACTGGGAACAAAG-TCGATAGGT---CAAAAGGGTAA-AAT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCT-GACAGGTCACCAAAAGGGTAAGAA-
* *
2394658 GTTTACCAGGGACAAAG-TCGATG
64 GTTTACCAAGGACAAAGCT-GATA
* * ** * *
2394681 GGTAAACAAAGATAGGAATGGTTGACCGGGGAAAAAGCCAACAGATCACC-AAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*
2394745 TTACCAAGGACAAAGCCGATA
66 TTACCAAGGACAAAGCTGATA
* *
2394766 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAAT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*
2394831 TTACCAAGGACAAAGCTGATG
66 TTACCAAGGACAAAGCTGATA
* * * **
2394852 GGTAAACAAAGAGAGGAATGGTTGACTGGGGATAAACCTGACACATCACCAAAAGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* *
2394917 TTACCGAGGACAAAGTTGATA
66 TTACCAAGGACAAAGCTGATA
* * * * *
2394938 GGTAAACAAAAAGAGAAATGGTTGATCGGGGACAAAGCTGACACGTCACCAAAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*
2395003 TTA-CTAGTGACAAAG-TCGATA
66 TTACCAAG-GACAAAGCT-GATA
* * * * ** * * *
2395024 GGTAAACAAAGGGAGGAATAGTTAATCGGGGACAAAGCCAAC-TGACACCAAAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* *
2395088 TTACC-AGGACAAAG-TCAACA
66 TTACCAAGGACAAAGCT-GATA
* ** * * *
2395108 TGTAAACAAAGAGAGGAATGGTTGACTAGGGACAAAG-TCAATAGG-CTACC-AAGGGGTAAGAA
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCT-GACAGGTC-ACCAAAAGGGTAAGAA
2395170 GTTTACCAAGGACAAAGCTGATA
64 GTTTACCAAGGACAAAGCTGATA
* *
2395193 GATAAACAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
*** **
2395258 TTACTGGGGACAAAGCTGACG
66 TTACCAAGGACAAAGCTGATA
** * * *
2395279 GGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTAACACGTCACCAAAAGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* * * *
2395344 TTATCGAGGATAAAG-TCAATA
66 TTACCAAGGACAAAGCT-GATA
* ** * * *
2395365 GGTTAACAAAGAGAGGAATGGTTGATTGGGGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* * ** *
2395430 TTA-CTAGCAACAAAGCCAATG
66 TTACCAAG-GACAAAGCTGATA
* * * ** ** * *
2395451 GGTAAACAAAGGGAGGAATAGTTAACTAGGGACAAAGCCAACTA-GACACCAAAGGGGTAAGAAG
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGAC-AGGTCACCAAAAGGGTAAGAAG
* * *
2395515 TTTA-CTAGGACAAAG-TCAACA
65 TTTACCAAGGACAAAGCT-GATA
* * * * *
2395536 TGTAAACAAAGAGAGGAATGGTTGGCTGGGGACAAAGCTGATAGGTCACC-AAGGGGTAAGAAGT
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
* *
2395600 TTACCAAGGACAAAGCCGA-C
66 TTACCAAGGACAAAGCTGATA
** * * * * *
2395620 GGATAAACAAAGAGAAAAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAGA-GATAACAAG
1 GG-TAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAG
* * *
2395684 TTTACCGAGGACTAAG-TCGACA
65 TTTACCAAGGACAAAGCT-GATA
* * * * ** * * *
2395706 GGTAAACAAGGGGATGAA-GGTTGATCAAGGACTAAGCTGACAGGTCACC--TAGGAATAAGAAG
1 GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGG-GTAAGAAG
* *
2395768 TTTACCAAGGACTAAGCCGATA
65 TTTACCAAGGACAAAGCTGATA
* * * * *
2395790 GGTAAA-TAAGAGGATGAA-GGTTGACCGAGGACTAAGCCGACAGGTCACC
1 GGTAAACAAAGA-GAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACC
2395839 TAAGGATAAA
Statistics
Matches: 963, Mismatches: 161, Indels: 67
0.81 0.14 0.06
Matches are distributed among these distances:
82 1 0.00
83 38 0.04
84 174 0.18
85 295 0.31
86 454 0.47
87 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.16
Consensus pattern (86 bp):
GGTAAACAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGT
TTACCAAGGACAAAGCTGATA
Found at i:2395523 original size:43 final size:43
Alignment explanation
Indices: 2395393--2395534 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 43
2395383 TGGTTGATTG
* *
2395393 GGGACAAAGCCGAC-ATGTCACCAAAGGGGTAAGAAGTTTACTA
1 GGGACAAAGCCAACTA-GACACCAAAGGGGTAAGAAGTTTACTA
** * * * * *
2395436 GCAACAAAGCCAA-TGGGTA-AACAAAGGGAGGAA-TAGTTAACTA
1 GGGACAAAGCCAACT-AG-ACACCAAAGGG-GTAAGAAGTTTACTA
2395479 GGGACAAAGCCAACTAGACACCAAAGGGGTAAGAAGTTTACTA
1 GGGACAAAGCCAACTAGACACCAAAGGGGTAAGAAGTTTACTA
*
2395522 -GGACAAAGTCAAC
1 GGGACAAAGCCAAC
2395535 ATGTAAACAA
Statistics
Matches: 75, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
42 16 0.21
43 55 0.73
44 4 0.05
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (43 bp):
GGGACAAAGCCAACTAGACACCAAAGGGGTAAGAAGTTTACTA
Found at i:2395614 original size:42 final size:42
Alignment explanation
Indices: 2395565--2395792 Score: 140
Period size: 42 Copynumber: 5.4 Consensus size: 42
2395555 GGTTGGCTGG
2395565 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
1 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
* * * * * * * * *
2395607 GGACAAAGCCGA-CGGATAAACAAAGAG-AAAAATGGTTGACCAG
1 GGACAAAGCTGATAGG-TCACCAAGGGGTAAGAA--GTTTACCAA
* * * *
2395650 GGACAAAGCTGATAGGTCACCAAGAGATAACAAGTTTACCGA
1 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
* * * * * * *
2395692 GGACTAAG-TCGACAGGTAAACAAGGGG-ATGAAGGTTGATCAA
1 GGACAAAGCT-GATAGGTCACCAAGGGGTAAGAA-GTTTACCAA
* * * **
2395734 GGACTAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAA
1 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
* *
2395776 GGACTAAGCCGATAGGT
1 GGACAAAGCTGATAGGT
2395793 AAATAAGAGG
Statistics
Matches: 135, Mismatches: 42, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
41 10 0.07
42 91 0.67
43 28 0.21
44 6 0.04
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (42 bp):
GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAA
Found at i:2395687 original size:427 final size:427
Alignment explanation
Indices: 2394644--2395843 Score: 1544
Period size: 427 Copynumber: 2.8 Consensus size: 427
2394634 GTCGATAGGT
* * *** * *
2394644 CAAAAGGGTAA-AATGTTTACCAGGGACAAAGTCGATGGGTAAACAAAGATAGGAATGGTTGACC
1 CAAAGGGGTAAGAA-GTTTACCA-GGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACT
* * * *
2394708 GGGGAAAAAGCCAACAGATCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGATAGG-TAAA
64 GGGGACAAAGCTAATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGA-AGGATAAA
* * *
2394772 CAAAGAGAGGAATGGTTGACCGGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAATTTACCA
128 CAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCG
* * * * * *
2394837 AGGACAAAGCTGATGGGTAAACAAAGAGAGGAATGGTTGACTGGGGATAAACCTGACACATCACC
193 AGGACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACC
**
2394902 AAAAGGGTAAGAAGTTTACCGAGGACAAAGTTGATAGGTAAACAAAAAGAGAAATGGTTGATCGG
258 AAAAGGGTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGAGAAATGGTTGATCGG
* ** * *
2394967 GGACAAAGCTGACACGTCACCAAAGGGGTAAGAAGTTTACTAGTGACAAAGTCGATAGGTAAACA
323 GGACAAAGCCGACACGTCACCAAAGGGGTAAGAAGTTTACTAGCAACAAAGCCAATAGGTAAACA
*
2395032 AAGGGAGGAATAGTTAATCGGGGACAAAGCCAACTGACAC
388 AAGGGAGGAATAGTTAATCAGGGACAAAGCCAACTGACAC
*
2395072 CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTAG
1 CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTGG
*
2395137 GGACAAAG-TCAATAGG-CTACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCTGATA-GATAAA
66 GGACAAAGCT-AATAGGTC-ACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGA-AGGATAAA
* *
2395199 CAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGACAGGTCACCAAAAGGGTAAGAAGTTTACTG
128 CAAAGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCG
* *
2395264 GGGACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTAACACGTCACC
193 AGGACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACC
* * * * * *
2395329 AAAAGGGTAAGAAGTTTATCGAGGATAAAGTCAATAGGTTAACAAAGAGAGGAATGGTTGATTGG
258 AAAAGGGTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGAGAAATGGTTGATCGG
* *
2395394 GGACAAAGCCGACATGTCACCAAAGGGGTAAGAAGTTTACTAGCAACAAAGCCAATGGGTAAACA
323 GGACAAAGCCGACACGTCACCAAAGGGGTAAGAAGTTTACTAGCAACAAAGCCAATAGGTAAACA
2395459 AAGGGAGGAATAGTTAA-CTAGGGACAAAGCCAACTAGACAC
388 AAGGGAGGAATAGTTAATC-AGGGACAAAGCCAACT-GACAC
* *
2395500 CAAAGGGGTAAGAAGTTTACTAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGGCTGG
1 CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTGG
* *
2395565 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGACGGATAAACAA
66 GGACAAAGCTAATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGAAGGATAAACAA
** * * *
2395630 AGAGAAAAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAGA-GATAACAAGTTTACCGAGG
131 AGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCGAGG
* * * * * ** * *
2395694 ACTAAG-TCGACAGGTAAACAAGGGGATGAA-GGTTGATCAAGGACTAAGCTGACAGGTCACC--
196 ACAAAGCT-GACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACCAA
* * * * * * * * * * *
2395755 TAGGAATAAGAAGTTTACCAAGGACTAAGCCGATAGGTAAATAAGAGGATG-AA-GGTTGACCGA
260 AAGG-GTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGA-GAAATGGTTGATCGG
* * *
2395818 GGACTAAGCCGACAGGTCACCTAAGG
323 GGACAAAGCCGACACGTCACCAAAGG
2395844 ATAAAGGTAT
Statistics
Matches: 675, Mismatches: 85, Indels: 28
0.86 0.11 0.04
Matches are distributed among these distances:
424 33 0.05
425 34 0.05
426 31 0.05
427 390 0.58
428 183 0.27
429 4 0.01
ACGTcount: A:0.41, C:0.15, G:0.29, T:0.16
Consensus pattern (427 bp):
CAAAGGGGTAAGAAGTTTACCAGGACAAAGTCAACATGTAAACAAAGAGAGGAATGGTTGACTGG
GGACAAAGCTAATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGAAGGATAAACAA
AGAGAGGAATGGTTGACCAGGGACAAAGCTGATAGGTCACCAAAAGGGTAAGAAGTTTACCGAGG
ACAAAGCTGACGGGTAAACAAAGAGAGGAATGGTTGATTGAGGACAAAGCTGACACGTCACCAAA
AGGGTAAGAAGTTTACCGAGGACAAAGTCAATAGGTAAACAAAAAGAGAAATGGTTGATCGGGGA
CAAAGCCGACACGTCACCAAAGGGGTAAGAAGTTTACTAGCAACAAAGCCAATAGGTAAACAAAG
GGAGGAATAGTTAATCAGGGACAAAGCCAACTGACAC
Found at i:2395769 original size:84 final size:84
Alignment explanation
Indices: 2395565--2395840 Score: 304
Period size: 84 Copynumber: 3.3 Consensus size: 84
2395555 GGTTGGCTGG
* * ** *
2395565 GGACAAAGCTGATAGGTCACCAAGGGGTAAGAAGTTTACCAAGGACAAAGCCGAC-GGATAAACA
1 GGACAAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGACAGG-TAAACA
* * ** *
2395629 AAGAGAAAAATGGTTGACCAG
65 AGGGGATGAA-GGTTGACCAA
* * * * *
2395650 GGACAAAGCTGATAGGTCACC-AAGAGATAACAAGTTTACCGAGGACTAAGTCGACAGGTAAACA
1 GGACAAAGCTGACAGGTCACCTAGGA-ATAAGAAGTTTACCAAGGACTAAGCCGACAGGTAAACA
*
2395714 AGGGGATGAAGGTTGATCAA
65 AGGGGATGAAGGTTGACCAA
* * *
2395734 GGACTAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGATAGGTAAATAA
1 GGACAAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGACAGGTAAACAA
* *
2395799 GAGGATGAAGGTTGACCGA
66 GGGGATGAAGGTTGACCAA
* *
2395818 GGACTAAGCCGACAGGTCACCTA
1 GGACAAAGCTGACAGGTCACCTA
2395841 AGGATAAAGG
Statistics
Matches: 163, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
84 101 0.62
85 60 0.37
86 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (84 bp):
GGACAAAGCTGACAGGTCACCTAGGAATAAGAAGTTTACCAAGGACTAAGCCGACAGGTAAACAA
GGGGATGAAGGTTGACCAA
Found at i:2395821 original size:42 final size:42
Alignment explanation
Indices: 2395691--2395834 Score: 146
Period size: 42 Copynumber: 3.4 Consensus size: 42
2395681 AAGTTTACCG
* * * *
2395691 AGGACTAAGTCGACAGGTAAACAAGGGGATGAAGGTTGATCA
1 AGGACTAAGCCGACAGGTAAATAAGAGGATGAAGGTTGACCA
* ** * ** * *
2395733 AGGACTAAGCTGACAGGTCACCTAGGAATAAGAA-GTTTACCA
1 AGGACTAAGCCGACAGGT-AAATAAGAGGATGAAGGTTGACCA
* *
2395775 AGGACTAAGCCGATAGGTAAATAAGAGGATGAAGGTTGACCG
1 AGGACTAAGCCGACAGGTAAATAAGAGGATGAAGGTTGACCA
2395817 AGGACTAAGCCGACAGGT
1 AGGACTAAGCCGACAGGT
2395835 CACCTAAGGA
Statistics
Matches: 77, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
41 9 0.12
42 61 0.79
43 7 0.09
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.17
Consensus pattern (42 bp):
AGGACTAAGCCGACAGGTAAATAAGAGGATGAAGGTTGACCA
Found at i:2396100 original size:44 final size:43
Alignment explanation
Indices: 2395922--2396103 Score: 129
Period size: 44 Copynumber: 4.2 Consensus size: 43
2395912 TGTAAGTCAC
* *
2395922 TTGACCAAAGTGGTAACCGTACGTCAAACAGGAAAG-AGGTAGAT
1 TTGACCAGA-TGGTAACCATACGTCAAACA-GAAAGAAGGTAGAT
* * *
2395966 TTGACCAAGATGGTAACCATAAGTCAAATCAGAAAAAAAG-A-AT
1 TTGACC-AGATGGTAACCATACGTCAAA-CAGAAAGAAGGTAGAT
* * * * * * * * *
2396009 CTGGCCAAAGTGGTAACCATGCATCAGACCGAAATAA-GAAGAGT
1 TTGACCAGA-TGGTAACCATACGTCAAACAGAAAGAAGGTAGA-T
* *
2396053 TTGACCAGGATGATAACCATACGTCAAATAGAAAGAAGGTAGAT
1 TTGACCA-GATGGTAACCATACGTCAAACAGAAAGAAGGTAGAT
2396097 TTGACCA
1 TTGACCA
2396104 AGTTTATTCA
Statistics
Matches: 104, Mismatches: 25, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 21 0.20
44 61 0.59
45 11 0.11
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (43 bp):
TTGACCAGATGGTAACCATACGTCAAACAGAAAGAAGGTAGAT
Found at i:2396318 original size:60 final size:60
Alignment explanation
Indices: 2396253--2396914 Score: 239
Period size: 60 Copynumber: 11.0 Consensus size: 60
2396243 AGATTCAACA
** * * * * *
2396253 AAGTACAGCCAAGTAAGGAAGGCCTTGATCAAATACAATCAAGAGAGGTAAGATTTGACT
1 AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * *
2396313 GAGTACAATCAAATGAGGAAGGTCTT-AACTGAATACAGTCAAGAGAGGGT-GGATTTGACC
1 AAGTACAATCAAGTAAGGAAGGTCTTGAAC-GAATACAGTCAAGAGA-GGTAAGATTTGACC
* * * * *
2396373 AAATACATTCAAGTAAGGAAGGTCTTGACCGAGTACAGTCAAGAGAGGTAAGATTTGATC
1 AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * * * * * *
2396433 GAGTATAGTCAAATAGGGGAAGG-CTT-AATTGAATATAGTTAAGCA-AGGGT-AGATTCGACC
1 AAGTACAATCAAGTA-AGGAAGGTCTTGAA-CGAATACAGTCAAG-AGA-GGTAAGATTTGACC
* ** ** * * *
2396493 ATGTACAGCCAAGTAAAAAAGGTCTTGACCGAATACAGTCATGAGAGGTAAGATTTGATC
1 AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * * * * * *** *
2396553 GAGTATAGTCAAATAAGGGAAAGTCTTGATTGGCTGAATATAAT-AAGCA-AGGGCGGATTCGAC
1 AAGTACAATCAAGTAA-GGAAGGTCTTGA---AC-GAATACAGTCAAG-AGAGGTAAGATTTGAC
2396616 C
60 C
* * * * ** *
2396617 TAGTACAGAT-GATTAAGGAAGTTCTTGATTGAATACAGTAAAGAGAGGTAAGATTTGACC
1 AAGTACA-ATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * ** * * * *
2396677 GAGTATAGTCAAATGGGGGAAAG-CTT-AACTGAATATAG-CTAAGCA-AGGGT-AGATTCGACT
1 AAGTACAATCAAGT-AAGGAAGGTCTTGAAC-GAATACAGTC-AAG-AGA-GGTAAGATTTGACC
* * * * * **
2396737 GAGTACAATCGAGTAAAGAAGGTTTTG-ACTGAATACAGTCAAGAGAGGCAAGATTTGATT
1 AAGTACAATCAAGTAAGGAAGGTCTTGAAC-GAATACAGTCAAGAGAGGTAAGATTTGACC
* * * * * * **
2396797 GAGTACAGTCAAATAAGGGAAGGT-TT-AACTGAATATAATTAAGCA-A-GTGAAGATTCAACC
1 AAGTACAATCAAGTAA-GGAAGGTCTTGAAC-GAATACAGTCAAG-AGAGGT-AAGATTTGACC
* * * *
2396857 AAGTACAACCGAGTAAGGAAGGTCTTG-ACTGAATACAATCAAGAGAGGTAAAATTTGA
1 AAGTACAATCAAGTAAGGAAGGTCTTGAAC-GAATACAGTCAAGAGAGGTAAGATTTGA
2396915 TCGATTACAG
Statistics
Matches: 432, Mismatches: 130, Indels: 80
0.67 0.20 0.12
Matches are distributed among these distances:
59 40 0.09
60 308 0.71
61 43 0.10
63 10 0.02
64 22 0.05
65 9 0.02
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (60 bp):
AAGTACAATCAAGTAAGGAAGGTCTTGAACGAATACAGTCAAGAGAGGTAAGATTTGACC
Found at i:2396415 original size:120 final size:120
Alignment explanation
Indices: 2396210--2397156 Score: 877
Period size: 120 Copynumber: 7.9 Consensus size: 120
2396200 GTCAAATAAA
* * * * * * ** *
2396210 GGAAGGCTTAA-TGGAATACAGTTAAACAAGGGTAGATTCAACAAAGTACAGCCAAGTAAGGAAG
1 GGAAAGCTTAACT-GAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAG
* * * * * * *
2396274 GCCTTGATCAAATACAATCAAGAGAGGTAAGATTTGACTGAGTACAATCAAAT-GA
65 GTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * * * * * *
2396329 GGAAGGTCTTAACTGAATACAGTCAAG-AGAGGGTGGATTTGACCAAATACATTCAAGTAAGGAA
1 GGAAAG-CTTAACTGAATATAGTTAAGCA-AGGGTGGATTCGACCAAGTACAATCGAGTAAGGAA
* *
2396393 GGTCTTGACCGAGTACAGTCAAGAGAGGTAAGATTTGA-TCGAGTATAGTCAAATAGG
64 GGTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACT-GAGTATAGTCAAATGGG
* * * * ** * **
2396450 GGAAGGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACCATGTACAGCCAAGTAAAAAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
* **
2396515 TCTTGACCGAATACAGTCATGAGAGGTAAGATTTGA-TCGAGTATAGTCAAATAAG
66 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACT-GAGTATAGTCAAATGGG
* * * * *
2396570 GGAAAGTCTTGATTGGCTGAATATA-ATAAGCAAGGGCGGATTCGACCTAGTACAGAT-GATTAA
1 GGAAAG-CTT-A---ACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACA-ATCGAGTAA
* ** * *
2396633 GGAAGTTCTTGATTGAATACAGTAAAGAGAGGTAAGATTTGACCGAGTATAGTCAAATGGG
60 GGAAGGTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * ** *
2396694 GGAAAGCTTAACTGAATATAGCTAAGCAAGGGTAGATTCGACTGAGTACAATCGAGTAAAGAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
* * * * * **
2396759 TTTTGACTGAATACAGTCAAGAGAGGCAAGATTTGATTGAGTACAGTCAAATAAG
66 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * * * ** * *
2396814 GGAAGGTTTAACTGAATATAATTAAGCAAGTGAAGATTCAACCAAGTACAACCGAGTAAGGAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
* * * * *
2396879 TCTTGACTGAATACAATCAAGAGAGGTAAAATTTGA-TCGATTACAGTCAAATGGG
66 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACT-GAGTATAGTCAAATGGG
* * * * *
2396934 GG-AAGCCTTAATTCAATATAGTTAAGCAAGGGTGGATTCAACCGAGTACAGTCGAGTAAGGAAG
1 GGAAAG-CTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAG
* ** * * * *
2396998 GTCTTAACTAAATACAGTTAAGATAGATAAGATTTGACCGAGTATAGTCAAATGGG
65 GTCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
* * * * * *
2397054 GGAAAGCTTAACTGAATACAATTAAGCAAGGGTGGATTCGATCGAGTACAGTCGAGTAAGAAAGG
1 GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
* * *
2397119 TCTTGACCAAATATAGTCAAGAGAGGTCAGATTTGACT
66 TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACT
2397157 AATTACAGCT
Statistics
Matches: 684, Mismatches: 125, Indels: 37
0.81 0.15 0.04
Matches are distributed among these distances:
119 22 0.03
120 550 0.80
121 15 0.02
122 2 0.00
123 3 0.00
124 84 0.12
125 8 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (120 bp):
GGAAAGCTTAACTGAATATAGTTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGG
TCTTGACCGAATACAGTCAAGAGAGGTAAGATTTGACTGAGTATAGTCAAATGGG
Found at i:2396436 original size:30 final size:30
Alignment explanation
Indices: 2396284--2396444 Score: 107
Period size: 30 Copynumber: 5.4 Consensus size: 30
2396274 GCCTTGATCA
* *
2396284 AATACAATCAAGAGAGGTAAGATTTGACTG
1 AATACAGTCAAGAGAGGTAAGATTTGACCG
* * * * *
2396314 AGTACAATCAA-ATGAGG-AAGGTCTTAACTG
1 AATACAGTCAAGA-GAGGTAAGAT-TTGACCG
* *
2396344 AATACAGTCAAGAGAGGGT-GGATTTGACCA
1 AATACAGTCAAGAGA-GGTAAGATTTGACCG
* *
2396374 AATACATTCAAGTA-AGG-AAGGTCTTGACCG
1 AATACAGTCAAG-AGAGGTAAGAT-TTGACCG
* *
2396404 AGTACAGTCAAGAGAGGTAAGATTTGATCG
1 AATACAGTCAAGAGAGGTAAGATTTGACCG
* *
2396434 AGTATAGTCAA
1 AATACAGTCAA
2396445 ATAGGGGAAG
Statistics
Matches: 102, Mismatches: 19, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
29 10 0.10
30 82 0.80
31 10 0.10
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (30 bp):
AATACAGTCAAGAGAGGTAAGATTTGACCG
Found at i:2396962 original size:240 final size:239
Alignment explanation
Indices: 2396210--2397154 Score: 995
Period size: 240 Copynumber: 3.9 Consensus size: 239
2396200 GTCAAATAAA
* * * * * * * *
2396210 GGAAGGCTTAATGGAATACAGTTAAACAAGGGTAGATTCAACAAAGTACAGCCAAGTAAGGAAGG
1 GGAA-GCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGAC-GAGTACAGTCGAGTAAAGAAGG
* * * * * * *
2396275 CCTTGA-TCAAATACAATCAAGAGAGGTAAGATTTGACTGAGTACAATCAAATGA-GGAAGGTCT
64 TCTTGACT-GAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCT
* * * * * *
2396338 TAACTGAATACAGTCAAG-AGAGGGTGGATTTGACCAAATACATTCAAGTAAGGAAGGTCTTGAC
128 TAACTGAATACAATTAAGCA-AGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGAC
* *
2396402 CGAGTACAGTCAAGAGAGGTAAGATTTGATCGAGTATAGTCAAATAGG
192 CGAATACAGTCAAGAGAGGTAAGATTTGATCGAGTATAGTCAAATGGG
* * * *
2396450 GGAAGGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACCATGTACAGCCAAGTAAAAAAGG
1 GGAA-GCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACGA-GTACAGTCGAGTAAAGAAGG
* * * *
2396515 TCTTGACCGAATACAGTCATGAGAGGTAAGATTTGATCGAGTATAGTCAAATAAGGGAAAGTCTT
64 TCTTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTT
* * * * * *
2396580 GATTGGCTGAATATAA-TAAGCAAGGGCGGATTCGACCTAGTACAGAT-GATTAAGGAAGTTCTT
129 -A---ACTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACA-ATCGAGTAAGGAAGGTCTT
** * *
2396643 GATTGAATACAGTAAAGAGAGGTAAGATTTGACCGAGTATAGTCAAATGGG
189 GACCGAATACAGTCAAGAGAGGTAAGATTTGATCGAGTATAGTCAAATGGG
* * *
2396694 GGAAAGCTTAACTGAATATAGCTAAGCAAGGGTAGATTCGACTGAGTACAATCGAGTAAAGAAGG
1 GG-AAGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGAC-GAGTACAGTCGAGTAAAGAAGG
* * ** *
2396759 TTTTGACTGAATACAGTCAAGAGAGGCAAGATTTGATTGAGTACAGTCAAATAAGGGAAGGT-TT
64 TCTTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTT
* * ** * * *
2396823 AACTGAATATAATTAAGCAAGTGAAGATTCAACCAAGTACAACCGAGTAAGGAAGGTCTTGACTG
129 AACTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGACCG
* * * *
2396888 AATACAATCAAGAGAGGTAAAATTTGATCGATTACAGTCAAATGGG
194 AATACAGTCAAGAGAGGTAAGATTTGATCGAGTATAGTCAAATGGG
* * * *
2396934 GGAAGCCTTAATTCAATATAGTTAAGCAAGGGTGGATTCAACCGAGTACAGTCGAGTAAGGAAGG
1 GGAAG-CTTAATTGAATATAGTTAAGCAAGGGTAGATTCGA-CGAGTACAGTCGAGTAAAGAAGG
* * * * * * **
2396999 TCTTAACTAAATACAGTTAAGATAGATAAGATTTGACCGAGTATAGTCAAATGGGGGAAAG-CTT
64 TCTTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTT
* * * * *
2397063 AACTGAATACAATTAAGCAAGGGTGGATTCGATCGAGTACAGTCGAGTAAGAAAGGTCTTGACCA
129 AACTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGACCG
* *
2397128 AATATAGTCAAGAGAGGTCAGATTTGA
194 AATACAGTCAAGAGAGGTAAGATTTGA
2397155 CTAATTACAG
Statistics
Matches: 587, Mismatches: 102, Indels: 32
0.81 0.14 0.04
Matches are distributed among these distances:
239 15 0.03
240 358 0.61
241 10 0.02
242 2 0.00
243 2 0.00
244 187 0.32
245 13 0.02
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (239 bp):
GGAAGCTTAATTGAATATAGTTAAGCAAGGGTAGATTCGACGAGTACAGTCGAGTAAAGAAGGTC
TTGACTGAATACAGTCAAGAGAGGTAAGATTTGACCGAGTACAGTCAAATAAGGGAAAGTCTTAA
CTGAATACAATTAAGCAAGGGTGGATTCGACCAAGTACAATCGAGTAAGGAAGGTCTTGACCGAA
TACAGTCAAGAGAGGTAAGATTTGATCGAGTATAGTCAAATGGG
Found at i:2397017 original size:60 final size:60
Alignment explanation
Indices: 2396596--2397131 Score: 178
Period size: 60 Copynumber: 8.9 Consensus size: 60
2396586 CTGAATATAA
* * * * * * *
2396596 TAAGCAAGGGCGGATTCGACCTAGTACAGAT-GATTAAGGAAGTTCTTGATTGAATACAGT
1 TAAGCAAGGGTGGATTCGACCGAGTACAG-TCGAGTAAGGAAGGTCTTAACTAAATACAGT
* * * * * * ** * * * *
2396656 AAAG--AGAGGTAAGATTTGACCGAGTATAGTCAAATGGGGGAAAG-CTTAACTGAATATAGC
1 TAAGCAAG-GGT-GGATTCGACCGAGTACAGTCGAGT-AAGGAAGGTCTTAACTAAATACAGT
* * * * * * *
2396716 TAAGCAAGGGTAGATTCGACTGAGTACAATCGAGTAAAGAAGGTTTTGACTGAATACAGT
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
* *** * ** * * * * *
2396776 CAAG-AGAGGCAAGATTTGATTGAGTACAGTCAAATAAGGGAAGGT-TTAACTGAATATAAT
1 TAAGCA-AGGGTGGATTCGACCGAGTACAGTCGAGTAA-GGAAGGTCTTAACTAAATACAGT
* ** * * ** * * *
2396836 TAAGCAAGTGAAGATTCAACCAAGTACAACCGAGTAAGGAAGGTCTTGACTGAATACAAT
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
* ** * * * * * ** * * * *
2396896 CAAG--AGAGGTAAAATTTGATCGATTACAGTCAAATGGGGGAA-GCCTTAATTCAATATAGT
1 TAAGCAAG-GGT-GGATTCGACCGAGTACAGTCGAGT-AAGGAAGGTCTTAACTAAATACAGT
*
2396956 TAAGCAAGGGTGGATTCAACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
* * * * * * ** * * *
2397016 TAAG-ATA-GATAAGATTTGACCGAGTATAGTCAAATGGGGGAAAG-CTTAACTGAATACAAT
1 TAAGCA-AGGGT-GGATTCGACCGAGTACAGTCGAGT-AAGGAAGGTCTTAACTAAATACAGT
* * * *
2397076 TAAGCAAGGGTGGATTCGATCGAGTACAGTCGAGTAAGAAAGGTCTTGACCAAATA
1 TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATA
2397132 TAGTCAAGAG
Statistics
Matches: 334, Mismatches: 119, Indels: 46
0.67 0.24 0.09
Matches are distributed among these distances:
58 4 0.01
59 27 0.08
60 270 0.81
61 29 0.09
62 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (60 bp):
TAAGCAAGGGTGGATTCGACCGAGTACAGTCGAGTAAGGAAGGTCTTAACTAAATACAGT
Found at i:2397587 original size:89 final size:89
Alignment explanation
Indices: 2397322--2397837 Score: 408
Period size: 89 Copynumber: 5.8 Consensus size: 89
2397312 TGAGACATCT
* * * * *
2397322 TTGCCCC--GAAAATCAGA-CTTTGTGATGCACCAATATCATTTAGTAGTTGGAT-AAGGGAGAT
1 TTGCCCCAAGAAAATCA-ATCTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAAGG-GAT
* * *
2397383 ATGATTGGGAATGTGTG-G-T-CTATCT
64 ATGATTGAGAAGGTGTGAGCTGC-A-CC
* * * * * * **
2397408 TTTCCCCAA-AGAAATTAGTCTTTGTGATGCATCAATATCATCTAGT-GGTCAAGTGAGGGGGAT
1 TTGCCCCAAGA-AAATCAATCTTTGTGATGCATCAATACCATCTAGTAGTTGAA-TGAAAGGGAT
* ** * *
2397471 ATGATTGGGAATTTATGGGCTGCACC
64 ATGATTGAGAAGGTGTGAGCTGCACC
* ** ** * *
2397497 TTGCCCCAAGGAAATTTGA-CTTCATGATGCGTCAATACCATTTAGTAGTTGAATGAAAGGGATA
1 TTGCCCCAA-GAAAATCAATCTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAAGGGATA
**
2397561 TGATTGAGAAGGTGTGAGCTAAACC
65 TGATTGAGAAGGTGTGAGCTGCACC
* * * * *
2397586 TTGGCACAAGAAAATCAATCTTTGTGATGAATCAATACCATCTACTAGTTGAATGAAGGGGATAT
1 TTGCCCCAAGAAAATCAATCTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAAGGGATAT
*
2397651 GATTGAGAAGGTGTGAGCTGCATC
66 GATTGAGAAGGTGTGAGCTGCACC
* * * *
2397675 TTACCCCAAGAAAATCAATCTTTGTCATGCATCAATACCATCTAG-CGATTAAATGAAAGGGATA
1 TTGCCCCAAGAAAATCAATCTTTGTGATGCATCAATACCATCTAGTAG-TTGAATGAAAGGGATA
* *
2397739 TGATTGAAAAGCTGTGAGCTGCACC
65 TGATTGAGAAGGTGTGAGCTGCACC
* * * * * * * * *
2397764 TTGCCCTAAAAAAATCAAGCTTTATGATGCATCAGTTCCATCTAGTGGTTGAAAG-ACGAGGATA
1 TTGCCCCAAGAAAATCAATCTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAAG-GGATA
2397828 TGATTGAGAA
65 TGATTGAGAA
2397838 TGTGGGGTCT
Statistics
Matches: 342, Mismatches: 72, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
86 6 0.02
87 4 0.01
88 58 0.17
89 261 0.76
90 11 0.03
91 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (89 bp):
TTGCCCCAAGAAAATCAATCTTTGTGATGCATCAATACCATCTAGTAGTTGAATGAAAGGGATAT
GATTGAGAAGGTGTGAGCTGCACC
Found at i:2397793 original size:267 final size:266
Alignment explanation
Indices: 2397329--2397837 Score: 555
Period size: 267 Copynumber: 1.9 Consensus size: 266
2397319 TCTTTGCCCC
* * * * * *
2397329 GAAAATCAGACTTTGTGATGCACCAATATCATTTAGTAGTTGGATAAGGGAGATATGATTGGGAA
1 GAAAATCAGACTTTGTGATGAACCAATACCATCTACTAGTTGAATAAGGGAGATATGATTGAGAA
* * * * * * * *
2397394 TGTGTGGTCTATCTTTTCCCCAAAGAAATTAGTCTTTGTGATGCATCAATATCATCTAGTGGTCA
66 GGTGTGGTCTATCTTTACCCCAAAGAAATCAATCTTTGTCATGCATCAATACCATCTAGCGATCA
* ** ** ** * ** **
2397459 AGTGAGGGGGATATGATTGGGAATTTATGGGCTGCACCTTGCCCCAAGGAAATTTGACTTCATGA
131 AATGAAAGGGATATGATTGAAAAGCTATGAGCTGCACCTTGCCCCAAAAAAATAAGACTTCATGA
* * *
2397524 TGCGTCAATACCATTTAGTAGTTGAATGAA-AGGGATATGATTGAGAAGGTGTGAGCTAAACCTT
196 TGCATCAATACCATCTAGTAGTTGAAAGAAGA-GGATATGATTGAGAAGGTGTGAGCTAAACCTT
2397588 GGCACAA
260 GGCACAA
*
2397595 GAAAATCA-ATCTTTGTGATGAATCAATACCATCTACTAGTTGAATGAAGGG-GATATGATTGAG
1 GAAAATCAGA-CTTTGTGATGAACCAATACCATCTACTAGTTGAAT-AAGGGAGATATGATTGAG
2397658 AAGGTGTGAG-CTGCATC-TTACCCC-AAGAAAATCAATCTTTGTCATGCATCAATACCATCTAG
64 AAGGTGTG-GTCT--ATCTTTACCCCAAAG-AAATCAATCTTTGTCATGCATCAATACCATCTAG
* * *
2397720 CGATTAAATGAAAGGGATATGATTGAAAAGCTGTGAGCTGCACCTTGCCCTAAAAAAATCAAG-C
125 CGATCAAATGAAAGGGATATGATTGAAAAGCTATGAGCTGCACCTTGCCCCAAAAAAAT-AAGAC
* * * * *
2397784 TTTATGATGCATCAGTTCCATCTAGTGGTTGAAAGACGAGGATATGATTGAGAA
189 TTCATGATGCATCAATACCATCTAGTAGTTGAAAGAAGAGGATATGATTGAGAA
2397838 TGTGGGGTCT
Statistics
Matches: 197, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
265 1 0.01
266 60 0.30
267 131 0.66
268 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (266 bp):
GAAAATCAGACTTTGTGATGAACCAATACCATCTACTAGTTGAATAAGGGAGATATGATTGAGAA
GGTGTGGTCTATCTTTACCCCAAAGAAATCAATCTTTGTCATGCATCAATACCATCTAGCGATCA
AATGAAAGGGATATGATTGAAAAGCTATGAGCTGCACCTTGCCCCAAAAAAATAAGACTTCATGA
TGCATCAATACCATCTAGTAGTTGAAAGAAGAGGATATGATTGAGAAGGTGTGAGCTAAACCTTG
GCACAA
Found at i:2399445 original size:19 final size:21
Alignment explanation
Indices: 2399414--2399461 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
2399404 TTTCATTTCT
* *
2399414 CTTTTTTTTTCTTTTTTT-CA
1 CTTTTTCTCTCTTTTTTTGCA
2399434 -TTTTTCTCTCTTTTTTTGCA
1 CTTTTTCTCTCTTTTTTTGCA
2399454 CTTTTTCT
1 CTTTTTCT
2399462 TCATTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 7 0.29
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (21 bp):
CTTTTTCTCTCTTTTTTTGCA
Found at i:2399468 original size:29 final size:27
Alignment explanation
Indices: 2399405--2399490 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
2399395 CTCATTTCTT
*
2399405 TTCATTTCTCT-TTTTTTTTCTTTTT-
1 TTCATTTCTCTCTTTTTTTCCTTTTTC
2399430 TTCATTTTTCTCTCTTTTTTTGCACTTTTTC
1 TTCA--TTTCTCTCTTTTTTT-C-CTTTTTC
* *
2399461 TTCATTTCACACTTGTTTTTCCTTTTTC
1 TTCATTTCTCTCTT-TTTTTCCTTTTTC
2399489 TT
1 TT
2399491 TTTTCTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
25 4 0.08
27 7 0.14
28 16 0.31
29 9 0.18
30 11 0.22
31 4 0.08
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (27 bp):
TTCATTTCTCTCTTTTTTTCCTTTTTC
Found at i:2399853 original size:5 final size:5
Alignment explanation
Indices: 2399843--2399868 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2399833 ATGTATCTGA
2399843 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
2399869 GTTTTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:2400725 original size:14 final size:14
Alignment explanation
Indices: 2400706--2400734 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2400696 AACAAATATA
2400706 TGCTTGTTTCCCCT
1 TGCTTGTTTCCCCT
2400720 TGCTTGTTTCCCCT
1 TGCTTGTTTCCCCT
2400734 T
1 T
2400735 TGAGCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.14, T:0.52
Consensus pattern (14 bp):
TGCTTGTTTCCCCT
Found at i:2402456 original size:13 final size:13
Alignment explanation
Indices: 2402438--2402463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2402428 CAATTTTTGG
2402438 TGTATCGATACAT
1 TGTATCGATACAT
2402451 TGTATCGATACAT
1 TGTATCGATACAT
2402464 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2402475 original size:32 final size:33
Alignment explanation
Indices: 2402418--2402481 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2402408 TACAAGCCAA
**
2402418 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2402451 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2402482 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2402488 original size:19 final size:18
Alignment explanation
Indices: 2402418--2402488 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
2402408 TACAAGCCAA
2402418 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
2402438 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2402451 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2402470 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2402489 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2408783 original size:32 final size:32
Alignment explanation
Indices: 2408739--2408819 Score: 112
Period size: 32 Copynumber: 2.5 Consensus size: 32
2408729 AGAAACCATC
* *
2408739 TCTAAAGCCCACACAAGTTCGTGGCA-ACCTTCT
1 TCTAAAGCCCACACAAGTTAGTGG-AGACCCT-T
2408772 TC-AAAGCCCACACAAGTTAGTGGAGACCCTT
1 TCTAAAGCCCACACAAGTTAGTGGAGACCCTT
2408803 TCTAAAGCCCACACAAG
1 TCTAAAGCCCACACAAG
2408820 ACATTGGCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 4 0.09
32 38 0.86
33 2 0.05
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (32 bp):
TCTAAAGCCCACACAAGTTAGTGGAGACCCTT
Found at i:2408837 original size:32 final size:32
Alignment explanation
Indices: 2408739--2408837 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
2408729 AGAAACCATC
*
2408739 TCTAAAGCCCACACAAGTTC-GTGGCAACCTTCT
1 TCTAAAGCCCACACAAG-TCAGTGGC-ACCTTTT
* * *
2408772 TC-AAAGCCCACACAAGTTAGTGGAGACC-CTT
1 TCTAAAGCCCACACAAGTCAGTGG-CACCTTTT
* *
2408803 TCTAAAGCCCACACAAGACATTGGCACCTTTT
1 TCTAAAGCCCACACAAGTCAGTGGCACCTTTT
2408835 TCT
1 TCT
2408838 TTCTCAAGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
31 7 0.13
32 44 0.83
33 2 0.04
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.24
Consensus pattern (32 bp):
TCTAAAGCCCACACAAGTCAGTGGCACCTTTT
Found at i:2409006 original size:104 final size:104
Alignment explanation
Indices: 2408822--2409462 Score: 479
Period size: 104 Copynumber: 6.1 Consensus size: 104
2408812 CACACAAGAC
* * * * * *
2408822 ATTGGCACCTTTTTCTTTCTCAAGTCCAATACCACTAGCCTTGAATCAGCATATCGGCACCTTTT
1 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
*
2408887 TCATCTTTAAATCCAATGTTGCTGGCCTTGAATCAGCAT
66 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
*
2408926 ATTGGCACCTTCTTCTTTCTCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
2408991 TCATCTCTAAGTCCAATGTTGTTGGCCTTGAATCAGCAC
66 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* *
2409030 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGTTGGCCTTGAATTAGCATATTGGCACCTTTA
1 ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * ** * *
2409095 TCATCTTTAAGTCTAATATCACTGGCCTTGAAACAACAT
66 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* * * * * * * * ** *
2409134 ATCGACACCTTTAGCATCCTTCTCATCCTCAAATCTAATGTCGTTGAG-CTTGAGTTTGCACATT
1 ATTGGCACC--T----T-CTTCT--TTCTCAAGTCCAATATCGCTG-GCCTTGAATCAGCATATT
* * * * *
2409198 GGTA-C--TATCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCAT
56 GGCACCTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* * * * * * * * *
2409244 ATTGGCATCTT-TAACATCCTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCA-TTCT
1 ATTGGCACCTTCT-TCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-T
* * ** ** * *
2409307 TCTCATCTTCAAGTTTAATGTCCCTGGCCATGAATCAGCAC
64 TATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
* *** * * * ****
2409348 ATT-G-ACATTCTTCGCACCTTTAAGCCCAATATCGCTGGCCTTGCATCAGCATATTGGTGTATT
1 ATTGGCACCTTCTTC-TTTC-TCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * * *
2409411 TGTCATCATTAAGTCCAATGTCGTTGGCCTTGAATTAGCAC
64 TATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
2409452 ATTGGCACCTT
1 ATTGGCACCTT
2409463 TAAGCCCAAC
Statistics
Matches: 429, Mismatches: 87, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
100 1 0.00
101 30 0.07
102 5 0.01
103 5 0.01
104 298 0.69
105 2 0.00
106 5 0.01
108 1 0.00
110 42 0.10
111 5 0.01
112 1 0.00
113 33 0.08
114 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (104 bp):
ATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCAT
Found at i:2409107 original size:156 final size:156
Alignment explanation
Indices: 2408859--2409464 Score: 473
Period size: 156 Copynumber: 3.8 Consensus size: 156
2408849 AATACCACTA
* * * * * *
2408859 GCCTTGAATCAGCATATCGGCACCTTTTTCATCTTTAAATCCAATGTTGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCACATTGGCACCTTCTTCAT-TTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* *
2408924 ATATTGGCACCTTCT-TC-T-TTCTCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCAC
65 ATATTGGCACCTT-TATCATCTT-T-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
2408986 CTTTATCATCTCT-AAGTCCAATGTTGTTG
127 CTTTATCATCTCTCAAGTCTAATGTCGTTG
* *
2409015 GCCTTGAATCAGCACATTGGCACCTTCTTC-TTTCTCAAGTCCAATATCGTTGGCCTTGAATTAG
1 GCCTTGAATCAGCACATTGGCACCTTCTTCATTT-T-AAGTCCAATATCGCTGGCCTTGAATCAG
* * * * * * *
2409079 CATATTGGCACCTTTATCATCTTTAAGTCTAATATCACTGGCCTTGAAACAACATATCGACACCT
64 CATATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
* *
2409144 TTAGCATCCTTCTCATCCTCAAATCTAATGTCGTTG
129 TT---AT-C--ATC-T-CTCAAGTCTAATGTCGTTG
* ** * * * *
2409180 AG-CTTGAGTTTGCACATTGGTA-C-T-ATCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAG
1 -GCCTTGAATCAGCACATTGGCACCTTCTTCAT-TTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * * * *
2409241 CATATTGGCATCTTTAACATCCTTAAGCCCAACATCGCTGGCCTTGAATCAGCACATTGGCA-TT
64 CATATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
* * **
2409305 CTTCTCATCT-TCAAGTTTAATGTCCCTG
129 -TTATCATCTCTCAAGTCTAATGTCGTTG
* * * * *
2409333 GCCATGAATCAGCACATT-G-ACATTCTTCGCACCTTTAAGCCCAATATCGCTGGCCTTGCATCA
1 GCCTTGAATCAGCACATTGGCACCTTCTT--CA-TTTTAAGTCCAATATCGCTGGCCTTGAATCA
**** * * * * *
2409396 GCATATTGGTGTATTTGTCATCATTAAGTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCACC
63 GCATATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC
2409461 TTTA
128 TTTA
2409465 AGCCCAACAT
Statistics
Matches: 357, Mismatches: 67, Indels: 52
0.75 0.14 0.11
Matches are distributed among these distances:
151 1 0.00
152 2 0.01
153 27 0.08
154 3 0.01
155 4 0.01
156 188 0.53
157 3 0.01
158 3 0.01
159 3 0.01
160 1 0.00
161 1 0.00
162 82 0.23
163 4 0.01
164 5 0.01
165 29 0.08
166 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (156 bp):
GCCTTGAATCAGCACATTGGCACCTTCTTCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
TATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
ATCATCTCTCAAGTCTAATGTCGTTG
Found at i:2409146 original size:52 final size:52
Alignment explanation
Indices: 2408822--2409464 Score: 407
Period size: 52 Copynumber: 12.2 Consensus size: 52
2408812 CACACAAGAC
* * * *
2408822 ATTGGCACCTTTTTC-T-TTCTCAAGTCCAATACCACTAGCCTTGAATCAGCAT
1 ATTGGCACCTTTATCATCTT-T-AAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * *
2408874 ATCGGCACCTTTTTCATCTTTAAATCCAATGTTGCTGGCCTTGAATCAGCAT
1 ATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
*
2408926 ATTGGCACCTTCT-TC-T-TTCTCAAGTCTAATATCGCTGGCCTTGAATCAGCAT
1 ATTGGCACCTT-TATCATCTT-T-AAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * *
2408978 ATTGGCACCTTTATCATCTCTAAGTCCAATGTTGTTGGCCTTGAATCAGCAC
1 ATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* *
2409030 ATTGGCACCTTCT-TC-T-TTCTCAAGTCCAATATCGTTGGCCTTGAATTAGCAT
1 ATTGGCACCTT-TATCATCTT-T-AAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * *
2409082 ATTGGCACCTTTATCATCTTTAAGTCTAATATCACTGGCCTTGAAACAACAT
1 ATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * * * ** *
2409134 ATCGACACCTTTAGCATCCTTCTCA-TCCTCAAATCTAATGTCGTTGAG-CTTGAGTTTGCAC
1 ATTGGCACCTTTATCAT-CTT-TAAGT-C-C-AA--T-A--TCGCTG-GCCTTGAATCAGCAT
* * *
2409195 ATTGGTA-C--TATCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCAT
1 ATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * * *
2409244 ATTGGCATCTTTAACATCCTTAAGCCCAACATCGCTGGCCTTGAATCAGCAC
1 ATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * ** * * * *
2409296 ATTGGCA-TTCTTCTCATCTTCAAGTTTAATGTCCCTGGCCATGAATCAGCAC
1 ATTGGCACCT-TTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * ** * * *
2409348 ATTGACA-TTCTTCGCACCTTTAAGCCCAATATCGCTGGCCTTGCATCAGCAT
1 ATTGGCACCT-TTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
**** * * * * * *
2409400 ATTGGTGTATTTGTCATCATTAAGTCCAATGTCGTTGGCCTTGAATTAGCAC
1 ATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
2409452 ATTGGCACCTTTA
1 ATTGGCACCTTTA
2409465 AGCCCAACAT
Statistics
Matches: 456, Mismatches: 103, Indels: 64
0.73 0.17 0.10
Matches are distributed among these distances:
48 1 0.00
49 21 0.05
50 4 0.01
51 8 0.02
52 366 0.80
53 13 0.03
54 9 0.02
55 1 0.00
56 5 0.01
57 4 0.01
58 6 0.01
59 1 0.00
60 1 0.00
61 15 0.03
62 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (52 bp):
ATTGGCACCTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
Found at i:2410334 original size:19 final size:19
Alignment explanation
Indices: 2410297--2410345 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
2410287 TCATACTTCT
*
2410297 ATTTC-TTGTATTGCATTC
1 ATTTCATTGCATTGCATTC
*
2410315 ATTTCATTGCATTGCTTTC
1 ATTTCATTGCATTGCATTC
2410334 ATTTCA-TGCATT
1 ATTTCATTGCATT
2410346 CATGTGCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.53
Consensus pattern (19 bp):
ATTTCATTGCATTGCATTC
Found at i:2410622 original size:18 final size:18
Alignment explanation
Indices: 2410585--2410622 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2410575 GATGGAGGAC
*
2410585 AAAGCAACGTGCAAACCA
1 AAAGCAACGTGCAAAACA
2410603 AAAGCAACGTG-AACAACA
1 AAAGCAACGTGCAA-AACA
2410621 AA
1 AA
2410623 GACAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.55, C:0.24, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAGCAACGTGCAAAACA
Found at i:2410748 original size:94 final size:97
Alignment explanation
Indices: 2410636--2410821 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 97
2410626 AAATAGACAA
2410636 AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGG-G-TGATCTT-AAAAAAAATGAA
1 AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGGTGTTGATCTTAAAAAAAAATGAA
2410698 ATGGGAGACAAAACATGCAACAAGAAACATGC
66 ATGGGAGACAAAACATGCAACAAGAAACATGC
* * * * ** *
2410730 AAAGCAAGAAGAAATGTGTAGCATGTGGATAGCATGGGGAGGTTGTTTTTTTTAAAAAAAAAAAT
1 AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGG-TGTTGATCTT--AAAAAAAAAT
* *
2410795 GCAATGGGAGACACAACATGCAACAAG
63 GAAATGGGAGACAAAACATGCAACAAG
2410822 CAACGTGAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
94 38 0.49
96 1 0.01
97 4 0.05
100 34 0.44
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.18
Consensus pattern (97 bp):
AAAGCAAGAAGAAATGTGTAGCACGTGGACAACATGGAGAGGTGTTGATCTTAAAAAAAAATGAA
ATGGGAGACAAAACATGCAACAAGAAACATGC
Found at i:2412160 original size:154 final size:155
Alignment explanation
Indices: 2411928--2412339 Score: 465
Period size: 154 Copynumber: 2.6 Consensus size: 155
2411918 ACCTCGTTAT
* ** *
2411928 TTTTGAGGAGATACTCCAACCCAAGTTTTTTTTCAAAACACCGACTTTTCACAATTTGGGATATT
1 TTTTGAGGAGATACTCCAACCCTAG-TTTTTTTCAAAACACCGACTTTTCACAATCGGGGATACT
* * * * *
2411993 CTAACCCTGTTATTTTTGAGGGGATACTCCAATCCTGGCCTTATTTCTAAAACATCGA-TTTTCT
65 CCAACCCCGTTATTTTTAAGGGGATACACCAACCCTGGCCTTATTTCTAAAACATCGATTTTTCT
* *
2412057 ATAATTAGGGATACTCTAACCCCATTA
130 -CAATCAGGGATACTCTAACCCCATTA
2412084 -TTTGAAGG-GATACTCCAACCC-AGTTTCTTTTCAAAACACCGACTTTTCACAATCGGGGATAC
1 TTTTG-AGGAGATACTCCAACCCTAGTTT-TTTTCAAAACACCGACTTTTCACAATCGGGGATAC
* * ** * *
2412146 TCCGACCCCATTATTTCCAAAGGGATACACCAACCCTGGCTTTATTTCTAAAACATCGATTTTTC
64 TCCAACCCCGTTATTTTTAAGGGGATACACCAACCCTGGCCTTATTTCTAAAACATCGATTTTTC
* * *
2412211 TCCATCGGGGATACTTTAACCCCATTA
129 TCAATCAGGGATACTCTAACCCCATTA
* * ** *
2412238 TTTTTGAGGAGATACTCCAACCCTTACTTTATTTCTAAAACATTGA-TTTTCTACAATCGGGGAC
1 -TTTTGAGGAGATACTCCAACCC-TAGTTTTTTTC-AAAACACCGACTTTTC-ACAATCGGGGAT
* * *
2412302 ACTCCAACCCCGTTCTTTTTTAGAGGATACACCAACCC
62 ACTCCAACCCCGTTATTTTTAAGGGGATACACCAACCC
2412340 CGATTTGTTT
Statistics
Matches: 214, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
153 3 0.01
154 103 0.48
155 26 0.12
156 20 0.09
157 9 0.04
158 53 0.25
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (155 bp):
TTTTGAGGAGATACTCCAACCCTAGTTTTTTTCAAAACACCGACTTTTCACAATCGGGGATACTC
CAACCCCGTTATTTTTAAGGGGATACACCAACCCTGGCCTTATTTCTAAAACATCGATTTTTCTC
AATCAGGGATACTCTAACCCCATTA
Found at i:2412321 original size:79 final size:80
Alignment explanation
Indices: 2411895--2412393 Score: 366
Period size: 79 Copynumber: 6.4 Consensus size: 80
2411885 AATATCAAAA
* * * * * *
2411895 TTTCTATAATCGTGGATACACCAACCTCGTTATTTTTGAGGAGATACTCCAACCC-AAGTTT-TT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
* *
2411958 TTTCAAAACACCGACT
66 TCT-AAAACATCGACT
** * * * * * * *
2411974 TTTC-ACAATTTGGGATATTCTAACCCTGTTATTTTTGAGGGGATACTCCAATCCTGGCCTTATT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
2412038 TCTAAAACATCGA-T
66 TCTAAAACATCGACT
* ** * * * *
2412052 TTTCTATAATTAGGGATACTCTAACCCCATTA--TTTGAAGG-GATACTCCAACCC--AGTTTCT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTG-AGGAGATACTCCAACCCTGACTTTAT
*
2412112 TT-TCAAAACACCGACT
65 TTCT-AAAACATCGACT
* * *** * *
2412128 TTTC-ACAATCGGGGATACTCCGACCCCATTATTTCCAAAGG-GATACACCAACCCTGGCTTTAT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTT-TTGAGGAGATACTCCAACCCTGACTTTAT
*
2412191 TTCTAAAACATCGATT
65 TTCTAAAACATCGACT
* ** * *
2412207 TTTCT-CCATCGGGGATACTTTAACCCCATTATTTTTGAGGAGATACTCCAACCCTTACTTTATT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
*
2412271 TCTAAAACATTGA-T
66 TCTAAAACATCGACT
* * * * * *
2412285 TTTCTACAATCGGGGACACTCCAACCCCGTTCTTTTTTA-GAGGATACACCAACCCCGA-TTTGT
1 TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGA-GATACTCCAACCCTGACTTTAT
** *
2412348 TTCCCAAACATTGA-T
65 TTCTAAAACATCGACT
* * **
2412363 TTTCCACCATTAGGGATACTCCAACCCCGTT
1 TTTCTACAATCGGGGATACTCCAACCCCGTT
2412394 TTTATCTCCA
Statistics
Matches: 333, Mismatches: 71, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
74 1 0.00
75 36 0.11
76 5 0.02
77 32 0.10
78 101 0.30
79 153 0.46
80 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (80 bp):
TTTCTACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACCCTGACTTTATT
TCTAAAACATCGACT
Found at i:2414853 original size:3 final size:3
Alignment explanation
Indices: 2414845--2414875 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2414835 CGAGTCAACT
*
2414845 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
2414876 TATCTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:2414880 original size:9 final size:9
Alignment explanation
Indices: 2414843--2414881 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
2414833 TTCGAGTCAA
2414843 CTTCATCAT
1 CTTCATCAT
*
2414852 CATCATCAT
1 CTTCATCAT
*
2414861 CATCATCAT
1 CTTCATCAT
*
2414870 CTTCATTAT
1 CTTCATCAT
2414879 CTT
1 CTT
2414882 TGATGGTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTCATCAT
Found at i:2417760 original size:6 final size:6
Alignment explanation
Indices: 2417749--2417799 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
2417739 TATCTGATTA
* * *
2417749 TTAATT TTAATT TTAATT TTGGATT TTTATT TT-ATT TT-ATT TTACTT
1 TTAATT TTAATT TTAATT TT-AATT TTAATT TTAATT TTAATT TTAATT
2417796 TTAA
1 TTAA
2417800 ACTAGCTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 10 0.26
6 24 0.62
7 5 0.13
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:2420183 original size:20 final size:20
Alignment explanation
Indices: 2420158--2420213 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2420148 AATGCATCGT
2420158 TTGTATCGATACATTGCT-CA
1 TTGTATCGATACATT-CTACA
*
2420178 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTCTACA
*
2420198 ATGTATCGATACATTC
1 TTGTATCGATACATTC
2420214 AGGCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTCTACA
Found at i:2424942 original size:15 final size:15
Alignment explanation
Indices: 2424922--2424952 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2424912 TAAAAATGTC
*
2424922 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2424937 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2424952 C
1 C
2424953 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2427054 original size:13 final size:13
Alignment explanation
Indices: 2427036--2427060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2427026 CATTTTTCTT
2427036 TGTATCGATACAA
1 TGTATCGATACAA
2427049 TGTATCGATACA
1 TGTATCGATACA
2427061 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2432449 original size:79 final size:78
Alignment explanation
Indices: 2432285--2432578 Score: 328
Period size: 79 Copynumber: 3.8 Consensus size: 78
2432275 TTTCATCTCC
* ** * * *
2432285 GGGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTT--TAATCGGGGATACTCCAACCC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTTCATAATCGGGGATACTCCACCCC
2432348 C-TTAATTTCCGAG
66 CGTT-ATTTCCGAG
* * * *
2432361 GGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATCAGGAATACTCCACCC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTT-TCATAATCGGGGATACTCCACCC
*
2432426 CCGTTATTTCTGAG
65 CCGTTATTTCCGAG
* *
2432440 AGGATACTCCAACCCC-AGTTTTATTTCTAAAATATCAATTTTTCATAACCGGGGATACTCC-CA
1 GGGATACTCCAACCCCGA-TTTTATTTCTAAAATATCAA-TTTTCATAATCGGGGATACTCCAC-
*
2432503 TCCCGTTATTTCCGAG
63 CCCCGTTATTTCCGAG
* * * * *
2432519 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCAGGGATACTC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATT-TTCATAATCGGGGATACTC
2432579 TAACTCCGAT
Statistics
Matches: 183, Mismatches: 26, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
76 34 0.19
77 1 0.01
78 4 0.02
79 138 0.75
80 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTTCATAATCGGGGATACTCCACCCC
CGTTATTTCCGAG
Found at i:2432571 original size:158 final size:155
Alignment explanation
Indices: 2432286--2432578 Score: 401
Period size: 158 Copynumber: 1.9 Consensus size: 155
2432276 TTCATCTCCG
* *
2432286 GGATACTCCAACCCCGGTTCCATTTCCAAAACATCAATTTTTAATCGGGGATACTCCAACCCCTT
1 GGATACTCCAACCCCAGTTCCATTTCCAAAACATCAATTTTTAACCGGGGATACTCCAACCCCTT
* ** *
2432351 AATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCATAATCAGGAA
66 AATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATCAGGAA
2432416 TACTCCACCCCCGTTATTTCTGAGA
131 TACTCCACCCCCGTTATTTCTGAGA
** * * *
2432441 GGATACTCCAACCCCAGTTTTATTTCTAAAATATCAATTTTTCATAACCGGGGATACTCCCATCC
1 GGATACTCCAACCCCAGTTCCATTTCCAAAACATCAA-TTTT--TAACCGGGGATACT-CCAACC
* *
2432506 CGTT-ATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA-TTCTCCACAATC
62 CCTTAATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCT-CACAATC
*
2432569 AGGGATACTC
126 AGGAATACTC
2432579 TAACTCCGAT
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
155 32 0.27
156 4 0.03
157 4 0.03
158 71 0.60
159 8 0.07
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (155 bp):
GGATACTCCAACCCCAGTTCCATTTCCAAAACATCAATTTTTAACCGGGGATACTCCAACCCCTT
AATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATCAGGAA
TACTCCACCCCCGTTATTTCTGAGA
Found at i:2432595 original size:51 final size:51
Alignment explanation
Indices: 2432519--2432637 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
2432509 TATTTCCGAG
*
2432519 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA-TTCTCCACAATCA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCT-CACAATCA
* * ** *
2432570 GGGATACTCTAACTCCGATTTTATTTCCAAAACACTGATTTCTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCA
2432621 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
2432638 TTATTTCTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
51 55 0.93
52 4 0.07
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCA
Found at i:2432708 original size:51 final size:51
Alignment explanation
Indices: 2432648--2432766 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
2432638 TTATTTCTGA
*** *
2432648 GGGGATACTTCAACCCCGGTTTTATTTCCAAAATATTAATTTTTCACAATC
1 GGGGATACTTCAACCCCGACCTTATTTCCAAAATATTAATTTCTCACAATC
* * * *
2432699 GGGGATACTTCAACCCTGACCTTATTTCTAAAATATTGATTTCTCATAATC
1 GGGGATACTTCAACCCCGACCTTATTTCCAAAATATTAATTTCTCACAATC
* * *
2432750 GGAGACACTACAACCCC
1 GGGGATACTTCAACCCC
2432767 ATTATTTTCA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTTCAACCCCGACCTTATTTCCAAAATATTAATTTCTCACAATC
Found at i:2432862 original size:130 final size:130
Alignment explanation
Indices: 2432441--2432865 Score: 406
Period size: 130 Copynumber: 3.3 Consensus size: 130
2432431 ATTTCTGAGA
* ** * * * * * * * *
2432441 GGATACTCCAACCCC-AGTTTTATTTCTAAAATATCAATTTTTCATAACCGGGGATACTCCCATC
1 GGATACTCCAACCCCGA-TTTTATTTCCAAAATATTGATTTCTCACAATCGGAGACACTACAACC
* * *
2432505 CCGTTATTTC-CGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATC
65 CCATTATTTCTC-AGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATC
*
2432569 AG
129 GG
* * * * * * *
2432571 GGATACTCTAACTCCGATTTTATTTCCAAAACACTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTCTCACAATCGGAGACACTACAACCC
* * * * * * **
2432636 CGTTATTTCTGAGGGGATACTTCAACCCCGGTTTTATTTCCAAAATATTAATTTTTCACAATCGG
66 CATTATTTCTCAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGG
* * ** * *
2432701 GGATACTTCAACCCTGACCTTATTTCTAAAATATTGATTTCTCATAATCGGAGACACTACAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTCTCACAATCGGAGACACTACAACCC
* * * * *
2432766 CATTATTT-TCACGGGGATACCCCAATCCCGATTTTATTTTTAGAACACCAATTTTTCATAATCG
66 CATTATTTCTCA-GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCG
2432830 G
130 G
* * *
2432831 GGATACTCCAGCCCCGTTTTTATCTCCAAAATATT
1 GGATACTCCAACCCCGATTTTATTTCCAAAATATT
2432866 AAATTTTTCA
Statistics
Matches: 236, Mismatches: 56, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
129 2 0.01
130 233 0.99
131 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (130 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTCTCACAATCGGAGACACTACAACCC
CATTATTTCTCAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGG
Found at i:2434149 original size:75 final size:76
Alignment explanation
Indices: 2434059--2434228 Score: 218
Period size: 75 Copynumber: 2.2 Consensus size: 76
2434049 AGCTGTTATG
* * *
2434059 AAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCTTTTATCCTGTTATTAGTTTATTTC
1 AAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCCTTAAACCTGTTATTAGTTTATTTC
2434124 G-GCTATTAAT-
66 GAG-TATTAATA
* ** * *
2434134 AAAATTTTAGAAACCATATATTCCCCATCATGTTTTTTTCCTTAAACTTGTTATTAGTTTGTTTC
1 AAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCCTTAAACCTGTTATTAGTTTATTTC
* *
2434199 GAGTGTTGATA
66 GAGTATTAATA
*
2434210 AAAATTTTAGAAACAACAT
1 AAAATTTTAGAAACCACAT
2434229 TGTAGACACT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
75 63 0.78
76 18 0.22
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (76 bp):
AAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCCTTAAACCTGTTATTAGTTTATTTC
GAGTATTAATA
Found at i:2435137 original size:52 final size:52
Alignment explanation
Indices: 2435009--2435129 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2434999 CCCTGATCTT
*
2435009 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2435061 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2435113 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2435130 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2438364 original size:76 final size:74
Alignment explanation
Indices: 2438234--2438379 Score: 213
Period size: 76 Copynumber: 1.9 Consensus size: 74
2438224 TACGACAAAC
*
2438234 ATATTCCCCATCATGTTCTTTCTCTTCAGCTTATTATTAGTTTGTTTCGATTGTTAATAAAAATT
1 ATATTCCCCATCATGTTCTTTCTCTTCAGCTTATTATCAGTTTGTTTCGATTGTTAA-AAAAA-T
2438299 TTAGAAATGAA
64 TTAGAAATGAA
* * * *
2438310 ATATTCCCCATCGTGTTCCTTTCT-TTCAGCTTGTTATCAGTTTGTTTTGGTTGTTAAAAAAATT
1 ATATTCCCCATCATGTT-CTTTCTCTTCAGCTTATTATCAGTTTGTTTCGATTGTTAAAAAAATT
2438374 TAGAAA
65 TAGAAA
2438380 CCACAAATTC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 8 0.12
75 5 0.08
76 45 0.70
77 6 0.09
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (74 bp):
ATATTCCCCATCATGTTCTTTCTCTTCAGCTTATTATCAGTTTGTTTCGATTGTTAAAAAAATTT
AGAAATGAA
Found at i:2438417 original size:74 final size:76
Alignment explanation
Indices: 2438234--2438438 Score: 215
Period size: 74 Copynumber: 2.7 Consensus size: 76
2438224 TACGACAAAC
* * * *
2438234 ATATTCCCCATCATGTT-CTTTCTCTTCAGCTTATTATTAGTTTGTTTCGATTGTTAATAAAAAT
1 ATATTCCCCATCGTGTTCCTTTCT-TTCAACTTGTTATCAGTTTGTTTCGATTGTTAATAAAAAT
**
2438298 TTTAGAAATGAA
65 TTTAGAAACCAA
* * *
2438310 ATATTCCCCATCGTGTTCCTTTCTTTCAGCTTGTTATCAGTTTGTTTTGGTTGTTAA-AAAAA-T
1 ATATTCCCCATCGTGTTCCTTTCTTTCAACTTGTTATCAGTTTGTTTCGATTGTTAATAAAAATT
2438373 TTAGAAACCACA
66 TTAGAAACCA-A
* * * *
2438385 A-ATTCCCTATTGTGTT-C-TTCTTTTCCAACTTGTCATCAGCTTGTTTCGATTGTT
1 ATATTCCCCATCGTGTTCCTTTC-TTT-CAACTTGTTATCAGTTTGTTTCGATTGTT
2438439 GATAGGAAAT
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
72 3 0.03
73 4 0.04
74 46 0.41
75 7 0.06
76 45 0.41
77 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (76 bp):
ATATTCCCCATCGTGTTCCTTTCTTTCAACTTGTTATCAGTTTGTTTCGATTGTTAATAAAAATT
TTAGAAACCAA
Found at i:2439281 original size:41 final size:41
Alignment explanation
Indices: 2439151--2439343 Score: 133
Period size: 41 Copynumber: 4.7 Consensus size: 41
2439141 TTCATCTTGA
* * *
2439151 TCAACCCCTCTAATTGGTTGACTTTATTAGTTTTGCCCTAA
1 TCAACCCCTCTAATTAGTTGACTTTATTAGTTTCGCCCTAG
* * * * * *
2439192 TCAACCCCTCAAATCACTA-TTGGCTATATTAGTTTCACCATGG
1 TCAACCCCTCTAAT---TAGTTGACTTTATTAGTTTCGCCCTAG
* * *
2439235 CCAACCCCTCTAATTAGTTAACTTTATTGGTTTCGCCCTAG
1 TCAACCCCTCTAATTAGTTGACTTTATTAGTTTCGCCCTAG
* * * * * *
2439276 TCAACCCCCCAAATCTA-TT-AGCTTTATCAATTTTGCCCTGG
1 TCAACCCCTCTAAT-TAGTTGA-CTTTATTAGTTTCGCCCTAG
*
2439317 TTAACCCCTCTAACTT-GTTGACTTTAT
1 TCAACCCCTCTAA-TTAGTTGACTTTAT
2439344 CGATTTCAAT
Statistics
Matches: 114, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
40 3 0.03
41 77 0.68
42 4 0.04
43 29 0.25
44 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (41 bp):
TCAACCCCTCTAATTAGTTGACTTTATTAGTTTCGCCCTAG
Found at i:2439563 original size:73 final size:74
Alignment explanation
Indices: 2439477--2439614 Score: 192
Period size: 73 Copynumber: 1.9 Consensus size: 74
2439467 TGCTTTAGCC
2439477 AACCCCTCTAATTGATTAACTTTAGCAGTTTCT-CGC-TAGTCAACACCTCAAATCTATTGG-TT
1 AACCCCTCTAATTGATTAACTTTAGCAGTTT-TGC-CTTAGTCAACACCTCAAATCTATTGGCTT
2439539 TAACCATGGCT
64 TAACCATGGCT
* * * * *
2439550 AACCCCTCTAATTGGTTGACTTTATCAGTTTTGCCTTGGTCAACCCCTCAAATCTATTGGCTTTA
1 AACCCCTCTAATTGATTAACTTTAGCAGTTTTGCCTTAGTCAACACCTCAAATCTATTGGCTTTA
2439615 CCAATTTCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
72 2 0.04
73 51 0.89
74 4 0.07
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (74 bp):
AACCCCTCTAATTGATTAACTTTAGCAGTTTTGCCTTAGTCAACACCTCAAATCTATTGGCTTTA
ACCATGGCT
Found at i:2439729 original size:41 final size:41
Alignment explanation
Indices: 2439679--2440335 Score: 308
Period size: 41 Copynumber: 16.0 Consensus size: 41
2439669 CCTCTATTTG
*
2439679 GTTGACTTTATTGGTTTCACCTTAGTCAACCCCTCAAATCT
1 GTTGACTTTATTAGTTTCACCTTAGTCAACCCCTCAAATCT
* * * * *
2439720 ATT-AGCTTTATTAGTTTCACCTT-GGCTAAACCTTCTAAT-T
1 GTTGA-CTTTATTAGTTTCACCTTAGTC-AACCCCTCAAATCT
* *
2439760 GGTTGACTTTATT-GATTTCACCCTAGTCAACCTCTCAAATCT
1 -GTTGACTTTATTAG-TTTCACCTTAGTCAACCCCTCAAATCT
* * * * *
2439802 GTTGCCTTTATCAATTTCACCTT-GTCCAACCCGTCTAAT-T
1 GTTGACTTTATTAGTTTCACCTTAGT-CAACCCCTCAAATCT
* * * *
2439842 GCTTGATTTTA-TA-TGTTCACCTTGGTCAACCCCTTAAATAT
1 G-TTGACTTTATTAGT-TTCACCTTAGTCAACCCCTCAAATCT
* * ** * **
2439883 GTTGGCTTTA-TCGATTTTGCCTTAGCCAACCCCTTTAAT-T
1 GTTGACTTTATTAG-TTTCACCTTAGTCAACCCCTCAAATCT
* * ** * *
2439923 GGTTGACTTTATCAATTTTGCCTTGGTCAACCCCTTAAATCTT
1 -GTTGACTTTATTAGTTTCACCTTAGTCAACCCCTCAAATC-T
* ** * *
2439966 TTTGGGTTTATTAGTTTCACCCTAGTTAACCCCTCAAATCT
1 GTTGACTTTATTAGTTTCACCTTAGTCAACCCCTCAAATCT
* * * * * *
2440007 ATTGACTTTATTGGTTTCATCTT-GCCAACCTCTCTAAAT-G
1 GTTGACTTTATTAGTTTCACCTTAGTCAACCCCTC-AAATCT
* * * * * * *
2440047 GTTGACTTTATCAATTTTACCCTAGTTGACCCCGCTAAAATCT
1 GTTGACTTTATTAGTTTCACCTTAG-TCAACCC-CTCAAATCT
* * * *
2440090 GTTGACTTTA-TCGCTTTCGCCTTAGTCAACCTCTCTAAT-T
1 GTTGACTTTATTAG-TTTCACCTTAGTCAACCCCTCAAATCT
* * *
2440130 GGTTAACTTTATTAGTTTCACC---GTGAACCCTTCAAATCT
1 -GTTGACTTTATTAGTTTCACCTTAGTCAACCCCTCAAATCT
* * * * *
2440169 ATTGGTCTTTATCAGTTTCACCATAGTTAACCCCTCAAATCT
1 GTT-GACTTTATTAGTTTCACCTTAGTCAACCCCTCAAATCT
* * * *
2440211 GTT-AGCTTTATTGGTTTCACCCTAGCCAACTCCTTCAAATCT
1 GTTGA-CTTTATTAGTTTCACCTTAGTCAAC-CCCTCAAATCT
* * ** * * * * *
2440253 ATTGGCTTTATTAGTTTTTCCCTAGCCAATCCATCTAAT-T
1 GTTGACTTTATTAGTTTCACCTTAGTCAACCCCTCAAATCT
* * * *
2440293 GGTTGACTTTATTGGTTTTACCTTGGTCAAATCCCTCAAATCT
1 -GTTGACTTTATTAGTTTCACCTTAGTC-AACCCCTCAAATCT
2440336 ATTAGCATTT
Statistics
Matches: 454, Mismatches: 124, Indels: 74
0.70 0.19 0.11
Matches are distributed among these distances:
38 13 0.03
39 17 0.04
40 63 0.14
41 232 0.51
42 107 0.24
43 22 0.05
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (41 bp):
GTTGACTTTATTAGTTTCACCTTAGTCAACCCCTCAAATCT
Found at i:2440088 original size:83 final size:82
Alignment explanation
Indices: 2439984--2440141 Score: 201
Period size: 83 Copynumber: 1.9 Consensus size: 82
2439974 TATTAGTTTC
* * * *
2439984 ACCCTAGTTAACCCCTCAAATCTATTGACTTTATTGGTTTCATCTT-GCCAACCTCTCTAAATGG
1 ACCCTAGTTAACCCCTAAAATCTATTGACTTTATCGCTTTCACCTTAGCCAACCTCTCTAAATGG
*
2440048 TTGACTTTATCAATTTT
66 TTAACTTTATCAATTTT
* * * * *
2440065 ACCCTAGTTGACCCCGCTAAAATCTGTTGACTTTATCGCTTTCGCCTTAGTCAACCTCTCTAATT
1 ACCCTAGTT-AACCC-CTAAAATCTATTGACTTTATCGCTTTCACCTTAGCCAACCTCTCTAAAT
2440130 GGTTAACTTTAT
64 GGTTAACTTTAT
2440142 TAGTTTCACC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 9 0.14
82 4 0.06
83 26 0.41
84 25 0.39
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.39
Consensus pattern (82 bp):
ACCCTAGTTAACCCCTAAAATCTATTGACTTTATCGCTTTCACCTTAGCCAACCTCTCTAAATGG
TTAACTTTATCAATTTT
Found at i:2440276 original size:42 final size:41
Alignment explanation
Indices: 2440136--2440281 Score: 154
Period size: 42 Copynumber: 3.6 Consensus size: 41
2440126 AATTGGTTAA
*
2440136 CTTTATTAGTTTCACCGT-G--AACCCTTCAAATCTATTGG
1 CTTTATTAGTTTCACCCTAGCCAACCCTTCAAATCTATTGG
* * ** * * *
2440174 TCTTTATCAGTTTCACCATAGTTAACCCCTCAAATCTGTTAG
1 -CTTTATTAGTTTCACCCTAGCCAACCCTTCAAATCTATTGG
*
2440216 CTTTATTGGTTTCACCCTAGCCAACTCCTTCAAATCTATTGG
1 CTTTATTAGTTTCACCCTAGCCAAC-CCTTCAAATCTATTGG
**
2440258 CTTTATTAGTTTTTCCCTAGCCAA
1 CTTTATTAGTTTCACCCTAGCCAA
2440282 TCCATCTAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
39 16 0.18
40 1 0.01
41 20 0.23
42 50 0.57
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (41 bp):
CTTTATTAGTTTCACCCTAGCCAACCCTTCAAATCTATTGG
Found at i:2440303 original size:83 final size:81
Alignment explanation
Indices: 2440123--2440338 Score: 197
Period size: 83 Copynumber: 2.6 Consensus size: 81
2440113 AGTCAACCTC
* *
2440123 TCTAATTGGTTAACTTTATTAGTTTCACCGTG-AAC-CCTTCAAATCTATTGGTCTTTATCAGTT
1 TCTAATTGGTT-ACTTTATTGGTTTCACCCTGCAACTCCTTCAAATCTATTGGTCTTTATCAGTT
** *
2440186 TCACCATAGTTAACCCC
65 TCACCATAGCCAACCCA
* *
2440203 TCAAATCT-GTTAGCTTTATTGGTTTCACCCTAGCCAACTCCTTCAAATCTATTGG-CTTTATTA
1 TCTAAT-TGGTTA-CTTTATTGGTTTCACCCT-G-CAACTCCTTCAAATCTATTGGTCTTTATCA
** * *
2440266 GTTTTTCCCTAGCCAATCCA
62 GTTTCACCATAGCCAACCCA
* * * *
2440286 TCTAATTGGTTGACTTTATTGGTTTTACCTTGGTCAAATCCCTCAAATCTATT
1 TCTAATTGGTT-ACTTTATTGGTTTCACCCT-G-CAACTCCTTCAAATCTATT
2440339 AGCATTTTCG
Statistics
Matches: 110, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
79 1 0.01
80 24 0.22
81 2 0.02
82 1 0.01
83 65 0.59
84 17 0.15
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (81 bp):
TCTAATTGGTTACTTTATTGGTTTCACCCTGCAACTCCTTCAAATCTATTGGTCTTTATCAGTTT
CACCATAGCCAACCCA
Found at i:2440609 original size:41 final size:40
Alignment explanation
Indices: 2440377--2441053 Score: 231
Period size: 41 Copynumber: 16.6 Consensus size: 40
2440367 ACTTTAATTG
* * * * * *
2440377 GTTGACTTTATCGATTTTTCCTTAGCCAACCCCTCAAATTT
1 GTTGACTTTATTGATTTTGCCCTAGTCAA-CCCTCTAACTT
* * ** *
2440418 GTTGGCTTTGTTGGCTTTGCCCTAG-CTAACCCACTAACTT
1 GTTGACTTTATTGATTTTGCCCTAGTC-AACCCTCTAACTT
** * * *
2440458 AATGTCTTTATTGGTTTTGCCCT-GACCAACCCCTCTAACTT
1 GTTGACTTTATTGATTTTGCCCTAG-TCAA-CCCTCTAACTT
* * * * * *
2440499 GTTGACTTTATCGGTTTTACCTTAGTCGACCCCCTTAACTT
1 GTTGACTTTATTGATTTTGCCCTAGTCAACCCTC-TAACTT
* * * * *
2440540 GTTGATTTTATTAATTTCGCCCTGGTCAACCACTCTAACTG
1 GTTGACTTTATTGATTTTGCCCTAGTCAACC-CTCTAACTT
* * *
2440581 GTTGACGTTATTGATTTTGCCCTAGTCAACCCTTTTAATTT
1 GTTGACTTTATTGATTTTGCCCTAGTCAACCC-TCTAACTT
** * *
2440622 GTT-AGCTTTATCAATTTTGCCCTTGTCAACCC-CTTAAATCT
1 GTTGA-CTTTATTGATTTTGCCCTAGTCAACCCTC-TAACT-T
* * * *
2440663 GTTGATTTTA-TCAGTTT-CACTCTTGTCAACCCTTCTAA-TT
1 GTTGACTTTATTGATTTTGC-C-CTAGTCAACCC-TCTAACTT
* * * * * *
2440703 AGTTGACTTTATTGGTTTCG-TCTAAGTCAACCTTTCAAATTT
1 -GTTGACTTTATTGATTTTGCCCT-AGTCAACC-CTCTAACTT
* * * *
2440745 GTTGATTTTATCGATTTTGCCCTTGTCAACCACT-TAAATCT
1 GTTGACTTTATTGATTTTGCCCTAGTCAACC-CTCTAACT-T
** ** * *
2440786 GTTTG-CTTTATCAATTTCACCCT-GGCAACCCCTTTAA-TT
1 G-TTGACTTTATTGATTTTGCCCTAGTCAA-CCCTCTAACTT
* * * * *
2440825 GGTTGACTTTATTGATTTTACCTTGGTCAACCTATCTAACAT
1 -GTTGACTTTATTGATTTTGCCCTAGTCAACC-CTCTAACTT
* *
2440867 GTTGGCTTTA-TGATTTTGCCCTAGCCAACCCCTCTAA-TT
1 GTTGACTTTATTGATTTTGCCCTAGTCAA-CCCTCTAACTT
* * * * *
2440906 GGTTGGCTTTATCGGTTTCGCCCTAG-CTAACCCTTCTACCTT
1 -GTTGACTTTATTGATTTTGCCCTAGTC-AACCC-TCTAACTT
* * * *
2440948 ATTGATTTTATCGATTTCGCCCT-GCTCAACCC-CTAACTT
1 GTTGACTTTATTGATTTTGCCCTAG-TCAACCCTCTAACTT
* ** * * * *
2440987 ATTGGTTTTA-TCAGTTT-CACCATAGCCAACCCCTCTGACTT
1 GTTGACTTTATTGATTTTGC-CC-TAGTCAA-CCCTCTAACTT
* * *
2441028 GTTGACTTTATAGGTTTTTCCCTAGT
1 GTTGACTTTATTGATTTTGCCCTAGT
2441054 TAATTTTACT
Statistics
Matches: 472, Mismatches: 117, Indels: 94
0.69 0.17 0.14
Matches are distributed among these distances:
37 1 0.00
38 5 0.01
39 26 0.06
40 112 0.24
41 300 0.64
42 26 0.06
43 2 0.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.42
Consensus pattern (40 bp):
GTTGACTTTATTGATTTTGCCCTAGTCAACCCTCTAACTT
Found at i:2440624 original size:123 final size:122
Alignment explanation
Indices: 2440463--2440899 Score: 390
Period size: 123 Copynumber: 3.6 Consensus size: 122
2440453 AACTTAATGT
* * * * * * *
2440463 CTTTATTGGTTTTGCCCT-GACCAACCCCTCTAACTTGTTGACTTTATCGGTTTT-ACCTTAGTC
1 CTTTATTGATTTTGCCCTAG-TCAACCCTTTTAATTTGTTGACTTTATCGATTTTGCCCTT-GTC
* * * * *
2440526 GACCCCCTTAACT-TGTTGATTTTATTAATTTCGCCCTGGTCAACCACTCTAACTGGTTGA
64 -AACCCCTTAAATCTGTTGATTTTATCAATTTCACCCTGGTCAACC-CTCTAATTGGTTGA
* *
2440586 CGTTATTGATTTTGCCCTAGTCAACCCTTTTAATTTGTT-AGCTTTATCAATTTTGCCCTTGTCA
1 CTTTATTGATTTTGCCCTAGTCAACCCTTTTAATTTGTTGA-CTTTATCGATTTTGCCCTTGTCA
* * * *
2440650 ACCCCTTAAATCTGTTGATTTTATCAGTTTCACTCTTGTCAACCCTTCTAATTAGTTGA
65 ACCCCTTAAATCTGTTGATTTTATCAATTTCACCCTGGTCAACCC-TCTAATTGGTTGA
* * * * *
2440709 CTTTATTGGTTTCG-TCTAAGTCAA-CCTTTCAAATTTGTTGATTTTATCGATTTTGCCCTTGTC
1 CTTTATTGATTTTGCCCT-AGTCAACCCTTT-TAATTTGTTGACTTTATCGATTTTGCCCTTGTC
* * *
2440772 AACCACTTAAATCTGTTTG-CTTTATCAATTTCACCCTGG-CAACCCCTTTAATTGGTTGA
64 AACCCCTTAAATCTG-TTGATTTTATCAATTTCACCCTGGTCAA-CCCTCTAATTGGTTGA
* * * * ** * * *
2440831 CTTTATTGATTTTACCTTGGTCAA-CCTATCTAACATGTTGGCTTTAT-GATTTTGCCCTAGCCA
1 CTTTATTGATTTTGCCCTAGTCAACCCT-TTTAATTTGTTGACTTTATCGATTTTGCCCTTGTCA
2440894 ACCCCT
65 ACCCCT
2440900 CTAATTGGTT
Statistics
Matches: 255, Mismatches: 47, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
121 19 0.07
122 64 0.25
123 163 0.64
124 9 0.04
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (122 bp):
CTTTATTGATTTTGCCCTAGTCAACCCTTTTAATTTGTTGACTTTATCGATTTTGCCCTTGTCAA
CCCCTTAAATCTGTTGATTTTATCAATTTCACCCTGGTCAACCCTCTAATTGGTTGA
Found at i:2441038 original size:80 final size:81
Alignment explanation
Indices: 2440866--2441038 Score: 176
Period size: 80 Copynumber: 2.1 Consensus size: 81
2440856 CTATCTAACA
* * * * * *
2440866 TGTTGGCTTTATGATTTTGCCCTAGCCAACCCCTCTAATTGGTTGGCTTTATCGGTTTCGCCCTA
1 TGTTGACTTTATGATTTCGCCCTAGCCAACCCCTCTAATTGATTGGCTTTATCAGTTTCACCATA
* *
2440931 GCTAACCCTTCTACCT
66 GCCAACCCCTCTACCT
* * *
2440947 TATTGATTTTATCGATTTCGCCCT-GCTCAA-CCC-CTAACTT-ATTGGTTTTATCAGTTTCACC
1 TGTTGACTTTAT-GATTTCGCCCTAGC-CAACCCCTCTAA-TTGATTGGCTTTATCAGTTTCACC
2441008 ATAGCCAACCCCTCTGA-CT
63 ATAGCCAACCCCTCT-ACCT
2441027 TGTTGACTTTAT
1 TGTTGACTTTAT
2441039 AGGTTTTTCC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
80 45 0.60
81 17 0.23
82 13 0.17
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.39
Consensus pattern (81 bp):
TGTTGACTTTATGATTTCGCCCTAGCCAACCCCTCTAATTGATTGGCTTTATCAGTTTCACCATA
GCCAACCCCTCTACCT
Found at i:2442287 original size:11 final size:11
Alignment explanation
Indices: 2442250--2442300 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
2442240 TGATTATTCA
*
2442250 TTTTAGTTTTCT
1 TTTTA-TTTTAT
*
2442262 TTTAATTTTGGAT
1 TTTTATTTT--AT
2442275 TTTTATTTTA-
1 TTTTATTTTAT
2442285 TTTTATTTTAT
1 TTTTATTTTAT
2442296 TTTTA
1 TTTTA
2442301 AACTAGTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 10 0.30
11 10 0.30
12 4 0.12
13 9 0.27
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.75
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:2443230 original size:155 final size:155
Alignment explanation
Indices: 2442955--2443235 Score: 406
Period size: 155 Copynumber: 1.8 Consensus size: 155
2442945 GCAATTTTAT
*
2442955 AAAGTTTAAGGACTAAATTGCAAAAAGTTTAAATTTTTTTGTTTGAGTATCCTTGCTTGACTGAG
1 AAAGTTTAAGGACTAAATTGCAAAAAGTTTAAATTTTTTTCTTTGAGTATCCTTGCTTGACTGAG
* * ** * *
2443020 AGTCCTTTATGCCATAAAAGGGTTGTTTCATGCATTATTAAACATATTTGAGGCTTTTTAACATG
66 AGTCCTGTATACCATAAAAGGACTATTTCACGCATTATTAAACATATTTGAGGCTTTTTAACATG
2443085 TTAGGGACCTTTTTATAAATTTAAG
131 TTAGGGACCTTTTTATAAATTTAAG
*
2443110 AAAGTTTAAGGACTAAATTG-AAAAACGTTTTAAATTTTTTTCTTTGAGTATCCTTGCTTGGCTG
1 AAAGTTTAAGGACTAAATTGCAAAAA-G-TTTAAATTTTTTTCTTTGAGTATCCTTGCTTGACTG
* * **
2443174 AGAGTCC-GTAGTACCAT-AGAGGACTATTTCACGTATTATTAAACATATTTTTGGCTTTTTAA
64 AGAGTCCTGTA-TACCATAAAAGGACTATTTCACGCATTATTAAACATATTTGAGGCTTTTTAA
2443236 TATGGCAAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
154 5 0.05
155 60 0.54
156 46 0.41
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.41
Consensus pattern (155 bp):
AAAGTTTAAGGACTAAATTGCAAAAAGTTTAAATTTTTTTCTTTGAGTATCCTTGCTTGACTGAG
AGTCCTGTATACCATAAAAGGACTATTTCACGCATTATTAAACATATTTGAGGCTTTTTAACATG
TTAGGGACCTTTTTATAAATTTAAG
Found at i:2443260 original size:155 final size:155
Alignment explanation
Indices: 2442947--2443289 Score: 401
Period size: 155 Copynumber: 2.2 Consensus size: 155
2442937 GCTATTTTGC
* *
2442947 AATTTTATAAAGTTTAAGGACTAAATTGCAAAAAGTTTAAATTTTTTTGTTTGAGTATCCTTGCT
1 AATTTTAAAAAGTTTAAGGACTAAATTGCAAAAAGTTTAAATTTTTTTCTTTGAGTATCCTTGCT
* * ** * *
2443012 TGACTGAGAGTCCTTTATGCCATAAAAGGGTTGTTTCATGCATTATTAAACATATTTGAGGCTTT
66 TGACTGAGAGTCCTGTATACCATAAAAGGACTATTTCACGCATTATTAAACATATTTGAGGCTTT
** * * * *
2443077 TTAACATGTTAGGGACCTTTTTATA
131 TTAACATGGCAAGGAACATTTTAGA
2443102 AA-TTTAAGAAAGTTTAAGGACTAAATTG-AAAAACGTTTTAAATTTTTTTCTTTGAGTATCCTT
1 AATTTTAA-AAAGTTTAAGGACTAAATTGCAAAAA-G-TTTAAATTTTTTTCTTTGAGTATCCTT
* * * **
2443165 GCTTGGCTGAGAGTCC-GTAGTACCAT-AGAGGACTATTTCACGTATTATTAAACATATTTTTGG
63 GCTTGACTGAGAGTCCTGTA-TACCATAAAAGGACTATTTCACGCATTATTAAACATATTTGAGG
* *
2443228 CTTTTTAATATGGCAAGGAACATTTTGGA
127 CTTTTTAACATGGCAAGGAACATTTTAGA
2443257 AATTTTAAAAAG-TTAAGAGACT-AATGTGCAAAA
1 AATTTTAAAAAGTTTAAG-GACTAAAT-TGCAAAA
2443290 TTTGAAAAAA
Statistics
Matches: 159, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
154 17 0.11
155 87 0.55
156 55 0.35
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (155 bp):
AATTTTAAAAAGTTTAAGGACTAAATTGCAAAAAGTTTAAATTTTTTTCTTTGAGTATCCTTGCT
TGACTGAGAGTCCTGTATACCATAAAAGGACTATTTCACGCATTATTAAACATATTTGAGGCTTT
TTAACATGGCAAGGAACATTTTAGA
Found at i:2444464 original size:154 final size:152
Alignment explanation
Indices: 2444150--2444507 Score: 341
Period size: 154 Copynumber: 2.3 Consensus size: 152
2444140 CTTTTCATTT
* * * * * *
2444150 TATTTTCATGTCCTTTAGGGTTACTGAGTACTTTTATGTCGAAAGTATACATTAGGCACATTTTG
1 TATTTTCATGTCATTTAGGATTACTGAGAACTTTCATGTCGAAAGTATACACTAAGCACATTTTG
* * * *
2444215 GTACTTTTCCTTAGAATCAAATCCTGGGTCCCCATCAGGTCACTTTTGTACCAAAGGTATATATT
66 GTACTTTTCCTTAAAATCAAATCCTGGGTCACCAT-A-GTCACTTTTATACCAAAGGTATACATT
* *
2444280 TAGGATAGGTTTATCATTTTATAA
129 TAAGATAGGTTCATCATTTTATAA
* * * *
2444304 TATTTTCATGTCTTTTAGGATTACTGGGAACTTTCATGTCGAAGGTATACCCTAAGCACATTTTG
1 TATTTTCATGTCATTTAGGATTACTGAGAACTTTCATGTCGAAAGTATACACTAAGCACATTTTG
* * * * * *
2444369 GTAATTTTTCC-TAAAATCAAGTTCTAGTTGTCACCAT-GTCACTTTTATGCCAAAGGTGT-CAT
66 GT-ACTTTTCCTTAAAATCAAATCCT-G-GGTCACCATAGTCACTTTTATACCAAAGGTATACAT
* *
2444431 TTAAGATAGGTTCATCCTTTTACTTA
128 TTAAGATAGGTTCATCATTTTA-TAA
* * *
2444457 TCGTTTTCATGTCATTTAAGG--TAC-GATGATACTTTCACGTTGAAAGTATAC
1 T-ATTTTCATGTCATTT-AGGATTACTGA-GA-ACTTTCATGTCGAAAGTATAC
2444508 TTTAGAGGTA
Statistics
Matches: 167, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
152 22 0.13
153 27 0.16
154 100 0.60
155 11 0.07
156 7 0.04
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (152 bp):
TATTTTCATGTCATTTAGGATTACTGAGAACTTTCATGTCGAAAGTATACACTAAGCACATTTTG
GTACTTTTCCTTAAAATCAAATCCTGGGTCACCATAGTCACTTTTATACCAAAGGTATACATTTA
AGATAGGTTCATCATTTTATAA
Found at i:2449026 original size:16 final size:16
Alignment explanation
Indices: 2449005--2449035 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2448995 TACAAAGATC
2449005 AATGTATCGATACATA
1 AATGTATCGATACATA
2449021 AATGTATCGATACAT
1 AATGTATCGATACAT
2449036 TTCCTTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (16 bp):
AATGTATCGATACATA
Found at i:2449178 original size:21 final size:20
Alignment explanation
Indices: 2449154--2449193 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
2449144 TGTTGGGACC
2449154 TTGTATCGATACATTCTAGAA
1 TTGTATCGATACATT-TAGAA
2449175 TTGTATCGATACATTTAGA
1 TTGTATCGATACATTTAGA
2449194 CAAAAATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATTTAGAA
Found at i:2451877 original size:37 final size:37
Alignment explanation
Indices: 2451836--2451917 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
2451826 TAATTAAATT
*
2451836 CCTAACTTTTAGGAA-GCTTGTCTTAAATTA-GACATTG
1 CCTAACTTTTA-GAATGCTTGTCTT-AATTAGGACATTA
*
2451873 CCTAACTTTTAGAATGTTTGTCTTAATTAGGACATTA
1 CCTAACTTTTAGAATGCTTGTCTTAATTAGGACATTA
*
2451910 TCTAACTT
1 CCTAACTT
2451918 CTACATAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 8 0.20
37 32 0.80
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (37 bp):
CCTAACTTTTAGAATGCTTGTCTTAATTAGGACATTA
Found at i:2456225 original size:20 final size:20
Alignment explanation
Indices: 2456200--2456237 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2456190 AGGTCAAAAC
2456200 CCTAGAAGTATCGATACAAG
1 CCTAGAAGTATCGATACAAG
2456220 CCTAGAAGTATCGATACA
1 CCTAGAAGTATCGATACA
2456238 TATTGCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
CCTAGAAGTATCGATACAAG
Found at i:2458432 original size:15 final size:15
Alignment explanation
Indices: 2458400--2458439 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2458390 ATAAATAAAT
2458400 AATTGTTGAAAATGA
1 AATTGTTGAAAATGA
*
2458415 AATTCTTGAAAA-GAA
1 AATTGTTGAAAATG-A
2458430 AATTGTTGAA
1 AATTGTTGAA
2458440 CTAGAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (15 bp):
AATTGTTGAAAATGA
Found at i:2459136 original size:18 final size:18
Alignment explanation
Indices: 2459113--2459148 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2459103 GATAAAGTGT
2459113 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
2459131 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
2459149 AAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (18 bp):
TTGAAAAAAAAAAAAAAA
Found at i:2459180 original size:21 final size:21
Alignment explanation
Indices: 2459156--2459212 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2459146 AAAAAATTTA
2459156 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2459177 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2459198 AATGTATCGATACAT
1 AATGTATCGATACAT
2459213 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2459292 original size:19 final size:19
Alignment explanation
Indices: 2459268--2459335 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2459258 AATTCAACAA
2459268 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2459287 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2459302 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2459319 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2459336 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2459307 original size:13 final size:13
Alignment explanation
Indices: 2459289--2459313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2459279 ACATAAGTTT
2459289 TGTATCGATACAA
1 TGTATCGATACAA
2459302 TGTATCGATACA
1 TGTATCGATACA
2459314 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2459311 original size:32 final size:32
Alignment explanation
Indices: 2459270--2459332 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2459260 TTCAACAATT
*
2459270 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2459302 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2459333 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2459393 original size:13 final size:13
Alignment explanation
Indices: 2459375--2459400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2459365 CATTTTTCTG
2459375 TGTATCGATACAT
1 TGTATCGATACAT
2459388 TGTATCGATACAT
1 TGTATCGATACAT
2459401 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2459397 original size:33 final size:33
Alignment explanation
Indices: 2459355--2459421 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2459345 GCCAAGGAAA
***
2459355 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2459388 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2459421 T
1 T
2459422 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2461933 original size:27 final size:27
Alignment explanation
Indices: 2461876--2461946 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
2461866 CTTCACAATC
* **
2461876 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
** *
2461903 GGGGATACTCCAACCCCGTTTTTCCGA
1 GGGGATACTCCAACCCCGTTAATCAGA
2461930 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
2461947 AGCTTTATTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.37, G:0.21, T:0.20
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:2462049 original size:78 final size:79
Alignment explanation
Indices: 2461902--2462102 Score: 237
Period size: 78 Copynumber: 2.6 Consensus size: 79
2461892 CGTTAATCAT
* *
2461902 CGGGGATACTCCAACCCCGTT-TTTCCGAGGGGATACTCCAACCCCAGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGATTTATTCCCAAAATAT
* * *
2461966 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
2461980 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGATTTATTCCCAAAAT-A
2462043 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
2462058 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
2462103 TGTTATTATC
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
77 3 0.03
78 79 0.76
79 22 0.21
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:2466629 original size:13 final size:13
Alignment explanation
Indices: 2466611--2466636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2466601 ATAAGGATCT
2466611 TTTTATCGATACA
1 TTTTATCGATACA
2466624 TTTTATCGATACA
1 TTTTATCGATACA
2466637 AGAGGTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTTATCGATACA
Found at i:2469175 original size:13 final size:13
Alignment explanation
Indices: 2469157--2469183 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2469147 TATTATTGCT
2469157 TTGTATCGATACA
1 TTGTATCGATACA
2469170 TTGTATCGATACA
1 TTGTATCGATACA
2469183 T
1 T
2469184 GAAACTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2472498 original size:164 final size:165
Alignment explanation
Indices: 2472207--2472606 Score: 526
Period size: 164 Copynumber: 2.4 Consensus size: 165
2472197 TTTGAACACC
* *
2472207 AAAATTCTTTAAATATTATTATTTAATATAAATTAAATCAGTTTTC-AAAATTCATTCATTTT-A
1 AAAATTCATAAAATATTATTATTTAAT-TAAATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * * *
2472270 -TAAGTTTTTCATTTTTTTCTGAATTTTTTTTATTTTTGAAATACGGAGTTTTCTAGTCCGTAAA
65 TTAAGTTTTTCATTTTTCTCTGAAATTCTTTTATTTTTGAAATACGGAGTTTCCTACTCCGTAAA
* *
2472334 TATTTTTCGAGAGATTTTTCTTGGTTTGTAATTTTT
130 TATTTTTAGAGAGATTTTTCTTAGTTTGTAATTTTT
* * * *
2472370 -AAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTCAAAAAGTCATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTAATT-AAATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* *
2472434 TTCA-TTTTTCATTTTTC-CTTGAAATTCTTTTATTTTTGAAATACGGAGTTTCCTACTTCGTAA
65 TTAAGTTTTTCATTTTTCTC-TGAAATTCTTTTATTTTTGAAATACGGAGTTTCCTACTCCGTAA
* *
2472497 ATATTTTTAGGGAGATTTTTCTTAGTTTTTAATTTTT
129 ATATTTTTAGAGAGATTTTTCTTAGTTTGTAATTTTT
* * * *
2472534 AAAATTTAAAAAATATTATTATTTAATTGAAATCAAATCAGTTTTCAAAAATTCATTTATTTTCA
1 AAAATTCATAAAATATTATTATTTAATT-AAATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
2472599 TT-AGTTTT
65 TTAAGTTTT
2472607 GAATTTTCTA
Statistics
Matches: 205, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
161 1 0.00
162 39 0.19
163 16 0.08
164 86 0.42
165 63 0.31
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.52
Consensus pattern (165 bp):
AAAATTCATAAAATATTATTATTTAATTAAATTAAATCAGTTTTCAAAAATTCATTCATTTTCAT
TAAGTTTTTCATTTTTCTCTGAAATTCTTTTATTTTTGAAATACGGAGTTTCCTACTCCGTAAAT
ATTTTTAGAGAGATTTTTCTTAGTTTGTAATTTTT
Found at i:2474538 original size:128 final size:130
Alignment explanation
Indices: 2474308--2474561 Score: 358
Period size: 128 Copynumber: 2.0 Consensus size: 130
2474298 ATTAAAAATT
* * *
2474308 AAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGATTTTCTATATGGGTAT
1 AAATAAAAAGTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGATTTTCTATATAGGTAT
*
2474373 AGAAATCTTCAAAACCTTTCGAATCTTTTTGGTTCTCCATTAAGGTACGAAATGA-ATTTTTTTA
66 AGAAATCTTCAAAACCTTTCGAATCTTTTCGGTTCTCCATTAAGGTACGAAATGAGATTTTTTTA
* *
2474437 AAATAAAAAGTATTGTCTTAATTTTTCAAGATTTCT-ATATTCCTATGGTTTTTCGTA-A-AGGT
1 AAATAAAAAGTATTATCTTAATTTTTCAAGATTTCTAATATTCCTAT-GATTTTC-TATATAGGT
* *
2474499 ATAGAAATCTTCAAAACTTTTC-ATATCTTTTCGAG-TCTCCATTAAGGTATGAAATGAGATTTT
64 ATAGAAATCTTCAAAACCTTTCGA-ATCTTTTCG-GTTCTCCATTAAGGTACGAAATGAGATTTT
2474562 CAAAATTTAC
Statistics
Matches: 112, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
127 1 0.01
128 62 0.55
129 47 0.42
130 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (130 bp):
AAATAAAAAGTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGATTTTCTATATAGGTAT
AGAAATCTTCAAAACCTTTCGAATCTTTTCGGTTCTCCATTAAGGTACGAAATGAGATTTTTTTA
Found at i:2474968 original size:154 final size:154
Alignment explanation
Indices: 2474648--2475016 Score: 404
Period size: 154 Copynumber: 2.4 Consensus size: 154
2474638 AGGAGTGTCG
* * * * *
2474648 GGTACTTCTACGTCAAAAGTATCCCTCTAGGGTA-TTTTCATAATTTTCCAAAATCAAGTTCTAG
1 GGTACTTCTAAGTCGAAAGTATCCC-CTAGGGCATTTTTCATAATTTTCCAAAATCGAGTCCTAG
* * * * *
2474712 GTTGTCCCTAAGTTCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCATTTATAATC
65 GTTGTCACTAAGTTAGCTTTTATGCCGAAGGTGGCCATTAAGGATAGGTTCATCCATCTATAATC
* *
2474777 CTTTTTAAGTCCTTTAGGGATATCA
130 CTTTTTAAGCCCTTTAGGGATACCA
* * * *
2474802 GGCATTTTTAAGTCGAAGGTATCCCCTAGGGCATTTTTCATAATTTTCCAAAATCGAGTCCTAGG
1 GGTACTTCTAAGTCGAAAGTATCCCCTAGGGCATTTTTCATAATTTTCCAAAATCGAGTCCTAGG
* * * *
2474867 TTGTCACTAGGTTAGTTTTTATGTCGAAGGT-GCCATTAAGGATAGGTTCCTCCCATCTATAATC
66 TTGTCACTAAGTTAGCTTTTATGCCGAAGGTGGCCATTAAGGATAGGTTCAT-CCATCTATAATC
* *
2474931 TTTTTTAAGCCCTTTATGGG-TGCCA
130 CTTTTTAAGCCCTTTA-GGGATACCA
* * ** * * *
2474956 GGTACATCTAAGTCGAAATTATCCCCGCGGGTCATTTTT-GTAATTTCTCTAGAATCGAGTC
1 GGTACTTCTAAGTCGAAAGTATCCCCTAGGG-CATTTTTCATAATTT-TCCAAAATCGAGTC
2475017 TTAGCCTGTT
Statistics
Matches: 177, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
153 24 0.14
154 131 0.74
155 22 0.12
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (154 bp):
GGTACTTCTAAGTCGAAAGTATCCCCTAGGGCATTTTTCATAATTTTCCAAAATCGAGTCCTAGG
TTGTCACTAAGTTAGCTTTTATGCCGAAGGTGGCCATTAAGGATAGGTTCATCCATCTATAATCC
TTTTTAAGCCCTTTAGGGATACCA
Found at i:2477943 original size:21 final size:21
Alignment explanation
Indices: 2477910--2477950 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2477900 CTAAGTAAAA
2477910 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
2477931 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
2477951 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:2478108 original size:53 final size:53
Alignment explanation
Indices: 2478030--2478166 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
2478020 AAATTGCATA
*
2478030 GTATCGATACAGACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
2478084 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
2478137 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
2478167 TTGGAAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:2478229 original size:9 final size:10
Alignment explanation
Indices: 2478190--2478228 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
2478180 AATCTCATTT
2478190 TCACTGTTCA
1 TCACTGTTCA
*
2478200 TCACTATTCA
1 TCACTGTTCA
2478210 TCACTGTTCA
1 TCACTGTTCA
2478220 -CACTGTTCA
1 TCACTGTTCA
2478229 CGTATCACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:2478314 original size:13 final size:13
Alignment explanation
Indices: 2478296--2478321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2478286 ACATATTTGT
2478296 GTGTATCGATACA
1 GTGTATCGATACA
2478309 GTGTATCGATACA
1 GTGTATCGATACA
2478322 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:2483539 original size:47 final size:47
Alignment explanation
Indices: 2483477--2483585 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 47
2483467 TACCAAATTA
* * *
2483477 TTCTCACCATTGTTTGACTATATTAGCATTTGGACCTGGTCAAATCCTT
1 TTCTCACCATTGTTTGACTATATTAGCATTAGGACCCGATCAAA--CTT
* *
2483526 TT-T-ACCATTGTTTGACTGTGTTAGCATTAGGACCCGATCAAACTT
1 TTCTCACCATTGTTTGACTATATTAGCATTAGGACCCGATCAAACTT
2483571 TTCTCACCATTGTTT
1 TTCTCACCATTGTTT
2483586 AATTGTATTG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
45 5 0.09
46 1 0.02
47 44 0.83
48 1 0.02
49 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (47 bp):
TTCTCACCATTGTTTGACTATATTAGCATTAGGACCCGATCAAACTT
Found at i:2483774 original size:97 final size:93
Alignment explanation
Indices: 2483635--2483904 Score: 233
Period size: 97 Copynumber: 2.9 Consensus size: 93
2483625 CGCTGTTGGG
* ** * *
2483635 CTATATTGGGATTAAGAACTAGTCAAACCCTTGTTCACCCTCATTTGATTGTATTGGTGTTAGGA
1 CTATATTGGCATT-AGTCCTAGTCAAACCATTTTTCACCCTCATTTGATTGTATTGGTGTTA-GA
*
2483700 TCTGGTCAAACTCTTTTTTCACCCCCATTTAA
64 TCTGGTCAAACTCTTTCTT--CCCCCATTTAA
* * * * * **
2483732 CTGTATTGGCATTAGTCCTAGTCAAACTCATTTTTCAACCTCATTTGACTATATTAGCATTAAGA
1 CTATATTGGCATTAGTCCTAGTCAAAC-CATTTTTCACCCTCATTTGATTGTATTGGTGTT-AGA
* * ** * *
2483797 CCTGGTCAAACTC--CCTTCCTTCGTTTAG
64 TCTGGTCAAACTCTTTCTTCCCCCATTTAA
* * *
2483825 CTATATTGGCGTTAGTCCTAGTCAAA--ATTCTTCCACCCTCGTTTGATTGTATTGGTGTTAGAT
1 CTATATTGGCATTAGTCCTAGTCAAACCATT-TTTCACCCTCATTTGATTGTATTGGTGTTAGAT
* *
2483888 GTGGTCAAACACTTTCT
65 CTGGTCAAACTCTTTCT
2483905 ACCTTTATTT
Statistics
Matches: 135, Mismatches: 33, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
90 16 0.12
91 21 0.16
92 2 0.01
93 31 0.23
95 2 0.01
96 12 0.09
97 50 0.37
98 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (93 bp):
CTATATTGGCATTAGTCCTAGTCAAACCATTTTTCACCCTCATTTGATTGTATTGGTGTTAGATC
TGGTCAAACTCTTTCTTCCCCCATTTAA
Found at i:2483777 original size:48 final size:49
Alignment explanation
Indices: 2483704--2483809 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 49
2483694 TTAGGATCTG
* * * * *
2483704 GTCAAACTCTTTTTTCACCCCCATTTAACTGTATTGGCATT-AGTCCTA
1 GTCAAACTCATTTTTCAACCCCATTTAACTATATTAGCATTAAGACCTA
* * *
2483752 GTCAAACTCATTTTTCAACCTCATTTGACTATATTAGCATTAAGACCTG
1 GTCAAACTCATTTTTCAACCCCATTTAACTATATTAGCATTAAGACCTA
2483801 GTCAAACTC
1 GTCAAACTC
2483810 CCTTCCTTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 35 0.71
49 14 0.29
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.37
Consensus pattern (49 bp):
GTCAAACTCATTTTTCAACCCCATTTAACTATATTAGCATTAAGACCTA
Found at i:2484115 original size:42 final size:42
Alignment explanation
Indices: 2484069--2484208 Score: 106
Period size: 42 Copynumber: 3.3 Consensus size: 42
2484059 CAAGTAAATC
2484069 CTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGATTAACT
1 CTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGATTAACT
* * * * * * ** *
2484111 CTTTTATCTTTTGTTTACCTGCCAACTT-AGT-CCTTTGTAAAT
1 CTTTTATCCTTTGTTGACTTGTCGA-TTCAATCCCGAT-TAACT
* * * *
2484153 CTTTTTATCCTTTGTTGATTTGTTGGTTCAATCCCGATCAAC-
1 C-TTTTATCCTTTGTTGACTTGTCGATTCAATCCCGATTAACT
*
2484195 CTTTTTTCCTTTGT
1 CTTTTATCCTTTGT
2484209 CTTTCTGTCG
Statistics
Matches: 70, Mismatches: 23, Indels: 11
0.67 0.22 0.11
Matches are distributed among these distances:
41 15 0.21
42 30 0.43
43 22 0.31
44 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.50
Consensus pattern (42 bp):
CTTTTATCCTTTGTTGACTTGTCGATTCAATCCCGATTAACT
Done.