Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 25 of 343
Found at i:8325999 original size:43 final size:40
Alignment explanation
Indices: 8325914--8325999 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
8325904 AGATTTCAGG
* * * *
8325914 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCCAA
1 TCTTATCTCCCTAAATAGTAGTGGAGCAGATAAAACCAAA
8325954 TCTTATCTCCCTAAATAGTAGTGGAGCAGACTAAAAACACAAA
1 TCTTATCTCCCTAAATAGTAGTGGAGCAGA-T-AAAAC-CAAA
8325997 TCT
1 TCT
8326000 CACCCCCATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 29 0.74
41 1 0.03
42 3 0.08
43 6 0.15
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
TCTTATCTCCCTAAATAGTAGTGGAGCAGATAAAACCAAA
Found at i:8326273 original size:8 final size:8
Alignment explanation
Indices: 8326262--8326286 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8326252 CACCTACCCC
8326262 CCCACTTG
1 CCCACTTG
8326270 CCCACTTG
1 CCCACTTG
8326278 CCCACTTG
1 CCCACTTG
8326286 C
1 C
8326287 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:8326813 original size:13 final size:12
Alignment explanation
Indices: 8326777--8326813 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
8326767 CCTTTCCCCC
8326777 TCCCTTCTCTC-
1 TCCCTTCTCTCT
8326788 TCCCTTCTCTCT
1 TCCCTTCTCTCT
8326800 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
8326813 T
1 T
8326814 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.46
12 5 0.21
13 8 0.33
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:8332431 original size:13 final size:12
Alignment explanation
Indices: 8332413--8332449 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
8332403 AGAAAAAAAA
8332413 AAGAGAGAGAGGG
1 AAGAGAGA-AGGG
8332426 AAGAGAGAAGGG
1 AAGAGAGAAGGG
8332438 -AGAGAGAAGGG
1 AAGAGAGAAGGG
8332449 A
1 A
8332450 GGGGGAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 4 0.17
13 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:8332956 original size:8 final size:8
Alignment explanation
Indices: 8332943--8332967 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8332933 GGTGTTCGGC
8332943 GCAAGTGG
1 GCAAGTGG
8332951 GCAAGTGG
1 GCAAGTGG
8332959 GCAAGTGG
1 GCAAGTGG
8332967 G
1 G
8332968 GGGGTAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:8335646 original size:134 final size:134
Alignment explanation
Indices: 8335406--8335724 Score: 413
Period size: 134 Copynumber: 2.4 Consensus size: 134
8335396 TGATCATGTG
* ** * * *
8335406 TCATTTTTAAACCTTGCTGATTTACGATCATGGTTTCAGTTTATTGATTTACAATCATGAACAAT
1 TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTACAATAATGAACAAT
* * *
8335471 TCATTAAGAGTTTGTCAATTTACGGTCACAACTCCACTTAAACAGTTCGCTAATTTACAATCACA
66 TCATTAAGAGTTCGTCAATTTACGATCACAACTCCACTTAAACAGTTCACTAATTTACAATCACA
8335536 ACTA
131 ACTA
* * *
8335540 TCATTTTTAAAGCTCACCGATTTACGATCATGGCTTCAGTTAATTGATTTACGATAATGAACACT
1 TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTACAATAATGAACAAT
* * * * **
8335605 TCATTAAGAGTTCGTCAATTTACGATCGCAACTCCACTTAAACAGTTCATTGATTTACGATTGCA
66 TCATTAAGAGTTCGTCAATTTACGATCACAACTCCACTTAAACAGTTCACTAATTTACAATCACA
8335670 ACTA
131 ACTA
* * * * * * *
8335674 TCATTTTTAGAGTTCATTGATTTCCAATCACGGCTTTAGTTAATTGATTTA
1 TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTA
8335725 TGATCTTGAA
Statistics
Matches: 159, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
134 159 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (134 bp):
TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTACAATAATGAACAAT
TCATTAAGAGTTCGTCAATTTACGATCACAACTCCACTTAAACAGTTCACTAATTTACAATCACA
ACTA
Found at i:8337193 original size:13 final size:13
Alignment explanation
Indices: 8337172--8337204 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8337162 TTTAATTTTT
8337172 TTAAAAAAAATTC
1 TTAAAAAAAATTC
*
8337185 TTAACAAAAATTC
1 TTAAAAAAAATTC
8337198 -TAAAAAA
1 TTAAAAAA
8337205 TTTAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (13 bp):
TTAAAAAAAATTC
Found at i:8337997 original size:10 final size:10
Alignment explanation
Indices: 8337982--8338006 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8337972 CACTACTATA
8337982 TTTTTTTATT
1 TTTTTTTATT
8337992 TTTTTTTATT
1 TTTTTTTATT
8338002 TTTTT
1 TTTTT
8338007 GGGTTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:8338182 original size:10 final size:10
Alignment explanation
Indices: 8338157--8338207 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
8338147 CTGTTTTAAT
8338157 ATAATTTTTA
1 ATAATTTTTA
8338167 AT-ATTTTTA
1 ATAATTTTTA
*
8338176 ATAATTTATA
1 ATAATTTTTA
* *
8338186 TTTATTTTTA
1 ATAATTTTTA
* *
8338196 AGATTTTTTA
1 ATAATTTTTA
8338206 AT
1 AT
8338208 TTTTAGAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:8341286 original size:15 final size:15
Alignment explanation
Indices: 8341244--8341288 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
8341234 TTGTTGCAGA
*
8341244 TTTTTTTGTAATTGT
1 TTTTTTTGTAATTTT
* * *
8341259 TATTGTTGAAATTTT
1 TTTTTTTGTAATTTT
8341274 TTTTTTTGTAATTTT
1 TTTTTTTGTAATTTT
8341289 CAATTGCATA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (15 bp):
TTTTTTTGTAATTTT
Found at i:8345401 original size:42 final size:42
Alignment explanation
Indices: 8345342--8345462 Score: 179
Period size: 43 Copynumber: 2.9 Consensus size: 42
8345332 AATGTGACAT
* *
8345342 TCGGGCTTTGAGCCTAGCAGGCGTAATGCCGGTGAAATGATG
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATA
* *
8345384 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGAAATGATA
* *
8345427 TCGGTCTTCGAGCCTAGCAGGCGAAATGCCGGTGAA
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAA
8345463 TGAGTTCAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 32 0.46
43 38 0.54
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.22
Consensus pattern (42 bp):
TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATA
Found at i:8345498 original size:41 final size:41
Alignment explanation
Indices: 8345354--8345542 Score: 123
Period size: 43 Copynumber: 4.6 Consensus size: 41
8345344 GGGCTTTGAG
* * * ** *
8345354 CCTAGCAGGCGTAATGCCGGTGAAATG-ATGTCGGGCTTCGAG
1 CCTAGCAGGCTTAATGCCGGTG-AATGAAT-TCAGACTTAAAA
* * ** *
8345396 CCTAGCAGGCTATAATGCCGGTGAGATG-ATATCGGTCTTCGAG
1 CCTAGCAGGCT-TAATGCCGGTGA-ATGAAT-TCAGACTTAAAA
** * *
8345439 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
* * ** * *
8345480 TCTAGCAGTCTTTGTGCCGGTG-ATGAATTCGGGCTTAAAA
1 CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
8345520 CCTAGCAGGCTTAATGCCGGTGA
1 CCTAGCAGGCTTAATGCCGGTGA
8345543 TTTGATAAAA
Statistics
Matches: 119, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
40 32 0.27
41 27 0.23
42 23 0.19
43 37 0.31
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
Found at i:8346056 original size:16 final size:18
Alignment explanation
Indices: 8346025--8346057 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8346015 AACTCGTCAC
8346025 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
8346043 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
8346058 ATCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:8350184 original size:60 final size:59
Alignment explanation
Indices: 8350060--8350200 Score: 162
Period size: 60 Copynumber: 2.4 Consensus size: 59
8350050 CCCAACTGTG
* *
8350060 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAAATTGATA
1 TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAAATTAATA
* * * *
8350119 CTGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATATCTC-G--ACTTGTATA-GGGCTACGGCCCAAATTAATA
8350179 TTGATATGGGCTAAGGCCCAAT
1 TTGATATGGGCT-AGGCCCAAT
8350201 TAACCCTAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
58 3 0.04
59 23 0.33
60 33 0.48
61 10 0.14
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAAATTAATA
Found at i:8356552 original size:42 final size:42
Alignment explanation
Indices: 8356496--8356613 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
8356486 GTGACATTCG
* *
8356496 GGCTTTGAGCCTAGCAGGTGTAATGCCGGTGAAACGATATCG
1 GGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAAACGATATCA
* * * *
8356538 GGCTTC-AGGCCTAGCAGGCTATAATACCGGTGAGATGATATCA
1 GGCTTCGA-GCCTAGCAGG-TGTAATGCCGGTGAAACGATATCA
* * *
8356581 GGCTTCGAGCCTAGCAGGCGAAATGGCGGTGAA
1 GGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAA
8356614 TGAGTTTAGA
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 24 0.39
43 35 0.57
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.21
Consensus pattern (42 bp):
GGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAAACGATATCA
Found at i:8356585 original size:43 final size:43
Alignment explanation
Indices: 8356496--8356599 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
8356486 GTGACATTCG
* * * *
8356496 GGCTTTGAGCCTAGCAGG-TGTAATGCCGGTGAAACGATATCG
1 GGCTTCGAGCCTAGCAGGCTATAATACCGGTGAAACGATATCA
* *
8356538 GGCTTC-AGGCCTAGCAGGCTATAATACCGGTGAGATGATATCA
1 GGCTTCGA-GCCTAGCAGGCTATAATACCGGTGAAACGATATCA
8356581 GGCTTCGAGCCTAGCAGGC
1 GGCTTCGAGCCTAGCAGGC
8356600 GAAATGGCGG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 15 0.28
43 36 0.68
44 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (43 bp):
GGCTTCGAGCCTAGCAGGCTATAATACCGGTGAAACGATATCA
Found at i:8357196 original size:16 final size:18
Alignment explanation
Indices: 8357165--8357197 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8357155 AACTCGTCAC
8357165 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
8357183 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
8357198 ATCTAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:8357936 original size:22 final size:21
Alignment explanation
Indices: 8357901--8357941 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
8357891 CCCTTATACT
8357901 TTTATCCTATATAACATAAATA
1 TTTATCCTATATAA-ATAAATA
8357923 TTTATCACTA-ATAAATAAA
1 TTTATC-CTATATAAATAAA
8357942 ACTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTATCCTATATAAATAAATA
Found at i:8361378 original size:11 final size:11
Alignment explanation
Indices: 8361349--8361423 Score: 78
Period size: 11 Copynumber: 6.8 Consensus size: 11
8361339 CCTAGCTCAC
*
8361349 TGCTGTTTTGC
1 TGCTGTTTTGG
* *
8361360 TGCAGTTTCGG
1 TGCTGTTTTGG
8361371 TGCTGTTTTGG
1 TGCTGTTTTGG
* *
8361382 TGTTGTTTGGG
1 TGCTGTTTTGG
8361393 TGCTGTTTTGG
1 TGCTGTTTTGG
* *
8361404 TGCTATTTTGT
1 TGCTGTTTTGG
*
8361415 TGCTATTTT
1 TGCTGTTTT
8361424 TTGTCGTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 53 1.00
ACGTcount: A:0.04, C:0.11, G:0.31, T:0.55
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:8363652 original size:18 final size:18
Alignment explanation
Indices: 8363629--8363678 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
8363619 TAAAGTTTAT
8363629 TTTAAAATTCTTGAAGAA
1 TTTAAAATTCTTGAAGAA
* * *
8363647 TTTAAAATACTAGAAGCA
1 TTTAAAATTCTTGAAGAA
8363665 TATTAAAATTCTTG
1 T-TTAAAATTCTTG
8363679 GGAAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (18 bp):
TTTAAAATTCTTGAAGAA
Found at i:8371615 original size:39 final size:39
Alignment explanation
Indices: 8371561--8371647 Score: 174
Period size: 39 Copynumber: 2.2 Consensus size: 39
8371551 TTATTTGGTC
8371561 TAATTTTGTATAAGCGGGTGAAGTTAAATGTACCACTAT
1 TAATTTTGTATAAGCGGGTGAAGTTAAATGTACCACTAT
8371600 TAATTTTGTATAAGCGGGTGAAGTTAAATGTACCACTAT
1 TAATTTTGTATAAGCGGGTGAAGTTAAATGTACCACTAT
8371639 TAATTTTGT
1 TAATTTTGT
8371648 CTGTTTTAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (39 bp):
TAATTTTGTATAAGCGGGTGAAGTTAAATGTACCACTAT
Found at i:8377773 original size:60 final size:61
Alignment explanation
Indices: 8377699--8377824 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 61
8377689 AATCAAATTC
*
8377699 AGGTATCAATTTGAAC-CAAGAAGCCAAGTTC-AGATACCTAATTGGACCAAA-ATAAACT-TT
1 AGGTATCAAATTGAACTCAA-AAGCCAAGTTCAAG-TACCTAATTGGACCAAAGA-AAACTCTT
* ** * *
8377759 AGGTATTAAATTGAACTTTAAAGTCAAGTTCAAGTACCTAATTGGACTAAAGAAAACTCTT
1 AGGTATCAAATTGAACTCAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
8377820 AGGTA
1 AGGTA
8377825 CCAATATGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
60 45 0.80
61 11 0.20
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (61 bp):
AGGTATCAAATTGAACTCAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
Found at i:8378304 original size:30 final size:30
Alignment explanation
Indices: 8378269--8378331 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
8378259 TTTTATTTTA
8378269 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
8378299 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
8378329 TTG
1 TTG
8378332 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:8380436 original size:76 final size:77
Alignment explanation
Indices: 8380319--8380474 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
8380309 ATTTTGTTTT
8380319 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAG-AAAAAAAGTATTTCCGTATTGGATACA
1 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
8380383 TATTTGTATTCA
66 TATTTGTATTCA
*
8380395 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATATA
1 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
8380460 TATTTGTATTCA
66 TATTTGTATTCA
8380472 ACA
1 ACA
8380475 TTCACTTGGG
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
76 37 0.47
77 41 0.53
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (77 bp):
ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
TATTTGTATTCA
Found at i:8388128 original size:20 final size:20
Alignment explanation
Indices: 8388076--8388128 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
8388066 TCTCTCACAA
* *
8388076 CAAAAATTACAAAAAAAATT
1 CAAAAATTATATAAAAAATT
*
8388096 CAAAATATT-TATAAAAATTT
1 CAAAA-ATTATATAAAAAATT
8388116 CAAAAATTATATA
1 CAAAAATTATATA
8388129 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (20 bp):
CAAAAATTATATAAAAAATT
Found at i:8388176 original size:20 final size:19
Alignment explanation
Indices: 8388088--8388177 Score: 58
Period size: 19 Copynumber: 4.7 Consensus size: 19
8388078 AAAATTACAA
* *
8388088 AAAAAATTCAAAATATT-T
1 AAAAAATTTAAAAAATTAT
*
8388106 ATAAAAATTTCAAAAATTAT
1 A-AAAAATTTAAAAAATTAT
* ***
8388126 ATATTTTTTAAAAAATTAT
1 AAAAAATTTAAAAAATTAT
* *
8388145 -TAAGATTCTAAAAAATATAT
1 AAAAAATT-TAAAAAAT-TAT
8388165 AAAAAATTTAAAA
1 AAAAAATTTAAAA
8388178 TTTTTAAAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
18 5 0.09
19 34 0.63
20 10 0.19
21 5 0.09
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAAAATTTAAAAAATTAT
Found at i:8392087 original size:14 final size:14
Alignment explanation
Indices: 8392070--8392099 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8392060 TGATTGAGAG
8392070 AATTGAAAGAATAA
1 AATTGAAAGAATAA
*
8392084 AATTGAATGAATAA
1 AATTGAAAGAATAA
8392098 AA
1 AA
8392100 AAGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (14 bp):
AATTGAAAGAATAA
Found at i:8399134 original size:46 final size:46
Alignment explanation
Indices: 8399082--8399571 Score: 619
Period size: 46 Copynumber: 10.7 Consensus size: 46
8399072 GCTTTCTGAA
* *
8399082 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAATATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
8399128 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
8399174 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
8399220 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
8399266 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * ** *
8399312 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGACAATGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** *
8399358 ATGAAAAGAATAAGACCATGGTTTAAAGATACCATGGCAACATG--
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ***
8399402 ACGAAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
8399448 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
8399494 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
8399540 A-GAAAATAAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATAC
8399572 TATAGCATCA
Statistics
Matches: 397, Mismatches: 43, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
44 2 0.01
45 76 0.19
46 319 0.80
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:8400801 original size:5 final size:5
Alignment explanation
Indices: 8400791--8400824 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
8400781 TTAGTTTTAA
8400791 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
8400825 TCCCCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:8406233 original size:20 final size:19
Alignment explanation
Indices: 8406197--8406369 Score: 63
Period size: 20 Copynumber: 9.5 Consensus size: 19
8406187 AGATCAAAAA
8406197 ATTGTAAAAA--A-TAAAT
1 ATTGTAAAAATTATTAAAT
8406213 ATTGTAAATAATTATTAAAT
1 ATTGTAAA-AATTATTAAAT
*
8406233 ATTGTTAAAA--A-T--AT
1 ATTGTAAAAATTATTAAAT
* *
8406247 -TT-T-AAAATTATAAAAA
1 ATTGTAAAAATTATTAAAT
*
8406263 ATTATAAAACATTATTTAGAAT
1 ATTGTAAAA-ATTA-TTA-AAT
* *
8406285 -TTTTAAAAATTATTAAAA
1 ATTGTAAAAATTATTAAAT
* *
8406303 ATTATAAAAA-T-TTAAAA
1 ATTGTAAAAATTATTAAAT
*
8406320 AGTT-TCAAATAATTATTAAAA
1 A-TTGT-AAA-AATTATTAAAT
* *
8406341 ATTGTAAGTAATTATTAAAA
1 ATTGTAA-AAATTATTAAAT
8406361 ATT-TAAAAA
1 ATTGTAAAAA
8406370 AAATATTTAA
Statistics
Matches: 124, Mismatches: 10, Indels: 44
0.70 0.06 0.25
Matches are distributed among these distances:
11 4 0.03
12 1 0.01
13 3 0.02
14 2 0.02
16 10 0.08
17 13 0.10
18 11 0.09
19 22 0.18
20 39 0.31
21 17 0.14
22 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (19 bp):
ATTGTAAAAATTATTAAAT
Found at i:8406263 original size:10 final size:10
Alignment explanation
Indices: 8406250--8406370 Score: 79
Period size: 10 Copynumber: 12.4 Consensus size: 10
8406240 AAAATATTTT
8406250 AAAATTATAA
1 AAAATTATAA
8406260 AAAATTATAA
1 AAAATTATAA
* **
8406270 AACATTATTT
1 AAAATTATAA
* * *
8406280 AGAATTTTTA
1 AAAATTATAA
*
8406290 AAAATTATTA
1 AAAATTATAA
8406300 AAAATTAT-A
1 AAAATTATAA
8406309 AAAATT-TAA
1 AAAATTATAA
*
8406318 AAAGTT-TCAA
1 AAAATTAT-AA
* *
8406328 ATAATTATTA
1 AAAATTATAA
*
8406338 AAAATTGTAA
1 AAAATTATAA
** *
8406348 GTAATTATTA
1 AAAATTATAA
8406358 AAAATT-TAA
1 AAAATTATAA
8406367 AAAA
1 AAAA
8406371 AATATTTAAA
Statistics
Matches: 85, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
8 1 0.01
9 20 0.24
10 63 0.74
11 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (10 bp):
AAAATTATAA
Found at i:8406376 original size:20 final size:19
Alignment explanation
Indices: 8406250--8406384 Score: 96
Period size: 20 Copynumber: 6.8 Consensus size: 19
8406240 AAAATATTTT
*
8406250 AAAATTATAAAAAATTATAA
1 AAAATTATTAAAAATT-TAA
* * * *
8406270 AACATTATTTAGAATTTTTA
1 AAAATTA-TTAAAAATTTAA
8406290 AAAATTATTAAAAA-TTATA
1 AAAATTATTAAAAATTTA-A
8406309 AAAA-T-TTAAAAAGTTTCAA
1 AAAATTATTAAAAA-TTT-AA
*
8406328 ATAATTATTAAAAATTGTAA
1 AAAATTATTAAAAATT-TAA
**
8406348 GTAATTATTAAAAATTTAAA
1 AAAATTATTAAAAATTT-AA
*
8406368 AAAAATATTTAAAAATT
1 AAAATTA-TTAAAAATT
8406385 GTGAATCTGT
Statistics
Matches: 91, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
17 7 0.08
18 3 0.03
19 17 0.19
20 41 0.45
21 23 0.25
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAAATTTAA
Found at i:8406646 original size:21 final size:20
Alignment explanation
Indices: 8406613--8406652 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8406603 AGCTTATTAC
8406613 TTATTTACAATTTTTTAATAA
1 TTATTTACAA-TTTTTAATAA
**
8406634 TTATTTATGATTTTTAATA
1 TTATTTACAATTTTTAATA
8406653 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTATTTACAATTTTTAATAA
Found at i:8425996 original size:19 final size:19
Alignment explanation
Indices: 8425951--8425997 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
8425941 TTTAAAGTTA
*
8425951 AATTTTTTT-CAAATTTCC
1 AATTTTTTTAAAAATTTCC
***
8425969 AAGAATTTTAAAAATTTCC
1 AATTTTTTTAAAAATTTCC
8425988 AATTTTTTTA
1 AATTTTTTTA
8425998 TATTTTATAA
Statistics
Matches: 21, Mismatches: 7, Indels: 1
0.72 0.24 0.03
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTTTTTTAAAAATTTCC
Found at i:8426688 original size:13 final size:13
Alignment explanation
Indices: 8426672--8426737 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
8426662 TTTAAATTAA
8426672 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
8426685 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
8426698 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
8426711 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
8426724 ACTTATT-AAAAGC
1 ACTT-TTCAAAAGC
8426737 A
1 A
8426738 TTGCCAAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
13 42 0.95
14 2 0.05
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:8432367 original size:45 final size:45
Alignment explanation
Indices: 8432296--8432383 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
8432286 TTTGCATTTT
* * *
8432296 AAAGTTGCTAATACGGTGTGGGTAAACCACTAATCGATGCAGATA
1 AAAGCTGCTAATACGATGTGGATAAACCACTAATCGATGCAGATA
* *
8432341 AAAGCTGCTAATTCGATGTGGATAAACCACTAATCGGTGCAGA
1 AAAGCTGCTAATACGATGTGGATAAACCACTAATCGATGCAGA
8432384 CAAACTGCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (45 bp):
AAAGCTGCTAATACGATGTGGATAAACCACTAATCGATGCAGATA
Found at i:8432893 original size:26 final size:28
Alignment explanation
Indices: 8432855--8432918 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
8432845 AAGGTGCAGA
* **
8432855 CAAAATTGTAAAATTTG-AAAATAGGGG
1 CAAAACTGTAAAAAATGAAAAATAGGGG
8432882 -AAAA-TGTAAAAAATGAAAAATAGGGG
1 CAAAACTGTAAAAAATGAAAAATAGGGG
8432908 CAAAACTGTAA
1 CAAAACTGTAA
8432919 TAGCCCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 9 0.28
26 14 0.44
27 4 0.12
28 5 0.16
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (28 bp):
CAAAACTGTAAAAAATGAAAAATAGGGG
Found at i:8434570 original size:68 final size:67
Alignment explanation
Indices: 8434498--8434647 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
8434488 CATCATGTGT
* * * *
8434498 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
8434560 ATGTAG
62 ATGTAG
** * *
8434566 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
8434631 AG
66 AG
8434633 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
8434648 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:8434603 original size:64 final size:64
Alignment explanation
Indices: 8434522--8434705 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
8434512 AGACATTATG
* *
8434522 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
8434586 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
8434651 AA
63 AA
* * * *
8434653 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
8434706 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:8435941 original size:29 final size:28
Alignment explanation
Indices: 8435893--8435976 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
8435883 GGGTGTTACA
* *
8435893 AAAACTGTAAAATTTTAAAAAATAGGGGT
1 AAAACTGTAAAA-TCTAAAAAATAGGGGC
* *
8435922 AAAATTGTAAAATCTAAAAAATAAGGGC
1 AAAACTGTAAAATCTAAAAAATAGGGGC
* *
8435950 AAAACTATAAAATCTGAAAAATAGGGG
1 AAAACTGTAAAATCTAAAAAATAGGGG
8435977 ACATACAACC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 36 0.77
29 11 0.23
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.23
Consensus pattern (28 bp):
AAAACTGTAAAATCTAAAAAATAGGGGC
Found at i:8444154 original size:16 final size:16
Alignment explanation
Indices: 8444130--8444162 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8444120 GTTTCCATAT
*
8444130 TTCACAATTTAATCCC
1 TTCAAAATTTAATCCC
8444146 TTCAAAATTTAATCCC
1 TTCAAAATTTAATCCC
8444162 T
1 T
8444163 AATTTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (16 bp):
TTCAAAATTTAATCCC
Found at i:8445747 original size:47 final size:48
Alignment explanation
Indices: 8445687--8445799 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
8445677 GGTGCGAATA
* **
8445687 TTACCTTGATTTGGCTAC-GGGACATGATATAGGTATTTTGAGA-AGAG
1 TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATA-AG
*
8445734 TTACCTTGATTTGGCTACGGGGACATGGTATAGGTACTCCGAGATAAG
1 TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATAAG
8445782 TTACCTTGATTTGGCTAC
1 TTACCTTGATTTGGCTAC
8445800 TGTAATGGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 18 0.30
48 41 0.68
49 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (48 bp):
TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATAAG
Found at i:8450547 original size:46 final size:46
Alignment explanation
Indices: 8450370--8450539 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
8450360 ATTCTGAGCT
** *
8450370 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGACAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACAT-A-AGTC
* * *
8450416 ATTGTAAGACCATGTCTGGAACATGTCATCGG-CATTGAGAC--AAGTGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCA-CGAGACATAAGT-C
8450463 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACATAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACATAAGTC
8450510 AGTGTAAGACATGTCTGGGACATGCATCGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG
8450540 TTACGAGATG
Statistics
Matches: 105, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
46 51 0.49
47 35 0.33
48 18 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACATAAGTC
Found at i:8455794 original size:15 final size:15
Alignment explanation
Indices: 8455776--8455819 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
8455766 GAAGCCCAGA
8455776 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
8455791 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
8455806 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
8455820 TTTACAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:8467149 original size:132 final size:134
Alignment explanation
Indices: 8466848--8467226 Score: 435
Period size: 132 Copynumber: 2.9 Consensus size: 134
8466838 GTAGGCTCCC
* * * ** * * * **
8466848 CCATAGGCAAGCTATGGTCTTACACACCATACCCCATGCTTAATGTCCTGGC-AACTTTTTATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
* * *
8466912 TGCCATAGCCGAGCTATAGTCTTACACAATATACCCCATGTTTAATGT-TCTGGCAGACTTTCAA
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCAGAC-TTCAA
8466976 TGTTT
130 TGTTT
* * * *
8466981 CCATAGTCGAGCTATCGTCTTATATAATATACCCCATGTTTAATGTCCTGACGGACTCTCCATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
* * * * * *
8467046 TGTCATGGTCGAGTTATGGTCTTACACATTTTTCCCCATGTTTAATGTCT-TGG-AGGAC-TCTA
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCA-GACTTCAA
8467108 TGTTT
130 TGTTT
* * * * * * *
8467113 CTATAGTTAAGCTATAGTCTTATACATTTTATCCCATGTTTAATGTCCTGATGAACTCTCTATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
8467178 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTC
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTC
8467227 CTGACGGGCT
Statistics
Matches: 205, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
132 106 0.52
133 44 0.21
134 54 0.26
135 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (134 bp):
CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCAGACTTCAAT
GTTT
Found at i:8467264 original size:67 final size:67
Alignment explanation
Indices: 8466848--8467279 Score: 388
Period size: 67 Copynumber: 6.5 Consensus size: 67
8466838 GTAGGCTCCC
* * *** * * * *
8466848 CCATAGGCAAGCTATGGTCTTACACACCATACCCCATGCTTAATGTCCTGGC-AACTTTTTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
*
8466912 TG
66 TT
* * * * * * * *
8466914 CCATAGCCGAGCTATAGTCTTACACAATATACCCCATGTTTAATGTTCTGGCAGACTTTCAATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
8466979 TT
66 TT
* * * * * * *
8466981 CCATAGTCGAGCTATCGTCTTATATAATATACCCCATGTTTAATGTCCTGACGGACTCTCCATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
8467046 TGT
66 T-T
* * * *
8467049 -CATGGTCGAGTTATGGTCTTACACATTTTTCCCCATGTTTAATGTCTTGGA-GGAC--TCTATG
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCT-GACGGACTTTCTATG
8467110 TTT
65 TTT
* ** * * * * * *
8467113 CTATAGTTAAGCTATAGTCTTATACATTTTATCCCATGTTTAATGTCCTGATGAACTCTCTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
*
8467178 TG
66 TT
* * *
8467180 CCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGGCTTTTTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
8467245 TT
66 TT
** * * *
8467247 CCATAGTTAAGCCATGGTCTTAGACACTTTACC
1 CCATAGTCGAGCTATGGTCTTACACATTTTACC
8467280 TCATTATAGA
Statistics
Matches: 298, Mismatches: 61, Indels: 13
0.80 0.16 0.03
Matches are distributed among these distances:
64 3 0.01
65 48 0.16
66 45 0.15
67 199 0.67
68 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (67 bp):
CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
TT
Found at i:8471503 original size:43 final size:43
Alignment explanation
Indices: 8471380--8471506 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 43
8471370 ATAAAGCTCG
* *
8471380 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
* * * * * **
8471421 TATCGATGCCACTGTCCCATACATGGTCTTAGACATAATCACAA
1 TA-CAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
* * *
8471465 TACAATGCCAATCTCCCAGACATGCTCCTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACA
8471507 TCTCGGTAAC
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
41 2 0.03
42 6 0.09
43 54 0.83
44 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
Found at i:8479611 original size:58 final size:57
Alignment explanation
Indices: 8479494--8479636 Score: 157
Period size: 58 Copynumber: 2.5 Consensus size: 57
8479484 TTCCTTGTTC
* * * * *
8479494 ATTTCTAAATGAATT-CATTTCTC-ATTTTCATTTTCATTTTGAGAAAACCACATTC
1 ATTTCCAAATGAATTCCATTTCTCTATTTTCATTTTAATTTGGAGAAAACCACAATA
*
8479549 ATTTCCAAATG-ATTCCATTTTCTCTATTTTCATTTTAATTTAGGAGAAAACCATAATA
1 ATTTCCAAATGAATTCCA-TTTCTCTATTTTCATTTTAATTT-GGAGAAAACCACAATA
* **
8479607 ATTTCCTGAATGTTTTCCATTTCTCTATTT
1 ATTTCC-AAATGAATTCCATTTCTCTATTT
8479637 CAATTCATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.04
55 12 0.16
56 6 0.08
57 15 0.20
58 18 0.24
59 15 0.20
60 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (57 bp):
ATTTCCAAATGAATTCCATTTCTCTATTTTCATTTTAATTTGGAGAAAACCACAATA
Found at i:8482169 original size:21 final size:21
Alignment explanation
Indices: 8482124--8482169 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8482114 TATAAATTTG
* *
8482124 AAAAATATTATTAAAATTTAT
1 AAAAATATTAATAAAATTCAT
8482145 AAAAATATTAAATAAAATTCA-
1 AAAAATATT-AATAAAATTCAT
8482166 AAAA
1 AAAA
8482170 GTTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATATTAATAAAATTCAT
Found at i:8482181 original size:11 final size:11
Alignment explanation
Indices: 8482165--8482191 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8482155 AATAAAATTC
8482165 AAAAAGTTAAT
1 AAAAAGTTAAT
8482176 AAAAAGTTAAT
1 AAAAAGTTAAT
8482187 AAAAA
1 AAAAA
8482192 CCATTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (11 bp):
AAAAAGTTAAT
Found at i:8487329 original size:16 final size:16
Alignment explanation
Indices: 8487300--8487341 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
8487290 TTCTCCCCTA
**
8487300 CCTCTTCTTTTCTCTTC
1 CCTCTTCTCCTCTC-TC
8487317 CCT-TTCTCCTCTCTC
1 CCTCTTCTCCTCTCTC
8487332 CCTCTTCTCC
1 CCTCTTCTCC
8487342 CCCTAAGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 14 0.64
17 3 0.14
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CCTCTTCTCCTCTCTC
Found at i:8498385 original size:46 final size:49
Alignment explanation
Indices: 8498279--8498400 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
8498269 TGTCTTCGAC
** * *
8498279 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* *
8498329 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATAT-T-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
*
8498375 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
8498401 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 27 0.42
47 1 0.02
48 6 0.09
50 30 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:8498406 original size:5 final size:5
Alignment explanation
Indices: 8498396--8498420 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8498386 TGGCTCATTT
8498396 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
8498421 AACCCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:8508024 original size:29 final size:28
Alignment explanation
Indices: 8507982--8508036 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
8507972 GAGTTATACC
8507982 GATTTGGCTTCGGGCCATGAATATCAGCT
1 GATTTGGCTTCGGGCCAT-AATATCAGCT
8508011 GATTTGGCTTCGGGCCATAATATCAG
1 GATTTGGCTTCGGGCCATAATATCAG
8508037 TATATCGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATAATATCAGCT
Found at i:8513277 original size:16 final size:17
Alignment explanation
Indices: 8513242--8513275 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8513232 TTGTTTTCAA
8513242 TTATCCTAATTACATTT
1 TTATCCTAATTACATTT
8513259 TTATCCT-ATTA-ATTT
1 TTATCCTAATTACATTT
8513274 TT
1 TT
8513276 TACATGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATCCTAATTACATTT
Found at i:8516106 original size:18 final size:18
Alignment explanation
Indices: 8516083--8516117 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8516073 CCACATTTAA
8516083 AACAATGAACGTCCGTAG
1 AACAATGAACGTCCGTAG
8516101 AACAATGAACGTCCGTA
1 AACAATGAACGTCCGTA
8516118 ATTATCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (18 bp):
AACAATGAACGTCCGTAG
Found at i:8519165 original size:23 final size:24
Alignment explanation
Indices: 8519139--8519185 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
8519129 TTTTTAAAAA
8519139 ATCACAAATAGAG-TTTTTTCTAT
1 ATCACAAATAGAGTTTTTTTCTAT
8519162 ATCACAAATAGAGTTTTTTTCTAT
1 ATCACAAATAGAGTTTTTTTCTAT
8519186 CATTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (24 bp):
ATCACAAATAGAGTTTTTTTCTAT
Found at i:8524640 original size:10 final size:10
Alignment explanation
Indices: 8524625--8524694 Score: 50
Period size: 11 Copynumber: 6.6 Consensus size: 10
8524615 GAAAAATTGT
8524625 TGTTTTTTAC
1 TGTTTTTTAC
**
8524635 TGTTTTTTGT
1 TGTTTTTTAC
8524645 TGTTTTTTCTAC
1 TG-TTTTT-TAC
*
8524657 TGTTTTGTTGC
1 TGTTTT-TTAC
* *
8524668 TATTTTCTTAT
1 TGTTTT-TTAC
8524679 TGTTTTTTAC
1 TGTTTTTTAC
*
8524689 TATTTT
1 TGTTTT
8524695 GCTATCATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
10 18 0.40
11 23 0.51
12 4 0.09
ACGTcount: A:0.09, C:0.09, G:0.11, T:0.71
Consensus pattern (10 bp):
TGTTTTTTAC
Found at i:8524657 original size:22 final size:20
Alignment explanation
Indices: 8524621--8524686 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
8524611 AAAAGAAAAA
8524621 TTGTTGTTTTTTACTGTTTT
1 TTGTTGTTTTTTACTGTTTT
8524641 TTGTTGTTTTTTCTACTGTTTT
1 TTGTTG-TTTTT-TACTGTTTT
* * *
8524663 GTTGCTATTTTCTTATTGTTTT
1 -TTGTTGTTTT-TTACTGTTTT
8524685 TT
1 TT
8524687 ACTATTTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.15
21 7 0.18
22 21 0.54
23 5 0.13
ACGTcount: A:0.06, C:0.08, G:0.14, T:0.73
Consensus pattern (20 bp):
TTGTTGTTTTTTACTGTTTT
Found at i:8524691 original size:21 final size:21
Alignment explanation
Indices: 8524649--8524694 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8524639 TTTTGTTGTT
*
8524649 TTTTCTACTGTTTTGTTGCTA
1 TTTTCTACTGTTTTGTTACTA
*
8524670 TTTTCTTATTGTTTT-TTACTA
1 TTTTC-TACTGTTTTGTTACTA
8524691 TTTT
1 TTTT
8524695 GCTATCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.70
Consensus pattern (21 bp):
TTTTCTACTGTTTTGTTACTA
Found at i:8526301 original size:19 final size:19
Alignment explanation
Indices: 8526277--8526321 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8526267 TTTGATCAAG
8526277 TAAAATTAAATT-AAATTAA
1 TAAAA-TAAATTAAAATTAA
*
8526296 TAAAATCAATTAAAATTAA
1 TAAAATAAATTAAAATTAA
*
8526315 TATAATA
1 TAAAATA
8526322 TTTTTGGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATAAATTAAAATTAA
Found at i:8526939 original size:29 final size:29
Alignment explanation
Indices: 8526906--8526965 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
8526896 TAGGAATAGG
*
8526906 AAATTCCATTAGGATATCTTAGGTTAGTT
1 AAATTCCATTAGGATATCTTAGGTTAATT
* * * *
8526935 AAATTTCATTAGGTTATGTTTGGTTAATT
1 AAATTCCATTAGGATATCTTAGGTTAATT
8526964 AA
1 AA
8526966 TTTAATTAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (29 bp):
AAATTCCATTAGGATATCTTAGGTTAATT
Found at i:8545797 original size:15 final size:15
Alignment explanation
Indices: 8545777--8545808 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8545767 TTTATTAATA
8545777 AAATGTACAAGGATT
1 AAATGTACAAGGATT
8545792 AAATGTACAAGGATT
1 AAATGTACAAGGATT
8545807 AA
1 AA
8545809 GTACTCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AAATGTACAAGGATT
Found at i:8554343 original size:59 final size:59
Alignment explanation
Indices: 8554251--8554368 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
8554241 CATTGATTTA
*
8554251 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGCTTCATCTAATAAAATAGAAGTT
1 TTTTTGAATATGTTTGTACAAATTATTTTTATATTGCTTCATCTAATAAAATAGAAGTT
** * * * *
8554310 TTTTTGAATATGTTTGTGTAAATTATTTTTATATTGTTTCATTTAATAAATTAGGAGTT
1 TTTTTGAATATGTTTGTACAAATTATTTTTATATTGCTTCATCTAATAAAATAGAAGTT
8554369 ACTTCGATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.53
Consensus pattern (59 bp):
TTTTTGAATATGTTTGTACAAATTATTTTTATATTGCTTCATCTAATAAAATAGAAGTT
Found at i:8559896 original size:5 final size:5
Alignment explanation
Indices: 8559888--8559962 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
8559878 CTTTTCTTTC
*
8559888 TTTAT TTTAT TTTAT TTTAT CTTTA- TTTA- TTTATT TATTAT GCTTATT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTA-T T-TTAT -TTTA-T
* *
8559936 TGTTAT ATTAA TTTAT TTTAT TTTAT T
1 T-TTAT TTTAT TTTAT TTTAT TTTAT T
8559963 CCTGTATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 8 0.14
5 32 0.56
6 10 0.18
7 7 0.12
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:8561399 original size:6 final size:6
Alignment explanation
Indices: 8561390--8561446 Score: 69
Period size: 6 Copynumber: 9.0 Consensus size: 6
8561380 TTTCTTTTCA
* *
8561390 TTTTAG TTTTAT TTTTAT TTTTAT CTTTAT TTTTAT TTTTAGT TATTTAAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T-TTT-AT
8561441 TTTTAT
1 TTTTAT
8561447 GTTCTTAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
6 34 0.76
7 5 0.11
8 5 0.11
9 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:8569403 original size:6 final size:6
Alignment explanation
Indices: 8569392--8569442 Score: 66
Period size: 6 Copynumber: 8.0 Consensus size: 6
8569382 GTTTAAGAAC
*
8569392 ATAAAA ATAAAACA ACTAAAA ATAAAA ATAAAA ATAAAG ATAAAA ATAAAA
1 ATAAAA AT-AAA-A A-TAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
8569443 CTATAACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
6 29 0.73
7 5 0.12
8 5 0.12
9 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:8569467 original size:42 final size:39
Alignment explanation
Indices: 8569392--8569473 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 39
8569382 GTTTAAGAAC
* *
8569392 ATAAAAATAAAACAACTAAAAATAAAAATAAAAATAAAG
1 ATAAAAATAAAACAACTAAAAATAAAAAGAAAAAAAAAG
* *
8569431 ATAAAAATAAAACTATAACTATAACTAAAAAGAAAAAAAAAG
1 ATAAAAATAAAAC---AACTAAAAATAAAAAGAAAAAAAAAG
8569473 A
1 A
8569474 AATAAACTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.36
42 23 0.64
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (39 bp):
ATAAAAATAAAACAACTAAAAATAAAAAGAAAAAAAAAG
Found at i:8574608 original size:56 final size:57
Alignment explanation
Indices: 8574548--8574662 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
8574538 TATTATTTAA
*
8574548 ATTAATAAATTTATATTTT-GTATCATTCATAAATGAAATATAATATAATATATTTT
1 ATTAATAAATTTATATTTTGGTATCATTCATAAATGAAATATAATAAAATATATTTT
*
8574604 ATTAATAAATTTATATTTTGGTATCATTTATAAATGAAATATAATAAAATATATTTT
1 ATTAATAAATTTATATTTTGGTATCATTCATAAATGAAATATAATAAAATATATTTT
8574661 AT
1 AT
8574663 CATTTTAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 19 0.34
57 37 0.66
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (57 bp):
ATTAATAAATTTATATTTTGGTATCATTCATAAATGAAATATAATAAAATATATTTT
Found at i:8574633 original size:29 final size:29
Alignment explanation
Indices: 8574554--8574643 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
8574544 TTAAATTAAT
*
8574554 AAATTTATATTTTGTATCATTCATAAATG
1 AAATTTATATTTTGTATCATTTATAAATG
* * ** *
8574583 AAATATA-ATATAATAT-ATTTTATTAAT-
1 AAATTTATATTTTGTATCA-TTTATAAATG
8574610 AAATTTATATTTTGGTATCATTTATAAATG
1 AAATTTATATTTT-GTATCATTTATAAATG
8574640 AAAT
1 AAAT
8574644 ATAATAAAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
27 7 0.16
28 16 0.36
29 17 0.38
30 5 0.11
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (29 bp):
AAATTTATATTTTGTATCATTTATAAATG
Found at i:8575611 original size:293 final size:295
Alignment explanation
Indices: 8575171--8575757 Score: 751
Period size: 293 Copynumber: 2.0 Consensus size: 295
8575161 AAGTCTTTTC
** *
8575171 TTTCTTTTTTTTGGTTGTAAACATAAAATGGTTAATTTCAATTATGATCTTTTTTATTTTATTTA
1 TTTCTTTTTTTTCATTGTAAACATAAAATGGTTAATTTCAATTATGATCTCTTTTATTTTATTTA
* * * *
8575236 GATTACATAAAAATGTCTAATTTCAATTTTGGTCCATGTACTATGTTGAAATTTATAATTTAATC
66 GATTACATAAAAATGTCAAATTTCAATTTTGGTCCATATACTACGCTGAAATTTATAATTTAATC
* ** *
8575301 TCCATACTTTAATTTTTTTACATAATTTGATACCTCGATGTTTATAATTTTGTTAATTGTTTATA
131 TCCATACTTTAATTTTTTTACATAATTTGATACCTCAATGTTTATAATTTCATTAATTATTTATA
* * * *
8575366 TAAAAAGAAGGTCCTAAATGATTTTGTCATCACGTG-TC-C-TTTTTTTACCCTATAAGATAACT
196 TAAAAA-AA-GTCCTAAACGATTCTATAATCACGTGTTCTCTTTTTTTTACCCTATAAGATAA-T
*
8575428 -GTAAAATTTTAATATTGATCCCTCTACTTTTTTTACG
258 GGTAAAATTTTAATATTGAACCCTCTACTTTTTTTACG
* *
8575465 TTTC-TTTTTTTCATTGTAAACATAAAATGGTTAAATTTCAATTTTGGTC-CTTTTATTTTATTT
1 TTTCTTTTTTTTCATTGTAAACATAAAATGGTT-AATTTCAATTATGATCTCTTTTATTTTATTT
*
8575528 AGATTACATAAAAATGTTCAAATTTCAATTTTGGTTCC-TATACTACGCTGGAATTTA-AGATTT
65 AGATTACATAAAAATG-TCAAATTTCAATTTTGG-TCCATATACTACGCTGAAATTTATA-ATTT
* * * * *
8575591 AATCTTCATA-TTTTATTTTTTTAGATTATTTGGTACCTCAATGTTTATAATTTCATTAATTATT
127 AATCTCCATACTTTAATTTTTTTACATAATTTGATACCTCAATGTTTATAATTTCATTAATTATT
* * *
8575655 TATATAAAAAAAGTTCTAAGCGATTCTATAATCACGTGTTCTTTTCTTTTTTTTTTTGCCCTATA
192 TATATAAAAAAAGTCCTAAACGATTCTATAATCACGTGTTC---TC---TTTTTTTTACCCTATA
8575720 AGATAATGGTAAAATTTTAATATTGAACCCTCTACTTT
251 AGATAATGGTAAAATTTTAATATTGAACCCTCTACTTT
8575758 GCTAAAGCCT
Statistics
Matches: 252, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
291 20 0.08
292 4 0.02
293 112 0.44
294 62 0.25
295 3 0.01
296 1 0.00
299 1 0.00
300 49 0.19
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.49
Consensus pattern (295 bp):
TTTCTTTTTTTTCATTGTAAACATAAAATGGTTAATTTCAATTATGATCTCTTTTATTTTATTTA
GATTACATAAAAATGTCAAATTTCAATTTTGGTCCATATACTACGCTGAAATTTATAATTTAATC
TCCATACTTTAATTTTTTTACATAATTTGATACCTCAATGTTTATAATTTCATTAATTATTTATA
TAAAAAAAGTCCTAAACGATTCTATAATCACGTGTTCTCTTTTTTTTACCCTATAAGATAATGGT
AAAATTTTAATATTGAACCCTCTACTTTTTTTACG
Found at i:8579408 original size:61 final size:62
Alignment explanation
Indices: 8579334--8579464 Score: 169
Period size: 61 Copynumber: 2.1 Consensus size: 62
8579324 ACTTTTAGGA
* * * *
8579334 GCTTAATGGGAATTTCTAAAAATTTT-GGGAATCTAATTAAAATT-TTAAAATATTTTTAAAG
1 GCTTAATGGGAATTTCTAAAAATTTTAGAG-ACCTAATTAAAATTATTAAAAAATTTATAAAG
* *
8579395 GCTTAA-GGAGAATTTTTAAAAATTTTAGAGCCCTAATTAAAATTATTAAAAAATTTATAAAG
1 GCTTAATGG-GAATTTCTAAAAATTTTAGAGACCTAATTAAAATTATTAAAAAATTTATAAAG
8579457 GCTTAATG
1 GCTTAATG
8579465 ATAAATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
60 2 0.03
61 34 0.57
62 23 0.38
63 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (62 bp):
GCTTAATGGGAATTTCTAAAAATTTTAGAGACCTAATTAAAATTATTAAAAAATTTATAAAG
Found at i:8580361 original size:20 final size:20
Alignment explanation
Indices: 8580336--8580377 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
8580326 AACAAGTCAC
8580336 AATGGAGGGGTAATTACACT
1 AATGGAGGGGTAATTACACT
8580356 AATGGAGGGGTAATTACACT
1 AATGGAGGGGTAATTACACT
8580376 AA
1 AA
8580378 ATTAACTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.24
Consensus pattern (20 bp):
AATGGAGGGGTAATTACACT
Found at i:8596723 original size:69 final size:71
Alignment explanation
Indices: 8596550--8596723 Score: 192
Period size: 73 Copynumber: 2.5 Consensus size: 71
8596540 TTCATGCTTT
* * * * *
8596550 TTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTTTTGT
1 TTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTATTTTAAGT-CTTATGT
8596615 TTCAAAAA
65 TT-AAAAA
** * * *
8596623 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTACTTTT-AGT-TTATGT
1 TTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTA-TTTTAAGTCTTATGT
*
8596686 TT-TAAA
65 TTAAAAA
*
8596692 TTGACTCATATTGCGAGAAGTGAGTTAAGCCT
1 TTGACTCATATTGCGAGAGGTGAGTTAAGCCT
8596724 TTTAATTCCT
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
69 30 0.36
71 7 0.08
73 43 0.51
74 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (71 bp):
TTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCCGAGGTATTTTAAGTCTTATGTT
TAAAAA
Found at i:8596761 original size:55 final size:54
Alignment explanation
Indices: 8596695--8596827 Score: 180
Period size: 55 Copynumber: 2.5 Consensus size: 54
8596685 TTTTAAATTG
8596695 ACTCATATTGCGAGAAGTGAGTT-AAGCCTTTTAATTCCTGTTTTTCAAAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTGAA-CCTTTTAATTCCTGTTTTTC-AAAAATCA
* **
8596750 ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCA
* * *
8596804 ACTCATAATAC-AGAGGTGAGTTGA
1 ACTCATATTGCGAGAAGTGAGTTGA
8596828 GCCTCGGGCC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
53 13 0.18
54 17 0.24
55 40 0.56
56 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
ACTCATATTGCGAGAAGTGAGTTGAACCTTTTAATTCCTGTTTTTCAAAAATCA
Found at i:8601525 original size:10 final size:10
Alignment explanation
Indices: 8601510--8601540 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
8601500 TGGAAAAACC
8601510 AAAAAAGAAA
1 AAAAAAGAAA
8601520 AAAAAAGAAA
1 AAAAAAGAAA
8601530 AAAAAAGAAA
1 AAAAAAGAAA
8601540 A
1 A
8601541 GAGAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:8608763 original size:20 final size:20
Alignment explanation
Indices: 8608735--8608806 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
8608725 CAAAGAGTGA
8608735 TTGTCAATTGGCACAGTCAT
1 TTGTCAATTGGCACAGTCAT
* ** * * *
8608755 TTGTGAATTGTTAGCTGTAACG
1 TTGTCAATTGGCA-CAGTCA-T
*
8608777 TTATCAATTGGCACAGTCAT
1 TTGTCAATTGGCACAGTCAT
*
8608797 TTGTGAATTG
1 TTGTCAATTG
8608807 TTAGCTGTAA
Statistics
Matches: 35, Mismatches: 15, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
20 18 0.51
21 8 0.23
22 9 0.26
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGTCAATTGGCACAGTCAT
Found at i:8608784 original size:42 final size:42
Alignment explanation
Indices: 8608738--8608822 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
8608728 AGAGTGATTG
8608738 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
1 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
8608780 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
1 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
8608822 T
1 T
8608823 AAACATGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (42 bp):
TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
Found at i:8609351 original size:13 final size:13
Alignment explanation
Indices: 8609318--8609345 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8609308 AACACTCAAA
8609318 ACGAAAAGTAATT
1 ACGAAAAGTAATT
8609331 ACGAAAAGTAATT
1 ACGAAAAGTAATT
8609344 AC
1 AC
8609346 TCAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (13 bp):
ACGAAAAGTAATT
Found at i:8623689 original size:31 final size:31
Alignment explanation
Indices: 8623648--8623724 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
8623638 GTGTCCCAAG
* * *
8623648 CCACACGGGCATGTGTGATCACATGGCCTAC
1 CCACAAGGGCATGTGTGACCACAAGGCCTAC
*
8623679 CCACAAGGGCATGTGTGACCACAAGGCTTAC
1 CCACAAGGGCATGTGTGACCACAAGGCCTAC
8623710 CCACACA-GGCATGTG
1 CCACA-AGGGCATGTG
8623725 ACTCTCCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (31 bp):
CCACAAGGGCATGTGTGACCACAAGGCCTAC
Found at i:8632867 original size:23 final size:22
Alignment explanation
Indices: 8632829--8632910 Score: 128
Period size: 23 Copynumber: 3.6 Consensus size: 22
8632819 TCTGAGCTGA
8632829 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
8632851 TGAATCAGTAAGTTCTATTGAGC
1 TGAA-CAGTAAGCTCTATTGAGC
8632874 TGAATCAGTAAGCTCTATTGAGC
1 TGAA-CAGTAAGCTCTATTGAGC
*
8632897 TGAACAGTAGGCTC
1 TGAACAGTAAGCTC
8632911 ATACGAGCTA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 13 0.23
23 43 0.77
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:8632918 original size:22 final size:23
Alignment explanation
Indices: 8632829--8632933 Score: 108
Period size: 23 Copynumber: 4.7 Consensus size: 23
8632819 TCTGAGCTGA
*
8632829 TGAA-CAGTAAGCTCTATTGAGC
1 TGAATCAGTAAGCTCTATCGAGC
* *
8632851 TGAATCAGTAAGTTCTATTGAGC
1 TGAATCAGTAAGCTCTATCGAGC
*
8632874 TGAATCAGTAAGCTCTATTGAGC
1 TGAATCAGTAAGCTCTATCGAGC
*
8632897 TGAA-CAGTAGGCTC-ATACGAGC
1 TGAATCAGTAAGCTCTAT-CGAGC
* * *
8632919 TAAAACGGTAAGCTC
1 TGAATCAGTAAGCTC
8632934 CAATGAGATG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
21 2 0.03
22 20 0.27
23 51 0.70
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (23 bp):
TGAATCAGTAAGCTCTATCGAGC
Found at i:8632930 original size:45 final size:46
Alignment explanation
Indices: 8632831--8632958 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 46
8632821 TGAGCTGATG
* * *
8632831 AACAGTAAGCTCTATTGAGCTGAATCAGTAAGTTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGAATCAGTAAGCTCTATCGAGCTAA
* *
8632877 ATCAGTAAGCTCTATTGAGCTGAA-CAGTAGGCTC-ATACGAGCTAA
1 AACAGTAAGCTCTATTGAGCTGAATCAGTAAGCTCTAT-CGAGCTAA
* * * * *
8632922 AACGGTAAGCTCCAATGAGATGAAAACAGTAAGCTCT
1 AACAGTAAGCTCTATTGAGCTG-AATCAGTAAGCTCT
8632959 TACAAGTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.03
45 31 0.46
46 25 0.37
47 9 0.13
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (46 bp):
AACAGTAAGCTCTATTGAGCTGAATCAGTAAGCTCTATCGAGCTAA
Found at i:8640911 original size:39 final size:38
Alignment explanation
Indices: 8640854--8640952 Score: 144
Period size: 39 Copynumber: 2.6 Consensus size: 38
8640844 TTTTACAATA
8640854 CCACTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
1 CCACTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
* * *
8640892 CCATCTTGGTGTGTAGGGCTGGGTGGGTTGATTTTATCC
1 CCA-CTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
* *
8640931 CCACTTGGTGTGTTGGGTTGGA
1 CCACTTGGTGTGTAGGGCTGGA
8640953 CGGAGATGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 19 0.35
39 35 0.65
ACGTcount: A:0.12, C:0.16, G:0.36, T:0.35
Consensus pattern (38 bp):
CCACTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
Found at i:8652725 original size:61 final size:60
Alignment explanation
Indices: 8652608--8652735 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 60
8652598 TGAGAAATAG
* * *
8652608 ACATGGCCTGAACTTCCTTACACGGGTAGACCACACGCCTGTGTAGTTTTAGCAGACTCTA
1 ACATGGCCTGAACTTCCTTACACGGGTAGACCACACGCCTGTCTAG-TTCAACAGACTCTA
* *
8652669 ACATGGCCT-AGACTTCTTTACATGGGTAGACCACACGCTCATGTCTA-TTCAACAGACTCTA
1 ACATGGCCTGA-ACTTCCTTACACGGGTAGACCACACGC-C-TGTCTAGTTCAACAGACTCTA
8652730 ACATGG
1 ACATGG
8652736 TTTGAAGCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
60 1 0.02
61 52 0.88
62 1 0.02
63 5 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
ACATGGCCTGAACTTCCTTACACGGGTAGACCACACGCCTGTCTAGTTCAACAGACTCTA
Found at i:8652767 original size:13 final size:13
Alignment explanation
Indices: 8652749--8652774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8652739 GAAGCATTTG
8652749 CACACGGGCGTGT
1 CACACGGGCGTGT
8652762 CACACGGGCGTGT
1 CACACGGGCGTGT
8652775 ACCTATTGAG
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:8656156 original size:21 final size:21
Alignment explanation
Indices: 8656126--8656165 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8656116 CATGTTTGAC
8656126 TGTTACTATT-TCTGCATGCCA
1 TGTTACTATTATCTG-ATGCCA
*
8656147 TGTTATTATTATCTGATGC
1 TGTTACTATTATCTGATGC
8656166 ATGAGACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTTACTATTATCTGATGCCA
Found at i:8657917 original size:22 final size:23
Alignment explanation
Indices: 8657892--8657937 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
8657882 AATGTTTTAT
8657892 GTTAGAAATAATA-AAAT-AAAAG
1 GTTAGAAATAA-AGAAATGAAAAG
*
8657914 GTTAGTAATAAAGAAATGAAAAG
1 GTTAGAAATAAAGAAATGAAAAG
8657937 G
1 G
8657938 GAGGGGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.67
23 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (23 bp):
GTTAGAAATAAAGAAATGAAAAG
Found at i:8659349 original size:40 final size:40
Alignment explanation
Indices: 8659253--8659436 Score: 221
Period size: 40 Copynumber: 4.5 Consensus size: 40
8659243 TATTCGGATG
*
8659253 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* * *
8659296 ATACCCAGGCTAAGTCCTGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
8659336 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
8659376 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
8659416 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
8659437 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
39 15 0.12
40 79 0.64
41 2 0.02
43 28 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:8659704 original size:22 final size:22
Alignment explanation
Indices: 8659664--8659705 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8659654 GAATGTGCAT
*
8659664 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
8659686 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
8659706 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:8661194 original size:29 final size:29
Alignment explanation
Indices: 8661123--8661247 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
8661113 AAGTCTACAT
* *
8661123 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** * * *
8661151 TTATTCATATTGCCCATTTGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
8661180 ACATTCGTATGGCCCATTGGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
8661209 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
8661238 ACATTCATAT
1 ACATTCATAT
8661248 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 17 0.21
29 64 0.79
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:8669651 original size:61 final size:60
Alignment explanation
Indices: 8669528--8669655 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 60
8669518 GTGAGAAATC
* * * * * *
8669528 AACACGGCTGGACTTCCTTAAACGGGTAGACCACACGCCCATGTAGTTTTAGCAGACCCT
1 AACACGGCTAGACTTCCTTAAACGGGTAGACCACAAGCCCATGTACTTTCAACAAACCCT
* * * *
8669588 AACACGGCCTAGACTTCCTTACACGGGTAGACCACAAGCCCGTGT-CTATTCAATAAACTCT
1 AACACGG-CTAGACTTCCTTAAACGGGTAGACCACAAGCCCATGTACT-TTCAACAAACCCT
8669649 AACACGG
1 AACACGG
8669656 TTTGAAGCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
60 8 0.14
61 48 0.86
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (60 bp):
AACACGGCTAGACTTCCTTAAACGGGTAGACCACAAGCCCATGTACTTTCAACAAACCCT
Found at i:8673846 original size:29 final size:27
Alignment explanation
Indices: 8673813--8673875 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
8673803 AATCCTCCAT
*
8673813 AACACACTAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* *
8673840 AACACACCGGTATATCATATCCTCCCA
1 AACACACCAGTATATCATAGCCTCCCA
8673867 AACACACCA
1 AACACACCA
8673876 ATAAGGCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.40, C:0.35, G:0.06, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:8674399 original size:18 final size:17
Alignment explanation
Indices: 8674376--8674409 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8674366 AATTTTTATT
*
8674376 CAATTTATTCCTTAATTC
1 CAATTTAATCC-TAATTC
8674394 CAATTTAATCCTAATT
1 CAATTTAATCCTAATT
8674410 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (17 bp):
CAATTTAATCCTAATTC
Found at i:8675016 original size:14 final size:14
Alignment explanation
Indices: 8674997--8675029 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8674987 ATAAAAAATC
8674997 TTATAATTTAATTA
1 TTATAATTTAATTA
*
8675011 TTATAATTTACTTA
1 TTATAATTTAATTA
8675025 TTATA
1 TTATA
8675030 TAAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATAATTTAATTA
Found at i:8675286 original size:3 final size:3
Alignment explanation
Indices: 8675278--8675327 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
8675268 TTTTAAATCA
* * *
8675278 AAT AAT AAT AAT AAT AA- AAA AAT AAT AAT AAC AAC AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
8675323 AAT AA
1 AAT AA
8675328 AATCTAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:8686226 original size:52 final size:52
Alignment explanation
Indices: 8686144--8686253 Score: 202
Period size: 52 Copynumber: 2.1 Consensus size: 52
8686134 TGCCGCACGA
* *
8686144 CCGTGTCTAGCTTCGTTCGCTTCTCTCACGCCCGTGTGTGCAAGCCCTACGC
1 CCGTGTCTAGCTTCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTACGC
8686196 CCGTGTCTAGCTTCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTACGC
1 CCGTGTCTAGCTTCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTACGC
8686248 CCGTGT
1 CCGTGT
8686254 TCATTTAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.09, C:0.39, G:0.25, T:0.27
Consensus pattern (52 bp):
CCGTGTCTAGCTTCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTACGC
Found at i:8686316 original size:55 final size:55
Alignment explanation
Indices: 8686257--8686369 Score: 127
Period size: 55 Copynumber: 2.1 Consensus size: 55
8686247 CCCGTGTTCA
* * * *
8686257 TTTAATAGGTTTGACCACGGGTATTAGACATGGGCGTGTCACACGCCCATGCTGT
1 TTTAACAGGTTTGACCACAGGTATTACACACGGGCGTGTCACACGCCCATGCTGT
* * * * * * *
8686312 TTTAACAGGTTTGTCCATAGTTCTTCCACACGGGCGTGTCACACGCCCGTGGTGT
1 TTTAACAGGTTTGACCACAGGTATTACACACGGGCGTGTCACACGCCCATGCTGT
8686367 TTT
1 TTT
8686370 GGTAGGCTCG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.32
Consensus pattern (55 bp):
TTTAACAGGTTTGACCACAGGTATTACACACGGGCGTGTCACACGCCCATGCTGT
Found at i:8687985 original size:79 final size:82
Alignment explanation
Indices: 8687874--8688058 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
8687864 GCTACTCGTT
* * *
8687874 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
8687937 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
8687954 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
8688017 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
8688034 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
8688059 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:8688058 original size:40 final size:40
Alignment explanation
Indices: 8687855--8688058 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
8687845 CGGAATTTAA
** *
8687855 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
8687895 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
8687935 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
8687974 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
8688014 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
8688054 CCGGA
1 CCGGA
8688059 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:8705546 original size:42 final size:41
Alignment explanation
Indices: 8705467--8705663 Score: 157
Period size: 41 Copynumber: 4.7 Consensus size: 41
8705457 GAATCATACC
* * * *
8705467 AATGCCATATCCCAGATATGGTTTTACATGGGA-TCTCACATT
1 AATGCCATGTCCCAGACATGGTCTTACA--CGATTCTCACATT
*
8705509 AATGCCAATAG-CCCAG-CTATGGTCTTACACGATTCTCATATT
1 AATGCC-AT-GTCCCAGAC-ATGGTCTTACACGATTCTCACATT
* * * *
8705551 GATGCCATGTCCCAGACATGGTCTTACACGATTCTAATATC
1 AATGCCATGTCCCAGACATGGTCTTACACGATTCTCACATT
* * * * **
8705592 GATGCCATGTCCCAGACATGGTCTTACACAAAATCTCATAAC
1 AATGCCATGTCCCAGACATGGTCTTACAC-GATTCTCACATT
* * *
8705634 GATGCCATATCCCAGATATGGTCTTACACG
1 AATGCCATGTCCCAGACATGGTCTTACACG
8705664 TAAACTCATA
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.01
41 60 0.45
42 55 0.41
43 17 0.13
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (41 bp):
AATGCCATGTCCCAGACATGGTCTTACACGATTCTCACATT
Found at i:8705573 original size:41 final size:41
Alignment explanation
Indices: 8705527--8705663 Score: 202
Period size: 41 Copynumber: 3.3 Consensus size: 41
8705517 TAGCCCAGCT
*
8705527 ATGGTCTTACACGATTCTCATATTGATGCCATGTCCCAGAC
1 ATGGTCTTACACGATTCTCATATCGATGCCATGTCCCAGAC
*
8705568 ATGGTCTTACACGATTCTAATATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGATTCTCATATCGATGCCATGTCCCAGAC
* * * * *
8705609 ATGGTCTTACACAAAATCTCATAACGATGCCATATCCCAGAT
1 ATGGTCTTACAC-GATTCTCATATCGATGCCATGTCCCAGAC
8705651 ATGGTCTTACACG
1 ATGGTCTTACACG
8705664 TAAACTCATA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 51 0.59
42 35 0.41
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (41 bp):
ATGGTCTTACACGATTCTCATATCGATGCCATGTCCCAGAC
Found at i:8705675 original size:42 final size:41
Alignment explanation
Indices: 8705468--8705673 Score: 205
Period size: 42 Copynumber: 4.9 Consensus size: 41
8705458 AATCATACCA
* * * * **
8705468 ATGCCATATCCCAGATATGGTTTTACATGGGATCTCACATTA
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCTCATATCG
* * * *
8705510 ATGCCAATAGCCCAGCTATGGTCTTACACGATTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAATCTCATATCG
* * * *
8705552 ATGCCATGTCCCAGACATGGTCTTACACGATTCTAATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
* * * *
8705593 ATGCCATGTCCCAGACATGGTCTTACACAAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACAC-GAATCTCATATCG
*
8705635 ATGCCATATCCCAGATATGGTCTTACACGTAAACTCATA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATA
8705674 ACCCTAATGT
Statistics
Matches: 139, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
41 58 0.42
42 62 0.45
43 19 0.14
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:8714721 original size:17 final size:19
Alignment explanation
Indices: 8714679--8714722 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8714669 ATGAAATTTT
*
8714679 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
8714698 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
8714716 AA-TATTA
1 AATTATTA
8714723 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:8724721 original size:41 final size:41
Alignment explanation
Indices: 8724676--8724756 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
8724666 CTAATTATGG
*
8724676 GCACTTAGTGTACGAAATCGAGATAGCTTCGGTTATATATT
1 GCACTTAGTGTACGAAATCGAGATAGCTTCGGCTATATATT
* ** *
8724717 GCACTTAGTGTGCGAGGTTGAGATAGCTTCGGCTATATAT
1 GCACTTAGTGTACGAAATCGAGATAGCTTCGGCTATATAT
8724757 ATTCATTGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (41 bp):
GCACTTAGTGTACGAAATCGAGATAGCTTCGGCTATATATT
Found at i:8726888 original size:48 final size:47
Alignment explanation
Indices: 8726768--8726892 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 47
8726758 GATAAGTACT
* * * *
8726768 TATACCATGGCACGAAGCCAAATCAAGGTAACTTATCCCCAGATACT
1 TATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCAAATACC
**
8726815 TATACCATGGCCC-ATAGCCAAATCAAGGTAACTCATCTCTGAAATACC
1 TATACCATGGCCCGA-AGCCAAATCAAGGTAACTCATC-CCCAAATACC
* *
8726863 TATGCCATGGCCCGAACCCAAATCAAGGTA
1 TATACCATGGCCCGAAGCCAAATCAAGGTA
8726893 TAATTCGCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.01
47 33 0.49
48 32 0.48
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (47 bp):
TATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCAAATACC
Found at i:8740412 original size:42 final size:42
Alignment explanation
Indices: 8740351--8740441 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
8740341 AGATTACGTG
* * *
8740351 TAAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTA
1 TAAGACCACATCTGAGATATGACATCGATATAAGACTTCGTA
* * *
8740393 TAAGACCACATCTGAGATATGACATCGATATGAGATTTCGTG
1 TAAGACCACATCTGAGATATGACATCGATATAAGACTTCGTA
8740435 TAAGACC
1 TAAGACC
8740442 GTAGCTGGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (42 bp):
TAAGACCACATCTGAGATATGACATCGATATAAGACTTCGTA
Found at i:8740491 original size:85 final size:84
Alignment explanation
Indices: 8740339--8740497 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 84
8740329 TTAGGGTTAT
* * *
8740339 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTATAAGACCACAT
1 TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACAAGACTTCATATAAGACCACAT
8740404 CTGAGATATGACATCGATA
66 CTGAGATATGACATCGATA
* * * * * *
8740423 TGAGATTTCGTGTAAGACCGTAGCTGGGCTATTGGCATCGATACGAGA-TTACATGTAAGACCAT
1 TGAGATTACGTGTAAGACCATAGCTGGGATA-TGGCATCGATACAAGACTT-CATATAAGACCAC
8740487 ATCTGAGATAT
64 ATCTGAGATAT
8740498 CGCATTGGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 29 0.45
85 35 0.55
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACAAGACTTCATATAAGACCACAT
CTGAGATATGACATCGATA
Found at i:8744020 original size:26 final size:26
Alignment explanation
Indices: 8743991--8744076 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
8743981 TTCTCATGAT
8743991 ATTTCCATGTCAATGCCTATCATTCA
1 ATTTCCATGTCAATGCCTATCATTCA
* * * * *
8744017 ATTTACATTTACCATGCTCATTCTCA-TGA
1 ATTTCCATGT-CAATGC-C--TATCATTCA
8744046 TATTTCCATGTCAATGCCTATCATTCA
1 -ATTTCCATGTCAATGCCTATCATTCA
8744073 ATTT
1 ATTT
8744077 ACATTTTTCA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
26 16 0.36
27 7 0.16
28 2 0.05
29 7 0.16
30 12 0.27
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (26 bp):
ATTTCCATGTCAATGCCTATCATTCA
Found at i:8744054 original size:56 final size:56
Alignment explanation
Indices: 8743968--8744082 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
8743958 TACCCATGAC
8743968 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
1 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
8744024 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
1 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
8744080 TTT
1 TTT
8744083 TTCAATTATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (56 bp):
TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
Found at i:8748992 original size:61 final size:61
Alignment explanation
Indices: 8748875--8748995 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 61
8748865 TGGGAAATCA
* * * *
8748875 ACACGGCCTGGACATCCCTACACAGGTATAGCACAAGCCCGTGTACTGTTAGCAGACTCTT
1 ACACGGCCTGGACATCCCTACACAGGTAGACCACAAGCCCGTGTACTATTAACAGACTCTT
* * * * *
8748936 ACACGGCCTGGACTTCCTTACACGGGTAGACCACACGGCCGTGT-CTATTCAACAGACTCT
1 ACACGGCCTGGACATCCCTACACAGGTAGACCACAAGCCCGTGTACTATT-AACAGACTCT
8748996 AACATGGTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 4 0.08
61 46 0.92
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.21
Consensus pattern (61 bp):
ACACGGCCTGGACATCCCTACACAGGTAGACCACAAGCCCGTGTACTATTAACAGACTCTT
Found at i:8749220 original size:13 final size:13
Alignment explanation
Indices: 8749202--8749227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8749192 TTGTGCATTC
8749202 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
8749215 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
8749228 AACAAATCCC
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:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:8754673 original size:14 final size:13
Alignment explanation
Indices: 8754638--8754680 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
8754628 GATGTTTAAA
*
8754638 TACTTTTATTTAT
1 TACTTTTATTTTT
*
8754651 TATTTTTATGTTTT
1 TACTTTTAT-TTTT
8754665 TACTTTTATCTTTT
1 TACTTTTAT-TTTT
8754679 TA
1 TA
8754681 AAACTACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (13 bp):
TACTTTTATTTTT
Found at i:8757641 original size:13 final size:13
Alignment explanation
Indices: 8757623--8757648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8757613 CTGTGCATTC
8757623 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
8757636 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
8757649 AACAAATCCC
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:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:8769564 original size:20 final size:19
Alignment explanation
Indices: 8769541--8769603 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
8769531 ATGCCCCAGT
8769541 TTGTACTTCGGTACTCTTGA
1 TTGTACTTCGGTAC-CTTGA
* *
8769561 TTGTACTT-GCGTGCCTCTGT
1 TTGTACTTCG-GTACCT-TGA
*
8769581 TTGTACTTCAGTACCCTTGA
1 TTGTACTTCGGTA-CCTTGA
8769601 TTG
1 TTG
8769604 CATGTACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TTGTACTTCGGTACCTTGA
Found at i:8769583 original size:40 final size:40
Alignment explanation
Indices: 8769518--8769718 Score: 224
Period size: 40 Copynumber: 5.0 Consensus size: 40
8769508 AATTATTAAA
* * * *
8769518 TGATTGCACTTACATGCCCCAGTTTGTACTTCGGTACTCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
8769558 TGATTGTACTTGCGTGCCTCTGTTTGTACTTCAGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
8769598 TGATTGCA-TGTACATGCCCCTGTTTGTAGTTTGGTACCCC
1 TGATTGCACT-TACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
8769638 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
8769678 TGATTTCACTTACGTGCCCCTGTTTGCACTTCAGTGCCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
8769718 T
1 T
8769719 AATCGCACAT
Statistics
Matches: 135, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.38
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:8769639 original size:20 final size:20
Alignment explanation
Indices: 8769614--8769679 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
8769604 CATGTACATG
*
8769614 CCCCTGTTTGTAGTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * ** *
8769634 CCCCTGATTGCACATACGTG
1 CCCCTGTTTGTACTTTGGTA
8769654 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
8769674 CCCCTG
1 CCCCTG
8769680 ATTTCACTTA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTGGTA
Found at i:8769688 original size:20 final size:20
Alignment explanation
Indices: 8769627--8769688 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
8769617 CTGTTTGTAG
*
8769627 TTTGGTACCCCTGATTGCAC
1 TTTGGTACCCCTGATTTCAC
* ** * *
8769647 ATACGTGCCCCTG-TTTGTAC
1 TTTGGTACCCCTGATTT-CAC
8769667 TTTGGTACCCCTGATTTCAC
1 TTTGGTACCCCTGATTTCAC
8769687 TT
1 TT
8769689 ACGTGCCCCT
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.39
Consensus pattern (20 bp):
TTTGGTACCCCTGATTTCAC
Found at i:8769697 original size:20 final size:20
Alignment explanation
Indices: 8769634--8769718 Score: 84
Period size: 20 Copynumber: 4.2 Consensus size: 20
8769624 TAGTTTGGTA
* *
8769634 CCCCTGATTGCACATACGTG
1 CCCCTGTTTGCACTTACGTG
* ** *
8769654 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGCACTTACGTG
8769674 CCCCTGATTT-CACTTACGTG
1 CCCCTG-TTTGCACTTACGTG
8769694 CCCCTGTTTGCACTT-CAGTG
1 CCCCTGTTTGCACTTAC-GTG
8769714 CCCCT
1 CCCCT
8769719 AATCGCACAT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.08
20 45 0.87
21 3 0.06
ACGTcount: A:0.13, C:0.35, G:0.18, T:0.34
Consensus pattern (20 bp):
CCCCTGTTTGCACTTACGTG
Found at i:8769726 original size:20 final size:20
Alignment explanation
Indices: 8769703--8769758 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
8769693 GCCCCTGTTT
8769703 GCACTTCAGTGCCCCTAATC
1 GCACTTCAGTGCCCCTAATC
* *
8769723 GCACATTCA-TGCTCCTAATT
1 GCAC-TTCAGTGCCCCTAATC
**
8769743 GCACTTTGGTGCCCCT
1 GCACTTCAGTGCCCCT
8769759 GTTATACATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.79
21 4 0.14
ACGTcount: A:0.18, C:0.36, G:0.16, T:0.30
Consensus pattern (20 bp):
GCACTTCAGTGCCCCTAATC
Done.