Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 30 of 85
Found at i:10016885 original size:19 final size:20
Alignment explanation
Indices: 10016829--10016885 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
10016819 CTAGATGTAG
10016829 TTTAAAATATTATAAAAA-A
1 TTTAAAATATTATAAAAATA
* *
10016848 TTTAAAATGTTGTAAAAATA
1 TTTAAAATATTATAAAAATA
10016868 -TTATAAAT-TTATAAAAAT
1 TTTA-AAATATTATAAAAAT
10016886 TATCGATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TTTAAAATATTATAAAAATA
Found at i:10017307 original size:21 final size:22
Alignment explanation
Indices: 10017282--10017336 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
10017272 TGTATTGATT
*
10017282 TATAAAATTT-TAATATAATTA
1 TATAAAATTTAAAATATAATTA
*
10017303 TATAATATTTAAAATATAATT-
1 TATAAAATTTAAAATATAATTA
10017324 TCAT-AAATTTAAA
1 T-ATAAAATTTAAA
10017337 TTTTTCGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TATAAAATTTAAAATATAATTA
Found at i:10017321 original size:22 final size:21
Alignment explanation
Indices: 10017293--10017336 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
10017283 ATAAAATTTT
10017293 AATATAATTAT-ATAATATTTAA
1 AATATAATT-TCATAA-ATTTAA
10017315 AATATAATTTCATAAATTTAA
1 AATATAATTTCATAAATTTAA
10017336 A
1 A
10017337 TTTTTCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATAATTTCATAAATTTAA
Found at i:10017778 original size:29 final size:29
Alignment explanation
Indices: 10017719--10017782 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
10017709 AAATATACTT
**
10017719 TTTAGTCACTATATATTTTATATTTGGAA
1 TTTAGTCACTATATATTTTATATTTAAAA
* *
10017748 TTTAGTCACTCTAT-TTTTATTTTTAAAAA
1 TTTAGTCACTATATATTTTATATTT-AAAA
10017777 TTTAGT
1 TTTAGT
10017783 TATACTTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (29 bp):
TTTAGTCACTATATATTTTATATTTAAAA
Found at i:10018315 original size:19 final size:20
Alignment explanation
Indices: 10018259--10018315 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
10018249 CTAGATGTAG
10018259 TTTAAAATATTATAAAAA-A
1 TTTAAAATATTATAAAAATA
* *
10018278 TTTAAAATGTTGTAAAAATA
1 TTTAAAATATTATAAAAATA
10018298 -TTATAAAT-TTATAAAAAT
1 TTTA-AAATATTATAAAAAT
10018316 TATCGATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TTTAAAATATTATAAAAATA
Found at i:10019410 original size:16 final size:16
Alignment explanation
Indices: 10019397--10019431 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10019387 TCAAATTTGA
10019397 ATTTTCTTATATTTAG
1 ATTTTCTTATATTTAG
* *
10019413 ATTTTCTTAGATTCAG
1 ATTTTCTTATATTTAG
10019429 ATT
1 ATT
10019432 ATTACATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (16 bp):
ATTTTCTTATATTTAG
Found at i:10044558 original size:104 final size:96
Alignment explanation
Indices: 10044299--10044520 Score: 279
Period size: 93 Copynumber: 2.3 Consensus size: 96
10044289 GATATTTTTA
* * * * * * **
10044299 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTA-AAA-AATT
1 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAATTAAATTAATTATAAATTTTT
* * *
10044362 -AAAAATAAAATTCGGGTTTAGAGTTAAGGG
66 AAAAAATTAGATTAGGGTTTAGAGTTAAGGG
*
10044392 TTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTAATTAAATTAATTATAAATTTTT
1 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAATTAAATTAATTATAAATTTTT
* *
10044457 AAAAAATTAGATTAGGGTTTAGTGTTTAGGG
66 AAAAAATTAGATTAGGGTTTAGAGTTAAGGG
*
10044488 TTTTTAAGTAAAAACTCAAATAAATTAGGGTTT
1 TTTTTAAGGAAAAA-TCAAATAAATTAGGGTTT
10044521 GGGATTTAGG
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
93 49 0.45
94 3 0.03
95 2 0.02
96 38 0.35
97 17 0.16
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.39
Consensus pattern (96 bp):
TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAATTAAATTAATTATAAATTTTT
AAAAAATTAGATTAGGGTTTAGAGTTAAGGG
Found at i:10044784 original size:126 final size:126
Alignment explanation
Indices: 10044559--10044849 Score: 485
Period size: 126 Copynumber: 2.3 Consensus size: 126
10044549 TTGTTAATTT
* * * *
10044559 AAAGAAGCTCCCACGTGGACACGCTTTCGCTACAATAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
* *
10044624 GTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCA-ATAGTACTG
66 GTTTCTGAGCAAATAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGA-AGTACTG
* *
10044685 AAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTAGCTCTTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
*
10044750 GTTTTTGAGCAAATAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
10044811 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
10044850 GCATGTTTGG
Statistics
Matches: 154, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
126 153 0.99
127 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:10048572 original size:18 final size:18
Alignment explanation
Indices: 10048545--10048582 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10048535 GAAAAAGAAA
* *
10048545 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
10048563 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
10048581 AC
1 AC
10048583 GCACCTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:10048707 original size:30 final size:30
Alignment explanation
Indices: 10048655--10048716 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
10048645 TGACTGTGTC
* * *
10048655 GGTGCTGTTGCTGAGCCTGGTGATTGTATG
1 GGTGCTGATGATGAGCCGGGTGATTGTATG
* *
10048685 GGTGCTGATGATGGGCCGGGTGATTGTCTG
1 GGTGCTGATGATGAGCCGGGTGATTGTATG
10048715 GG
1 GG
10048717 CCACGTTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.13, G:0.45, T:0.32
Consensus pattern (30 bp):
GGTGCTGATGATGAGCCGGGTGATTGTATG
Found at i:10049240 original size:7 final size:7
Alignment explanation
Indices: 10049230--10049269 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
10049220 TTATATACAT
10049230 AATACTA
1 AATACTA
10049237 AATACTA
1 AATACTA
10049244 AATACTA
1 AATACTA
10049251 AATACTA
1 AATACTA
10049258 AATACTA
1 AATACTA
10049265 AATAC
1 AATAC
10049270 CAATTGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:10050414 original size:27 final size:29
Alignment explanation
Indices: 10050377--10050437 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
10050367 TTTAAAAAAA
*
10050377 TTAAAAATAA-T-AAAATTTAAAACTTTT
1 TTAAAAATAATTAAAAAATTAAAACTTTT
* *
10050404 TTAAAAGTAATTAAAAAATTAAAGCTTTT
1 TTAAAAATAATTAAAAAATTAAAACTTTT
10050433 TTAAA
1 TTAAA
10050438 TAGGAATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 9 0.31
28 1 0.03
29 19 0.66
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAAAAATAATTAAAAAATTAAAACTTTT
Found at i:10050453 original size:11 final size:11
Alignment explanation
Indices: 10050439--10050470 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
10050429 TTTTTTAAAT
10050439 AGGAATTTGAG
1 AGGAATTTGAG
10050450 AGGAATTTGAG
1 AGGAATTTGAG
10050461 AGGAATTTGA
1 AGGAATTTGA
10050471 TAGAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:10050464 original size:22 final size:22
Alignment explanation
Indices: 10050439--10050494 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10050429 TTTTTTAAAT
10050439 AGGAATTTGAGAGGAAT-TTGAG
1 AGGAATTTGAGAGGAATATT-AG
*
10050461 AGGAATTTGATA-GAATATTAG
1 AGGAATTTGAGAGGAATATTAG
10050482 AGAGAA-TTGAGAG
1 AG-GAATTTGAGAG
10050495 AAAGCATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (22 bp):
AGGAATTTGAGAGGAATATTAG
Found at i:10055817 original size:95 final size:95
Alignment explanation
Indices: 10055707--10056053 Score: 644
Period size: 95 Copynumber: 3.7 Consensus size: 95
10055697 TGAATTTTAA
10055707 AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAAGAAATGTATCAAATCCTTT
1 AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAAGAAATGTATCAAATCCTTT
10055772 TGATTTTGAATTTTAATTATTATTTATTTG
66 TGATTTTGAATTTTAATTATTATTTATTTG
10055802 AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAAGAAATGTATCAAATCCTTT
1 AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAAGAAATGTATCAAATCCTTT
10055867 TGATTTTGAATTTTAATTATTATTTATTTG
66 TGATTTTGAATTTTAATTATTATTTATTTG
10055897 AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAAGAAATGTATCAAATCCTTT
1 AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAAGAAATGTATCAAATCCTTT
10055962 TGATTTTGAATTTTAATTATTATTTATTTG
66 TGATTTTGAATTTTAATTATTATTTATTTG
* * *
10055992 AAACTCTTTTAAATAATAATTAAATTATATTT-TCTTATCTGATAATG-AATATATCAAATCCT
1 AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAA-GAAATGTATCAAATCCT
10056054 ATTTTTATCT
Statistics
Matches: 248, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
94 26 0.10
95 222 0.90
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (95 bp):
AAACTCTTTTAAATAATAATTAAATTCTATTTCTTTTATCTGATAAGAAATGTATCAAATCCTTT
TGATTTTGAATTTTAATTATTATTTATTTG
Found at i:10067159 original size:13 final size:12
Alignment explanation
Indices: 10067142--10067183 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
10067132 GTGTTGTCGA
10067142 AAAATACTTTTG
1 AAAATACTTTTG
10067154 AGAAATACTTTTG
1 A-AAATACTTTTG
*
10067167 AAAAGTGCTTTTG
1 AAAA-TACTTTTG
10067180 AAAA
1 AAAA
10067184 ATTTGAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 23 0.85
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (12 bp):
AAAATACTTTTG
Found at i:10073268 original size:25 final size:23
Alignment explanation
Indices: 10073229--10073275 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
10073219 TTGATTGAGA
*
10073229 AATTTATAGATTTTCATTATTTT
1 AATTTATAGATTTTCATAATTTT
10073252 AATTTAATAGAATTTTCATAATTT
1 AATTT-ATAG-ATTTTCATAATTT
10073276 GCTTTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 4 0.19
25 12 0.57
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (23 bp):
AATTTATAGATTTTCATAATTTT
Found at i:10079447 original size:101 final size:101
Alignment explanation
Indices: 10079267--10079506 Score: 417
Period size: 101 Copynumber: 2.4 Consensus size: 101
10079257 AATTCGTCCT
* *
10079267 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
*
10079332 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * *
10079368 TTACGTTCATAGTGCTAGAACTCAGTTATGGTCTTATCATCAGAATGCCATAACCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
10079433 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
10079469 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
10079507 CGTCAATTCA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:10079500 original size:33 final size:33
Alignment explanation
Indices: 10079267--10079504 Score: 129
Period size: 33 Copynumber: 7.1 Consensus size: 33
10079257 AATTCGTCCT
*
10079267 TTACATTCATAGTGCCATAACCCAGTTATGGTC
1 TTACATTCATAGTGCCATAACCCAGCTATGGTC
* * *
10079300 TTATCA-TCAGAATGCCATAGCCCAGCTATGGTC
1 TTA-CATTCATAGTGCCATAACCCAGCTATGGTC
* * * * *** * *
10079333 TTACATATAAACACTGTCATGGTCCAACCATGGTC
1 TTACAT-T-CATAGTGCCATAACCCAGCTATGGTC
* * * * *
10079368 TTACGTTCATAGTGCTAGAACTCAGTTATGGTC
1 TTACATTCATAGTGCCATAACCCAGCTATGGTC
* * *
10079401 TTATCA-TCAGAATGCCATAACCTAGCTATGGTC
1 TTA-CATTCATAGTGCCATAACCCAGCTATGGTC
* * * *** * *
10079434 TTACATATAAACACTGCCATGGTCCAACCATGGTC
1 TTACAT-T-CATAGTGCCATAACCCAGCTATGGTC
* *
10079469 TTACGTTCATAGTGCCATAACCCAGTTATGGTC
1 TTACATTCATAGTGCCATAACCCAGCTATGGTC
10079502 TTA
1 TTA
10079505 TCCGTCAATT
Statistics
Matches: 144, Mismatches: 53, Indels: 16
0.68 0.25 0.08
Matches are distributed among these distances:
32 4 0.03
33 88 0.61
34 7 0.05
35 45 0.31
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (33 bp):
TTACATTCATAGTGCCATAACCCAGCTATGGTC
Found at i:10080382 original size:19 final size:20
Alignment explanation
Indices: 10080344--10080382 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10080334 AGAAATTCTA
*
10080344 TTAAATTCAATTTGTCTTAT
1 TTAAATTCAATTTATCTTAT
*
10080364 TTAATTTCAATTTAT-TTAT
1 TTAAATTCAATTTATCTTAT
10080383 CATTTTGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (20 bp):
TTAAATTCAATTTATCTTAT
Found at i:10094933 original size:38 final size:38
Alignment explanation
Indices: 10094847--10094925 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
10094837 CAGATCCAAT
*
10094847 TCAAAAA-AAAAAGAAGAAAAAAATCAAAAAATCAAAA
1 TCAAAAACAAAAAGAAGAAAAAAATAAAAAAATCAAAA
10094884 TCAAAAACAAAAAGAAGAAAAAAA-AAGAAAAATCAAAA
1 TCAAAAACAAAAAGAAGAAAAAAATAA-AAAAATCAAAA
10094922 TCAA
1 TCAA
10094926 GGTCAAAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 8 0.21
38 31 0.79
ACGTcount: A:0.77, C:0.09, G:0.06, T:0.08
Consensus pattern (38 bp):
TCAAAAACAAAAAGAAGAAAAAAATAAAAAAATCAAAA
Found at i:10097310 original size:87 final size:87
Alignment explanation
Indices: 10097164--10097441 Score: 398
Period size: 87 Copynumber: 3.2 Consensus size: 87
10097154 CAAACCAGTG
* * * *
10097164 AAGATAGCAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAAATAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAGCCTTGCCTCCC
*
10097229 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
*
10097251 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAAACACAGCCTTGCCTCCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAGCCTTGCCTCCC
* *
10097316 CCGGTTGCAGTGAAGCAGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* *
10097338 AAGATAGCAGATCTTGCCTTCCTGCGA-TAACAGCGAAGCAGATCGAAGATAC-CAGCCTTACCT
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAGCGAAGCAGATCGAA-A-ACACAGCCTTGCCT
* *
10097401 CCCTCGATTGCGGTGGAGCAGGTTA
63 CCCTCGGTTGCAGTGGAGCAGGTTA
*
10097426 AAGATAGTAGATCTTG
1 AAGATAGCAGATCTTG
10097442 TCCCTAAGCA
Statistics
Matches: 172, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
87 122 0.71
88 48 0.28
89 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACACAGCCTTGCCTCCC
TCGGTTGCAGTGGAGCAGGTTA
Found at i:10097312 original size:43 final size:43
Alignment explanation
Indices: 10097176--10097396 Score: 116
Period size: 45 Copynumber: 5.1 Consensus size: 43
10097166 GATAGCAGAT
* * *
10097176 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAAATAAAGC
1 CTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAAATACAGC
* * * * * *
10097219 CTTGCC-TCCAT-CGGTTG-CAGTGGAGCTGGT-TAAAGATAGCAGAT
1 CTTGCCTTCC-TGC-ATTGACAGTGAAGCAGATCGAAA-ATA-CAG-C
*
10097263 CTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAAACACAGC
1 CTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAAATACAGC
** * * * *
10097306 CTTGCC-TCCCCCGGTTG-CAGTGAAGCAGGT-TAAAGATAGCAGAT
1 CTTGCCTTCCTGC-ATTGACAGTGAAGCAGATCGAAA-ATA-CAG-C
* * *
10097350 CTTGCCTTCCTGCGA-TAACAGCGAAGCAGATCGAAGATACCAGC
1 CTTGCCTTCCTGC-ATTGACAGTGAAGCAGATCGAAAATA-CAGC
10097394 CTT
1 CTT
10097397 ACCTCCCTCG
Statistics
Matches: 129, Mismatches: 33, Indels: 31
0.67 0.17 0.16
Matches are distributed among these distances:
41 6 0.05
42 33 0.26
43 24 0.19
44 23 0.18
45 38 0.29
46 5 0.04
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAAATACAGC
Found at i:10097387 original size:45 final size:45
Alignment explanation
Indices: 10097251--10097388 Score: 122
Period size: 45 Copynumber: 3.1 Consensus size: 45
10097241 GAGCTGGTTA
*
10097251 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCGA-TAACAGTGAAGCAGATCG
* * * ** * ** * **
10097296 AAAACA-CAG-CCTTGCC-TCCCCCGGTTGCAGTGAAGCAGGTTA
1 AAGATAGCAGATCTTGCCTTCCTGCGATAACAGTGAAGCAGATCG
*
10097338 AAGATAGCAGATCTTGCCTTCCTGCGATAACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCGATAACAGTGAAGCAGATCG
10097383 AAGATA
1 AAGATA
10097389 CCAGCCTTAC
Statistics
Matches: 66, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
42 21 0.32
43 9 0.14
44 9 0.14
45 27 0.41
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTCCTGCGATAACAGTGAAGCAGATCG
Found at i:10097886 original size:44 final size:44
Alignment explanation
Indices: 10097778--10097939 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 44
10097768 AAGCAGGTCT
*
10097778 TATC-CCCTGAAGTTGCAGT-GAGGCAGATCGAAGAAGTAAATCT
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGATCGAAGAAGTAAATCC
* * * **
10097821 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGAAGTA-AATCC
* ** ** * *
10097865 TATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAGTAA-TAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-AAGTAAATCC
* * *
10097909 TATCTCTCTGAAGTTGCAATAGAGCAGATCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATCG
10097940 CATCAAGTCT
Statistics
Matches: 90, Mismatches: 24, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
43 5 0.06
44 82 0.91
45 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGAAGTAAATCC
Found at i:10103845 original size:110 final size:111
Alignment explanation
Indices: 10103541--10103885 Score: 515
Period size: 106 Copynumber: 3.2 Consensus size: 111
10103531 GAAAAATTAA
* * * *
10103541 TTTTTTTTT-ACTTTTTTCGTATACTAATACCTGCTATTGACACGAAAAAAGTAAAAAAAAAATT
1 TTTTTTTTTAACTTTTTTAGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAAAATT
*
10103605 CCCACAAAAAAGGTGGTGCCTGCCATTGGCAGGCCACCA-C--AA-
66 CCCACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAT
* * *
10103647 TTTTTTTTTAA-TTTTTTAGTATATTGATACATTCTTTTGACACGAAAAATGTAAAAAAAAAATT
1 TTTTTTTTTAACTTTTTTAGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAAAATT
10103711 CCCACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAT
66 CCCACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAT
*
10103757 TTTTTTTTTAACTTTTTTAGTATACTGATACCTTCTTTTGACATGAAAAAAGTAAAAAAAAAATT
1 TTTTTTTTTAACTTTTTTAGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAAAATT
**
10103822 ATCAC-AAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATT
66 CCCACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAA-T
*
10103868 TTCTTTTTTTTACTTTTT
1 TT-TTTTTTTAACTTTTT
10103886 CTCTTATTCT
Statistics
Matches: 216, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
106 93 0.43
107 2 0.01
109 2 0.01
110 50 0.23
111 55 0.25
112 14 0.06
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (111 bp):
TTTTTTTTTAACTTTTTTAGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAAAATT
CCCACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAT
Found at i:10104427 original size:19 final size:19
Alignment explanation
Indices: 10104405--10104461 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
10104395 TTTTATTTAA
10104405 TTTTTCTAAATTTATAAAT
1 TTTTTCTAAATTTATAAAT
* ** *
10104424 TTTTTTTATTTTTATCAAT
1 TTTTTCTAAATTTATAAAT
* *
10104443 TTTTCTCAAAATTGATAAA
1 TTTT-TCTAAATTTATAAA
10104462 AAATTAAATT
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTCTAAATTTATAAAT
Found at i:10104443 original size:27 final size:28
Alignment explanation
Indices: 10104386--10104445 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
10104376 TTAAAAAATT
* *
10104386 ATTTTAACTTTTTATTTAATTTTTCTAA
1 ATTTTAAATTTTTATTTAATTTTTATAA
*
10104414 ATTTATAAATTTTT-TTT-ATTTTTATCA
1 ATTT-TAAATTTTTATTTAATTTTTATAA
10104441 ATTTT
1 ATTTT
10104446 TCTCAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.04
27 12 0.43
28 7 0.25
29 8 0.29
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (28 bp):
ATTTTAAATTTTTATTTAATTTTTATAA
Found at i:10105363 original size:28 final size:28
Alignment explanation
Indices: 10105309--10105363 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
10105299 ACAAAAAATT
* **
10105309 AAATTAAGAAGTAAAATAATTTTTTATA
1 AAATTAAGAAGTAAAATAAATCATTATA
10105337 AAATT-AGAATGTAAAATAAATCATTAT
1 AAATTAAGAA-GTAAAATAAATCATTAT
10105364 TATTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (28 bp):
AAATTAAGAAGTAAAATAAATCATTATA
Found at i:10112089 original size:46 final size:46
Alignment explanation
Indices: 10112022--10112198 Score: 264
Period size: 46 Copynumber: 3.8 Consensus size: 46
10112012 AGTGTGGAAC
*
10112022 GTAGGTTTGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
10112068 GTAGGTATGGTATTTCAGTAAAGAAAACCATATTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * * * *
10112114 GTAGGTATGGTATTTTACTAACGAAAACCGTACTGAGTTGCGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
10112160 GTAGATATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
10112199 ATACCATTGT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:10116978 original size:25 final size:25
Alignment explanation
Indices: 10116924--10117003 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
10116914 AGATTACTTG
*
10116924 GAAAGACTTTGTGGC-TAATCT-TATA
1 GAAAGCCTTTGTGGCGT-AT-TATATA
* *
10116949 AAAAGCCTTTGTGGCGTATTATCTA
1 GAAAGCCTTTGTGGCGTATTATATA
* *
10116974 GAAAGCCTTTGTGGTGTATTGTATA
1 GAAAGCCTTTGTGGCGTATTATATA
10116999 GAAAG
1 GAAAG
10117004 ACTGTATGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGTATTATATA
Found at i:10119390 original size:94 final size:92
Alignment explanation
Indices: 10119227--10119453 Score: 330
Period size: 94 Copynumber: 2.4 Consensus size: 92
10119217 AGGTGTAAAT
* *
10119227 AGCCCTCAAACTTTTTAAAAGCAAAAAGCAATTAAGCCCTTGCTCTTTTTTTTTGCACTCAATTG
1 AGCCCTCAAACTTTTT-CAA--AAAAAGCAATTAAGCCCCTGCTCTTTTTTTTTGCACTCAATTG
10119292 GGTACATGAACTT-TCAAAATGCATAAAAAA
63 GGTACATGAA-TTGTCAAAATGCATAAAAAA
*
10119322 GGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTGCTTTTTTTTTTGCACTCAATTGG
1 AGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCT-C-TTTTTTTTTGCACTCAATTGG
*
10119387 GTACTTGAATTGTCAAAATGCATAAAAAA
64 GTACATGAATTGTCAAAATGCATAAAAAA
* **
10119416 AACCCTCAAAAATTTTCAAAAAAAGCAATTAAGCCCCT
1 AGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCT
10119454 ATTTTTTTTG
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
92 21 0.17
93 3 0.02
94 82 0.68
95 15 0.12
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.30
Consensus pattern (92 bp):
AGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTCTTTTTTTTTGCACTCAATTGGGT
ACATGAATTGTCAAAATGCATAAAAAA
Found at i:10119617 original size:17 final size:18
Alignment explanation
Indices: 10119595--10119646 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 18
10119585 GTCACATGTG
10119595 ATAAAAAATTATAAAAA-
1 ATAAAAAATTATAAAAAT
*
10119612 AT-AAAAATCAATAAAAATT
1 ATAAAAAAT-TATAAAAA-T
10119631 ATAAAAAAATTATAAA
1 AT-AAAAAATTATAAA
10119647 CCACTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 6 0.21
17 9 0.32
19 2 0.07
20 5 0.18
21 6 0.21
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAAATTATAAAAAT
Found at i:10119800 original size:10 final size:9
Alignment explanation
Indices: 10119767--10119832 Score: 51
Period size: 10 Copynumber: 6.7 Consensus size: 9
10119757 CTATATTATG
10119767 TTTTATAATT
1 TTTTATAA-T
*
10119777 TTTTTTACGAT
1 TTTTATA--AT
10119788 TTTTATAAT
1 TTTTATAAT
*
10119797 TTTTATTAAAA
1 TTTTA-T-AAT
*
10119808 TTTAATAAT
1 TTTTATAAT
10119817 TTTTAGTAAT
1 TTTTA-TAAT
10119827 TTTTAT
1 TTTTAT
10119833 TTGTATAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
9 14 0.31
10 17 0.38
11 13 0.29
12 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10119810 original size:21 final size:20
Alignment explanation
Indices: 10119767--10119821 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
10119757 CTATATTATG
* * *
10119767 TTTTATAATTTTTTTTACGAT
1 TTTTATAATTTTTATTA-AAA
10119788 TTTTATAATTTTTATTAAAA
1 TTTTATAATTTTTATTAAAA
*
10119808 TTTAATAATTTTTA
1 TTTTATAATTTTTA
10119822 GTAATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTATTAAAA
Found at i:10119831 original size:20 final size:20
Alignment explanation
Indices: 10119786--10119831 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
10119776 TTTTTTTACG
*
10119786 ATTTTT-ATAATTTTTATTA
1 ATTTTTAATAATTTTTAGTA
**
10119805 AAATTTAATAATTTTTAGTA
1 ATTTTTAATAATTTTTAGTA
10119825 ATTTTTA
1 ATTTTTA
10119832 TTTGTATAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTAATAATTTTTAGTA
Found at i:10120787 original size:85 final size:83
Alignment explanation
Indices: 10120669--10120855 Score: 248
Period size: 84 Copynumber: 2.2 Consensus size: 83
10120659 TGCATTTTGA
* *
10120669 CAATTGAGTGCAAAAAAAAGGGTTTAATTGCTTTTTTGAAAAAGTTTAAGGGCATTTTTGATGCA
1 CAATTAAGTGCAAAAAAAAGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGCATTTTT-ATGCA
**
10120734 TTTTGGCAGTTCAAGTACC
65 TTTTGAAAGTTCAAGTACC
* ** * *
10120753 CAATTAAGTGCAAAAAAAGGGGGCTTAATTGCTTTTTTGAAAACTTTTGAGGGCCTTTTTATGCA
1 CAATTAAGTGCAAAAAAA-AGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGCATTTTTATGCA
**
10120818 TTTTGAAAGTTCAAGTGTC
65 TTTTGAAAGTTCAAGTACC
*
10120837 CAATTAAGTGCAGAAAAAA
1 CAATTAAGTGCAAAAAAAA
10120856 TCAGGGGCTT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 54 0.61
85 35 0.39
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (83 bp):
CAATTAAGTGCAAAAAAAAGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGCATTTTTATGCAT
TTTGAAAGTTCAAGTACC
Found at i:10120874 original size:85 final size:84
Alignment explanation
Indices: 10120669--10120876 Score: 231
Period size: 84 Copynumber: 2.4 Consensus size: 84
10120659 TGCATTTTGA
* * *
10120669 CAATTGAGTGCAAAAAAAA-GGGTTTAATTGCTTTTTTGAAAAAGTTTAAGGGCATTTTTGATGC
1 CAATTAAGTGCAAAAAAAAGGGGCTTAACT-CTTTTTTGAAAAAGTTTAAGGGCATTTTTGATGC
**
10120733 ATTTTGGCAGTTCAAGTACC
65 ATTTTGAAAGTTCAAGTACC
* * ** * *
10120753 CAATTAAGTGCAAAAAAAGGGGGCTTAATTGCTTTTTTGAAAACTTTTGAGGGCCTTTTT-ATGC
1 CAATTAAGTGCAAAAAAAAGGGGCTTAACT-CTTTTTTGAAAAAGTTTAAGGGCATTTTTGATGC
**
10120817 ATTTTGAAAGTTCAAGTGTC
65 ATTTTGAAAGTTCAAGTACC
*
10120837 CAATTAAGTGCAGAAAAAATCAGGGGCTTAACTTTTTTTT
1 CAATTAAGTGCA-AAAAAA--AGGGGCTTAACTCTTTTTT
10120877 CTTTAAATTT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
84 49 0.46
85 41 0.39
86 6 0.06
87 10 0.09
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (84 bp):
CAATTAAGTGCAAAAAAAAGGGGCTTAACTCTTTTTTGAAAAAGTTTAAGGGCATTTTTGATGCA
TTTTGAAAGTTCAAGTACC
Found at i:10124465 original size:18 final size:18
Alignment explanation
Indices: 10124442--10124479 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10124432 GCATACTTCA
*
10124442 AACAACATATGTTCGCAT
1 AACAACATAGGTTCGCAT
10124460 AACAACATAGGTTCGCAT
1 AACAACATAGGTTCGCAT
10124478 AA
1 AA
10124480 TGGGTTCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (18 bp):
AACAACATAGGTTCGCAT
Found at i:10129326 original size:14 final size:15
Alignment explanation
Indices: 10129300--10129332 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10129290 TGCCAAACTG
*
10129300 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
10129315 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
10129329 GGAA
1 GGAA
10129333 AAGCGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:10130800 original size:89 final size:89
Alignment explanation
Indices: 10130655--10131190 Score: 768
Period size: 89 Copynumber: 6.0 Consensus size: 89
10130645 GTGAAGATAG
* *
10130655 CAGCCTTGCCTTCCTATACTGATAGCGGAGCAGACTGAAGATAGCAGAT-TTAGCCTTCCTATAC
1 CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTT-GCCTTCCTATAC
*
10130719 TGACGGCGAAGCAGATCGAAGACAC
65 TGACAGCGAAGCAGATCGAAGACAC
* * **
10130744 CAGCCTTGCCTTCCTGTACTGGCAGCGGAGAAGACTGAAGATAGCAGATCTTGCCTTCCTGCACT
1 CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTATACT
* * *
10130809 GACAACGAAGCAGATCAAAAACAC
66 GACAGCGAAGCAGATCGAAGACAC
** * *
10130833 CAGCCTTGCCTTCCTGTACTGACAGAAGAGCAGACTGAATATAGCAGATCTTGCCTTCCTGTACT
1 CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTATACT
*
10130898 GACAGCGAAGCAGATCTAAGACAC
66 GACAGCGAAGCAGATCGAAGACAC
*
10130922 CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAATATAGCAGATCTTGCCTTCCTATACT
1 CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTATACT
* *
10130987 GATAGCGAAGCAGATCTAAGACAC
66 GACAGCGAAGCAGATCGAAGACAC
* * * * * *
10131011 CAGCCTTGCCTTCCTGTACTGATAGCAGAACAGACTGAATATAGCAGATCTTACCTTCCTATATT
1 CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTATACT
10131076 GACAGCGAAGCAGATCGAAGACAC
66 GACAGCGAAGCAGATCGAAGACAC
* * * * * *
10131100 CAGCCTTGCCTTCTTATACTGACAGCGGAGCAGACTGAAGATAGCAGATTTTGCTTTCATGTACT
1 CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTATACT
* *
10131165 GGCAGCGAAGCAGATCGAAAACAC
66 GACAGCGAAGCAGATCGAAGACAC
10131189 CA
1 CA
10131191 TAGTTTGCAA
Statistics
Matches: 402, Mismatches: 44, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
89 400 1.00
90 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (89 bp):
CAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTATACT
GACAGCGAAGCAGATCGAAGACAC
Found at i:10131382 original size:44 final size:44
Alignment explanation
Indices: 10131320--10131433 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 44
10131310 TATCAAATTT
* *
10131320 TATCTCTCTGAAGTTGCAGTAGAGCAAGTTGAAG-TAGCAAAC-C
1 TATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA-CAAACTC
* *
10131363 TTATC-CCCATGAAGTTGCAGTGGGGCAAGTTGAAGATACAAATTC
1 -TATCTCCC-TGAAGTTGCAGTGGAGCAAGTTGAAGATACAAACTC
10131408 TATCTCCCTGAAGTTGCAGTGGAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCA
10131434 GATTAAAACT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
43 2 0.03
44 53 0.87
45 6 0.10
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAACTC
Found at i:10132238 original size:24 final size:24
Alignment explanation
Indices: 10132211--10132257 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
10132201 AAACCCTCTT
*
10132211 TTTA-GTGTTTTTATTTAAAAAAAA
1 TTTACGTGTTTCT-TTTAAAAAAAA
10132235 TTTACTGTGTTTCTTTTAAAAAA
1 TTTAC-GTGTTTCTTTTAAAAAA
10132258 TATCTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 9 0.45
26 7 0.35
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTACGTGTTTCTTTTAAAAAAAA
Found at i:10145283 original size:23 final size:23
Alignment explanation
Indices: 10145253--10145299 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10145243 CTTTAGGGTC
10145253 CTCATTTTCAACTGTTGGTTCGT
1 CTCATTTTCAACTGTTGGTTCGT
10145276 CTCATTTTCAACTGTTGGTTCGT
1 CTCATTTTCAACTGTTGGTTCGT
10145299 C
1 C
10145300 CATGTTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (23 bp):
CTCATTTTCAACTGTTGGTTCGT
Found at i:10146849 original size:14 final size:15
Alignment explanation
Indices: 10146830--10146862 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10146820 TTAATATTTT
10146830 AATTAAACTAA-TTA
1 AATTAAACTAACTTA
10146844 AATT-AACTAACTTA
1 AATTAAACTAACTTA
10146858 AATTA
1 AATTA
10146863 CCCTAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTAAACTAACTTA
Found at i:10153002 original size:22 final size:21
Alignment explanation
Indices: 10152976--10153042 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
10152966 TACACATATG
10152976 ATCACATAACATTCAAGCATGT
1 ATCACATAACATTCAAGCAT-T
* *
10152998 ATCACA-ATAC--TC-A-TATA
1 ATCACATA-ACATTCAAGCATT
10153015 ATCACATAACATTCAAGCATAT
1 ATCACATAACATTCAAGCAT-T
10153037 ATCACA
1 ATCACA
10153043 ATACTCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 8 0.24
18 3 0.09
19 3 0.09
20 3 0.09
21 3 0.09
22 14 0.41
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (21 bp):
ATCACATAACATTCAAGCATT
Found at i:10153049 original size:39 final size:39
Alignment explanation
Indices: 10152912--10153046 Score: 207
Period size: 39 Copynumber: 3.5 Consensus size: 39
10152902 ATTCACTTTT
* * *
10152912 AAGCATATATCACATTACACATATAATAACATAACATTT
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* *
10152951 AAGCATATATCATAATACACATATGATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* *
10152990 AAGCATGTATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
10153029 AAGCATATATCACAATAC
1 AAGCATATATCACAATAC
10153047 TCAAAAACAT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:10163867 original size:27 final size:27
Alignment explanation
Indices: 10163812--10163885 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
10163802 AAAAATAAAA
*
10163812 ATTTACCAAAATATTAGAAATTTTTTTT
1 ATTTACCAAAATA-TATAAATTTTTTTT
10163840 ATTTACCAAAATATATAAATTTTTTTT
1 ATTTACCAAAATATATAAATTTTTTTT
10163867 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
10163886 AAACCCAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 32 0.71
28 13 0.29
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (27 bp):
ATTTACCAAAATATATAAATTTTTTTT
Found at i:10164159 original size:19 final size:21
Alignment explanation
Indices: 10164121--10164159 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
10164111 AATAATTGAT
*
10164121 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
10164142 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
10164160 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:10164223 original size:3 final size:3
Alignment explanation
Indices: 10164205--10164239 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
10164195 AAAATAAAAG
*
10164205 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10164240 GTTGTTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10164244 original size:3 final size:3
Alignment explanation
Indices: 10164238--10164272 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10164228 ATTATTATTA
10164238 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
10164273 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:10170195 original size:3 final size:3
Alignment explanation
Indices: 10170187--10171016 Score: 1660
Period size: 3 Copynumber: 276.7 Consensus size: 3
10170177 ATATAAAGTG
10170187 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170235 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170283 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170331 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170379 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170427 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170475 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170523 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170571 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170619 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170667 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170715 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170763 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170811 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170859 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170907 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10170955 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10171003 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
10171017 ACTACCTCTT
Statistics
Matches: 827, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 827 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10171494 original size:31 final size:30
Alignment explanation
Indices: 10171429--10171495 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
10171419 GCCTAGTATT
* * *
10171429 TTAAATAAAATTTTTGAATAGTTTATTGAT
1 TTAAATAAAACTTTTGAATAGTTTAATGAC
*
10171459 TTAAATAAAAACTTTTGAATAGTTTAATGGC
1 TTAAAT-AAAACTTTTGAATAGTTTAATGAC
10171490 TTAAAT
1 TTAAAT
10171496 TGAAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (30 bp):
TTAAATAAAACTTTTGAATAGTTTAATGAC
Found at i:10173048 original size:29 final size:29
Alignment explanation
Indices: 10173008--10173080 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
10172998 ACAATATTGA
10173008 ATAGTT-GAGTGACCATTTTGTAACTTTTT-
1 ATAGTTAG-GTGACCATTTTGTAA-TTTTTC
**
10173037 ATAGTTTTGTGACCATTTTGTAATTTTTC
1 ATAGTTAGGTGACCATTTTGTAATTTTTC
10173066 ATAGTTAGGTGACCA
1 ATAGTTAGGTGACCA
10173081 AAAAAGAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.47
Consensus pattern (29 bp):
ATAGTTAGGTGACCATTTTGTAATTTTTC
Found at i:10173348 original size:59 final size:60
Alignment explanation
Indices: 10173238--10173388 Score: 177
Period size: 59 Copynumber: 2.5 Consensus size: 60
10173228 TTTCATTTTT
* * * *
10173238 ATGACCAAAAAAGGCAAATTTA--AATAGTTGAGTAACTATTTTGTAACTTTTCATAATTTA
1 ATGACCAAAAAA-G-AAATTTACTAATAATTGAGTAACTATTTTATAAATTTTCATAATTAA
*
10173298 ATGACCAAAAAAGAAATTTACTAATAATT-AGTGACTATTTTATAAATTTTCATAATTAA
1 ATGACCAAAAAAGAAATTTACTAATAATTGAGTAACTATTTTATAAATTTTCATAATTAA
*
10173357 AT-AGCCAAAAAA-AAGTTTTACTAATAATTGAG
1 ATGA-CCAAAAAAGAA-ATTTACTAATAATTGAG
10173389 AAAGTGTAGC
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
58 10 0.12
59 50 0.62
60 20 0.25
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (60 bp):
ATGACCAAAAAAGAAATTTACTAATAATTGAGTAACTATTTTATAAATTTTCATAATTAA
Found at i:10189909 original size:40 final size:41
Alignment explanation
Indices: 10189857--10189948 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 41
10189847 AATATATTTA
*
10189857 TTTTTTTAATTTTAAAATATTTTT-ACATAC-TTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
10189896 TTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA-
1 TTTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTTAAT
10189937 TTTTTTTAATTT
1 TTTTTTTAATTT
10189949 GCACCTCTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
39 7 0.14
40 22 0.45
41 12 0.24
42 8 0.16
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:10190267 original size:33 final size:30
Alignment explanation
Indices: 10190230--10190293 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 30
10190220 TAATGAAAAC
* *
10190230 TAAATTTATTATTATATTGAATGACTAAAATAT
1 TAAATTTATGATAATATT-AATGA--AAAATAT
*
10190263 TAAATTTCTGATAATATTAATGAAAAATAT
1 TAAATTTATGATAATATTAATGAAAAATAT
10190293 T
1 T
10190294 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 8 0.29
32 5 0.18
33 15 0.54
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (30 bp):
TAAATTTATGATAATATTAATGAAAAATAT
Found at i:10192081 original size:15 final size:15
Alignment explanation
Indices: 10192038--10192081 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
10192028 TTTTATTTTG
*
10192038 TAATTAATATAAACA
1 TAATTAATATAAATA
**
10192053 TAATTTTTAT-AATA
1 TAATTAATATAAATA
10192067 TAATTAATATAAATA
1 TAATTAATATAAATA
10192082 CAATACAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATTAATATAAATA
Found at i:10192578 original size:27 final size:27
Alignment explanation
Indices: 10192530--10192630 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
10192520 TCAGTTTATC
*
10192530 ACCACAAAAGGCTATCCTTTCATAATTT
1 ACCAC-AAAGGCTATTCTTTCATAATTT
** * * *
10192558 GTCACAAATGTTATTCTTTCATAATTC
1 ACCACAAAGGCTATTCTTTCATAATTT
10192585 ACCACAAAGGCTATTCTTTCATAATTT
1 ACCACAAAGGCTATTCTTTCATAATTT
*
10192612 ACCACAAAGGCTATCCTTT
1 ACCACAAAGGCTATTCTTT
10192631 ACTGTTGTGT
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 58 0.95
28 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.36
Consensus pattern (27 bp):
ACCACAAAGGCTATTCTTTCATAATTT
Found at i:10194183 original size:18 final size:18
Alignment explanation
Indices: 10194162--10194202 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10194152 GGCAGAAATC
* * *
10194162 GAGAGCAAATCAGAGAAA
1 GAGAGAAAATAAGAAAAA
10194180 GAGAGAAAATAAGAAAAA
1 GAGAGAAAATAAGAAAAA
10194198 GAGAG
1 GAGAG
10194203 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.05, G:0.29, T:0.05
Consensus pattern (18 bp):
GAGAGAAAATAAGAAAAA
Found at i:10195970 original size:39 final size:39
Alignment explanation
Indices: 10195757--10195946 Score: 283
Period size: 39 Copynumber: 4.8 Consensus size: 39
10195747 CGTTTGGACA
* * ** *
10195757 AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTCAACAT
1 AAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGCT-TTCAG
* *
10195798 AAAA-CGCCGCCAAAGATCGAGCATTAGCGGCGCTTTCAG
1 AAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGCTTTCAG
10195837 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAG
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAG
10195876 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAG
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAG
10195915 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCG
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCG
10195947 TTTTTTCAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 98 0.70
40 38 0.27
41 4 0.03
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (39 bp):
AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAG
Found at i:10195970 original size:78 final size:77
Alignment explanation
Indices: 10195757--10195970 Score: 268
Period size: 78 Copynumber: 2.7 Consensus size: 77
10195747 CGTTTGGACA
* * *** * *
10195757 AAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTCAACATAAAACGCCGCCAAAGATCGAGCAT
1 AAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCG-TTTTCAAAAAACGCCG-CAAAAATCGAGCAT
10195822 TAGCGGCGCTTTCAG
63 TAGCGGCGCTTTCAG
* *
10195837 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGCTTTCAGAAAAGCGCCGCTAAAAAT-GAGCATT
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGTTTTCA-AAAAACGCCGC-AAAAATCGAGCATT
10195901 AGCGGCGCTTTCAG
64 AGCGGCGCTTTCAG
*
10195915 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGTTTTTTCAAAAAACACCGCAAAAA
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCG--TTTTCAAAAAACGCCGCAAAAA
10195971 ACCTAAGCCC
Statistics
Matches: 118, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 61 0.52
79 36 0.31
80 21 0.18
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (77 bp):
AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGTTTTCAAAAAACGCCGCAAAAATCGAGCATTAG
CGGCGCTTTCAG
Found at i:10196065 original size:41 final size:41
Alignment explanation
Indices: 10196009--10196242 Score: 328
Period size: 41 Copynumber: 5.7 Consensus size: 41
10195999 CCATTTGGGG
* * **
10196009 CTTTAGCGACATTTTTTCAAAAGCGCCGCTAATGCTCTAG-C
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-AGAC
* *
10196050 TTTTAGCGGCGTTTTT-AATAAAGCGTCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCAGAC
10196091 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAC
10196132 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAC
* **
10196173 CTTTAGCGGCGTTTTCGAAAAAGCGCCGCTAATGCTCAGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAC
* * *
10196214 CTTTAGTGGCGCTTTTCAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
10196243 AAAAACATTT
Statistics
Matches: 176, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 3 0.02
41 171 0.97
42 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAC
Found at i:10196878 original size:7 final size:7
Alignment explanation
Indices: 10196864--10196906 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
10196854 ATTGTAAAAG
10196864 AGGGGTT
1 AGGGGTT
*
10196871 ATGGGTT
1 AGGGGTT
*
10196878 AAGGGTT
1 AGGGGTT
*
10196885 AGAGGTT
1 AGGGGTT
10196892 AGGGGTT
1 AGGGGTT
10196899 AGGGGTT
1 AGGGGTT
10196906 A
1 A
10196907 CGAGTTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.30
Consensus pattern (7 bp):
AGGGGTT
Found at i:10196892 original size:21 final size:22
Alignment explanation
Indices: 10196867--10196916 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
10196857 GTAAAAGAGG
10196867 GGTTATGGGTTAAGGGTTA-GA
1 GGTTATGGGTTAAGGGTTACGA
* *
10196888 GGTTAGGGGTTAGGGGTTACGA
1 GGTTATGGGTTAAGGGTTACGA
*
10196910 GTTTATG
1 GGTTATG
10196917 TTTTATGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (22 bp):
GGTTATGGGTTAAGGGTTACGA
Found at i:10197175 original size:17 final size:17
Alignment explanation
Indices: 10197155--10197189 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10197145 CAATTTTATT
10197155 ATAGTTTAAATTATTAA
1 ATAGTTTAAATTATTAA
10197172 ATAGTTTAAATTATTAA
1 ATAGTTTAAATTATTAA
10197189 A
1 A
10197190 ATATACTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATAGTTTAAATTATTAA
Found at i:10197255 original size:14 final size:14
Alignment explanation
Indices: 10197238--10197275 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
10197228 ATAAAAATCC
10197238 AGTTTATAAAAAAT
1 AGTTTATAAAAAAT
10197252 AG-TTATAAAAAAT
1 AGTTTATAAAAAAT
*
10197265 ATTTTATAAAA
1 AGTTTATAAAA
10197276 TCACATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
AGTTTATAAAAAAT
Found at i:10197822 original size:128 final size:130
Alignment explanation
Indices: 10197592--10197852 Score: 481
Period size: 128 Copynumber: 2.0 Consensus size: 130
10197582 AGTAGCTAAA
10197592 TCCCTAGAAACAACGAACTCGCCTTCAACCTTCTTCTTCAAACCAGGTCCCCCTCTCTCTCTTGC
1 TCCCTAGAAACAACGAACTCGCCTTCAACCTTCTTCTTCAAACCAGGTCCCCCTCTCTCTCTTGC
10197657 TCCCTCTTTGCTTTTTTGCCTGATTTTTTTGTTTTTTTCTTAGATGAGTCCCTGGATGGTTGGAG
66 TCCCTCTTTGCTTTTTTGCCTGATTTTTTTGTTTTTTTCTTAGATGAGTCCCTGGATGGTTGGAG
*
10197722 TCCCTAG-AA-AACGAACTCGCCTTCAACCTTCTTCTTCAAACCAGTTCCCCCTCTCTCTCTTGC
1 TCCCTAGAAACAACGAACTCGCCTTCAACCTTCTTCTTCAAACCAGGTCCCCCTCTCTCTCTTGC
*
10197785 TCTCTCTTTGCTTTTTTGCCTGATTTTTTTTGTTTTTTTCTTAGATGAGTCCCTGGATGGTTGGA
66 TCCCTCTTTGCTTTTTTGCCTGA-TTTTTTTGTTTTTTTCTTAGATGAGTCCCTGGATGGTTGGA
10197850 G
130 G
10197851 TC
1 TC
10197853 TTATTGTTTC
Statistics
Matches: 128, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
128 75 0.59
129 46 0.36
130 7 0.05
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.41
Consensus pattern (130 bp):
TCCCTAGAAACAACGAACTCGCCTTCAACCTTCTTCTTCAAACCAGGTCCCCCTCTCTCTCTTGC
TCCCTCTTTGCTTTTTTGCCTGATTTTTTTGTTTTTTTCTTAGATGAGTCCCTGGATGGTTGGAG
Found at i:10201770 original size:65 final size:67
Alignment explanation
Indices: 10201695--10201827 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 67
10201685 TATTTATCAT
* *
10201695 ACAAATAAATATTATTTAATT-AA-TTTTTTTTAAAAGTCATGATTTTAGTGGTGTTTGTCAAAA
1 ACAAATAAATATTATTTAATTAAACATTTTTTTAAAAGTCATGATTTTAGTGGCGTTTGTCAAAA
10201758 AA
66 AA
*
10201760 ACAAATAAATATTATTTAATTAAAACATTTTTTTAAAAGTCATGTTTTTAGTGGCGTTTGTCAAA
1 ACAAATAAATATTATTTAATT-AAACATTTTTTTAAAAGTCATGATTTTAGTGGCGTTTGTCAAA
10201825 AAA
65 AAA
10201828 GCGCCGCTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
65 21 0.34
67 2 0.03
68 39 0.63
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.43
Consensus pattern (67 bp):
ACAAATAAATATTATTTAATTAAACATTTTTTTAAAAGTCATGATTTTAGTGGCGTTTGTCAAAA
AA
Found at i:10201914 original size:43 final size:43
Alignment explanation
Indices: 10201806--10202118 Score: 326
Period size: 43 Copynumber: 7.3 Consensus size: 43
10201796 AAGTCATGTT
* *** * * *
10201806 TTTAGTGGCGTTTGTCAAAAAAGCGCCGCTAAAAGTCAT-CT-
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * * * * *
10201847 TTATAGTGGCGTTTGTTGTAGAAGCGTCGCTAAAGGTCATGATC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
** * * **
10201891 TTTAGCGGCGTTTGTGCTAGAAGCGCCGCTAAAGAT-TATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGGTC
*
10201934 TTTAGCGGCGTTTGTGGGACAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
10201977 TTCAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAAGTCTTCGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
10202020 TTTTGCGGCGTTTGTGGGAAATGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10202063 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10202106 TTTAGCAGCGTTT
1 TTTAGCGGCGTTT
10202119 TTTTCTAAAA
Statistics
Matches: 231, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.01
42 31 0.13
43 195 0.84
44 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:10206624 original size:32 final size:32
Alignment explanation
Indices: 10206581--10206645 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
10206571 GCTATATCCC
10206581 TCCTCCAATCGGGTACATGT-C-AATGGCATAAG
1 TCCTCCAATC-GG-ACATGTGCAAATGGCATAAG
* *
10206613 TCCTCCGATCGGATATGTGCAAATGGCATAAG
1 TCCTCCAATCGGACATGTGCAAATGGCATAAG
10206645 T
1 T
10206646 AACGTTGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.17
31 3 0.10
32 21 0.72
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (32 bp):
TCCTCCAATCGGACATGTGCAAATGGCATAAG
Found at i:10207655 original size:20 final size:20
Alignment explanation
Indices: 10207626--10207665 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10207616 GGACTAAATT
*
10207626 GAAAAGATTTAAAATTTATG
1 GAAAAAATTTAAAATTTATG
* *
10207646 GAAAAAATTTGAATTTTATG
1 GAAAAAATTTAAAATTTATG
10207666 AAAGACATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
GAAAAAATTTAAAATTTATG
Found at i:10208194 original size:24 final size:24
Alignment explanation
Indices: 10208167--10208264 Score: 81
Period size: 24 Copynumber: 4.0 Consensus size: 24
10208157 AGCGTCCCGT
*
10208167 TATTAACTCTCATGAGCATCCTGA
1 TATTAGCTCTCATGAGCATCCTGA
* * *
10208191 TATTGGCTCTCTTGAGCTTCCTGA
1 TATTAGCTCTCATGAGCATCCTGA
* * * *
10208215 TGTATGGCTCTCATGAGC-TTCTCGT
1 TAT-TAGCTCTCATGAGCATCCT-GA
* *
10208240 TATTAGCTCTTATGAGCATCTTGA
1 TATTAGCTCTCATGAGCATCCTGA
10208264 T
1 T
10208265 TTGGTTGTGA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 39 0.68
25 18 0.32
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (24 bp):
TATTAGCTCTCATGAGCATCCTGA
Found at i:10208231 original size:25 final size:24
Alignment explanation
Indices: 10208173--10208235 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
10208163 CCGTTATTAA
*
10208173 CTCTCATGAGCATCCTGATATTGG
1 CTCTCATGAGCTTCCTGATATTGG
* *
10208197 CTCTCTTGAGCTTCCTGATGTATGG
1 CTCTCATGAGCTTCCTGATAT-TGG
10208222 CTCTCATGAGCTTC
1 CTCTCATGAGCTTC
10208236 TCGTTATTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.37
Consensus pattern (24 bp):
CTCTCATGAGCTTCCTGATATTGG
Found at i:10208354 original size:25 final size:25
Alignment explanation
Indices: 10208326--10208398 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 25
10208316 CCCGATATAT
*
10208326 GGCTCTCCGGAGCTTCCTGATTAAA
1 GGCTCTCCAGAGCTTCCTGATTAAA
* *
10208351 GGCTCTCGCATGAGCTTCCTAATTAAT
1 GGCTCTC-CA-GAGCTTCCTGATTAAA
* *
10208378 GGCTCCCCAGAGCTTTCTGAT
1 GGCTCTCCAGAGCTTCCTGAT
10208399 AATTATCTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 17 0.43
26 3 0.08
27 20 0.50
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (25 bp):
GGCTCTCCAGAGCTTCCTGATTAAA
Found at i:10208449 original size:25 final size:25
Alignment explanation
Indices: 10208410--10208479 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
10208400 ATTATCTCGT
* *
10208410 AAGAGCTTTCTGTTACATGGCTCAC
1 AAGAGCTTCCCGTTACATGGCTCAC
* * * *
10208435 ATGAGCTTCCCGTTATATGGTTCAG
1 AAGAGCTTCCCGTTACATGGCTCAC
10208460 AAGAGCTTCCCGTTTACATG
1 AAGAGCTTCCCG-TTACATG
10208480 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 30 0.83
26 6 0.17
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (25 bp):
AAGAGCTTCCCGTTACATGGCTCAC
Found at i:10217412 original size:44 final size:45
Alignment explanation
Indices: 10217349--10217446 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 45
10217339 CTATTACACC
*
10217349 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
10217393 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
* *
10217438 ACCAATACA
1 TCCATTACA
10217447 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.29
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:10223688 original size:44 final size:45
Alignment explanation
Indices: 10223625--10223722 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 45
10223615 CTATTACACC
*
10223625 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
10223669 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
* *
10223714 ACCAATACA
1 TCCATTACA
10223723 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.29
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:10226971 original size:15 final size:15
Alignment explanation
Indices: 10226950--10226980 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
10226940 TGATTTTGTC
10226950 AAAAAAAAGAATCTAT
1 AAAAAAAA-AATCTAT
10226966 AAAAAAAAAATCTAT
1 AAAAAAAAAATCTAT
10226981 CCATTCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAAAAAAAATCTAT
Found at i:10233286 original size:101 final size:99
Alignment explanation
Indices: 10233138--10233327 Score: 240
Period size: 101 Copynumber: 1.9 Consensus size: 99
10233128 CCTTTTGTGC
* ** * **
10233138 CATAGTCCAACTATGGTCTTACACATGCATTGCCATGGCTCTGCCATGGTCTTATATTTGTAGTA
1 CATAGTCCAACTATGGTCTTACACATACATTGCCATGGCTCAACCATGGTCTTACATTCATAGTA
*
10233203 TCATAACCCAGTTATGGTCTTATCATCAGAATGT
66 CCATAACCCAGTTATGGTCTTATCATCAGAATGT
* *
10233237 CATA-TCCAAACTATGGTCTTACATATAAACATTGCCATGG-TCCAACCATGGTCTTACGTTCAT
1 CATAGTCC-AACTATGGTCTTACACAT--ACATTGCCATGGCT-CAACCATGGTCTTACATTCAT
*
10233300 AGTGCCATAACCCAGTTATGGTCTTATC
62 AGTACCATAACCCAGTTATGGTCTTATC
10233328 CGTCAATTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
98 3 0.04
99 21 0.27
100 1 0.01
101 52 0.68
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (99 bp):
CATAGTCCAACTATGGTCTTACACATACATTGCCATGGCTCAACCATGGTCTTACATTCATAGTA
CCATAACCCAGTTATGGTCTTATCATCAGAATGT
Found at i:10233550 original size:2 final size:2
Alignment explanation
Indices: 10233543--10233571 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10233533 CAATAATAGA
10233543 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10233572 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10240271 original size:14 final size:14
Alignment explanation
Indices: 10240233--10240271 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
10240223 TAGTATTTAT
*
10240233 AAAAATTTAAAATA
1 AAAAATTTAATATA
* *
10240247 ATAAATTTAATCTA
1 AAAAATTTAATATA
10240261 AAAAATTTAAT
1 AAAAATTTAAT
10240272 TAATATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAAATTTAATATA
Found at i:10240457 original size:19 final size:19
Alignment explanation
Indices: 10240426--10240478 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
10240416 CTAAAACACC
10240426 ATTAAAAACTAAAACACAAA
1 ATTAAAAA-TAAAACACAAA
* *
10240446 ATTAAAAATAAATCTCAAA
1 ATTAAAAATAAAACACAAA
* *
10240465 TTTAAAAAAAAAAC
1 ATTAAAAATAAAAC
10240479 TTAAAAAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (19 bp):
ATTAAAAATAAAACACAAA
Found at i:10242803 original size:20 final size:19
Alignment explanation
Indices: 10242778--10242819 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
10242768 GAGTTTTTTT
*
10242778 TTTCAATCGATTTAAAAATG
1 TTTCAATCGAGTTAAAAA-G
10242798 TTTCAATCGAGTTAAAAAG
1 TTTCAATCGAGTTAAAAAG
10242817 TTT
1 TTT
10242820 AAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
TTTCAATCGAGTTAAAAAG
Found at i:10243554 original size:87 final size:87
Alignment explanation
Indices: 10243408--10243582 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
10243398 CCAAGACGCT
10243408 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT
1 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT
*
10243473 CAAACATTTATAGGATTATTGA
66 CAAACATTTATAGGAGTATTGA
10243495 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT
1 ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT
10243560 CAAACATTTATAGGAGTATTGA
66 CAAACATTTATAGGAGTATTGA
10243582 A
1 A
10243583 GCTAAAACAC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.29
Consensus pattern (87 bp):
ACATTAAACCTCACAACTTCATACACATTCACATAGTCACATTTACGTACAACCATCATCACATT
CAAACATTTATAGGAGTATTGA
Found at i:10248352 original size:140 final size:140
Alignment explanation
Indices: 10248192--10248610 Score: 820
Period size: 140 Copynumber: 3.0 Consensus size: 140
10248182 GACGACACAA
10248192 AAAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAA
1 AAAAA-GGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAA
10248257 AATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTA
65 AATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTA
10248322 CAAAACAGTAG
130 CAAAACAGTAG
10248333 AAAAAGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAAA
1 AAAAAGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAAA
10248398 ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTAC
66 ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTAC
10248463 AAAACAGTAG
131 AAAACAGTAG
10248473 AAAAAGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAAA
1 AAAAAGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAAA
*
10248538 ATATGGGCTAATTTTAAAACTTGGTGTGGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTAC
66 ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTAC
10248603 AAAACAGT
131 AAAACAGT
10248611 CATCTTTTTA
Statistics
Matches: 277, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
140 272 0.98
141 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (140 bp):
AAAAAGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAAA
ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTAC
AAAACAGTAG
Found at i:10251415 original size:18 final size:17
Alignment explanation
Indices: 10251382--10251420 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
10251372 TTTTATAAAT
10251382 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
10251400 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
10251417 TGTG
1 TGTG
10251421 GAAGTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:10251673 original size:23 final size:23
Alignment explanation
Indices: 10251646--10251721 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
10251636 AGGGTTTTTG
10251646 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
10251669 TTCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
10251692 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
10251715 ATCAGTG
1 ATCAGTG
10251722 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:10264946 original size:23 final size:22
Alignment explanation
Indices: 10264927--10264970 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10264917 TAAAATAAAT
10264927 AAATAATATTGAAAATAATATAA
1 AAATAATA-TGAAAATAATATAA
*
10264950 ATATAATATG-AAATACATATA
1 AAATAATATGAAAATA-ATATA
10264971 CTTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
AAATAATATGAAAATAATATAA
Found at i:10265381 original size:22 final size:23
Alignment explanation
Indices: 10265344--10265389 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
10265334 CCTAATTTGG
10265344 TACTTAATCTTTTTTGTTCAATT
1 TACTTAATCTTTTTTGTTCAATT
10265367 TACTTAAT-TTTTTTGTTCAATT
1 TACTTAATCTTTTTTGTTCAATT
10265389 T
1 T
10265390 GGTACTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (23 bp):
TACTTAATCTTTTTTGTTCAATT
Found at i:10265818 original size:31 final size:30
Alignment explanation
Indices: 10265776--10265933 Score: 100
Period size: 31 Copynumber: 5.4 Consensus size: 30
10265766 TAAAAAGCTT
*
10265776 AGGTACCAAATTAGGAAAAAATGCCAAGTTC
1 AGGTACTAAATTAGGAAAAAATG-CAAGTTC
* * *
10265807 AGGTACTAAATTGGGCCAAAAA---AA-TTT
1 AGGTACTAAATTAGG-AAAAAATGCAAGTTC
*
10265834 AGGTA-TCAAATTAGGAAAAAGTGTCAAGTTC
1 AGGTACT-AAATTAGGAAAAAATG-CAAGTTC
* * * *
10265865 AGGTACCAAATTGGGCCAAAAA---AA-TTT
1 AGGTACTAAATTAGG-AAAAAATGCAAGTTC
10265892 AGGTACTAAATTAGGAAAAAATGTCAAGTTC
1 AGGTACTAAATTAGGAAAAAATG-CAAGTTC
* *
10265923 ATGTACAAAAT
1 AGGTACTAAAT
10265934 GTTATATTAA
Statistics
Matches: 94, Mismatches: 19, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
26 10 0.11
27 29 0.31
28 4 0.04
30 4 0.04
31 38 0.40
32 9 0.10
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (30 bp):
AGGTACTAAATTAGGAAAAAATGCAAGTTC
Found at i:10265846 original size:58 final size:57
Alignment explanation
Indices: 10265774--10265933 Score: 248
Period size: 58 Copynumber: 2.8 Consensus size: 57
10265764 AATAAAAAGC
* *
10265774 TTAGGTACCAAATTAGGAAAAAATGCCAAGTTCAGGTACTAAATTGGGCCAAAAAAAT
1 TTAGGTA-CAAATTAGGAAAAAATGTCAAGTTCAGGTACAAAATTGGGCCAAAAAAAT
* *
10265832 TTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTGGGCCAAAAAAAT
1 TTAGGTA-CAAATTAGGAAAAAATGTCAAGTTCAGGTACAAAATTGGGCCAAAAAAAT
*
10265890 TTAGGTACTAAATTAGGAAAAAATGTCAAGTTCATGTACAAAAT
1 TTAGGTAC-AAATTAGGAAAAAATGTCAAGTTCAGGTACAAAAT
10265934 GTTATATTAA
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
57 1 0.01
58 93 0.99
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (57 bp):
TTAGGTACAAATTAGGAAAAAATGTCAAGTTCAGGTACAAAATTGGGCCAAAAAAAT
Found at i:10265903 original size:27 final size:27
Alignment explanation
Indices: 10265807--10265903 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 27
10265797 TGCCAAGTTC
10265807 AGGTACTAAATTGGGCCAAAAAAATTT
1 AGGTACTAAATTGGGCCAAAAAAATTT
* *
10265834 AGGTA-TCAAATTAGG--AAAAAGTGTCAAGTTC
1 AGGTACT-AAATTGGGCCAAAAA-----AA-TTT
*
10265865 AGGTACCAAATTGGGCCAAAAAAATTT
1 AGGTACTAAATTGGGCCAAAAAAATTT
10265892 AGGTACTAAATT
1 AGGTACTAAATT
10265904 AGGAAAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
25 5 0.09
26 1 0.02
27 25 0.46
28 2 0.04
30 2 0.04
31 14 0.26
33 5 0.09
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (27 bp):
AGGTACTAAATTGGGCCAAAAAAATTT
Found at i:10265912 original size:27 final size:27
Alignment explanation
Indices: 10265774--10265912 Score: 73
Period size: 27 Copynumber: 4.9 Consensus size: 27
10265764 AATAAAAAGC
* *
10265774 TTAGGTACCAAATTAGGAAAAAATGCCAAGT
1 TTAGGTACTAAATTAGGAAAAAA----AAAT
* * **
10265805 TCAGGTACTAAATTGGGCCAAAAAAAT
1 TTAGGTACTAAATTAGGAAAAAAAAAT
* *
10265832 TTAGGTA-TCAAATTAGGAAAAAGTGTCAAGT
1 TTAGGTACT-AAATTAGGAAAAA----AAAAT
* * * **
10265863 TCAGGTACCAAATTGGGCCAAAAAAAT
1 TTAGGTACTAAATTAGGAAAAAAAAAT
10265890 TTAGGTACTAAATTAGGAAAAAA
1 TTAGGTACTAAATTAGGAAAAAA
10265913 TGTCAAGTTC
Statistics
Matches: 78, Mismatches: 24, Indels: 16
0.66 0.20 0.14
Matches are distributed among these distances:
26 1 0.01
27 40 0.51
31 37 0.47
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (27 bp):
TTAGGTACTAAATTAGGAAAAAAAAAT
Found at i:10266202 original size:21 final size:21
Alignment explanation
Indices: 10266178--10266227 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10266168 TTAACTAATT
10266178 ATTTTTA-AAATTTAAAAATA
1 ATTTTTATAAATTTAAAAATA
* *
10266198 CA-TTTTATAATTTTTAAAATA
1 -ATTTTTATAAATTTAAAAATA
10266219 ATTTTTATA
1 ATTTTTATA
10266228 TATTATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTTATAAATTTAAAAATA
Found at i:10274740 original size:20 final size:20
Alignment explanation
Indices: 10274717--10274754 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10274707 ATTTATAGAC
10274717 ATACATATATACATATATAT
1 ATACATATATACATATATAT
*
10274737 ATACATATTTACATATAT
1 ATACATATATACATATAT
10274755 CTTTGTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (20 bp):
ATACATATATACATATATAT
Found at i:10274744 original size:12 final size:12
Alignment explanation
Indices: 10274710--10274744 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10274700 TTTTACAATT
* *
10274710 TATAGACATACA
1 TATATACATATA
10274722 TATATACATATA
1 TATATACATATA
10274734 TATATACATAT
1 TATATACATAT
10274745 TTACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (12 bp):
TATATACATATA
Found at i:10285049 original size:13 final size:13
Alignment explanation
Indices: 10285031--10285055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10285021 ATTTTCTATC
10285031 TCAAGTTCAATTT
1 TCAAGTTCAATTT
10285044 TCAAGTTCAATT
1 TCAAGTTCAATT
10285056 ACCCATTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:10285125 original size:14 final size:14
Alignment explanation
Indices: 10285106--10285143 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
10285096 AAAATATCAT
10285106 ATTAATTTTAATTA
1 ATTAATTTTAATTA
10285120 ATTAATTTT-ATTA
1 ATTAATTTTAATTA
10285133 ATTTAATTTTA
1 A-TTAATTTTA
10285144 CTTTATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTAATTTTAATTA
Found at i:10286770 original size:22 final size:22
Alignment explanation
Indices: 10286745--10286803 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
10286735 GATGAAATTT
10286745 GAGTTTTACTCCAATAGTATTG
1 GAGTTTTACTCCAATAGTATTG
*
10286767 GAGTTTTACTCAAATAGTATTG
1 GAGTTTTACTCCAATAGTATTG
10286789 GAGTTTTACTCCAAT
1 GAGTTTTACTCCAAT
10286804 TTGAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (22 bp):
GAGTTTTACTCCAATAGTATTG
Found at i:10288349 original size:23 final size:23
Alignment explanation
Indices: 10288318--10288361 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10288308 CATGGAGGAC
10288318 ACAAGGGTTGAAATGCAAAAAAA
1 ACAAGGGTTGAAATGCAAAAAAA
*
10288341 ACAATGGTTGAAATGCAAAAA
1 ACAAGGGTTGAAATGCAAAAA
10288362 GAAAAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (23 bp):
ACAAGGGTTGAAATGCAAAAAAA
Found at i:10288417 original size:15 final size:15
Alignment explanation
Indices: 10288392--10288426 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10288382 GACTCTATTT
*
10288392 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
10288406 TAATTAATATTAAGA
1 TAATTAATATTAAGA
10288421 TAATTA
1 TAATTA
10288427 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:10291976 original size:43 final size:43
Alignment explanation
Indices: 10291924--10292236 Score: 398
Period size: 43 Copynumber: 7.3 Consensus size: 43
10291914 TTTTAGAAAT
*
10291924 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTACCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
*
10291967 AAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTCTTA-CCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TTACCCAC
* *
10292010 AAACTCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * * *
10292053 AAGCGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * * *
10292096 AAGCGCTGCTAAAGACCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * * * *
10292139 AAACGCCGCTATAGACCAAGATCTTTAGTGGGGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
* * **
10292182 AAACGCCGCTATAGA--ATAGACCTTTAGCGGCGCTTTTCAGAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTACCCAC
10292224 AAACGCCGCTAAA
1 AAACGCCGCTAAA
10292237 ATTATATATT
Statistics
Matches: 240, Mismatches: 27, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
41 1 0.00
42 35 0.15
43 201 0.84
44 3 0.01
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACCCAC
Found at i:10296941 original size:7 final size:7
Alignment explanation
Indices: 10296931--10296975 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
10296921 CACTAACTCT
*
10296931 TAACCTC
1 TAACCCC
10296938 TAACCCC
1 TAACCCC
*
10296945 TAACCCT
1 TAACCCC
10296952 TAACCCC
1 TAACCCC
**
10296959 TAACTAC
1 TAACCCC
10296966 TAACCCC
1 TAACCCC
10296973 TAA
1 TAA
10296976 ACTTTATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:10296947 original size:21 final size:21
Alignment explanation
Indices: 10296923--10296971 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10296913 TCCCCAATCA
* *
10296923 CTAACTCTTAACCTCTAACCC
1 CTAACCCTTAACCCCTAACCC
**
10296944 CTAACCCTTAACCCCTAACTA
1 CTAACCCTTAACCCCTAACCC
10296965 CTAACCC
1 CTAACCC
10296972 CTAAACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.45, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAACCCTTAACCCCTAACCC
Found at i:10298965 original size:45 final size:45
Alignment explanation
Indices: 10298879--10298965 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
10298869 TGTGAACTGA
* * * *
10298879 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTTATTCCACAGG
1 ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCACAGG
10298924 ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCAC
10298966 TGAGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAACGTGGTTGCTATGTGCTGAATCCACAGG
Found at i:10303301 original size:5 final size:5
Alignment explanation
Indices: 10303253--10303339 Score: 56
Period size: 5 Copynumber: 17.4 Consensus size: 5
10303243 AACCCAATTT
* * *
10303253 TTTTA TTTT- TTTGTT TTTTA TTAT- TTTTA TTATT- TTTAA TTTTA TTTTA
1 TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
* * *
10303302 TTTT- CTTTA CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
10303340 ATTTATTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
4 10 0.15
5 45 0.69
6 7 0.11
7 3 0.05
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:10303325 original size:12 final size:12
Alignment explanation
Indices: 10303308--10303354 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
10303298 TTTATTTTCT
10303308 TTACTTTATTTA
1 TTACTTTATTTA
10303320 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
10303333 TT-TTATTATTTA
1 TTACT-TTATTTA
10303345 TTAC-TTATTT
1 TTACTTTATTT
10303355 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:10303526 original size:21 final size:22
Alignment explanation
Indices: 10303500--10303558 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
10303490 GCCAAGAATG
*
10303500 CCTGCAGCCAACCACCC-TATT
1 CCTGCAGCCAACCACCCTTATC
10303521 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCCTTATC
* *
10303543 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
10303559 ACCCCTCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.24, C:0.51, G:0.10, T:0.15
Consensus pattern (22 bp):
CCTGCAGCCAACCACCCTTATC
Found at i:10303779 original size:21 final size:22
Alignment explanation
Indices: 10303753--10303811 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
10303743 GCCAAGAATG
*
10303753 CCTGCAGCCAACCACCC-TATT
1 CCTGCAGCCAACCACCCTTATC
10303774 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCCTTATC
* *
10303796 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
10303812 ACCCCTCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.24, C:0.51, G:0.10, T:0.15
Consensus pattern (22 bp):
CCTGCAGCCAACCACCCTTATC
Found at i:10303823 original size:253 final size:254
Alignment explanation
Indices: 10303364--10303871 Score: 1009
Period size: 253 Copynumber: 2.0 Consensus size: 254
10303354 TGGATATTAA
10303364 TAAATTTCTCTTCTTTTGCTTAGATAAAACAGAGCGAAAATGCGAAAAAAAAGGAAAAAGCTAAA
1 TAAATTTCTCTTCTTTTGCTTAGATAAAACAGAGCGAAAATGCGAAAAAAAAGGAAAAAGCTAAA
10303429 AAAAAGAACCAAACAACCCTATCCATGGTACCAAACAACCTCTATTCCAGATACTATTCCAGCCA
66 AAAAAGAACCAAACAACCCTATCCATGGTACCAAACAACCTCTATTCCAGATACTATTCCAGCCA
10303494 AGAATGCCTGCAGCCAACCACCCTATTCCTGCAGCCAACCACCCTTATCCCTGCACCCAAGCACC
131 AGAATGCCTGCAGCCAACCACCCTATTCCTGCAGCCAACCACCCTTATCCCTGCACCCAAGCACC
10303559 ACCCCTCAGCACAAATTAACCCCCCAACCCTAAAATTTTAAAACATTTTTCTTTCATTT
196 ACCCCTCAGCACAAATTAACCCCCCAACCCTAAAATTTTAAAACATTTTTCTTTCATTT
10303618 TAAATTTCTC-TCTTTTGCTTAGATAAAACAGAGCGAAAATGCGAAAAAAAAGGAAAAAGCTAAA
1 TAAATTTCTCTTCTTTTGCTTAGATAAAACAGAGCGAAAATGCGAAAAAAAAGGAAAAAGCTAAA
10303682 AAAAAGAACCAAACAACCCTATCCATGGTACCAAACAACCTCTATTCCAGATACTATTCCAGCCA
66 AAAAAGAACCAAACAACCCTATCCATGGTACCAAACAACCTCTATTCCAGATACTATTCCAGCCA
10303747 AGAATGCCTGCAGCCAACCACCCTATTCCTGCAGCCAACCACCCTTATCCCTGCACCCAAGCACC
131 AGAATGCCTGCAGCCAACCACCCTATTCCTGCAGCCAACCACCCTTATCCCTGCACCCAAGCACC
10303812 ACCCCTCAGCACAAATTAACCCCCCAACCCTAAAATTTTAAAACATTTTTCTTTCATTT
196 ACCCCTCAGCACAAATTAACCCCCCAACCCTAAAATTTTAAAACATTTTTCTTTCATTT
10303871 T
1 T
10303872 CCCACAAAAC
Statistics
Matches: 254, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
253 244 0.96
254 10 0.04
ACGTcount: A:0.37, C:0.31, G:0.09, T:0.22
Consensus pattern (254 bp):
TAAATTTCTCTTCTTTTGCTTAGATAAAACAGAGCGAAAATGCGAAAAAAAAGGAAAAAGCTAAA
AAAAAGAACCAAACAACCCTATCCATGGTACCAAACAACCTCTATTCCAGATACTATTCCAGCCA
AGAATGCCTGCAGCCAACCACCCTATTCCTGCAGCCAACCACCCTTATCCCTGCACCCAAGCACC
ACCCCTCAGCACAAATTAACCCCCCAACCCTAAAATTTTAAAACATTTTTCTTTCATTT
Found at i:10304948 original size:20 final size:19
Alignment explanation
Indices: 10304925--10304969 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
10304915 TTCCTAAACC
10304925 ATAAA-AAATATAAATAATAA
1 ATAAACAAA-ATAAA-AATAA
10304945 ATAAATCAAAATAAAAATAA
1 ATAAA-CAAAATAAAAATAA
10304965 ATAAA
1 ATAAA
10304970 TAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 15 0.65
21 5 0.22
22 3 0.13
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAACAAAATAAAAATAA
Found at i:10304949 original size:27 final size:28
Alignment explanation
Indices: 10304919--10304973 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
10304909 AGTATATTCC
*
10304919 TAAACCATAAA-AAATATAAAT-AATAAA
1 TAAACCA-AAATAAAAATAAATAAATAAA
*
10304946 TAAATCAAAATAAAAATAAATAAATAAA
1 TAAACCAAAATAAAAATAAATAAATAAA
10304974 GAAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (28 bp):
TAAACCAAAATAAAAATAAATAAATAAA
Found at i:10304967 original size:24 final size:23
Alignment explanation
Indices: 10304929--10304973 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
10304919 TAAACCATAA
*
10304929 AAAATATAAATAATAAATAAATC
1 AAAATAAAAATAATAAATAAATC
10304952 AAAATAAAAATAAATAAATAAA
1 AAAATAAAAAT-AATAAATAAA
10304974 GAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAATAAAAATAATAAATAAATC
Found at i:10304981 original size:14 final size:14
Alignment explanation
Indices: 10304925--10304973 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
10304915 TTCCTAAACC
*
10304925 ATAAAAA-ATATAA
1 ATAAAAATAAATAA
10304938 ATAATAAATAAATCAAA
1 ATAA-AAATAAAT--AA
10304955 ATAAAAATAAATAA
1 ATAAAAATAAATAA
10304969 ATAAA
1 ATAAA
10304974 GAAAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 3 0.10
16 8 0.26
17 6 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:10304988 original size:24 final size:24
Alignment explanation
Indices: 10304928--10304988 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
10304918 CTAAACCATA
*
10304928 AAAAATATAAAT-AATAAATAAAT
1 AAAAATATAAATAAATAAATAAAG
* *
10304951 CAAAATAAAAATAAATAAATAAAG
1 AAAAATATAAATAAATAAATAAAG
*
10304975 AAAAATATATATAA
1 AAAAATATAAATAA
10304989 TTTGGGGACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 10 0.32
24 21 0.68
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAATATAAATAAATAAATAAAG
Found at i:10308779 original size:21 final size:21
Alignment explanation
Indices: 10308754--10308934 Score: 148
Period size: 21 Copynumber: 8.6 Consensus size: 21
10308744 GAAACCTGAA
* *
10308754 AGCTAAACAGAAGCTCATGAG
1 AGCTAAACAGAAACTCATAAG
10308775 AGCTAAACAGAAACTCATGAA-
1 AGCTAAACAGAAACTCAT-AAG
* * *
10308796 AGTTAAACAAAAACTTATAAG
1 AGCTAAACAGAAACTCATAAG
* * * * *
10308817 GGTTAAGCAGAAGCTCGTAAG
1 AGCTAAACAGAAACTCATAAG
*
10308838 AGCTAAACAGAAACTCTTAAG
1 AGCTAAACAGAAACTCATAAG
* * * * *
10308859 AGTTGAATAGAAGCTCAAAAG
1 AGCTAAACAGAAACTCATAAG
* *
10308880 AGCTGAACGGAAACTCATAAG
1 AGCTAAACAGAAACTCATAAG
* *
10308901 AGTTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAACTCATAAG
* *
10308922 TGCTGAACAGAAA
1 AGCTAAACAGAAA
10308935 GTAAAGCATG
Statistics
Matches: 123, Mismatches: 35, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
20 2 0.02
21 120 0.98
22 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATAAG
Found at i:10309428 original size:18 final size:18
Alignment explanation
Indices: 10309400--10309434 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
10309390 CTAGTTAATC
10309400 TATCAAATTAACTAATTTT
1 TATCAAATTAA-TAATTTT
10309419 TATC-AATTAATAATTT
1 TATCAAATTAATAATTT
10309435 ATCTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TATCAAATTAATAATTTT
Found at i:10310452 original size:16 final size:16
Alignment explanation
Indices: 10310431--10310487 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
10310421 TTTGGTTCGC
*
10310431 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
10310447 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
10310463 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
10310479 TGTAATGGA
1 TGTAATGGA
10310488 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:10310754 original size:18 final size:17
Alignment explanation
Indices: 10310733--10310767 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10310723 TTATTATTAA
*
10310733 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10310751 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10310768 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.