Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 81 of 97
Found at i:32055277 original size:18 final size:18
Alignment explanation
Indices: 32055237--32055280 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
32055227 AGTTTGTTCA
*
32055237 TTTAAATTATATTTAATT
1 TTTAAAATATATTTAATT
*
32055255 GTTAAAATAT-TTTATATT
1 TTTAAAATATATTTA-ATT
32055273 TTTAAAAT
1 TTTAAAAT
32055281 GTACTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTAAAATATATTTAATT
Found at i:32056047 original size:26 final size:26
Alignment explanation
Indices: 32055937--32056102 Score: 79
Period size: 26 Copynumber: 6.1 Consensus size: 26
32055927 AAAATATTAA
* *
32055937 TATTACACGTCATAATTAAAAAAAAT
1 TATTACACGTCATAAATAAAAAATAT
* *
32055963 TATTACTCGTAATGTTAAA-AAGAAATATTAT
1 TATTACACGTCA---TAAATAA-AAA-A-TAT
** *
32055994 TATTACACGTCATGTAT-AAAAACA-
1 TATTACACGTCATAAATAAAAAATAT
*
32056018 TGTTACACGTCATAAATAAAAAATAT
1 TATTACACGTCATAAATAAAAAATAT
* * * *
32056044 TGTTGCAAGCCATATTGAA-AAAAAATAGT
1 TATTACACGTCATA---AATAAAAAATA-T
* *
32056073 TATTACACGTCATATACAAAAACATAT
1 TATTACACGTCATAAATAAAAA-ATAT
32056100 TAT
1 TAT
32056103 ACGTCGTGTT
Statistics
Matches: 104, Mismatches: 21, Indels: 29
0.68 0.14 0.19
Matches are distributed among these distances:
24 14 0.13
25 7 0.07
26 23 0.22
27 12 0.12
28 16 0.15
29 19 0.18
30 1 0.01
31 12 0.12
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (26 bp):
TATTACACGTCATAAATAAAAAATAT
Found at i:32056758 original size:24 final size:25
Alignment explanation
Indices: 32056731--32056786 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
32056721 TTAAAAATAA
32056731 TTAAATTTA-TTATAATAAATATTT
1 TTAAATTTACTTATAATAAATATTT
* * *
32056755 TTAAA-ATACTTTATAATAATTTTTT
1 TTAAATTTAC-TTATAATAAATATTT
32056780 TTAAATT
1 TTAAATT
32056787 AAAATTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.08
24 5 0.20
25 18 0.72
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAATTTACTTATAATAAATATTT
Found at i:32078139 original size:17 final size:17
Alignment explanation
Indices: 32078117--32078150 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32078107 CAACTTCCTA
32078117 TGTGAGCACGGGAGAGC
1 TGTGAGCACGGGAGAGC
32078134 TGTGAGCACGGGAGAGC
1 TGTGAGCACGGGAGAGC
32078151 AGTCAGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.47, T:0.12
Consensus pattern (17 bp):
TGTGAGCACGGGAGAGC
Found at i:32078158 original size:17 final size:17
Alignment explanation
Indices: 32078121--32078158 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
32078111 TTCCTATGTG
* *
32078121 AGCACGGGAGAGCTGTG
1 AGCACGGGAGAGCAGTC
32078138 AGCACGGGAGAGCAGTC
1 AGCACGGGAGAGCAGTC
32078155 AGCA
1 AGCA
32078159 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.42, T:0.08
Consensus pattern (17 bp):
AGCACGGGAGAGCAGTC
Found at i:32092268 original size:23 final size:24
Alignment explanation
Indices: 32092242--32092294 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
32092232 ATCTATAATT
*
32092242 ATAAAAATAATTATAACAAA-ATA
1 ATAAAAATAATAATAACAAATATA
* *
32092265 ATAATAATAATAATATCAAATATA
1 ATAAAAATAATAATAACAAATATA
32092289 ATAAAA
1 ATAAAA
32092295 TTTAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAATAACAAATATA
Found at i:32092279 original size:12 final size:12
Alignment explanation
Indices: 32092236--32092294 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
32092226 TTTAAAATCT
*
32092236 ATAATTATAAAA
1 ATAATAATAAAA
* *
32092248 ATAATTATAACA
1 ATAATAATAAAA
*
32092260 A-AATAATAATA
1 ATAATAATAAAA
*
32092271 ATAATAATATCAA
1 ATAATAATA-AAA
32092284 AT-ATAATAAAA
1 ATAATAATAAAA
32092295 TTTAATATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 11 0.28
12 25 0.64
13 3 0.08
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATAATAAAA
Found at i:32092456 original size:18 final size:18
Alignment explanation
Indices: 32092433--32092487 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
32092423 AACGTGTCAT
32092433 GTATACACGTTTAAACAC
1 GTATACACGTTTAAACAC
*
32092451 GTATACACGTTTAAATAC
1 GTATACACGTTTAAACAC
*
32092469 ATATACACGTTTAAACAC
1 GTATACACGTTTAAACAC
32092487 G
1 G
32092488 ATAACATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (18 bp):
GTATACACGTTTAAACAC
Found at i:32092717 original size:22 final size:22
Alignment explanation
Indices: 32092692--32092735 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
32092682 CTACAGCCGC
32092692 CCCCCCCCCCCTCCCCGGCACA
1 CCCCCCCCCCCTCCCCGGCACA
32092714 CCCCCCCCCCCTCCCCGGCACA
1 CCCCCCCCCCCTCCCCGGCACA
32092736 AAAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.77, G:0.09, T:0.05
Consensus pattern (22 bp):
CCCCCCCCCCCTCCCCGGCACA
Found at i:32096631 original size:2 final size:2
Alignment explanation
Indices: 32096624--32096655 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32096614 CAAAGATTTA
32096624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32096656 TAATGAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32102795 original size:27 final size:27
Alignment explanation
Indices: 32102764--32102829 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
32102754 AGAAATGAAG
32102764 CCAGTCATCCTCCTCCTCTTCCTCGAA
1 CCAGTCATCCTCCTCCTCTTCCTCGAA
32102791 CCAGTCATCCTCCTCCTCTTCCTCGAA
1 CCAGTCATCCTCCTCCTCTTCCTCGAA
32102818 CCAGTCATCCTC
1 CCAGTCATCCTC
32102830 TTCATCAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.15, C:0.48, G:0.08, T:0.29
Consensus pattern (27 bp):
CCAGTCATCCTCCTCCTCTTCCTCGAA
Found at i:32108278 original size:2 final size:2
Alignment explanation
Indices: 32108271--32108299 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32108261 ATGACACAAC
32108271 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32108300 CAGATTTTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32118732 original size:21 final size:21
Alignment explanation
Indices: 32118713--32118825 Score: 117
Period size: 21 Copynumber: 5.5 Consensus size: 21
32118703 ATCTTAAACT
*
32118713 GATTCAAGAAACCCTAAAA-C
1 GATTCAACAAACCCTAAAATC
* *
32118733 AGATTTATCAAACCCTAAAATC
1 -GATTCAACAAACCCTAAAATC
*
32118755 GATTCACCAAACCCTAAAATC
1 GATTCAACAAACCCTAAAATC
*
32118776 GATTCGA-AAACCCTAAAATC
1 GATTCAACAAACCCTAAAATC
**
32118796 GATT-ATGAAACCCTAAAATC
1 GATTCAACAAACCCTAAAATC
*
32118816 AATTC-ACAAA
1 GATTCAACAAA
32118826 ATTCTTGAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
20 36 0.47
21 40 0.52
22 1 0.01
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.21
Consensus pattern (21 bp):
GATTCAACAAACCCTAAAATC
Found at i:32118753 original size:62 final size:63
Alignment explanation
Indices: 32118659--32118822 Score: 158
Period size: 62 Copynumber: 2.7 Consensus size: 63
32118649 TTAATTCGTC
* * * * * * * * * *
32118659 AAACCCTAAAACCA-ATTTACCAAACTCAAAAATTGGTTTACTAAATCTTAAACT-GATTCAA
1 AAACCCTAAAACCAGATTTATCAAACCCTAAAATCGATTCACCAAACCCTAAAATCGATTCAA
*
32118720 GAAACCCTAAAA-CAGATTTATCAAACCCTAAAATCGATTCACCAAACCCTAAAATCGATTCGA
1 -AAACCCTAAAACCAGATTTATCAAACCCTAAAATCGATTCACCAAACCCTAAAATCGATTCAA
* * *
32118783 AAACCCTAAAATC-GA-TTATGAAACCCTAAAATCAATTCAC
1 AAACCCTAAAACCAGATTTATCAAACCCTAAAATCGATTCAC
32118823 AAAATTCTTG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
61 25 0.29
62 54 0.63
63 7 0.08
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (63 bp):
AAACCCTAAAACCAGATTTATCAAACCCTAAAATCGATTCACCAAACCCTAAAATCGATTCAA
Found at i:32118788 original size:20 final size:20
Alignment explanation
Indices: 32118742--32118820 Score: 99
Period size: 20 Copynumber: 3.9 Consensus size: 20
32118732 CAGATTTATC
32118742 AAACCCTAAAATCGATTC-A
1 AAACCCTAAAATCGATTCGA
32118761 CCAAACCCTAAAATCGATTCGA
1 --AAACCCTAAAATCGATTCGA
*
32118783 AAACCCTAAAATCGATTATG-
1 AAACCCTAAAATCGATT-CGA
*
32118803 AAACCCTAAAATCAATTC
1 AAACCCTAAAATCGATTC
32118821 ACAAAATTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
20 33 0.62
21 19 0.36
22 1 0.02
ACGTcount: A:0.46, C:0.27, G:0.06, T:0.22
Consensus pattern (20 bp):
AAACCCTAAAATCGATTCGA
Found at i:32118799 original size:41 final size:40
Alignment explanation
Indices: 32118742--32118820 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
32118732 CAGATTTATC
*
32118742 AAACCCTAAAATCGATTCACCAAACCCTAAAATCGATTCGA
1 AAACCCTAAAATCGATT-ACCAAACCCTAAAATCAATTCGA
**
32118783 AAACCCTAAAATCGATTATGAAACCCTAAAATCAATTC
1 AAACCCTAAAATCGATTACCAAACCCTAAAATCAATTC
32118821 ACAAAATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 18 0.51
41 17 0.49
ACGTcount: A:0.46, C:0.27, G:0.06, T:0.22
Consensus pattern (40 bp):
AAACCCTAAAATCGATTACCAAACCCTAAAATCAATTCGA
Found at i:32125309 original size:367 final size:369
Alignment explanation
Indices: 32124612--32125331 Score: 1027
Period size: 367 Copynumber: 2.0 Consensus size: 369
32124602 TCCTGAAACT
* * *
32124612 TAGATCAGGGATCAATGACTTACCAGCCATAATAAGTGCTGAAGCATGTTTTGCCAATCTCCCAA
1 TAGATCAGGGATCAATGACTTACCAGCCATAACAAGTGCAGAAGCATATTTTGCCAATCTCCCAA
*
32124677 CTGCTATGGACAGAAATGGTACAATGTGAGAAACACAACAATTTGCCTTAAGCAAGAAAGAGCCA
66 CTGCTATGGACACAAATGGTACAATGTGAGAAACACAACAATTTGCCTTAAGCAAGAAAGAGCCA
* * ** *
32124742 CGTAGGAAGTCACACAGTGATATAGCTTCTGCCCAGCAGCAATTTGAGCATTGGTGAGTGTCACT
131 CATAGGAAGTCACACAGTGATATAGCTTCTGCCCAGCAGCAATTTCAGCATTGGCAAGTGCCACT
*
32124807 GCAAATCCAAAAATCAATGCTAAGAACCTTAGCAGCTCATTTAGGACCCAAAAACAGATCACAGC
196 GCAAATCCAAAAATCAATGCCAAGAACCTTAGCAGCTCATTTAGGACCCAAAAACAGATCACAGC
* * * * * *
32124872 CTTGGCATTACCCAAAAAGGAAGATCAGCTTTCTTAACTGACATGTCATATCATGGCCTCTTATC
261 CTTGGCACTACCCAAAAAGGAAGATCAGATTTCTTAACTGACATATCATATCATGACCTATTACC
32124937 TGAAACTTAGATCA-GGATCAGTGACTTTTTTTTTTTTTGAAAG
326 TGAAACTTAGATCAGGGATCAGTGACTTTTTTTTTTTTTGAAAG
* * *
32124980 TAGATCA-GGATCAGTGACTTACCATCCATAACAAGTGCAGCAGCATATTTTGCCAATCTCCCAA
1 TAGATCAGGGATCAATGACTTACCAGCCATAACAAGTGCAGAAGCATATTTTGCCAATCTCCCAA
* * * * * * * **
32125044 CTGCTATGGACACAAATGGTGCAGTGTGGGAAACACAACGATTTGCTTTAAGCAAGGAATAGTTA
66 CTGCTATGGACACAAATGGTACAATGTGAGAAACACAACAATTTGCCTTAAGCAAGAAAGAGCCA
* * *
32125109 CATAGGAAGTCACACAGTGATTTAGCTTCTGCCTAGCAG-AAGTTTCAGCATTGGCAAGTGCCAT
131 CATAGGAAGTCACACAGTGATATAGCTTCTGCCCAGCAGCAA-TTTCAGCATTGGCAAGTGCCAC
* * *
32125173 TGCAAATCCAAAAATCAATGCCACG-ACCTTAGCAGTTCATTTTAGGACCCAAAAACAGATCATA
195 TGCAAATCCAAAAATCAATGCCAAGAACCTTAGCAGCTCA-TTTAGGACCCAAAAACAGATCACA
* * * *
32125237 GCCTTGGCACTGCTCAAAAAGGAAGATCAGATTTCTTAACTGACATATCGTGTCATGACCTGATT
259 GCCTTGGCACTACCCAAAAAGGAAGATCAGATTTCTTAACTGACATATCATATCATGACCT-ATT
*
32125302 -CCTGAAACTTAGATCAGGGATTAGTGACTT
323 ACCTGAAACTTAGATCAGGGATCAGTGACTT
32125332 ACCAGGCATA
Statistics
Matches: 309, Mismatches: 39, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
366 15 0.05
367 273 0.88
368 21 0.07
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (369 bp):
TAGATCAGGGATCAATGACTTACCAGCCATAACAAGTGCAGAAGCATATTTTGCCAATCTCCCAA
CTGCTATGGACACAAATGGTACAATGTGAGAAACACAACAATTTGCCTTAAGCAAGAAAGAGCCA
CATAGGAAGTCACACAGTGATATAGCTTCTGCCCAGCAGCAATTTCAGCATTGGCAAGTGCCACT
GCAAATCCAAAAATCAATGCCAAGAACCTTAGCAGCTCATTTAGGACCCAAAAACAGATCACAGC
CTTGGCACTACCCAAAAAGGAAGATCAGATTTCTTAACTGACATATCATATCATGACCTATTACC
TGAAACTTAGATCAGGGATCAGTGACTTTTTTTTTTTTTGAAAG
Found at i:32143162 original size:20 final size:18
Alignment explanation
Indices: 32143126--32143172 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
32143116 TTGGAAGAAG
*
32143126 AAAAATATTATAATATTT
1 AAAAAAATTATAATATTT
32143144 AAAAAAATTATGAATTATTT
1 AAAAAAATTAT-AA-TATTT
*
32143164 AATAAAATT
1 AAAAAAATT
32143173 TAAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 13 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAAAAATTATAATATTT
Found at i:32143540 original size:19 final size:20
Alignment explanation
Indices: 32143518--32143556 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
32143508 ATAAAAAATA
*
32143518 AAAATTATTT-AAAAATTTT
1 AAAATAATTTAAAAAATTTT
32143537 AAAATAATTTAAAAAATTTT
1 AAAATAATTTAAAAAATTTT
32143557 TCGAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATAATTTAAAAAATTTT
Found at i:32143540 original size:27 final size:28
Alignment explanation
Indices: 32143481--32143533 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
32143471 TTTATTTAAC
**
32143481 TAAAAAATAAAATATTAATTAAATGTAA
1 TAAAAAATAAAATATTAATTAAAAATAA
*
32143509 TAAAAAATAAAA-ATTATTTAAAAAT
1 TAAAAAATAAAATATTAATTAAAAAT
32143534 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (28 bp):
TAAAAAATAAAATATTAATTAAAAATAA
Found at i:32145747 original size:358 final size:339
Alignment explanation
Indices: 32145180--32146133 Score: 1116
Period size: 349 Copynumber: 2.8 Consensus size: 339
32145170 TGGAATCTAA
* * * *
32145180 CTATTTTTTTTAATTTCATGTAATTAAAGATAAACCCATATAATTAATTAAATTAATTCATTAAA
1 CTATTTTTTTTAATTTCATGTAATTAAAGACAAACTCATATAATTAATTAAATTAATTAATAAAA
* * * *
32145245 CTATGATTATTAATTAACTTGGAATG---TAT-ATATATATACATTATATATATTGGGTTCGTTT
66 CTATGATTATTAATTAACTTGTAATGTCTTTTAATATATATACTTTATATATATTGGGTTCATTT
* *
32145306 AT-GAGAAATATAATTACTA-TAT--TATATATATACTAATACTTTTAGTATATATATACTTAAA
131 ATAAAG-AATATAATTACTATTATAATATATAAATACTAATACTTTTAGTATATATATACTTAAA
* * *
32145367 ATATAAATATATTTACTTTCTA-TTTCATATTAACATTACAAAAATTATAACTTGTAAAATTATT
195 ATATAAACATATTTACTTTCTATTTTC-TATTAACATTACAAAAATTATAAATTATAAAATTATT
*
32145431 AATTATAATATATACACTTTTGTTTATATAAACTTATAATACACAAACTTTAAGAGAAGTTGTGA
259 AATTATAATATATACAC-TTTATTTATATAAACTTA-AATA-ACAAA----AA-AGAAGTTGTGA
*
32145496 GATTAGAAT-AGTTTGAGACCTAG
316 GATTAGAATAAGTTTGAAACCTAG
* * *
32145519 TTATTTTTTTTTAATTTCATGTAATTAAAGACACACTCATATAATTAATTAAATTAATTTATAAA
1 CTA-TTTTTTTTAATTTCATGTAATTAAAGACAAACTCATATAATTAATTAAATTAATTAATAAA
* *
32145584 ACTATGATTATTAATTACCTTGTAATGTCTTTTAATATATTTACTTTATATATATTGGGTTCATT
65 ACTATGATTATTAATTAACTTGTAATGTCTTTTAATATATATACTTTATATATATTGGGTTCATT
** * *
32145649 TATAAAGAATATAATTACTATTATACATATAGTAAAATACTTTTAGTGTGTGTGTGTATATATAT
130 TATAAAGAATATAATTACTATTATA-ATATA-T-AAATACTAATACT-T-T-T-AGTATATATA-
* *
32145714 GTACATATTAAATATAAACATATTTACTTTCTATTTTCTGTTAACATTACAAAAATTATAAATTA
187 -TAC-T-TAAAATATAAACATATTTACTTTCTATTTTCTATTAACATTACAAAAATTATAAATTA
* * * *
32145779 TAAAATTATTAATTATAATATATATACTTTATTTATATAAACTTAATTATCTAAAAAGAAGTTGT
249 TAAAATTATTAATTATAATATATACACTTTATTTATATAAACTTAAATAACAAAAAAGAAGTTGT
* *
32145844 GAGATTAGAATAATTTTGAAACTTAG
314 GAGATTAGAATAAGTTTGAAACCTAG
* *
32145870 CTA-TTTTTTTAATTTCATGTAATTAAGGACAAACTCATATAATTAATTAAATTAATTAATGAAA
1 CTATTTTTTTTAATTTCATGTAATTAAAGACAAACTCATATAATTAATTAAATTAATTAATAAAA
* * *
32145934 CTATGATTATTAATTAACTTGTAATGTCTTTTAACATCTATACTTTATATATATTAGGTTCATTT
66 CTATGATTATTAATTAACTTGTAATGTCTTTTAATATATATACTTTATATATATTGGGTTCATTT
* * * * * * * *
32145999 ATAAGGAATACAATTACTATTAT-ATATATATACACTAA-A---ATACT-TTTA-ATACTTTAAA
131 ATAAAGAATATAATTACTATTATAATATATAAATACTAATACTTTTAGTATATATATACTTAAAA
* * * * * * *
32146057 TATAAATATATTTACTTTTTATTTTGTGTTAACATTATAAAAATTATAACTTATAAAATTATTAT
196 TATAAACATATTTACTTTCTATTTTCTATTAACATTACAAAAATTATAAATTATAAAATTATTAA
32146122 TTATAATATATA
261 TTATAATATATA
32146134 TACACACACA
Statistics
Matches: 536, Mismatches: 57, Indels: 52
0.83 0.09 0.08
Matches are distributed among these distances:
331 76 0.14
332 1 0.00
333 3 0.01
335 1 0.00
336 3 0.01
337 1 0.00
338 1 0.00
339 2 0.00
340 81 0.15
343 2 0.00
344 45 0.08
345 10 0.02
346 1 0.00
347 5 0.01
348 4 0.01
349 139 0.26
350 29 0.05
351 16 0.03
352 1 0.00
353 1 0.00
354 9 0.02
355 3 0.01
356 6 0.01
357 18 0.03
358 74 0.14
359 4 0.01
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.45
Consensus pattern (339 bp):
CTATTTTTTTTAATTTCATGTAATTAAAGACAAACTCATATAATTAATTAAATTAATTAATAAAA
CTATGATTATTAATTAACTTGTAATGTCTTTTAATATATATACTTTATATATATTGGGTTCATTT
ATAAAGAATATAATTACTATTATAATATATAAATACTAATACTTTTAGTATATATATACTTAAAA
TATAAACATATTTACTTTCTATTTTCTATTAACATTACAAAAATTATAAATTATAAAATTATTAA
TTATAATATATACACTTTATTTATATAAACTTAAATAACAAAAAAGAAGTTGTGAGATTAGAATA
AGTTTGAAACCTAG
Found at i:32145785 original size:15 final size:15
Alignment explanation
Indices: 32145765--32145796 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32145755 TAACATTACA
32145765 AAAATTATAAATTAT
1 AAAATTATAAATTAT
*
32145780 AAAATTATTAATTAT
1 AAAATTATAAATTAT
32145795 AA
1 AA
32145797 TATATATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTATAAATTAT
Found at i:32146116 original size:15 final size:17
Alignment explanation
Indices: 32146086--32146118 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
32146076 TATTTTGTGT
32146086 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
32146103 TAAC-TTAT-AAAATTA
1 TAACATTATAAAAATTA
32146118 T
1 T
32146119 TATTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:32148110 original size:28 final size:28
Alignment explanation
Indices: 32148078--32148279 Score: 234
Period size: 28 Copynumber: 7.3 Consensus size: 28
32148068 CATGGTGAAG
32148078 ATTTAGTTATTACACGTCATGTTAAAAA
1 ATTTAGTTATTACACGTCATGTTAAAAA
* *
32148106 ATTTAGTTGTTACACATCATGTT-AAAA
1 ATTTAGTTATTACACGTCATGTTAAAAA
*
32148133 ATTTAGTTATTACACG-CTATGTTGAAAA
1 ATTTAGTTATTACACGTC-ATGTTAAAAA
* *
32148161 ATTTAGTTGTTACACGTAATGTTAAAAA
1 ATTTAGTTATTACACGTCATGTTAAAAA
32148189 ATTTAGTTATTATACAC-T-ATGTTAAAAA
1 ATTTAGTTA-T-TACACGTCATGTTAAAAA
* * ** * *
32148217 ATATAGTTATAATGCGTCATGTT-GAAG
1 ATTTAGTTATTACACGTCATGTTAAAAA
*
32148244 ATTTAGTTGTTACACGTCATGTTAAAAA
1 ATTTAGTTATTACACGTCATGTTAAAAA
32148272 ATTTAGTT
1 ATTTAGTT
32148280 GTATGCCATG
Statistics
Matches: 145, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
26 3 0.02
27 45 0.31
28 90 0.62
29 2 0.01
30 5 0.03
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (28 bp):
ATTTAGTTATTACACGTCATGTTAAAAA
Found at i:32148162 original size:55 final size:55
Alignment explanation
Indices: 32148078--32148281 Score: 252
Period size: 55 Copynumber: 3.7 Consensus size: 55
32148068 CATGGTGAAG
*
32148078 ATTTAGTTATTACACGTCATGTTAAAAAATTTAGTTGTTACACATCATGTTAAAA
1 ATTTAGTTATTACACGTCATGTTAAAAAATTTAGTTGTTACACGTCATGTTAAAA
* *
32148133 ATTTAGTTATTACACG-CTATGTTGAAAAATTTAGTTGTTACACGTAATGTTAAAAA
1 ATTTAGTTATTACACGTC-ATGTTAAAAAATTTAGTTGTTACACGTCATGTT-AAAA
* * * ** * *
32148189 ATTTAGTTATTATACAC-T-ATGTTAAAAAATATAGTTATAATGCGTCATGTTGAAG
1 ATTTAGTTA-T-TACACGTCATGTTAAAAAATTTAGTTGTTACACGTCATGTTAAAA
*
32148244 ATTTAGTTGTTACACGTCATGTTAAAAAATTTAGTTGT
1 ATTTAGTTATTACACGTCATGTTAAAAAATTTAGTTGT
32148282 ATGCCATGAT
Statistics
Matches: 127, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
53 5 0.04
54 3 0.02
55 74 0.58
56 39 0.31
57 1 0.01
58 5 0.04
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.41
Consensus pattern (55 bp):
ATTTAGTTATTACACGTCATGTTAAAAAATTTAGTTGTTACACGTCATGTTAAAA
Found at i:32148248 original size:83 final size:83
Alignment explanation
Indices: 32148068--32148279 Score: 288
Period size: 83 Copynumber: 2.6 Consensus size: 83
32148058 TGCTCGAGTG
* * *
32148068 CATGGTGAAGATTTAGTTATTACACGTCATGTTAAAAAATTTAGTTGTTACACATCATGTTAAAA
1 CATGTTGAAGATTTAGTTGTTACACGTCATGTTAAAAAATTTAGTTATTACACATCATGTTAAAA
*
32148133 ATTTAGTTATTACACGCT
66 ATATAGTTATTACACGCT
* * *
32148151 -ATGTTGAAAAATTTAGTTGTTACACGTAATGTTAAAAAATTTAGTTATTATACA-CTATGTTAA
1 CATGTTG-AAGATTTAGTTGTTACACGTCATGTTAAAAAATTTAGTTATTACACATC-ATGTT-A
*
32148214 AAAATATAGTTA-TA-ATGCGT
63 AAAATATAGTTATTACACGC-T
32148234 CATGTTGAAGATTTAGTTGTTACACGTCATGTTAAAAAATTTAGTT
1 CATGTTGAAGATTTAGTTGTTACACGTCATGTTAAAAAATTTAGTT
32148280 GTATGCCATG
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
82 9 0.08
83 87 0.76
84 18 0.16
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (83 bp):
CATGTTGAAGATTTAGTTGTTACACGTCATGTTAAAAAATTTAGTTATTACACATCATGTTAAAA
ATATAGTTATTACACGCT
Found at i:32149098 original size:30 final size:29
Alignment explanation
Indices: 32149043--32149098 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32149033 TGACTTAAAT
*
32149043 AGAATGCCGAATTTTACAATTTTTTTTAA
1 AGAATGCCCAATTTTACAATTTTTTTTAA
* **
32149072 AGAATGCCCTATTTTACACCTTTTTTT
1 AGAATGCCCAATTTTACAATTTTTTTT
32149099 GGAAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (29 bp):
AGAATGCCCAATTTTACAATTTTTTTTAA
Found at i:32149225 original size:27 final size:25
Alignment explanation
Indices: 32149176--32149232 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
32149166 TCAAATATTC
***
32149176 AAATTCAAATTTTTTATTTAAAAAGTA
1 AAATTCAAATTTTTTA-CCCAAAA-TA
*
32149203 AAATTCGAATTTTTTACCCAAAATA
1 AAATTCAAATTTTTTACCCAAAATA
32149228 AAATT
1 AAATT
32149233 TAAAAAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
26 4 0.15
27 15 0.58
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATTCAAATTTTTTACCCAAAATA
Found at i:32150065 original size:19 final size:20
Alignment explanation
Indices: 32150025--32150078 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
32150015 GGCATAATAC
32150025 TTTATTTTAAGAAAATAAAA
1 TTTATTTTAAGAAAATAAAA
32150045 TTTATTTTAATG-AAA-AAAA
1 TTTATTTTAA-GAAAATAAAA
32150064 TTTA-TTTAAGAAAAT
1 TTTATTTTAAGAAAAT
32150079 TTAGATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.03
18 8 0.26
19 8 0.26
20 13 0.42
21 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
TTTATTTTAAGAAAATAAAA
Found at i:32150111 original size:21 final size:22
Alignment explanation
Indices: 32150068--32150115 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
32150058 AAAAAATTTA
* *
32150068 TTTAAGAAAATTTAGATAAATT
1 TTTATGAAAATTTAGAGAAATT
32150090 TTTATGAAAATTTA-AGAAATT
1 TTTATGAAAATTTAGAGAAATT
32150111 TTTAT
1 TTTAT
32150116 TTTTTATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (22 bp):
TTTATGAAAATTTAGAGAAATT
Found at i:32151473 original size:19 final size:18
Alignment explanation
Indices: 32151451--32151487 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
32151441 ATAATACTTC
*
32151451 AAAACTTTTTAAATTATTT
1 AAAAATTTTTAAA-TATTT
32151470 AAAAATTTTTAAATATTT
1 AAAAATTTTTAAATATTT
32151488 TTTTATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAAATTTTTAAATATTT
Found at i:32152881 original size:30 final size:28
Alignment explanation
Indices: 32152847--32152931 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 28
32152837 AGAAAATTTA
32152847 AATAATAAATTTTTATTTTTTATTGCGTTC
1 AATAATAAATTTTTATTTTTTATT--GTTC
* * *
32152877 AATAA-AACTTATGTA-TTTTTATT-TTG
1 AATAATAAATT-TTTATTTTTTATTGTTC
32152903 AACTAAATAAATTTTTATATTTTTATTGT
1 AA-T-AATAAATTTTTAT-TTTTTATTGT
32152932 GAGCCAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 5 0.12
29 16 0.37
30 16 0.37
31 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (28 bp):
AATAATAAATTTTTATTTTTTATTGTTC
Found at i:32152950 original size:30 final size:30
Alignment explanation
Indices: 32152890--32152950 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32152880 AAAACTTATG
* * **
32152890 TATTTTTATTTTGAACTAAATAAATTTTTA
1 TATTTTTATTGTGAACCAAATAAACCTTTA
*
32152920 TATTTTTATTGTGAGCCAAATAAACCTTTA
1 TATTTTTATTGTGAACCAAATAAACCTTTA
32152950 T
1 T
32152951 GATTATTGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (30 bp):
TATTTTTATTGTGAACCAAATAAACCTTTA
Found at i:32153233 original size:3 final size:3
Alignment explanation
Indices: 32153227--32153253 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32153217 TTTTTTTAAA
32153227 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
32153254 GATTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32169641 original size:2 final size:2
Alignment explanation
Indices: 32169636--32169660 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32169626 CCTACCCCCA
32169636 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
32169661 AAAGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32169717 original size:2 final size:2
Alignment explanation
Indices: 32169710--32169750 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32169700 AGGGATACAA
32169710 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32169751 AATGTAAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32169988 original size:6 final size:6
Alignment explanation
Indices: 32169967--32170001 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
32169957 CTATTATGAA
32169967 AGAAGAG AGAAAAG AGAAAG AGAAAG AGAAAG AGA
1 AGAA-AG AG-AAAG AGAAAG AGAAAG AGAAAG AGA
32170002 GAGGGAGCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 19 0.70
7 6 0.22
8 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:32172510 original size:113 final size:116
Alignment explanation
Indices: 32172285--32172512 Score: 351
Period size: 113 Copynumber: 2.0 Consensus size: 116
32172275 ATTTTTAATG
32172285 AAAATAAAGAAAAAAATAAAAAAATTGAAATTAAAAAATTATATTAATAATTTAATAATAAATTA
1 AAAATAAAGAAAAAAATAAAAAAATTGAAATTAAAAAATTATATTAATAATTTAATAATAAATTA
* *
32172350 TTAATATTTTTAAAATTTAATGAAGAAAATTAAAAGATTAAAAAAGAANAAT
66 TTAATATTTTTAAAATATAATGAAGAAAAATAAAAGATTAAAAAAGAA-AAT
*
32172402 AAAATAGAG-AAAAAAT-AAAAAATTGAAATTAAAAAAATTATAATTAATAATTT-AT-AT-AAT
1 AAAATAAAGAAAAAAATAAAAAAATTGAAATT-AAAAAATTAT-ATTAATAATTTAATAATAAAT
*
32172462 TATTAATA-TTTTAATATATAATGAAGAAAAATAAAAGATTAAAAAAGAAAA
64 TATTAATATTTTTAAAATATAATGAAGAAAAATAAAAGATTAAAAAAGAAAA
32172513 AATATTATCA
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
112 2 0.02
113 38 0.36
114 11 0.10
115 16 0.15
116 19 0.18
117 19 0.18
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (116 bp):
AAAATAAAGAAAAAAATAAAAAAATTGAAATTAAAAAATTATATTAATAATTTAATAATAAATTA
TTAATATTTTTAAAATATAATGAAGAAAAATAAAAGATTAAAAAAGAAAAT
Found at i:32173260 original size:2 final size:2
Alignment explanation
Indices: 32173248--32173289 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
32173238 AATTTTTAGC
32173248 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32173289 T
1 T
32173290 GCGAATTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32185734 original size:11 final size:11
Alignment explanation
Indices: 32185718--32185747 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32185708 TAATTTCTCA
32185718 TAAAGCTTGGT
1 TAAAGCTTGGT
32185729 TAAAGCTTGGT
1 TAAAGCTTGGT
*
32185740 CAAAGCTT
1 TAAAGCTT
32185748 CCTTTGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (11 bp):
TAAAGCTTGGT
Found at i:32187529 original size:36 final size:36
Alignment explanation
Indices: 32187433--32187532 Score: 146
Period size: 36 Copynumber: 2.8 Consensus size: 36
32187423 TGATATTGCT
* * * *
32187433 TGTGCGCAATGTAGGGGTGCACACAATGGCATTAGT
1 TGTGCGCGATGTGGGGGTGCACACGATGGCATTAGC
*
32187469 TGTGCGCGATGTGGGGGTGCACACGATGGTATTAGC
1 TGTGCGCGATGTGGGGGTGCACACGATGGCATTAGC
*
32187505 TGTGCGTGATGTGGGGGTGCACACGATG
1 TGTGCGCGATGTGGGGGTGCACACGATG
32187533 ACTTTGGCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.19, C:0.16, G:0.40, T:0.25
Consensus pattern (36 bp):
TGTGCGCGATGTGGGGGTGCACACGATGGCATTAGC
Found at i:32187602 original size:2 final size:2
Alignment explanation
Indices: 32187595--32187639 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
32187585 GGCATATGTG
* *
32187595 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TT TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
32187638 TA
1 TA
32187640 GAGAGGTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32193174 original size:21 final size:21
Alignment explanation
Indices: 32193145--32193184 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32193135 ACAATAAGTT
*
32193145 GTATTATGAATTAAATTGGGA
1 GTATGATGAATTAAATTGGGA
* *
32193166 GTATGATGATTTAAGTTGG
1 GTATGATGAATTAAATTGG
32193185 ACTTAAATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (21 bp):
GTATGATGAATTAAATTGGGA
Found at i:32196623 original size:140 final size:143
Alignment explanation
Indices: 32196455--32196717 Score: 336
Period size: 146 Copynumber: 1.8 Consensus size: 143
32196445 TATGGGCCTA
* *
32196455 GGTTACAACCCAACCTTCAACTCGAACCTTAATCCAAACCC-TT-TT-CCCT-ACCACATCAACA
1 GGTTACAACCCAACCTTCAACCCAAACCTTAATCCAAACCCATTATTACCCTCACCACATCAACA
32196516 AAAGACAACAACCCTAAACCACAAAACCCAAACCCTAACCTTGGACACAACAGCAAAGGGATTTA
66 AAAGACAACAACCCTAAACCACAAAACCCAAA-CCTAACCTTGGACACAACAGCAAAGGGATTTA
32196581 AAGTTCTAGGTTTG
130 AAGTTCTAGGTTTG
* * * ** *
32196595 GGTTACAACCTAGCTTTCAACCCAAACCTTAATCCAAACCCATTATTGAACTTTCACCACATCAG
1 GGTTACAACCCAACCTTCAACCCAAACCTTAATCCAAACCCATTATT--ACCCTCACCACATCAA
* * ** * * *
32196660 CAAAAGATAGCAACCCTAAACCACAAAACCTTAACCTAACTTTGGATACAATAGCAAA
64 CAAAAGACAACAACCCTAAACCACAAAACCCAAACCTAACCTTGGACACAACAGCAAA
32196718 ACACCACAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
140 36 0.35
141 2 0.02
142 2 0.02
145 23 0.23
146 39 0.38
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.21
Consensus pattern (143 bp):
GGTTACAACCCAACCTTCAACCCAAACCTTAATCCAAACCCATTATTACCCTCACCACATCAACA
AAAGACAACAACCCTAAACCACAAAACCCAAACCTAACCTTGGACACAACAGCAAAGGGATTTAA
AGTTCTAGGTTTG
Found at i:32201560 original size:29 final size:29
Alignment explanation
Indices: 32201463--32201560 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 29
32201453 TTAGAAAAAT
* * *
32201463 TCAAATAATCCCTTATCTTTTTA-TTGCAT
1 TCAAATAAACCCTTATATTTTTATTTG-AG
* *** * *
32201492 TCAATTAAATATTTATACTTTTATTTTAAG
1 TCAAATAAACCCTTATATTTTTA-TTTGAG
* *
32201522 CCAAACAAACCCTTATATTTTTATTTGAG
1 TCAAATAAACCCTTATATTTTTATTTGAG
32201551 TCAAATAAAC
1 TCAAATAAAC
32201561 TCCTATAATT
Statistics
Matches: 48, Mismatches: 19, Indels: 4
0.68 0.27 0.06
Matches are distributed among these distances:
29 29 0.60
30 17 0.35
31 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (29 bp):
TCAAATAAACCCTTATATTTTTATTTGAG
Found at i:32202923 original size:27 final size:27
Alignment explanation
Indices: 32202890--32202943 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
32202880 ATAATTACCT
32202890 ATGCTAAACTGCATAATAAATGAGTCA
1 ATGCTAAACTGCATAATAAATGAGTCA
*
32202917 ATGCTAAACTGTATAATAAATGAGTCA
1 ATGCTAAACTGCATAATAAATGAGTCA
32202944 CTTGATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (27 bp):
ATGCTAAACTGCATAATAAATGAGTCA
Found at i:32203399 original size:19 final size:20
Alignment explanation
Indices: 32203375--32203417 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
32203365 AATAAAATAA
*
32203375 TAAATACTTGA-AATTTTTT
1 TAAATACTTAATAATTTTTT
*
32203394 TAAATATTTAATAATTTTTT
1 TAAATACTTAATAATTTTTT
32203414 TAAA
1 TAAA
32203418 AATATTACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TAAATACTTAATAATTTTTT
Found at i:32203628 original size:50 final size:50
Alignment explanation
Indices: 32203552--32203651 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
32203542 GAACAAATGA
*
32203552 ATCAAATAGGCCACGCATATGACTGCCATCAGTTGCTGCTTAATTAGCAG
1 ATCAAATAGGCCACGCATATGACTGCCATCAGTTACTGCTTAATTAGCAG
* * * * *
32203602 ATCAAATAGGCTATGCATATGGCTGCCATCATTTACTGCTTAATTTGCAG
1 ATCAAATAGGCCACGCATATGACTGCCATCAGTTACTGCTTAATTAGCAG
32203652 TCAGTCACTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (50 bp):
ATCAAATAGGCCACGCATATGACTGCCATCAGTTACTGCTTAATTAGCAG
Found at i:32205137 original size:57 final size:57
Alignment explanation
Indices: 32205073--32205419 Score: 676
Period size: 57 Copynumber: 6.1 Consensus size: 57
32205063 CAGTTCCACA
32205073 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
1 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
32205130 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
1 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
*
32205187 TTACTTGTTTTATGTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
1 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
32205244 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
1 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
32205301 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
1 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
32205358 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
1 TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
*
32205415 CTACT
1 TTACT
32205420 GATGACATAT
Statistics
Matches: 287, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 287 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (57 bp):
TTACTTGTTTTATCTAGAGCAAAATAAGCATGGCCTATGCTAAACCAATGCTACATT
Found at i:32218653 original size:103 final size:104
Alignment explanation
Indices: 32218543--32218751 Score: 366
Period size: 104 Copynumber: 2.0 Consensus size: 104
32218533 TCAATTTATA
* * *
32218543 TTTGTCAATTCTATAATAAAAATAAACTTAATAGATTACATGATGGTTAC-AAATTGAACAGTGA
1 TTTGTCAATTCTATAATAAAAATAAAATCAATAGATTACATAATGGTTACAAAATTGAACAGTGA
*
32218607 TTAATTAATGACTTTAAAGTAAGGTCATCAAAGTTAAAC
66 TTAATTAATGACTTTAAAGTAAGGTCACCAAAGTTAAAC
32218646 TTTGTCAATTCTATAATAAAAATAAAATCAATAGATTACATAATGGTTACAAAATTGAACAGTGA
1 TTTGTCAATTCTATAATAAAAATAAAATCAATAGATTACATAATGGTTACAAAATTGAACAGTGA
*
32218711 TTAATTAATGACTTTAAAGTAAGGTTACCAAAGTTAAAC
66 TTAATTAATGACTTTAAAGTAAGGTCACCAAAGTTAAAC
32218750 TT
1 TT
32218752 AGTGTAGAAG
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
103 47 0.47
104 53 0.53
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (104 bp):
TTTGTCAATTCTATAATAAAAATAAAATCAATAGATTACATAATGGTTACAAAATTGAACAGTGA
TTAATTAATGACTTTAAAGTAAGGTCACCAAAGTTAAAC
Found at i:32219050 original size:27 final size:27
Alignment explanation
Indices: 32219008--32219214 Score: 202
Period size: 27 Copynumber: 7.6 Consensus size: 27
32218998 AAAAATCGCA
* * *
32219008 TTGAAAATATAATTATTATACGTCATG
1 TTGAAAATTTAGTTATTACACGTCATG
* *
32219035 TTGAAAATTTAGTTATTATACATCATG
1 TTGAAAATTTAGTTATTACACGTCATG
* * *
32219062 TTGAAAATTTAGTTGTTACATGTTATG
1 TTGAAAATTTAGTTATTACACGTCATG
* **
32219089 TTGAAAATTTAGTTGTTACACACCATG
1 TTGAAAATTTAGTTATTACACGTCATG
* *
32219116 TTGAAAAATGTAATTATTACACGTCATG
1 TTG-AAAATTTAGTTATTACACGTCATG
* *
32219144 TTGAAGATTTAGTTATTACACGCCAT-
1 TTGAAAATTTAGTTATTACACGTCATG
* * *
32219170 AT-AAAGATTTAGTTGTTACATGTCATG
1 TTGAAA-ATTTAGTTATTACACGTCATG
*
32219197 TTGAAAAATTTAATTATT
1 TTG-AAAATTTAGTTATT
32219215 TTACGCCATG
Statistics
Matches: 146, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.01
26 18 0.12
27 92 0.63
28 31 0.21
29 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.42
Consensus pattern (27 bp):
TTGAAAATTTAGTTATTACACGTCATG
Found at i:32219090 original size:54 final size:54
Alignment explanation
Indices: 32219029--32219248 Score: 225
Period size: 54 Copynumber: 4.1 Consensus size: 54
32219019 ATTATTATAC
* *
32219029 GTCATGTTGAAAATTTAGTTATTATACATCATGTTGAAAATTTAGTTGTTACAT
1 GTCATGTTGAAAATTTAGTTATTACACACCATGTTGAAAATTTAGTTGTTACAT
* * * * * *
32219083 GTTATGTTGAAAATTTAGTTGTTACACACCATGTTGAAAAATGTAATTATTACAC
1 GTCATGTTGAAAATTTAGTTATTACACACCATGTTG-AAAATTTAGTTGTTACAT
* * *
32219138 GTCATGTTGAAGATTTAGTTATTACACGCCAT-AT-AAAGATTTAGTTGTTACAT
1 GTCATGTTGAAAATTTAGTTATTACACACCATGTTGAAA-ATTTAGTTGTTACAT
* ** * * *
32219191 GTCATGTTGAAAAATTTAATTATTTTACGCCATGATGAAAA---AGTGGTTACAT
1 GTCATGTTG-AAAATTTAGTTATTACACACCATGTTGAAAATTTAGTTGTTACAT
32219243 GTCATG
1 GTCATG
32219249 CCATAATTTG
Statistics
Matches: 139, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
52 19 0.14
53 20 0.14
54 52 0.37
55 45 0.32
56 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (54 bp):
GTCATGTTGAAAATTTAGTTATTACACACCATGTTGAAAATTTAGTTGTTACAT
Found at i:32219182 original size:26 final size:27
Alignment explanation
Indices: 32219095--32219226 Score: 86
Period size: 28 Copynumber: 4.9 Consensus size: 27
32219085 TATGTTGAAA
* * * *
32219095 ATTTAGTTGTTACACACCATGTTGAAAA
1 ATTTAGTTATTACACGCCATGAT-AAAG
* * * * *
32219123 ATGTAATTATTACACGTCATGTTGAAG
1 ATTTAGTTATTACACGCCATGATAAAG
32219150 ATTTAGTTATTACACGCCAT-ATAAAG
1 ATTTAGTTATTACACGCCATGATAAAG
* * * * *
32219176 ATTTAGTTGTTACATGTCATGTTGAAAA
1 ATTTAGTTATTACACGCCATGAT-AAAG
* **
32219204 ATTTAATTATTTTACGCCATGAT
1 ATTTAGTTATTACACGCCATGAT
32219227 GAAAAAGTGG
Statistics
Matches: 78, Mismatches: 24, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
26 21 0.27
27 20 0.26
28 37 0.47
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (27 bp):
ATTTAGTTATTACACGCCATGATAAAG
Found at i:32219197 original size:81 final size:82
Alignment explanation
Indices: 32219009--32219214 Score: 229
Period size: 81 Copynumber: 2.5 Consensus size: 82
32218999 AAAATCGCAT
* * * * * *
32219009 TGAAAATATAATTATTATACGTCATGTTG-AAAATTTAGTTATTATACATCATGTTGAAAATTTA
1 TGAAAATTTAGTTGTTACACGTCATGTTGAAAAATTTAATTATTACACATCATGTTGAAAATTTA
* * ** *
32219073 GTTGTTACATGTTATGT
66 GTTATTACACGCCATGA
** * * *
32219090 TGAAAATTTAGTTGTTACACACCATGTTGAAAAATGTAATTATTACACGTCATGTTGAAGATTTA
1 TGAAAATTTAGTTGTTACACGTCATGTTGAAAAATTTAATTATTACACATCATGTTGAAAATTTA
32219155 GTTATTACACGCCAT-A
66 GTTATTACACGCCATGA
*
32219171 T-AAAGATTTAGTTGTTACATGTCATGTTGAAAAATTTAATTATT
1 TGAAA-ATTTAGTTGTTACACGTCATGTTGAAAAATTTAATTATT
32219215 TTACGCCATG
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 3 0.03
81 59 0.57
82 41 0.40
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (82 bp):
TGAAAATTTAGTTGTTACACGTCATGTTGAAAAATTTAATTATTACACATCATGTTGAAAATTTA
GTTATTACACGCCATGA
Found at i:32219205 original size:109 final size:109
Alignment explanation
Indices: 32219011--32219208 Score: 292
Period size: 109 Copynumber: 1.8 Consensus size: 109
32219001 AATCGCATTG
* * * *
32219011 AAAATATAATTATTATACGTCATGTTGAAAATTTAGTTATTATACATCATGTTGAAAATTTAGTT
1 AAAATATAATTATTACACGTCATGTTGAAAATTTAGTTATTACACACCATGATGAAAATTTAGTT
*
32219076 GTTACATGTTATGTTGAAAATTTAGTTGTTACACACCATGTTGA
66 GTTACATGTCATGTTGAAAATTTAGTTGTTACACACCATGTTGA
* * *
32219120 AAAATGTAATTATTACACGTCATGTTGAAGATTTAGTTATTACACGCCAT-AT-AAAGATTTAGT
1 AAAATATAATTATTACACGTCATGTTGAAAATTTAGTTATTACACACCATGATGAAA-ATTTAGT
32219183 TGTTACATGTCATGTTGAAAAATTTA
65 TGTTACATGTCATGTTG-AAAATTTA
32219209 ATTATTTTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 24 0.30
109 52 0.66
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (109 bp):
AAAATATAATTATTACACGTCATGTTGAAAATTTAGTTATTACACACCATGATGAAAATTTAGTT
GTTACATGTCATGTTGAAAATTTAGTTGTTACACACCATGTTGA
Found at i:32219224 original size:109 final size:109
Alignment explanation
Indices: 32219011--32219232 Score: 286
Period size: 109 Copynumber: 2.0 Consensus size: 109
32219001 AATCGCATTG
* * * *
32219011 AAAATATAATTATTATACGTCATGTTGAAAATTTAGTTATTATACATCATGTTGAAAATTTAGTT
1 AAAATATAATTATTACACGTCATGTTGAAAATTTAGTTATTACACACCATGATGAAAATTTAGTT
* * * *
32219076 GTTACATGTTATGTTGAAAATTTAGTTGTTACACACCATGTTGA
66 GTTACATGTCATGTTGAAAATTTAATTATTACACACCATGATGA
* * *
32219120 AAAATGTAATTATTACACGTCATGTTGAAGATTTAGTTATTACACGCCAT-AT-AAAGATTTAGT
1 AAAATATAATTATTACACGTCATGTTGAAAATTTAGTTATTACACACCATGATGAAA-ATTTAGT
** *
32219183 TGTTACATGTCATGTTGAAAAATTTAATTATTTTACGCCATGATGA
65 TGTTACATGTCATGTTG-AAAATTTAATTATTACACACCATGATGA
32219229 AAAA
1 AAAA
32219233 GTGGTTACAT
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
107 3 0.03
108 24 0.25
109 70 0.72
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (109 bp):
AAAATATAATTATTACACGTCATGTTGAAAATTTAGTTATTACACACCATGATGAAAATTTAGTT
GTTACATGTCATGTTGAAAATTTAATTATTACACACCATGATGA
Found at i:32220209 original size:15 final size:15
Alignment explanation
Indices: 32220189--32220219 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32220179 TTATTTTATA
32220189 GGGAATATGATTGTT
1 GGGAATATGATTGTT
32220204 GGGAATATGATTGTT
1 GGGAATATGATTGTT
32220219 G
1 G
32220220 AGAAGATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (15 bp):
GGGAATATGATTGTT
Found at i:32221875 original size:3 final size:3
Alignment explanation
Indices: 32221863--32221895 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
32221853 TCGATTACTT
32221863 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
32221896 TTATATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:32222507 original size:17 final size:18
Alignment explanation
Indices: 32222475--32222508 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32222465 TAAACACTAG
*
32222475 AATTTGATTTAATTTTTC
1 AATTTGATTGAATTTTTC
32222493 AATTT-ATTGAATTTTT
1 AATTTGATTGAATTTTT
32222509 TTAACCGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (18 bp):
AATTTGATTGAATTTTTC
Found at i:32232859 original size:254 final size:255
Alignment explanation
Indices: 32232198--32233218 Score: 1796
Period size: 253 Copynumber: 4.0 Consensus size: 255
32232188 CTTAGTAACC
* *
32232198 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTATGGGAAGTATGGTGCTGTTCC
1 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTGTGGGAAGTATGGTGCTATTCC
* *
32232263 CATACTTTGAAGAGCTAAGTATTTAATCACTCAAGATACTTGTTTGAAAGCTCTTATTTTTCTAT
66 CATACTTTGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTCTTATTTTGCTAT
* *
32232328 TTTCTAAAATGCTGAACAGTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
131 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
32232393 TAGTATACTAGTAGGCC-TTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
196 TAGTATACTAGTAGGCCTTTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
* * *
32232452 AGCAATCCATAGTCTTGCTTGATGTCAAGATGATCTCTCTTCTGTGGGAAGTATGGTGCTATT-T
1 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTGTGGGAAGTATGGTGCTATTCC
*
32232516 CATACTTTGAAGAGCTAAGCATTTATTCACTCAAGATACTTGTTTGAAAGCTCTTATTTTGCTAT
66 CATACTTTGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTCTTATTTTGCTAT
32232581 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
131 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
32232646 TAGTATACTAGTAGGCC-TTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
196 TAGTATACTAGTAGGCCTTTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
*
32232705 AGCAATCCATATTCTTGCTTGATGTCAAGATGATCTCTCTTCTGTGGGAAGTATGGTGCTATTCC
1 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTGTGGGAAGTATGGTGCTATTCC
* * *
32232770 CATACTTTGAAGAGCTAAGCATTTATTCACTCAAGATAATTGTTTGAAAGCTTTTATTTTGCTAT
66 CATACTTTGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTCTTATTTTGCTAT
32232835 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
131 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
32232900 TAGTATACTAGTAGGCCTTTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
196 TAGTATACTAGTAGGCCTTTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
*
32232960 AGCAGTCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTGTGGGAAGTATGGTGCTATTCC
1 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTGTGGGAAGTATGGTGCTATTCC
* * *
32233025 CATACTTAGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTATTAGTTTGCTAT
66 CATACTTTGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTCTTATTTTGCTAT
*
32233090 TATTTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
131 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
* *
32233155 TAGTATACTAGTAGGCCTTTTTTTTTTTTTTTCAATTATTAGAATATATTGAGAAGAGTTCATA
196 TAGTATACTAGTAGGCC----TTTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
32233219 TGAATATATT
Statistics
Matches: 737, Mismatches: 24, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
253 246 0.33
254 204 0.28
255 246 0.33
259 41 0.06
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (255 bp):
AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTGTGGGAAGTATGGTGCTATTCC
CATACTTTGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTCTTATTTTGCTAT
TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
TAGTATACTAGTAGGCCTTTTTTTTTTTCAATCATTAGAATATATTTAGAAGAGTTCATA
Found at i:32243563 original size:19 final size:18
Alignment explanation
Indices: 32243518--32243565 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
32243508 GATGACACAG
32243518 GACATTACTAACAAAAAT
1 GACATTACTAACAAAAAT
*
32243536 -ACA-TACTAAGAAAAAT
1 GACATTACTAACAAAAAT
32243552 AGACATTACTAACA
1 -GACATTACTAACA
32243566 TTAGCACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 12 0.48
17 3 0.12
18 3 0.12
19 7 0.28
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.21
Consensus pattern (18 bp):
GACATTACTAACAAAAAT
Found at i:32247331 original size:9 final size:9
Alignment explanation
Indices: 32247306--32247334 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
32247296 ACTCTATCCA
32247306 AATTAACCG
1 AATTAACCG
32247315 AA-TAACCG
1 AATTAACCG
32247323 AATTAACCG
1 AATTAACCG
32247332 AAT
1 AAT
32247335 CAAAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:32254148 original size:2 final size:2
Alignment explanation
Indices: 32254141--32254171 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32254131 TATTAAGTTG
32254141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32254172 ATTTGAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32254281 original size:136 final size:132
Alignment explanation
Indices: 32254128--32254377 Score: 455
Period size: 136 Copynumber: 1.9 Consensus size: 132
32254118 AGAACTAAAC
*
32254128 AATTATTAAGTTGATATATATATATATATATATATATATATATAATTTGAAGTTTGATTAGTAGC
1 AATTATTAAGTTGATATATATATATATATATATATATATATATAAATTGAAGTTTGATTAGTAGC
32254193 TTATTGTTGGACAGAATGTACAAGTTGAGTAGCACTAGAAATGTGCTAANAATAAGAAACTTAAA
66 TTATTGTTGGACAGAATGTACAAGTTGAGTAGCACTAGAAATGTGCTAA-AATAAGAAACTTAAA
32254258 CTA
130 CTA
32254261 AATTAATTAAGTTAGTATATATATATATATATATATATATATATATAAATTGAAGTTTGATTAGT
1 AATT-ATTAAGTT-G-ATATATATATATATATATATATATATATATAAATTGAAGTTTGATTAGT
32254326 AGCTTATTGTTGGACAGAATGTACAAGTTGAGTAGCACTAGAAATGTGCTAA
63 AGCTTATTGTTGGACAGAATGTACAAGTTGAGTAGCACTAGAAATGTGCTAA
32254378 GCTAATGTGT
Statistics
Matches: 113, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
133 4 0.04
134 8 0.07
135 1 0.01
136 100 0.88
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (132 bp):
AATTATTAAGTTGATATATATATATATATATATATATATATATAAATTGAAGTTTGATTAGTAGC
TTATTGTTGGACAGAATGTACAAGTTGAGTAGCACTAGAAATGTGCTAAAATAAGAAACTTAAAC
TA
Found at i:32254283 original size:2 final size:2
Alignment explanation
Indices: 32254276--32254307 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32254266 ATTAAGTTAG
32254276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32254308 AATTGAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32257362 original size:2 final size:2
Alignment explanation
Indices: 32257355--32257499 Score: 103
Period size: 2 Copynumber: 75.0 Consensus size: 2
32257345 AATGAATTGA
*
32257355 AT AT AT AT ACT AT A- AT AT A- AT AT A- AT AA AT AT -T AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
32257394 AT AT AT AT AT A- AT ACT -T TT TT AT -T CAT ANT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT A-T AT AT AT AT AT
* * * * *
32257434 AT AT AT AT AT AT AT AT AT AT AT AA AT GT GT GGT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
32257477 AT A- AT -T AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32257500 TTTATATTAT
Statistics
Matches: 120, Mismatches: 8, Indels: 30
0.76 0.05 0.19
Matches are distributed among these distances:
1 10 0.08
2 102 0.85
3 8 0.07
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32257368 original size:5 final size:5
Alignment explanation
Indices: 32257354--32257407 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
32257344 AAATGAATTG
* *
32257354 AATAT -ATAT ACTAT AATAT AATAT AATA- AATAT TATAT ATATAT ATATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT A-ATAT
32257404 AATA
1 AATA
32257408 CTTTTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
4 8 0.19
5 23 0.55
6 11 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (5 bp):
AATAT
Found at i:32257487 original size:17 final size:17
Alignment explanation
Indices: 32257383--32257516 Score: 86
Period size: 17 Copynumber: 7.9 Consensus size: 17
32257373 AATATAATAA
*
32257383 ATAT-TATATATA-TAT
1 ATATATATATATATTTT
*
32257398 ATATATA-ATACTTTTTT
1 ATATATATATA-TATTTT
*
32257415 AT-TCATANTATATA-TAT
1 ATAT-ATA-TATATATTTT
*
32257432 ATATATATATATATATAT
1 ATATATATATATAT-TTT
* * *
32257450 ATATATAAATGTGTGGTTT
1 ATATATATATATAT--TTT
32257469 ATATATATATA-ATTATT
1 ATATATATATATATT-TT
32257486 ATATATATATATATTTT
1 ATATATATATATATTTT
32257503 ATAT-TAT-TATATTT
1 ATATATATATATATTT
32257517 ATGAATTTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
15 14 0.15
16 14 0.15
17 33 0.35
18 20 0.21
19 14 0.15
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATATATATATATTTT
Found at i:32257516 original size:15 final size:16
Alignment explanation
Indices: 32257383--32257516 Score: 62
Period size: 18 Copynumber: 7.9 Consensus size: 16
32257373 AATATAATAA
*
32257383 ATATTATATATA-TAT
1 ATATTATATATATTTT
32257398 ATA-TATA-ATACTTTT
1 ATATTATATATA-TTTT
* *
32257413 TTATTCATANTATATATAT
1 ATATT-ATA-TATAT-TTT
*
32257432 ATATATATATATATATAT
1 ATAT-TATATATAT-TTT
* * *
32257450 ATATATAAATGTGTGGTTT
1 ATAT-TATATATAT--TTT
32257469 ATA-TATATATAATTATT
1 ATATTATATAT-ATT-TT
32257486 ATATATATATATATTTT
1 ATAT-TATATATATTTT
32257503 ATATTAT-TATATTT
1 ATATTATATATATTT
32257517 ATGAATTTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
13 3 0.03
14 4 0.04
15 14 0.15
16 5 0.05
17 19 0.20
18 25 0.27
19 23 0.24
20 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (16 bp):
ATATTATATATATTTT
Found at i:32270776 original size:148 final size:153
Alignment explanation
Indices: 32270503--32270787 Score: 330
Period size: 148 Copynumber: 1.9 Consensus size: 153
32270493 CATGAATGTA
* * *
32270503 TTTAACTCTAAGAGTTTATGTTTTAGTAAAATATAAAGATAGAGACCAAGTTACAAGTCATGTTT
1 TTTAACTCTAAGAGTTTATGTTCTAATAAAATATAAAGATAGAGACCAAATTACAAGTCATGTTT
** * *
32270568 AAAAGCTATCGTTATTATATGCCATGTTCAAAAAAAGTTATCACATGACATGTTG-AAAAAATAA
66 AAAAAATATCGTTATTACACGCCATGTTCAAAAAAAGTTATCACATGACATGTTGAAAAAAAT-A
32270632 TTGTTACACGCCATGCTTAAGGTG
130 TTGTTACACGCCATGCTTAAGGTG
* *
32270656 TTTAACTCTAAGAGTTTATGTTCTAATGAAATAT-AA-A-AGA-A-CAAATTACACGTCATGTTT
1 TTTAACTCTAAGAGTTTATGTTCTAATAAAATATAAAGATAGAGACCAAATTACAAGTCATGTTT
* * * ** ** * * ** *
32270716 AAAAAATGTTGTTGTTACACGTTATGTTCAAAAAATTTTATTATATGTTATTTTGAAAAAAATAT
66 AAAAAATATCGTTATTACACGCCATGTTCAAAAAAAGTTATCACATGACATGTTGAAAAAAATAT
32270781 TGTTACA
131 TGTTACA
32270788 TACAGACATG
Statistics
Matches: 110, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
148 65 0.59
149 8 0.07
150 3 0.03
151 1 0.01
152 2 0.02
153 31 0.28
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (153 bp):
TTTAACTCTAAGAGTTTATGTTCTAATAAAATATAAAGATAGAGACCAAATTACAAGTCATGTTT
AAAAAATATCGTTATTACACGCCATGTTCAAAAAAAGTTATCACATGACATGTTGAAAAAAATAT
TGTTACACGCCATGCTTAAGGTG
Found at i:32271365 original size:34 final size:34
Alignment explanation
Indices: 32271326--32271403 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
32271316 GATGTTACAC
* * *
32271326 ACCAAAGTTTTAACAGT-AGATGTTACATACTAAA
1 ACCAAAGTTTTAACA-TCAAATGTTACACACCAAA
*
32271360 ACCAAAGCTTTAACATCAAATGTTACACACCAAA
1 ACCAAAGTTTTAACATCAAATGTTACACACCAAA
*
32271394 GCCAAAGTTT
1 ACCAAAGTTT
32271404 CAGCACTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (34 bp):
ACCAAAGTTTTAACATCAAATGTTACACACCAAA
Found at i:32273806 original size:2 final size:2
Alignment explanation
Indices: 32273799--32273838 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
32273789 ATTGCAATCA
* * *
32273799 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32273839 TTGTACATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (2 bp):
AT
Found at i:32273816 original size:12 final size:12
Alignment explanation
Indices: 32273799--32273838 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
32273789 ATTGCAATCA
*
32273799 ATATATATATAT
1 ATATATATATAG
32273811 ATATATATATAG
1 ATATATATATAG
*
32273823 ATATAGATATAG
1 ATATATATATAG
32273835 ATAT
1 ATAT
32273839 TTGTACATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (12 bp):
ATATATATATAG
Found at i:32277356 original size:15 final size:15
Alignment explanation
Indices: 32277325--32277367 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
32277315 AAAATATTTT
32277325 ATAATATTATAATTAAA
1 ATAA-ATTAT-ATTAAA
32277342 ATAAATTATATTAAA
1 ATAAATTATATTAAA
*
32277357 ATAAAATATAT
1 ATAAATTATAT
32277368 AATATAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 16 0.64
16 5 0.20
17 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATTATATTAAA
Found at i:32280820 original size:6 final size:5
Alignment explanation
Indices: 32280787--32280853 Score: 50
Period size: 5 Copynumber: 13.2 Consensus size: 5
32280777 NNNNNNNATT
*
32280787 TTTTA -TTTA TTTTA TTTTA TTCTA TATTTA TATTTA -TTTA TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA T-TTTA TTTTA TT-TTA
* *
32280833 TTATTA TTAT- TTTTA ATTTA T
1 TT-TTA TTTTA TTTTA TTTTA T
32280854 GTGTCTACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
4 11 0.22
5 20 0.39
6 20 0.39
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:32282350 original size:46 final size:47
Alignment explanation
Indices: 32282208--32282343 Score: 148
Period size: 47 Copynumber: 2.9 Consensus size: 47
32282198 TATGAAAATA
* * * * *
32282208 TTATTAAAATATAGTCAAGGCTAATTTTATTTTTTTGGTATAAATATG
1 TTATTAAATTATAGTCAAGGGTAA-TTTAATCTTTTGGTATAAATATT
* *
32282256 TGATTAAATTATAGTCAAGGGTAATTTAATCTTTCGGTATAAATATT
1 TTATTAAATTATAGTCAAGGGTAATTTAATCTTTTGGTATAAATATT
* * * **
32282303 TTATTATATTTTAGTTAAGGGT-ATTTTGTCTTTTGGTATAA
1 TTATTAAATTATAGTCAAGGGTAATTTAATCTTTTGGTATAA
32282344 GCATTTTCCT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 16 0.22
47 37 0.50
48 21 0.28
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (47 bp):
TTATTAAATTATAGTCAAGGGTAATTTAATCTTTTGGTATAAATATT
Found at i:32283810 original size:11 final size:10
Alignment explanation
Indices: 32283775--32283819 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
32283765 TGCTAATGCA
32283775 ATTATCTATTT
1 ATTAT-TATTT
32283786 -TT-TTATTT
1 ATTATTATTT
32283794 ATTATTATTT
1 ATTATTATTT
32283804 AATTATTATTT
1 -ATTATTATTT
32283815 -TTATT
1 ATTATT
32283820 TTATGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.16
9 8 0.26
10 8 0.26
11 10 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTATTATTT
Found at i:32283823 original size:14 final size:13
Alignment explanation
Indices: 32283776--32283853 Score: 63
Period size: 14 Copynumber: 6.1 Consensus size: 13
32283766 GCTAATGCAA
*
32283776 TTATCTATT-TTT
1 TTATTTATTATTT
32283788 TTATTTATTATTAT
1 TTATTTATTATT-T
*
32283802 TTAATTATTATTT
1 TTATTTATTATTT
*
32283815 TTATTTTATGATTT
1 TTA-TTTATTATTT
*
32283829 TT-TTCATTA-TT
1 TTATTTATTATTT
* *
32283840 ATATTTTTTATTT
1 TTATTTATTATTT
32283853 T
1 T
32283854 ATTCCTTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
11 3 0.06
12 18 0.35
13 8 0.16
14 22 0.43
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (13 bp):
TTATTTATTATTT
Found at i:32283855 original size:17 final size:16
Alignment explanation
Indices: 32283781--32283856 Score: 66
Period size: 17 Copynumber: 4.6 Consensus size: 16
32283771 TGCAATTATC
*
32283781 TATTTTTTTATTTATTAT
1 TATTTTATTATTT-TT-T
*
32283799 TATTTAATTATTATTTT
1 TATTTTATTATT-TTTT
*
32283816 TATTTTATGATTTTTT
1 TATTTTATTATTTTTT
32283832 TCA--TTATTATATTTTT
1 T-ATTTTATTAT-TTTTT
32283848 TATTTTATT
1 TATTTTATT
32283857 CCTTATTATC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
15 7 0.15
16 11 0.23
17 17 0.35
18 12 0.25
19 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (16 bp):
TATTTTATTATTTTTT
Found at i:32283862 original size:24 final size:25
Alignment explanation
Indices: 32283816--32283865 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
32283806 TTATTATTTT
*
32283816 TATTTTATGATTTTTTTCATTATTA
1 TATTTTATGATTTTATTCATTATTA
* *
32283841 TATTTT-TTATTTTATTCCTTATTA
1 TATTTTATGATTTTATTCATTATTA
32283865 T
1 T
32283866 CCTTTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (25 bp):
TATTTTATGATTTTATTCATTATTA
Found at i:32283871 original size:24 final size:24
Alignment explanation
Indices: 32283825--32283885 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
32283815 TTATTTTATG
* * *
32283825 ATTTTTTTCATTATTATATTTTTT
1 ATTTTATTCCTTATTATACTTTTT
*
32283849 ATTTTATTCCTTATTATCCTTTTT
1 ATTTTATTCCTTATTATACTTTTT
* *
32283873 -TTGTATACCTTAT
1 ATTTTATTCCTTAT
32283886 ATTTTTATCC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTTATTCCTTATTATACTTTTT
Found at i:32283996 original size:3 final size:3
Alignment explanation
Indices: 32283977--32284048 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
32283967 AGAAACTTAT
* * * *
32283977 TTA TTA TCA TT- TT- TTA TTA TTA TTA TTT TTA -TA TT- TTT TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32284021 TTA TTA TTTA TTA TTA TTA -TA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA T
32284049 ATATATTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 10 0.18
3 44 0.77
4 3 0.05
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:32283998 original size:16 final size:16
Alignment explanation
Indices: 32283977--32284059 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 16
32283967 AGAAACTTAT
*
32283977 TTATTATCATTTTTTA
1 TTATTATTATTTTTTA
32283993 TTATTATTATTTTTATA
1 TTATTATTATTTTT-TA
*
32284010 TT-TTTTTATTGTTATTA
1 TTATTATTATT-TT-TTA
*
32284027 TTTATTATTATTATATTA
1 -TTATTATTATT-TTTTA
32284045 TTA-TATATATTTTTT
1 TTATTAT-TATTTTTT
32284060 GTAAGCAATC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
16 26 0.47
17 15 0.27
18 6 0.11
19 8 0.15
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (16 bp):
TTATTATTATTTTTTA
Found at i:32284336 original size:13 final size:13
Alignment explanation
Indices: 32284318--32284360 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
32284308 TGAATCATTA
32284318 TTATTTTTTATTT
1 TTATTTTTTATTT
32284331 TTA-TTTTTATTAT
1 TTATTTTTTATT-T
32284344 TTATTTATTATATTT
1 TTATTT-TT-TATTT
32284359 TT
1 TT
32284361 TAATATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.31
13 7 0.27
14 2 0.08
15 5 0.19
16 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:32284340 original size:22 final size:22
Alignment explanation
Indices: 32284315--32284360 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
32284305 ATTTGAATCA
*
32284315 TTATTATTT-TTTATTTTTATTT
1 TTATTATTTATTTA-TTATATTT
32284337 TTATTATTTATTTATTATATTT
1 TTATTATTTATTTATTATATTT
32284359 TT
1 TT
32284361 TAATATGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (22 bp):
TTATTATTTATTTATTATATTT
Found at i:32284617 original size:26 final size:27
Alignment explanation
Indices: 32284571--32284622 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
32284561 TTATTTTACC
* *
32284571 TTTTTATTATCATTATTTTATTTATTA
1 TTTTTATTATAATTATTTTATATATTA
32284598 TTTTT-TTATAATT-TTATTATATATT
1 TTTTTATTATAATTATT-TTATATATT
32284623 TGCAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 2 0.09
26 15 0.68
27 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTATTATAATTATTTTATATATTA
Found at i:32284774 original size:21 final size:23
Alignment explanation
Indices: 32284748--32284795 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
32284738 ATTTCCTAAG
*
32284748 TTTAAACTGTCATA-TAAAA-AA
1 TTTAAAATGTCATACTAAAATAA
*
32284769 TTTAAAATGTTATACTAAAATAA
1 TTTAAAATGTCATACTAAAATAA
32284792 TTTA
1 TTTA
32284796 GAACAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 5 0.22
23 6 0.26
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTAAAATGTCATACTAAAATAA
Found at i:32285049 original size:13 final size:13
Alignment explanation
Indices: 32285031--32285055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32285021 TTTTCTCTCT
32285031 TTTCTTATTTTCC
1 TTTCTTATTTTCC
32285044 TTTCTTATTTTC
1 TTTCTTATTTTC
32285056 TCTCTCTAGT
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:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTATTTTCC
Found at i:32285348 original size:76 final size:76
Alignment explanation
Indices: 32285230--32285487 Score: 342
Period size: 76 Copynumber: 3.4 Consensus size: 76
32285220 TAATCGGGGT
* * * *
32285230 CGGTCGGGCTTCCTCTCTCTCATTCTTCTCTTGCCGGA-GCAAACCCAAGCCCCCAAAACTCTCT
1 CGGTCAGGCTTCCTCTCTCTCACTCTTCTCTTGCC-GACGCAAAACCGAGCCCCCAAAACTCTCT
* *
32285294 AAATATCGGTGC
65 CAATATCGGAGC
* * * * *
32285306 CGATCGGGCTTCCTCTCTCTCACTCTTCTCCTT-TCAACGCAAAACCGAGCCTCCAAAACTCTCT
1 CGGTCAGGCTTCCTCTCTCTCACTCTTCT-CTTGCCGACGCAAAACCGAGCCCCCAAAACTCTCT
*
32285370 CAATATTGGAGC
65 CAATATCGGAGC
* *
32285382 CGGTCAGGCTTCTTCTCTCTCACTCTTCTCTTGCCGACGCAAAATCGAGCCCCCAAAACTCTCTC
1 CGGTCAGGCTTCCTCTCTCTCACTCTTCTCTTGCCGACGCAAAACCGAGCCCCCAAAACTCTCTC
32285447 AATATC-GACGC
66 AATATCGGA-GC
32285458 CGGTCAGGCTTCCTCTCTCTCACTCTTCTC
1 CGGTCAGGCTTCCTCTCTCTCACTCTTCTC
32285488 CTGTCGGCGC
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
75 6 0.04
76 150 0.94
77 3 0.02
ACGTcount: A:0.19, C:0.38, G:0.15, T:0.28
Consensus pattern (76 bp):
CGGTCAGGCTTCCTCTCTCTCACTCTTCTCTTGCCGACGCAAAACCGAGCCCCCAAAACTCTCTC
AATATCGGAGC
Found at i:32285507 original size:20 final size:20
Alignment explanation
Indices: 32285482--32285521 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32285472 CTCTCTCACT
*
32285482 CTTCTCCTGTCGGCGCAAAC
1 CTTCTCCTGCCGGCGCAAAC
*
32285502 CTTCTCCTGCCGGCGTAAAC
1 CTTCTCCTGCCGGCGCAAAC
32285522 TCGAGCCCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.40, G:0.20, T:0.25
Consensus pattern (20 bp):
CTTCTCCTGCCGGCGCAAAC
Found at i:32285529 original size:96 final size:94
Alignment explanation
Indices: 32285406--32285596 Score: 233
Period size: 96 Copynumber: 2.0 Consensus size: 94
32285396 CTCTCTCACT
* *
32285406 CTTCTCTTGCCGACGCAAAATCGAGCCCCCAAAACTCTCTCA-ATATC-GACGCCGGTCAGGCTT
1 CTTCTCCTGCCGACGCAAAATCGAGCCCCCAAAACTCTATCATA-ATCGGA-GCCGGTCAGGCTT
*
32285469 CCTCTCTCTCACTCTTCTCCTGTCGGCGCAAAC
64 -C-CTCTCTCACTCTTCTCCTGCCGGCGCAAAC
* * * ** * *
32285502 CTTCTCCTGCCGGCGTAAACTCGAGCCCCCAACTCTCTATCATAATCGGAGCTGGTCGGGCTTCC
1 CTTCTCCTGCCGACGCAAAATCGAGCCCCCAAAACTCTATCATAATCGGAGCCGGTCAGGCTTCC
*
32285567 TCTCTCACTCTTCTCCTGCCGGTGCAAAC
66 TCTCTCACTCTTCTCCTGCCGGCGCAAAC
32285596 C
1 C
32285597 CGAGCCCCTT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
94 29 0.35
95 1 0.01
96 49 0.60
97 3 0.04
ACGTcount: A:0.18, C:0.39, G:0.17, T:0.26
Consensus pattern (94 bp):
CTTCTCCTGCCGACGCAAAATCGAGCCCCCAAAACTCTATCATAATCGGAGCCGGTCAGGCTTCC
TCTCTCACTCTTCTCCTGCCGGCGCAAAC
Found at i:32287557 original size:21 final size:21
Alignment explanation
Indices: 32287533--32287578 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
32287523 TTTATTTTCT
32287533 TAAAATATT-TTAAACTTTT-
1 TAAAATATTATTAAACTTTTA
* *
32287552 TATAAATTTTATTAATCTTTTA
1 TA-AAATATTATTAAACTTTTA
32287574 TAAAA
1 TAAAA
32287579 AAAATAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 6 0.27
21 12 0.55
22 2 0.09
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAAATATTATTAAACTTTTA
Found at i:32288071 original size:2 final size:2
Alignment explanation
Indices: 32288064--32288099 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
32288054 TTATAAGTTA
* *
32288064 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32288100 GAGATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32289010 original size:13 final size:13
Alignment explanation
Indices: 32288994--32289018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32288984 TGGATTAAAA
32288994 GTTGCTATAAATG
1 GTTGCTATAAATG
32289007 GTTGCTATAAAT
1 GTTGCTATAAAT
32289019 AATATTAAAT
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:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
GTTGCTATAAATG
Found at i:32289245 original size:19 final size:19
Alignment explanation
Indices: 32289216--32289288 Score: 139
Period size: 19 Copynumber: 3.9 Consensus size: 19
32289206 TTGATTCTTA
32289216 GAATC-TTGATTTCATTGT
1 GAATCTTTGATTTCATTGT
32289234 GAATCTTTGATTTCATTGT
1 GAATCTTTGATTTCATTGT
32289253 GAATCTTTGATTTCATTGT
1 GAATCTTTGATTTCATTGT
32289272 GAATCTTTGATTTCATT
1 GAATCTTTGATTTCATT
32289289 TTTCCTGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 5 0.09
19 49 0.91
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (19 bp):
GAATCTTTGATTTCATTGT
Found at i:32289269 original size:38 final size:36
Alignment explanation
Indices: 32289201--32289288 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 36
32289191 GCAACCGTTC
32289201 AATCTTTGA-TTC-TTAGAATCTTGATTTCATTGTG
1 AATCTTTGATTTCATTAGAATCTTGATTTCATTGTG
*
32289235 AATCTTTGATTTCATTGTGAATCTTTGATTTCATTGTG
1 AATCTTTGATTTCATT-AGAATC-TTGATTTCATTGTG
32289273 AATCTTTGATTTCATT
1 AATCTTTGATTTCATT
32289289 TTTCCTGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
34 9 0.18
35 3 0.06
36 2 0.04
37 5 0.10
38 30 0.61
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.52
Consensus pattern (36 bp):
AATCTTTGATTTCATTAGAATCTTGATTTCATTGTG
Found at i:32313391 original size:175 final size:176
Alignment explanation
Indices: 32313095--32313628 Score: 802
Period size: 175 Copynumber: 3.0 Consensus size: 176
32313085 AAATTTGTTT
* * *
32313095 TATAAAACTCACTTAACTACTAGACCTAAGATTATGATGTTCCTCAATATTTCATCTGATTATTG
1 TATAAAACTCACTTAACTACCAGACCTAAGATTATGATGTCCCTCAATACTTCATCTGATTA-T-
* * *
32313160 TATCTCT-TTCTTAGCTTAGTTTAATGAATTAAGTTGCTAACCTAGAGTCCTAAATTATTTACAA
64 TATCTCTCTTCTTAGCTTAGTTTAATGGATTAAGTTGCTAACTTAGAGTCTTAAATTATTTACAA
32313224 GTCTCTGTCAAGTTTCTCATAAAAATACCTCTCTCAATTAATTTACTA
129 GTCTCTGTCAAGTTTCTCATAAAAATACCTCTCTCAATTAATTTACTA
32313272 TATAAAACTCACTTAACTACCAGACCTAAGATTATGATGTCCCTCAATACTTCATCTGATTATTA
1 TATAAAACTCACTTAACTACCAGACCTAAGATTATGATGTCCCTCAATACTTCATCTGATTATTA
* * *
32313337 TCTCTCTT-TTAGTTTAATTTAATGGATTAAGTTGCTAACTTAGAGTCTTAAATTATTTATAAGT
66 TCTCTCTTCTTAGCTTAGTTTAATGGATTAAGTTGCTAACTTAGAGTCTTAAATTATTTACAAGT
* *
32313401 TTTTGTCAAGTTTCTCATAAAAATACCTCTCTCAATTAATTTACTA
131 CTCTGTCAAGTTTCTCATAAAAATACCTCTCTCAATTAATTTACTA
* * * * *
32313447 TATAAAACTCATTTAACTACCAAACCTAAGATTATGATGTCCTTTAATACTTCATCTGATTATTG
1 TATAAAACTCACTTAACTACCAGACCTAAGATTATGATGTCCCTCAATACTTCATCTGATTATTA
32313512 TCTCTCTTTCTCTTAGCTTAGTTTAATGGATTAAGTTGCTAACTTAGAGTCTTAAATTATTTACA
66 TCTCTC--T-TCTTAGCTTAGTTTAATGGATTAAGTTGCTAACTTAGAGTCTTAAATTATTTACA
* * * * * * *
32313577 AATCTCTGTTAAGTTTCTCATAAAAATACATTTCCCGATTAATTTATTA
128 AGTCTCTGTCAAGTTTCTCATAAAAATACCTCTCTCAATTAATTTACTA
32313626 TAT
1 TAT
32313629 GTCTATGCAA
Statistics
Matches: 324, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
175 167 0.52
176 3 0.01
177 60 0.19
178 1 0.00
179 93 0.29
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (176 bp):
TATAAAACTCACTTAACTACCAGACCTAAGATTATGATGTCCCTCAATACTTCATCTGATTATTA
TCTCTCTTCTTAGCTTAGTTTAATGGATTAAGTTGCTAACTTAGAGTCTTAAATTATTTACAAGT
CTCTGTCAAGTTTCTCATAAAAATACCTCTCTCAATTAATTTACTA
Found at i:32315731 original size:21 final size:21
Alignment explanation
Indices: 32315707--32315747 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32315697 CCAACAGATG
32315707 AAGAAAATCTA-TCGATAGTTA
1 AAGAAAAT-TAGTCGATAGTTA
32315728 AAGAAAATTAGTCGATAGTT
1 AAGAAAATTAGTCGATAGTT
32315748 GGTTGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (21 bp):
AAGAAAATTAGTCGATAGTTA
Found at i:32333805 original size:43 final size:44
Alignment explanation
Indices: 32333739--32333825 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
32333729 ATATTTCCCT
* *
32333739 ACCAGGTAAAAGTAAATAGCAATACATATTCGAATT-AAATAAG
1 ACCAAGTAAAAGCAAATAGCAATACATATTCGAATTAAAATAAG
32333782 ACCAAGTAAAAGCAAATAGCAATACATATTCGAATTAAAATAAG
1 ACCAAGTAAAAGCAAATAGCAATACATATTCGAATTAAAATAAG
32333826 CAAATGGCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 34 0.83
44 7 0.17
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.22
Consensus pattern (44 bp):
ACCAAGTAAAAGCAAATAGCAATACATATTCGAATTAAAATAAG
Found at i:32335106 original size:22 final size:20
Alignment explanation
Indices: 32335080--32335133 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
32335070 AATAAAATTA
*
32335080 TAAATACTTATTTAAATTCTTT
1 TAAATA-TTATATAAATT-TTT
*
32335102 TAAATAATT-TATAAGTTTTT
1 TAAAT-ATTATATAAATTTTT
32335122 TAAATATTATAT
1 TAAATATTATAT
32335134 CATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 11 0.39
21 6 0.21
22 7 0.25
23 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
TAAATATTATATAAATTTTT
Found at i:32335437 original size:19 final size:20
Alignment explanation
Indices: 32335399--32335437 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
32335389 CATGTTTGAA
* *
32335399 AAAAATTTTAAATTATTTAT
1 AAAAATTTTAAATAAATTAT
32335419 AAAAA-TTTAAATAAATTAT
1 AAAAATTTTAAATAAATTAT
32335438 TATTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATTTTAAATAAATTAT
Found at i:32335473 original size:29 final size:30
Alignment explanation
Indices: 32335423--32335479 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32335413 ATTTATAAAA
32335423 ATTTAAATAAATTATTATTATTTTTATTAC
1 ATTTAAATAAATTATTATTATTTTTATTAC
* * *
32335453 ATTTAATTATATTTTTA-TATTTTTATT
1 ATTTAAATAAATTATTATTATTTTTATT
32335480 TTGAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTAAATAAATTATTATTATTTTTATTAC
Found at i:32341084 original size:99 final size:99
Alignment explanation
Indices: 32340913--32341109 Score: 340
Period size: 99 Copynumber: 2.0 Consensus size: 99
32340903 GAGTCATCAA
** *
32340913 CATGTAATCAGGAGAGTCATAAGCACTGGTCAGATAGACATTGGAGAGTCATCAGCATGTAGAGT
1 CATGTAATCAAAAGAGTCATAAGCACTAGTCAGATAGACATTGGAGAGTCATCAGCATGTAGAGT
32340978 TTGAGTTATTAAAGCCAAGGTACAAAAAATTCAG
66 TTGAGTTATTAAAGCCAAGGTACAAAAAATTCAG
* *
32341012 CATGTAATCAAAAGAGTCATAAGCACTAGTTAGATAGACGTTGGAGAGTCATCAGCATGTAGAGT
1 CATGTAATCAAAAGAGTCATAAGCACTAGTCAGATAGACATTGGAGAGTCATCAGCATGTAGAGT
*
32341077 TTGAGTTATTAAAGTCAAGGTACAAAAAATTCA
66 TTGAGTTATTAAAGCCAAGGTACAAAAAATTCA
32341110 CTTGGGCCTG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (99 bp):
CATGTAATCAAAAGAGTCATAAGCACTAGTCAGATAGACATTGGAGAGTCATCAGCATGTAGAGT
TTGAGTTATTAAAGCCAAGGTACAAAAAATTCAG
Found at i:32346210 original size:20 final size:20
Alignment explanation
Indices: 32346181--32346223 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32346171 ATTAGGTTAC
32346181 TTTTAAGTTAGTTATTTTAA
1 TTTTAAGTTAGTTATTTTAA
* * *
32346201 TTTTATGTTATTTCTTTTAA
1 TTTTAAGTTAGTTATTTTAA
32346221 TTT
1 TTT
32346224 ATTTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTAAGTTAGTTATTTTAA
Found at i:32350388 original size:17 final size:15
Alignment explanation
Indices: 32350333--32350389 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
32350323 TACCTTGTTC
*
32350333 ATATATTTATTAT-T
1 ATATATTTTTTATGT
* *
32350347 ATTTA-TTATTATGT
1 ATATATTTTTTATGT
32350361 ATATATTTTTTATGT
1 ATATATTTTTTATGT
32350376 ATATTACTTTTTTA
1 ATA-TA-TTTTTTA
32350390 CAATGATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 7 0.19
14 9 0.25
15 11 0.31
16 2 0.06
17 7 0.19
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (15 bp):
ATATATTTTTTATGT
Found at i:32351740 original size:16 final size:15
Alignment explanation
Indices: 32351707--32351736 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32351697 TCCCCTTTTC
*
32351707 ATTTTTTTTTTTTGT
1 ATTTTTATTTTTTGT
32351722 ATTTTTATTTTTTGT
1 ATTTTTATTTTTTGT
32351737 TATTGATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (15 bp):
ATTTTTATTTTTTGT
Found at i:32352142 original size:15 final size:16
Alignment explanation
Indices: 32352113--32352146 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32352103 CTCTTATTTC
*
32352113 TTTTTATTTTATTTAT
1 TTTTTAATTTATTTAT
32352129 TTTTTAATTT-TTTAT
1 TTTTTAATTTATTTAT
32352144 TTT
1 TTT
32352147 ATTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTAATTTATTTAT
Found at i:32352390 original size:2 final size:2
Alignment explanation
Indices: 32352377--32352408 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
32352367 ATAATATCCC
*
32352377 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32352409 NTATGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32352629 original size:2 final size:2
Alignment explanation
Indices: 32352622--32352683 Score: 90
Period size: 2 Copynumber: 30.5 Consensus size: 2
32352612 GCACTAATAG
32352622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
32352664 TT AT AT AT GAT AT AT AT AT A
1 AT AT AT AT -AT AT AT AT AT A
32352684 AGCAAGATAC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
1 1 0.02
2 51 0.93
3 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32364502 original size:6 final size:6
Alignment explanation
Indices: 32364491--32364516 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32364481 ACAATGGCGG
32364491 TGGGGC TGGGGC TGGGGC TGGGGC TG
1 TGGGGC TGGGGC TGGGGC TGGGGC TG
32364517 CTACCAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.65, T:0.19
Consensus pattern (6 bp):
TGGGGC
Found at i:32373168 original size:2 final size:2
Alignment explanation
Indices: 32373161--32373202 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32373151 ACAACACAAT
32373161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32373203 AAGCACCAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32377367 original size:18 final size:19
Alignment explanation
Indices: 32377329--32377367 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32377319 AAATTATTTG
* *
32377329 ATAATTTTTTTTATAAGTT
1 ATAATTTTTATTATAAATT
32377348 ATAATTTTTATTA-AAATT
1 ATAATTTTTATTATAAATT
32377366 AT
1 AT
32377368 CATAGAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATAATTTTTATTATAAATT
Found at i:32377525 original size:17 final size:18
Alignment explanation
Indices: 32377504--32377550 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
32377494 TCCTGAAACT
**
32377504 CTTTTTTTTAAAATTTTA
1 CTTTTTTTTAAAAAATTA
*
32377522 --TTTTTTAAAAAAATTA
1 CTTTTTTTTAAAAAATTA
32377538 CTTTTTTTTAAAA
1 CTTTTTTTTAAAA
32377551 GCTTTTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
16 13 0.57
18 10 0.43
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
CTTTTTTTTAAAAAATTA
Found at i:32377534 original size:18 final size:18
Alignment explanation
Indices: 32377513--32377550 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
32377503 TCTTTTTTTT
32377513 AAAATT-TTATTTTTTAAA
1 AAAATTATT-TTTTTTAAA
32377531 AAAATTACTTTTTTTTAAA
1 AAAATTA-TTTTTTTTAAA
32377550 A
1 A
32377551 GCTTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 10 0.56
20 2 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTATTTTTTTTAAA
Found at i:32377750 original size:18 final size:19
Alignment explanation
Indices: 32377718--32377753 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32377708 TGAGAAGCTC
32377718 TTAAAAAAAATAATTTTTT
1 TTAAAAAAAATAATTTTTT
*
32377737 TTAAAAACAA-AATTTTT
1 TTAAAAAAAATAATTTTT
32377754 AAAAAAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAAAAAATAATTTTTT
Found at i:32377820 original size:13 final size:13
Alignment explanation
Indices: 32377802--32377826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32377792 TTCCTTTTTT
32377802 TAAAAAAAAAATA
1 TAAAAAAAAAATA
32377815 TAAAAAAAAAAT
1 TAAAAAAAAAAT
32377827 TTATTTTTGT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAAAAAAATA
Found at i:32384821 original size:11 final size:11
Alignment explanation
Indices: 32384798--32384826 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32384788 AATGCGACGG
32384798 TATTTAT-TAT
1 TATTTATCTAT
32384808 TATTTATCTAT
1 TATTTATCTAT
32384819 TATTTATC
1 TATTTATC
32384827 CTTTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTATCTAT
Found at i:32391714 original size:2 final size:2
Alignment explanation
Indices: 32391668--32391700 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32391658 AATATACTTN
32391668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32391701 CCTTTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32391986 original size:17 final size:18
Alignment explanation
Indices: 32391948--32392017 Score: 51
Period size: 17 Copynumber: 4.1 Consensus size: 18
32391938 ATACAATAAA
32391948 ATACTTTTAATATATATAT
1 ATAC-TTTAATATATATAT
32391967 ATACTTTAA-ATATA-ACT
1 ATACTTTAATATATATA-T
* *
32391984 ATA-TTTACTATTTAT-T
1 ATACTTTAATATATATAT
* *
32392000 TTGCTTTAATAT-TATAT
1 ATACTTTAATATATATAT
32392017 A
1 A
32392018 AATTATAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
16 10 0.25
17 21 0.52
18 5 0.12
19 4 0.10
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (18 bp):
ATACTTTAATATATATAT
Found at i:32392037 original size:15 final size:15
Alignment explanation
Indices: 32392010--32392047 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
32392000 TTGCTTTAAT
32392010 ATTATATAAATTA-TA
1 ATTATA-AAATTATTA
32392025 ACTTATAAAATTATTA
1 A-TTATAAAATTATTA
32392041 ATTATAA
1 ATTATAA
32392048 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATTATTA
Done.