Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
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: 3132588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 15
Found at i:2693615 original size:49 final size:55
Alignment explanation
Indices: 2693506--2693615 Score: 126
Period size: 49 Copynumber: 2.1 Consensus size: 55
2693496 TTTATTGTAA
* * *
2693506 TATTAAAAATATAATATTATATTATTAGAAATATTAATAAATATATTTTAAATAT
1 TATTAATAATATAATATTATATGATTAGAAATAATAATAAATATATTTTAAATAT
* *
2693561 T-TTAATAAT-TAATATT-T-TGATTA-AAATAATATTAAA-ATATTTT-ATTAT
1 TATTAATAATATAATATTATATGATTAGAAATAATAATAAATATATTTTAAATAT
2693609 TATTAAT
1 TATTAAT
2693616 TCATAAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
48 5 0.10
49 12 0.24
50 11 0.22
51 5 0.10
52 1 0.02
53 7 0.14
54 7 0.14
55 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (55 bp):
TATTAATAATATAATATTATATGATTAGAAATAATAATAAATATATTTTAAATAT
Found at i:2697058 original size:29 final size:29
Alignment explanation
Indices: 2697021--2697078 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
2697011 GGTATGATTT
*
2697021 TGTAAAAAATA-AAACTTTGAGTACTAAAA
1 TGTAAAAAA-AGAAACTTTAAGTACTAAAA
*
2697050 TGTACAAAAAGTAAACTTTAAGTACTAAA
1 TGTAAAAAAAG-AAACTTTAAGTACTAAA
2697079 TACTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 8 0.32
30 16 0.64
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (29 bp):
TGTAAAAAAAGAAACTTTAAGTACTAAAA
Found at i:2697421 original size:17 final size:17
Alignment explanation
Indices: 2697399--2697437 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2697389 TTTACTTGAA
2697399 ATTTTAAAATATTATAT
1 ATTTTAAAATATTATAT
* *
2697416 ATTTTAAATTTTTATAT
1 ATTTTAAAATATTATAT
2697433 ATTTT
1 ATTTT
2697438 TTATTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAAAATATTATAT
Found at i:2697448 original size:203 final size:200
Alignment explanation
Indices: 2697094--2697511 Score: 718
Period size: 205 Copynumber: 2.1 Consensus size: 200
2697084 ATTTACCGAT
*
2697094 TTTTTTAACATATACTAATTACCTTATTTCATCATGTATTTATATAAAAAATAGTTGTTGTATGC
1 TTTTATAAC-TATACTAATTACCTTATTTCATCATGTATTTATATAAAAAATAGTTGTTGTATGC
2697159 TGGAATGGACTGAGGGGGGTGGGGTAGTTTTACTTGAAATTTTAAAATATTATATATTTTAATTT
65 TGGAATGGACTGAGGGGGGTGGGGTAGTTTTACTTGAAATTTTAAAATATTATATATTTTAATTT
2697224 TTATATATTTTTTATTG-AAA-ATGTTTTTGTCCTCTTAATGTTTTATAAGTTTAAGTTTA-AAT
130 TTATATATTTTTTATTGAAAATATGTTTTTGTCCTCTTAATG-TTTATAAGTTTAAGTTTATAAT
2697286 TCTAAAA
194 TCTAAAA
2697293 TTTTATAACTATACTAATTACCTTATATTCATCATGTATTTATATAAAAAAAATAGTTGTTGTAT
1 TTTTATAACTATACTAATTACCTTAT-TTCATCATGTATTTATAT--AAAAAATAGTTGTTGTAT
2697358 GCTGGAATGGACTGAGGGGTGGGTGGGGTAG-TTTACTTGAAATTTTAAAATATTATATATTTTA
63 GCTGGAATGGACTGA-GGG-GGGTGGGGTAGTTTTACTTGAAATTTTAAAATATTATATATTTT-
2697422 AATTTTTATATATTTTTTATTGAAAATATGTTTTTGTCCTCTTAATGTTTATAAGTTTAAGTTTA
125 AATTTTTATATATTTTTTATTGAAAATATGTTTTTGTCCTCTTAATGTTTATAAGTTTAAGTTTA
2697487 TAATTCTAAAA
190 TAATTCTAAAA
2697498 TTTTATAAACTATA
1 TTTTAT-AACTATA
2697512 AAATCTTGGA
Statistics
Matches: 208, Mismatches: 1, Indels: 13
0.94 0.00 0.06
Matches are distributed among these distances:
198 17 0.08
199 26 0.12
201 33 0.16
202 35 0.17
203 33 0.16
204 21 0.10
205 36 0.17
206 7 0.03
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (200 bp):
TTTTATAACTATACTAATTACCTTATTTCATCATGTATTTATATAAAAAATAGTTGTTGTATGCT
GGAATGGACTGAGGGGGGTGGGGTAGTTTTACTTGAAATTTTAAAATATTATATATTTTAATTTT
TATATATTTTTTATTGAAAATATGTTTTTGTCCTCTTAATGTTTATAAGTTTAAGTTTATAATTC
TAAAA
Found at i:2700361 original size:11 final size:11
Alignment explanation
Indices: 2700341--2700396 Score: 73
Period size: 10 Copynumber: 5.4 Consensus size: 11
2700331 AGTAACCAAC
2700341 AACT-ATAACA
1 AACTAATAACA
2700351 AACTAATAAC-
1 AACTAATAACA
2700361 AACTAATAACA
1 AACTAATAACA
*
2700372 AGCTAATAACA
1 AACTAATAACA
*
2700383 AAC-CATAACA
1 AACTAATAACA
2700393 AACT
1 AACT
2700397 CTAACATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
10 23 0.57
11 17 0.43
ACGTcount: A:0.59, C:0.21, G:0.02, T:0.18
Consensus pattern (11 bp):
AACTAATAACA
Found at i:2700371 original size:21 final size:20
Alignment explanation
Indices: 2700338--2700396 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
2700328 CCAAGTAACC
2700338 AACAACTATAACAAACTAAT
1 AACAACTATAACAAACTAAT
*
2700358 AACAACTAATAACAAGCTAAT
1 AACAACT-ATAACAAACTAAT
*
2700379 AACAAACCATAACAAACT
1 AAC-AACTATAACAAACT
2700397 CTAACATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 24 0.71
22 3 0.09
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (20 bp):
AACAACTATAACAAACTAAT
Found at i:2701978 original size:11 final size:11
Alignment explanation
Indices: 2701958--2702013 Score: 73
Period size: 10 Copynumber: 5.4 Consensus size: 11
2701948 AGTAACCAAC
2701958 AACT-ATAACA
1 AACTAATAACA
2701968 AACTAATAAC-
1 AACTAATAACA
2701978 AACTAATAACA
1 AACTAATAACA
*
2701989 AGCTAATAACA
1 AACTAATAACA
*
2702000 AAC-CATAACA
1 AACTAATAACA
2702010 AACT
1 AACT
2702014 CTAACAAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
10 23 0.57
11 17 0.43
ACGTcount: A:0.59, C:0.21, G:0.02, T:0.18
Consensus pattern (11 bp):
AACTAATAACA
Found at i:2701988 original size:21 final size:20
Alignment explanation
Indices: 2701955--2702013 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
2701945 CCAAGTAACC
2701955 AACAACTATAACAAACTAAT
1 AACAACTATAACAAACTAAT
*
2701975 AACAACTAATAACAAGCTAAT
1 AACAACT-ATAACAAACTAAT
*
2701996 AACAAACCATAACAAACT
1 AAC-AACTATAACAAACT
2702014 CTAACAAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 24 0.71
22 3 0.09
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (20 bp):
AACAACTATAACAAACTAAT
Found at i:2705843 original size:20 final size:20
Alignment explanation
Indices: 2705814--2705866 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2705804 ACTCATGGGG
2705814 GTATCGATACTACAAGTATA
1 GTATCGATACTACAAGTATA
*
2705834 GTATCTATACTACAAGTATA
1 GTATCGATACTACAAGTATA
2705854 GTATCGATACTAC
1 GTATCGATACTAC
2705867 TCATTTTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
GTATCGATACTACAAGTATA
Found at i:2706968 original size:32 final size:32
Alignment explanation
Indices: 2706872--2707022 Score: 122
Period size: 32 Copynumber: 4.7 Consensus size: 32
2706862 TCAGTGTCGC
* * * * * * *
2706872 ATTCAGAAAATGCACAATAATGGCACTGTCAC
1 ATTCAGATAATGCACAGTAGTGTCAGTTTCAT
* * *
2706904 ATTCAGATAATGCAAAGTAATGTCAGTGTCAT
1 ATTCAGATAATGCACAGTAGTGTCAGTTTCAT
* *
2706936 ATTCAGATAATACACAGTAGTGTTAGTTTCAT
1 ATTCAGATAATGCACAGTAGTGTCAGTTTCAT
* * ** ***
2706968 AATCAAATAATGCACAACAGTGTCAGTTTTGG
1 ATTCAGATAATGCACAGTAGTGTCAGTTTCAT
*
2707000 ATTCAGATAATGCATAGTAGTGT
1 ATTCAGATAATGCACAGTAGTGT
2707023 TAGTGTTGCA
Statistics
Matches: 94, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (32 bp):
ATTCAGATAATGCACAGTAGTGTCAGTTTCAT
Found at i:2710445 original size:24 final size:24
Alignment explanation
Indices: 2710415--2710533 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
2710405 AAATATAATT
* *
2710415 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
*
2710439 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
2710463 TAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
2710487 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
2710511 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
2710534 TCAAATTAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:2710549 original size:72 final size:72
Alignment explanation
Indices: 2710415--2710551 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 72
2710405 AAATATAATT
* **
2710415 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCTAAGTCAAGTATCAGAT
1 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCTAAATCAAAAATCAGAT
2710480 CAGAATC
66 CAGAATC
* * *
2710487 CATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAGATCAGAAT-TCAAATTAAAAATCAG
1 CATGTCAAG-TATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCT-AAATCAAAAATCAG
2710550 AT
64 AT
2710552 AAAATTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 3 0.05
72 54 0.95
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (72 bp):
CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCTAAATCAAAAATCAGAT
CAGAATC
Found at i:2714180 original size:20 final size:20
Alignment explanation
Indices: 2714155--2714201 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
2714145 TTGTTTACTA
2714155 CTGAATGGAACTATTCAGCG
1 CTGAATGGAACTATTCAGCG
2714175 CTGAATGGAACTATTCAGCG
1 CTGAATGGAACTATTCAGCG
2714195 CTGAATG
1 CTGAATG
2714202 TTGAACCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (20 bp):
CTGAATGGAACTATTCAGCG
Found at i:2714213 original size:22 final size:20
Alignment explanation
Indices: 2714155--2714215 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
2714145 TTGTTTACTA
*
2714155 CTGAATGGAACTATTCAGCG
1 CTGAATGGAACCATTCAGCG
*
2714175 CTGAATGGAACTATTCAGCG
1 CTGAATGGAACCATTCAGCG
*
2714195 CTGAATGTTGAACCGTTCAGC
1 CTGAATG--GAACCATTCAGC
2714216 ATTCAACGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 27 0.73
22 10 0.27
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (20 bp):
CTGAATGGAACCATTCAGCG
Found at i:2715992 original size:29 final size:28
Alignment explanation
Indices: 2715950--2716141 Score: 172
Period size: 29 Copynumber: 6.7 Consensus size: 28
2715940 CCTTTATTAA
* * *
2715950 AAAATAATTACCAAAATATCATCATTTT
1 AAAATAATTCCCAAAATGTCATCTTTTT
*
2715978 ACAAATAATTCCCAAAATGTCATCGTTTT
1 A-AAATAATTCCCAAAATGTCATCTTTTT
* * *
2716007 AAAATTAATTACCAGAATGTCATTGTTTTT
1 AAAA-TAATTCCCAAAATGTCA-TCTTTTT
*
2716037 AAAA-AATTCCCAAAA-GTCACCTTTTTT
1 AAAATAATTCCCAAAATGTCATC-TTTTT
* *
2716064 CAAAATAATTCCCAAAATGTGACCTTTTT
1 -AAAATAATTCCCAAAATGTCATCTTTTT
*** *
2716093 CAAAATAATTTTTAAAATGTCACCTTTTT
1 -AAAATAATTCCCAAAATGTCATCTTTTT
*
2716122 CAAAATAATTCCGAAAATGT
1 -AAAATAATTCCCAAAATGT
2716142 TACTGGGTCG
Statistics
Matches: 138, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
27 9 0.07
28 17 0.12
29 98 0.71
30 14 0.10
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (28 bp):
AAAATAATTCCCAAAATGTCATCTTTTT
Found at i:2716897 original size:27 final size:27
Alignment explanation
Indices: 2716859--2716952 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
2716849 AAAAACACTG
* *
2716859 CTGAATTATTCAGCATTTAAGTACATT
1 CTGAATGATTCAGCATTAAAGTACATT
*
2716886 CTGAATGATTCAGTATTAAAGTACATT
1 CTGAATGATTCAGCATTAAAGTACATT
*
2716913 CTGAATGATTTAGCATTAAAGTACATT
1 CTGAATGATTCAGCATTAAAGTACATT
2716940 CTGAATGATTCAG
1 CTGAATGATTCAG
2716953 AACCATTATC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (27 bp):
CTGAATGATTCAGCATTAAAGTACATT
Found at i:2719535 original size:22 final size:22
Alignment explanation
Indices: 2719510--2719626 Score: 98
Period size: 20 Copynumber: 5.3 Consensus size: 22
2719500 AGATGAGTAT
2719510 TAAAATTGGTGGTTTGATTTAA
1 TAAAATTGGTGGTTTGATTTAA
* **
2719532 TAAAATT--TGTTTTGATAGAA
1 TAAAATTGGTGGTTTGATTTAA
*
2719552 AAATCAATTGGTGGTTTGATTTAA
1 TAA--AATTGGTGGTTTGATTTAA
* **
2719576 TAAAATT--TGTTTTGATAGAA
1 TAAAATTGGTGGTTTGATTTAA
*
2719596 AAATCAATTGGTGGTTTGATTTAA
1 TAA--AATTGGTGGTTTGATTTAA
2719620 TAAAATT
1 TAAAATT
2719627 TGTTTTGAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
20 24 0.34
22 23 0.32
24 24 0.34
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (22 bp):
TAAAATTGGTGGTTTGATTTAA
Found at i:2719561 original size:44 final size:44
Alignment explanation
Indices: 2719513--2719634 Score: 244
Period size: 44 Copynumber: 2.8 Consensus size: 44
2719503 TGAGTATTAA
2719513 AATTGGTGGTTTGATTTAATAAAATTTGTTTTGATAGAAAAATC
1 AATTGGTGGTTTGATTTAATAAAATTTGTTTTGATAGAAAAATC
2719557 AATTGGTGGTTTGATTTAATAAAATTTGTTTTGATAGAAAAATC
1 AATTGGTGGTTTGATTTAATAAAATTTGTTTTGATAGAAAAATC
2719601 AATTGGTGGTTTGATTTAATAAAATTTGTTTTGA
1 AATTGGTGGTTTGATTTAATAAAATTTGTTTTGA
2719635 AAAAATATAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 78 1.00
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (44 bp):
AATTGGTGGTTTGATTTAATAAAATTTGTTTTGATAGAAAAATC
Found at i:2719569 original size:24 final size:24
Alignment explanation
Indices: 2719542--2719615 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
2719532 TAAAATTTGT
2719542 TTTGATAGAAAAATCAATTGGTGG
1 TTTGATAGAAAAATCAATTGGTGG
** * *
2719566 TTTGATTTAATAA--AATT--TGT
1 TTTGATAGAAAAATCAATTGGTGG
2719586 TTTGATAGAAAAATCAATTGGTGG
1 TTTGATAGAAAAATCAATTGGTGG
2719610 TTTGAT
1 TTTGAT
2719616 TTAATAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 12 0.32
22 8 0.21
24 18 0.47
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (24 bp):
TTTGATAGAAAAATCAATTGGTGG
Found at i:2722001 original size:2 final size:2
Alignment explanation
Indices: 2721994--2722056 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
2721984 ATTTAAGATT
2721994 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
2722036 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2722057 TCTAGAAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2724438 original size:5 final size:5
Alignment explanation
Indices: 2724428--2724453 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2724418 TGGTTTTTAG
2724428 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
2724454 ATCATTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:2727496 original size:137 final size:137
Alignment explanation
Indices: 2727249--2727509 Score: 387
Period size: 137 Copynumber: 1.9 Consensus size: 137
2727239 AGGTCCAAAA
* *
2727249 CCTCATCACGAAGGAATCGTGTCATCCTTAAATAACCAGACGTCCTCATCACGAAAGAACCGTGT
1 CCTCATCACGAAGGAATCGTGTCATCCTTAAATAACCAGACATCCTCATCACGAAAGAACCATGT
*
2727314 TACCTCAAATATCTTCAAAGATGGCCAGATGGCCTCATCACGAAGGAACAATGTCATCTACCAAT
66 TACCTCAAATATCTTCAAAGATGACCAGATGGCCTCATCACGAAGGAACAATGTCATCTACCAAT
2727379 CAGAACT
131 CAGAACT
* * * **
2727386 CCTCATCACGAATGAGTCGTGTCATCCTTAAATAACTAGACATCCTCATCACGAAAGAAGTATGT
1 CCTCATCACGAAGGAATCGTGTCATCCTTAAATAACCAGACATCCTCATCACGAAAGAACCATGT
* * * * * * *
2727451 TATCTCAAATATCTTTAAAGATGACTAGATGTCCTCATCATGAAGGAACTATGTTATCT
66 TACCTCAAATATCTTCAAAGATGACCAGATGGCCTCATCACGAAGGAACAATGTCATCT
2727510 CAAATATCTT
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
137 109 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (137 bp):
CCTCATCACGAAGGAATCGTGTCATCCTTAAATAACCAGACATCCTCATCACGAAAGAACCATGT
TACCTCAAATATCTTCAAAGATGACCAGATGGCCTCATCACGAAGGAACAATGTCATCTACCAAT
CAGAACT
Found at i:2727504 original size:54 final size:54
Alignment explanation
Indices: 2727428--2727553 Score: 216
Period size: 54 Copynumber: 2.3 Consensus size: 54
2727418 TAACTAGACA
* * *
2727428 TCCTCATCACGAAAGAAGTATGTTATCTCAAATATCTTTAAAGATGACTAGATG
1 TCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTTAAAGATGACCAGATG
*
2727482 TCCTCATCATGAAGGAACTATGTTATCTCAAATATCTTTAAAGATGACCAGATG
1 TCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTTAAAGATGACCAGATG
2727536 TCCTCATCACGAAGGAAC
1 TCCTCATCACGAAGGAAC
2727554 AATATCATCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (54 bp):
TCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTTAAAGATGACCAGATG
Found at i:2727625 original size:191 final size:191
Alignment explanation
Indices: 2727290--2727700 Score: 624
Period size: 191 Copynumber: 2.2 Consensus size: 191
2727280 ATAACCAGAC
** * *
2727290 GTCCTCATCACGAAAGAACCGTGTTACCTCAAATATCTTCAAAGATGGCCAGATGGCCTCATCAC
1 GTCCTCATCACGAAAGAACAATGTTATCTCAAATATCTTCAAAGATGACCAGATGGCCTCATCAC
* *
2727355 GAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAATGAGTCGTGTCATCCTTAAATA
66 GAAGGAACAATATCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAAATA
* * * * *
2727420 ACTAGACATCCTCATCACGAAAGAAGTATGTTATCTCAAATATCTTTAAAGATGACTAGAT
131 ACCAGACATCCTCATCACGAAAGAACTATGTTATCTCAAATATCTTCAAAGATGACCAAAT
* * * * *
2727481 GTCCTCATCATGAAGGAACTATGTTATCTCAAATATCTTTAAAGATGACCAGATGTCCTCATCAC
1 GTCCTCATCACGAAAGAACAATGTTATCTCAAATATCTTCAAAGATGACCAGATGGCCTCATCAC
*
2727546 GAAGGAACAATATCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAGATA
66 GAAGGAACAATATCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAAATA
* * * *
2727611 ACCAGACGTCCTCATCACGAAGGAACTGTGTTATCTCAAATATCTTCAAAGATGGCCAAAT
131 ACCAGACATCCTCATCACGAAAGAACTATGTTATCTCAAATATCTTCAAAGATGACCAAAT
*
2727672 GTCCTCATCACGAAAGAACAATGTCATCT
1 GTCCTCATCACGAAAGAACAATGTTATCT
2727701 ACCAATCAGA
Statistics
Matches: 196, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
191 196 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (191 bp):
GTCCTCATCACGAAAGAACAATGTTATCTCAAATATCTTCAAAGATGACCAGATGGCCTCATCAC
GAAGGAACAATATCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAAATA
ACCAGACATCCTCATCACGAAAGAACTATGTTATCTCAAATATCTTCAAAGATGACCAAAT
Found at i:2727727 original size:137 final size:137
Alignment explanation
Indices: 2727481--2727836 Score: 507
Period size: 137 Copynumber: 2.6 Consensus size: 137
2727471 ATGACTAGAT
* * *
2727481 GTCCTCATCATGAAGGAACTATGTTATCTCAAATATCTTTAAAGATGACCAGATGTCCTCATCAC
1 GTCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTCAAAGATGACCAAATGTCCTCATCAC
*
2727546 GAAGGAACAATATCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAGATA
66 GAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAGATA
* *
2727611 ACCAGAC
131 ACCAAAA
* *
2727618 GTCCTCATCACGAAGGAACTGTGTTATCTCAAATATCTTCAAAGATGGCCAAATGTCCTCATCAC
1 GTCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTCAAAGATGACCAAATGTCCTCATCAC
* * * *
2727683 GAAAGAACAATGTCATCTACCAATCAGAACTTCTCATCACGAAGGAGTCGTGTCATTCTTTGATA
66 GAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAGATA
*
2727748 GCCAAAA
131 ACCAAAA
* * * * * *
2727755 GTCCTTATCACAAAGGAACCATGCTATCTCAATTTATC-TCTAAACATGACCAAATGTCCTCATC
1 GTCCTCATCACGAAGGAACTATGTTATCTCAA-ATATCTTC-AAAGATGACCAAATGTCCTCATC
*
2727819 ATGAAGGAACAATGTCAT
64 ACGAAGGAACAATGTCAT
2727837 ACACCAGTTG
Statistics
Matches: 194, Mismatches: 23, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
137 153 0.79
138 41 0.21
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (137 bp):
GTCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTCAAAGATGACCAAATGTCCTCATCAC
GAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTCGTGTCATCCTTAGATA
ACCAAAA
Found at i:2728011 original size:3 final size:3
Alignment explanation
Indices: 2728003--2728031 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2727993 GTCCTTTTTA
2728003 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2728032 AATAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2728712 original size:21 final size:19
Alignment explanation
Indices: 2728668--2728711 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
2728658 TAGAGAGAAG
*
2728668 GGAGAGTTTCTCTCTCTTT
1 GGAGAGCTTCTCTCTCTTT
2728687 GGAGAGCTTCTCTCTCTTT
1 GGAGAGCTTCTCTCTCTTT
2728706 GGAGAG
1 GGAGAG
2728712 AAGCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (19 bp):
GGAGAGCTTCTCTCTCTTT
Found at i:2728926 original size:5 final size:5
Alignment explanation
Indices: 2728916--2728941 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2728906 TGGTTTTTAG
2728916 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
2728942 ATCATTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:2733435 original size:2 final size:2
Alignment explanation
Indices: 2733428--2733456 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2733418 ATGAACATAA
2733428 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 A
2733457 GTCAACATCA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2736705 original size:24 final size:24
Alignment explanation
Indices: 2736655--2736702 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2736645 ATCCATATCA
* **
2736655 TAATATTATAAATTTAAATTTAAT
1 TAATATTATAAAATTAAATAAAAT
2736679 TAATATTA-AAAATTAAATAAAAT
1 TAATATTATAAAATTAAATAAAAT
2736702 T
1 T
2736703 TAAATGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATATTATAAAATTAAATAAAAT
Found at i:2739855 original size:8 final size:8
Alignment explanation
Indices: 2739842--2739871 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2739832 CCTCTACTTC
2739842 TTCTTCTG
1 TTCTTCTG
2739850 TTCTTCTG
1 TTCTTCTG
2739858 TTCTTCTG
1 TTCTTCTG
*
2739866 TCCTTC
1 TTCTTC
2739872 CTCACTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.10, T:0.60
Consensus pattern (8 bp):
TTCTTCTG
Found at i:2752231 original size:22 final size:24
Alignment explanation
Indices: 2752206--2752259 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
2752196 TGTATACCAA
*
2752206 ACTCAACTAACTCA-CT-TAACAG
1 ACTCAACTAACTAATCTCTAACAG
2752228 ACTC-A-TAACTAATCTCTAACAG
1 ACTCAACTAACTAATCTCTAACAG
*
2752250 CCTCAACTAA
1 ACTCAACTAA
2752260 TCTTGACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 6 0.23
21 3 0.12
22 13 0.50
23 1 0.04
24 3 0.12
ACGTcount: A:0.41, C:0.31, G:0.04, T:0.24
Consensus pattern (24 bp):
ACTCAACTAACTAATCTCTAACAG
Found at i:2753387 original size:13 final size:13
Alignment explanation
Indices: 2753364--2753423 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
2753354 TTTGATACAT
2753364 TTTTAAATTTAATA
1 TTTT-AATTTAATA
2753378 TTTTAATTT-ATA
1 TTTTAATTTAATA
* *
2753390 -TATATATTTAAAA
1 TTTTA-ATTTAATA
*
2753403 TTTTGAATTAAATA
1 TTTT-AATTTAATA
2753417 TTTTAAT
1 TTTTAAT
2753424 GAAAATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
11 3 0.08
12 7 0.19
13 10 0.27
14 16 0.43
15 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
TTTTAATTTAATA
Found at i:2753417 original size:25 final size:25
Alignment explanation
Indices: 2753370--2753417 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2753360 ACATTTTTAA
* *
2753370 ATTTAATATTTTAATTTATATATAT
1 ATTTAAAATTTTAATTTAAATATAT
2753395 ATTTAAAATTTTGAA-TTAAATAT
1 ATTTAAAATTTT-AATTTAAATAT
2753418 TTTAATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTAAAATTTTAATTTAAATATAT
Found at i:2754526 original size:10 final size:10
Alignment explanation
Indices: 2754511--2754535 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2754501 AAATTTTAAA
2754511 TTTTATATTT
1 TTTTATATTT
2754521 TTTTATATTT
1 TTTTATATTT
2754531 TTTTA
1 TTTTA
2754536 AAAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATATTT
Found at i:2754639 original size:24 final size:23
Alignment explanation
Indices: 2754601--2754662 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 23
2754591 CCAAATTTTA
2754601 TATAATATAATTTTTTATATACTAACT
1 TATAA-AT-ATTTTTTATAT--TAACT
2754628 TA-AAATA-TTTTTATATTAACT
1 TATAAATATTTTTTATATTAACT
2754649 TATTAAATATTTTT
1 TA-TAAATATTTTT
2754663 ACTATTAGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
21 7 0.22
23 14 0.44
24 5 0.16
25 2 0.06
26 2 0.06
27 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (23 bp):
TATAAATATTTTTTATATTAACT
Found at i:2754668 original size:24 final size:21
Alignment explanation
Indices: 2754612--2754675 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 21
2754602 ATAATATAAT
2754612 TTTTTATATACTAACTTAAAATA
1 TTTTTATAT--TAACTTAAAATA
2754635 TTTTTATATTAACTTATTAAATA
1 TTTTTATATTAACTTA--AAATA
*
2754658 TTTTTACTATTAGCTTAA
1 TTTTTA-TATTAACTTAA
2754676 TTTAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 7 0.19
22 1 0.03
23 20 0.54
24 9 0.24
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTTATATTAACTTAAAATA
Found at i:2755367 original size:5 final size:5
Alignment explanation
Indices: 2755359--2755384 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2755349 AATTATATAT
2755359 ATAGA ATAGA ATAGA ATAGA ATAGA A
1 ATAGA ATAGA ATAGA ATAGA ATAGA A
2755385 ATTATCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
ATAGA
Found at i:2755532 original size:30 final size:30
Alignment explanation
Indices: 2755497--2755558 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
2755487 ACAAGTGCTC
*
2755497 AAATTATACTAATTTT-TC-ATTTAGGTGTCT
1 AAATTAT--TAATTTTATCAATTTAGGTGCCT
*
2755527 AAATTATTATTTTTATCAATTTAGGTGCCT
1 AAATTATTAATTTTATCAATTTAGGTGCCT
2755557 AA
1 AA
2755559 TTTTTTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 6 0.21
29 2 0.07
30 20 0.71
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (30 bp):
AAATTATTAATTTTATCAATTTAGGTGCCT
Found at i:2757449 original size:17 final size:18
Alignment explanation
Indices: 2757424--2757457 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2757414 TATAAACAAT
2757424 TATTAATTTTAAAAGAAA
1 TATTAATTTTAAAAGAAA
*
2757442 TATT-ATTTTAATAGAA
1 TATTAATTTTAAAAGAA
2757458 CTTGTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TATTAATTTTAAAAGAAA
Found at i:2758260 original size:35 final size:35
Alignment explanation
Indices: 2758214--2758289 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
2758204 AACACAATCC
* *
2758214 TCAATTTCATTTTAAACACTAAATTCCAAAATAAT
1 TCAATTACATTTTAAACACCAAATTCCAAAATAAT
* * *
2758249 TCAATTACATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTACATTTTAAACACCAAATTCCAAAATAAT
2758284 TCAATT
1 TCAATT
2758290 TAGTGTTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (35 bp):
TCAATTACATTTTAAACACCAAATTCCAAAATAAT
Found at i:2758333 original size:35 final size:35
Alignment explanation
Indices: 2758286--2758360 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 35
2758276 AAAATACTTC
2758286 AATTTAGTGTTTAGAATGTAATTGAAGTATTTTGA
1 AATTTAGTGTTTAGAATGTAATTGAAGTATTTTGA
* *
2758321 AATTTGAG-GTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTT-AGTGTTTAGAATGTAATTGAAGTATTTTGA
2758356 AATTT
1 AATTT
2758361 TGAATATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (35 bp):
AATTTAGTGTTTAGAATGTAATTGAAGTATTTTGA
Found at i:2762704 original size:35 final size:35
Alignment explanation
Indices: 2762630--2762704 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
2762620 TTCATGTTCA
*
2762630 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAACACTTCAATTACATTCTAAACACC
* * *
2762665 AAATTCCAAAATACTTCAATTACATTCTAAATACT
1 AAATTCCAAAACACTTCAATTACATTCTAAACACC
2762700 AAATT
1 AAATT
2762705 GAAGTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACACC
Found at i:2762741 original size:35 final size:35
Alignment explanation
Indices: 2762700--2762776 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
2762690 TCTAAATACT
2762700 AAATTGAAGTATTTTAGAA-TTTAGGGTTTAAAATA
1 AAATTGAAGTATTTT-GAAGTTTAGGGTTTAAAATA
* * * *
2762735 TAATTGAATTATTTTGAAGTTTGGGGTTTAGAATA
1 AAATTGAAGTATTTTGAAGTTTAGGGTTTAAAATA
2762770 AAATTGA
1 AAATTGA
2762777 GGATTGTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 3 0.08
35 33 0.92
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (35 bp):
AAATTGAAGTATTTTGAAGTTTAGGGTTTAAAATA
Found at i:2768871 original size:195 final size:195
Alignment explanation
Indices: 2768539--2768930 Score: 615
Period size: 195 Copynumber: 2.0 Consensus size: 195
2768529 TTTGATTGTC
*
2768539 AGGTTTTGTCTGATTTAGGTGACTAATTGATTAAATATCTTGACCCGTTTCATTTCAGCTGCCAG
1 AGGTTTTGTCTGATTTAGGTGACTAATTGACTAAATATCTTGACCCGTTTCATTTCAGCTGCCAG
* *
2768604 TTGGAATTATTTACGTTACAATTAATCGATTTCGAGATAGGATTTCTTGTTTTCAATAATGTATC
66 TTGGAATTATTTACGTTACAATTAATAGATTTCGAGATAGGATTTCTTGTTTTCAATAATGTAGC
* * * *
2768669 TCTTCTTCTCCTTCATTGAGCATAGAAGGAACGATTTGGAAGAAACTGATAAAGTCGTTTTTGAA
131 TCTTCTTCTCCTTCATTGAGCATAGAAGCAACGATTTGGAAGAAACTAACAAAGTCATTTTTGAA
* * * * *
2768734 AGGTTTTGT-TGGATTTTGGTGACTCATTGACTAAATATCTTGATCTGTTTCATTTCAGCTTCCA
1 AGGTTTTGTCT-GATTTAGGTGACTAATTGACTAAATATCTTGACCCGTTTCATTTCAGCTGCCA
* ** *
2768798 GTTGGAATTATTTACGTTAGAATTAATAGATTTCGTTATAGGATTTGTTGTTTTCAATAATGTAG
65 GTTGGAATTATTTACGTTACAATTAATAGATTTCGAGATAGGATTTCTTGTTTTCAATAATGTAG
*
2768863 CTCTTCTTCTCCTTCATTGAGCATAGAAGCAACGATTTGGAAGAAACTAACAATGTCATTTTTGA
130 CTCTTCTTCTCCTTCATTGAGCATAGAAGCAACGATTTGGAAGAAACTAACAAAGTCATTTTTGA
2768928 A
195 A
2768929 AG
1 AG
2768931 ATTTACTTTT
Statistics
Matches: 179, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
194 1 0.01
195 178 0.99
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (195 bp):
AGGTTTTGTCTGATTTAGGTGACTAATTGACTAAATATCTTGACCCGTTTCATTTCAGCTGCCAG
TTGGAATTATTTACGTTACAATTAATAGATTTCGAGATAGGATTTCTTGTTTTCAATAATGTAGC
TCTTCTTCTCCTTCATTGAGCATAGAAGCAACGATTTGGAAGAAACTAACAAAGTCATTTTTGAA
Found at i:2769212 original size:3 final size:3
Alignment explanation
Indices: 2769206--2769294 Score: 85
Period size: 3 Copynumber: 30.0 Consensus size: 3
2769196 ACATTTGGTT
* *
2769206 TTA TTA TTA -TA TTTA TTA TTT TTA TTT TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
2769251 GTT- TTG TTA TTA ATA TTA TTA TTG TTA ATA TTA TTA TT- TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2769295 CAGATACAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 6 0.09
3 60 0.86
4 4 0.06
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2774743 original size:15 final size:15
Alignment explanation
Indices: 2774723--2774754 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2774713 ATCAATACCT
2774723 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
2774738 TTTTGCATACATTCA
1 TTTTGCATACATGCA
2774753 TT
1 TT
2774755 ATTCATTTCA
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:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:2782116 original size:33 final size:35
Alignment explanation
Indices: 2782079--2782163 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 35
2782069 ATTATGCTTG
2782079 AAGAAAAAAAGAAGAAAAAA-AA-GAAGAAG-G-AAA
1 AAGAAAAAAA-AAGAAAAAAGAAGGAA-AAGAGAAAA
2782112 AAGAAAAAAAAAGAAAAAAGAAGGAAAAGAGAAAA
1 AAGAAAAAAAAAGAAAAAAGAAGGAAAAGAGAAAA
2782147 AAGAAAAAAAAA-AAAAA
1 AAGAAAAAAAAAGAAAAA
2782164 GAAAAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
32 9 0.19
33 15 0.31
34 9 0.19
35 15 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (35 bp):
AAGAAAAAAAAAGAAAAAAGAAGGAAAAGAGAAAA
Found at i:2782128 original size:7 final size:7
Alignment explanation
Indices: 2782085--2782170 Score: 61
Period size: 7 Copynumber: 11.9 Consensus size: 7
2782075 CTTGAAGAAA
2782085 AAAAGAAG
1 AAAA-AAG
2782093 AAAAAA-
1 AAAAAAG
2782099 AAGAAGAAG
1 AA-AA-AAG
*
2782108 GAAAAAG
1 AAAAAAG
2782115 AAAAAA-
1 AAAAAAG
2782121 AAAGAAA-
1 AAA-AAAG
*
2782128 AAAGAAGG
1 AAA-AAAG
*
2782136 AAAAGAG
1 AAAAAAG
2782143 AAAAAAG
1 AAAAAAG
*
2782150 AAAAAAAA
1 -AAAAAAG
2782158 AAAAAAG
1 AAAAAAG
2782165 AAAAAA
1 AAAAAA
2782171 AAAGGGGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
6 5 0.08
7 41 0.64
8 17 0.27
9 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:2782133 original size:42 final size:40
Alignment explanation
Indices: 2782083--2782170 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 40
2782073 TGCTTGAAGA
* *
2782083 AAAAAAGAAGAAAAAAAAGAAGAAGGAAAAAGAAAAAAAAAG
1 AAAAAAGAAG-AAAAAAAGAAAAAAGAAAAA-AAAAAAAAAG
* *
2782125 AAAAAAGAAGGAAAAGAGAAAAAAGAAAAAAAAAAAAAAG
1 AAAAAAGAAGAAAAAAAGAAAAAAGAAAAAAAAAAAAAAG
2782165 AAAAAA
1 AAAAAA
2782171 AAAGGGGGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 16 0.38
41 16 0.38
42 10 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (40 bp):
AAAAAAGAAGAAAAAAAGAAAAAAGAAAAAAAAAAAAAAG
Found at i:2782164 original size:33 final size:32
Alignment explanation
Indices: 2782079--2782167 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 32
2782069 ATTATGCTTG
2782079 AAGAAAAAAAGAAGAAAAA-AAAGAAGAAGGAAA
1 AAGAAAAAAA-AA-AAAAAGAAAGAAGAAGGAAA
*
2782112 AAGAAAAAAAAAGAAAAAAGAAGGAA-AAGAGAAAA
1 AAG-AAAAAAAA-AAAAAAGAAAGAAGAAG-G-AAA
2782147 AAGAAAAAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAAAAAGAAA
2782168 AAAAAAGGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
33 21 0.43
34 22 0.45
35 6 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (32 bp):
AAGAAAAAAAAAAAAAAGAAAGAAGAAGGAAA
Found at i:2782172 original size:42 final size:43
Alignment explanation
Indices: 2782079--2782171 Score: 129
Period size: 41 Copynumber: 2.2 Consensus size: 43
2782069 ATTATGCTTG
* *
2782079 AAGAAAAAAAGAAGAAAAAAAAGAAGAAGGAAAAAGAAAAAAA
1 AAGAAAAAAAGAAGAAAAAAAAGAAAAAAGAAAAAGAAAAAAA
* *
2782122 AAG-AAAAAAGAAG-GAAAAGAGAAAAAAGAAAAA-AAAAAAA
1 AAGAAAAAAAGAAGAAAAAAAAGAAAAAAGAAAAAGAAAAAAA
2782162 AAGAAAAAAA
1 AAGAAAAAAA
2782172 AAGGGGGGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 10 0.22
41 22 0.49
42 10 0.22
43 3 0.07
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (43 bp):
AAGAAAAAAAGAAGAAAAAAAAGAAAAAAGAAAAAGAAAAAAA
Found at i:2783634 original size:114 final size:114
Alignment explanation
Indices: 2783397--2783710 Score: 538
Period size: 114 Copynumber: 2.7 Consensus size: 114
2783387 TAATGTGCTC
2783397 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC-AAAACCAA
*
2783462 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACTCA
65 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
2783512 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
* *
2783577 CATTAGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
66 CATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
* * * * *
2783626 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCAGAACCGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
*
2783691 CATTGGAATTGAAAGATGAA
66 CATTGGATTTGAAAGATGAA
2783711 CTGCATGATC
Statistics
Matches: 189, Mismatches: 10, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
114 133 0.70
115 56 0.30
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (114 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
CATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
Found at i:2784748 original size:113 final size:113
Alignment explanation
Indices: 2784405--2784821 Score: 637
Period size: 113 Copynumber: 3.7 Consensus size: 113
2784395 ATCCATAACA
*
2784405 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* **
2784470 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
* *
2784518 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAAT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
2784582 TCATAATGAGAAGAATTTGTTCAACCTTTTGCCTAAATTCATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
*
2784630 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* *
2784695 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAATTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
* * * * * **
2784743 ATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCAT-CTGAA-GAAG-AG-AG
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAG
2784804 TTCATAATGAGAAGAATT
65 TTCATAATGAGAAGAATT
2784822 CGTCATCTGA
Statistics
Matches: 281, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
110 20 0.07
111 2 0.01
112 109 0.39
113 149 0.53
114 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
Found at i:2784798 original size:19 final size:19
Alignment explanation
Indices: 2784776--2784838 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
2784766 GTTCATAATG
2784776 AGAAGAACTCGTCATCTGA
1 AGAAGAACTCGTCATCTGA
* *
2784795 AGAAGAGAGT--TCATAATG-
1 AGAAGA-ACTCGTCAT-CTGA
*
2784813 AGAAGAATTCGTCATCTGA
1 AGAAGAACTCGTCATCTGA
2784832 AGAAGAA
1 AGAAGAA
2784839 GAATAAGTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 2 0.06
18 12 0.34
19 19 0.54
20 2 0.06
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (19 bp):
AGAAGAACTCGTCATCTGA
Found at i:2784804 original size:37 final size:38
Alignment explanation
Indices: 2784763--2784861 Score: 146
Period size: 37 Copynumber: 2.5 Consensus size: 38
2784753 ATTGCCAGAT
2784763 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG-
1 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGA
*
2784800 AGAGTTCATAATGAGAAGAATTCGTCATCTGAAGAAGA
1 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGA
2784838 AGAATAAGTTCATAATGAGAAGAA
1 AG----AGTTCATAATGAGAAGAA
2784862 TTTGTTCAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
37 36 0.64
38 2 0.04
42 18 0.32
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.22
Consensus pattern (38 bp):
AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGA
Found at i:2784840 original size:152 final size:146
Alignment explanation
Indices: 2784651--2785018 Score: 557
Period size: 152 Copynumber: 2.5 Consensus size: 146
2784641 TTTCCAGAGA
2784651 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
2784716 CAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAG
65 CAACCTTTTGTTTAAATTCATCAATTGAT-GATTAACATTGCCAGATAGAGTTCATAATGAGAAG
*
2784781 AACTCGTCATCTGAAG-AAGAG
129 AA----TCATCTGAAGAAAAAG
*
2784802 -AGTTCATAATGAGAAGAATTCGTCATCTGAAGAAGAAGAATAAGTTCATAATGAGAAGAATTTG
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTG
* *
2784866 TTCAACCTTTTGTTTAAATTCATCATTTGATGATTAACATTGCCAGGTAGAGTTCATAATGAGAA
63 TTCAACCTTTTGTTTAAATTCATCAATTGATGATTAACATTGCCAGATAGAGTTCATAATGAGAA
2784931 GAATCATCTGAAGAAAAAG
128 GAATCATCTGAAGAAAAAG
* **
2784950 AAGTTCATAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
2785012 AACCTTT
66 AACCTTT
2785019 GCATAATTCT
Statistics
Matches: 204, Mismatches: 8, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
143 39 0.19
146 6 0.03
147 11 0.05
148 4 0.02
149 18 0.09
150 18 0.09
151 36 0.18
152 60 0.29
153 12 0.06
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (146 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTAAATTCATCAATTGATGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAA
TCATCTGAAGAAAAAG
Found at i:2784868 original size:20 final size:20
Alignment explanation
Indices: 2784765--2784869 Score: 60
Period size: 20 Copynumber: 5.3 Consensus size: 20
2784755 TGCCAGATAG
*
2784765 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAATT
* * *
2784785 CG-TCAT-CTGAAGAAG-A-G
1 AGTTCATAATG-AGAAGAATT
2784802 AGTTCATAATGAGAAGAATT
1 AGTTCATAATGAGAAGAATT
* *
2784822 CG-TCATCTGAA-GAAGAAGAATA
1 AGTTCA--T-AATG-AGAAGAATT
2784844 AGTTCATAATGAGAAGAATT
1 AGTTCATAATGAGAAGAATT
*
2784864 TGTTCA
1 AGTTCA
2784870 ACCTTTTGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 22
0.66 0.11 0.23
Matches are distributed among these distances:
17 1 0.02
18 12 0.19
19 15 0.24
20 17 0.27
21 4 0.06
22 11 0.17
23 3 0.05
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAATT
Found at i:2784981 original size:36 final size:35
Alignment explanation
Indices: 2784916--2785003 Score: 149
Period size: 36 Copynumber: 2.5 Consensus size: 35
2784906 TGCCAGGTAG
2784916 AGTTCATAATGAGAAGAATCATCTGAAGAAAAAGA
1 AGTTCATAATGAGAAGAATCATCTGAAGAAAAAGA
*
2784951 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
1 AGTTCATAATGAGAAGAA-TCATCTGAAGAAAAAGA
*
2784987 AGTTCACAATGAGAAGA
1 AGTTCATAATGAGAAGA
2785004 GCTTGTTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 18 0.36
36 32 0.64
ACGTcount: A:0.49, C:0.10, G:0.22, T:0.19
Consensus pattern (35 bp):
AGTTCATAATGAGAAGAATCATCTGAAGAAAAAGA
Found at i:2785212 original size:119 final size:118
Alignment explanation
Indices: 2784950--2785225 Score: 323
Period size: 119 Copynumber: 2.3 Consensus size: 118
2784940 GAAGAAAAAG
* *
2784950 AAGTTCATAATGAGAAGAACTCATCTG--AAGAAG-A-AGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAAAGAAGAGAAGTTCACAATGAGAAGAGCTTATT
* * * * *
2785011 CAACCTTTGCATAATTCTATCACAGAAGTAGATAGATTAGCATCAACCTTTCCAGA
66 CAACCTTTGAATAACTCTATCACAGAAGGAAATACA-TAGCATCAACC--TCCAGA
*
2785067 AAGTTCATAATGAGAAGAACTCATCTGAAAAAAAAGAAGAGAAGTTCATAATGAGAAGAGCTTAT
1 AAGTTCATAATGAGAAGAACTCATCTG-AAAAAAAGAAGAGAAGTTCACAATGAGAAGAGCTTAT
* * *
2785132 TTAACCTTTTGAATGACTCTATCACAGAAGGAAATACA-A-CATCATCC-CCAGAGA
65 TCAACC-TTTGAATAACTCTATCACAGAAGGAAATACATAGCATCAACCTCC--AGA
*
2785186 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGA
1 AAGTTCATAATGAGAAGAACTCATCTGAA-AAAAAGAAGA
2785226 ATTTATTCAA
Statistics
Matches: 138, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
117 29 0.21
118 2 0.01
119 39 0.28
120 12 0.09
121 2 0.01
122 29 0.21
123 25 0.18
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (118 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAAAAAGAAGAGAAGTTCACAATGAGAAGAGCTTATT
CAACCTTTGAATAACTCTATCACAGAAGGAAATACATAGCATCAACCTCCAGA
Found at i:2785382 original size:3 final size:3
Alignment explanation
Indices: 2785364--2785454 Score: 75
Period size: 3 Copynumber: 31.7 Consensus size: 3
2785354 TTACATTTGG
* * *
2785364 TAT TA- TAT TA- TAT TAT TATT TAT TTT TAT TTT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
2785408 TAT TAG T-T TGT TA- TAA TAT TAT TAT TAT TAA TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2785453 TA
1 TA
2785455 CAGATACAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
2 9 0.13
3 58 0.83
4 3 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2785412 original size:31 final size:33
Alignment explanation
Indices: 2785369--2785454 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
2785359 TTTGGTATTA
* *
2785369 TATT-ATATTATTATTTATT-T-TTATTTTTAT
1 TATTAATATTATTATTTATTATAATATTATTAT
* * *
2785399 TTTTATTATTATTAGTTTGTTATAATATTATTAT
1 TATTAATATTATTA-TTTATTATAATATTATTAT
2785433 TATTAATATTATTATTTTATTA
1 TATTAATATTATTA-TTTATTA
2785455 CAGATACAAC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 3 0.07
31 8 0.19
32 5 0.12
33 1 0.02
34 26 0.60
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (33 bp):
TATTAATATTATTATTTATTATAATATTATTAT
Found at i:2789389 original size:103 final size:101
Alignment explanation
Indices: 2789262--2789460 Score: 380
Period size: 103 Copynumber: 2.0 Consensus size: 101
2789252 TGAAGTTATA
2789262 GAAGAGGGGTAGAAATTGGCTTACAATCTTGCATGTTGAATCATGACAAGATCTCTTCAAGTAAT
1 GAAGAGGGGTAGAAATTGGCTTACAATCTTGCATGTTGAATCATGACAAGA--TCTTCAAGTAAT
2789327 TCTTTTGTGAAAGCCAAATCTTCATATTACTTCAATAG
64 TCTTTTGTGAAAGCCAAATCTTCATATTACTTCAATAG
2789365 GAAGAGGGGTAGAAATTGGCTTACAATCTTGCATGTTGAATCATGACAAGATCTTCAAGTAATTC
1 GAAGAGGGGTAGAAATTGGCTTACAATCTTGCATGTTGAATCATGACAAGATCTTCAAGTAATTC
2789430 TTTTGTGAAAGCCAAATCTTCATATTACTTC
66 TTTTGTGAAAGCCAAATCTTCATATTACTTC
2789461 TGTCTCGGTG
Statistics
Matches: 96, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
101 45 0.47
103 51 0.53
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (101 bp):
GAAGAGGGGTAGAAATTGGCTTACAATCTTGCATGTTGAATCATGACAAGATCTTCAAGTAATTC
TTTTGTGAAAGCCAAATCTTCATATTACTTCAATAG
Found at i:2793912 original size:16 final size:16
Alignment explanation
Indices: 2793891--2793923 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2793881 TTTTGCAACT
2793891 TTTGTTTTCAGAATAA
1 TTTGTTTTCAGAATAA
*
2793907 TTTGTTTTCATAATAA
1 TTTGTTTTCAGAATAA
2793923 T
1 T
2793924 GAGTGTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (16 bp):
TTTGTTTTCAGAATAA
Found at i:2796931 original size:30 final size:29
Alignment explanation
Indices: 2796878--2796953 Score: 120
Period size: 30 Copynumber: 2.7 Consensus size: 29
2796868 TTCTAAGGGC
*
2796878 GTCCTAATAATTTTGA--TTTTTAACTTA
1 GTCCTAATAATTTTGATTTTTTTAACATA
2796905 GTCCTAATAATTTTGATTTCTTTTAACATA
1 GTCCTAATAATTTTGATTT-TTTTAACATA
2796935 GTCCTAATAATTTTGATTT
1 GTCCTAATAATTTTGATTT
2796954 GGGATATACA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 16 0.36
29 1 0.02
30 28 0.62
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (29 bp):
GTCCTAATAATTTTGATTTTTTTAACATA
Found at i:2804651 original size:32 final size:31
Alignment explanation
Indices: 2804615--2804691 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
2804605 CGAGGCCTTG
*
2804615 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
2804647 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
2804678 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
2804692 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:2807551 original size:13 final size:13
Alignment explanation
Indices: 2807533--2807562 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2807523 AGTGGTCAAC
2807533 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2807546 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2807559 GGTC
1 GGTC
2807563 GGATTGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2810753 original size:26 final size:26
Alignment explanation
Indices: 2810723--2810772 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2810713 ATTTGAGAAC
*
2810723 TTCACATAGATAAAAGTTAATCGTAG
1 TTCACATAGATAAAAATTAATCGTAG
2810749 TTCACATAGATAAAAATTAATCGT
1 TTCACATAGATAAAAATTAATCGT
2810773 TGAATAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (26 bp):
TTCACATAGATAAAAATTAATCGTAG
Found at i:2813457 original size:76 final size:76
Alignment explanation
Indices: 2813344--2813497 Score: 202
Period size: 76 Copynumber: 2.0 Consensus size: 76
2813334 TATCACTCAT
* *
2813344 CAAATTGTTAAACCTTTAATAATCGTTTAGAGGAAGTGACAACAAACCTTTAACGGCCT-ATTAA
1 CAAATTGTCAAACCTTTAATAATCGTTTAGAGGAAGTGACAACAAACCTTTAAC-GACTGATTAA
2813408 GGTAAATGACCA
65 GGTAAATGACCA
** * * * * *
2813420 CAAATTGTCAAACCTTTAATGGTCGTTTAGAGTAAGTGGCCACACACCTTTAACGACTGATTAGG
1 CAAATTGTCAAACCTTTAATAATCGTTTAGAGGAAGTGACAACAAACCTTTAACGACTGATTAAG
*
2813485 GTAAATGATCA
66 GTAAATGACCA
2813496 CA
1 CA
2813498 TCTTAATTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
75 3 0.04
76 64 0.96
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (76 bp):
CAAATTGTCAAACCTTTAATAATCGTTTAGAGGAAGTGACAACAAACCTTTAACGACTGATTAAG
GTAAATGACCA
Found at i:2818056 original size:22 final size:22
Alignment explanation
Indices: 2818000--2818058 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
2817990 ACATATATTT
* * *
2818000 ATATAAATATATTTTTATTCAT
1 ATATTAATATATTTTTATTAAA
* *
2818022 ATATTTAA-GTATTTTTGTTAAA
1 ATA-TTAATATATTTTTATTAAA
2818044 ATATTAATATATTTT
1 ATATTAATATATTTT
2818059 AAATATTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 4 0.14
22 22 0.76
23 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (22 bp):
ATATTAATATATTTTTATTAAA
Found at i:2821766 original size:24 final size:23
Alignment explanation
Indices: 2821725--2821797 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 23
2821715 TATTACATAT
*
2821725 AAAATATAAAATATTTAAATATTCA
1 AAAAAATAAAA-A-TTAAATATTCA
2821750 AAAAAATAAAGAATTAAATATT--
1 AAAAAATAAA-AATTAAATATTCA
*
2821772 -AAAAATAAAAATTAAATTACTCA
1 AAAAAATAAAAATTAAA-TATTCA
2821795 AAA
1 AAA
2821798 TATTAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
20 7 0.17
21 12 0.29
24 11 0.27
25 10 0.24
26 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (23 bp):
AAAAAATAAAAATTAAATATTCA
Found at i:2822903 original size:35 final size:36
Alignment explanation
Indices: 2822859--2822927 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
2822849 CTACTGCAAA
2822859 CAAAGCAAAAACCTTTGTT-AACCCTATAAATTCGG
1 CAAAGCAAAAACCTTTGTTAAACCCTATAAATTCGG
2822894 CAAAGCAAAAACCTTTGTTAAACCCTATAAATTC
1 CAAAGCAAAAACCTTTGTTAAACCCTATAAATTC
2822928 AGCACCGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.58
36 14 0.42
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (36 bp):
CAAAGCAAAAACCTTTGTTAAACCCTATAAATTCGG
Found at i:2824520 original size:13 final size:13
Alignment explanation
Indices: 2824484--2824525 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2824474 TAAAAATAAA
2824484 AAAAATAA-AAAT
1 AAAAATAAGAAAT
* *
2824496 AGTAAGTAAGAAAT
1 A-AAAATAAGAAAT
2824510 AAAAATAAGAAAT
1 AAAAATAAGAAAT
2824523 AAA
1 AAA
2824526 GAAAAGGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.75
14 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AAAAATAAGAAAT
Found at i:2824527 original size:21 final size:21
Alignment explanation
Indices: 2824472--2824529 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
2824462 AGATAAATTT
*
2824472 AATAA-AAATAAAAAAAATAAA
1 AATAAGAAAT-AAAGAAATAAA
*
2824493 AAT-AGTAAGT-AAGAAATAAA
1 AATAAG-AAATAAAGAAATAAA
2824513 AATAAGAAATAAAGAAA
1 AATAAGAAATAAAGAAA
2824530 AGGAGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 16 0.53
21 11 0.37
22 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (21 bp):
AATAAGAAATAAAGAAATAAA
Found at i:2825860 original size:32 final size:32
Alignment explanation
Indices: 2825819--2825883 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
2825809 AAGATTAAAA
*
2825819 GACACAAATTTCGTCCATATCGAATATCCTCT
1 GACACAAATTTCATCCATATCGAATATCCTCT
2825851 GACACAAATTTCATCCATATCGAATATCCTCT
1 GACACAAATTTCATCCATATCGAATATCCTCT
2825883 G
1 G
2825884 TCATAGAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (32 bp):
GACACAAATTTCATCCATATCGAATATCCTCT
Found at i:2826572 original size:98 final size:98
Alignment explanation
Indices: 2826402--2826882 Score: 899
Period size: 98 Copynumber: 4.9 Consensus size: 98
2826392 AATCGGGAAG
*
2826402 TTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
* *
2826467 TCATTCGTTGTGAAGTTGAAATTGGCTCTGAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA
2826500 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
2826565 TCCTTCGTTGTGAAGTTGAAATTGGCCCTAAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA
*
2826598 TTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
*
2826663 TCCTTCGTTGTGAAGTTGAAATTGGCCCTAAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA
2826696 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
2826761 TCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA
66 TCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA
*
2826794 TTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
1 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
2826859 TCCTTCGTTGTGAAGTTGAAATTG
66 TCCTTCGTTGTGAAGTTGAAATTG
2826883 ACTCTGGGTA
Statistics
Matches: 375, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 375 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (98 bp):
TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
TCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA
Found at i:2826672 original size:196 final size:196
Alignment explanation
Indices: 2826234--2826888 Score: 977
Period size: 196 Copynumber: 3.3 Consensus size: 196
2826224 CAATGCAAGA
* * * * *
2826234 TGCGTTGTTTCGAGGCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTA
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG--CT----CT--GAAATTG
* * * * * * *
2826299 CTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTAGAGCCCAATCTCC
58 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
2826364 TTCGTTATGAAGTTGAAATTGGCTCTGAAATCGGGAAGTTGTTTATTGACAACCAGCGGTCCCTT
123 TTCGTTGTGAAGTTGAAATTGGCCCT--AA-----AA-TTATTTATTGACAACCAGCGGTCCCTT
*
2826429 CATCGTGAAGTTGAACT
180 CGTCGTGAAGTTGAACT
*
2826446 TGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGA
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGA
2826511 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
66 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
2826576 GAAGTTGAAATTGGCCCTAAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 GAAGTTGAAATTGGCCCTAAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
2826641 T
196 T
* *
2826642 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTAAAATTGTTTATTGA
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGA
2826707 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
66 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
*
2826772 GAAGTTGAAATTGGCCCTGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 GAAGTTGAAATTGGCCCTAAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
2826837 T
196 T
*
2826838 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
2826889 GGTAAAACCT
Statistics
Matches: 419, Mismatches: 24, Indels: 16
0.91 0.05 0.03
Matches are distributed among these distances:
196 282 0.67
197 2 0.00
202 2 0.00
204 88 0.21
206 2 0.00
210 2 0.00
212 41 0.10
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (196 bp):
TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGA
CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
GAAGTTGAAATTGGCCCTAAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
T
Found at i:2826840 original size:294 final size:300
Alignment explanation
Indices: 2826234--2826882 Score: 1004
Period size: 294 Copynumber: 2.1 Consensus size: 300
2826224 CAATGCAAGA
* * * * *
2826234 TGCGTTGTTTCGAGGCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTA
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC----ACT-GAAAATTA
* * * *
2826299 CTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTAGAGCCCAATCTCC
61 CTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGCCCAATATCC
*
2826364 TTCGTTATGAAGTTGAAATTGGCTCTGAAATCGGGAAGTTGTTTATTGACAACCAGCGGTCCCTT
126 TTCGTTATGAAGTTGAAATTGGCCCT-AAA----GAAGTTGTTTATTGACAACCAGCGGTCCCTT
*
2826429 CATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCT
186 CATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCC
*
2826494 CTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
251 CTGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
2826544 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC-C-CT-AAAATTATTTAT
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCACTGAAAATTACTTAT
* *
2826606 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
66 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGCCCAATATCCTTCGT
* *
2826671 TGTGAAGTTGAAATTGGCCCT-AA-AA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
131 TATGAAGTTGAAATTGGCCCTAAAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAG
*
2826733 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTAT
196 TTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCCCTGAAATTAT
2826798 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
261 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
2826838 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
2826883 ACTCTGGGTA
Statistics
Matches: 321, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
294 183 0.57
295 2 0.01
300 2 0.01
302 88 0.27
304 2 0.01
309 1 0.00
310 43 0.13
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (300 bp):
TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCACTGAAAATTACTTAT
TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGCCCAATATCCTTCGT
TATGAAGTTGAAATTGGCCCTAAAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAG
TTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCCCTGAAATTAT
TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
Found at i:2858156 original size:74 final size:73
Alignment explanation
Indices: 2857993--2858195 Score: 250
Period size: 74 Copynumber: 2.7 Consensus size: 73
2857983 CAAAGCCAAA
* * **
2857993 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTGAATGGT
1 AATTCCAGA-TGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
2858058 TTGGCTCCGAG
63 TTGGCTCCGAG
*
2858069 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCATAGGA-GGAACCGATTCCCCCTAAACAGTT
*
2858134 TTGCT-CGAG
64 TGGCTCCGAG
* * *
2858143 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCA-AGG-GGTATCGATTCCCCC
1 AATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCC
2858196 CTTGTACAAC
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
71 13 0.11
73 3 0.03
74 47 0.41
75 25 0.22
76 25 0.22
77 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (73 bp):
AATTCCAGATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTTG
GCTCCGAG
Found at i:2859097 original size:108 final size:105
Alignment explanation
Indices: 2858902--2859114 Score: 390
Period size: 108 Copynumber: 2.0 Consensus size: 105
2858892 TCAATAACAA
2858902 GAAACATCAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCAAACCTCAAGTTTGAGCATTT
1 GAAACATCAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCAAACCTCAAGTTTGAGCATTT
2858967 CAAGCCTATTTCATTCAATATTCATTTGGCTTTCAAGAAC
66 CAAGCCTATTTCATTCAATATTCATTTGGCTTTCAAGAAC
2859007 GAAACATCAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCATCAAACCTCAAGTTTGAGCA
1 GAAACATCAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAG---CAAACCTCAAGTTTGAGCA
*
2859072 TTTCAAGCCTATTTCATTCAATATTCATTTTGCTTTCAAGAAC
63 TTTCAAGCCTATTTCATTCAATATTCATTTGGCTTTCAAGAAC
2859115 ACTTTTTGTG
Statistics
Matches: 104, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
105 43 0.41
108 61 0.59
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (105 bp):
GAAACATCAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCAAACCTCAAGTTTGAGCATTT
CAAGCCTATTTCATTCAATATTCATTTGGCTTTCAAGAAC
Found at i:2859719 original size:23 final size:21
Alignment explanation
Indices: 2859692--2859746 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
2859682 TAGTCTAATA
2859692 ATATTATAAAAATTCCTTAAAAT
1 ATATTATAAAAATT--TTAAAAT
*
2859715 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
*
2859738 ATAATATAA
1 ATATTATAA
2859747 TATATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:2859754 original size:21 final size:23
Alignment explanation
Indices: 2859708--2859753 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2859698 TAAAAATTCC
*
2859708 TTAAAATATATTTATTAATAATT
1 TTAAAATATATATATTAATAATT
2859731 TTAAAATATA-ATA-TAATATATT
1 TTAAAATATATATATTAATA-ATT
2859753 T
1 T
2859754 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAAAATATATATATTAATAATT
Found at i:2861572 original size:76 final size:76
Alignment explanation
Indices: 2861446--2861597 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
2861436 AAATAGTTTG
2861446 GTGACTAAAACATAATAAACATATTAGTTAAGATACACAAATGGTACCCTAAGGCATTCTTTTGT
1 GTGACTAAAACATAATAAACATATTAGTTAAGATACACAAATGGTACCCTAAGGCATTCTTTTGT
2861511 TGAGTCTCCCC
66 TGAGTCTCCCC
2861522 GTGACTAAAACATAATAAACATATTAGTTAAGATACACAAATGGTACCCTAAGGCATTCTTTTGT
1 GTGACTAAAACATAATAAACATATTAGTTAAGATACACAAATGGTACCCTAAGGCATTCTTTTGT
2861587 TGAGTCTCCCC
66 TGAGTCTCCCC
2861598 ACAATTGAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (76 bp):
GTGACTAAAACATAATAAACATATTAGTTAAGATACACAAATGGTACCCTAAGGCATTCTTTTGT
TGAGTCTCCCC
Found at i:2866285 original size:119 final size:119
Alignment explanation
Indices: 2866074--2866312 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
2866064 TGCTACAATA
2866074 TCTCCAGCAAAACCAGTTCTGCAATTCTCAGTTTCAGCTTCCGCATCAGCATCAAGCCCCGATTC
1 TCTCCAGCAAAACCAGTTCTGCAATTCTCAGTTTCAGCTTCCGCATCAGCATCAAGCCCCGATTC
2866139 AAAGGCAATCTAATATGATGCCAAACAGCAGCATTTATAAATTTTATATTATTT
66 AAAGGCAATCTAATATGATGCCAAACAGCAGCATTTATAAATTTTATATTATTT
2866193 TCTCCAGCAAAACCAGTTCTGCAATTCTCAGTTTCAGCTTCCGCATCAGCATCAAGCCCCGATTC
1 TCTCCAGCAAAACCAGTTCTGCAATTCTCAGTTTCAGCTTCCGCATCAGCATCAAGCCCCGATTC
2866258 AAAGGCAATCTAATATGATGCCAAACAGCAGCATTTATAAATTTTATATTATTT
66 AAAGGCAATCTAATATGATGCCAAACAGCAGCATTTATAAATTTTATATTATTT
2866312 T
1 T
2866313 ATATCAGAAG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (119 bp):
TCTCCAGCAAAACCAGTTCTGCAATTCTCAGTTTCAGCTTCCGCATCAGCATCAAGCCCCGATTC
AAAGGCAATCTAATATGATGCCAAACAGCAGCATTTATAAATTTTATATTATTT
Found at i:2868045 original size:36 final size:36
Alignment explanation
Indices: 2867979--2868327 Score: 411
Period size: 36 Copynumber: 9.7 Consensus size: 36
2867969 AAAGACGAAC
* * * * *
2867979 ACTTGAAACGAAAG-CTCGATACATCCTTCCGTTCA
1 ACTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCG
* *
2868014 ACTTTAATCGAAAGTGTCGATGCTTCATTCCGTTCG
1 ACTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCG
* * * * *
2868050 AATTGAATCGGAAGTGCCGATTCTTCTTTCCGTTCG
1 ACTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCG
* *
2868086 ACTTGAATCGGAAGTGTCGATGCCTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCG
* * * *
2868122 ACTTGAATCGGAAGTG-CTAATACTTTCTTCCGTTCG
1 ACTTGAATCGAAAGTGTC-GATGCTTCCTTCCGTTCG
* *
2868158 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCATTCG
1 ACTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCG
* *
2868194 ACTTGAATCGGAAGTGTCGATGCTTTCTTCCGTTCG
1 ACTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCG
*
2868230 ACTTGAATC-AGAAGTGTCGATGCTTCCTTCCATTCG
1 ACTTGAATCGA-AAGTGTCGATGCTTCCTTCCGTTCG
*
2868266 ACTTGAATCGGAAA-TGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATC-GAAAGTGTCGATGCTTCCTTCCGTTCG
2868302 ACTTGAATC-AGAAGTGTCGATGCTTC
1 ACTTGAATCGA-AAGTGTCGATGCTTC
2868328 ATTACATGGT
Statistics
Matches: 269, Mismatches: 37, Indels: 15
0.84 0.12 0.05
Matches are distributed among these distances:
34 1 0.00
35 15 0.06
36 249 0.93
37 3 0.01
38 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (36 bp):
ACTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCG
Found at i:2868122 original size:72 final size:72
Alignment explanation
Indices: 2868004--2868327 Score: 461
Period size: 72 Copynumber: 4.5 Consensus size: 72
2867994 TCGATACATC
* * * * * *
2868004 CTTCCGTTCAACTTTAATCGAAAGTGTCGATGCTTCATTCCGTTCGAATTGAATCGGAAGTGCCG
1 CTTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCCTTCCATTCGACTTGAATCGGAAGTGCCG
*
2868069 ATTC-TT
66 ATGCTTT
* * *
2868075 CTTTCCGTTCGACTTGAATCGGAAGTGTCGATGCCTCCTTCCGTTCGACTTGAATCGGAAGTGCT
1 C-TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCCTTCCATTCGACTTGAATCGGAAGTGCC
* *
2868140 AATACTTT
65 GATGCTTT
* * *
2868148 CTTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCCTTCCATTCGACTTGAATCGGAAGTGTCG
1 CTTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCCTTCCATTCGACTTGAATCGGAAGTGCCG
2868213 ATGCTTT
66 ATGCTTT
* *
2868220 CTTCCGTTCGACTTGAATCAGAAGTGTCGATGCTTCCTTCCATTCGACTTGAATCGGAAATGCCG
1 CTTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCCTTCCATTCGACTTGAATCGGAAGTGCCG
*
2868285 ATGCTTC
66 ATGCTTT
*
2868292 CTTCCGTTCGACTTGAATCAGAAGTGTCGATGCTTC
1 CTTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTC
2868328 ATTACATGGT
Statistics
Matches: 228, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
71 1 0.00
72 224 0.98
73 3 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (72 bp):
CTTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCCTTCCATTCGACTTGAATCGGAAGTGCCG
ATGCTTT
Found at i:2868325 original size:108 final size:107
Alignment explanation
Indices: 2868002--2868327 Score: 458
Period size: 108 Copynumber: 3.0 Consensus size: 107
2867992 GCTCGATACA
* * * * *
2868002 TCCTTCCGTTCAACTTTAATCGAAAGTGTCGATGCTTCATTCCGTTCGAATTGAATCGGAAGTGC
1 TCCTTCCGTTCGACTTGAATCG-AAGTGTCGATGCTTCCTTCCGTTCGACTTGAATCGGAAATGC
* * *
2868067 CGATTCTTCTTTCCGTTCGACTTGAATCGGAAGTGTCGATGCC
65 CGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGCT
* * *
2868110 TCCTTCCGTTCGACTTGAATCGGAAGTG-CTAATACTTTCTTCCGTTCGACTTGAATC-GAAAGT
1 TCCTTCCGTTCGACTTGAATC-GAAGTGTC-GATGCTTCCTTCCGTTCGACTTGAATCGGAAA-T
*
2868173 GCCGATGCTTCCTTCCATTCGACTTGAATCGGAAGTGTCGATGCT
63 GCCGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGCT
* *
2868218 TTCTTCCGTTCGACTTGAATCAGAAGTGTCGATGCTTCCTTCCATTCGACTTGAATCGGAAATGC
1 TCCTTCCGTTCGACTTGAATC-GAAGTGTCGATGCTTCCTTCCGTTCGACTTGAATCGGAAATGC
*
2868283 CGATGCTTCCTTCCGTTCGACTTGAATCAGAAGTGTCGATGCT
65 CGATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGCT
2868326 TC
1 TC
2868328 ATTACATGGT
Statistics
Matches: 192, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
107 4 0.02
108 182 0.95
109 6 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (107 bp):
TCCTTCCGTTCGACTTGAATCGAAGTGTCGATGCTTCCTTCCGTTCGACTTGAATCGGAAATGCC
GATGCTTCCTTCCGTTCGACTTGAATCGGAAGTGTCGATGCT
Found at i:2870479 original size:107 final size:111
Alignment explanation
Indices: 2870269--2870480 Score: 317
Period size: 107 Copynumber: 1.9 Consensus size: 111
2870259 CATTTAAGTG
*
2870269 AAAAAAATACTAATTTAATTTATGACGGGACAATGATTCCGTCGGAAATTATGTTCAACTTTAAT
1 AAAAAAATACTAATTTAATTTATGACGGGACAATGATTCCGTCGGAAATTATGTT--A-TTAAAT
*
2870334 TAAAATATACCAATTTAATTTGTGATGGAATAATCATTCCATCGGAAAT
63 TAAAATATAACAATTTAATTTGTGATGGAATAATCATTCCATCGGAAAT
*
2870383 AAAAAAATA-TCAATTTAATTTATGACGGGACAATGATTCCGTTGG-AATT-T-TT-TTAAATTA
1 AAAAAAATACT-AATTTAATTTATGACGGGACAATGATTCCGTCGGAAATTATGTTATTAAATTA
*
2870443 AAATATAACAATTTAATTTGTGATGGAATAGTCATTCC
65 AAATATAACAATTTAATTTGTGATGGAATAATCATTCC
2870481 GTCATAAATA
Statistics
Matches: 93, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
107 43 0.46
111 2 0.02
112 1 0.01
113 5 0.05
114 42 0.45
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (111 bp):
AAAAAAATACTAATTTAATTTATGACGGGACAATGATTCCGTCGGAAATTATGTTATTAAATTAA
AATATAACAATTTAATTTGTGATGGAATAATCATTCCATCGGAAAT
Found at i:2871580 original size:31 final size:31
Alignment explanation
Indices: 2871545--2871611 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
2871535 ACAATTTTTT
*
2871545 AAATTTGTGATGGAATATATGAACCCATCAC
1 AAATTTGTGACGGAATATATGAACCCATCAC
* * *
2871576 AAATTTGTGACGGAATATGTGAATCCGTCAC
1 AAATTTGTGACGGAATATATGAACCCATCAC
2871607 AAATT
1 AAATT
2871612 CCTGACAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (31 bp):
AAATTTGTGACGGAATATATGAACCCATCAC
Found at i:2873786 original size:17 final size:17
Alignment explanation
Indices: 2873759--2873803 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
2873749 ATTTATTCAA
2873759 TAAAGCTAGTTCACTAAT
1 TAAA-CTAGTTCACTAAT
*
2873777 TAAACTAGTTCATTAAT
1 TAAACTAGTTCACTAAT
* *
2873794 CAAATTAGTT
1 TAAACTAGTT
2873804 TCTTTAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (17 bp):
TAAACTAGTTCACTAAT
Found at i:2876607 original size:4 final size:4
Alignment explanation
Indices: 2876592--2876863 Score: 514
Period size: 4 Copynumber: 68.8 Consensus size: 4
2876582 AAATACACTA
*
2876592 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC AT-C
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2876638 ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2876685 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2876733 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2876781 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2876829 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2876864 TCATTATCAT
Statistics
Matches: 263, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
3 9 0.03
4 254 0.97
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2877255 original size:18 final size:18
Alignment explanation
Indices: 2877234--2877338 Score: 97
Period size: 18 Copynumber: 5.6 Consensus size: 18
2877224 TATTTGTCCT
2877234 GAAGGACCACTATGTCTC
1 GAAGGACCACTATGTCTC
2877252 GAAGGACCACTATGTC-C
1 GAAGGACCACTATGTCTC
2877269 TGAAGGACCACTGATTGT-TCC
1 -GAAGGACCACT-A-TGTCT-C
* * *
2877290 AAAGAACCACTATGTCCC
1 GAAGGACCACTATGTCTC
* *
2877308 AAAGGACCACTGTTTGTCTC
1 GAAGGACCAC--TATGTCTC
2877328 GAAGGACCACT
1 GAAGGACCACT
2877339 GATAATCCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.01
18 41 0.57
19 2 0.03
20 27 0.38
21 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (18 bp):
GAAGGACCACTATGTCTC
Found at i:2877300 original size:20 final size:20
Alignment explanation
Indices: 2877275--2877341 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
2877265 GTCCTGAAGG
*
2877275 ACCACTGATTGTTCCAAAGA
1 ACCACTGATTGTCCCAAAGA
*
2877295 ACCACT-A-TGTCCCAAAGG
1 ACCACTGATTGTCCCAAAGA
* * * *
2877313 ACCACTGTTTGTCTCGAAGG
1 ACCACTGATTGTCCCAAAGA
2877333 ACCACTGAT
1 ACCACTGAT
2877342 AATCCCTCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.38
19 1 0.03
20 23 0.59
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (20 bp):
ACCACTGATTGTCCCAAAGA
Found at i:2877337 original size:38 final size:38
Alignment explanation
Indices: 2877235--2877338 Score: 133
Period size: 38 Copynumber: 2.8 Consensus size: 38
2877225 ATTTGTCCTG
**
2877235 AAGGACCACT-A-TGTCTCGAAGGACCACTATGTCCTG
1 AAGGACCACTGATTGTCTCGAAGGACCACTATGTCCCA
* *
2877271 AAGGACCACTGATTGT-TCCAAAGAACCACTATGTCCCA
1 AAGGACCACTGATTGTCT-CGAAGGACCACTATGTCCCA
*
2877309 AAGGACCACTGTTTGTCTCGAAGGACCACT
1 AAGGACCACTGATTGTCTCGAAGGACCACT
2877339 GATAATCCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 10 0.18
37 2 0.04
38 44 0.77
39 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (38 bp):
AAGGACCACTGATTGTCTCGAAGGACCACTATGTCCCA
Found at i:2878602 original size:24 final size:22
Alignment explanation
Indices: 2878552--2878607 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 22
2878542 AATGAAGGTA
2878552 TGCATCGATGCATTCTACAGTG
1 TGCATCGATGCATTCTACAGTG
2878574 T--ATCGATGCATTCCTTA-ACGTG
1 TGCATCGATGCATT-C-TACA-GTG
2878596 TGCATCGATGCA
1 TGCATCGATGCA
2878608 CTACCTGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 7 0.24
24 9 0.31
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (22 bp):
TGCATCGATGCATTCTACAGTG
Found at i:2881354 original size:2 final size:2
Alignment explanation
Indices: 2881347--2881529 Score: 366
Period size: 2 Copynumber: 91.5 Consensus size: 2
2881337 GTAACAATAT
2881347 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2881389 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2881431 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2881473 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2881515 AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
2881530 TACATGTCTT
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 181 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2881896 original size:18 final size:18
Alignment explanation
Indices: 2881873--2881965 Score: 105
Period size: 18 Copynumber: 4.9 Consensus size: 18
2881863 ACTGAATATT
*
2881873 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2881891 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
2881910 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
*
2881929 TGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCAC--TA
*
2881949 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
2881966 GATAATCCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
18 31 0.48
19 2 0.03
20 31 0.48
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2881920 original size:20 final size:20
Alignment explanation
Indices: 2881872--2881968 Score: 121
Period size: 20 Copynumber: 5.0 Consensus size: 20
2881862 CACTGAATAT
*
2881872 TTGTCCCAAAGGACCACT-A
1 TTGTCCCGAAGGACCACTGA
2881891 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* *
2881910 TTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAGGACCACTGA
*
2881929 -TGTCCCGAAGGACCACTGT
1 TTGTCCCGAAGGACCACTGA
*
2881948 TTGTCTCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
2881968 T
1 T
2881969 AATCCCTCGA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
18 31 0.47
19 2 0.03
20 33 0.50
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (20 bp):
TTGTCCCGAAGGACCACTGA
Found at i:2881927 original size:38 final size:38
Alignment explanation
Indices: 2881884--2881965 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
2881874 GTCCCAAAGG
2881884 ACCACTATGTCCCGAAGGACCACTGATTGT-TCCGAAGA
1 ACCACTATGTCCCGAAGGACCACTGATTGTCT-CGAAGA
* *
2881922 ACCACTATGTCCCGAAGGACCACTGTTTGTCTCGAAGG
1 ACCACTATGTCCCGAAGGACCACTGATTGTCTCGAAGA
2881960 ACCACT
1 ACCACT
2881966 GATAATCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 40 0.98
39 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCACTATGTCCCGAAGGACCACTGATTGTCTCGAAGA
Found at i:2882828 original size:2 final size:2
Alignment explanation
Indices: 2882821--2882928 Score: 181
Period size: 2 Copynumber: 56.5 Consensus size: 2
2882811 TCACATGAAT
2882821 TA TA TA TA T- TA TA TA TA -A 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
2882861 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2882901 TA TA T- 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
2882929 TCATATGATT
Statistics
Matches: 101, Mismatches: 0, Indels: 10
0.91 0.00 0.09
Matches are distributed among these distances:
1 5 0.05
2 96 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2888498 original size:16 final size:16
Alignment explanation
Indices: 2888469--2888512 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2888459 ATCCGATATG
* *
2888469 AAAAAATCGAATATCC
1 AAAAATTCGGATATCC
*
2888485 AAAAATTTGGATATCC
1 AAAAATTCGGATATCC
*
2888501 GAAAATTCGGAT
1 AAAAATTCGGAT
2888513 CGGATATCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (16 bp):
AAAAATTCGGATATCC
Found at i:2888532 original size:21 final size:21
Alignment explanation
Indices: 2888493--2888532 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2888483 CCAAAAATTT
*
2888493 GGATATCCGAAAATTCGGATC
1 GGATATCCGAAAATCCGGATC
* *
2888514 GGATATCTGAATATCCGGA
1 GGATATCCGAAAATCCGGA
2888533 ATCGAATCCG
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:0.17, G:0.25, T:0.25
Consensus pattern (21 bp):
GGATATCCGAAAATCCGGATC
Found at i:2890340 original size:17 final size:17
Alignment explanation
Indices: 2890320--2890354 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2890310 GGAGGTCAAC
*
2890320 GGTCAACGGTCGGGTCG
1 GGTCAACGGACGGGTCG
2890337 GGTCAACGGACGGGTCG
1 GGTCAACGGACGGGTCG
2890354 G
1 G
2890355 TCGGGTCAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.49, T:0.14
Consensus pattern (17 bp):
GGTCAACGGACGGGTCG
Found at i:2890399 original size:11 final size:10
Alignment explanation
Indices: 2890376--2890413 Score: 60
Period size: 11 Copynumber: 3.8 Consensus size: 10
2890366 CAGACTGATC
2890376 AAACCGGTCA
1 AAACCGGTCA
2890386 AAACCGGTTCA
1 AAACCGG-TCA
2890397 AAACCGGTC-
1 AAACCGGTCA
2890406 AAACCGGT
1 AAACCGGT
2890414 TTTCAGCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.30
10 9 0.33
11 10 0.37
ACGTcount: A:0.37, C:0.29, G:0.21, T:0.13
Consensus pattern (10 bp):
AAACCGGTCA
Found at i:2890401 original size:21 final size:20
Alignment explanation
Indices: 2890376--2890414 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2890366 CAGACTGATC
2890376 AAACCGGTCAAAACCGGTTCA
1 AAACCGGTC-AAACCGGTTCA
2890397 AAACCGGTCAAACCGGTT
1 AAACCGGTCAAACCGGTT
2890415 TTCAGCCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTCA
Found at i:2896217 original size:136 final size:136
Alignment explanation
Indices: 2895973--2896244 Score: 544
Period size: 136 Copynumber: 2.0 Consensus size: 136
2895963 TATACCATCA
2895973 AAACCTAACCTGTAAATATAATACCAATAAGTAATATATTAATTTAAAACAAGTCTTCAAAATCA
1 AAACCTAACCTGTAAATATAATACCAATAAGTAATATATTAATTTAAAACAAGTCTTCAAAATCA
2896038 AAATCACAATAAACCGAACAATAATAGCAAAAGTGTCATCATCCTAAAATACGATACTTTAAAAT
66 AAATCACAATAAACCGAACAATAATAGCAAAAGTGTCATCATCCTAAAATACGATACTTTAAAAT
2896103 AAAGTC
131 AAAGTC
2896109 AAACCTAACCTGTAAATATAATACCAATAAGTAATATATTAATTTAAAACAAGTCTTCAAAATCA
1 AAACCTAACCTGTAAATATAATACCAATAAGTAATATATTAATTTAAAACAAGTCTTCAAAATCA
2896174 AAATCACAATAAACCGAACAATAATAGCAAAAGTGTCATCATCCTAAAATACGATACTTTAAAAT
66 AAATCACAATAAACCGAACAATAATAGCAAAAGTGTCATCATCCTAAAATACGATACTTTAAAAT
2896239 AAAGTC
131 AAAGTC
2896245 CATGTCACCA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.26
Consensus pattern (136 bp):
AAACCTAACCTGTAAATATAATACCAATAAGTAATATATTAATTTAAAACAAGTCTTCAAAATCA
AAATCACAATAAACCGAACAATAATAGCAAAAGTGTCATCATCCTAAAATACGATACTTTAAAAT
AAAGTC
Found at i:2897431 original size:10 final size:10
Alignment explanation
Indices: 2897418--2897456 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
2897408 CCGGTTCAGT
2897418 CCGGTCAAAA
1 CCGGTCAAAA
2897428 CCGGTC-AAA
1 CCGGTCAAAA
*
2897437 CCGGTTGAAAA
1 CCGG-TCAAAA
2897448 CCGGTCAAA
1 CCGGTCAAA
2897457 CCGATTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (10 bp):
CCGGTCAAAA
Found at i:2903207 original size:20 final size:18
Alignment explanation
Indices: 2903164--2903220 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
2903154 TAAACAAATC
*
2903164 TTATTAGTTTATAAATAA
1 TTATTATTTTATAAATAA
*
2903182 TT-TTATTTTAATAAAATTA
1 TTATTATTTT-AT-AAATAA
* *
2903201 TTATTATTTAATTAATAA
1 TTATTATTTTATAAATAA
2903219 TT
1 TT
2903221 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 6 0.19
18 10 0.32
19 9 0.29
20 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTATTATTTTATAAATAA
Found at i:2908630 original size:46 final size:46
Alignment explanation
Indices: 2908577--2908669 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
2908567 GAAAATTTAG
2908577 ACCGATTTTTCTTTTAAATGATTGAAATCAATGTTAGGTAAATTAT
1 ACCGATTTTTCTTTTAAATGATTGAAATCAATGTTAGGTAAATTAT
2908623 ACCGATTTTTCTTTTAAATGATTGAAATCAATGTTAGGTAAATTAT
1 ACCGATTTTTCTTTTAAATGATTGAAATCAATGTTAGGTAAATTAT
2908669 A
1 A
2908670 TGTTTAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (46 bp):
ACCGATTTTTCTTTTAAATGATTGAAATCAATGTTAGGTAAATTAT
Found at i:2912868 original size:117 final size:117
Alignment explanation
Indices: 2912623--2912871 Score: 390
Period size: 117 Copynumber: 2.1 Consensus size: 117
2912613 TGCCCAAACA
*
2912623 AAGCAAAGCTCGGTGCCAATGCGAGCGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAATGCGAGCGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
* * * *
2912688 TTGAAGTGTTTCCGATGTGATGGAGAACACAAGGTGCGAGATTGCACCAATG
66 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
** * *
2912740 AAGCAGGGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGGTAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAATGCGAGCGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
* *
2912805 TTGAAGTGTTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACCACCG
66 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
*
2912857 AAGTAAAGCTCGGTG
1 AAGCAAAGCTCGGTG
2912872 CGAAAGCTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.15
Consensus pattern (117 bp):
AAGCAAAGCTCGGTGACAATGCGAGCGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
Found at i:2912900 original size:117 final size:116
Alignment explanation
Indices: 2912623--2912934 Score: 342
Period size: 117 Copynumber: 2.7 Consensus size: 116
2912613 TGCCCAAACA
* * * * * *
2912623 AAGCAAAGCTCGGTGCCAATGCGAGCGGCGAAGCAACTAAGCCGAGGATAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGAGCCA
* * * *
2912688 TTGAAGTGTTTCCGATGTGATGGAGAACACAAGGTGCGAGATTGCACCAATG
65 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
** * * *
2912740 AAGCAGGGCTCGGTGACAATGCGAGTGGCGAAGCAACTAAGCCGAGGGTAAAGAAGCGAGAGCCA
1 AAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAAC-AAGCCGAGGGTAAAGAAGCGAGAGCCA
* *
2912805 TTGAAGTGTTTCCAATGCGGTGGACAACACAAGGTGCGAGATTGCACCACCG
65 TTGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
* * *
2912857 AAGTAAAGCTCGGTG-CGAAAGCTAAG-GGCCAAGCTGAA-GAGCCGAGGGTAAATAAGCGAGAG
1 AAGCAAAGCTCGGTGAC-AAAGC-AAGTGGCCAAGC--AACAAGCCGAGGGTAAAGAAGCGAGAG
* * *
2912919 CAACTGGAGTGTTTCC
62 CCATTGAAGTGTTTCC
2912935 GGTGCAAAGG
Statistics
Matches: 169, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
116 1 0.01
117 164 0.97
118 2 0.01
119 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.15
Consensus pattern (116 bp):
AAGCAAAGCTCGGTGACAAAGCAAGTGGCCAAGCAACAAGCCGAGGGTAAAGAAGCGAGAGCCAT
TGAAGTGTTTCCAATGCGATGGACAACACAAGGTGCGAGATTGCACCAACG
Found at i:2913562 original size:15 final size:15
Alignment explanation
Indices: 2913542--2913576 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2913532 AGCAAGGCTC
2913542 TTCGAGTGAAGCTTG
1 TTCGAGTGAAGCTTG
*
2913557 TTCGAGTGAAGTTTG
1 TTCGAGTGAAGCTTG
2913572 TTCGA
1 TTCGA
2913577 ATGGTGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.37
Consensus pattern (15 bp):
TTCGAGTGAAGCTTG
Found at i:2915871 original size:15 final size:16
Alignment explanation
Indices: 2915846--2915875 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2915836 TACTCATTTT
2915846 TTTTCATTATTATTAA
1 TTTTCATTATTATTAA
2915862 TTTT-ATTATTATTA
1 TTTTCATTATTATTA
2915876 TTATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCATTATTATTAA
Found at i:2917248 original size:3 final size:3
Alignment explanation
Indices: 2917240--2917270 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2917230 TTTAATACAT
2917240 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2917271 AAATATCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2931679 original size:20 final size:21
Alignment explanation
Indices: 2931654--2931695 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2931644 TCAACTTACA
2931654 ATGCATTATG-AACCATTATT
1 ATGCATTATGCAACCATTATT
*
2931674 ATGCATTATGCAACTATTATT
1 ATGCATTATGCAACCATTATT
2931695 A
1 A
2931696 GTTGCATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATGCATTATGCAACCATTATT
Found at i:2938981 original size:19 final size:19
Alignment explanation
Indices: 2938954--2939008 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2938944 ATTTGTTTTA
* * *
2938954 TTTATTATTATTATTTTGT
1 TTTAATATTATTATTATAT
2938973 TTTAATATTATTATTATAT
1 TTTAATATTATTATTATAT
2938992 TATT-ATATTATTATTAT
1 T-TTAATATTATTATTAT
2939009 TAAATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 30 0.94
20 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTAATATTATTATTATAT
Found at i:2938981 original size:22 final size:22
Alignment explanation
Indices: 2938945--2939010 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
2938935 TTTTATTTCA
2938945 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTA-TTATTATTATTAT
*
2938968 TTTGTTTTAATATTATTATTAT
1 TTTGTTTTATTATTATTATTAT
* * *
2938990 ATTATTATATTATTATTATTA
1 TTTGTTTTATTATTATTATTA
2939011 AATAAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
22 29 0.76
23 9 0.24
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTGTTTTATTATTATTATTAT
Found at i:2939029 original size:3 final size:3
Alignment explanation
Indices: 2938955--2939010 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
2938945 TTTGTTTTAT
* *
2938955 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2938999 TTA TTA TTA TTA
1 TTA TTA TTA TTA
2939011 AATAAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2940352 original size:12 final size:12
Alignment explanation
Indices: 2940335--2940399 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
2940325 TTAGTTCCTT
2940335 TTATTTTAATTA
1 TTATTTTAATTA
*
2940347 TTATTTGCAA-TA
1 TTATTT-TAATTA
2940359 TTATTTTATTATTA
1 TTATTTTA--ATTA
*
2940373 TTAATTTTTATTA
1 TT-ATTTTAATTA
2940386 TTATTGTT-ATTA
1 TTATT-TTAATTA
2940398 TT
1 TT
2940400 TATAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.02
12 23 0.52
13 11 0.25
14 4 0.09
15 5 0.11
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:2940363 original size:3 final size:3
Alignment explanation
Indices: 2940357--2940399 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
2940347 TTATTTGCAA
* *
2940357 TAT TAT T-T TAT TAT TAT TAAT TTT TAT TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
2940400 TATAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TAT
Done.