Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 6 of 10
Found at i:820444 original size:32 final size:32
Alignment explanation
Indices: 820403--820465 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
820393 TAGCCAAACT
**
820403 TGTATCGATACAGCAAGTA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAATTGTATCGATACAA
820435 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
820466 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:822706 original size:21 final size:21
Alignment explanation
Indices: 822673--822717 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
822663 TTGCAAGTTG
*
822673 AAATAAAGAAGTTGGCTAACGA
1 AAATAAAGAAGTTAGCTAA-GA
*
822695 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
822715 AAA
1 AAA
822718 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:824541 original size:15 final size:15
Alignment explanation
Indices: 824521--824551 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
824511 TAAAAATGTC
*
824521 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
824536 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
824551 C
1 C
824552 CAAACGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:826652 original size:13 final size:13
Alignment explanation
Indices: 826634--826659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
826624 ACATTTTTCT
826634 TTGTATCGATACA
1 TTGTATCGATACA
826647 TTGTATCGATACA
1 TTGTATCGATACA
826660 GGGGGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:826804 original size:21 final size:21
Alignment explanation
Indices: 826780--826826 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
826770 AAATCTTTTG
826780 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
826801 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
826821 CAAAAT
1 CAAAAT
826827 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:826823 original size:20 final size:19
Alignment explanation
Indices: 826782--826824 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
826772 ATCTTTTGCA
826782 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
826802 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
826822 AAA
1 AAA
826825 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:829137 original size:20 final size:19
Alignment explanation
Indices: 829091--829146 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
829081 AAAACCCTTA
**
829091 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
829111 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
829131 AATGTATCGATACATG
1 AATGTATCGATACATG
829147 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:829223 original size:13 final size:13
Alignment explanation
Indices: 829205--829230 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
829195 TACAGCAAGT
829205 ATGTATCGATACA
1 ATGTATCGATACA
829218 ATGTATCGATACA
1 ATGTATCGATACA
829231 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:834707 original size:2 final size:2
Alignment explanation
Indices: 834700--834724 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
834690 GATGTACTTC
834700 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 A
834725 ATTTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:838906 original size:21 final size:22
Alignment explanation
Indices: 838844--838903 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
838834 CAAATTATAA
* *
838844 CTCCCCTTTAATAAAAAATTTT
1 CTCCCCCTTAATAAAAATTTTT
838866 CTCCCCCTTAATAAAAATTTTT
1 CTCCCCCTTAATAAAAATTTTT
838888 CTCCCCCTTAATAAAA
1 CTCCCCCTTAATAAAA
838904 TTTCTTCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCCCCCTTAATAAAAATTTTT
Found at i:839001 original size:46 final size:47
Alignment explanation
Indices: 838912--839019 Score: 163
Period size: 46 Copynumber: 2.4 Consensus size: 47
838902 AATTTCTTCC
838912 TTTA-AAAAT-ATCTCT--CCCTCTTTATGTTTCCAAAATAATCTCT
1 TTTATAAAATAATCTCTCCCCCTCTTTATGTTTCCAAAATAATCTCT
* *
838955 TTTATAAAATAATCTCTCCCCCTCTTT-TTTTTTCAAAATAATCTCT
1 TTTATAAAATAATCTCTCCCCCTCTTTATGTTTCCAAAATAATCTCT
839001 TTTATAAAATAATCTCTCC
1 TTTATAAAATAATCTCTCC
839020 ATTTTTTTCA
Statistics
Matches: 59, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
43 4 0.07
44 5 0.08
45 6 0.10
46 36 0.61
47 8 0.14
ACGTcount: A:0.31, C:0.23, G:0.01, T:0.45
Consensus pattern (47 bp):
TTTATAAAATAATCTCTCCCCCTCTTTATGTTTCCAAAATAATCTCT
Found at i:846718 original size:13 final size:13
Alignment explanation
Indices: 846700--846724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
846690 ACCAAGATCA
846700 TGTATCGATACAG
1 TGTATCGATACAG
846713 TGTATCGATACA
1 TGTATCGATACA
846725 AAGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:852375 original size:20 final size:20
Alignment explanation
Indices: 852344--852418 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
852334 ATTTACCTGC
* *
852344 ATGTATCAATACATTGCAAA
1 ATGTATCGATACATCGCAAA
*
852364 ATATATCGATACATCGCAAA
1 ATGTATCGATACATCGCAAA
852384 ATGTATCGATACATCGCAAA
1 ATGTATCGATACATCGCAAA
852404 ATGTATCGATACATC
1 ATGTATCGATACATC
852419 TAGGTCAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATCGCAAA
Found at i:852461 original size:52 final size:52
Alignment explanation
Indices: 852383--852500 Score: 236
Period size: 52 Copynumber: 2.3 Consensus size: 52
852373 TACATCGCAA
852383 AATGTATCGATACATCGCAAAATGTATCGATACATCTAGGTCAAAAACCCAG
1 AATGTATCGATACATCGCAAAATGTATCGATACATCTAGGTCAAAAACCCAG
852435 AATGTATCGATACATCGCAAAATGTATCGATACATCTAGGTCAAAAACCCAG
1 AATGTATCGATACATCGCAAAATGTATCGATACATCTAGGTCAAAAACCCAG
852487 AATGTATCGATACA
1 AATGTATCGATACA
852501 ATAAATAATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (52 bp):
AATGTATCGATACATCGCAAAATGTATCGATACATCTAGGTCAAAAACCCAG
Found at i:852515 original size:52 final size:51
Alignment explanation
Indices: 852383--852520 Score: 197
Period size: 52 Copynumber: 2.6 Consensus size: 51
852373 TACATCGCAA
* *
852383 AATGTATCGATACATCGCAAAATGTATCGATACATCTAGGTCAAAAACCCAG
1 AATGTATCGATACATC-AAAAATATATCGATACATCTAGGTCAAAAACCCAG
* *
852435 AATGTATCGATACATCGCAAAATGTATCGATACATCTAGGTCAAAAACCCAG
1 AATGTATCGATACATC-AAAAATATATCGATACATCTAGGTCAAAAACCCAG
852487 AATGTATCGATACAAT-AAATAATATATCGATACA
1 AATGTATCGATAC-ATCAAA-AATATATCGATACA
852521 AATAGTAAAT
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
51 2 0.02
52 78 0.95
53 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (51 bp):
AATGTATCGATACATCAAAAATATATCGATACATCTAGGTCAAAAACCCAG
Found at i:852535 original size:21 final size:21
Alignment explanation
Indices: 852487--852541 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
852477 AAAAACCCAG
852487 AATGTATCGATAC-AATAAAT
1 AATGTATCGATACAAATAAAT
* *
852507 AATATATCGATACAAAT-AGT
1 AATGTATCGATACAAATAAAT
852527 AAATGTATCGATACA
1 -AATGTATCGATACA
852542 TTTATTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACAAATAAAT
Found at i:854360 original size:33 final size:33
Alignment explanation
Indices: 854318--854383 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
854308 GTAAAAATGA
* *
854318 AATATCTATGCTTGCATGTTATTCAGATTTGTT
1 AATATCTATGCTGGCATGTTATTAAGATTTGTT
854351 AATATCTATGCTGGCATGTTATTAAGATTTGTT
1 AATATCTATGCTGGCATGTTATTAAGATTTGTT
854384 TAAAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.47
Consensus pattern (33 bp):
AATATCTATGCTGGCATGTTATTAAGATTTGTT
Found at i:858534 original size:2 final size:2
Alignment explanation
Indices: 858527--858572 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
858517 TGAAACATTA
858527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
858569 AT AT
1 AT AT
858573 CAGCCAATAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:859865 original size:37 final size:37
Alignment explanation
Indices: 859804--859881 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
859794 CTTTCGCTAG
* *
859804 AAAAGATAAAGACAAAAAATAACATATTTTGAAATAA
1 AAAAAATAAAGACAAAAAACAACATATTTTGAAATAA
* * *
859841 AAAAAATAAAGATAACAAACAACATATTTTGGAATAA
1 AAAAAATAAAGACAAAAAACAACATATTTTGAAATAA
859878 AAAA
1 AAAA
859882 GAAACACAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (37 bp):
AAAAAATAAAGACAAAAAACAACATATTTTGAAATAA
Found at i:860137 original size:163 final size:168
Alignment explanation
Indices: 859817--860148 Score: 476
Period size: 163 Copynumber: 2.0 Consensus size: 168
859807 AGATAAAGAC
*
859817 AAAAAATAACATATTTTGAAATAAAAAAAATAAAGATAACAAACAACATATTTTGGAATAAAAAA
1 AAAAAATAACATATTTTGAAATAAAAAAAATAAAGATAACAAACAACATATTTTGAAATAAAAAA
* *
859882 GAAACACAACAATAACATTTTTGAAATAGTTCACATAAAAGGGAATTTAGATCACAGGATGTAAC
66 GAAACACAACAAAAACATTTTTGAAATAGTTAACATAAAAGGGAATTTAGATCACAGGATGTAAC
* ** *
859947 CCTAATCACACTAAAATACGTAAAGATGTACAACTATT
131 CATAATCACACTAAAATACACAAAGATGTACAACCATT
* * * * *
859985 AAAAAA-AACATATTTTTAAAT-CAGAAAATAAAGATAACAGACAACATATTTTGAAATTAAAAA
1 AAAAAATAACATATTTTGAAATAAAAAAAATAAAGATAACAAACAACATATTTTGAAATAAAAAA
* *
860048 GAAA-A-AA-AAAAACATTTTTGAAATAGTTAACATGAAAGGGAATTTAGATCATAGGATGTAAC
66 GAAACACAACAAAAACATTTTTGAAATAGTTAACATAAAAGGGAATTTAGATCACAGGATGTAAC
* **
860110 CATAATCATACTTGAATACACAAAGATGTACAACCATT
131 CATAATCACACTAAAATACACAAAGATGTACAACCATT
860148 A
1 A
860149 CCAGTAAGCT
Statistics
Matches: 147, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
163 83 0.56
164 2 0.01
165 1 0.01
166 41 0.28
167 14 0.10
168 6 0.04
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (168 bp):
AAAAAATAACATATTTTGAAATAAAAAAAATAAAGATAACAAACAACATATTTTGAAATAAAAAA
GAAACACAACAAAAACATTTTTGAAATAGTTAACATAAAAGGGAATTTAGATCACAGGATGTAAC
CATAATCACACTAAAATACACAAAGATGTACAACCATT
Found at i:861554 original size:34 final size:35
Alignment explanation
Indices: 861516--861582 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
861506 CCTTACAACA
*
861516 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAAGCTAAGATA-AAACCTCTCTCT
861550 CTATCTTTTTCAAAAGCTAAGATAAAACCTCTC
1 CTATC-TTTTCAAAAGCTAAGATAAAACCTCTC
861583 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 13 0.45
37 11 0.38
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAAGCTAAGATAAAACCTCTCTCT
Found at i:862059 original size:13 final size:13
Alignment explanation
Indices: 862041--862066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
862031 AATTTTTTTG
862041 TGTATCGATACAT
1 TGTATCGATACAT
862054 TGTATCGATACAT
1 TGTATCGATACAT
862067 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:862077 original size:32 final size:34
Alignment explanation
Indices: 862020--862084 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
862010 TACAAGCCAA
*
862020 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
862054 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
862085 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:864245 original size:23 final size:24
Alignment explanation
Indices: 864200--864246 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
864190 AGATTTGAAC
*
864200 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
864224 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
864247 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:866852 original size:34 final size:35
Alignment explanation
Indices: 866814--866880 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
866804 CCTTACAACA
866814 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
866848 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
866881 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:867357 original size:34 final size:32
Alignment explanation
Indices: 867319--867383 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
867309 TACAAGCCAA
*
867319 TGTATCGATATAATTTTTTTGTGTATCGATACAT
1 TGTATCGATA-AA-TATTTTGTGTATCGATACAT
*
867353 TGTATCGATACATATTTTGTGTATCGATACA
1 TGTATCGATAAATATTTTGTGTATCGATACA
867384 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 18 0.62
33 1 0.03
34 10 0.34
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (32 bp):
TGTATCGATAAATATTTTGTGTATCGATACAT
Found at i:867358 original size:13 final size:13
Alignment explanation
Indices: 867340--867365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
867330 AATTTTTTTG
867340 TGTATCGATACAT
1 TGTATCGATACAT
867353 TGTATCGATACAT
1 TGTATCGATACAT
867366 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:869074 original size:11 final size:11
Alignment explanation
Indices: 869058--869100 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
869048 GAAGCCCAAG
869058 TTTTTCTTTTT
1 TTTTTCTTTTT
869069 TTTTTCTTTTT
1 TTTTTCTTTTT
869080 TTTTT-TTTTT
1 TTTTTCTTTTT
*
869090 TTGTTCTTTTT
1 TTTTTCTTTTT
869101 CCTGCGTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:869083 original size:21 final size:21
Alignment explanation
Indices: 869058--869100 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
869048 GAAGCCCAAG
*
869058 TTTTTCTTTTTTTT-TTCTTT
1 TTTTTTTTTTTTTTGTTCTTT
869078 TTTTTTTTTTTTTTGTTCTTT
1 TTTTTTTTTTTTTTGTTCTTT
869099 TT
1 TT
869101 CCTGCGTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (21 bp):
TTTTTTTTTTTTTTGTTCTTT
Found at i:869084 original size:17 final size:17
Alignment explanation
Indices: 869058--869100 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
869048 GAAGCCCAAG
869058 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
869075 TTTTT-TTTTTTTTTT-
1 TTTTTCTTTTTTTTTTC
*
869090 TTGTTCTTTTT
1 TTTTTCTTTTT
869101 CCTGCGTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 15 0.62
17 5 0.21
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.91
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:869099 original size:18 final size:18
Alignment explanation
Indices: 869059--869100 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
869049 AAGCCCAAGT
*
869059 TTTTCTTTTTTTTTTCTTT
1 TTTT-TTTTTTTTTTCTTC
*
869078 TTTTTTTTTTTTTTGTTC
1 TTTTTTTTTTTTTTCTTC
869096 TTTTT
1 TTTTT
869101 CCTGCGTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.00, C:0.07, G:0.02, T:0.90
Consensus pattern (18 bp):
TTTTTTTTTTTTTTCTTC
Found at i:869100 original size:1 final size:1
Alignment explanation
Indices: 869058--869091 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
869048 GAAGCCCAAG
* *
869058 TTTTTCTTTTTTTTTTCTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
869092 GTTCTTTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:871144 original size:113 final size:113
Alignment explanation
Indices: 870921--871162 Score: 251
Period size: 113 Copynumber: 2.1 Consensus size: 113
870911 ACGTTTAAGG
* * *
870921 ATGTATTGATACATTCTATAATATATCGATACATTTTCATCTGTATCGATATACATGAGAGTTTC
1 ATGTATCGATACATTCTATAATATATCGATACATTTTCATCTGTATCGATAAAAATGAGAGTTTC
* * * ** *
870986 AGGATTTATTTAGCTATTGATGACAAGATGTATCGGCACATTCACATA
66 AGCATTTATGTAGCTACTGACAACAAGATGTATCGACACATTCACATA
*
871034 ATGTATCGATACAATTACT-TAATGTATCGATACATTTTCA-CTTGTATCGATAAAAATGA-AGG
1 ATGTATCGATAC-ATT-CTATAATATATCGATACATTTTCATC-TGTATCGATAAAAATGAGA-G
* * * * *
871096 TTTCAGCATTT-TGTAGCTACTGCCAACCATATGTATTGATACATTCACA-A
62 TTTCAGCATTTATGTAGCTACTGACAACAAGATGTATCGACACATTCACATA
* *
871146 GATATATCAATACATTC
1 -ATGTATCGATACATTC
871163 AATCCTCATC
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
111 1 0.01
112 4 0.04
113 51 0.48
114 49 0.46
115 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (113 bp):
ATGTATCGATACATTCTATAATATATCGATACATTTTCATCTGTATCGATAAAAATGAGAGTTTC
AGCATTTATGTAGCTACTGACAACAAGATGTATCGACACATTCACATA
Found at i:874671 original size:77 final size:78
Alignment explanation
Indices: 874542--874713 Score: 222
Period size: 77 Copynumber: 2.2 Consensus size: 78
874532 ACAACGGGGC
** * * * *
874542 TGGAGTATTTCCGATTATGGAAAATCAATGTTCTGGAAATAAAATCGTGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATAGAAAATCAATATTCTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
874607 AATAAAT-A-GGGT
66 AA-AAATAACGGGT
* * *
874619 TGGAGTATCCCTGATTATAGAAAATCAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATAGAAAATCAATATTCTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
*
874684 GAAAATAACGGGGT
66 AAAAATAAC-GGGT
874698 TGGAGTATCCCCGATT
1 TGGAGTATCCCCGATT
874714 GTGAAAAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
76 4 0.05
77 58 0.72
79 19 0.23
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATAGAAAATCAATATTCTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
AAAAATAACGGGT
Found at i:874789 original size:51 final size:51
Alignment explanation
Indices: 874692--874811 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
874682 TCGAAAATAA
* * *
874692 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGC
* * *
874743 CGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATA-TTTTGAAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAG-AAATAAAGC
* *
874794 CAGGGTTGGAGTGTCCCC
1 CGGGGTTGGAGTATCCCC
874812 TCGAAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 4 0.07
51 55 0.93
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGC
Found at i:877246 original size:33 final size:33
Alignment explanation
Indices: 877209--877273 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
877199 AAATGCCTGA
* *
877209 ATGTATCGATACATTGAAAAATGTATCGATACG
1 ATGTATCGATACAATGAAAAATATATCGATACG
* *
877242 ATGTATCGATATAATGAACAATATATCGATAC
1 ATGTATCGATACAATGAAAAATATATCGATAC
877274 AACGAACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAATGAAAAATATATCGATACG
Found at i:877270 original size:20 final size:20
Alignment explanation
Indices: 877245--877294 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
877235 CGATACGATG
* *
877245 TATCGATATAATGAACAATA
1 TATCGATACAACGAACAATA
*
877265 TATCGATACAACGAACAATG
1 TATCGATACAACGAACAATA
877285 TATCGATACA
1 TATCGATACA
877295 TCTAGGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (20 bp):
TATCGATACAACGAACAATA
Found at i:878046 original size:42 final size:42
Alignment explanation
Indices: 878000--878185 Score: 171
Period size: 41 Copynumber: 4.4 Consensus size: 42
877990 CTTAGGGACT
* *
878000 AAGGAAAAAAGGAAATAAAATGCATCATGCCCTTTGAAGACA
1 AAGGAAAAAAGGAAATAAAATGCATCCTGCTCTTTGAAGACA
* * * *
878042 AAGG-AAAAAGGAAATTAAATGTATCCTGCTTTTTGAGGACA
1 AAGGAAAAAAGGAAATAAAATGCATCCTGCTCTTTGAAGACA
* *
878083 AAGG-AAAAAGGAGAATAAAGTGCGTCCTGCTCTTTG-AGAACTA
1 AAGGAAAAAAGGA-AATAAAATGCATCCTGCTCTTTGAAG-AC-A
* * * * * *
878126 GAAGGGAAAAAAAGGAAATGAAGTACGTCTTGCTCTTTGAGGACA
1 -AA-GG-AAAAAAGGAAATAAAATGCATCCTGCTCTTTGAAGACA
878171 AAGGAAAAAAGGAAA
1 AAGGAAAAAAGGAAA
878186 ATGCGTCTTG
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
41 44 0.37
42 35 0.29
43 3 0.03
44 4 0.03
45 3 0.03
46 22 0.18
47 9 0.08
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.19
Consensus pattern (42 bp):
AAGGAAAAAAGGAAATAAAATGCATCCTGCTCTTTGAAGACA
Found at i:878160 original size:46 final size:42
Alignment explanation
Indices: 877939--878185 Score: 170
Period size: 41 Copynumber: 5.8 Consensus size: 42
877929 AGGAAGAGAG
** *
877939 CGTCCTGCTCTTTGAGAATTAAGGAAAAGAA-G-AATGAAA-TG
1 CGTCCTGCTCTTTGAGAACAAAGGAAAA-AAGGAAAT-AAAGTA
* * * * * *
877980 GGTCCTGCTCCTT-AGGGACTAAGGAAAAAAGGAAATAAAATG
1 CGTCCTGCTCTTTGA-GAACAAAGGAAAAAAGGAAATAAAGTA
* * *
878022 CATCATGCCCTTTGA-AGACAAAGG-AAAAAGGAAATTAAATGTA
1 CGTCCTGCTCTTTGAGA-ACAAAGGAAAAAAGGAAA-TAAA-GTA
* * *
878065 --TCCTGCTTTTTGAGGACAAAGG-AAAAAGGAGAATAAAGTG
1 CGTCCTGCTCTTTGAGAACAAAGGAAAAAAGGA-AATAAAGTA
*
878105 CGTCCTGCTCTTTGAGAACTAGAAGGGAAAAAAAGGAAATGAAGTA
1 CGTCCTGCTCTTTGAGAAC-A-AA-GG-AAAAAAGGAAATAAAGTA
* *
878151 CGTCTTGCTCTTTGAGGACAAAGGAAAAAAGGAAA
1 CGTCCTGCTCTTTGAGAACAAAGGAAAAAAGGAAA
878186 ATGCGTCTTG
Statistics
Matches: 165, Mismatches: 24, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
40 5 0.03
41 65 0.39
42 51 0.31
43 5 0.03
44 4 0.02
45 3 0.02
46 24 0.15
47 8 0.05
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (42 bp):
CGTCCTGCTCTTTGAGAACAAAGGAAAAAAGGAAATAAAGTA
Found at i:878235 original size:37 final size:37
Alignment explanation
Indices: 878164--878235 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
878154 CTTGCTCTTT
* * *
878164 GAGGACAAAGGAAAAAAGGAAAATGCGTCTTGCTCAA
1 GAGGACAAAGGAAAAAAGGAAAAGGCATCCTGCTCAA
* *
878201 GAGGGCAAAGGAGAAAAGGAAAAGGCATCCTGCTC
1 GAGGACAAAGGAAAAAAGGAAAAGGCATCCTGCTC
878236 TTTGAGGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.31, T:0.11
Consensus pattern (37 bp):
GAGGACAAAGGAAAAAAGGAAAAGGCATCCTGCTCAA
Found at i:878313 original size:61 final size:62
Alignment explanation
Indices: 878214--878567 Score: 382
Period size: 61 Copynumber: 6.0 Consensus size: 62
878204 GGCAAAGGAG
* * * * *
878214 AAAAGGAAAAGGCATCCTGCTCTTTGAGGA-TTGAAAAGTGCCATCAACTTGCGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
*
878275 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
878336 AAAAGGAAAATGTGTGCTATTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGACTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
878397 AAAAGGAAAAGGTGTCTTACTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
878459 -----G-AAAGGCATCTTACTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTAGGCTTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
878514 -----G-AAAGGCATCCTACTCTTTCAGGATTAGAAAA-TGCCACCAACTTGTGTGGGCTT
1 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTT
878568 GGAAAGCTAT
Statistics
Matches: 261, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
55 70 0.27
56 28 0.11
57 1 0.00
60 1 0.00
61 134 0.51
62 27 0.10
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (62 bp):
AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:879596 original size:11 final size:11
Alignment explanation
Indices: 879593--879660 Score: 77
Period size: 11 Copynumber: 6.1 Consensus size: 11
879583 TTTTTCTTTG
879593 TTTTGTTTTTT
1 TTTTGTTTTTT
*
879604 TTTTG-TTGTT
1 TTTTGTTTTTT
879614 TTTTGTTTTTT
1 TTTTGTTTTTT
879625 TGTTT-TTTTTT
1 T-TTTGTTTTTT
*
879636 TGTTTTTTTGTTT
1 T-TTTGTTT-TTT
879649 TTTTGTTTTTT
1 TTTTGTTTTTT
879660 T
1 T
879661 AAAAAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
10 9 0.18
11 25 0.50
12 12 0.24
13 4 0.08
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:879602 original size:1 final size:1
Alignment explanation
Indices: 879582--879660 Score: 68
Period size: 1 Copynumber: 79.0 Consensus size: 1
879572 CTTTTCTCTC
* * * * * * * * *
879582 TTTTTTCTTTGTTTTGTTTTTTTTTTGTTGTTTTTTGTTTTTTTGTTTTTTTTTTGTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
879647 TTTTTTGTTTTTTT
1 TTTTTTTTTTTTTT
879661 AAAAAAAAAT
Statistics
Matches: 58, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:879606 original size:19 final size:19
Alignment explanation
Indices: 879582--879660 Score: 99
Period size: 19 Copynumber: 4.2 Consensus size: 19
879572 CTTTTCTCTC
* *
879582 TTTTTTCTTTGTTTTGTTTT
1 TTTTTTGTTT-TTTTGTTGT
*
879602 TTTTTTGTTGTTTT-TTGT
1 TTTTTTGTTTTTTTGTTGT
*
879620 TTTTTTGTTTTTTTTTTGT
1 TTTTTTGTTTTTTTGTTGT
879639 TTTTTTGTTTTTTTGTT-T
1 TTTTTTGTTTTTTTGTTGT
879657 TTTT
1 TTTT
879661 AAAAAAAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
18 21 0.40
19 24 0.45
20 8 0.15
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.87
Consensus pattern (19 bp):
TTTTTTGTTTTTTTGTTGT
Found at i:879618 original size:26 final size:27
Alignment explanation
Indices: 879584--879660 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
879574 TTTCTCTCTT
879584 TTTTCTTTGTTTTGTTT-TTTTTTTGTTG
1 TTTT-TTTGTTTT-TTTGTTTTTTTGTTG
*
879612 -TTTTTTGTTTTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTGTTTTTTTGTTG
879638 TTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTGTTTTTTTGTTTTTTT
879661 AAAAAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 3 0.07
26 18 0.39
27 25 0.54
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (27 bp):
TTTTTTTGTTTTTTTGTTTTTTTGTTG
Found at i:879660 original size:8 final size:8
Alignment explanation
Indices: 879584--879660 Score: 84
Period size: 8 Copynumber: 8.9 Consensus size: 8
879574 TTTCTCTCTT
879584 TTTTCTTTG
1 TTTT-TTTG
879593 TTTTGTTT-
1 TTTT-TTTG
879601 TTTTTTTG
1 TTTTTTTG
879609 TTGTTTTTTG
1 -T-TTTTTTG
879619 TTTTTTTG
1 TTTTTTTG
879627 TTTTTTTTTTG
1 ---TTTTTTTG
879638 TTTTTTTG
1 TTTTTTTG
879646 TTTTTTTG
1 TTTTTTTG
879654 TTTTTTT
1 TTTTTTT
879661 AAAAAAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 13
0.81 0.01 0.17
Matches are distributed among these distances:
7 3 0.05
8 34 0.56
9 9 0.15
10 7 0.11
11 8 0.13
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:891280 original size:21 final size:21
Alignment explanation
Indices: 891256--891332 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
891246 AAATATTTCA
891256 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
891277 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
891298 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
891319 AATGTATCGATACA
1 AATGTATCGATACA
891333 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:891392 original size:19 final size:19
Alignment explanation
Indices: 891368--891435 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
891358 AATTCAACAA
891368 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
891387 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
891402 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
891419 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
891436 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:891407 original size:13 final size:13
Alignment explanation
Indices: 891389--891413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
891379 ACATAAGTTT
891389 TGTATCGATACAA
1 TGTATCGATACAA
891402 TGTATCGATACA
1 TGTATCGATACA
891414 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:891411 original size:32 final size:32
Alignment explanation
Indices: 891370--891432 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
891360 TTCAACAATT
*
891370 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
891402 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
891433 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:892049 original size:12 final size:13
Alignment explanation
Indices: 892032--892060 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
892022 ATCCCTTAGC
892032 AAAAAAAC-CAAA
1 AAAAAAACACAAA
892044 AAAAAAACACAAA
1 AAAAAAACACAAA
892057 AAAA
1 AAAA
892061 CACTATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACACAAA
Found at i:894004 original size:27 final size:28
Alignment explanation
Indices: 893974--894049 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
893964 AATTTTCACA
893974 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
894001 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
894029 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
894050 ACTTCATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:894211 original size:53 final size:52
Alignment explanation
Indices: 894032--894254 Score: 213
Period size: 52 Copynumber: 4.3 Consensus size: 52
894022 TTATTTCTGA
* * * *** *
894032 GGGGATACTCCAACCCCGACTTCATTTCC-AAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAAACACCAATTTTTCCGTAATC
* * * *
894083 GGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCATAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAAACACCAATTTTTCCGTAATC
* *
894135 GGGGATACTCCAACCCTGGTTTTATTTTC-AAAACACCAATTTTTCCGTTAATC
1 GGGGATACTCCAACCC-GATTTTATTTCCAAAAACACCAATTTTTCCG-TAATC
* * *
894188 AGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAG-AATC
1 GGGGATACTCCAAC-CCGATTTTATTTCCAAAAACACCAATTTTTCCGTAATC
*
894240 GAGGATACTCCAACC
1 GGGGATACTCCAACC
894255 TCGTTATCTC
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
50 3 0.02
51 38 0.26
52 58 0.39
53 31 0.21
54 18 0.12
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAAACACCAATTTTTCCGTAATC
Found at i:894337 original size:264 final size:261
Alignment explanation
Indices: 893868--894364 Score: 712
Period size: 264 Copynumber: 1.9 Consensus size: 261
893858 AATTCTTCAC
* * * * *
893868 AATCGGGGATATTTCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTC
*
893933 CAACTCGATTTTATTTCCAAAAAAAAAACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTA
66 CAACTCGATTTTATTTCC--AAAAAAAACCAAATTTTCACAATCGAGGATACTCCAACCCCGTTA
* * *
893998 ATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTCATTTCCAA
129 ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTCATTCCCAA
*
894063 AATATTGATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTC
194 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTC
894128 CAT
259 CAT
*
894131 AATCGGGGATACTCCAAC-CCTGGTTTTATTTTCAAAACACCAATTTTTCCGT-TAATCAGGGAT
1 AATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAA-TTTT-C-TATAATCAGGGAT
* * * *
894194 ACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTTTCAGAATCGAGGATACTCCAACCTCG
62 ACTCCAACT-CGATTTTATTTCCAAAAAAAACCAAATTTTCACAATCGAGGATACTCCAACCCCG
* * * * *
894258 TTATCTCATCGGGGATACTCCAACTCCGTTACTTCCGAGGGGATACTCCGACCCCGGCTTTATTC
126 TTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTCATTC
*
894323 CCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
190 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
894365 TTATTTTCGA
Statistics
Matches: 207, Mismatches: 21, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
262 2 0.01
263 74 0.36
264 97 0.47
265 20 0.10
266 14 0.07
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (261 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTC
CAACTCGATTTTATTTCCAAAAAAAACCAAATTTTCACAATCGAGGATACTCCAACCCCGTTAAT
CATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTCATTCCCAAAA
TATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCA
T
Found at i:896388 original size:79 final size:78
Alignment explanation
Indices: 896257--896477 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 78
896247 ACAACGGGGC
* * * *
896257 TGGAGTATCCCCGATTATGGAAAATCGATCATCTAG-AAATAAAATTGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTAT-GAAAATCGAT-ATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCT
* *
896321 CAG-AAATAATAGGGT
64 -AGAAAATAACAAGGT
* * *
896336 TGGAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTT
1 TGGAGTATCCCCGATTAT-GAAAATCGATATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTA
896401 GAAAATAACAAGGT
65 GAAAATAACAAGGT
* * ** *
896415 TGAAGTATCCCCGATTGTGAAAAATCGATGCTTT-AGAAAT-AAAGCTGAGGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTATG-AAAATCGATATTTTGA-AAATAAAATC-GAGGTTGGAGTATCCCC
896478 GATTGTGAGA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
78 11 0.09
79 109 0.91
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATGAAAATCGATATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTAG
AAAATAACAAGGT
Found at i:896467 original size:130 final size:130
Alignment explanation
Indices: 896331--896605 Score: 349
Period size: 130 Copynumber: 2.1 Consensus size: 130
896321 CAGAAATAAT
* ** *
896331 AGGGTTGGAGTATCCCTGATTAT-AGAAAATCGGTATTTTGAAAATAAAATCGAGGTTGGAGTAT
1 AGGGTTGGAGTATCCCCGATTATGAG-AAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTAT
896395 CCCCTT-GAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAAT-AAA
65 -CCCTTCGAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAA
*
896458 GC
129 CC
* * * * *
896460 TGAGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 AG-GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTAT
** * * * * *
896525 CCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAAC
65 CCCTTCGAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAAC
896590 C
130 C
896591 AGGGTTGGAGTATCC
1 AGGGTTGGAGTATCC
896606 TCGAGATGAA
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
129 6 0.05
130 111 0.90
131 7 0.06
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (130 bp):
AGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTATC
CCTTCGAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAACC
Found at i:896476 original size:51 final size:51
Alignment explanation
Indices: 896411--896527 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
896401 GAAAATAACA
* * * *
896411 AGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAGCTG
1 AGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGCCG
* * *
896462 AGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCG
1 AGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGCCG
*
896513 GGGTTGGAGTATCCC
1 AGGTTGGAGTATCCC
896528 TTCGAAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
AGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGCCG
Found at i:898934 original size:47 final size:47
Alignment explanation
Indices: 898865--898958 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
898855 GCTTCAAGAA
898865 ACACATTAGTAGATTTCAAAAATCAAAATTTTACATTTTTCTTTTCT
1 ACACATTAGTAGATTTCAAAAATCAAAATTTTACATTTTTCTTTTCT
898912 ACACATTAGTAGATTTCAAAAATCAAAATTTTACATTTTTCTTTTCT
1 ACACATTAGTAGATTTCAAAAATCAAAATTTTACATTTTTCTTTTCT
898959 TTCTCCCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (47 bp):
ACACATTAGTAGATTTCAAAAATCAAAATTTTACATTTTTCTTTTCT
Found at i:900436 original size:21 final size:20
Alignment explanation
Indices: 900407--900449 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
900397 GGCTAGTGTG
*
900407 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
900428 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
900448 GG
1 GG
900450 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:902993 original size:15 final size:15
Alignment explanation
Indices: 902973--903003 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
902963 ATTTCGTTTG
*
902973 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
902988 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
903003 G
1 G
903004 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:904834 original size:21 final size:21
Alignment explanation
Indices: 904805--904849 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
904795 AAGTTTTTAT
*
904805 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
904825 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
904847 TTT
1 TTT
904850 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:907537 original size:79 final size:79
Alignment explanation
Indices: 907387--907607 Score: 218
Period size: 79 Copynumber: 2.8 Consensus size: 79
907377 ACAACGGGGC
* * * *
907387 TGGAGTATCCCCGATTATGGAAAATCGATCATCTAGAAATAAAATTGGGGTTGGAGTATCCTCTC
1 TGGAGTATCCCCGATTATAGAAAATCGATCATCTAGAAATAAAATCGAGGTTGGAGTATCCCCTC
* *
907452 AGAAATAATAGGGT
66 AGAAATAACAAGGT
* * * *
907466 TGGAGTATCCCTGATTATAGAAAATCGGT-ATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATAGAAAATCGATCATCTAG-AAATAAAATCGAGGTTGGAGTATCCCCT
*
907530 -TGAAAATAACAAGGT
65 CAG-AAATAACAAGGT
* * * * *
907545 TGAAGTATCCCCGATTGT-GAAAAATCGATGC-TTTAGAAAT-AAAGCTGAGGTTAGAGTATCCC
1 TGGAGTATCCCCGATTATAG-AAAATCGAT-CATCTAGAAATAAAATC-GAGGTTGGAGTATCCC
907607 C
63 C
907608 AATTGTGAGA
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 10 0.08
79 104 0.88
80 4 0.03
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATAGAAAATCGATCATCTAGAAATAAAATCGAGGTTGGAGTATCCCCTC
AGAAATAACAAGGT
Found at i:907606 original size:51 final size:51
Alignment explanation
Indices: 907548--907657 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 51
907538 ACAAGGTTGA
* * * *
907548 AGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAGCTGAGGTTAG
1 AGTATCCCCAATTGTGAAAAATCAATACTTTAGAAATAAAGCCGAGGTTAG
* * * * *
907599 AGTATCCCCAATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGG
1 AGTATCCCCAATTGTGAAAAATCAATACTTTAGAAATAAAGCCGAGGTTAG
907650 AGTATCCC
1 AGTATCCC
907658 TTCGAAAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
AGTATCCCCAATTGTGAAAAATCAATACTTTAGAAATAAAGCCGAGGTTAG
Found at i:907732 original size:130 final size:129
Alignment explanation
Indices: 907461--907735 Score: 329
Period size: 130 Copynumber: 2.1 Consensus size: 129
907451 CAGAAATAAT
** ** *
907461 AGGGTTGGAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGAGGTTGGAGTATC
1 AGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTATC
*
907526 CCCTTGAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAAGC
66 CCCTTGAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAACC
* * * * * *
907590 TGAGGTTAGAGTATCCCCAATTGT-GAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTA
1 AG-GGTTGGAGTATCCCCAATTATAGA-AAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTA
** * * * * *
907654 T-CCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAA
64 TCCCCTT-GAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAAT-AA
907718 ACC
127 ACC
907721 AGGGTTGGAGTATCC
1 AGGGTTGGAGTATCC
907736 TCGAGATGAA
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
129 8 0.07
130 108 0.89
131 5 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (129 bp):
AGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAACCGAGGTTGGAGTATC
CCCTTGAAAATAACAAGGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAACC
Found at i:911233 original size:20 final size:20
Alignment explanation
Indices: 911208--911262 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
911198 AAAATGCCTG
911208 AATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
*
911228 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTAAAA
911248 AATGTATCGATACAT
1 AATGTATCGATACAT
911263 CTGGGTAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:911287 original size:69 final size:70
Alignment explanation
Indices: 911207--911381 Score: 253
Period size: 69 Copynumber: 2.5 Consensus size: 70
911197 CAAAATGCCT
* * * *
911207 GAATGTATCGATACATTAAAAAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT-AA
1 GAATGTATCGATACAATGAAAAATGTATCGATACAATGAAAAATGTATCGATACATCTCGGTAAA
*
911271 ACCTA
66 ACCCA
* * *
911276 GAATGTATCGATACAATGAACAATATATCGATACAATGAACAATGTATCGATACATCTCGGTAAA
1 GAATGTATCGATACAATGAAAAATGTATCGATACAATGAAAAATGTATCGATACATCTCGGTAAA
911341 ACCCA
66 ACCCA
* *
911346 GAATGTATTGATACAATGAATAATGTATCGATACAA
1 GAATGTATCGATACAATGAAAAATGTATCGATACAA
911382 ATAGTGAAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
69 55 0.59
70 39 0.41
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (70 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACAATGAAAAATGTATCGATACATCTCGGTAAA
ACCCA
Found at i:911306 original size:20 final size:20
Alignment explanation
Indices: 911281--911330 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
911271 ACCTAGAATG
911281 TATCGATACAATGAACAATA
1 TATCGATACAATGAACAATA
*
911301 TATCGATACAATGAACAATG
1 TATCGATACAATGAACAATA
911321 TATCGATACA
1 TATCGATACA
911331 TCTCGGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (20 bp):
TATCGATACAATGAACAATA
Found at i:912845 original size:16 final size:16
Alignment explanation
Indices: 912824--912858 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
912814 TTGATTAAGA
**
912824 AAAGTTAAGTACAAGC
1 AAAGTTAAAAACAAGC
912840 AAAGTTAAAAACAAGC
1 AAAGTTAAAAACAAGC
912856 AAA
1 AAA
912859 AAAATAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.14
Consensus pattern (16 bp):
AAAGTTAAAAACAAGC
Found at i:917194 original size:28 final size:28
Alignment explanation
Indices: 917138--917214 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
917128 GGAATAAAGC
*** *
917138 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
917166 CGGGGTTAGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
917194 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
917215 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:917308 original size:53 final size:53
Alignment explanation
Indices: 917249--917418 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 53
917239 AATAATCAGA
* *
917249 GTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTT-GAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAG-AAATAAAACCGGG
** *
917302 GTTGGAGTATCCCCGATT-GTGGAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAGAAATAAAACCGGG
* * * * * * **
917354 GTTGGAGTATCCCTGATT--ATGAAAAATCAATATTTTGGAAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAGAAATAAAACCGGG
917405 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
917419 TCGGAAATAA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
51 37 0.37
52 44 0.44
53 19 0.19
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAGAAATAAAACCGGG
Found at i:917336 original size:52 final size:52
Alignment explanation
Indices: 917197--917587 Score: 223
Period size: 51 Copynumber: 7.5 Consensus size: 52
917187 GAAATAACGA
* * * *
917197 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAAAAT--AATCAG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTT-GAAAATAAAATCGG
* ** * * *
917248 AGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAAATTAGTGTTTTGAAAATAAAATCGG
* *
917301 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTGA-AAATAAAATCGG
* * * * * * *
917353 GGTTGGAGTATCCCTGATTAT-GAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTGAAAATAAAATCGG
* * *** ** *
917404 GGTTGGAGTATCCCC---T-CGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTGTGGAAA-AA-----TT--AGTGT-TTTGAAAATAAAATCGG
* * *
917459 GGTTGGAGTATCGCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAA-AAATTAGTG--TTTTGAAAATAAAATCGG
* * * *
917513 AGTTGGAGTATCCCTGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTGAAAATAAAATCGG
* *
917564 AGTTGGAATATCCCCGATTGTGGA
1 GGTTGGAGTATCCCCGATTGTGGA
917588 GAATTGAGAA
Statistics
Matches: 257, Mismatches: 56, Indels: 53
0.70 0.15 0.14
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 98 0.38
52 52 0.20
53 45 0.18
54 22 0.09
55 18 0.07
56 5 0.02
57 3 0.01
58 6 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:917464 original size:27 final size:28
Alignment explanation
Indices: 917401--917476 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
917391 GAAATAAAGT
***
917401 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
917429 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
917456 CGGGGTTGGAGTATCGCCGAT
1 CGGGGTTGGAGTATCCCCGAT
917477 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:917490 original size:263 final size:263
Alignment explanation
Indices: 917087--917587 Score: 776
Period size: 263 Copynumber: 1.9 Consensus size: 263
917077 TCGAAAATAA
* *
917087 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
*
917152 CCCCTCGGAAGTAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
* *
917217 TGAAAAATTGGT-ATTTTTGGAAA-ATAATCAGAGTTGGAGTATCCCCGATTAAAGGGAAAATTG
131 TGAAAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAA--GAAAATTA
* *
917280 GTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
194 GTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
917345 AAAAC
259 AAAAC
** *
917350 CGGGGTTGGAGTATCCCTGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
917415 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCGC-CGATT
66 CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATC-CTCGATT
* * * *
917478 GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCTGATTATAGAAAATTA
130 GTGAA-AAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTA
*
917543 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
194 GTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
917588 GAATTGAGAA
Statistics
Matches: 216, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
262 28 0.13
263 152 0.70
264 10 0.05
265 26 0.12
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
TGAAAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:919984 original size:33 final size:33
Alignment explanation
Indices: 919922--919987 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
919912 AATTTCCAAG
*** *
919922 ATGTATCGATACAAAGATCCATGTGTCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
*
919955 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
919988 TTCCCTTGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:921553 original size:55 final size:55
Alignment explanation
Indices: 921469--922076 Score: 668
Period size: 55 Copynumber: 10.9 Consensus size: 55
921459 ATAAAGTGTA
* * * *
921469 TCCTGCTCTTTGAGGATTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
921524 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
921579 TCTTGCTCTTTGAGGACTGGAAA-ATGCCACTAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
921634 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
921689 TCCTGCTCTTTGA-G---G--A--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
** *
921736 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
921791 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
**
921851 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * *
921910 TCCTGCTCTTTAAGAACTG-AGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * *
921969 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACCTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* ** *
922029 TCTTGCTCTTTGAGGACTGGAAAAATGCCACCAACTTGTGGGGGCTTT
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
922077 TACAAGGAAA
Statistics
Matches: 497, Mismatches: 34, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
47 41 0.08
48 3 0.01
49 1 0.00
51 2 0.00
53 1 0.00
54 9 0.02
55 221 0.44
56 6 0.01
59 109 0.22
60 81 0.16
61 23 0.05
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:921765 original size:157 final size:161
Alignment explanation
Indices: 921469--922015 Score: 642
Period size: 157 Copynumber: 3.3 Consensus size: 161
921459 ATAAAGTGTA
* * * *
921469 TCCTGCTCTTTGAGGATTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTGTCCTGCTCT
*
921533 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCTTGCTCTTTGAGGACT
66 TTGAGGA--G-AA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT
*
921597 GGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGTG
126 -GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
921634 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTGTCCTGCTCT
921698 TTGA-G-G-A-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
66 TTGAGGAGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG-AAA
*
921759 ATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
130 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
921791 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAG---AGGTGTCCTG
**
921856 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTT
62 CTCTTTGAGGA--GAA-GTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTT
* * ***
921921 AAGAACTGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
119 GAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* *
921969 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACCTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
922016 AAAAGAAAAG
Statistics
Matches: 336, Mismatches: 20, Indels: 39
0.85 0.05 0.10
Matches are distributed among these distances:
156 1 0.00
157 125 0.37
158 2 0.01
159 4 0.01
161 1 0.00
162 17 0.05
163 1 0.00
164 3 0.01
165 60 0.18
166 1 0.00
167 1 0.00
169 23 0.07
173 25 0.07
174 22 0.07
177 1 0.00
178 45 0.13
179 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (161 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAGAGGTGTCCTGCTCT
TTGAGGAGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:922025 original size:60 final size:59
Alignment explanation
Indices: 921704--922114 Score: 509
Period size: 59 Copynumber: 7.0 Consensus size: 59
921694 CTCTTTGAGG
*
921704 ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTGAAAA
1 ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAA
* *
921759 ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGGGTCCTGCTCTTTGGGGACTGAAA
1 ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
* * *
921813 GGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAG
1 -ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
* * * * **
921873 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCTTTAAGAACTGAGG
1 ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
* *
921932 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
1 ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAA
* *
921992 ATGCCACCAACCTGTGTGGGCTTTAAAAGAAAAGGCGTCTTGCTCTTTGAGGACTGGAAAA
1 ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-G-AAA
* * * *
922053 ATGCCACCAACTTGTGGGGGCTTTTACAAGGAAAAGGCATCCTGCTCTTTGAGGATTGAAA
1 ATGCCACCAACTTGTGTGGGC-TTTA-AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
922114 A
1 A
922115 GCGAAAGGAG
Statistics
Matches: 319, Mismatches: 27, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
54 3 0.01
55 72 0.23
59 106 0.33
60 81 0.25
61 26 0.08
62 5 0.02
63 26 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (59 bp):
ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
Found at i:923081 original size:1 final size:1
Alignment explanation
Indices: 923071--923123 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
923061 CTTAAGCAGA
* * * * * *
923071 TTTTTCTTTTTTTTTTGTTTTGTTTTTTTGTTTTTGTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
923124 GAAGAGAAGG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:923098 original size:13 final size:14
Alignment explanation
Indices: 923080--923113 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
923070 ATTTTTCTTT
923080 TTTTTTTG-TTTTG
1 TTTTTTTGTTTTTG
923093 TTTTTTTGTTTTTG
1 TTTTTTTGTTTTTG
923107 TTTTTTT
1 TTTTTTT
923114 TTCTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (14 bp):
TTTTTTTGTTTTTG
Found at i:923098 original size:14 final size:15
Alignment explanation
Indices: 923079--923114 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
923069 GATTTTTCTT
923079 TTTTTTTTG-TTTTG
1 TTTTTTTTGTTTTTG
923093 -TTTTTTTGTTTTTG
1 TTTTTTTTGTTTTTG
923107 TTTTTTTT
1 TTTTTTTT
923115 TCTTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 5 0.25
15 7 0.35
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTGTTTTTG
Found at i:923098 original size:24 final size:24
Alignment explanation
Indices: 923071--923123 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
923061 CTTAAGCAGA
*
923071 TTTTTCTTTTT-TTTTTGTTTTGTT
1 TTTTTCTTTTTGTTTTT-TTTTCTT
*
923095 TTTTTGTTTTTGTTTTTTTTTCTT
1 TTTTTCTTTTTGTTTTTTTTTCTT
923119 TTTTT
1 TTTTT
923124 GAAGAGAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.89
Consensus pattern (24 bp):
TTTTTCTTTTTGTTTTTTTTTCTT
Found at i:923104 original size:19 final size:17
Alignment explanation
Indices: 923071--923124 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 17
923061 CTTAAGCAGA
*
923071 TTTTTCTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTG
923088 TTTTGTTTTTTTGTTTTTG
1 TTTT-TTTTTTT-TTTTTG
923107 TTTTTTTTTCTTTTTTTG
1 TTTTTTTTT-TTTTTTTG
923125 AAGAGAAGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 17 0.52
19 12 0.36
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTG
Found at i:935733 original size:28 final size:28
Alignment explanation
Indices: 935677--935753 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
935667 GGAATAAAGC
*** *
935677 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
935705 CGGGGTTGGAATATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
935733 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
935754 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:935885 original size:52 final size:51
Alignment explanation
Indices: 935736--935957 Score: 205
Period size: 51 Copynumber: 4.3 Consensus size: 51
935726 GAAATAACGA
* * * * * *
935736 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAA-ATAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTAGAAATAAAACCGG
* * * * *
935787 AGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTTA-AAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTAGT-ATTTTAGAAATAAAACCGG
* * *
935840 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTAGAAATAAAACCGG
* * * * **
935892 GGTTGGAGTATCCCTGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAACCGG
935943 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
935958 TCGGAAATAA
Statistics
Matches: 139, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
51 59 0.42
52 42 0.30
53 38 0.27
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAACCGG
Found at i:936003 original size:27 final size:28
Alignment explanation
Indices: 935940--936015 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
935930 GAAATAAAGT
***
935940 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
935968 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
935995 CGGGGTTGGAGTATCGCCGAT
1 CGGGGTTGGAGTATCCCCGAT
936016 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:936029 original size:263 final size:263
Alignment explanation
Indices: 935626--936126 Score: 776
Period size: 263 Copynumber: 1.9 Consensus size: 263
935616 TCGAAAATAA
* *
935626 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
*
935691 CCCCTCGGAAGTAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAAATAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
* *
935756 TGAAAAATTGGT-ATTTTTGGAAA-ATAATCGGAGTTGGAGTATCCCCGATTAAAGGGAAAATTG
131 TGAAAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA--GAAAATTA
* * *
935819 GTGTTTTTAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
194 GTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
935884 AAAAC
259 AAAAC
** *
935889 CGGGGTTGGAGTATCCCTGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
935954 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCGC-CGATT
66 CCCCTCGGAAATAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATC-CTCGATT
* * *
936017 GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCTGATTATAGAAAATTA
130 GTGAA-AAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTA
*
936082 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
194 GTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
936127 GAATTGAGAA
Statistics
Matches: 216, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
262 28 0.13
263 151 0.70
264 10 0.05
265 27 0.12
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
TGAAAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:938491 original size:13 final size:13
Alignment explanation
Indices: 938473--938498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
938463 ACAAAGATCC
938473 ATGTATCGATACA
1 ATGTATCGATACA
938486 ATGTATCGATACA
1 ATGTATCGATACA
938499 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:938495 original size:33 final size:33
Alignment explanation
Indices: 938453--938518 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
938443 AATTTCCAAG
***
938453 ATGTATCGATACAAAGATCCATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
*
938486 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
938519 TTCCCTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:939270 original size:20 final size:20
Alignment explanation
Indices: 939244--939298 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
939234 TTGCCAATTT
*
939244 CATGTATCGATACAATTG-T
1 CATGTATCGATACAATTGAA
939263 CTATGTATCGATACAA-TGAA
1 C-ATGTATCGATACAATTGAA
939283 CATGTATCGATACAAT
1 CATGTATCGATACAAT
939299 GTATCGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:939302 original size:13 final size:13
Alignment explanation
Indices: 939284--939310 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
939274 TACAATGAAC
939284 ATGTATCGATACA
1 ATGTATCGATACA
939297 ATGTATCGATACA
1 ATGTATCGATACA
939310 A
1 A
939311 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:941804 original size:13 final size:13
Alignment explanation
Indices: 941786--941825 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
941776 ATAGTAACCC
*
941786 ATGTATTGATACA
1 ATGTATCGATACA
941799 ATGTATCGATACA
1 ATGTATCGATACA
941812 ATGTATCGATACA
1 ATGTATCGATACA
941825 A
1 A
941826 GGAATATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:948024 original size:33 final size:32
Alignment explanation
Indices: 947982--948046 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
947972 TTACAAGCAA
947982 TGTATCGATACAATTCAT-CATGTATCGATACAT
1 TGTATCGATAC-ATT-ATACATGTATCGATACAT
948015 TGTATCGATACATTATACCATGTATCGATACA
1 TGTATCGATACATTATA-CATGTATCGATACA
948047 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 2 0.07
32 3 0.10
33 25 0.83
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTATACATGTATCGATACAT
Found at i:948045 original size:13 final size:13
Alignment explanation
Indices: 948002--948028 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
947992 CAATTCATCA
948002 TGTATCGATACAT
1 TGTATCGATACAT
948015 TGTATCGATACAT
1 TGTATCGATACAT
948028 T
1 T
948029 ATACCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:948120 original size:19 final size:19
Alignment explanation
Indices: 948076--948131 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
948066 CTACCAATTT
**
948076 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
948096 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
948115 CATGTATCGATACAATG
1 CATGTATCGATACAATG
948132 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:948134 original size:13 final size:13
Alignment explanation
Indices: 948116--948142 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
948106 TACAATGAAC
948116 ATGTATCGATACA
1 ATGTATCGATACA
948129 ATGTATCGATACA
1 ATGTATCGATACA
948142 A
1 A
948143 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:950010 original size:3 final size:3
Alignment explanation
Indices: 950002--950033 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
949992 CGAGTCAACT
*
950002 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
950034 TTTGATGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:951643 original size:33 final size:33
Alignment explanation
Indices: 951601--951675 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
951591 AGCCATTGGG
951601 CACAATGTATTGATACTTTTCACTATGTATCGA
1 CACAATGTATTGATACTTTTCACTATGTATCGA
951634 CACAATGTATTGATACTTTTCACTATGTATCGA
1 CACAATGTATTGATACTTTTCACTATGTATCGA
*
951667 TACAATGTA
1 CACAATGTA
951676 CCATGTATCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (33 bp):
CACAATGTATTGATACTTTTCACTATGTATCGA
Found at i:951681 original size:20 final size:20
Alignment explanation
Indices: 951658--951695 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
951648 ACTTTTCACT
*
951658 ATGTATCGATACAATGTACC
1 ATGTATCGACACAATGTACC
951678 ATGTATCGACACAATGTA
1 ATGTATCGACACAATGTA
951696 TCGATACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGACACAATGTACC
Found at i:954907 original size:52 final size:52
Alignment explanation
Indices: 954759--954887 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
954749 CGAAATATGA
954759 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
954811 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
954863 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
954888 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:954914 original size:13 final size:13
Alignment explanation
Indices: 954896--954920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
954886 CAAAGATCAG
954896 TGTATCGATACAA
1 TGTATCGATACAA
954909 TGTATCGATACA
1 TGTATCGATACA
954921 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:954982 original size:13 final size:13
Alignment explanation
Indices: 954964--955047 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
954954 AGCTTCCTAG
954964 CGATACATTGTAT
1 CGATACATTGTAT
954977 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
954996 CGATACATTGTAT
1 CGATACATTGTAT
955009 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
955028 CGATACATTGTAT
1 CGATACATTGTAT
955041 CGATACA
1 CGATACA
955048 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:954996 original size:19 final size:18
Alignment explanation
Indices: 954972--955034 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
954962 AGCGATACAT
954972 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
954991 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
955004 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
955023 TGTATCGATACA
1 TGTATCGATACA
955035 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:955005 original size:32 final size:32
Alignment explanation
Indices: 954964--955049 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
954954 AGCTTCCTAG
954964 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
954996 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
955028 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
955050 TCGTTGAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:955878 original size:49 final size:49
Alignment explanation
Indices: 955821--956017 Score: 232
Period size: 49 Copynumber: 4.0 Consensus size: 49
955811 TTAGAAATGT
* * * *
955821 TAAAGATGCTAATATGTTGATTCAAGGCCAACGATATCGGACTTAAAGA
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * *
955870 TGAAGATGCCAATGTGCTGATTTAAGGCCAGTGATATTGGACTTAAAGA
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * * *
955919 TAAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * *
955968 TAAAGGTGCCAATATGATAATTAAAGGCCAGCGATATTGGACTTAGAAGA
1 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
956018 GGACGCCACC
Statistics
Matches: 125, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 121 0.97
50 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (49 bp):
TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
Found at i:956099 original size:28 final size:29
Alignment explanation
Indices: 956034--956157 Score: 155
Period size: 28 Copynumber: 4.3 Consensus size: 29
956024 CACCAACTTG
**
956034 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACT
* *
956063 TATGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
956091 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
956119 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
*
956149 TATGGGCTT
1 TGTGGGCTT
956158 AAAAGGAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
27 5 0.06
28 46 0.55
29 10 0.12
30 23 0.27
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.35
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:956155 original size:58 final size:57
Alignment explanation
Indices: 956036--956157 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 57
956026 CCAACTTGTG
* * *
956036 TGGGCTTTTGAAAGGGTTGCACCAACTTATGTGCTTTTGAAGGTTGCCACTGACTTG
1 TGGGCTTTTGAAAGGGTTGCACCAACTTATGGGCTTTTGAAGGGTGCCACTGACTTA
** *
956093 TGGGCTTTTG-AA-GGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTA
1 TGGGCTTTTGAAAGGGTTG-CACCAACTTATGGGCTTTTG--AAGGGTGCCACTGACTTA
956151 TGGGCTT
1 TGGGCTT
956158 AAAAGGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
55 5 0.09
56 18 0.32
57 10 0.18
58 23 0.41
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.34
Consensus pattern (57 bp):
TGGGCTTTTGAAAGGGTTGCACCAACTTATGGGCTTTTGAAGGGTGCCACTGACTTA
Found at i:956175 original size:34 final size:34
Alignment explanation
Indices: 956131--956244 Score: 115
Period size: 34 Copynumber: 3.4 Consensus size: 34
956121 TGGGCTTTTG
* * * * *
956131 AAAAGGGTGCCACTGACTTATGGGCTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGA
*
956165 AAAAGAGTGCCACGGAGTTGTGGGCTTACAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTA-AAAAGA
* * *
956200 AAAGGAATGCCACAGAGTTGTGGACTTAAAAA-A
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGA
956233 GAAAAG-GTGCCA
1 -AAAAGAGTGCCA
956245 ATATGCTGAC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
33 6 0.09
34 32 0.48
35 29 0.43
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAAGA
Found at i:956211 original size:35 final size:34
Alignment explanation
Indices: 956151--956239 Score: 115
Period size: 35 Copynumber: 2.6 Consensus size: 34
956141 CACTGACTTA
* * * *
956151 TGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTG
1 TGGGCTTAAAAAGAAAAGGAATGCCACAGAGTTG
956185 TGGGCTTACAAAAGAAAAGGAATGCCACAGAGTTG
1 TGGGCTTA-AAAAGAAAAGGAATGCCACAGAGTTG
*
956220 TGGACTTAAAAAAGAAAAGG
1 TGGGCTT-AAAAAGAAAAGG
956240 TGCCAATATG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 8 0.17
35 39 0.81
36 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (34 bp):
TGGGCTTAAAAAGAAAAGGAATGCCACAGAGTTG
Found at i:956354 original size:33 final size:33
Alignment explanation
Indices: 956278--956367 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 33
956268 TATTGGGCTT
* * *
956278 AAAGGTGCGACGGAGTTGTGGACTTAAACAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAACAGAA
*
956311 AAGGCA--CCACGGAGTTGTGGGCTTAAA-AGGAA
1 AAAG-ATGCCACGGAGTTGTGGGCTTAAACA-GAA
*
956343 AAAGATGCCACGGACTTGTGGGCTT
1 AAAGATGCCACGGAGTTGTGGGCTT
956368 TTGAAGGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
31 2 0.04
32 25 0.53
33 20 0.43
ACGTcount: A:0.32, C:0.16, G:0.33, T:0.19
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGGCTTAAACAGAA
Found at i:956389 original size:28 final size:28
Alignment explanation
Indices: 956348--956435 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
956338 AGGAAAAAGA
* *
956348 TGCCACGGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGG
*
956376 TGCCACTGATTTGTGGGC-TTTGAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTG---AAGGG
956406 TGCCACTGACTTGTGGGCTTTTGAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAGGG
956434 TG
1 TG
956436 AGGAATGTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.08
28 23 0.44
30 21 0.40
31 4 0.08
ACGTcount: A:0.17, C:0.16, G:0.35, T:0.32
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTTGAAGGG
Found at i:957855 original size:1 final size:1
Alignment explanation
Indices: 957851--957936 Score: 55
Period size: 1 Copynumber: 86.0 Consensus size: 1
957841 TTTGTTGTTG
* * * * * * * * * * *
957851 TTTTTTTGTTTGTTTGTTTGTTTTTTTTTCTTCTTCTTTTTTTTGTTTGTTTGTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
957916 TTTTTTTTCTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
957937 GGTGGATGAC
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:957863 original size:12 final size:12
Alignment explanation
Indices: 957839--957936 Score: 71
Period size: 12 Copynumber: 8.3 Consensus size: 12
957829 ATCCGGACCC
957839 TTTTTG-TTGTT
1 TTTTTGTTTGTT
*
957850 GTTTT-TTTGTT
1 TTTTTGTTTGTT
*
957861 TGTTTGTTTGTT
1 TTTTTGTTTGTT
* *
957873 TTTTTTTCTTCTT
1 TTTTTGT-TTGTT
957886 CTTTTT-TTTGTT
1 -TTTTTGTTTGTT
* *
957898 TGTTTGTTTTTT
1 TTTTTGTTTGTT
957910 TTTTTGTTT-TT
1 TTTTTGTTTGTT
*
957921 TTTCTTCTTT-TT
1 TTT-TTGTTTGTT
957933 TTTT
1 TTTT
957937 GGTGGATGAC
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
11 22 0.31
12 38 0.54
13 5 0.07
14 5 0.07
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (12 bp):
TTTTTGTTTGTT
Found at i:957876 original size:33 final size:31
Alignment explanation
Indices: 957839--957923 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 31
957829 ATCCGGACCC
* *
957839 TTTTTGTTGTTGTTTTTTTGTTTGTTTGTTTG
1 TTTTTTTTCTTGTTTTTTT-TTTGTTTGTTTG
*
957871 TTTTTTTTTCTTCTTCTTTTTTTTGTTTGTTTG
1 -TTTTTTTTCTTGTT-TTTTTTTTGTTTGTTTG
*
957904 TTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTCTTGTTTTTTTT
957924 CTTCTTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 6 0.13
32 12 0.26
33 23 0.50
34 5 0.11
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.84
Consensus pattern (31 bp):
TTTTTTTTCTTGTTTTTTTTTTGTTTGTTTG
Found at i:957901 original size:37 final size:38
Alignment explanation
Indices: 957851--957937 Score: 124
Period size: 37 Copynumber: 2.3 Consensus size: 38
957841 TTTGTTGTTG
957851 TTTTTTTGTTTGTTTGTTTGTTTTTTT-TTCTTCTTCT
1 TTTTTTTGTTTGTTTGTTTGTTTTTTTGTTCTTCTTCT
* * *
957888 TTTTTTTGTTTGTTTGTTTTTTTTTTTGTTTTTTTTCT
1 TTTTTTTGTTTGTTTGTTTGTTTTTTTGTTCTTCTTCT
957926 TCTTTTTT-TTTG
1 T-TTTTTTGTTTG
957938 GTGGATGACG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 26 0.58
38 13 0.29
39 6 0.13
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (38 bp):
TTTTTTTGTTTGTTTGTTTGTTTTTTTGTTCTTCTTCT
Found at i:957920 original size:41 final size:40
Alignment explanation
Indices: 957851--957936 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 40
957841 TTTGTTGTTG
957851 TTTTTTTGTTTGTTTGTTTGTTTTTTTTTCTTCTTCTTTT
1 TTTTTTTGTTTGTTTGTTTGTTTTTTTTTCTTCTTCTTTT
* *
957891 TTTTGTTTGTTTGTTT-TTTTTTTTGTTTTTTTTCTTCTTTT
1 TTTT-TTTGTTTGTTTGTTTGTTTT-TTTTTCTTCTTCTTTT
957932 TTTTT
1 TTTTT
957937 GGTGGATGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 12 0.29
41 30 0.71
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (40 bp):
TTTTTTTGTTTGTTTGTTTGTTTTTTTTTCTTCTTCTTTT
Found at i:971928 original size:52 final size:52
Alignment explanation
Indices: 971780--971908 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
971770 CGAAATATGA
*
971780 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
971832 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
971884 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
971909 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:972004 original size:13 final size:13
Alignment explanation
Indices: 971986--972037 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
971976 AGCTTCACAG
971986 CGATACATTGTAT
1 CGATACATTGTAT
971999 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
972018 CGATACATTGTAT
1 CGATACATTGTAT
972031 CGATACA
1 CGATACA
972038 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:972018 original size:19 final size:19
Alignment explanation
Indices: 971994--972058 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
971984 AGCGATACAT
971994 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
972013 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
972026 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
972045 TGTATCGATACAAA
1 TGTATCGATACAAA
972059 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:972027 original size:32 final size:32
Alignment explanation
Indices: 971986--972056 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
971976 AGCTTCACAG
971986 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
972018 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
972050 CGATACA
1 CGATACA
972057 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:974038 original size:167 final size:167
Alignment explanation
Indices: 973725--974166 Score: 570
Period size: 167 Copynumber: 2.7 Consensus size: 167
973715 ATTAAATATT
973725 TTTAATCACCATTAAATTAGTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCA-TTTTTTCCT
1 TTTAATCACCATTAAATTAGTTTTGAAAAATTCATTTA-TTTCATGAGTTTTTCATTTTTTTCCT
* * * * * * * *
973789 TGAAATTCTCTTGTTTTTGAAAAACTGACTTTTCTATCCCAT-AATGGTTTTTGAGGGGGTTTTT
65 TAAAATTTTCTTATTTTTGAAAAACCGAGTTTTCTATTCCATAAAAGCTTTTTGAGGGGGTTTTT
* * *
973853 CTTGGTCCGAAATTTTTAATATTCATCAAATATTATCA
130 CTTGGTCCAAAATTTTTAATATTCATAAAATATCATCA
* *
973891 TTTAATCACCATTAAATCAGTTTTGAAAAATTCATTTATTATCATGACTTTTTCATTTTTTTCCT
1 TTTAATCACCATTAAATTAGTTTTGAAAAATTCATTTATT-TCATGAGTTTTTCATTTTTTTCCT
*
973956 TAAAATTTTCTTATTTTTGAAAAACCGAGTTTTCTATTCCATAAAAGCTTTTT-AGGGTGTTTTT
65 TAAAATTTTCTTATTTTTGAAAAACCGAGTTTTCTATTCCATAAAAGCTTTTTGAGGGGGTTTTT
* *
974020 CTTGGTGCAAAATTTTTAATATTCATAAAATATCATCG
130 CTTGGTCCAAAATTTTTAATATTCATAAAATATCATCA
* * * * *
974058 TTTAGTTCA-TAGTAAATTAGTTTTGAAGAATTCATTCATGTTCATGAGTTTTTCATTTTTTT-C
1 TTTA-ATCACCATTAAATTAGTTTTGAAAAATTCATTTAT-TTCATGAGTTTTTCATTTTTTTCC
* * * * * *
974121 TTAAAATGTCCCTATTTTCGAAAAACCAAGTTTTCTTTTCCATAAA
64 TTAAAATTTTCTTATTTTTGAAAAACCGAGTTTTCTATTCCATAAA
974167 TATTTTCGAG
Statistics
Matches: 242, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
165 2 0.01
166 91 0.38
167 137 0.57
168 12 0.05
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (167 bp):
TTTAATCACCATTAAATTAGTTTTGAAAAATTCATTTATTTCATGAGTTTTTCATTTTTTTCCTT
AAAATTTTCTTATTTTTGAAAAACCGAGTTTTCTATTCCATAAAAGCTTTTTGAGGGGGTTTTTC
TTGGTCCAAAATTTTTAATATTCATAAAATATCATCA
Done.