Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 93 of 117
Found at i:16713609 original size:4 final size:4
Alignment explanation
Indices: 16713566--16713591 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16713556 ATATCTTAAG
16713566 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
16713592 GCCCTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:16716380 original size:15 final size:15
Alignment explanation
Indices: 16716362--16716419 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
16716352 AACATTTTGG
16716362 GGTTTAGGGTTTCAA
1 GGTTTAGGGTTTCAA
16716377 GGTTTAGGGTTTCAA
1 GGTTTAGGGTTTCAA
* * *
16716392 GATATAAGGTTTCAA
1 GGTTTAGGGTTTCAA
*
16716407 GGTTTAGGTTTTC
1 GGTTTAGGGTTTC
16716420 TCATGTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGTTTCAA
Found at i:16718649 original size:13 final size:13
Alignment explanation
Indices: 16718633--16718667 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16718623 TTTGAAAAGA
*
16718633 TATTTTTTATTAT
1 TATTTTTTACTAT
16718646 TATTTTTTACTAT
1 TATTTTTTACTAT
*
16718659 TTTTTTTTA
1 TATTTTTTA
16718668 ATTTCTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTTTACTAT
Found at i:16718676 original size:23 final size:23
Alignment explanation
Indices: 16718633--16718676 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
16718623 TTTGAAAAGA
*
16718633 TATTTTTTATTATTATTTTTTAC
1 TATTTTTTATTATTATCTTTTAC
*
16718656 TATTTTTTTTTAATT-TCTTTT
1 TATTTTTTATT-ATTATCTTTT
16718677 CACTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (23 bp):
TATTTTTTATTATTATCTTTTAC
Found at i:16720638 original size:88 final size:87
Alignment explanation
Indices: 16720468--16720674 Score: 229
Period size: 88 Copynumber: 2.4 Consensus size: 87
16720458 TTTAGATGTG
* * *** * *
16720468 CAAGAATGGAAGATTTGC-AAGATTTCAAG-TTTCATAGAGGTTCTAGATTTGTAATGGTTTTAG
1 CAAGAATGCAAGA-TT-CAAAGATTTCAAGTTTTCATAGAAGTTCTAGATTCACAAAGGTTTCAG
** * *
16720531 GTTTGCAAGACATTTAAAGATTCA
64 GTTCACAAGAAATTCAAAGATTCA
*
16720555 CAAGAATGCAAGATTCATAAGATTTCAAGTTTTCGTAGAAGTTCTAGATTCACAAAGGTTTCAGG
1 CAAGAATGCAAGATTCA-AAGATTTCAAGTTTTCATAGAAGTTCTAGATTCACAAAGGTTTCAGG
*
16720620 TTCACAAGAAATTCAAAGATTCG
65 TTCACAAGAAATTCAAAGATTCA
* *
16720643 TAAGAATGCAAGATTTGAAAGATTTCAAGTTT
1 CAAGAATGCAAGA-TTCAAAGATTTCAAGTTT
16720675 CACAGAGGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
85 1 0.01
86 2 0.02
87 23 0.23
88 72 0.71
89 3 0.03
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (87 bp):
CAAGAATGCAAGATTCAAAGATTTCAAGTTTTCATAGAAGTTCTAGATTCACAAAGGTTTCAGGT
TCACAAGAAATTCAAAGATTCA
Found at i:16720723 original size:17 final size:17
Alignment explanation
Indices: 16720703--16720757 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
16720693 TGAAGGTTTC
16720703 AGGTTTGCAAGAAATTT
1 AGGTTTGCAAGAAATTT
*
16720720 AGGTTTGCAAGAAGTTT
1 AGGTTTGCAAGAAATTT
* *
16720737 AAAGATTTGCAAGCAATTT
1 --AGGTTTGCAAGAAATTT
16720756 AG
1 AG
16720758 AGATTCACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 18 0.56
19 14 0.44
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (17 bp):
AGGTTTGCAAGAAATTT
Found at i:16720747 original size:19 final size:17
Alignment explanation
Indices: 16720706--16720762 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 17
16720696 AGGTTTCAGG
*
16720706 TTTGCAAGAAATTT-AGG
1 TTTGCAAG-AATTTAAGA
16720723 TTTGCAAGAAGTTTAAAGA
1 TTTGCAAGAA-TTT-AAGA
16720742 TTTGCAAGCAATTTAGAGA
1 TTTGCAAG-AATTTA-AGA
16720761 TT
1 TT
16720763 CACAAAGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.06
17 11 0.32
18 1 0.03
19 18 0.53
20 2 0.06
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (17 bp):
TTTGCAAGAATTTAAGA
Found at i:16720992 original size:31 final size:30
Alignment explanation
Indices: 16720957--16721064 Score: 89
Period size: 30 Copynumber: 3.5 Consensus size: 30
16720947 GTTGAGGTAA
16720957 AAAATGAATGATCTGGATCAAATCATGAGTC
1 AAAATG-ATGATCTGGATCAAATCATGAGTC
*
16720988 AAAATGATGATTTGGA-CTAAA-C-TGAGATC
1 AAAATGATGATCTGGATC-AAATCATGAG-TC
* * *
16721017 AATAATGAATGAACAT-GATCAAATTACGAGTC
1 AA-AATG-ATGATC-TGGATCAAATCATGAGTC
*
16721049 AAAAAGATGATCTGGA
1 AAAATGATGATCTGGA
16721065 CTGAGTCGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
28 4 0.07
29 7 0.11
30 23 0.38
31 18 0.30
32 6 0.10
33 3 0.05
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (30 bp):
AAAATGATGATCTGGATCAAATCATGAGTC
Found at i:16721103 original size:61 final size:60
Alignment explanation
Indices: 16720945--16721118 Score: 161
Period size: 61 Copynumber: 2.9 Consensus size: 60
16720935 TGACAAGATC
* * ** * * *
16720945 GAGTTGAGGTAAAAAATGAATGATCTGGATCAAATCATGAGTCAAAATGATGATTTGGACT
1 GAGTCGAGATAAAAAATGAATGATCAAGATCAAATTA-GAGTCAAAAAGATGATCTGGACT
** * * * *
16721006 -AAACTGAGATCAATAATGAATGAACATGATCAAATTACGAGTCAAAAAGATGATCTGGACT
1 GAGTC-GAGATAAAAAATGAATGATCAAGATCAAATTA-GAGTCAAAAAGATGATCTGGACT
** *
16721067 GAGTCGAGATAAAAAATGAATGATCAAGATTGAATTATAGGTCAAAAAGATG
1 GAGTCGAGATAAAAAATGAATGATCAAGATCAAATTAGA-GTCAAAAAGATG
16721119 CTTTGGATTA
Statistics
Matches: 88, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
60 2 0.02
61 84 0.95
62 2 0.02
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (60 bp):
GAGTCGAGATAAAAAATGAATGATCAAGATCAAATTAGAGTCAAAAAGATGATCTGGACT
Found at i:16721220 original size:21 final size:23
Alignment explanation
Indices: 16721174--16721221 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
16721164 ATAATGCAAC
*
16721174 GATGCAAATGCATATCCTATCTAG
1 GATGCAAATGCATAT-CTATCAAG
16721198 GATGCAAATGCA-AT-TATCAAG
1 GATGCAAATGCATATCTATCAAG
16721219 GAT
1 GAT
16721222 TTAAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
23 2 0.09
24 12 0.52
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (23 bp):
GATGCAAATGCATATCTATCAAG
Found at i:16721946 original size:16 final size:15
Alignment explanation
Indices: 16721927--16721978 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
16721917 TCTCTTTTTG
16721927 TTTTTATTTTTTATTT
1 TTTTTA-TTTTTATTT
* *
16721943 TTTTTAGTTTTACTAT
1 TTTTTATTTTTA-TTT
16721959 TTTTTAGTTTTT-TTT
1 TTTTTA-TTTTTATTT
16721974 TTTTT
1 TTTTT
16721979 GCACACCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 12 0.40
16 14 0.47
17 4 0.13
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:16726402 original size:17 final size:18
Alignment explanation
Indices: 16726377--16726410 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16726367 TCTTTCTGCT
16726377 CCTTGTCTTC-CTCTTTC
1 CCTTGTCTTCTCTCTTTC
*
16726394 CCTTTTCTTCTCTCTTT
1 CCTTGTCTTCTCTCTTT
16726411 TAGATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.00, C:0.38, G:0.03, T:0.59
Consensus pattern (18 bp):
CCTTGTCTTCTCTCTTTC
Found at i:16736173 original size:15 final size:15
Alignment explanation
Indices: 16736129--16736173 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
16736119 TCCTTAACTT
*
16736129 TAAACCCTAAAACCT
1 TAAACCCTAAAACCA
*
16736144 TAAACCTTAAAACCA
1 TAAACCCTAAAACCA
16736159 TAAACCCTAAAACCA
1 TAAACCCTAAAACCA
16736174 ATCCTGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAACCCTAAAACCA
Found at i:16738491 original size:18 final size:18
Alignment explanation
Indices: 16738455--16738543 Score: 85
Period size: 18 Copynumber: 4.9 Consensus size: 18
16738445 CAAAAGAAAA
16738455 CTTTCTTTTTCTCTCTTTTTC
1 CTTT-TTTTTCT-T-TTTTTC
16738476 CTTTTTTTTCTTTTTTTC
1 CTTTTTTTTCTTTTTTTC
* *
16738494 C--TTTCTTATTTTTTTC
1 CTTTTTTTTCTTTTTTTC
* *
16738510 CTTTTTCTT-TTTTCTTC
1 CTTTTTTTTCTTTTTTTC
16738527 CATTTTTTTTCTTTTTT
1 C-TTTTTTTTCTTTTTT
16738544 GCTTTCCAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
16 14 0.24
17 8 0.14
18 20 0.34
19 6 0.10
20 7 0.12
21 4 0.07
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (18 bp):
CTTTTTTTTCTTTTTTTC
Found at i:16738505 original size:16 final size:15
Alignment explanation
Indices: 16738480--16738522 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
16738470 TTTTTCCTTT
*
16738480 TTTTTCTTTTTTTCC
1 TTTTTATTTTTTTCC
16738495 TTTCTTATTTTTTTCC
1 TTT-TTATTTTTTTCC
*
16738511 TTTTTCTTTTTT
1 TTTTTATTTTTT
16738523 CTTCCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTATTTTTTTCC
Found at i:16738520 original size:29 final size:29
Alignment explanation
Indices: 16738488--16738548 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
16738478 TTTTTTTCTT
* *
16738488 TTTTTCCTTTCTTATTTTTTTCCTTTTT-C
1 TTTTTCCTTCCAT-TTTTTTTCCTTTTTGC
* *
16738517 TTTTTTCTTCCATTTTTTTTCTTTTTTGC
1 TTTTTCCTTCCATTTTTTTTCCTTTTTGC
16738546 TTT
1 TTT
16738549 CCAAGCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (29 bp):
TTTTTCCTTCCATTTTTTTTCCTTTTTGC
Found at i:16743132 original size:17 final size:17
Alignment explanation
Indices: 16743110--16743143 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16743100 AGTATCAAGA
*
16743110 ATTATTTCTTTCAAAAT
1 ATTATTTATTTCAAAAT
16743127 ATTATTTATTTCAAAAT
1 ATTATTTATTTCAAAAT
16743144 CTATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATTTATTTCAAAAT
Found at i:16743674 original size:15 final size:15
Alignment explanation
Indices: 16743627--16743713 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 15
16743617 GGGTTTTGGA
* *
16743627 GTTTAAGGTTTTAGG
1 GTTTAAGGTTTCAAG
* *
16743642 GTTTCAAGATTT-ATG
1 GTTT-AAGGTTTCAAG
16743657 GTTTAAGGTTTCAAG
1 GTTTAAGGTTTCAAG
* * **
16743672 GTTTAGGGCTTCGGG
1 GTTTAAGGTTTCAAG
*
16743687 GTTTAGGGTTTCAAG
1 GTTTAAGGTTTCAAG
*
16743702 ATTTCAAGGTTT
1 GTTT-AAGGTTT
16743714 GGGTTTTTTC
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
14 6 0.11
15 38 0.68
16 12 0.21
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.43
Consensus pattern (15 bp):
GTTTAAGGTTTCAAG
Found at i:16744964 original size:20 final size:20
Alignment explanation
Indices: 16744916--16744970 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
16744906 CTTTTCTCCC
*
16744916 CTTTTATTCCCTTTTTTTTT
1 CTTTTTTTCCCTTTTTTTTT
***
16744936 CTACCTTTCCCTTTTTTTTT
1 CTTTTTTTCCCTTTTTTTTT
*
16744956 CTTTTTTTCTCTTTT
1 CTTTTTTTCCCTTTT
16744971 CCATCCAACA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTTTTTTCCCTTTTTTTTT
Found at i:16745525 original size:145 final size:143
Alignment explanation
Indices: 16745300--16745632 Score: 356
Period size: 145 Copynumber: 2.3 Consensus size: 143
16745290 GATTTTAACA
* * * *
16745300 CACCAAAAATCCTAAAATAATATGAAAACATGATATGAAAGTTTTCGTGAAAAACTAACCTCAAA
1 CACCAAAAATCATAAAATAATATGAAAATATGATATGAAAGTTTTTGTGAAAAACGAA-CTCAAA
*
16745365 AAGGTCAAATTATGAAAATA-CCTTTAAA-AAGGCATTTT-AGTAATTTCACACCTTTTAAGGTG
65 AAGGTCAAATAATGAAAATATCC-TTAAAGAA--CATTTTGA-TAATTTCACACCTTTTAAGGTG
* *
16745427 CTATCATGGT-TTTCAATG
126 CAATCAAGGTGTTT-AATG
* * *
16745445 CACCAAAAATCATAAAATAATATAAAAATATGATTTGAAAGTTTTTGTGAAAAATCGATA-TCGA
1 CACCAAAAATCATAAAATAATATGAAAATATGATATGAAAGTTTTTGTGAAAAA-CGA-ACTCAA
* * * * * *
16745509 GAAGGTCAAATAATGAAAATATCCTTAAAGAATATTTTGATAATTTTATACTTTTTGAGGTGCAA
64 AAAGGTCAAATAATGAAAATATCCTTAAAGAACATTTTGATAATTTCACACCTTTTAAGGTGCAA
16745574 TCAAGGTGTTTAATG
129 TCAAGGTGTTTAATG
* * * * *
16745589 -TCCATAAGTTATAAAATAATATGAAAATATGATCT-AAAGTTTTT
1 CACCAAAAATCATAAAATAATATGAAAATATGATATGAAAGTTTTT
16745633 CAAAAAAATT
Statistics
Matches: 160, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
142 9 0.06
143 29 0.18
144 35 0.22
145 80 0.50
146 6 0.04
147 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (143 bp):
CACCAAAAATCATAAAATAATATGAAAATATGATATGAAAGTTTTTGTGAAAAACGAACTCAAAA
AGGTCAAATAATGAAAATATCCTTAAAGAACATTTTGATAATTTCACACCTTTTAAGGTGCAATC
AAGGTGTTTAATG
Found at i:16748219 original size:16 final size:16
Alignment explanation
Indices: 16748177--16748220 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
16748167 ATTTTTTTAC
*
16748177 TTTTAAATATATTTTAA
1 TTTTAAAT-TATTTAAA
*
16748194 TTTGTTAATTATTTAAA
1 TTT-TAAATTATTTAAA
16748211 TTTTAAATTA
1 TTTTAAATTA
16748221 GGATAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.26
17 13 0.57
18 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTAAATTATTTAAA
Found at i:16748517 original size:39 final size:36
Alignment explanation
Indices: 16748458--16748532 Score: 123
Period size: 39 Copynumber: 2.0 Consensus size: 36
16748448 TAAAATATAT
16748458 TAAAATTTTAAAAAATAAAAATTATTTCAAAGATGA
1 TAAAATTTTAAAAAATAAAAATTATTTCAAAGATGA
16748494 TAAAATTTTGAAAATAAATAAAAATTATTTCAAAGATGA
1 TAAAATTTT--AAA-AAATAAAAATTATTTCAAAGATGA
16748533 AATTCATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 9 0.25
38 3 0.08
39 24 0.67
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (36 bp):
TAAAATTTTAAAAAATAAAAATTATTTCAAAGATGA
Found at i:16756491 original size:22 final size:23
Alignment explanation
Indices: 16756460--16756514 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
16756450 GGTTTAGGTA
*
16756460 ATTTAGGGTTTTAGGG-CTTAGG
1 ATTTAAGGTTTTAGGGTCTTAGG
*
16756482 -TTTCAAGG-TTTAGGGTTTTAGG
1 ATTT-AAGGTTTTAGGGTCTTAGG
16756504 ATTTAAGGTTT
1 ATTTAAGGTTT
16756515 CAAAGTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 10 0.37
22 12 0.44
23 5 0.19
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.45
Consensus pattern (23 bp):
ATTTAAGGTTTTAGGGTCTTAGG
Found at i:16756508 original size:15 final size:15
Alignment explanation
Indices: 16756460--16756514 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
16756450 GGTTTAGGTA
16756460 ATTTAGGGTTTTAGG
1 ATTTAGGGTTTTAGG
** *
16756475 GCTTA-GGTTTCAAGG
1 ATTTAGGGTTT-TAGG
16756490 -TTTAGGGTTTTAGG
1 ATTTAGGGTTTTAGG
*
16756504 ATTTAAGGTTT
1 ATTTAGGGTTT
16756515 CAAAGTTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.45
Consensus pattern (15 bp):
ATTTAGGGTTTTAGG
Found at i:16756799 original size:3 final size:3
Alignment explanation
Indices: 16756791--16756831 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
16756781 AATGAGCACT
* * *
16756791 ATG ATG ATG ATA ATG ATA ATG ATG ATA ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
16756832 AATATTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:16756812 original size:15 final size:15
Alignment explanation
Indices: 16756794--16756834 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
16756784 GAGCACTATG
16756794 ATGATGATAATGATA
1 ATGATGATAATGATA
*
16756809 ATGATGATAATGATG
1 ATGATGATAATGATA
16756824 ATGATGATAAT
1 ATGATGATAAT
16756835 ATTAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (15 bp):
ATGATGATAATGATA
Found at i:16756847 original size:3 final size:3
Alignment explanation
Indices: 16756841--16756869 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16756831 TAATATTAAA
16756841 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
16756870 TACTGAATGT
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:16758477 original size:144 final size:144
Alignment explanation
Indices: 16758239--16758714 Score: 332
Period size: 144 Copynumber: 3.3 Consensus size: 144
16758229 TTGGGAAGGC
* * * * * * * *
16758239 CAAATTATGAAAATACCTTTAAAAAGGCATTTTGGTAGTTTTACACCTTACAAGGTGCTATCAGG
1 CAAATTATAAAAATATCTCT-AAAAGGTATTTTGGTAATTTGACACCTTACAAGATGCAATCAGG
* * * ***
16758304 ATTTTCAATGCATCAAAAATCATGAAATAATATAAAAACATAATTTGAAAGTTTTTGTGAAAAAT
65 ATTTTCAATACACCAAAAATCATAAAATAATATAAAAACATAATTT-AAAGTTTTTCACAAAAAT
* **
16758369 T-GACCTTGTGAAGAT
129 TCAACCTTGAAAAGAT
* * * *
16758384 CAAATTATAAAAATATCTCTAAAAGTTATTTTGGTAATTTGACACCTTTCGAGATGCAATCAGGG
1 CAAATTATAAAAATATCTCTAAAAGGTATTTTGGTAATTTGACACCTTACAAGATGCAATCAGGA
* * * * * * *
16758449 TTTTTAATATACCATAAATCATAAAATAATATGAAAATATGATTTAGAGTTTTTCACAAAAATTC
66 TTTTCAATACACCAAAAATCATAAAATAATATAAAAACATAATTTAAAGTTTTTCACAAAAATTC
*
16758514 AACCTTGAAAAGGT
131 AACCTTGAAAAGAT
* * *** * **
16758528 CAAATTATGAAAAAAAAATC-CTAATAGGTATTTTGGTAATTTTTTACCTTTCAAGATGTGATCT
1 CAAATTAT---AAAAATATCTCTAAAAGGTATTTTGGTAATTTGACACCTTACAAGATGCAATC-
* * * * * * * ** * **
16758592 AGG-TATTT-AATGCATCAAAAATAATGAAATAATATAAAAATATGATATGGAGTCTTTCATGAA
62 AGGAT-TTTCAATACACCAAAAATCATAAAATAATATAAAAACATAATTTAAAGTTTTTCACAAA
* **
16758655 AATTCGACCTCAAAAAGAT
126 AATTCAACCTTGAAAAGAT
* ** *
16758674 CAAAATTACAAAAATATC-CCCAAAGGTGATTTTGATAATTT
1 C-AAATTATAAAAATATCTCTAAAAGGT-ATTTTGGTAATTT
16758715 TACATTTTTT
Statistics
Matches: 263, Mismatches: 60, Indels: 16
0.78 0.18 0.05
Matches are distributed among these distances:
143 15 0.06
144 104 0.40
145 29 0.11
146 95 0.36
147 20 0.08
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (144 bp):
CAAATTATAAAAATATCTCTAAAAGGTATTTTGGTAATTTGACACCTTACAAGATGCAATCAGGA
TTTTCAATACACCAAAAATCATAAAATAATATAAAAACATAATTTAAAGTTTTTCACAAAAATTC
AACCTTGAAAAGAT
Found at i:16758601 original size:146 final size:147
Alignment explanation
Indices: 16758260--16758664 Score: 320
Period size: 146 Copynumber: 2.8 Consensus size: 147
16758250 AATACCTTTA
* * * * * * * * *
16758260 AAAAGGCATTTTGGTAGTTTTACACCTTACAAGGTGCTATCAGGAT-TTTCAATGCATCAAAAAT
1 AAAAGGTATTTTGGTAATTTGACACCTTTCAAGATGCAATCAGGGTATTT-AATACACCAAAAAT
* * * * * * * *** * ** *
16758324 CATGAAATAATATAAAAACATAATTTGAAAGTTTTTGTGAAAAATT-GACCTTGTGAAGATCAAA
65 AATAAAATAATATAAAAATATGATAT-AGAGTCTTTCACAAAAATTCAACCTTGAAAAGGTCAAA
*
16758388 TTAT---AAAAATATCTCT
129 TTATGAAAAAAAAATCTCT
* * * * * *
16758404 AAAAGTTATTTTGGTAATTTGACACCTTTCGAGATGCAATCAGGGTTTTTAATATACCATAAATC
1 AAAAGGTATTTTGGTAATTTGACACCTTTCAAGATGCAATCAGGGTATTTAATACACCAAAAATA
* * *
16758469 ATAAAATAATATGAAAATATGATTTAGAGTTTTTCACAAAAATTCAACCTTGAAAAGGTCAAATT
66 ATAAAATAATATAAAAATATGATATAGAGTCTTTCACAAAAATTCAACCTTGAAAAGGTCAAATT
16758534 ATGAAAAAAAAATC-CT
131 ATGAAAAAAAAATCTCT
* *** ** * *
16758550 AATAGGTATTTTGGTAATTTTTTACCTTTCAAGATGTGATCTA-GGTATTTAATGCATCAAAAAT
1 AAAAGGTATTTTGGTAATTTGACACCTTTCAAGATGCAATC-AGGGTATTTAATACACCAAAAAT
* * ** *
16758614 AATGAAATAATATAAAAATATGATATGGAGTCTTTCATGAAAATTCGACCT
65 AATAAAATAATATAAAAATATGATATAGAGTCTTTCACAAAAATTCAACCT
16758665 CAAAAAGATC
Statistics
Matches: 207, Mismatches: 48, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
143 15 0.07
144 87 0.42
145 3 0.01
146 93 0.45
147 9 0.04
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (147 bp):
AAAAGGTATTTTGGTAATTTGACACCTTTCAAGATGCAATCAGGGTATTTAATACACCAAAAATA
ATAAAATAATATAAAAATATGATATAGAGTCTTTCACAAAAATTCAACCTTGAAAAGGTCAAATT
ATGAAAAAAAAATCTCT
Found at i:16760867 original size:2 final size:2
Alignment explanation
Indices: 16760860--16760926 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
16760850 TTGAGTCTTT
*
16760860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA 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
*
16760902 TA TA TA AA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16760927 CCTTTCTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16763363 original size:25 final size:24
Alignment explanation
Indices: 16763334--16763386 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
16763324 GTTTTAATTC
16763334 ATTTAAATTCT-GTTTGCATAATTTA
1 ATTTAAATTCTGGTTTGC-T-ATTTA
*
16763359 ATTT-AATTTTGGTTTGCTATTTA
1 ATTTAAATTCTGGTTTGCTATTTA
16763382 ATTTA
1 ATTTA
16763387 GATTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 9 0.36
24 6 0.24
25 10 0.40
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (24 bp):
ATTTAAATTCTGGTTTGCTATTTA
Found at i:16763366 original size:24 final size:23
Alignment explanation
Indices: 16763334--16763386 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 23
16763324 GTTTTAATTC
16763334 ATTTAAATTCT-GTTTGCATAATTTA
1 ATTT-AATTCTGGTTTGC-T-ATTTA
*
16763359 ATTTAATTTTGGTTTGCTATTTA
1 ATTTAATTCTGGTTTGCTATTTA
16763382 ATTTA
1 ATTTA
16763387 GATTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 10 0.38
24 6 0.23
25 10 0.38
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (23 bp):
ATTTAATTCTGGTTTGCTATTTA
Found at i:16763384 original size:23 final size:26
Alignment explanation
Indices: 16763345--16763392 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 26
16763335 TTTAAATTCT
16763345 GTTTGCATAATTTAATTTA-ATTTTG
1 GTTTGCATAATTTAATTTAGATTTTG
16763370 GTTTGC-T-ATTTAATTTAGATTTT
1 GTTTGCATAATTTAATTTAGATTTT
16763393 TAATTTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 6 0.27
25 6 0.27
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.58
Consensus pattern (26 bp):
GTTTGCATAATTTAATTTAGATTTTG
Found at i:16768211 original size:6 final size:6
Alignment explanation
Indices: 16768200--16768302 Score: 70
Period size: 6 Copynumber: 17.2 Consensus size: 6
16768190 TATTCATTCA
* * *
16768200 TTTCTT TTTCTTT TATTCTT ATTCTT ATTCTT TTTCTCT TTT-TCT TTTGTT
1 TTTCTT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCT-T TTTCT-T TTTCTT
** * * *
16768251 TTTC-T TTT-TT TTTCTT TTTCTT TCACTT TCTCAT TTT-TT TTACTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
16768296 TTTCTT T
1 TTTCTT T
16768303 GAATGGATTC
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
5 11 0.14
6 55 0.70
7 10 0.13
8 3 0.04
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:16768218 original size:14 final size:14
Alignment explanation
Indices: 16768201--16768247 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
16768191 ATTCATTCAT
16768201 TTCTTTTTCTTTTA
1 TTCTTTTTCTTTTA
*
16768215 TTCTTATTC--TTA
1 TTCTTTTTCTTTTA
16768227 TTCTTTTTCTCTTT-
1 TTCTTTTTCT-TTTA
16768241 TTCTTTT
1 TTCTTTT
16768248 GTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 11 0.39
14 15 0.54
15 2 0.07
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (14 bp):
TTCTTTTTCTTTTA
Found at i:16768262 original size:10 final size:10
Alignment explanation
Indices: 16768238--16768274 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
16768228 TCTTTTTCTC
16768238 TTTTTCTTTT
1 TTTTTCTTTT
16768248 GTTTTTCTTTT
1 -TTTTTCTTTT
16768259 TTTTTCTTTT
1 TTTTTCTTTT
*
16768269 TCTTTC
1 TTTTTC
16768275 ACTTTCTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:16768274 original size:20 final size:19
Alignment explanation
Indices: 16768200--16768273 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
16768190 TATTCATTCA
16768200 TTTCTTTTTCTTTTATTCTT
1 TTTCTTTTTCTTTT-TTCTT
* *
16768220 ATTCTTATTCTTTTTCTCTT
1 TTTCTTTTTCTTTTT-TCTT
* *
16768240 TTTCTTTTGTTTTTCTTTTTT
1 TTTCTTTT-TCTTT-TTTCTT
16768261 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
16768274 CACTTTCTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 26 0.59
21 15 0.34
22 2 0.05
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.80
Consensus pattern (19 bp):
TTTCTTTTTCTTTTTTCTT
Found at i:16768287 original size:29 final size:28
Alignment explanation
Indices: 16768238--16768302 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
16768228 TCTTTTTCTC
** *
16768238 TTTTTCTTTTGTTTTTC-TTTTTTTTTC
1 TTTTTCTTTACTTTCTCATTTTTTTTTC
*
16768265 TTTTTCTTTCACTTTCTCATTTTTTTTAC
1 TTTTTCTTT-ACTTTCTCATTTTTTTTTC
16768294 TTTTTCTTT
1 TTTTTCTTT
16768303 GAATGGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 9 0.28
28 5 0.16
29 18 0.56
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (28 bp):
TTTTTCTTTACTTTCTCATTTTTTTTTC
Found at i:16768715 original size:29 final size:31
Alignment explanation
Indices: 16768682--16768758 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 31
16768672 ACAATAAAAT
*
16768682 TTTTCTTTCTTTTTTCTTTTCA-A-TTTTTC
1 TTTTCTTTCTTTTTTCTTCTCATATTTTTTC
16768711 TTTTCATTTCTTTTTGTTCTTCTCATATTTTTTC
1 TTTTC-TTTC-TTTT-TTCTTCTCATATTTTTTC
*
16768745 TCTTCTTT-TTTTTT
1 TTTTCTTTCTTTTTT
16768759 ATGTCCTCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 5 0.12
30 6 0.15
31 8 0.20
32 8 0.20
33 4 0.10
34 10 0.24
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.75
Consensus pattern (31 bp):
TTTTCTTTCTTTTTTCTTCTCATATTTTTTC
Found at i:16768719 original size:12 final size:12
Alignment explanation
Indices: 16768680--16768719 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 12
16768670 TCACAATAAA
16768680 ATTTTTC-TTTC
1 ATTTTTCTTTTC
*
16768691 TTTTTTCTTTTC
1 ATTTTTCTTTTC
16768703 AATTTTTCTTTTC
1 -ATTTTTCTTTTC
16768716 ATTT
1 ATTT
16768720 CTTTTTGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 8 0.32
13 11 0.44
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTTTCTTTTC
Found at i:16768725 original size:24 final size:24
Alignment explanation
Indices: 16768679--16768725 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16768669 GTCACAATAA
* *
16768679 AATTTTTCTTTCTTTTTTCTTTTC
1 AATTTTTCTTTCATTTCTCTTTTC
16768703 AATTTTTCTTTTCATTTCT-TTTT
1 AATTTTTC-TTTCATTTCTCTTTT
16768726 GTTCTTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (24 bp):
AATTTTTCTTTCATTTCTCTTTTC
Found at i:16768743 original size:34 final size:30
Alignment explanation
Indices: 16768682--16768758 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 30
16768672 ACAATAAAAT
*
16768682 TTTTCTTTC-TTTTTTCTTTTCAATTTTTC
1 TTTTCTTTCTTTTTTTCTTCTCAATTTTTC
16768711 TTTTCATTTCTTTTTGTTCTTCTCATATTTTTTC
1 TTTTC-TTTCTTTTT-TTCTTCTCA-A-TTTTTC
*
16768745 TCTTCTTT-TTTTTT
1 TTTTCTTTCTTTTTT
16768759 ATGTCCTCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 5 0.12
30 4 0.10
31 5 0.12
32 13 0.32
33 4 0.10
34 10 0.24
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.75
Consensus pattern (30 bp):
TTTTCTTTCTTTTTTTCTTCTCAATTTTTC
Found at i:16769424 original size:11 final size:10
Alignment explanation
Indices: 16769395--16769470 Score: 57
Period size: 10 Copynumber: 7.4 Consensus size: 10
16769385 CAAAAGAAAA
16769395 CTTTCTGTTT-
1 CTTTCT-TTTC
*
16769405 CTCTCTTTTCC
1 CTTTCTTTT-C
16769416 CTTTCTTTTC
1 CTTTCTTTTC
*
16769426 CTTTTTTTTC
1 CTTTCTTTTC
16769436 CTTTC-TTTC
1 CTTTCTTTTC
* *
16769445 TTTTTTTTTTC
1 -CTTTCTTTTC
*
16769456 CTTTTTCTTTC
1 CTTTCT-TTTC
16769467 CTTT
1 CTTT
16769471 TTCTTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
9 7 0.13
10 27 0.50
11 20 0.37
ACGTcount: A:0.00, C:0.26, G:0.01, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTC
Found at i:16769433 original size:20 final size:20
Alignment explanation
Indices: 16769410--16769491 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
16769400 TGTTTCTCTC
*
16769410 TTTTCCCTTTCTTTTCCTTT
1 TTTTTCCTTTCTTTTCCTTT
*
16769430 TTTTTCCTTTC-TTTCTTTTT
1 TTTTTCCTTTCTTTTC-CTTT
*
16769450 TTTTTCCTTTTTCTTTCCTTT
1 TTTTTCCTTTCT-TTTCCTTT
* *
16769471 TTCTT--TTTCTTCTCCTTT
1 TTTTTCCTTTCTTTTCCTTT
16769489 TTT
1 TTT
16769492 CTTTCCAGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.18
19 8 0.16
20 23 0.45
21 7 0.14
22 4 0.08
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTCCTTTCTTTTCCTTT
Found at i:16769455 original size:41 final size:42
Alignment explanation
Indices: 16769410--16769497 Score: 103
Period size: 41 Copynumber: 2.1 Consensus size: 42
16769400 TGTTTCTCTC
*
16769410 TTTTCCCTTTCT-TTTCCTTTTTTTTCCTTTCTT-T-CTTTTTT
1 TTTTCCCTTTCTCTTTCCTTTTTCTT--TTTCTTCTCCTTTTTT
*
16769451 TTTT-CCTTTTTCTTTCCTTTTTCTTTTTCTTCTCCTTTTTT
1 TTTTCCCTTTCTCTTTCCTTTTTCTTTTTCTTCTCCTTTTTT
*
16769492 CTTTCC
1 TTTTCC
16769498 AGGTTTTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
39 6 0.15
40 7 0.17
41 26 0.65
42 1 0.03
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (42 bp):
TTTTCCCTTTCTCTTTCCTTTTTCTTTTTCTTCTCCTTTTTT
Found at i:16769462 original size:18 final size:18
Alignment explanation
Indices: 16769427--16769481 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
16769417 TTTCTTTTCC
16769427 TTTTTTTTCCTTTCTTTCTT
1 TTTTTTTTCC-TT-TTTCTT
16769447 TTTTTTTTCCTTTTTCTT
1 TTTTTTTTCCTTTTTCTT
**
16769465 TCCTTTTT-CTTTTTCTT
1 TTTTTTTTCCTTTTTCTT
16769482 CTCCTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 9 0.27
18 12 0.36
19 2 0.06
20 10 0.30
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTTCCTTTTTCTT
Found at i:16769471 original size:11 final size:11
Alignment explanation
Indices: 16769417--16769476 Score: 72
Period size: 11 Copynumber: 5.6 Consensus size: 11
16769407 CTCTTTTCCC
16769417 TTTCTTTTCCTT
1 TTTC-TTTCCTT
16769429 TTT-TTTCC--
1 TTTCTTTCCTT
*
16769437 TTTCTTTCTTT
1 TTTCTTTCCTT
*
16769448 TTTTTTTCCTT
1 TTTCTTTCCTT
16769459 TTTCTTTCCTT
1 TTTCTTTCCTT
16769470 TTTCTTT
1 TTTCTTT
16769477 TTCTTCTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 3 0.07
9 4 0.10
10 5 0.12
11 26 0.63
12 3 0.07
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTCCTT
Found at i:16769486 original size:18 final size:18
Alignment explanation
Indices: 16769449--16769495 Score: 69
Period size: 17 Copynumber: 2.6 Consensus size: 18
16769439 TCTTTCTTTT
16769449 TTTTTTCCTTTTTCTTTCC
1 TTTTTT-CTTTTTCTTTCC
16769468 -TTTTTCTTTTTCTTCTCC
1 TTTTTTCTTTTTCTT-TCC
16769486 TTTTTTCTTT
1 TTTTTTCTTT
16769496 CCAGGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.35
18 8 0.31
19 9 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCTTTTTCTTTCC
Found at i:16769493 original size:30 final size:30
Alignment explanation
Indices: 16769417--16769512 Score: 115
Period size: 30 Copynumber: 3.1 Consensus size: 30
16769407 CTCTTTTCCC
*
16769417 TTTCTTTTCCTTTTT-TTTCCTTTCTTTCTT
1 TTTCTTTTCCTTTTTCTTTCCGTT-TTTCTT
*
16769447 TTTTTTTTCCTTTTTCTTTCC-TTTTTCTT
1 TTTCTTTTCCTTTTTCTTTCCGTTTTTCTT
*
16769476 TTTCTTCTCCTTTTTTCTTTCCAGGTTTTTCTT
1 TTTCTTTTCC-TTTTTCTTTCC--GTTTTTCTT
16769509 TTTC
1 TTTC
16769513 ATGATTTTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
29 14 0.24
30 27 0.47
31 5 0.09
33 12 0.21
ACGTcount: A:0.01, C:0.23, G:0.02, T:0.74
Consensus pattern (30 bp):
TTTCTTTTCCTTTTTCTTTCCGTTTTTCTT
Found at i:16769496 original size:17 final size:17
Alignment explanation
Indices: 16769439--16769496 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
16769429 TTTTTTCCTT
**
16769439 TCTTTCTTTTTTTTTTCC
1 TCTTTCTTTCCTTTTT-C
*
16769457 TTTTTCTTTCCTTTTTC
1 TCTTTCTTTCCTTTTTC
*
16769474 TTTTTCTTCTCCTTTTT-
1 TCTTTCTT-TCCTTTTTC
16769491 TCTTTC
1 TCTTTC
16769497 CAGGTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.40
18 21 0.60
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTCTTTCCTTTTTC
Found at i:16774601 original size:15 final size:15
Alignment explanation
Indices: 16774581--16774634 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
16774571 GGTTTAGGTA
16774581 ATTTAAGGTTTTGAG
1 ATTTAAGGTTTTGAG
16774596 ATTTAAGGTTTATG-G
1 ATTTAAGGTTT-TGAG
*
16774611 -TTTAAGGTTTTAAG
1 ATTTAAGGTTTTGAG
*
16774625 GTTTAAGGTT
1 ATTTAAGGTT
16774635 ACAATTTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
13 1 0.03
14 11 0.31
15 21 0.60
16 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (15 bp):
ATTTAAGGTTTTGAG
Found at i:16774612 original size:7 final size:7
Alignment explanation
Indices: 16774582--16774634 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
16774572 GTTTAGGTAA
16774582 TTTAAGG
1 TTTAAGG
* *
16774589 TTTTGAGA
1 -TTTAAGG
16774597 TTTAAGG
1 TTTAAGG
*
16774604 TTTATGG
1 TTTAAGG
16774611 TTTAAGG
1 TTTAAGG
16774618 TTTTAAGG
1 -TTTAAGG
16774626 TTTAAGG
1 TTTAAGG
16774633 TT
1 TT
16774635 ACAATTTTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 26 0.68
8 12 0.32
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:16774976 original size:3 final size:3
Alignment explanation
Indices: 16774970--16774996 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16774960 GTAGTAGTAG
16774970 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
16774997 ATGTGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16775073 original size:16 final size:16
Alignment explanation
Indices: 16775052--16775084 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16775042 ATATAACTAA
*
16775052 ATGTAAACTATAAAAT
1 ATGTAAACTAAAAAAT
16775068 ATGTAAACTAAAAAAT
1 ATGTAAACTAAAAAAT
16775084 A
1 A
16775085 AATTTAGTAT
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:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
ATGTAAACTAAAAAAT
Found at i:16775992 original size:1 final size:1
Alignment explanation
Indices: 16775986--16776017 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
16775976 CTTTTATTCC
*
16775986 TTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16776018 GCTCTCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:16776004 original size:16 final size:16
Alignment explanation
Indices: 16775985--16776016 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16775975 CCTTTTATTC
16775985 CTTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTTTT
16776001 CTTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTTTT
16776017 TGCTCTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (16 bp):
CTTTTTTTTTTTTTTT
Found at i:16779310 original size:19 final size:18
Alignment explanation
Indices: 16779286--16779324 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16779276 ATAATTCTTT
16779286 AAATTTAAAAAATATAATA
1 AAATTTAAAAAATA-AATA
**
16779305 AAATTTTGAAAATAAATA
1 AAATTTAAAAAATAAATA
16779323 AA
1 AA
16779325 TATATTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTTAAAAAATAAATA
Found at i:16779663 original size:185 final size:181
Alignment explanation
Indices: 16779294--16779665 Score: 399
Period size: 185 Copynumber: 2.0 Consensus size: 181
16779284 TTAAATTTAA
* * * *
16779294 AAAATATAATAAAATTTTGAAAATAAATAAATATATTCCAATGATGAAATTTTAATAATCAAAAT
1 AAAATATAATAAAATTTTGAAAATAAATAAAAATATTCCAATGATAAAATTATAAAAATCAAAAT
* * * * * ** *
16779359 AGTTGATTTTCTAAGAAACTTCTATATAAGACATTTTTACAATTTTACCCAAATTAAGGAAAATT
66 AATTGATTTTCTAAGAAAATTCTATATAAGAAATTTTTAAAATTTGACCCAAATTAAAAAAAAAT
** *
16779424 TTAGAAAAAAAATCAATAATGATAATTGTTATTAATTTTTGAGCCAAAAAT
131 TTAGAAAAAAAATCAATAATGATAATTGACATTAATTTTTCAGCCAAAAAT
* * *
16779475 AAAATATATTAAAATTTTGAAATTAAATAAAAATAATTTCGAA-GATAAAATTCATAAAAATCAT
1 AAAATATAATAAAATTTTGAAAATAAATAAAAAT-A-TTCCAATGATAAAATT-ATAAAAATCA-
* * *
16779539 GAATAATTGATTTTCTACGAAAATTTTATATAA-AAATGTTTTTAAAATTTGACCCAAATTATAA
62 AAATAATTGATTTTCTAAGAAAATTCTATATAAGAAA--TTTTTAAAATTTGACCCAAATTA-AA
* *** * * * *
16779603 AAAAAATTTAGATAAAGTTTTAATAATGATAATTGACATTTA-TTTTCAGGCAATAAT
124 AAAAAATTTAGAAAAAAAATCAATAATGATAATTGACATTAATTTTTCAGCCAAAAAT
16779660 AAAATA
1 AAAATA
16779666 AAAGTGAGAA
Statistics
Matches: 155, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
181 31 0.20
182 9 0.06
183 15 0.10
184 28 0.18
185 39 0.25
186 33 0.21
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (181 bp):
AAAATATAATAAAATTTTGAAAATAAATAAAAATATTCCAATGATAAAATTATAAAAATCAAAAT
AATTGATTTTCTAAGAAAATTCTATATAAGAAATTTTTAAAATTTGACCCAAATTAAAAAAAAAT
TTAGAAAAAAAATCAATAATGATAATTGACATTAATTTTTCAGCCAAAAAT
Found at i:16783480 original size:45 final size:45
Alignment explanation
Indices: 16783416--16783505 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
16783406 GCACATTTCC
16783416 AGGTATCATCCACATTGACACTATCCCCATACTTCCCTTGCTAGA
1 AGGTATCATCCACATTGACACTATCCCCATACTTCCCTTGCTAGA
*
16783461 AGGTATCATCCGCATTGACACTATCCCCATACTTCCCTTGCTAGA
1 AGGTATCATCCACATTGACACTATCCCCATACTTCCCTTGCTAGA
16783506 TTACAGCCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (45 bp):
AGGTATCATCCACATTGACACTATCCCCATACTTCCCTTGCTAGA
Found at i:16784958 original size:17 final size:17
Alignment explanation
Indices: 16784936--16784968 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16784926 TTTTCAAAGA
16784936 TATATATTTCTTAATTT
1 TATATATTTCTTAATTT
*
16784953 TATATATTTTTTAATT
1 TATATATTTCTTAATT
16784969 AATTTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TATATATTTCTTAATTT
Found at i:16785611 original size:21 final size:22
Alignment explanation
Indices: 16785560--16785612 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
16785550 CTCAAAATTA
16785560 AAATATTTTTTTATGTATTTAT
1 AAATATTTTTTTATGTATTTAT
*
16785582 AATTTTATTTTTTTAAT-T-TTTAT
1 AA--ATATTTTTTT-ATGTATTTAT
16785605 AAATATTT
1 AAATATTT
16785613 ATATAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 5 0.19
22 2 0.08
23 7 0.27
24 10 0.38
25 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
AAATATTTTTTTATGTATTTAT
Found at i:16786323 original size:19 final size:18
Alignment explanation
Indices: 16786299--16786338 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16786289 ATAATTCTTT
16786299 AAATTTAAAAAATATAATA
1 AAATTTAAAAAATA-AATA
**
16786318 AAATTTTGAAAATAAATA
1 AAATTTAAAAAATAAATA
16786336 AAA
1 AAA
16786339 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATTTAAAAAATAAATA
Found at i:16786540 original size:37 final size:39
Alignment explanation
Indices: 16786498--16786573 Score: 129
Period size: 37 Copynumber: 2.0 Consensus size: 39
16786488 TAAAATGTAT
16786498 TAAAATTTTGAAAA-AAATAAAAAAT-TTTCAAAGATGA
1 TAAAATTTTGAAAATAAATAAAAAATATTTCAAAGATGA
*
16786535 TAAAATTTTGAAAATAAATAAAAATTATTTCAAAGATGA
1 TAAAATTTTGAAAATAAATAAAAAATATTTCAAAGATGA
16786574 AATCCATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 14 0.39
38 10 0.28
39 12 0.33
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (39 bp):
TAAAATTTTGAAAATAAATAAAAAATATTTCAAAGATGA
Found at i:16786555 original size:18 final size:18
Alignment explanation
Indices: 16786498--16786557 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
16786488 TAAAATGTAT
16786498 TAAAATTTTGAAAA-AAA
1 TAAAATTTTGAAAATAAA
* *
16786515 TAAAAAATTTTCAAAGAT-GA
1 T--AAAATTTTGAAA-ATAAA
16786535 TAAAATTTTGAAAATAAA
1 TAAAATTTTGAAAATAAA
16786553 TAAAA
1 TAAAA
16786558 ATTATTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.09
18 17 0.50
19 11 0.32
20 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (18 bp):
TAAAATTTTGAAAATAAA
Found at i:16786818 original size:32 final size:30
Alignment explanation
Indices: 16786774--16786838 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 30
16786764 TCAGGCTTTT
*
16786774 AAAAAAAATAAATTCATTTATACTAATGTA
1 AAAAAAAATAAATTCACTTATACTAATGTA
16786804 AAAAAAACATTAAATTCACTTATACTAATGTA
1 AAAAAAA-A-TAAATTCACTTATACTAATGTA
16786836 AAA
1 AAA
16786839 TATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 7 0.22
31 1 0.03
32 24 0.75
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (30 bp):
AAAAAAAATAAATTCACTTATACTAATGTA
Found at i:16788472 original size:58 final size:57
Alignment explanation
Indices: 16788383--16788780 Score: 548
Period size: 58 Copynumber: 6.8 Consensus size: 57
16788373 TTTTGTGTAG
* *
16788383 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGGAAATTTATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTAA
16788440 GGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTAA
1 GG-AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTTAA
*
16788499 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATT-TTAA
* *
16788557 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTTGGAAATTTATTT-TAA
* *
16788618 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTT-ATTTT-AA
* * ****
16788677 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTT-GAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTA-TTTTAA
* *
16788734 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA
16788781 ATTTTGATTT
Statistics
Matches: 306, Mismatches: 22, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
57 69 0.23
58 116 0.38
59 62 0.20
60 6 0.02
61 53 0.17
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTAA
Found at i:16788725 original size:177 final size:174
Alignment explanation
Indices: 16788383--16788784 Score: 575
Period size: 177 Copynumber: 2.3 Consensus size: 174
16788373 TTTTGTGTAG
* *
16788383 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATA-TTTTTTTGGAAATTTATTTTTAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTTGAAAATTTATTTTAAGGAAAA
* *
16788446 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTAAGGAAAATTGATA
65 ATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTTAAGAAAAATTGATA
* **
16788511 CTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
129 CTTTCAACTTTTCCCTAAAAACACCTTTTTGGAAATTTATTCTTAA
16788557 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAAATTTATTTCTAAGG-A
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTTTGAAAATTTATTT-TAAGGAA
*
16788621 AAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTTGATTTTCAAGAAAAATT
63 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAA-TTT-ATTTT-AAGAAAAATT
* *
16788685 GATACTTTCAACTTTT-CCTCAAAAACCCCTTTTT-GAAATTTATTTTTAA
125 GATACTTTCAACTTTTCCCT-AAAAACACCTTTTTGGAAATTTATTCTTAA
16788734 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAAATTT
16788785 TGATTTTTAT
Statistics
Matches: 208, Mismatches: 10, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
174 32 0.15
175 28 0.13
176 4 0.02
177 105 0.50
178 39 0.19
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (174 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTAAGGAAAAA
TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTAAGAAAAATTGATACT
TTCAACTTTTCCCTAAAAACACCTTTTTGGAAATTTATTCTTAA
Found at i:16788847 original size:6 final size:6
Alignment explanation
Indices: 16788834--16788868 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
16788824 AATGAAAGTG
16788834 AAAA-A AAAATA AAAA-A AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
16788869 TATTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.32
6 19 0.68
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (6 bp):
AAAATA
Found at i:16788850 original size:11 final size:11
Alignment explanation
Indices: 16788834--16788868 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
16788824 AATGAAAGTG
16788834 AAAAAAAAATA
1 AAAAAAAAATA
16788845 AAAAAAAAATA
1 AAAAAAAAATA
16788856 AAAATAAAAATA
1 AAAA-AAAAATA
16788868 A
1 A
16788869 TATTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:16788858 original size:17 final size:17
Alignment explanation
Indices: 16788818--16788868 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
16788808 ATAATAAAAT
* * *
16788818 AAAAAAAATGAAAGTGA
1 AAAAAAAATAAAAATAA
16788835 AAAAAAAATAAAAA-AA
1 AAAAAAAATAAAAATAA
16788851 AAATAAAAATAAAAATAA
1 AAA-AAAAATAAAAATAA
16788869 TATTAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 4 0.14
17 23 0.79
18 2 0.07
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAAATAAAAATAA
Found at i:16789460 original size:26 final size:25
Alignment explanation
Indices: 16789428--16789477 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
16789418 TGGAAATTTT
16789428 CCAAAAATTTCCAGAAAAATTTTTCG
1 CCAAAAATTTCCA-AAAAATTTTTCG
*
16789454 CCAAAAATTTCTAAAAAATTTTTC
1 CCAAAAATTTCCAAAAAATTTTTC
16789478 TCACTCCCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (25 bp):
CCAAAAATTTCCAAAAAATTTTTCG
Found at i:16789896 original size:8 final size:8
Alignment explanation
Indices: 16789885--16790007 Score: 56
Period size: 8 Copynumber: 15.9 Consensus size: 8
16789875 GAAAAAAATA
16789885 ATAATAAT
1 ATAATAAT
16789893 ATAATAAT
1 ATAATAAT
16789901 ATATATAACT
1 ATA-ATAA-T
16789911 AT-ATAAAT
1 ATAAT-AAT
*
16789919 ACAATACAT
1 ATAATA-AT
16789928 AT-A-AAT
1 ATAATAAT
16789934 AT--TAAT
1 ATAATAAT
*
16789940 AGAA-AAT
1 ATAATAAT
16789947 A-AATAA-
1 ATAATAAT
16789953 ATAAATAA-
1 AT-AATAAT
16789961 ATAA-AGAT
1 ATAATA-AT
16789969 ATACAT-AT
1 ATA-ATAAT
16789977 ATTAAT-AT
1 A-TAATAAT
16789985 ATAATAAT
1 ATAATAAT
16789993 AATAATAA-
1 -ATAATAAT
16790001 ATAATAA
1 ATAATAA
16790008 AATACATAAA
Statistics
Matches: 94, Mismatches: 3, Indels: 37
0.70 0.02 0.28
Matches are distributed among these distances:
6 12 0.13
7 21 0.22
8 37 0.39
9 21 0.22
10 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (8 bp):
ATAATAAT
Found at i:16790016 original size:16 final size:16
Alignment explanation
Indices: 16789881--16790017 Score: 60
Period size: 16 Copynumber: 8.6 Consensus size: 16
16789871 AAGAGAAAAA
16789881 AATAAT-AATAAT-AT
1 AATAATAAATAATAAT
*
16789895 AATAATATAT-ATAACT
1 AATAATAAATAATAA-T
*
16789911 -AT-ATAAAT-ACAAT
1 AATAATAAATAATAAT
*
16789924 ACAT-ATAAATATTAAT
1 A-ATAATAAATAATAAT
*
16789940 AGAAAATAAATAAATAAAT
1 A-ATAATAAAT-AAT-AAT
16789959 AAATAA-AGATATACAT-AT
1 -AATAATA-A-ATA-ATAAT
* *
16789977 ATTAATATATAATAAT
1 AATAATAAATAATAAT
16789993 AATAATAAATAATAA-
1 AATAATAAATAATAAT
16790008 AATACATAAA
1 AATA-ATAAA
16790018 ATACAAAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
13 1 0.01
14 16 0.17
15 19 0.20
16 29 0.31
17 10 0.11
18 6 0.06
19 8 0.09
20 5 0.05
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (16 bp):
AATAATAAATAATAAT
Found at i:16790116 original size:97 final size:98
Alignment explanation
Indices: 16790013--16790207 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 98
16790003 AATAAAATAC
* *
16790013 ATAAAATACAAAAAAAGAAGAAAAAAAAA-ATAGGGTTACAATTGAATTGGGCCTTACCCATTTG
1 ATAAAATACAAAAAAAGAAGAAAAAAAAATACAGGGTTACAATTGAATTGGGCCTTACCAATTTG
16790077 GGCCAAGCCCAATTGATCTGGGCCTGAACCCAA
66 GGCCAAGCCCAATTGATCTGGGCCTGAACCCAA
16790110 ATAAAATACAAAAAAAGAAGAAAAAAAAATACAGGGTTACAATTGAATTGGGCCTTACCAATTTG
1 ATAAAATACAAAAAAAGAAGAAAAAAAAATACAGGGTTACAATTGAATTGGGCCTTACCAATTTG
*
16790175 GGCTAAGCCCAATTGATCTGGGCCTGAACCCAA
66 GGCCAAGCCCAATTGATCTGGGCCTGAACCCAA
16790208 TTGGGTGTCT
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 29 0.31
98 65 0.69
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (98 bp):
ATAAAATACAAAAAAAGAAGAAAAAAAAATACAGGGTTACAATTGAATTGGGCCTTACCAATTTG
GGCCAAGCCCAATTGATCTGGGCCTGAACCCAA
Found at i:16790397 original size:41 final size:41
Alignment explanation
Indices: 16790340--16790754 Score: 665
Period size: 41 Copynumber: 10.1 Consensus size: 41
16790330 TTTGACCAAA
* *
16790340 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* *
16790381 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
16790422 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* *
16790463 GCTCCTCTAAGCAGAGGCA--ACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATT
16790503 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* *
16790544 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* *
16790585 GCTCATCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATT
16790626 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* * *
16790667 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
*
16790708 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
16790749 GCTCCT
1 GCTCCT
16790755 TGACAATTAT
Statistics
Matches: 349, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
39 5 0.01
40 36 0.10
41 299 0.86
42 9 0.03
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
Found at i:16791796 original size:25 final size:25
Alignment explanation
Indices: 16791759--16791884 Score: 193
Period size: 25 Copynumber: 5.0 Consensus size: 25
16791749 TGAGTCCTCC
16791759 TTTTTCACTTTTTTCATTTTTTTCAT
1 TTTTTCA-TTTTTTCATTTTTTTCAT
16791785 TTTTTC-TATTTTTCATTTTTTTCATTT
1 TTTTTCAT-TTTTTCATTTTTTTCA--T
16791812 TTTTTCATTTTTTCA-TTTTTTCAT
1 TTTTTCATTTTTTCATTTTTTTCAT
16791836 TTTTTCATTTTTTCATTTTTTTCAT
1 TTTTTCATTTTTTCATTTTTTTCAT
*
16791861 TTTTTCATTTTTTTATTTTTTTCA
1 TTTTTCATTTTTTCATTTTTTTCA
16791885 AAGCATAGTA
Statistics
Matches: 94, Mismatches: 1, Indels: 11
0.89 0.01 0.10
Matches are distributed among these distances:
24 17 0.18
25 48 0.51
26 14 0.15
27 14 0.15
28 1 0.01
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTCATTTTTTCATTTTTTTCAT
Found at i:16791882 original size:8 final size:8
Alignment explanation
Indices: 16791759--16791881 Score: 167
Period size: 8 Copynumber: 14.6 Consensus size: 8
16791749 TGAGTCCTCC
16791759 TTTTTCACT
1 TTTTTCA-T
16791768 TTTTTCATT
1 TTTTTCA-T
16791777 TTTTTCAT
1 TTTTTCAT
16791785 TTTTTC-T
1 TTTTTCAT
16791792 ATTTTTCATT
1 -TTTTTCA-T
16791802 TTTTTCATTT
1 TTTTTCA--T
16791812 TTTTTCAT
1 TTTTTCAT
16791820 TTTTTCAT
1 TTTTTCAT
16791828 TTTTTCAT
1 TTTTTCAT
16791836 TTTTTCAT
1 TTTTTCAT
16791844 TTTTTCATT
1 TTTTTCA-T
16791853 TTTTTCAT
1 TTTTTCAT
16791861 TTTTTCAT
1 TTTTTCAT
*
16791869 TTTTTTAT
1 TTTTTCAT
16791877 TTTTT
1 TTTTT
16791882 TCAAAGCATA
Statistics
Matches: 107, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
7 1 0.01
8 66 0.62
9 30 0.28
10 10 0.09
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:16802650 original size:56 final size:55
Alignment explanation
Indices: 16802289--16802805 Score: 680
Period size: 56 Copynumber: 9.0 Consensus size: 55
16802279 TTTTGTGTAG
* *
16802289 GGAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTGGAAATTTATTTTTA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTT-GAAATTTATTTTAA
16802346 GGAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTTGGAAATTTATTTTAA
1 GG-AAAATTGATACTTTCAACTTTTC-CCAAAAATA--TTTTTTT-GAAATTTATTTTAA
*
16802406 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAATTTATT-TTAA
16802463 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTGTTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATA-----TTTTTTTG-AAATTTATTT-TAA
* * *
16802526 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-CTTTTCGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTG-AAA-TTT-ATTTT-AA
16802585 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTATTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAATTTATTTTAA
* *
16802641 GGAAAATTGATACTTTCAACTTTTCCTAAAAATA-TTTTTTGAAATTTTATTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAA-TTTATTTTAA
*
16802696 GGAAAATTGATACTTTCAACTTTTCCCTCAAAA-ATTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAATTTA-TTTTAA
*
16802752 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTAAATTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAATTTATTTT
16802806 TATTTAAAGA
Statistics
Matches: 418, Mismatches: 17, Indels: 51
0.86 0.03 0.10
Matches are distributed among these distances:
54 10 0.02
55 53 0.13
56 87 0.21
57 78 0.19
58 37 0.09
59 65 0.16
60 35 0.08
62 9 0.02
63 44 0.11
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (55 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTTAA
Found at i:16802830 original size:8 final size:8
Alignment explanation
Indices: 16802817--16802885 Score: 65
Period size: 8 Copynumber: 8.9 Consensus size: 8
16802807 ATTTAAAGAA
16802817 AAAATAAT
1 AAAATAAT
*
16802825 AAAATAAA
1 AAAATAAT
16802833 AAAATAAAT
1 AAAAT-AAT
16802842 AAAATAAT
1 AAAATAAT
*
16802850 AAAA-AAA
1 AAAATAAT
*
16802857 AATAAAAAT
1 AA-AATAAT
16802866 AAAA-AAT
1 AAAATAAT
16802873 -AAA-AAT
1 AAAATAAT
16802879 AAAATAA
1 AAAATAA
16802886 AGATAAAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
6 6 0.12
7 10 0.19
8 25 0.48
9 11 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAATAAT
Found at i:16802838 original size:13 final size:13
Alignment explanation
Indices: 16802816--16802899 Score: 72
Period size: 11 Copynumber: 6.7 Consensus size: 13
16802806 TATTTAAAGA
16802816 AAAAATAATAAAAT
1 AAAAA-AATAAAAT
16802830 AAAAAAAT-AAAT
1 AAAAAAATAAAAT
*
16802842 AAAATAATAAAA-
1 AAAAAAATAAAAT
*
16802854 AAAAATA-AAAAT
1 AAAAAAATAAAAT
16802866 -AAAAAAT-AAA-
1 AAAAAAATAAAAT
*
16802876 AATAAAATAAAGAT
1 AAAAAAATAAA-AT
16802890 AAAAAGAATA
1 AAAAA-AATA
16802900 TTAAATAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
11 18 0.32
12 18 0.32
13 7 0.12
14 9 0.16
15 4 0.07
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:16802894 original size:17 final size:17
Alignment explanation
Indices: 16802810--16802886 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 17
16802800 TATTTTTATT
16802810 TAAAGAAAAAATAATAAAA
1 TAAA-AAAAAA-AATAAAA
*
16802829 TAAAAAAATAAATAAAA
1 TAAAAAAAAAAATAAAA
16802846 TAATAAAAAAAAATAAAAA
1 TAA-AAAAAAAAAT-AAAA
16802865 TAAAAAATAAAAATAAAA
1 TAAAAAA-AAAAATAAAA
16802883 TAAA
1 TAAA
16802887 GATAAAAAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
17 10 0.19
18 26 0.49
19 17 0.32
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.17
Consensus pattern (17 bp):
TAAAAAAAAAAATAAAA
Found at i:16802894 original size:24 final size:25
Alignment explanation
Indices: 16802817--16802893 Score: 106
Period size: 24 Copynumber: 3.2 Consensus size: 25
16802807 ATTTAAAGAA
*
16802817 AAAATAAT-AAAATAAAAAAATAAAT
1 AAAATAATAAAAATAAAATAA-AAAT
16802842 AAAATAATAAAAA-AAAATAAAAAT
1 AAAATAATAAAAATAAAATAAAAAT
*
16802866 AAAA-AATAAAAATAAAATAAAGAT
1 AAAATAATAAAAATAAAATAAAAAT
16802890 AAAA
1 AAAA
16802894 AGAATATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.17
24 22 0.46
25 14 0.29
26 4 0.08
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.17
Consensus pattern (25 bp):
AAAATAATAAAAATAAAATAAAAAT
Found at i:16803247 original size:19 final size:20
Alignment explanation
Indices: 16803205--16803247 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
16803195 ACACCAGTGT
* *
16803205 CGGATTCTGGAAAATATCGT
1 CGGAATCTGGAAAATATCGC
*
16803225 CGGAATCTGG-AAATTTCGC
1 CGGAATCTGGAAAATATCGC
16803244 CGGA
1 CGGA
16803248 TGTTCGCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
CGGAATCTGGAAAATATCGC
Found at i:16803838 original size:11 final size:11
Alignment explanation
Indices: 16803824--16803972 Score: 65
Period size: 11 Copynumber: 12.9 Consensus size: 11
16803814 AGAAAAAGAG
*
16803824 AAAAAAATAAT
1 AAAATAATAAT
16803835 AAAATAATAAT
1 AAAATAATAAT
*
16803846 AATATAATAAT
1 AAAATAATAAT
*
16803857 ATATATAACTATAT
1 A-AAATAA-TA-AT
*
16803871 AAATACAATACAT
1 AAA-ATAATA-AT
*
16803884 ATAAATATTAAT
1 A-AAATAATAAT
*
16803896 AGAA-AATAA-
1 AAAATAATAAT
16803905 ATAAATAAATAAAT
1 A-AAAT-AAT-AAT
16803919 AAAGAT-ATACAT
1 AAA-ATAATA-AT
* *
16803931 ATATTAAT-AT
1 AAAATAATAAT
*
16803941 ATAATAATAAT
1 AAAATAATAAT
*
16803952 AATA-AATAAT
1 AAAATAATAAT
16803962 AAAATACATAA
1 AAAATA-ATAA
16803973 AATACAAAAG
Statistics
Matches: 106, Mismatches: 16, Indels: 31
0.69 0.10 0.20
Matches are distributed among these distances:
9 1 0.01
10 24 0.23
11 30 0.28
12 24 0.23
13 16 0.15
14 11 0.10
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:16803858 original size:8 final size:8
Alignment explanation
Indices: 16803829--16803963 Score: 57
Period size: 8 Copynumber: 17.6 Consensus size: 8
16803819 AAGAGAAAAA
*
16803829 AATAATAA
1 AATAATAT
16803837 AAT-A-AT
1 AATAATAT
16803843 AATAATAT
1 AATAATAT
16803851 AATAATAT
1 AATAATAT
16803859 ATATAACTAT
1 A-ATAA-TAT
*
16803869 -ATAAATAC
1 AAT-AATAT
16803877 AATACATAT
1 AATA-ATAT
16803886 -A-AATAT
1 AATAATAT
*
16803892 --TAATAG
1 AATAATAT
16803898 AA-AATA-
1 AATAATAT
16803904 AATAA-AT
1 AATAATAT
16803911 AAATAA-AT
1 -AATAATAT
16803919 AA-AGATAT
1 AATA-ATAT
16803927 ACAT-ATATT
1 A-ATAATA-T
16803936 AAT-ATAT
1 AATAATAT
16803943 AATAATAAT
1 AATAAT-AT
16803952 AATAA-AT
1 AATAATAT
16803959 AATAA
1 AATAA
16803964 AATACATAAA
Statistics
Matches: 103, Mismatches: 4, Indels: 41
0.70 0.03 0.28
Matches are distributed among these distances:
6 16 0.16
7 23 0.22
8 40 0.39
9 21 0.20
10 3 0.03
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (8 bp):
AATAATAT
Found at i:16803960 original size:56 final size:56
Alignment explanation
Indices: 16803830--16803973 Score: 136
Period size: 56 Copynumber: 2.6 Consensus size: 56
16803820 AGAGAAAAAA
* **
16803830 ATAATAA-AATAAT-AATAATATAATAATATATATAACTATATAAATACAATACATAT
1 ATAATAATAATAATAAATAATA-AATAA-ATAAATAAAGATATAAATACAATACATAT
* * * *
16803886 A-AATATTAATAGA-AAATAAATAAATAAATAAATAAAGATATACATATATTA-ATAT
1 ATAATAATAATA-ATAAAT-AATAAATAAATAAATAAAGATATAAATACAATACATAT
*
16803941 ATAATAATAATAATAAATAATAAAATACATAAA
1 ATAATAATAATAATAAATAAT-AAATAAATAAA
16803974 ATACAAAAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
55 13 0.18
56 46 0.64
57 9 0.12
58 4 0.06
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (56 bp):
ATAATAATAATAATAAATAATAAATAAATAAATAAAGATATAAATACAATACATAT
Found at i:16803972 original size:16 final size:16
Alignment explanation
Indices: 16803828--16803973 Score: 71
Period size: 16 Copynumber: 9.2 Consensus size: 16
16803818 AAAGAGAAAA
16803828 AAATAATAA-AATAAT
1 AAATAATAATAATAAT
16803843 -AATAAT-ATAATAAT
1 AAATAATAATAATAAT
*
16803857 ATAT-ATAACT-AT-AT
1 AAATAATAA-TAATAAT
*
16803871 AAAT-ACAATACAT-AT
1 AAATAATAATA-ATAAT
* *
16803886 AAATATTAATAGAAAAT
1 AAATAATAATA-ATAAT
16803903 AAATAAATAAATAAATAA-
1 AAAT-AAT-AAT-AATAAT
*
16803921 AGATATACAT-ATATTAAT
1 A-A-ATA-ATAATAATAAT
*
16803939 ATATAATAATAATAAT
1 AAATAATAATAATAAT
16803955 AAATAATAA-AATACAT
1 AAATAATAATAATA-AT
16803971 AAA
1 AAA
16803974 ATACAAAAGA
Statistics
Matches: 101, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
13 2 0.02
14 22 0.22
15 19 0.19
16 29 0.29
17 10 0.10
18 6 0.06
19 8 0.08
20 5 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:16804330 original size:8 final size:8
Alignment explanation
Indices: 16804283--16804331 Score: 52
Period size: 7 Copynumber: 6.6 Consensus size: 8
16804273 TTTTGATTTT
16804283 AGGGTTTA
1 AGGGTTTA
*
16804291 A-GTTTTA
1 AGGGTTTA
*
16804298 AGGTTTTA
1 AGGGTTTA
16804306 A-GGTTT-
1 AGGGTTTA
16804312 AGGGTTT-
1 AGGGTTTA
16804319 AGGGTTTA
1 AGGGTTTA
16804327 AGGGT
1 AGGGT
16804332 CGATTTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 1 0.03
7 22 0.61
8 13 0.36
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (8 bp):
AGGGTTTA
Found at i:16804330 original size:15 final size:15
Alignment explanation
Indices: 16804283--16804331 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
16804273 TTTTGATTTT
*
16804283 AGGGTTTAAGTTTTA
1 AGGGTTTAAGGTTTA
*
16804298 AGGTTTTAAGGTTT-
1 AGGGTTTAAGGTTTA
*
16804312 AGGGTTTAGGGTTTA
1 AGGGTTTAAGGTTTA
16804327 AGGGT
1 AGGGT
16804332 CGATTTTAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (15 bp):
AGGGTTTAAGGTTTA
Found at i:16805342 original size:19 final size:18
Alignment explanation
Indices: 16805299--16805344 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
16805289 CTTTCTTTAA
16805299 TTTTTTTTTCTTTTCTTC
1 TTTTTTTTTCTTTTCTTC
16805317 TTCTTTTTTTCTTTT-TTC
1 TT-TTTTTTTCTTTTCTTC
* *
16805335 ATGTTTTTTC
1 TTTTTTTTTC
16805345 CTTGGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTCTTTTCTTC
Found at i:16811131 original size:2 final size:2
Alignment explanation
Indices: 16811126--16811162 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
16811116 CAAAGAAAGG
*
16811126 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16811163 AAAGACTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:16815149 original size:3 final size:3
Alignment explanation
Indices: 16815143--16815177 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16815133 TGTTATTATT
16815143 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
16815178 AGTGCTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:16815480 original size:15 final size:15
Alignment explanation
Indices: 16815456--16815510 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
16815446 CCAAACTTTG
*
16815456 AAACCTTAAATCCTA
1 AAACCCTAAATCCTA
*
16815471 AAACCCTAAA-CCTTG
1 AAACCCTAAATCC-TA
**
16815486 AAA-CCTAAGCCCTA
1 AAACCCTAAATCCTA
16815500 AAACCCTAAAT
1 AAACCCTAAAT
16815511 TACCCAAACC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (15 bp):
AAACCCTAAATCCTA
Found at i:16815481 original size:22 final size:22
Alignment explanation
Indices: 16815456--16815510 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
16815446 CCAAACTTTG
16815456 AAACCTTAAATCCTAAAACCCT-
1 AAACCTTAAATCCT-AAACCCTA
*
16815478 AAACCTTGAAA-CCTAAGCCCTA
1 AAACCTT-AAATCCTAAACCCTA
*
16815500 AAACCCTAAAT
1 AAACCTTAAAT
16815511 TACCCAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 9 0.32
22 16 0.57
23 3 0.11
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (22 bp):
AAACCTTAAATCCTAAACCCTA
Found at i:16815499 original size:29 final size:30
Alignment explanation
Indices: 16815442--16815509 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
16815432 AAATATGGAG
* *
16815442 AAACCC-AAACTTTGAAACCTTAAATCCTA
1 AAACCCTAAACCTTGAAACCTTAAACCCTA
*
16815471 AAACCCTAAACCTTGAAACC-TAAGCCCTA
1 AAACCCTAAACCTTGAAACCTTAAACCCTA
16815500 AAACCCTAAA
1 AAACCCTAAA
16815510 TTACCCAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (30 bp):
AAACCCTAAACCTTGAAACCTTAAACCCTA
Found at i:16815550 original size:35 final size:36
Alignment explanation
Indices: 16815486--16815554 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
16815476 CTAAACCTTG
16815486 AAACCTAAGCCCTAAAACCCTAAATTACCCAAACCT
1 AAACCTAAGCCCTAAAACCCTAAATTACCCAAACCT
* *
16815522 AAACCT-AGCCCT-CAATCCTAAATCTACCCAAAC
1 AAACCTAAGCCCTAAAACCCTAAAT-TACCCAAAC
16815555 ATCGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 9 0.30
35 15 0.50
36 6 0.20
ACGTcount: A:0.42, C:0.38, G:0.03, T:0.17
Consensus pattern (36 bp):
AAACCTAAGCCCTAAAACCCTAAATTACCCAAACCT
Found at i:16822522 original size:3 final size:3
Alignment explanation
Indices: 16822514--16822548 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16822504 TCTTTAAGCA
16822514 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16822549 AGCTTTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16825468 original size:38 final size:38
Alignment explanation
Indices: 16825417--16825491 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
16825407 ATATTTGTGC
* * *
16825417 TTATTCTTAAAACATTGATTATTTAAATTAGGAATGAT
1 TTATTCTTAAAACATTGATTAGTAAAATTAAGAATGAT
*
16825455 TTATTCTTAAAACATTTATTAGTAAAATTAAGAATGA
1 TTATTCTTAAAACATTGATTAGTAAAATTAAGAATGA
16825492 ATGAGTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (38 bp):
TTATTCTTAAAACATTGATTAGTAAAATTAAGAATGAT
Found at i:16826636 original size:26 final size:27
Alignment explanation
Indices: 16826603--16826659 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
16826593 TTGAAAAGAT
16826603 AAATTTTTATTTATTCAAATTAAGACA
1 AAATTTTTATTTATTCAAATTAAGACA
16826630 AAATTTTTATTTATTCAAATTAAGACA
1 AAATTTTTATTTATTCAAATTAAGACA
16826657 AAA
1 AAA
16826660 AAAATATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (27 bp):
AAATTTTTATTTATTCAAATTAAGACA
Found at i:16826667 original size:27 final size:27
Alignment explanation
Indices: 16826610--16826667 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
16826600 GATAAATTTT
****
16826610 TATTTATTCAAATTAAGACAAAATTTT
1 TATTTATTCAAATTAAGACAAAAAAAA
16826637 TATTTATTCAAATTAAGACAAAAAAAA
1 TATTTATTCAAATTAAGACAAAAAAAA
16826664 TATT
1 TATT
16826668 GTTGAAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (27 bp):
TATTTATTCAAATTAAGACAAAAAAAA
Found at i:16829081 original size:15 final size:15
Alignment explanation
Indices: 16829063--16829102 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
16829053 TTTCTAGTTT
16829063 TTTTTTTCTTTTTAC
1 TTTTTTTCTTTTTAC
* *
16829078 TTTTTTACATTTTAC
1 TTTTTTTCTTTTTAC
16829093 TTTCTTTTCT
1 TTT-TTTTCT
16829103 CTTCAAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTTCTTTTTAC
Found at i:16829878 original size:18 final size:19
Alignment explanation
Indices: 16829857--16829892 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16829847 TTCGATTTAC
16829857 ATTTTCTT-ATTACTTGCG
1 ATTTTCTTCATTACTTGCG
16829875 ATTTTCTTCATTACTTGC
1 ATTTTCTTCATTACTTGC
16829893 CTTTCCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.17, C:0.19, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTTTCTTCATTACTTGCG
Found at i:16830131 original size:21 final size:22
Alignment explanation
Indices: 16830095--16830135 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16830085 GTTTTTTCGT
*
16830095 TTAGATTTACATTCAAAACATG
1 TTAGATTCACATTCAAAACATG
16830117 TTAGATTCA-ATTCAAAACA
1 TTAGATTCACATTCAAAACA
16830136 ATTTATTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (22 bp):
TTAGATTCACATTCAAAACATG
Found at i:16834801 original size:38 final size:38
Alignment explanation
Indices: 16834753--16834826 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
16834743 TATGAATTTT
*
16834753 ATCTTCGAAATTATTTTT-TTTAATTTCAAAATTTTATC
1 ATCTTCGAAATAATTTTTATTT-ATTTCAAAATTTTATC
* *
16834791 ATCTTTGAAATAATTTTTATTTTTTTCAAAATTTTA
1 ATCTTCGAAATAATTTTTATTTATTTCAAAATTTTA
16834827 ATACATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 29 0.91
39 3 0.09
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (38 bp):
ATCTTCGAAATAATTTTTATTTATTTCAAAATTTTATC
Found at i:16835129 original size:17 final size:17
Alignment explanation
Indices: 16835099--16835132 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16835089 TTAAAAATAC
* *
16835099 AAAAATAATTAAATAAA
1 AAAAAAAATAAAATAAA
16835116 AAAAAAAATAAAATAAA
1 AAAAAAAATAAAATAAA
16835133 CATACAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAAATAAAATAAA
Found at i:16835142 original size:45 final size:45
Alignment explanation
Indices: 16835079--16835166 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
16835069 AGTAACAAAT
** *
16835079 TAAAATAAATTTAAAAATACA-AAAATAATTAAATAAAAAAAAAAA
1 TAAAATAAACATAAAAATAAAGAAAATAATTAAA-AAAAAAAAAAA
* *
16835124 TAAAATAAACATACAAATAAAGTAAAATAATTAAAAACAAAAA
1 TAAAATAAACATAAAAATAAAG-AAAATAATTAAAAAAAAAAA
16835167 CGATGAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
45 17 0.47
46 7 0.19
47 12 0.33
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.20
Consensus pattern (45 bp):
TAAAATAAACATAAAAATAAAGAAAATAATTAAAAAAAAAAAAAA
Found at i:16835483 original size:22 final size:24
Alignment explanation
Indices: 16835458--16835504 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
16835448 AGTTAGAATG
* *
16835458 TATATTATATAAT-TAA-TTAATA
1 TATATTAAAGAATGTAAGTTAATA
16835480 TATATTAAAGAATGTAAGTTAATA
1 TATATTAAAGAATGTAAGTTAATA
16835504 T
1 T
16835505 TAATCTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 3 0.14
24 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (24 bp):
TATATTAAAGAATGTAAGTTAATA
Found at i:16837748 original size:141 final size:142
Alignment explanation
Indices: 16837391--16837784 Score: 377
Period size: 141 Copynumber: 2.7 Consensus size: 142
16837381 CTTGGAAATG
* * * *
16837391 ATAAAATTACCAAAATACCTTTTAGAA-ATATTTTTATAATTTTGACTTTCTCGATGTTGGATTT
1 ATAAAATTACCAAAATACCATTTA-AAGATATTTTTATAA-TTTAAC-TTCTCGATGATAGATTT
* * * * * * *
16837455 TTGTGAAAGACTCCAAATAATATTTTTATATTATTTCATGATTTTTTATGCTTTAAAAACCTTGA
63 TTGTGAAAAATTCTAGATCATATTTTTATATTATTTCATGA-TTTATATGCATTAAAAACCTTGA
* * * *
16837520 TCGCACCTTGGAAAAT
127 TCACACATTGAAAAAC
* ** ** * * *
16837536 GTAAAATTAAAAAAAATACCATTTAGGGATATTTTTGTAATTTAATCTTTTC-AAGATAGAATTT
1 ATAAAATT-ACCAAAATACCATTTAAAGATATTTTTATAATTTAA-CTTCTCGATGATAG-ATTT
*
16837600 TTGTGAAAAATTCTAGATCATATTTTCATATT-TTT-ATGATTTATA-GACATTAAAAACCTTGA
63 TTGTGAAAAATTCTAGATCATATTTTTATATTATTTCATGATTTATATG-CATTAAAAACCTTGA
*
16837662 TTACACATTGAAAAAC
127 TCACACATTGAAAAAC
* * *
16837678 ATAAAATTACCAAAATACCCTTTAAAGATATTTTCATAATTTAACATTCTCGATG-TCGATTTTT
1 ATAAAATTACCAAAATACCATTTAAAGATATTTTTATAATTTAAC-TTCTCGATGATAGATTTTT
* * *
16837742 CATGAAAACTTTTAGATCATATTTTTATATTATTTCATGATTT
65 -GTGAAAAATTCTAGATCATATTTTTATATTATTTCATGATTT
16837785 TTGGGGCATT
Statistics
Matches: 199, Mismatches: 40, Indels: 22
0.76 0.15 0.08
Matches are distributed among these distances:
140 7 0.04
141 62 0.31
142 42 0.21
143 11 0.06
144 7 0.04
145 45 0.23
146 25 0.13
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (142 bp):
ATAAAATTACCAAAATACCATTTAAAGATATTTTTATAATTTAACTTCTCGATGATAGATTTTTG
TGAAAAATTCTAGATCATATTTTTATATTATTTCATGATTTATATGCATTAAAAACCTTGATCAC
ACATTGAAAAAC
Found at i:16838317 original size:22 final size:22
Alignment explanation
Indices: 16838274--16838331 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
16838264 GTGGAAGAGA
16838274 GAAAAAAAAAGAGAAAGGAAAGGC
1 GAAAAAAAAAG-GAAA-GAAAGGC
*
16838298 GAAAAAAAAAGGAATA-AAAGGG
1 GAAAAAAAAAGGAA-AGAAAGGC
*
16838320 GAGAAAAAAAGG
1 GAAAAAAAAAGG
16838332 TGGAAAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 16 0.52
23 3 0.10
24 12 0.39
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (22 bp):
GAAAAAAAAAGGAAAGAAAGGC
Found at i:16839227 original size:16 final size:16
Alignment explanation
Indices: 16839206--16839238 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16839196 ATACTAAATT
*
16839206 TATTTTTTAGTTTACA
1 TATTTTATAGTTTACA
16839222 TATTTTATAGTTTACA
1 TATTTTATAGTTTACA
16839238 T
1 T
16839239 TTAGTTATAT
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:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTTTATAGTTTACA
Found at i:16839300 original size:3 final size:3
Alignment explanation
Indices: 16839292--16839326 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
16839282 TTTATTTCAC
16839292 ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT A
16839327 CTACTACTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16845085 original size:23 final size:26
Alignment explanation
Indices: 16845033--16845108 Score: 75
Period size: 31 Copynumber: 2.8 Consensus size: 26
16845023 GTTTTAGTTC
*
16845033 ATTTAAATTCT-GTTTGCATAATTTA
1 ATTTAAATTTTGGTTTGCATAATTTA
*
16845058 ATTT-AATTTTGGTTTGCTATTTATTTTAA
1 ATTTAAATTTTGGTTTGC-A--TAATTT-A
16845087 ATTTTAAATTTTGGTTTGCATA
1 A-TTTAAATTTTGGTTTGCATA
16845109 TTAGGTTAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
24 5 0.12
25 10 0.24
26 1 0.02
28 7 0.17
29 2 0.05
30 4 0.10
31 13 0.31
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.57
Consensus pattern (26 bp):
ATTTAAATTTTGGTTTGCATAATTTA
Found at i:16848538 original size:19 final size:20
Alignment explanation
Indices: 16848514--16848558 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
16848504 AAAACCAAGG
*
16848514 AAAAAACATGAA-AAAAGAA
1 AAAAAACAAGAAGAAAAGAA
*
16848533 AAAAAAGAAGAAGAAAAGAA
1 AAAAAACAAGAAGAAAAGAA
16848553 AAAAAA
1 AAAAAA
16848559 ATTAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.02
Consensus pattern (20 bp):
AAAAAACAAGAAGAAAAGAA
Found at i:16850669 original size:6 final size:6
Alignment explanation
Indices: 16850624--16850726 Score: 52
Period size: 6 Copynumber: 17.2 Consensus size: 6
16850614 TATTCATTCA
* * * **
16850624 TTTCTT TTCCTTT TATTCTT ATTCTT ATTCTT TTTCTCT TTT-TCT TTTGGT
1 TTTCTT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCT-T TTTCT-T TTTCTT
** * * *
16850675 TTTC-T TTT-TT TTTCTT TTTCTT TCACTT TCTCAT TTT-TT TTACTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
16850720 TTTCTT T
1 TTTCTT T
16850727 GAATGGATTC
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
5 11 0.14
6 54 0.71
7 9 0.12
8 2 0.03
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTCTT
Found at i:16850711 original size:29 final size:29
Alignment explanation
Indices: 16850645--16850726 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 29
16850635 TTTATTCTTA
* * ***
16850645 TTCTTATTCTTTTTCTCTTTTTCTTTTGGT
1 TTCTCATT-TTTTTTTCTTTTTCTTTCACT
16850675 TT-TC-TTTTTTTTTCTTTTTCTTTCACT
1 TTCTCATTTTTTTTTCTTTTTCTTTCACT
*
16850702 TTCTCATTTTTTTTACTTTTTCTTT
1 TTCTCATTTTTTTTTCTTTTTCTTT
16850727 GAATGGATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 19 0.43
28 4 0.09
29 19 0.43
30 2 0.05
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (29 bp):
TTCTCATTTTTTTTTCTTTTTCTTTCACT
Found at i:16851851 original size:6 final size:6
Alignment explanation
Indices: 16851840--16851902 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
16851830 CTCTTTTTCC
*
16851840 TTCTTT TTCTTT TT-TTCCT TTCTTT TTCTTTT TTTTTT TTCCTTT TTC--T
1 TTCTTT TTCTTT TTCTT--T TTCTTT TTC-TTT TTCTTT TT-CTTT TTCTTT
*
16851889 TTCCTT TTCTTT TT
1 TTCTTT TTCTTT TT
16851903 TTCTTCTCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
4 4 0.09
5 2 0.04
6 26 0.55
7 13 0.28
8 2 0.04
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:16851856 original size:18 final size:19
Alignment explanation
Indices: 16851818--16851890 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 19
16851808 CAAAAGAAAA
*
16851818 CTTTCTGTTTCTCTCTTTTTC
1 CTTTCT-TTT-TCTTTTTTTC
16851839 C-TTCTTTTTCTTTTTTTC
1 CTTTCTTTTTCTTTTTTTC
*
16851857 CTTTCTTTTTCTTTTTTTT
1 CTTTCTTTTTCTTTTTTTC
*
16851876 TTTTCCTTTTTCTTT
1 CTTT-CTTTTTCTTT
16851891 CCTTTTCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
18 10 0.21
19 22 0.47
20 14 0.30
21 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (19 bp):
CTTTCTTTTTCTTTTTTTC
Found at i:16851863 original size:13 final size:12
Alignment explanation
Indices: 16851845--16851922 Score: 63
Period size: 13 Copynumber: 6.3 Consensus size: 12
16851835 TTTCCTTCTT
16851845 TTTCTTTTTTTCC
1 TTTCTTTTTTT-C
16851858 TTTCTTTTTCTT-
1 TTTCTTTTT-TTC
16851870 TTT-TTTTTTTCC
1 TTTCTTTTTTT-C
* *
16851882 TTT-TTCTTTCC
1 TTTCTTTTTTTC
16851893 TTTTCTTTTTTTC
1 -TTTCTTTTTTTC
*
16851906 TTCTCCTTTTTTC
1 TT-TCTTTTTTTC
16851919 TTTC
1 TTTC
16851923 CAGGTGCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
10 2 0.04
11 6 0.11
12 18 0.33
13 26 0.48
14 2 0.04
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:16851876 original size:24 final size:24
Alignment explanation
Indices: 16851832--16851905 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 24
16851822 CTGTTTCTCT
*
16851832 CTTTTTCCTTCTTTTTCTTTTTTTC
1 CTTTTTCTTTCTTTTT-TTTTTTTC
16851857 CTTTCTT-TTTCTTTTTTTTTTTTC
1 CTTT-TTCTTTCTTTTTTTTTTTTC
*
16851881 CTTTTTCTTTCCTTTTCTTTTTTTC
1 CTTTTTCTTT-CTTTTTTTTTTTTC
16851906 TTCTCCTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.05
24 15 0.34
25 25 0.57
26 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
CTTTTTCTTTCTTTTTTTTTTTTC
Found at i:16851891 original size:30 final size:31
Alignment explanation
Indices: 16851850--16851923 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
16851840 TTCTTTTTCT
* * *
16851850 TTTTTTCCTTTCTTTTTCTTTTTTTTTTTTCC
1 TTTTTT-CTTTCCTTTTCTTTTTTTCTTCTCC
16851882 -TTTTTCTTTCCTTTTCTTTTTTTCTTCTCC
1 TTTTTTCTTTCCTTTTCTTTTTTTCTTCTCC
16851912 TTTTTTCTTTCC
1 TTTTTTCTTTCC
16851924 AGGTGCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.58
31 16 0.42
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTTTTCTTTCCTTTTCTTTTTTTCTTCTCC
Done.