Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 118 of 120
Found at i:18344498 original size:119 final size:117
Alignment explanation
Indices: 18344368--18344663 Score: 439
Period size: 119 Copynumber: 2.5 Consensus size: 117
18344358 AATAAAATTA
* ** *
18344368 TGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTGTTAAAATTTTTTTTTTGAGGA
1 TGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATT-TTAAAAAATATTTTTTGAGGA
* * * *
18344433 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAATATTTT
65 AAAATTAAAAATATCAATTTTCCTTAAAAATAAAAATTTCTAAAAAATATTTT
*
18344486 TGAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGATTTCTAAAAAATATTTTTTGAGG
1 TG-AGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTT-TAAAAAATATTTTTTGAGG
* *
18344551 AAAAATTAAAAATATCAATTTTCCTTAAAAATAAAAATTTTTTAAAAATATTTT
64 AAAAATTAAAAATATCAATTTTCCTTAAAAATAAAAATTTCTAAAAAATATTTT
*
18344605 TGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTAAAAAAATATTTT
1 TGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-TTTT-AAAAAATATTTT
18344664 CAATTTTAAA
Statistics
Matches: 161, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
118 41 0.25
119 120 0.75
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (117 bp):
TGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAATATTTTTTGAGGAA
AAATTAAAAATATCAATTTTCCTTAAAAATAAAAATTTCTAAAAAATATTTT
Found at i:18344597 original size:17 final size:18
Alignment explanation
Indices: 18344556--18344600 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
18344546 TGAGGAAAAA
**
18344556 TTAAAAATATCAATTTTCC
1 TTAAAAATAAAAATTTT-C
18344575 TTAAAAATAAAAATTTT-
1 TTAAAAATAAAAATTTTC
18344592 TTAAAAATA
1 TTAAAAATA
18344601 TTTTTGAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAATAAAAATTTTC
Found at i:18346770 original size:13 final size:14
Alignment explanation
Indices: 18346743--18346773 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18346733 AAACACAATG
18346743 TCTTTTTCGAGCCT
1 TCTTTTTCGAGCCT
18346757 TCTTTTTCGA-CCT
1 TCTTTTTCGAGCCT
18346770 TCTT
1 TCTT
18346774 GTCTACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.06, C:0.29, G:0.10, T:0.55
Consensus pattern (14 bp):
TCTTTTTCGAGCCT
Found at i:18349291 original size:2 final size:2
Alignment explanation
Indices: 18349274--18349307 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
18349264 AGTGATGAAA
* *
18349274 AT AT AC AT AC 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
18349308 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:18366735 original size:37 final size:33
Alignment explanation
Indices: 18366694--18366789 Score: 77
Period size: 37 Copynumber: 2.7 Consensus size: 33
18366684 TATGTATTCA
18366694 TATTATATTTTATATAAAAATTATATATTATAATTTT
1 TATTA-ATTTTATATAAAAATTATAT-TT-TAA-TTT
* * *
18366731 TATTAATATATAAATATAAAA-TATATTTTTATTT
1 TATTAAT-TTTATATA-AAAATTATATTTTAATTT
*
18366765 TATTAAATTTATATATAATAATTAT
1 TATT-AATTT-TATATAAAAATTAT
18366790 TAAAATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
34 11 0.23
35 13 0.27
36 4 0.08
37 16 0.33
38 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TATTAATTTTATATAAAAATTATATTTTAATTT
Found at i:18369907 original size:3 final size:3
Alignment explanation
Indices: 18369899--18369929 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18369889 TTCTCTCTGT
18369899 TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
18369930 TTGTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:18374793 original size:11 final size:11
Alignment explanation
Indices: 18374759--18374802 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
18374749 ATATTATACG
18374759 AAAATAATATAA
1 AAAATAATAT-A
*
18374771 ATAAAAAATATA
1 A-AAATAATATA
18374783 AAAATAATATA
1 AAAATAATATA
18374794 AAAATAATA
1 AAAATAATA
18374803 CGATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 18 0.62
12 3 0.10
13 8 0.28
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATAATATA
Found at i:18396853 original size:2 final size:2
Alignment explanation
Indices: 18396846--18396888 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18396836 GGCAGACAGT
18396846 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18396888 G
1 G
18396889 TTGTACACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18400577 original size:27 final size:28
Alignment explanation
Indices: 18400524--18400578 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
18400514 ATATATATAT
*
18400524 TTAAAATTTTGATATTTTACTATAATTAG
1 TTAAAATTTT-ATATTTTACAATAATTAG
18400553 TTAAAATTTT-TATTTTA-AATCAATTA
1 TTAAAATTTTATATTTTACAAT-AATTA
18400579 AATTTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.08
27 12 0.50
29 10 0.42
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (28 bp):
TTAAAATTTTATATTTTACAATAATTAG
Found at i:18407021 original size:2 final size:2
Alignment explanation
Indices: 18407014--18407050 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
18407004 TCTAAATGTT
* *
18407014 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18407051 GGCCAAAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:18410635 original size:2 final size:2
Alignment explanation
Indices: 18410630--18410664 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
18410620 GGTGTGTATT
* *
18410630 TA TA TA TA TA TA TA TA AA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18410665 TACTAAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18411076 original size:2 final size:2
Alignment explanation
Indices: 18411069--18411108 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
18411059 ACTTAATCTA
18411069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18411109 TACAACATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:18418943 original size:2 final size:2
Alignment explanation
Indices: 18418938--18418966 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18418928 ATATATATAT
18418938 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
18418967 AATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18436326 original size:2 final size:2
Alignment explanation
Indices: 18436314--18436344 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
18436304 AAAAACTAGT
18436314 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
18436345 CACACGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18436620 original size:2 final size:2
Alignment explanation
Indices: 18436613--18436644 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18436603 TTATGACCCT
18436613 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18436645 ACATTCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18438576 original size:123 final size:123
Alignment explanation
Indices: 18438354--18438599 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
18438344 ACTATGTTGC
18438354 ACCTTGTATGTTTACAAAATGAAAACTTTCCATCAGTAGATCCTTTGTCAATTGGGCCATGTGTT
1 ACCTTGTATGTTTACAAAATGAAAACTTTCCATCAGTAGATCCTTTGTCAATTGGGCCATGTGTT
18438419 TTAATAAAGAAACATAGGAGAAATACCAACGAATATAAATAACAAGTGCAACTGTGTT
66 TTAATAAAGAAACATAGGAGAAATACCAACGAATATAAATAACAAGTGCAACTGTGTT
18438477 ACCTTGTATGTTTACAAAATGAAAACTTTCCATCAGTAGATCCTTTGTCAATTGGGCCATGTGTT
1 ACCTTGTATGTTTACAAAATGAAAACTTTCCATCAGTAGATCCTTTGTCAATTGGGCCATGTGTT
* *
18438542 TTAATAAAGAAACATAGGAGAAATACCAATGAATATAAATAGCAAGTGCAACTGTGTT
66 TTAATAAAGAAACATAGGAGAAATACCAACGAATATAAATAACAAGTGCAACTGTGTT
18438600 TCTAGTTCAG
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (123 bp):
ACCTTGTATGTTTACAAAATGAAAACTTTCCATCAGTAGATCCTTTGTCAATTGGGCCATGTGTT
TTAATAAAGAAACATAGGAGAAATACCAACGAATATAAATAACAAGTGCAACTGTGTT
Found at i:18445197 original size:2 final size:2
Alignment explanation
Indices: 18445190--18445224 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
18445180 ACGTGCATTG
18445190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18445225 ATCCAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18447340 original size:19 final size:18
Alignment explanation
Indices: 18447301--18447341 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18447291 TTTTTGGTTA
*
18447301 TTTAAATATTTTTTACTT
1 TTTAAATATTTTTAACTT
18447319 TTTAAATTATTTTTAATCTT
1 TTTAAA-TATTTTTAA-CTT
18447339 TTT
1 TTT
18447342 TATAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAAATATTTTTAACTT
Found at i:18447444 original size:30 final size:30
Alignment explanation
Indices: 18447408--18447465 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
18447398 TGTTCCTTAT
18447408 TTGTTATTTCCATTATTAATCTATTTATTG
1 TTGTTATTTCCATTATTAATCTATTTATTG
*
18447438 TTGTTATTTTCATTATTAATCTATTTAT
1 TTGTTATTTCCATTATTAATCTATTTAT
18447466 GTTTGTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.09, G:0.05, T:0.62
Consensus pattern (30 bp):
TTGTTATTTCCATTATTAATCTATTTATTG
Found at i:18447472 original size:30 final size:29
Alignment explanation
Indices: 18447407--18447472 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 29
18447397 TTGTTCCTTA
18447407 TTTGTTATTTCCATTATTAATCTATTTAT
1 TTTGTTATTTCCATTATTAATCTATTTAT
*
18447436 TGTTGTTATTTTCATTATTAATCTATTTAT
1 T-TTGTTATTTCCATTATTAATCTATTTAT
18447466 GTTTGTT
1 -TTTGTT
18447473 GAATTTCTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 1 0.03
30 32 0.94
31 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.64
Consensus pattern (29 bp):
TTTGTTATTTCCATTATTAATCTATTTAT
Found at i:18447591 original size:101 final size:100
Alignment explanation
Indices: 18447420--18447728 Score: 457
Period size: 106 Copynumber: 3.0 Consensus size: 100
18447410 GTTATTTCCA
18447420 TTATTAATCTATTTA---TTG-TTGTTATTTTCATTATTAATCTATTTATGTTTGTTGAATTTCT
1 TTATTAATCTATTTATGTTTGTTTGTTA-TTTCATTATTAATCTATTTATGTTTGTTGAATTTCT
* * *
18447481 AGAGTTTTATGTGAAACTTGTGTGCCGTTCATAATG
65 AGATTTTTATGTGAAACGTGTGTGCCATTCATAATG
*
18447517 TTATTAATCTATTTATGTTTGTTTGTTATTTCAATTATTAATCTATTTATGTGTGTTGAATTTCT
1 TTATTAATCTATTTATGTTTGTTTGTTATTTC-ATTATTAATCTATTTATGTTTGTTGAATTTCT
18447582 AGATTTTTATGTGAAACGTGTGTGCCATTCATAATG
65 AGATTTTTATGTGAAACGTGTGTGCCATTCATAATG
18447618 TTATTTACTTAT-TATTTTTATGTTTGTTTGTTATTTCCATTATTAATCTATTTATGTTTGTTGA
1 TTA-TTA---ATCTA--TTTATGTTTGTTTGTTATTT-CATTATTAATCTATTTATGTTTGTTGA
*
18447682 ATTTCTATATTTTTATGTGAAACGTGTGTGCCATTCATAATG
59 ATTTCTAGATTTTTATGTGAAACGTGTGTGCCATTCATAATG
18447724 TTATT
1 TTATT
18447729 TACTTATTAT
Statistics
Matches: 194, Mismatches: 6, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
97 15 0.08
100 7 0.04
101 73 0.38
102 3 0.02
104 2 0.01
105 4 0.02
106 89 0.46
107 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.55
Consensus pattern (100 bp):
TTATTAATCTATTTATGTTTGTTTGTTATTTCATTATTAATCTATTTATGTTTGTTGAATTTCTA
GATTTTTATGTGAAACGTGTGTGCCATTCATAATG
Found at i:18447652 original size:30 final size:34
Alignment explanation
Indices: 18447616--18447679 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
18447606 CCATTCATAA
18447616 TGTTATTTAC-TTATT-AT-T-TTTATGTTTGTT
1 TGTTATTTACATTATTAATCTATTTATGTTTGTT
*
18447646 TGTTATTTCCATTATTAATCTATTTATGTTTGTT
1 TGTTATTTACATTATTAATCTATTTATGTTTGTT
18447680 GAATTTCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 9 0.31
31 5 0.17
32 2 0.07
33 1 0.03
34 12 0.41
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (34 bp):
TGTTATTTACATTATTAATCTATTTATGTTTGTT
Found at i:18448049 original size:13 final size:14
Alignment explanation
Indices: 18448033--18448065 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
18448023 TATTTTTTGG
18448033 AAATATCTTTGC-T
1 AAATATCTTTGCAT
*
18448046 AAATATGTTTGCAT
1 AAATATCTTTGCAT
18448060 AAATAT
1 AAATAT
18448066 TTTTATGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (14 bp):
AAATATCTTTGCAT
Found at i:18474071 original size:8 final size:9
Alignment explanation
Indices: 18474036--18474068 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
18474026 ATATTTGATC
18474036 TTTAAAATT
1 TTTAAAATT
*
18474045 TATAAAATT
1 TTTAAAATT
18474054 TTTAAAATT
1 TTTAAAATT
18474063 TTTAAA
1 TTTAAA
18474069 TTTAAAACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTAAAATT
Found at i:18474088 original size:21 final size:20
Alignment explanation
Indices: 18474063--18474114 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
18474053 TTTTAAAATT
18474063 TTTAAATT-TAAAACAGATATA
1 TTTAAATTATAAAA-A-ATATA
*
18474084 TTTAAATTATTAAAAATATA
1 TTTAAATTATAAAAAATATA
18474104 TTTAAATTATA
1 TTTAAATTATA
18474115 TATTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 15 0.54
21 9 0.32
22 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAATTATAAAAAATATA
Found at i:18474762 original size:25 final size:25
Alignment explanation
Indices: 18474734--18474796 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
18474724 AACAACTAAA
* *
18474734 ATTATTTATTAAAAATAAAATATAT
1 ATTATATATTAAAAATAAAAAATAT
** *
18474759 ATTATATATTTTAATTAAAAAATAT
1 ATTATATATTAAAAATAAAAAATAT
*
18474784 ATTTATAAATTAA
1 A-TTATATATTAA
18474797 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTATATATTAAAAATAAAAAATAT
Found at i:18474801 original size:25 final size:25
Alignment explanation
Indices: 18474749--18474798 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18474739 TTATTAAAAA
* **
18474749 TAAAATATATATTATATATTTTAAT
1 TAAAAAATATATTATATAAATTAAT
18474774 TAAAAAATATATT-TATAAATTAAT
1 TAAAAAATATATTATATAAATTAAT
18474798 T
1 T
18474799 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAAAAATATATTATATAAATTAAT
Found at i:18474836 original size:17 final size:17
Alignment explanation
Indices: 18474814--18474846 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18474804 TTTAATTATA
*
18474814 ATTTGAATAATTTTAAT
1 ATTTGAATAAATTTAAT
18474831 ATTTGAATAAATTTAA
1 ATTTGAATAAATTTAA
18474847 AATTATTTAA
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:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTGAATAAATTTAAT
Found at i:18474854 original size:28 final size:27
Alignment explanation
Indices: 18474779--18474859 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 27
18474769 TTAATTAAAA
* * *
18474779 AATATATTTATAAATTAATTTAATTTTT
1 AATAAATTTA-AAATTATTTTAATTTTG
* *
18474807 AATTATAATTT-GAATAATTTTAATATTTG
1 AA-TA-AATTTAAAATTATTTTAAT-TTTG
18474836 AATAAATTTAAAATTA-TTTAATTT
1 AATAAATTTAAAATTATTTTAATTT
18474860 GTAATTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
26 2 0.05
27 11 0.26
28 18 0.43
29 7 0.17
30 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
AATAAATTTAAAATTATTTTAATTTTG
Found at i:18474868 original size:27 final size:27
Alignment explanation
Indices: 18474784--18474868 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 27
18474774 TAAAAAATAT
*
18474784 ATTTATAAATTAATTTAATTTTTAATTATA
1 ATTTA-AAATT-ATTTAATTTGTAATTA-A
*
18474814 ATTTGAATAATT-TTAATATTTG-AA-TAA
1 ATTT-AA-AATTATTTA-ATTTGTAATTAA
18474841 ATTTAAAATTATTTAATTTGTAATTAA
1 ATTTAAAATTATTTAATTTGTAATTAA
18474868 A
1 A
18474869 ATAAACTATC
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
25 9 0.20
26 7 0.15
27 9 0.20
28 2 0.04
29 5 0.11
30 9 0.20
31 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
ATTTAAAATTATTTAATTTGTAATTAA
Found at i:18474970 original size:2 final size:2
Alignment explanation
Indices: 18474965--18474994 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
18474955 TATATGTGAT
18474965 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18474995 TAGATTTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18485079 original size:2 final size:2
Alignment explanation
Indices: 18485072--18485100 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18485062 TACAATAATT
18485072 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18485101 TCGTGGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18485382 original size:25 final size:27
Alignment explanation
Indices: 18485326--18485382 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
18485316 GAAAAGGATT
**
18485326 AAAAGAAATGTTGGGACCAAAAAAATTT
1 AAAAGAAATGTT-GGACCAAAAAAATCA
18485354 AAAAGAAATGTT-GA-CAAAAAAATCA
1 AAAAGAAATGTTGGACCAAAAAAATCA
18485379 AAAA
1 AAAA
18485383 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 13 0.48
26 2 0.07
28 12 0.44
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.18
Consensus pattern (27 bp):
AAAAGAAATGTTGGACCAAAAAAATCA
Found at i:18486583 original size:17 final size:16
Alignment explanation
Indices: 18486541--18486583 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
18486531 TTAACTTGAG
18486541 TTTCCTTTTTCTCTTT
1 TTTCCTTTTTCTCTTT
*
18486557 TTTCCATTTTCCTCTTT
1 TTTCC-TTTTTCTCTTT
*
18486574 TTTTCTTTTT
1 TTTCCTTTTT
18486584 TTTTTCTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCCTTTTTCTCTTT
Found at i:18504722 original size:42 final size:43
Alignment explanation
Indices: 18504676--18504766 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 43
18504666 TTATATTTAA
*
18504676 TAAATTATCAGTAAATTATATAATAA-TAA-TTT-AAAATA-ATTT
1 TAAATTATCAG-AAATTAAAT-ATAATTAATTTTAAAAATATA-TT
*
18504718 TAAATT-TTAGAAATTAAATATAATTAATTTTAAAAATATATT
1 TAAATTATCAGAAATTAAATATAATTAATTTTAAAAATATATT
18504760 TAAATTA
1 TAAATTA
18504767 AAATTTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
39 4 0.10
40 11 0.26
41 6 0.14
42 20 0.48
43 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (43 bp):
TAAATTATCAGAAATTAAATATAATTAATTTTAAAAATATATT
Found at i:18506136 original size:202 final size:187
Alignment explanation
Indices: 18505891--18506280 Score: 521
Period size: 190 Copynumber: 2.0 Consensus size: 187
18505881 ATCTAAAGAC
* * *
18505891 TTAAAATTTTAAATATTTTATGCTTATTATTGAGATAAGATTTTATTAATAAATAAATAAATAAA
1 TTAAAAGTTTAAATATTTTATGCTTACTATTGAGACAAGA--TT-TT-AT---T-AATAAATAAA
*
18505956 AGTTAAAATTAATCTATGTAATAATATATTTAAAATATTTCACA-TGTTAAATTTTAATTGAAAA
58 AGTTAAAATT-A---ATGTAATAATATATTTAAAATATGTCACACT-TTAAATTTTAATTGAAAA
* *
18506020 TTTTTATTAGAGGTCAAATTGTATAATATAATATCAATATAAGATTGTTAATATTTGAAGAAAAA
118 -TTTTATTAGAGGACAAATTGTATAATATAATAT-AATATAAGATTATTAATATTTGAAGAAAAA
18506085 TGTTTAAT
181 TG-TTAAT
*
18506093 TTAAAAGTTTAAATATTTTATTCTTACTATTGAGACAAGATTTTATTAATAAATAAAAGTTAAAA
1 TTAAAAGTTTAAATATTTTATGCTTACTATTGAGACAAGATTTTATTAATAAATAAAAGTTAAAA
* * * *
18506158 TTAATGTAATAATATATTTAAAATATGTCATACTTTACATTTTTATTGAATATTTTATTAGAGGA
66 TTAATGTAATAATATATTTAAAATATGTCACACTTTAAATTTTAATTGAAAATTTTATTAGAGGA
*
18506223 CAAATTGTATAATATAATATAATATAAGATTATTAATATTTGAAGAAAAGTGTTAAT
131 CAAATTGTATAATATAATATAATATAAGATTATTAATATTTGAAGAAAAATGTTAAT
18506280 T
1 T
18506281 AATATATAGT
Statistics
Matches: 175, Mismatches: 12, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
187 6 0.03
188 30 0.17
189 32 0.18
190 42 0.24
191 1 0.01
193 1 0.01
194 20 0.11
195 1 0.01
198 2 0.01
199 2 0.01
200 2 0.01
202 36 0.21
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (187 bp):
TTAAAAGTTTAAATATTTTATGCTTACTATTGAGACAAGATTTTATTAATAAATAAAAGTTAAAA
TTAATGTAATAATATATTTAAAATATGTCACACTTTAAATTTTAATTGAAAATTTTATTAGAGGA
CAAATTGTATAATATAATATAATATAAGATTATTAATATTTGAAGAAAAATGTTAAT
Found at i:18506940 original size:3 final size:3
Alignment explanation
Indices: 18506932--18506966 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
18506922 CGATGCTCTT
*
18506932 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
18506967 AAACATAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:18518518 original size:14 final size:15
Alignment explanation
Indices: 18518487--18518516 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18518477 TAATTTTTAA
*
18518487 TATATTTAAATAATT
1 TATATTAAAATAATT
18518502 TATATTAAAATAATT
1 TATATTAAAATAATT
18518517 ATTTTACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATTAAAATAATT
Found at i:18518557 original size:10 final size:10
Alignment explanation
Indices: 18518544--18518580 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
18518534 TTAATTTCAA
18518544 TTTAATTTTT
1 TTTAATTTTT
*
18518554 TTTATTTTTT
1 TTTAATTTTT
18518564 TTTAATTTTT
1 TTTAATTTTT
*
18518574 TATAATT
1 TTTAATT
18518581 CAATTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:18519677 original size:16 final size:16
Alignment explanation
Indices: 18519652--18519682 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18519642 TATAAAAAAA
18519652 AAAAAAGTTGAAATTC
1 AAAAAAGTTGAAATTC
*
18519668 AAAAACGTTGAAATT
1 AAAAAAGTTGAAATT
18519683 TAATTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (16 bp):
AAAAAAGTTGAAATTC
Found at i:18528059 original size:11 final size:11
Alignment explanation
Indices: 18528043--18528074 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18528033 TAAGTGTAAA
18528043 ATTTATATAAT
1 ATTTATATAAT
18528054 ATTTATATAAT
1 ATTTATATAAT
18528065 -TTTATATAAT
1 ATTTATATAAT
18528075 TGAACTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTATATAAT
Found at i:18528070 original size:10 final size:10
Alignment explanation
Indices: 18528044--18528075 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
18528034 AAGTGTAAAA
18528044 TTTATATAAT
1 TTTATATAAT
18528054 ATTTATATAAT
1 -TTTATATAAT
18528065 TTTATATAAT
1 TTTATATAAT
18528075 T
1 T
18528076 GAACTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATATAAT
Found at i:18528209 original size:36 final size:36
Alignment explanation
Indices: 18528169--18528254 Score: 103
Period size: 35 Copynumber: 2.5 Consensus size: 36
18528159 ATAATGAGAT
18528169 TAATTACAATGAAATTTAAAA-TAATAATAATTATTA
1 TAATTACAATGAAATTTAAAATTAATAATAATT-TTA
18528205 TAATTACAATTGAAA---AAAATTAATAATAATTTTA
1 TAATTACAA-TGAAATTTAAAATTAATAATAATTTTA
*
18528239 T-ATTA-AATGAATTTTA
1 TAATTACAATGAAATTTA
18528255 TTAAAATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
31 4 0.09
32 2 0.05
33 4 0.09
34 9 0.20
35 11 0.25
36 9 0.20
37 5 0.11
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (36 bp):
TAATTACAATGAAATTTAAAATTAATAATAATTTTA
Found at i:18528253 original size:16 final size:16
Alignment explanation
Indices: 18528232--18528278 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18528222 AATTAATAAT
18528232 AATTTTATATTAAATG
1 AATTTTATATTAAATG
* *
18528248 AATTTTAT-TAAAATT
1 AATTTTATATTAAATG
*
18528263 AATATTTAAATTAAAT
1 AAT-TTTATATTAAAT
18528279 TAATGATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 8 0.32
16 12 0.48
17 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AATTTTATATTAAATG
Found at i:18528278 original size:17 final size:16
Alignment explanation
Indices: 18528221--18528282 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
18528211 CAATTGAAAA
*
18528221 AAATTAATAATAATTTT
1 AAATTAA-ATTAATTTT
* *
18528238 ATATTAAATGAATTTT
1 AAATTAAATTAATTTT
18528254 --ATTAAAATTAATATTT
1 AAATT-AAATTAAT-TTT
18528270 AAATTAAATTAAT
1 AAATTAAATTAAT
18528283 GATGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.08
15 7 0.19
16 10 0.27
17 14 0.38
18 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AAATTAAATTAATTTT
Found at i:18528561 original size:24 final size:21
Alignment explanation
Indices: 18528534--18528587 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 21
18528524 AAAATATTAG
18528534 TTTAAAATTTATATGTAATAAAAA
1 TTTAAAATTTA-AT-TAA-AAAAA
*
18528558 TTTAAATTATTTAATTAAAAAAT
1 TTTAAA--ATTTAATTAAAAAAA
18528581 TTTAAAA
1 TTTAAAA
18528588 AATATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 1 0.04
23 10 0.37
24 9 0.33
25 2 0.07
26 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAAAATTTAATTAAAAAAA
Found at i:18529919 original size:20 final size:20
Alignment explanation
Indices: 18529859--18529919 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
18529849 TAGTGGAATG
*
18529859 ATTCGAAATTTAATTTAATT
1 ATTCAAAATTTAATTTAATT
* ** * *
18529879 ATT-ATAGCTAAACTTTTATT
1 ATTCAAAATTTAA-TTTAATT
18529899 ATTCAAAATTTAATTTAATT
1 ATTCAAAATTTAATTTAATT
18529919 A
1 A
18529920 ATTAATTAAA
Statistics
Matches: 28, Mismatches: 11, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 4 0.14
20 19 0.68
21 5 0.18
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTCAAAATTTAATTTAATT
Found at i:18530676 original size:28 final size:29
Alignment explanation
Indices: 18530636--18530693 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
18530626 ATATTAAACT
18530636 TAATATAAAATTATATTATTTAATC-TAA
1 TAATATAAAATTATATTATTTAATCATAA
* * * *
18530664 TAATATTATATTATTTTATTTTATCATAA
1 TAATATAAAATTATATTATTTAATCATAA
18530693 T
1 T
18530694 CATACATATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATATAAAATTATATTATTTAATCATAA
Found at i:18530702 original size:28 final size:28
Alignment explanation
Indices: 18530636--18530702 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 28
18530626 ATATTAAACT
* *
18530636 TAATATAAAATTATATTATTTAATCTAA
1 TAATATCATATTATATTATTTAATCTAA
* * *
18530664 TAATATTATATTATTTTATTTTATCATAA
1 TAATATCATATTATATTATTTAATC-TAA
*
18530693 TCATA-CATAT
1 TAATATCATAT
18530703 CAAATATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (28 bp):
TAATATCATATTATATTATTTAATCTAA
Found at i:18535354 original size:22 final size:22
Alignment explanation
Indices: 18535303--18535354 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
18535293 CTGATATTAT
18535303 TTATAAAA-ATTAATATTTAAA
1 TTATAAAATATTAATATTTAAA
* * *
18535324 TTATCAAATATTATTTATTTTAA
1 TTATAAAATATTA-ATATTTAAA
18535347 -TATAAAAT
1 TTATAAAAT
18535355 TTTTATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 7 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATAAAATATTAATATTTAAA
Found at i:18536127 original size:17 final size:17
Alignment explanation
Indices: 18536105--18536142 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18536095 AATGCAAGCT
18536105 AAATGAACA-AATCCGAA
1 AAATGAA-ATAATCCGAA
*
18536122 AAATGAAATAATCTGAA
1 AAATGAAATAATCCGAA
18536139 AAAT
1 AAAT
18536143 ACGGAAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (17 bp):
AAATGAAATAATCCGAA
Found at i:18537450 original size:15 final size:15
Alignment explanation
Indices: 18537430--18537466 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
18537420 GGTTGATGTG
*
18537430 TAACCAATTCACTGT
1 TAACCAATTCACTAT
18537445 TAACCAATTCACTAT
1 TAACCAATTCACTAT
18537460 TAACCAA
1 TAACCAA
18537467 ATAAATACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.30
Consensus pattern (15 bp):
TAACCAATTCACTAT
Found at i:18537614 original size:24 final size:24
Alignment explanation
Indices: 18537575--18537642 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
18537565 TAGAATTTAA
18537575 TAAATTTTAATT-AAATAATAATTT
1 TAAA-TTTAATTAAAATAATAATTT
*
18537599 TAAATTTAATTAAAATTATAATTT
1 TAAATTTAATTAAAATAATAATTT
* *
18537623 TAACCTTTAAATAAAATAAT
1 TAA-ATTTAATTAAAATAAT
18537643 TAAAACTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 7 0.18
24 18 0.47
25 13 0.34
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAATTTAATTAAAATAATAATTT
Found at i:18537615 original size:18 final size:17
Alignment explanation
Indices: 18537568--18537625 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
18537558 TTATAATTAG
18537568 AATTTAAT-AAATTTT-
1 AATTTAATAAAATTTTA
*
18537583 AATTAAATAATAATTTTA
1 AATTTAATAA-AATTTTA
*
18537601 AATTTAATTAAAATTATA
1 AATTTAA-TAAAATTTTA
*
18537619 ATTTTAA
1 AATTTAA
18537626 CCTTTAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 7 0.20
16 1 0.03
17 6 0.17
18 18 0.51
19 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAATAAAATTTTA
Found at i:18538094 original size:13 final size:13
Alignment explanation
Indices: 18538078--18538104 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18538068 CTTCTCTCTA
18538078 TCTCTCTCTACTT
1 TCTCTCTCTACTT
18538091 TCTCTCTCTACTT
1 TCTCTCTCTACTT
18538104 T
1 T
18538105 GGTCTCATTA
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:0.07, C:0.37, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTCTCTCTACTT
Found at i:18539879 original size:12 final size:13
Alignment explanation
Indices: 18539862--18539893 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18539852 TTTTATGATA
18539862 TAAATATAA-AAT
1 TAAATATAATAAT
18539874 TAAATA-AATAAT
1 TAAATATAATAAT
18539886 TAAATATA
1 TAAATATA
18539894 TATCAGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATATAATAAT
Found at i:18541649 original size:21 final size:21
Alignment explanation
Indices: 18541559--18541650 Score: 59
Period size: 21 Copynumber: 4.5 Consensus size: 21
18541549 CTCAATTTAA
*
18541559 TAAATATATTTAAA-AAAATAA
1 TAAA-ATATTTAAATAAAATAT
* * * *
18541580 AAAAATTTTTCATTAAAATA-
1 TAAAATATTTAAATAAAATAT
*
18541600 TAAAA-ATTT-AATTAAAT-T
1 TAAAATATTTAAATAAAATAT
*
18541618 CAAAAATTATTTAAATAAAATAT
1 -TAAAA-TATTTAAATAAAATAT
18541641 TAAAATATTT
1 TAAAATATTT
18541651 GAATCCGACT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
18 6 0.11
19 7 0.13
20 10 0.19
21 18 0.34
22 11 0.21
23 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAATATTTAAATAAAATAT
Found at i:18541730 original size:22 final size:23
Alignment explanation
Indices: 18541704--18541755 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
18541694 ACAGTGAATG
*
18541704 AATTAAATTTAAAT-TTTATTTA
1 AATTAAATTTAAATATTTATTAA
18541726 AATTAAATTTAAATAATTTATTAA
1 AATTAAATTTAAAT-ATTTATTAA
18541750 AATTAA
1 AATTAA
18541756 TGTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 14 0.52
24 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTAAATTTAAATATTTATTAA
Found at i:18545111 original size:12 final size:12
Alignment explanation
Indices: 18545094--18545118 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18545084 TGAATATAAA
18545094 TGTTTTTTTTTT
1 TGTTTTTTTTTT
18545106 TGTTTTTTTTTT
1 TGTTTTTTTTTT
18545118 T
1 T
18545119 ATATACTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TGTTTTTTTTTT
Found at i:18554239 original size:37 final size:37
Alignment explanation
Indices: 18554197--18554280 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
18554187 TTTATACTTA
*
18554197 TTGAAACATTGGATATATATGGATGCCTAATTTTTAT
1 TTGAAACATTGGATATATATGGAGGCCTAATTTTTAT
18554234 TTGAAACATTGGATATATATGGAGGCCTAATTTTTAT
1 TTGAAACATTGGATATATATGGAGGCCTAATTTTTAT
**
18554271 TACAAACATT
1 TTGAAACATT
18554281 AATATTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (37 bp):
TTGAAACATTGGATATATATGGAGGCCTAATTTTTAT
Found at i:18556383 original size:59 final size:58
Alignment explanation
Indices: 18556321--18556740 Score: 304
Period size: 58 Copynumber: 7.0 Consensus size: 58
18556311 TTTTTTTTAA
* *
18556321 AAAAATTGATACTTTCAA-TTCTTCTTCAAACA-AACATTTCTTGAAAGTTTTATTTTCAAA
1 AAAAATTAATACTTTCAACTT-TTCTTCAAA-AGAAC-TTT-TTGAAAGTTTTATTTTCAAG
* * * * *
18556381 AAAAATTTAGACTTTCAACTTTTCCTCAAAATATTCTTTTTGAAAGTTTTATTTTCAAG
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAGA-ACTTTTTGAAAGTTTTATTTTCAAG
* * ** *
18556440 AAAAATTAATACTCTCAACTTTT-TCTCAAAATATTTTTTTGAAAATTTTATTTTCAAG
1 AAAAATTAATACTTTCAACTTTTCT-TCAAAAGAACTTTTTGAAAGTTTTATTTTCAAG
* * *
18556498 GAAAATTTATACTTTCAACTTTTCTTCAAAAGTACTTTTTGAAA-TCTTTATTTTCAAG
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAGAACTTTTTGAAAGT-TTTATTTTCAAG
* *
18556556 AAAAATTAATATTTTCAACTTTTCCTT-AAAA-ATACTTTTTTGAAATCTCATTTTTATTTTATT
1 AAAAATTAATACTTTCAACTTTT-CTTCAAAAGA-AC-TTTTTG-AA----A-----GTTTTATT
18556619 TTCAAG
53 TTCAAG
* * * * ** *
18556625 AAAAATTGATACTTTCAATTTTTCATCAAAA-ATACTTTTTTTAAA-TATAAATTTTTAAG
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAGA-AC-TTTTTGAAAGT-TTTATTTTCAAG
* * *
18556684 AAAAATTGATACTTTCAACTTTTC-TCAAAA-ATATTTTTTGAAAATTTTATTTT-AAG
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAGA-ACTTTTTGAAAGTTTTATTTTCAAG
18556740 A
1 A
18556741 GAATTGTTGA
Statistics
Matches: 302, Mismatches: 35, Indels: 50
0.78 0.09 0.13
Matches are distributed among these distances:
56 4 0.01
57 15 0.05
58 107 0.35
59 90 0.30
60 30 0.10
61 3 0.01
64 2 0.01
68 4 0.01
69 46 0.15
70 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (58 bp):
AAAAATTAATACTTTCAACTTTTCTTCAAAAGAACTTTTTGAAAGTTTTATTTTCAAG
Found at i:18556503 original size:18 final size:19
Alignment explanation
Indices: 18556480--18556515 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18556470 ATATTTTTTT
*
18556480 GAAAATTT-TATTTTCAAG
1 GAAAATTTATACTTTCAAG
18556498 GAAAATTTATACTTTCAA
1 GAAAATTTATACTTTCAA
18556516 CTTTTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (19 bp):
GAAAATTTATACTTTCAAG
Found at i:18556736 original size:127 final size:127
Alignment explanation
Indices: 18556484--18556726 Score: 346
Period size: 127 Copynumber: 1.9 Consensus size: 127
18556474 TTTTTTGAAA
* * * * * **
18556484 ATTTTATTTTCAAGGAAAATTTATACTTTCAACTTTTCTTCAAAAGTACTTTTTGAAATCTTTAT
1 ATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATACTTTTTGAAATATAAAT
* *
18556549 TTTCAAGAAAAATTAATATTTTCAACTTTTCCTTAAAAATACTTTTTTGAAATCTCATTTTT
66 TTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAATCTCATTTTT
* *
18556611 ATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCATCAAAAATACTTTTTTTAAATATAAA
1 ATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATAC-TTTTTGAAATATAAA
* *
18556676 TTTTTAAGAAAAATTGATACTTTCAACTTTT-CTCAAAAATA-TTTTTTGAAA
65 TTTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAA
18556727 ATTTTATTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
126 10 0.10
127 53 0.52
128 39 0.38
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (127 bp):
ATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATACTTTTTGAAATATAAAT
TTTCAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAATCTCATTTTT
Found at i:18563593 original size:7 final size:7
Alignment explanation
Indices: 18563581--18563611 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18563571 AACAACCCCT
18563581 CAGGCCC
1 CAGGCCC
18563588 CAGGCCC
1 CAGGCCC
18563595 CAGGCCC
1 CAGGCCC
18563602 CAGGCCC
1 CAGGCCC
18563609 CAG
1 CAG
18563612 CAGACCCGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.55, G:0.29, T:0.00
Consensus pattern (7 bp):
CAGGCCC
Found at i:18570041 original size:314 final size:314
Alignment explanation
Indices: 18569636--18570267 Score: 1246
Period size: 314 Copynumber: 2.0 Consensus size: 314
18569626 CAATAATTTT
*
18569636 CACAAATGGAGAAATTTTTCCAAAATTGAATGGGCCCTAATCATGCTTTCAAGAGGGAAAATCCA
1 CACAAATGGAGAAAATTTTCCAAAATTGAATGGGCCCTAATCATGCTTTCAAGAGGGAAAATCCA
18569701 AGAATACATGAATTCAATCTCCTTGTGTTGTCAAGATAAGAAAAGTCTGAAAAGAGATTGATGGT
66 AGAATACATGAATTCAATCTCCTTGTGTTGTCAAGATAAGAAAAGTCTGAAAAGAGATTGATGGT
18569766 TGACTGCAATGAAAATTCATAAATAAAAGACCTCCAAATACCCCCTTGCGAAGATGTGACTTGAT
131 TGACTGCAATGAAAATTCATAAATAAAAGACCTCCAAATACCCCCTTGCGAAGATGTGACTTGAT
*
18569831 AGATATACGCATGTCAAGAGAATGAGAGCAGGACTGAAGCGGGCATGGATGGAAACTACAAACGA
196 AGATATACGCATGTCAAGAGAATGAGAGCAGGACTGAAGCGGGCATGGATCGAAACTACAAACGA
18569896 AGACCTCAAGGTATTAAGCTTACTAAGGATATTGTCTAGAATTAGGCACAGTGG
261 AGACCTCAAGGTATTAAGCTTACTAAGGATATTGTCTAGAATTAGGCACAGTGG
18569950 CACAAATGGAGAAAATTTTCCAAAATTGAATGGGCCCTAATCATGCTTTCAAGAGGGAAAATCCA
1 CACAAATGGAGAAAATTTTCCAAAATTGAATGGGCCCTAATCATGCTTTCAAGAGGGAAAATCCA
18570015 AGAATACATGAATTCAATCTCCTTGTGTTGTCAAGATAAGAAAAGTCTGAAAAGAGATTGATGGT
66 AGAATACATGAATTCAATCTCCTTGTGTTGTCAAGATAAGAAAAGTCTGAAAAGAGATTGATGGT
18570080 TGACTGCAATGAAAATTCATAAATAAAAGACCTCCAAATACCCCCTTGCGAAGATGTGACTTGAT
131 TGACTGCAATGAAAATTCATAAATAAAAGACCTCCAAATACCCCCTTGCGAAGATGTGACTTGAT
18570145 AGATATACGCATGTCAAGAGAATGAGAGCAGGACTGAAGCGGGCATGGATCGAAACTACAAACGA
196 AGATATACGCATGTCAAGAGAATGAGAGCAGGACTGAAGCGGGCATGGATCGAAACTACAAACGA
18570210 AGACCTCAAGGTATTAAGCTTACTAAGGATATTGTCTAGAATTAGGCACAGTGG
261 AGACCTCAAGGTATTAAGCTTACTAAGGATATTGTCTAGAATTAGGCACAGTGG
18570264 CACA
1 CACA
18570268 TTATAATCCA
Statistics
Matches: 316, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
314 316 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (314 bp):
CACAAATGGAGAAAATTTTCCAAAATTGAATGGGCCCTAATCATGCTTTCAAGAGGGAAAATCCA
AGAATACATGAATTCAATCTCCTTGTGTTGTCAAGATAAGAAAAGTCTGAAAAGAGATTGATGGT
TGACTGCAATGAAAATTCATAAATAAAAGACCTCCAAATACCCCCTTGCGAAGATGTGACTTGAT
AGATATACGCATGTCAAGAGAATGAGAGCAGGACTGAAGCGGGCATGGATCGAAACTACAAACGA
AGACCTCAAGGTATTAAGCTTACTAAGGATATTGTCTAGAATTAGGCACAGTGG
Found at i:18573835 original size:21 final size:20
Alignment explanation
Indices: 18573806--18573846 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
18573796 AAATATTCAC
**
18573806 TTTTTAATTTTTCAAATAAA
1 TTTTTAATTTTGAAAATAAA
18573826 TTTTTAAATTTTGAAAATAAA
1 TTTTT-AATTTTGAAAATAAA
18573847 ATATTTTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTTAATTTTGAAAATAAA
Found at i:18575192 original size:21 final size:21
Alignment explanation
Indices: 18575138--18575192 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
18575128 TAAAATAATT
18575138 ATTTATATATAAATCTATTTAA
1 ATTTATATA-AAATCTATTTAA
*
18575160 ATATATCA-AAAAT-TATATTAA
1 ATTTAT-ATAAAATCTAT-TTAA
18575181 ATTTATATAAAA
1 ATTTATATAAAA
18575193 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 4 0.14
21 17 0.61
22 6 0.21
23 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATATAAAATCTATTTAA
Found at i:18577562 original size:2 final size:2
Alignment explanation
Indices: 18577555--18577581 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18577545 TTAGCGTTTC
18577555 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
18577582 AAACAATCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:18584350 original size:30 final size:30
Alignment explanation
Indices: 18584328--18584435 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 30
18584318 ATTTAAGTGA
*
18584328 AAATTAAAAGATAATAATTTATTTGAATAT
1 AAATTAAAAGATAAAAATTTATTTGAATAT
** * *
18584358 AAATTAAAATTTAAAAATTTATTTGCATGCT
1 AAATTAAAAGATAAAAATTTATTTGAAT-AT
* * *
18584389 AAA--CAAAGTTAAAAACTTATTTGAATAT
1 AAATTAAAAGATAAAAATTTATTTGAATAT
*
18584417 -AA-TAAAAGTTTAAAAATTT
1 AAATTAAAAG-ATAAAAATTT
18584436 TTATTGGCCC
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
27 2 0.03
28 5 0.08
29 28 0.44
30 24 0.38
31 4 0.06
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (30 bp):
AAATTAAAAGATAAAAATTTATTTGAATAT
Found at i:18584429 original size:29 final size:29
Alignment explanation
Indices: 18584346--18584432 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
18584336 AGATAATAAT
*
18584346 TTATTTGAATATAAATTAAAA-TTTAAAAAT
1 TTATTTGAATAT-AA-TAAAAGTTTAAAAAC
* *
18584376 TTATTTGCATGCTAA-ACAAAG-TTAAAAAC
1 TTATTTGAAT-ATAATA-AAAGTTTAAAAAC
18584405 TTATTTGAATATAATAAAAGTTTAAAAA
1 TTATTTGAATATAATAAAAGTTTAAAAA
18584433 TTTTTATTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 8 0.17
29 27 0.57
30 11 0.23
31 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (29 bp):
TTATTTGAATATAATAAAAGTTTAAAAAC
Found at i:18586774 original size:54 final size:54
Alignment explanation
Indices: 18586664--18586793 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
18586654 TTATGGTGAG
* * *** *
18586664 AGGAGAAGGGAGAAGGAGCAAGAGAGGAGTAGGGAAAGAAACATGGGTGGTGAA
1 AGGAGAAGGGAGAAGGAGCGAGAGAGGACTAGGGAAAGAAACATGGAAAGTAAA
* *
18586718 AGGAGAAGGGAGAAAGAGCGAGAGAGGACTAGGGAGAGAGAAC-TGGAAAGTAAA
1 AGGAGAAGGGAGAAGGAGCGAGAGAGGACTAGGGAAAGA-AACATGGAAAGTAAA
**
18586772 AGGAGAATAGAGAAGGAGCGAG
1 AGGAGAAGGGAGAAGGAGCGAG
18586794 GGAAGAACAG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 61 0.95
55 3 0.05
ACGTcount: A:0.45, C:0.05, G:0.45, T:0.06
Consensus pattern (54 bp):
AGGAGAAGGGAGAAGGAGCGAGAGAGGACTAGGGAAAGAAACATGGAAAGTAAA
Found at i:18588370 original size:2 final size:2
Alignment explanation
Indices: 18588363--18588427 Score: 66
Period size: 2 Copynumber: 34.5 Consensus size: 2
18588353 GTCTGTTTAT
* * * *
18588363 TA TA TA TA TA TA TA TA TG TA TT TA TG TT TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18588404 TA T- TA TA TA T- TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18588428 TATGTATGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
1 4 0.08
2 48 0.92
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (2 bp):
TA
Found at i:18588428 original size:14 final size:14
Alignment explanation
Indices: 18588360--18588430 Score: 74
Period size: 14 Copynumber: 4.9 Consensus size: 14
18588350 TAAGTCTGTT
18588360 TATTATATA-TATA
1 TATTATATATTATA
*
18588373 TATATATGTATT-TA
1 TAT-TATATATTATA
*
18588387 TGTTTATATATATATTA
1 T-ATTATATAT-TA-TA
18588404 TATTATATATTATA
1 TATTATATATTATA
18588418 TATTATATATTAT
1 TATTATATATTAT
18588431 GTATGTTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
13 3 0.06
14 29 0.60
15 5 0.10
16 8 0.17
17 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATTATATATTATA
Found at i:18600406 original size:195 final size:195
Alignment explanation
Indices: 18600071--18600462 Score: 678
Period size: 195 Copynumber: 2.0 Consensus size: 195
18600061 ATTTAACATT
*
18600071 AAGGAGTATCCCTTTTTGGGTTTTCCCTGATTCAGAATTTTCCCATTTTCTTAAAAATTGTAAAA
1 AAGGAGTATCCCTTTTTGGGTTTTCCCTGATTCAGAATTTTCCCATTTTCTTAAAAATCGTAAAA
18600136 CATCACCTTGCCATGTTCCACAGAAATAATTCAAAAATTTTTCTTTTGACCATGTATCTTTATAA
66 CATCACCTTGCCATGTTCCACAGAAATAATTCAAAAATTTTTCTTTTGACCATGTATCTTTATAA
* *
18600201 CCGGTTACAACAATGGACATAGATTGTGCCCAATCTTCTATGGTTTTTCCATATTCAGAAATAGG
131 CCGATTACAACAATGGACATAGAGTGTGCCCAATCTTCTATGGTTTTTCCATATTCAGAAATAGG
*
18600266 AAGGAGTATCCCTTTTTGGGTTTTCCCTGATT-ATGAATTTTTCCATTTTCTTAAAAATCGTAAA
1 AAGGAGTATCCCTTTTTGGGTTTTCCCTGATTCA-GAATTTTCCCATTTTCTTAAAAATCGTAAA
* * ** *
18600330 ATATCACCTTGCCATGTTTCGTAGAAATAATTCAAAAATTTTTCTTTTGCCCATGTATCTTTATA
65 ACATCACCTTGCCATGTTCCACAGAAATAATTCAAAAATTTTTCTTTTGACCATGTATCTTTATA
*
18600395 ACCGATTACAACAATGGACATAGAGTGTGCCCAATCTTTTATGGTTTTTCCATATTCAGAAATAG
130 ACCGATTACAACAATGGACATAGAGTGTGCCCAATCTTCTATGGTTTTTCCATATTCAGAAATAG
18600460 G
195 G
18600461 AA
1 AA
18600463 CTTCATATAG
Statistics
Matches: 186, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
194 1 0.01
195 185 0.99
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (195 bp):
AAGGAGTATCCCTTTTTGGGTTTTCCCTGATTCAGAATTTTCCCATTTTCTTAAAAATCGTAAAA
CATCACCTTGCCATGTTCCACAGAAATAATTCAAAAATTTTTCTTTTGACCATGTATCTTTATAA
CCGATTACAACAATGGACATAGAGTGTGCCCAATCTTCTATGGTTTTTCCATATTCAGAAATAGG
Found at i:18609078 original size:9 final size:10
Alignment explanation
Indices: 18609064--18609126 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
18609054 CATTTACACT
18609064 TTTATT-TTA
1 TTTATTATTA
18609073 TTTA-T-TTA
1 TTTATTATTA
18609081 TTTATTATTA
1 TTTATTATTA
*
18609091 -CTATTATTA
1 TTTATTATTA
*
18609100 TTTATTAATA
1 TTTATTATTA
*
18609110 TATATTTATTA
1 TTTA-TTATTA
*
18609121 ATTATT
1 TTTATT
18609127 TATCTATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
8 8 0.19
9 13 0.30
10 15 0.35
11 7 0.16
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATTATTA
Found at i:18609115 original size:29 final size:28
Alignment explanation
Indices: 18609066--18609187 Score: 80
Period size: 29 Copynumber: 4.5 Consensus size: 28
18609056 TTTACACTTT
*
18609066 TATT-TTATTTATT--TATTTATTATTA
1 TATTATTATTTATTAATATATATTATTA
18609091 CTATTATTATTTATTAATATATATTTATTA
1 -TATTATTATTTATTAATATATA-TTATTA
* * *
18609121 -ATTATTTATCTATTAACATATTTTA-T-
1 TATTA-TTATTTATTAATATATATTATTA
* *
18609147 TA-T-TTATCTATTAATATATTTTAATATA
1 TATTATTATTTATTAATATATATT-AT-TA
*
18609175 TTTTATTATTTAT
1 TATTATTATTTAT
18609188 CTATTAAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
24 18 0.23
25 1 0.01
26 5 0.06
27 12 0.16
28 8 0.10
29 20 0.26
30 13 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (28 bp):
TATTATTATTTATTAATATATATTATTA
Found at i:18609119 original size:24 final size:24
Alignment explanation
Indices: 18609064--18609182 Score: 82
Period size: 27 Copynumber: 4.7 Consensus size: 24
18609054 CATTTACACT
* *
18609064 TTTATT-TTATTTATTTATTTATTA
1 TTTATTATTATTTATTAATATA-TA
18609088 TTACTATTATTATTTATTAATATATA
1 TT--TATTATTATTTATTAATATATA
* *
18609114 TTTATTAATTATTTATCTATTAACATA
1 TTTATT-ATTATTTAT-TAAT-ATATA
*
18609141 TTTTATTATTTATCTATTAATATAT-
1 -TTTATTA-TTATTTATTAATATATA
*
18609166 TTTAATA-TATTTTATTA
1 TTTATTATTA-TTTATTA
18609183 TTTATCTATT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
22 2 0.03
23 6 0.08
24 12 0.16
25 9 0.12
26 14 0.18
27 21 0.27
28 13 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTATTATTATTTATTAATATATA
Found at i:18609192 original size:8 final size:7
Alignment explanation
Indices: 18609070--18609192 Score: 52
Period size: 8 Copynumber: 15.7 Consensus size: 7
18609060 CACTTTTATT
18609070 TTATTTA
1 TTATTTA
18609077 TTTATTTA
1 -TTATTTA
18609085 TTA-TTA
1 TTATTTA
*
18609091 CTA-TTA
1 TTATTTA
18609097 TTATTTA
1 TTATTTA
18609104 TTAATATATA
1 TT-AT-T-TA
*
18609114 TTTATTAA
1 -TTATTTA
18609122 TTATTTA
1 TTATTTA
*
18609129 TCTATTAA
1 T-TATTTA
*
18609137 CATATTTTA
1 -TTA-TTTA
18609146 TTATTTA
1 TTATTTA
*
18609153 TCTATTAA
1 T-TATTTA
18609161 TATATTTTAA
1 T-TA-TTT-A
18609171 TATATTTTA
1 T-TA-TTTA
18609180 TTATTTA
1 TTATTTA
18609187 TCTATT
1 T-TATT
18609193 AAAATAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
6 10 0.11
7 25 0.27
8 33 0.36
9 9 0.10
10 13 0.14
11 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (7 bp):
TTATTTA
Found at i:18610120 original size:60 final size:59
Alignment explanation
Indices: 18610049--18610205 Score: 140
Period size: 60 Copynumber: 2.6 Consensus size: 59
18610039 ACATTTTTTT
* *
18610049 ATTTTTCTTAAAATTAAAGTTTCAAAAAAAAATATTTTCAAGGAAAAGTTGAAAGTATCA
1 ATTTTTTTTAAAATTAAAATTTCAAAAAAAAATATTTT-AAGGAAAAGTTGAAAGTATCA
* * * * *
18610109 ATTTTTTTTAAAATAAAAATATT-TAAAAAACATATTTTTAGGGAGAAA-TTGAAAGTGTCA
1 ATTTTTTTTAAAATTAAAAT-TTCAAAAAAAAATA-TTTTAAGGA-AAAGTTGAAAGTATCA
* ** * * *
18610169 ATTTTCTTTGGAAGTAAAATTTCTAAAATAAAT-TTTT
1 ATTTTTTTTAAAATTAAAATTTCAAAAAAAAATATTTT
18610206 CAAAAAGTAT
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
58 4 0.05
59 2 0.03
60 64 0.81
61 9 0.11
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.39
Consensus pattern (59 bp):
ATTTTTTTTAAAATTAAAATTTCAAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCA
Found at i:18610319 original size:60 final size:58
Alignment explanation
Indices: 18610207--18610367 Score: 198
Period size: 60 Copynumber: 2.7 Consensus size: 58
18610197 TAAATTTTTC
* * *
18610207 AAAAAGTATTTTTAAAAAAAGTTGAAAGTATCAATTTTTATTAAAATTAAAATT-TCAAA
1 AAAAAATA-TTTTAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAATTATC-AA
* * *
18610266 AAAAAATATTTTGAGAAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAA
1 AAAAAATATTTT-AAAAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAAATTATCAA
* *
18610326 GAAAAACATTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAATATTTTAAA-AAAAGTTGAAAGTATCAATTTTTCTT
18610368 GTACAAAAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
58 4 0.05
59 34 0.39
60 47 0.54
61 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (58 bp):
AAAAAATATTTTAAAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAATTATCAA
Found at i:18621922 original size:41 final size:41
Alignment explanation
Indices: 18621869--18622121 Score: 275
Period size: 41 Copynumber: 6.1 Consensus size: 41
18621859 GTGATTGTCA
* * *
18621869 AGGAGCCATTTATTTTTCAAAGTTGTGATGTCTCTTTTTAG
1 AGGAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAG
* *
18621910 AAGAGCAATTTATTTCTCAAAGTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTT-GTGATGCCTCTGTTTAG
** *
18621950 AGGAGTTATTTATTTTTTCAAAGTTGTTGA-GCCTCTATTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTTG-TGATGCCTCTGTTTAG
* *
18621992 AGAAGCAATTTA-TTTTCAAAAGTTATGATGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGTTGTGATGCCTCTGTTTAG
** * *
18622033 AGGAGTTATTTATTTTTTCAAAGTTATTGA-GCCTTTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTT-GTGATGCCTCTGTTTAG
18622075 AGGAGCAATTTA-TTTTCAAAAGTTGTGATGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGTTGTGATGCCTCTGTTTAG
18622116 AGGAGC
1 AGGAGC
18622122 TTTGTTTATT
Statistics
Matches: 176, Mismatches: 24, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
40 37 0.21
41 82 0.47
42 49 0.28
43 8 0.05
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.43
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAG
Found at i:18621991 original size:42 final size:41
Alignment explanation
Indices: 18621876--18622194 Score: 265
Period size: 41 Copynumber: 7.6 Consensus size: 41
18621866 TCAAGGAGCC
* * * **
18621876 ATTTATTTTTCAAAGTTG-TGATGTCTCTTTTTAGAAGAGCA
1 ATTTATTTTTCAAAGTTGTTGA-GCCTCTGTTTAGAGGAGTT
*
18621917 ATTTATTTCTCAAAGTTCGTT--GCCTCTGTTTAGAGGAGTT
1 ATTTATTTTTCAAAGTT-GTTGAGCCTCTGTTTAGAGGAGTT
* * **
18621957 ATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCA
1 ATTTA-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGTT
*
18621999 ATTTA-TTTTCAAAAGTT-ATGATGCCTCTGTTTAGAGGAGTT
1 ATTTATTTTTC-AAAGTTGTTGA-GCCTCTGTTTAGAGGAGTT
* * **
18622040 ATTTATTTTTTCAAAGTTATTGAGCCTTTGTTTAGAGGAGCA
1 ATTTA-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGTT
18622082 ATTTA-TTTTCAAAAGTTG-TGATGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTTC-AAAGTTGTTGA-GCCTCTGTTTAGAGGAG--TT
* * * * *
18622125 GTTTATTTTTCCAAAGTCGTTGAGCTTTTGATTAGAGGAGCTTT
1 ATTTATTTTT-CAAAGTTGTTGAGCCTCTGTTTAGAGGAG--TT
* *
18622169 GTTTATTTTTTCAAAGTCGTTGAGCC
1 ATTTA-TTTTTCAAAGTTGTTGAGCC
18622195 CAAAGTCGTT
Statistics
Matches: 230, Mismatches: 30, Indels: 33
0.78 0.10 0.11
Matches are distributed among these distances:
40 38 0.17
41 75 0.33
42 48 0.21
43 13 0.06
44 47 0.20
45 9 0.04
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (41 bp):
ATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGTT
Found at i:18622063 original size:83 final size:81
Alignment explanation
Indices: 18621876--18622141 Score: 340
Period size: 83 Copynumber: 3.2 Consensus size: 81
18621866 TCAAGGAGCC
* * * * *
18621876 ATTTA-TTTTTCAAAGTTGTGATGTCTCTTTTTAGA-AGAGCAATTTATTTCTC-AAAGTTCGTT
1 ATTTATTTTTTCAAAGTTTTGA-GCCTCTATTTAGAGA-AGCAATTTATTT-TCAAAAGTTTGAT
18621938 GCCTCTGTTTAGAGGAGTT
63 GCCTCTGTTTAGAGGAGTT
18621957 ATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCAATTTATTTTCAAAAGTTATGATG
1 ATTTATTTTTTCAAAGTT-TTGAGCCTCTATTTAGAGAAGCAATTTATTTTCAAAAGTT-TGATG
18622022 CCTCTGTTTAGAGGAGTT
64 CCTCTGTTTAGAGGAGTT
* * *
18622040 ATTTATTTTTTCAAAGTTATTGAGCCTTTGTTTAGAGGAGCAATTTATTTTCAAAAGTTGTGATG
1 ATTTATTTTTTCAAAGTT-TTGAGCCTCTATTTAGAGAAGCAATTTATTTTCAAAAGTT-TGATG
18622105 CCTCTGTTTAGAGGAGCTTT
64 CCTCTGTTTAGAGGAG--TT
* *
18622125 GTTTATTTTTCCAAAGT
1 ATTTATTTTTTCAAAGT
18622142 CGTTGAGCTT
Statistics
Matches: 166, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
81 7 0.04
82 41 0.25
83 101 0.61
85 17 0.10
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (81 bp):
ATTTATTTTTTCAAAGTTTTGAGCCTCTATTTAGAGAAGCAATTTATTTTCAAAAGTTTGATGCC
TCTGTTTAGAGGAGTT
Found at i:18622200 original size:15 final size:15
Alignment explanation
Indices: 18622180--18622209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18622170 TTTATTTTTT
*
18622180 CAAAGTCGTTGAGCC
1 CAAAGTCGTTAAGCC
18622195 CAAAGTCGTTAAGCC
1 CAAAGTCGTTAAGCC
18622210 TCTGATTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (15 bp):
CAAAGTCGTTAAGCC
Found at i:18622216 original size:59 final size:60
Alignment explanation
Indices: 18622135--18622254 Score: 188
Period size: 59 Copynumber: 2.0 Consensus size: 60
18622125 GTTTATTTTT
* * * *
18622135 CCAAAGTCGTTGAGCTTTTGATTAGAGGAGCTTTGTTTA-TTTTTTCAAAGTCGTTGAGC
1 CCAAAGTCGTTAAGCCTCTGATTAGAGGAACTTTGTTTATTTTTTTCAAAGTCGTTGAGC
*
18622194 CCAAAGTCGTTAAGCCTCTGATTAGAGGAACTTTGTTTATTTTTTTCAAAGTTGTTGAGC
1 CCAAAGTCGTTAAGCCTCTGATTAGAGGAACTTTGTTTATTTTTTTCAAAGTCGTTGAGC
18622254 C
1 C
18622255 TCTGATTAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 35 0.64
60 20 0.36
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (60 bp):
CCAAAGTCGTTAAGCCTCTGATTAGAGGAACTTTGTTTATTTTTTTCAAAGTCGTTGAGC
Found at i:18622259 original size:45 final size:45
Alignment explanation
Indices: 18622195--18622317 Score: 183
Period size: 45 Copynumber: 2.7 Consensus size: 45
18622185 TCGTTGAGCC
* * * * *
18622195 CAAAGTCGTTAAGCCTCTGATTAGAGGAACTTTGTTTATTTTTTT
1 CAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGTTTCT
*
18622240 CAAAGTTGTTGAGCCTCTGATTAGATGAGCTTTGTTTATGTTTCT
1 CAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGTTTCT
*
18622285 CAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTT
1 CAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTT
18622318 AATCAAAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (45 bp):
CAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGTTTCT
Found at i:18622556 original size:13 final size:13
Alignment explanation
Indices: 18622531--18622565 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
18622521 GGGTAAGCCC
18622531 ATTTGTA-TTTTT
1 ATTTGTATTTTTT
18622543 ATTTGTATTTTTT
1 ATTTGTATTTTTT
18622556 ATTTGTATTT
1 ATTTGTATTT
18622566 ATTCATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (13 bp):
ATTTGTATTTTTT
Found at i:18622641 original size:24 final size:24
Alignment explanation
Indices: 18622584--18622688 Score: 135
Period size: 24 Copynumber: 4.5 Consensus size: 24
18622574 ATTATTACTA
*
18622584 TTATTATTTAT-TAAT-ATATATT
1 TTATTATTTATCTATTAATATATT
* *
18622606 TTAATTATTTATCTGTTAACATATT
1 TT-ATTATTTATCTATTAATATATT
18622631 TTATTATTTATCTATTAATATATT
1 TTATTATTTATCTATTAATATATT
*
18622655 TTATTATTTATCAATTAATATATT
1 TTATTATTTATCTATTAATATATT
*
18622679 TT-TTTTTTAT
1 TTATTATTTAT
18622689 TTTATCTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
22 2 0.03
23 16 0.22
24 47 0.64
25 8 0.11
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATTATTTATCTATTAATATATT
Found at i:18622989 original size:14 final size:15
Alignment explanation
Indices: 18622970--18622998 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18622960 ATTTTTCAAA
18622970 TTTTTTGG-AATTTT
1 TTTTTTGGAAATTTT
18622984 TTTTTTGGAAATTTT
1 TTTTTTGGAAATTTT
18622999 CTAGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (15 bp):
TTTTTTGGAAATTTT
Found at i:18623102 original size:20 final size:20
Alignment explanation
Indices: 18623077--18623119 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
18623067 AAAACCCAGA
*
18623077 TTTTGACGTACTTTTTCAGT
1 TTTTGACATACTTTTTCAGT
18623097 TTTTGACATACTTTTTCAGT
1 TTTTGACATACTTTTTCAGT
18623117 TTT
1 TTT
18623120 CAGTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (20 bp):
TTTTGACATACTTTTTCAGT
Found at i:18623476 original size:4 final size:4
Alignment explanation
Indices: 18623469--18623495 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18623459 TTTTTTTTCA
18623469 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
18623496 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:18623664 original size:60 final size:59
Alignment explanation
Indices: 18623598--18623760 Score: 231
Period size: 59 Copynumber: 2.7 Consensus size: 59
18623588 TAAAGTTTCA
*
18623598 AAAAAAATATTTTTAAGGGAAAGTTGAAAGTATCAATTTTTCTGAAAATAAAAAAAGGTTT
1 AAAAAAATATTTTTAAGGGAAAATTGAAAGTATCAATTTTTCTGAAAAT--AAAAAGGTTT
* *
18623659 -TAAAAATATTTTT-AGGGAAAATTGAAAGTATCAATTTCTCTTGAAAATAAAAAGGTTT
1 AAAAAAATATTTTTAAGGGAAAATTGAAAGTATCAATTTTTC-TGAAAATAAAAAGGTTT
* *
18623717 AAAAAATATATTTTTAAGGCAAAATTGAAAGTGTCAATTTTTCT
1 AAAAAA-ATATTTTTAAGGGAAAATTGAAAGTATCAATTTTTCT
18623761 TGGAAGTAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
58 10 0.11
59 29 0.32
60 28 0.31
61 24 0.26
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (59 bp):
AAAAAAATATTTTTAAGGGAAAATTGAAAGTATCAATTTTTCTGAAAATAAAAAGGTTT
Found at i:18623844 original size:58 final size:57
Alignment explanation
Indices: 18623775--18623950 Score: 203
Period size: 58 Copynumber: 3.0 Consensus size: 57
18623765 AGTAAAATTT
* * * *
18623775 TTAAAAT-AAATTTTTCGAAAAGTATTTTGAGAAAAAGTTAAAAGTATTAATTTTTC
1 TTAAAATAAAATTTATCAAAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTC
* * *
18623831 TTAAAATTAAAATTTCA-AAAAAAACATTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
1 TTAAAA-TAAAATTT-ATCAAAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTC
* * *
18623889 TTAAAAATAAAAATTATCAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATTAATTTTTC
1 TT-AAAATAAAATTTATC--AAAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTC
18623949 TT
1 TT
18623951 GTACAAAAGC
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
56 6 0.06
57 2 0.02
58 50 0.50
59 4 0.04
60 38 0.38
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.38
Consensus pattern (57 bp):
TTAAAATAAAATTTATCAAAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTC
Found at i:18623937 original size:60 final size:58
Alignment explanation
Indices: 18623792--18623950 Score: 237
Period size: 60 Copynumber: 2.7 Consensus size: 58
18623782 AAATTTTTCG
* * *
18623792 AAAAGTATTTTGAGAAAAAGTTAAAAGTATTAATTTTTCTTAAAATTAAAATTTCAAA
1 AAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAAATTTCAAA
* *
18623850 AAAAACATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTATCAAA
1 AAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTT-AAAATAAAAATT-TCAAA
* *
18623910 AAAAATATTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTT
1 AAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTT
18623951 GTACAAAAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 37 0.41
59 11 0.12
60 42 0.47
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.36
Consensus pattern (58 bp):
AAAAATATTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAATAAAAATTTCAAA
Found at i:18639192 original size:2 final size:2
Alignment explanation
Indices: 18639187--18639218 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18639177 ATATATCTTT
18639187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18639219 AACCTAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18664843 original size:27 final size:29
Alignment explanation
Indices: 18664794--18664861 Score: 95
Period size: 27 Copynumber: 2.4 Consensus size: 29
18664784 TATGATTTAT
*
18664794 AATATTTTATTTTAAATTATAAAATATAA
1 AATATTTTATTTTAAATTATAAAAGATAA
*
18664823 AATATTTTATTTT-AATT-TAAAAGATTA
1 AATATTTTATTTTAAATTATAAAAGATAA
*
18664850 AATAATTTATTT
1 AATATTTTATTT
18664862 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 19 0.53
28 4 0.11
29 13 0.36
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
AATATTTTATTTTAAATTATAAAAGATAA
Found at i:18666915 original size:24 final size:24
Alignment explanation
Indices: 18666860--18666925 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
18666850 TTAATAAATT
18666860 TATTTATATT-TTTTTA-ATTTTA
1 TATTTATATTATTTTTATATTTTA
* *
18666882 -AATTAAATTATTTTTATATTTTA
1 TATTTATATTATTTTTATATTTTA
*
18666905 TATTTATATTAATTTTATATT
1 TATTTATATTATTTTTATATT
18666926 ATATCATTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 7 0.19
22 6 0.17
23 6 0.17
24 17 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTATATTATTTTTATATTTTA
Found at i:18666938 original size:24 final size:24
Alignment explanation
Indices: 18666888--18666952 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
18666878 TTTAAATTAA
* *
18666888 ATTATTTTTATATTTTATATTTAT
1 ATTAATTTTATATTATATATTTAT
*
18666912 ATTAATTTTATATTATATCA-TTGT
1 ATTAATTTTATATTATAT-ATTTAT
*
18666936 ATTATATTTTAAATTAT
1 ATTA-ATTTTATATTAT
18666953 TAGCATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
ATTAATTTTATATTATATATTTAT
Found at i:18667701 original size:219 final size:219
Alignment explanation
Indices: 18667313--18667764 Score: 868
Period size: 219 Copynumber: 2.1 Consensus size: 219
18667303 GATTTATAAA
* *
18667313 AATATTAATTATATAAAAATTTATAAAAATATATGAATTAATGAATTTTTCAATGATTTCAAATT
1 AATAATAAATATATAAAAATTTATAAAAATATATGAATTAATGAATTTTTCAATGATTTCAAATT
18667378 AATTGCATTAACAAATTTTTTATATTTAAAATTATCAAAAATTTAATCATAGTTATTGAAACTTA
66 AATTGCATTAACAAATTTTTTATATTTAAAATTATCAAAAATTTAATCATAGTTATTGAAACTTA
18667443 AAGTTTGTAACTCTTACCAACATATTACATAATTGTTGGCACTACTAACATTATACTTTACTACT
131 AAGTTTGTAACTCTTACCAACATATTACATAATTGTTGGCACTACTAACATTATACTTTACTACT
18667508 TTGTTACGAATTTAATATTAAAAC
196 TTGTTACGAATTTAATATTAAAAC
* *
18667532 AATAATAAATATATAAAAATTTATAAAAATTTTTGAATTAATGAATTTTTCAATGATTTCAAATT
1 AATAATAAATATATAAAAATTTATAAAAATATATGAATTAATGAATTTTTCAATGATTTCAAATT
18667597 AATTGCATTAACAAATTTTTTATATTTAAAATTATCAAAAATTTAATCATAGTTATTGAAACTTA
66 AATTGCATTAACAAATTTTTTATATTTAAAATTATCAAAAATTTAATCATAGTTATTGAAACTTA
18667662 AAGTTTGTAACTCTTACCAACATATTACATAATTGTTGGCACTACTAACATTATACTTTACTACT
131 AAGTTTGTAACTCTTACCAACATATTACATAATTGTTGGCACTACTAACATTATACTTTACTACT
18667727 TTGTTACGAATTTAATATTAAAAC
196 TTGTTACGAATTTAATATTAAAAC
18667751 AATAATAAATATAT
1 AATAATAAATATAT
18667765 GTGTAATTAA
Statistics
Matches: 229, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 229 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (219 bp):
AATAATAAATATATAAAAATTTATAAAAATATATGAATTAATGAATTTTTCAATGATTTCAAATT
AATTGCATTAACAAATTTTTTATATTTAAAATTATCAAAAATTTAATCATAGTTATTGAAACTTA
AAGTTTGTAACTCTTACCAACATATTACATAATTGTTGGCACTACTAACATTATACTTTACTACT
TTGTTACGAATTTAATATTAAAAC
Found at i:18668415 original size:1 final size:1
Alignment explanation
Indices: 18668409--18668433 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
18668399 ATTATATAGG
18668409 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
18668434 CATGGTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18688549 original size:27 final size:27
Alignment explanation
Indices: 18688486--18688811 Score: 132
Period size: 27 Copynumber: 12.3 Consensus size: 27
18688476 CCAACGATTG
* * *
18688486 GTTGTTGCTGCATCTGGGGAAGCTGCG
1 GTTGTTGCTGCAGCTGGGAAAGCTGCT
* * * *
18688513 GCTGTGGCTGCAGCTGTGAAAGTTGCT
1 GTTGTTGCTGCAGCTGGGAAAGCTGCT
*
18688540 GTTGTTGCTGCAGCTGGGGCAA-CTGCT
1 GTTGTTGCTGCAGCT-GGGAAAGCTGCT
* * *
18688567 GTTGCTGTTGCAGCTGGGAGAGCTGCT
1 GTTGTTGCTGCAGCTGGGAAAGCTGCT
*
18688594 GTTG-T--TGCAGCTGAGG-TAGCTGCT
1 GTTGTTGCTGCAGCTG-GGAAAGCTGCT
* * * *
18688618 GCTGTTGTTGCATCTGTGG-TAGCTGCT
1 GTTGTTGCTGCAGCTG-GGAAAGCTGCT
* *
18688645 GCTGCTGTTGTTGCAGCTGTGG-TAGCTGCT
1 G-T--TGTTGCTGCAGCTG-GGAAAGCTGCT
* * * *
18688675 GCTGCTGCTGCTGTAGCGGGGCAAGCTGCT
1 G-T--TGTTGCTGCAGCTGGGAAAGCTGCT
* * * *
18688705 GCTGTTGTTGCAGCT--GAGAG-AGCT
1 GTTGTTGCTGCAGCTGGGAAAGCTGCT
*
18688729 GTTGCTGCTGCAAG-TGCGG-AAGCTGCT
1 GTTGTTGCTGC-AGCTG-GGAAAGCTGCT
18688756 GTTG-T--TGCAGCTGTGG-AAGCTGCT
1 GTTGTTGCTGCAGCTG-GGAAAGCTGCT
* *
18688780 GCTGTTGCTGCTG-T-GG-AAGCTGCT
1 GTTGTTGCTGCAGCTGGGAAAGCTGCT
*
18688804 GCTGTTGC
1 GTTGTTGC
18688812 AGCTGTGGCA
Statistics
Matches: 237, Mismatches: 43, Indels: 41
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.01
24 66 0.28
25 9 0.04
26 9 0.04
27 98 0.41
28 4 0.02
29 2 0.01
30 47 0.20
ACGTcount: A:0.11, C:0.20, G:0.38, T:0.31
Consensus pattern (27 bp):
GTTGTTGCTGCAGCTGGGAAAGCTGCT
Found at i:18688627 original size:30 final size:29
Alignment explanation
Indices: 18688536--18688714 Score: 135
Period size: 27 Copynumber: 6.4 Consensus size: 29
18688526 CTGTGAAAGT
* **
18688536 TGCTGTTGTTGCTGCAGCTGGG--GCAAC
1 TGCTGTTGTTGTTGCAGCTGGGTAGCTGC
* *
18688563 TGCTGTTGCTGTTGCAGCTGGG-AG-AGC
1 TGCTGTTGTTGTTGCAGCTGGGTAGCTGC
18688590 TGC---TGTTGTTGCAGCTGAGGTAGCTGC
1 TGCTGTTGTTGTTGCAGCTG-GGTAGCTGC
*
18688617 TGC---TGTTGTTGCATCTGTGGTAGCTGC
1 TGCTGTTGTTGTTGCAGCTG-GGTAGCTGC
*
18688644 TGCTGCTGTTGTTGCAGCTGTGGTAGCTGC
1 TGCTGTTGTTGTTGCAGCTG-GGTAGCTGC
* * * * * *
18688674 TGCTGCTGCTGCTGTAGCGGGGCAAGCTGC
1 TGCTGTTGTTGTTGCAGCTGGG-TAGCTGC
18688704 TGCTGTTGTTG
1 TGCTGTTGTTG
18688715 CAGCTGAGAG
Statistics
Matches: 129, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.10
25 2 0.02
26 2 0.02
27 55 0.43
28 1 0.01
29 2 0.02
30 54 0.42
ACGTcount: A:0.09, C:0.20, G:0.37, T:0.34
Consensus pattern (29 bp):
TGCTGTTGTTGTTGCAGCTGGGTAGCTGC
Found at i:18688651 original size:57 final size:57
Alignment explanation
Indices: 18688588--18688739 Score: 184
Period size: 57 Copynumber: 2.7 Consensus size: 57
18688578 AGCTGGGAGA
* * * *
18688588 GCTGCTGTTGTTGCAGCTGAGGTAGCTGCTGCTGTTGTTGCATCT-GTGGTAGC-TGCT
1 GCTGCTGTTGTTGCAGCTGAGGTAGCTGCTGCTGCTGCTGC-TCTAGCGG-AGCAAGCT
* * *
18688645 GCTGCTGTTGTTGCAGCTGTGGTAGCTGCTGCTGCTGCTGCTGTAGCGGGGCAAGCT
1 GCTGCTGTTGTTGCAGCTGAGGTAGCTGCTGCTGCTGCTGCTCTAGCGGAGCAAGCT
*
18688702 GCTGCTGTTGTTGCAGCTGAGAG-AGCTGTTGCTGCTGC
1 GCTGCTGTTGTTGCAGCTGAG-GTAGCTGCTGCTGCTGC
18688740 AAGTGCGGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
56 4 0.05
57 78 0.94
58 1 0.01
ACGTcount: A:0.09, C:0.21, G:0.37, T:0.33
Consensus pattern (57 bp):
GCTGCTGTTGTTGCAGCTGAGGTAGCTGCTGCTGCTGCTGCTCTAGCGGAGCAAGCT
Found at i:18688735 original size:30 final size:30
Alignment explanation
Indices: 18688588--18688738 Score: 156
Period size: 30 Copynumber: 5.2 Consensus size: 30
18688578 AGCTGGGAGA
18688588 GCTGCTGTTGTTGCAGCTGAGGTA---GCT
1 GCTGCTGTTGTTGCAGCTGAGGTAGCTGCT
* *
18688615 GCTGCTGTTGTTGCATCTGTGGTAGCTGCT
1 GCTGCTGTTGTTGCAGCTGAGGTAGCTGCT
*
18688645 GCTGCTGTTGTTGCAGCTGTGGTAGCTGCT
1 GCTGCTGTTGTTGCAGCTGAGGTAGCTGCT
* * * *
18688675 GCTGCTGCTGCTGTAGC-G-GG--GCAAGCT
1 GCTGCTGTTGTTGCAGCTGAGGTAGC-TGCT
*
18688702 GCTGCTGTTGTTGCAGCTGAGAG-AGCTGTT
1 GCTGCTGTTGTTGCAGCTGAG-GTAGCTGCT
18688732 GCTGCTG
1 GCTGCTG
18688739 CAAGTGCGGA
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.02
27 39 0.38
28 3 0.03
29 2 0.02
30 56 0.54
31 2 0.02
ACGTcount: A:0.09, C:0.21, G:0.37, T:0.33
Consensus pattern (30 bp):
GCTGCTGTTGTTGCAGCTGAGGTAGCTGCT
Found at i:18688788 original size:9 final size:9
Alignment explanation
Indices: 18688776--18688948 Score: 59
Period size: 9 Copynumber: 20.2 Consensus size: 9
18688766 CTGTGGAAGC
18688776 TGCTGCTGT
1 TGCTGCTGT
18688785 TGCTGCTGT
1 TGCTGCTGT
* **
18688794 GGAAGC--T
1 TGCTGCTGT
18688801 -GCTGCTGT
1 TGCTGCTGT
*
18688809 TGCAGCTGT
1 TGCTGCTGT
* **
18688818 GGCAACTGT
1 TGCTGCTGT
18688827 TGCTGCTGT
1 TGCTGCTGT
18688836 TG-TAGCTGT
1 TGCT-GCTGT
* **
18688845 GGCAACTGT
1 TGCTGCTGT
*
18688854 TGCTGCTGC
1 TGCTGCTGT
18688863 TG-TAGCTGT
1 TGCT-GCTGT
*
18688872 GGCAT-CTGT
1 TGC-TGCTGT
18688881 TGCTGCTGT
1 TGCTGCTGT
*
18688890 AGCTG-TG-
1 TGCTGCTGT
18688897 -GCAT-CTGT
1 TGC-TGCTGT
18688905 TGCTGCTGT
1 TGCTGCTGT
*
18688914 AGCTG-TG-
1 TGCTGCTGT
*
18688921 -GCTGCAT-C
1 TGCTGC-TGT
*
18688929 TGCTGGTGT
1 TGCTGCTGT
18688938 TGCTGCTGT
1 TGCTGCTGT
18688947 TG
1 TG
18688949 TTGATGCTGG
Statistics
Matches: 119, Mismatches: 26, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
6 9 0.08
7 4 0.03
8 11 0.09
9 94 0.79
11 1 0.01
ACGTcount: A:0.08, C:0.21, G:0.35, T:0.36
Consensus pattern (9 bp):
TGCTGCTGT
Found at i:18688830 original size:27 final size:27
Alignment explanation
Indices: 18688548--18688913 Score: 218
Period size: 24 Copynumber: 14.0 Consensus size: 27
18688538 CTGTTGTTGC
* *
18688548 TGCAGCTGGGGCAACTGCTGTTGCTGT
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
*
18688575 TGCAGCTG-GG-AGA--GCTGCTGTTGT
1 TGCAGCTGTGGCA-ACTGCTGCTGCTGT
* * * *
18688599 TGCAGCTGAGGTAGCTGCTGCTGTTGT
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
* * *
18688626 TGCATCTGTGGTAGCTGCTGCTGCTGTTGT
1 TGCAGCTGTGGCAACTGCTGCTGC---TGT
* *
18688656 TGCAGCTGTGGTAGCTGCTGCTGCTGCT
1 TGCAGCTGTGGCAACTGCTGCTGCTG-T
* * *
18688684 GCTGTAGC-GGGGCAAGCTGCTGCTGTTGT
1 --TGCAGCTGTGGCAA-CTGCTGCTGCTGT
* * *
18688713 TGCAGCTG-AG-AGA--GCTGTTGCTGC
1 TGCAGCTGTGGCA-ACTGCTGCTGCTGT
* *
18688737 TGCAAG-TGCGG-AA--GCTGCTGTTGT
1 TGC-AGCTGTGGCAACTGCTGCTGCTGT
18688761 TGCAGCTGTGG-AA--GCTGCTGCTGT
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
*
18688785 TGCTGCTGTGG-AA--GCTGCTGCTGT
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
*
18688809 TGCAGCTGTGGCAACTGTTGCTGCTGT
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
* * *
18688836 TGTAGCTGTGGCAACTGTTGCTGCTGC
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
* * *
18688863 TGTAGCTGTGGCATCTGTTGCTGCTG-
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
* *
18688889 T--AGCTGTGGCATCTGTTGCTGCTGT
1 TGCAGCTGTGGCAACTGCTGCTGCTGT
18688914 AGCTGTGGCT
Statistics
Matches: 289, Mismatches: 29, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
23 2 0.01
24 114 0.39
25 9 0.03
26 6 0.02
27 109 0.38
28 2 0.01
29 5 0.02
30 42 0.15
ACGTcount: A:0.11, C:0.20, G:0.36, T:0.33
Consensus pattern (27 bp):
TGCAGCTGTGGCAACTGCTGCTGCTGT
Found at i:18688930 original size:51 final size:50
Alignment explanation
Indices: 18688802--18688922 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 50
18688792 GTGGAAGCTG
* * *
18688802 CTGCTGTTGCAGCTGTGGCAACTGTTGCTGCTGTTGTAGCTGTGGCAACTGTT
1 CTGCTGCTGTAGCTGTGGCATCTGTTGCTGC---TGTAGCTGTGGCAACTGTT
*
18688855 GCTGCTGCTGTAGCTGTGGCATCTGTTGCTGCTGTAGCTGTGGCATCTG-T
1 -CTGCTGCTGTAGCTGTGGCATCTGTTGCTGCTGTAGCTGTGGCAACTGTT
18688905 -TGCTGCTGTAGCTGTGGC
1 CTGCTGCTGTAGCTGTGGC
18688923 TGCATCTGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
48 18 0.29
50 1 0.02
51 16 0.25
54 28 0.44
ACGTcount: A:0.09, C:0.21, G:0.34, T:0.36
Consensus pattern (50 bp):
CTGCTGCTGTAGCTGTGGCATCTGTTGCTGCTGTAGCTGTGGCAACTGTT
Found at i:18697284 original size:10 final size:10
Alignment explanation
Indices: 18697269--18697294 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18697259 AAAGGGATTT
18697269 TGATTGGAGA
1 TGATTGGAGA
18697279 TGATTGGAGA
1 TGATTGGAGA
18697289 TGATTG
1 TGATTG
18697295 ATGGTAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (10 bp):
TGATTGGAGA
Found at i:18700044 original size:75 final size:75
Alignment explanation
Indices: 18699950--18700090 Score: 246
Period size: 75 Copynumber: 1.9 Consensus size: 75
18699940 GGCCGAGTCA
*
18699950 AAACCAGTAGAGCAAATGGTCGCCTTTGATAGGCAGTCTCGTTTTGGGTTGGTTAAAGGAGTTCC
1 AAACCAATAGAGCAAATGGTCGCCTTTGATAGGCAGTCTCGTTTTGGGTTGGTTAAAGGAGTTCC
18700015 ACGAGTTGTT
66 ACGAGTTGTT
* * *
18700025 AAACCAATAGAGCAAATGGTTGCCTTTGATAGGCAGTTTTGTTTTGGGTTGGTTAAAGGAGTTCC
1 AAACCAATAGAGCAAATGGTCGCCTTTGATAGGCAGTCTCGTTTTGGGTTGGTTAAAGGAGTTCC
18700090 A
66 A
18700091 GGACACAACT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (75 bp):
AAACCAATAGAGCAAATGGTCGCCTTTGATAGGCAGTCTCGTTTTGGGTTGGTTAAAGGAGTTCC
ACGAGTTGTT
Found at i:18709985 original size:2 final size:2
Alignment explanation
Indices: 18709980--18710019 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
18709970 TATAAAGGCA
* *
18709980 AG AG AG AG AG AG AG AG AG AG AC AG AG AG AC AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18710020 TTGAATATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18710115 original size:18 final size:18
Alignment explanation
Indices: 18710089--18710124 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18710079 CGCTTCTCTA
18710089 CCTTCCCCCATTTTTGTT
1 CCTTCCCCCATTTTTGTT
*
18710107 CCTTTCCCCATTTTTGTT
1 CCTTCCCCCATTTTTGTT
18710125 TTCAGATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.36, G:0.06, T:0.53
Consensus pattern (18 bp):
CCTTCCCCCATTTTTGTT
Found at i:18710577 original size:20 final size:20
Alignment explanation
Indices: 18710538--18710593 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
18710528 CTAATTATAT
18710538 TAAATTAAATAATATTAAATAA
1 TAAATT-AATAAT-TTAAATAA
*
18710560 TAAATTAATAATTTAAATAT
1 TAAATTAATAATTTAAATAA
* *
18710580 TATATTAAAAATTT
1 TAAATTAATAATTT
18710594 TTATGATAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
21 6 0.19
22 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATTAATAATTTAAATAA
Found at i:18711327 original size:20 final size:20
Alignment explanation
Indices: 18711299--18711343 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18711289 TAATTAAAAC
*
18711299 ATTAATTATATTTTAAA-TAT
1 ATTAATTAT-TATTAAATTAT
*
18711319 ATTATTTATTATTAAATTAT
1 ATTAATTATTATTAAATTAT
18711339 ATTAA
1 ATTAA
18711344 ATATGATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTAATTATTATTAAATTAT
Found at i:18715469 original size:22 final size:21
Alignment explanation
Indices: 18715439--18715479 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
18715429 AATACCTTTA
*
18715439 AAAGTTTAATTGATTATAATTC
1 AAAGATTAATTGATT-TAATTC
18715461 AAAGATTAATTGATTTAAT
1 AAAGATTAATTGATTTAAT
18715480 AAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
AAAGATTAATTGATTTAATTC
Found at i:18719329 original size:14 final size:14
Alignment explanation
Indices: 18719312--18719343 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18719302 TGTCATCATG
*
18719312 AAATAAGAAAAATA
1 AAATAAGAAAAAGA
18719326 AAATAAGAAAAAGA
1 AAATAAGAAAAAGA
18719340 AAAT
1 AAAT
18719344 TTGGATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (14 bp):
AAATAAGAAAAAGA
Found at i:18721602 original size:16 final size:16
Alignment explanation
Indices: 18721572--18721602 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18721562 ACGAATTTTG
*
18721572 AGAAAAAAACAAAAAC
1 AGAAAAAAAAAAAAAC
18721588 AGAAAAAAAAAAAAA
1 AGAAAAAAAAAAAAA
18721603 AAAAAGAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAAAAC
Found at i:18722306 original size:3 final size:3
Alignment explanation
Indices: 18722300--18722331 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18722290 TCCATTTCCC
18722300 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18722332 TCCAACCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18722926 original size:5 final size:5
Alignment explanation
Indices: 18722916--18722942 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18722906 GTCTGTGGTT
18722916 TTTGG TTTGG TTTGG TTTGG TTTGG TT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TT
18722943 GGGGTAGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.37, T:0.63
Consensus pattern (5 bp):
TTTGG
Found at i:18724064 original size:1 final size:1
Alignment explanation
Indices: 18724032--18724057 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
18724022 TTAGTTTTCC
18724032 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
18724058 GCTTTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18724657 original size:1 final size:1
Alignment explanation
Indices: 18724651--18724679 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
18724641 GGTCACGTCT
18724651 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
18724680 AACCTTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Done.