Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 19
Found at i:3522605 original size:138 final size:138
Alignment explanation
Indices: 3522242--3522731 Score: 637
Period size: 138 Copynumber: 3.5 Consensus size: 138
3522232 GTGAAAGCAT
* *
3522242 GTTTTCGGGGGCGCGTCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCTCTATTATGTCAC
1 GTTTTCGGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTCAC
* *
3522307 TCATGTCCCCCGGGGGCACTATTTATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTTG
66 TCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTTG
3522372 TGAAAATAC
131 TGAAAA-AC
* * * * * * *
3522381 ATTTCCGGGGGGGCGTCTTCCATTATTTTGTCATATAATATGTTATTATTGCCCTATTATGTCAC
1 GTTTTCGGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTCAC
* * * * *
3522446 TCATGTCTCCT-GGGAGTACTATTCATGTCAATACCTATTATGTTTTAGGGGATGCAACAAAGTT
66 TCATGTC-CCTCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTT
3522510 GTGAAAAAC
130 GTGAAAAAC
* * *
3522519 GTTTTCGAGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTGTTATGTCAC
1 GTTTTCGGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTCAC
**
3522584 TCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAGTAAAG-TG
66 TCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTTG
*
3522648 CTG-AAAGC
131 -TGAAAAAC
* * * * * * * *
3522656 GCGTTTCTGGGGG-GCGCATTCGATTATTATATCAAAGAATATGTTATAATTGTCATATTATGTC
1 G-TTTTC-GGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTC
3522720 ACTCATGTCCCT
64 ACTCATGTCCCT
3522732 GGAGACGCAG
Statistics
Matches: 304, Mismatches: 42, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
137 10 0.03
138 169 0.56
139 123 0.40
140 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (138 bp):
GTTTTCGGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTCAC
TCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTTG
TGAAAAAC
Found at i:3522923 original size:23 final size:23
Alignment explanation
Indices: 3522875--3522925 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
3522865 TGAAGTTTGA
* * *
3522875 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
3522898 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
3522921 ATAAA
1 ATAAA
3522926 GTCAACATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:3525606 original size:17 final size:17
Alignment explanation
Indices: 3525555--3525612 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
3525545 TAATTTAAAT
*
3525555 AAATAATAATTATATAA
1 AAATAATATTTATATAA
* *
3525572 ATATTAT-TTTA-ATAAA
1 AAATAATATTTATAT-AA
3525588 AAATAATATTTATATAA
1 AAATAATATTTATATAA
3525605 AAATAATA
1 AAATAATA
3525613 ATAATAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.30
17 19 0.58
18 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATAATATTTATATAA
Found at i:3525618 original size:33 final size:33
Alignment explanation
Indices: 3525550--3525641 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 33
3525540 TTAATTAATT
* * * **
3525550 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATATTTATATAAAAATAATAATAA
3525584 TAAAAAATAATATTTATATAAAAATAATAATAA
1 TAAAAAATAATATTTATATAAAAATAATAATAA
* *
3525617 TAAATAACAACTATTTA-A-AAAAATA
1 TAAAAAATAA-TATTTATATAAAAATA
3525642 CTAACTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 7 0.14
33 33 0.66
34 10 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (33 bp):
TAAAAAATAATATTTATATAAAAATAATAATAA
Found at i:3531694 original size:31 final size:31
Alignment explanation
Indices: 3531659--3531717 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3531649 TTTTGATGAT
*
3531659 ATTT-AAGAATTAAATTAATATTTTATCTTAA
1 ATTTAAAG-ATTAAATTAATATTGTATCTTAA
3531690 ATTTAAAGATTAAATTAATATTGTATCT
1 ATTTAAAGATTAAATTAATATTGTATCT
3531718 AAAGTTGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (31 bp):
ATTTAAAGATTAAATTAATATTGTATCTTAA
Found at i:3531736 original size:31 final size:31
Alignment explanation
Indices: 3531670--3531738 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
3531660 TTTAAGAATT
* * *
3531670 AAATTAATATTTTATCTTAAATTTAAAGATT
1 AAATTAATATTGTATCTTAAATTGAAAGATC
*
3531701 AAATTAATATTGTATC-TAAAGTTGAAGGATC
1 AAATTAATATTGTATCTTAAA-TTGAAAGATC
3531732 AAATTAA
1 AAATTAA
3531739 AAATTAACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (31 bp):
AAATTAATATTGTATCTTAAATTGAAAGATC
Found at i:3532255 original size:28 final size:29
Alignment explanation
Indices: 3532203--3532258 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
3532193 CCGTCGTTAC
* *
3532203 TTTCAAGCACTGGATTCGACAACATAATG
1 TTTCAAGCAATGGACTCGACAACATAATG
*
3532232 TTTCAAGCAATGG-CTCGACGACATAAT
1 TTTCAAGCAATGGACTCGACAACATAAT
3532259 ATAAACAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (29 bp):
TTTCAAGCAATGGACTCGACAACATAATG
Found at i:3537221 original size:31 final size:31
Alignment explanation
Indices: 3537154--3537231 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
3537144 ATCAGCTGGT
* *
3537154 TTTCAGGTCAGATTAATATAGGATCAATTAG
1 TTTCAGGTCGGATCAATATAGGATCAATTAG
* * * * *
3537185 CTTCAGGTCGGATCAATATTGGATTAGTTGG
1 TTTCAGGTCGGATCAATATAGGATCAATTAG
* *
3537216 TTTCAGTTTGGATCAA
1 TTTCAGGTCGGATCAA
3537232 CCATTAGATT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (31 bp):
TTTCAGGTCGGATCAATATAGGATCAATTAG
Found at i:3537776 original size:16 final size:16
Alignment explanation
Indices: 3537755--3537821 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
3537745 TTAAATTTGG
*
3537755 GTTGCTTTCGGTTCGA
1 GTTGCTTTTGGTTCGA
*
3537771 GTTGCTTTTGGTTCGG
1 GTTGCTTTTGGTTCGA
* **
3537787 GTTAC-TTTAATTCGA
1 GTTGCTTTTGGTTCGA
*
3537802 ATTGCTTTTGGTTCGA
1 GTTGCTTTTGGTTCGA
3537818 GTTG
1 GTTG
3537822 ATTTACCATC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
15 10 0.26
16 29 0.74
ACGTcount: A:0.10, C:0.13, G:0.28, T:0.48
Consensus pattern (16 bp):
GTTGCTTTTGGTTCGA
Found at i:3538629 original size:253 final size:253
Alignment explanation
Indices: 3538181--3538686 Score: 1012
Period size: 253 Copynumber: 2.0 Consensus size: 253
3538171 CGGGTTCGGG
3538181 AGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAACTACCCTTTCGGTACTACGTAATTTCCA
1 AGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAACTACCCTTTCGGTACTACGTAATTTCCA
3538246 GTTGTCTTTGGTTAAGAAAAATGTAACTTTAAATTAAAATGTAAAATAGCAATCTCAACTACTTA
66 GTTGTCTTTGGTTAAGAAAAATGTAACTTTAAATTAAAATGTAAAATAGCAATCTCAACTACTTA
3538311 CAATTGATTAATTTGAAAGCGTACCATTTAAAAGTCAAAATATGTGTTAGAAGAAATAAATGATA
131 CAATTGATTAATTTGAAAGCGTACCATTTAAAAGTCAAAATATGTGTTAGAAGAAATAAATGATA
3538376 AAAAAAGTAAAACAAATGAAATAAGGAAAGTGATAGAAAATGAATAAAATACATAAAA
196 AAAAAAGTAAAACAAATGAAATAAGGAAAGTGATAGAAAATGAATAAAATACATAAAA
3538434 AGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAACTACCCTTTCGGTACTACGTAATTTCCA
1 AGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAACTACCCTTTCGGTACTACGTAATTTCCA
3538499 GTTGTCTTTGGTTAAGAAAAATGTAACTTTAAATTAAAATGTAAAATAGCAATCTCAACTACTTA
66 GTTGTCTTTGGTTAAGAAAAATGTAACTTTAAATTAAAATGTAAAATAGCAATCTCAACTACTTA
3538564 CAATTGATTAATTTGAAAGCGTACCATTTAAAAGTCAAAATATGTGTTAGAAGAAATAAATGATA
131 CAATTGATTAATTTGAAAGCGTACCATTTAAAAGTCAAAATATGTGTTAGAAGAAATAAATGATA
3538629 AAAAAAGTAAAACAAATGAAATAAGGAAAGTGATAGAAAATGAATAAAATACATAAAA
196 AAAAAAGTAAAACAAATGAAATAAGGAAAGTGATAGAAAATGAATAAAATACATAAAA
3538687 TGAAGAAAAA
Statistics
Matches: 253, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 253 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (253 bp):
AGTCGGTTACGGTCAAGGAAGGATTAGCACCCTTGAACTACCCTTTCGGTACTACGTAATTTCCA
GTTGTCTTTGGTTAAGAAAAATGTAACTTTAAATTAAAATGTAAAATAGCAATCTCAACTACTTA
CAATTGATTAATTTGAAAGCGTACCATTTAAAAGTCAAAATATGTGTTAGAAGAAATAAATGATA
AAAAAAGTAAAACAAATGAAATAAGGAAAGTGATAGAAAATGAATAAAATACATAAAA
Found at i:3538943 original size:2 final size:2
Alignment explanation
Indices: 3538936--3539007 Score: 96
Period size: 2 Copynumber: 36.5 Consensus size: 2
3538926 AAAATAGGAA
*
3538936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3538977 AT AT ACT A- AT GAT A- AT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT A
3539008 ACTAATAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 10
0.85 0.01 0.13
Matches are distributed among these distances:
1 3 0.05
2 57 0.89
3 4 0.06
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:3539024 original size:31 final size:34
Alignment explanation
Indices: 3538956--3539040 Score: 106
Period size: 35 Copynumber: 2.6 Consensus size: 34
3538946 ATATATATAT
*
3538956 ATATATATATATATATATACAATATACTAATGATA
1 ATATATATATATATATATACAATATAC-AACGATA
3538991 ATATATATATATATATA-ACTAATA-A-AACG-TA
1 ATATATATATATATATATAC-AATATACAACGATA
*
3539022 ATATGTATATATATATATA
1 ATATATATATATATATATA
3539041 ACAAAAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
31 18 0.39
32 4 0.09
34 3 0.07
35 21 0.46
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (34 bp):
ATATATATATATATATATACAATATACAACGATA
Found at i:3542777 original size:14 final size:14
Alignment explanation
Indices: 3542758--3542789 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3542748 CAGGCTGTCT
3542758 TCGGTTCATCTCCC
1 TCGGTTCATCTCCC
3542772 TCGGTTCATCTCCC
1 TCGGTTCATCTCCC
3542786 TCGG
1 TCGG
3542790 CTCCTGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.41, G:0.19, T:0.34
Consensus pattern (14 bp):
TCGGTTCATCTCCC
Found at i:3553569 original size:13 final size:13
Alignment explanation
Indices: 3553551--3553578 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3553541 AGTAAAATGG
3553551 AAATAAATAAAAA
1 AAATAAATAAAAA
3553564 AAATAAATAAAAA
1 AAATAAATAAAAA
3553577 AA
1 AA
3553579 TGGTAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAAATAAAAA
Found at i:3554785 original size:26 final size:25
Alignment explanation
Indices: 3554726--3554790 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
3554716 AAGTATATAT
3554726 ATATAAGTAAAATA-ATAATAAAAA
1 ATATAAGTAAAATATATAATAAAAA
* **
3554750 ATAGAA--AAAATATATAATAGGAA
1 ATATAAGTAAAATATATAATAAAAA
3554773 ATCATAAGTAAAATATAT
1 AT-ATAAGTAAAATATAT
3554791 GTATATATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 6 0.18
23 10 0.30
24 8 0.24
26 9 0.27
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (25 bp):
ATATAAGTAAAATATATAATAAAAA
Found at i:3554830 original size:2 final size:2
Alignment explanation
Indices: 3554823--3554891 Score: 74
Period size: 2 Copynumber: 35.5 Consensus size: 2
3554813 AAAATAGGAA
*
3554823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3554863 ACT A- AT GAT A- AA AT AT AT AT AT AT AT AT A
1 A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT A
3554892 ACTAATAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
1 4 0.07
2 51 0.86
3 4 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:3558800 original size:17 final size:17
Alignment explanation
Indices: 3558766--3558817 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
3558756 ACCAGATAAA
*
3558766 TTTATTATTTTAGAGAG
1 TTTATTAATTTAGAGAG
**
3558783 TTTATTAATTTATCGAG
1 TTTATTAATTTAGAGAG
*
3558800 --TATTAATTTAAAGAG
1 TTTATTAATTTAGAGAG
3558815 TTT
1 TTT
3558818 CTACTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTAGAGAG
Found at i:3560263 original size:2 final size:2
Alignment explanation
Indices: 3560256--3560293 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3560246 ATTTTTATCA
3560256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3560294 CTAAACCAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3576966 original size:35 final size:36
Alignment explanation
Indices: 3576900--3576967 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
3576890 GAAGTCTCTG
* *
3576900 TAGGTTCAGCTCGGATCAAGCTGGTAATTCCTTTTA
1 TAGGTTCAGCACCGATCAAGCTGGTAATTCCTTTTA
*
3576936 TAGGTTCAGCACCGATCAA-CTGGTTATTCCTT
1 TAGGTTCAGCACCGATCAAGCTGGTAATTCCTT
3576968 ATGGACCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 12 0.41
36 17 0.59
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (36 bp):
TAGGTTCAGCACCGATCAAGCTGGTAATTCCTTTTA
Found at i:3587376 original size:6 final size:6
Alignment explanation
Indices: 3587365--3587419 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
3587355 ATGATGAAAG
3587365 AAAGTA AAAGTAA AAAGGT- AAAGTA AAAGTAA AAAGGT- AAAGTA AAAGTGA
1 AAAGTA AAAGT-A AAA-GTA AAAGTA AAAGT-A AAA-GTA AAAGTA AAAGT-A
3587416 AAAG
1 AAAG
3587420 AAGATAAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
5 4 0.10
6 21 0.50
7 13 0.31
8 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.15
Consensus pattern (6 bp):
AAAGTA
Found at i:3587381 original size:13 final size:12
Alignment explanation
Indices: 3587365--3587419 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 12
3587355 ATGATGAAAG
3587365 AAAGTAAAAGTAA
1 AAAGTAAAAGT-A
3587378 AAAGGT-AAAGTA
1 AAA-GTAAAAGTA
3587390 AAAGTAAAAAGGT-
1 AAAGT-AAAA-GTA
3587403 AAAGTAAAAGTGA
1 AAAGTAAAAGT-A
3587416 AAAG
1 AAAG
3587420 AAGATAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
11 4 0.11
12 8 0.22
13 20 0.56
14 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.15
Consensus pattern (12 bp):
AAAGTAAAAGTA
Found at i:3587389 original size:19 final size:19
Alignment explanation
Indices: 3587365--3587419 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
3587355 ATGATGAAAG
3587365 AAAGTAAAAGTAAAAAGGT
1 AAAGTAAAAGTAAAAAGGT
3587384 AAAGTAAAAGTAAAAAGGT
1 AAAGTAAAAGTAAAAAGGT
*
3587403 AAAGTAAAAGTGAAAAG
1 AAAGTAAAAGTAAAAAG
3587420 AAGATAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.15
Consensus pattern (19 bp):
AAAGTAAAAGTAAAAAGGT
Found at i:3604255 original size:259 final size:267
Alignment explanation
Indices: 3603776--3604440 Score: 856
Period size: 278 Copynumber: 2.5 Consensus size: 267
3603766 GTAGTAATAT
3603776 CAATTTT-GGAAATAGTTTATTGGGTAAGAAACTTTTGA-AATCGCTTTCTTACTTTTCAAAAAT
1 CAATTTTGGGAAATAGTTTATTGGGTAAGAAAC-TTTGATAATCGCTTTCTTACTTTTCAAAAAT
* * *
3603839 TTCATTTTTTGAAAACA-TTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTTTCTTCAAA
65 TTCATTTTTAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCA----TTTTC-ACAAA
* *
3603903 TTCATGTAAAAACATCCTACCTGAAGGTCTTACGGATGGCCCGAAAGACTTTTCATCTTGCTCGA
125 TTCATGTAAAAACATCCTACCTAAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGA
* *
3603968 AAGACTTACAGATGACCCGAAGGATTTAATCATCATG-TTGGAAAGAC-TT-A-CT-GA-TA-GA
190 AAGACTTACAGATGACCCAAAAGATTTAATCATCATGCTT-GAAAGACTTTGAGCTAGACTATGA
3604026 -CCAAATGACTTAC
254 GCCAAATGACTTAC
* *
3604039 CAATTTTGGGAAATAGTTTACTGGGTAAGAAACTTTGATAATCGTTTTCTTACTTTTCAAAAATT
1 CAATTTTGGGAAATAGTTTATTGGGTAAGAAACTTTGATAATCGCTTTCTTACTTTTCAAAAATT
*
3604104 TCATTTTAAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAC-AATTCATG
66 TCATTTTTAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAAATTCATG
* * * * * *
3604168 TGAAAACATCATTTCC-AAAGGTCTTACGGATGGTCTGAAGGACTTATCATCTTGCTCGAAAGAC
131 TAAAAACATC-CTACCTAAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGAC
3604232 TTACAGATGACCCAAAAGATTTAATCATCATGCTTGAAAGACTTATTGATGGCTCGAAAGACTTA
195 TTACAGATGACCCAAAAGATTTAATCATCATGCTTGAAAGAC-T-TTGA--GCT----AGAC-TA
3604297 TTGATGGCCCAAATGACTTAC
251 -TGA--G-CCAAATGACTTAC
* * *
3604318 CAA-TTTGGGAAATAGTTCATTGGGTAAGAAACTTTGGTAATCACTTTCTTACTTTTCAAAAATT
1 CAATTTTGGGAAATAGTTTATTGGGTAAGAAACTTTGATAATCGCTTTCTTACTTTTCAAAAATT
*
3604382 TCATTTTTAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTCA-AAAT
66 TCATTTTTAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAAAT
3604441 AACTTAATGG
Statistics
Matches: 353, Mismatches: 23, Indels: 37
0.85 0.06 0.09
Matches are distributed among these distances:
259 97 0.27
260 6 0.02
261 5 0.01
262 2 0.01
263 13 0.04
264 62 0.18
265 32 0.09
266 2 0.01
271 2 0.01
273 2 0.01
275 2 0.01
278 112 0.32
279 16 0.05
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (267 bp):
CAATTTTGGGAAATAGTTTATTGGGTAAGAAACTTTGATAATCGCTTTCTTACTTTTCAAAAATT
TCATTTTTAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCACAAATTCATG
TAAAAACATCCTACCTAAAGGTCTTACGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACT
TACAGATGACCCAAAAGATTTAATCATCATGCTTGAAAGACTTTGAGCTAGACTATGAGCCAAAT
GACTTAC
Found at i:3604292 original size:20 final size:20
Alignment explanation
Indices: 3604267--3604304 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3604257 CATCATGCTT
3604267 GAAAGACTTATTGATGGCTC
1 GAAAGACTTATTGATGGCTC
3604287 GAAAGACTTATTGATGGC
1 GAAAGACTTATTGATGGC
3604305 CCAAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (20 bp):
GAAAGACTTATTGATGGCTC
Found at i:3604314 original size:20 final size:20
Alignment explanation
Indices: 3604268--3604316 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
3604258 ATCATGCTTG
*
3604268 AAAGACTTATTGATGGCTCG
1 AAAGACTTATTGATGGCTCC
3604288 AAAGACTTATTGATGGC-CC
1 AAAGACTTATTGATGGCTCC
3604307 AAATGACTTA
1 AAA-GACTTA
3604317 CCAATTTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
AAAGACTTATTGATGGCTCC
Found at i:3606540 original size:9 final size:9
Alignment explanation
Indices: 3606521--3606555 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
3606511 TTCTCTCGCT
3606521 TTTTCTTCTA
1 TTTT-TTCTA
3606531 TTTTTTCTA
1 TTTTTTCTA
3606540 TTTTTTCT-
1 TTTTTTCTA
3606548 TTTTTTCT
1 TTTTTTCT
3606556 TGTATTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 13 0.52
10 4 0.16
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:3612498 original size:20 final size:19
Alignment explanation
Indices: 3612452--3612498 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 19
3612442 AACTTGAGAT
3612452 CCAAATTAAAA-TACATGA
1 CCAAATTAAAATTACATGA
3612470 --AAATT--AATTACAATGA
1 CCAAATTAAAATTAC-ATGA
3612486 CCAAATTAAAATT
1 CCAAATTAAAATT
3612499 TTACAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
14 2 0.09
15 3 0.13
16 9 0.39
18 5 0.22
20 4 0.17
ACGTcount: A:0.55, C:0.13, G:0.04, T:0.28
Consensus pattern (19 bp):
CCAAATTAAAATTACATGA
Found at i:3624813 original size:3 final size:3
Alignment explanation
Indices: 3624805--3624851 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
3624795 TTTTAATAGC
*
3624805 TTA TTA TTA TTA TTA -TA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3624852 ATAAAATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3625487 original size:310 final size:309
Alignment explanation
Indices: 3624871--3625492 Score: 1185
Period size: 310 Copynumber: 2.0 Consensus size: 309
3624861 ATTTATTACA
3624871 GGCCCGTTTTACAAATCTAGAGGCCCAACAGTGACCCAAAAACCCAATCTGGTCCAGACCCAAAT
1 GGCCCGTTTTACAAATCTAGAGGCCCAACAGTGACCCAAAAACCCAATCTGGTCCAGACCCAAAT
3624936 CCGGAGCCCAAATGTGTAGCCCTAAAATCGGTTAGGGTTTACATCTCATAATACAGCCGCCGATT
66 CCGGAGCCCAAATGTGTAGCCCTAAAATCGGTTAGGGTTTACATCTCATAATACAGCCGCCGATT
3625001 CCATCCACTGTTAGATCTGGCAAGATCCAACGGTCCAAAGCTCTCCAACAAGAAACCCTAGGGTT
131 CCATCCACTGTTAGATCTGGCAAGATCCAACGGTCCAAAGCTCTCCAACAAGAAACCCTAGGGTT
3625066 ATGATACCCTAGGGACCACGCGGCCGCCACTATTGCTGCACCCAACTCACCGCTGCCACGACGCC
196 ATGATACCCTAGGGACCACGCGGCCGCCACTATTGCTGCACCCAACTCACCGCTGCCACGACGCC
3625131 CGTCAAAGCTTCCAGAAGCGCCACTAAGCCACACACTCGTGCTGCTCTAG
261 CGTCAAAGCTTCCAGAAGCGCCACTAAGCCACACACTCG-GCTGCTCTAG
3625181 GGCCCGTTTTACAAATCTAGAGGCCCAACAGTGACCCAAAAACCCAATCTGGTCCAGACCCAAAT
1 GGCCCGTTTTACAAATCTAGAGGCCCAACAGTGACCCAAAAACCCAATCTGGTCCAGACCCAAAT
3625246 CCGGAGCCCAAATGTGTAGCCCTAAAATCGGTTAGGGTTTACATCTCATAATACAGCCGCCGATT
66 CCGGAGCCCAAATGTGTAGCCCTAAAATCGGTTAGGGTTTACATCTCATAATACAGCCGCCGATT
3625311 CCATCCACTGTTAGATCTGGCAAGATCCAACGGTCCAAAGCTCTCCAACAAGAAACCCTAGGGTT
131 CCATCCACTGTTAGATCTGGCAAGATCCAACGGTCCAAAGCTCTCCAACAAGAAACCCTAGGGTT
*
3625376 ATGATACCCTAGGGACCACGCGGCCGCCACTATTGCTGC-CACCACCTCCACCGCTGCCACGACG
196 ATGATACCCTAGGGACCACGCGGCCGCCACTATTGCTGCAC-CCAACT-CACCGCTGCCACGACG
3625440 CCCGTCAAAGCTTCCAGAAGCGCCACTAAGCCACACACGTC-GCTGCTCTAG
259 CCCGTCAAAGCTTCCAGAAGCGCCACTAAGCCACACAC-TCGGCTGCTCTAG
3625491 GG
1 GG
3625493 GTGAGTCACC
Statistics
Matches: 308, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
309 1 0.00
310 251 0.81
311 54 0.18
312 2 0.01
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (309 bp):
GGCCCGTTTTACAAATCTAGAGGCCCAACAGTGACCCAAAAACCCAATCTGGTCCAGACCCAAAT
CCGGAGCCCAAATGTGTAGCCCTAAAATCGGTTAGGGTTTACATCTCATAATACAGCCGCCGATT
CCATCCACTGTTAGATCTGGCAAGATCCAACGGTCCAAAGCTCTCCAACAAGAAACCCTAGGGTT
ATGATACCCTAGGGACCACGCGGCCGCCACTATTGCTGCACCCAACTCACCGCTGCCACGACGCC
CGTCAAAGCTTCCAGAAGCGCCACTAAGCCACACACTCGGCTGCTCTAG
Found at i:3626365 original size:14 final size:14
Alignment explanation
Indices: 3626326--3626367 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
3626316 AATTTGTGTA
3626326 TTTAATTTTAAATGC
1 TTTAATTTT-AATGC
3626341 TTTATATTTTAAT-C
1 TTTA-ATTTTAATGC
3626355 TTGTAATTTTAAT
1 TT-TAATTTTAAT
3626368 TTTATTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (14 bp):
TTTAATTTTAATGC
Found at i:3626743 original size:17 final size:18
Alignment explanation
Indices: 3626723--3626759 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3626713 ATTTATAAAA
3626723 TTATAAAAAAT-ATATAT
1 TTATAAAAAATAATATAT
*
3626740 TTATAAAAATTAATATAT
1 TTATAAAAAATAATATAT
3626758 TT
1 TT
3626760 TCTTAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAAAAAATAATATAT
Found at i:3628208 original size:35 final size:36
Alignment explanation
Indices: 3628148--3628218 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
3628138 GAGCTATGCA
*
3628148 CACAAAGATCATGTTATGTTAATACCAAAAGTATTC
1 CACAAAGATCATGTTATGTTAATACCAAAAGCATTC
*
3628184 CACAAAGATC-TGTTA-GATTGATACCAAAAGCATTC
1 CACAAAGATCATGTTATG-TTAATACCAAAAGCATTC
3628219 TATGGTAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 1 0.03
35 21 0.66
36 10 0.31
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (36 bp):
CACAAAGATCATGTTATGTTAATACCAAAAGCATTC
Found at i:3628832 original size:14 final size:13
Alignment explanation
Indices: 3628813--3628844 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
3628803 CTCATTCATC
3628813 AAAAAAAGAAGAAG
1 AAAAAAAGAA-AAG
3628827 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
3628840 AAAAA
1 AAAAA
3628845 GATGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:3628846 original size:22 final size:23
Alignment explanation
Indices: 3628813--3628863 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3628803 CTCATTCATC
3628813 AAAAAAAGAAGA-AGAAAAAAAG
1 AAAAAAAGAAGATAGAAAAAAAG
* *
3628835 AAAAGAAA-AAGATGGAAAAAATG
1 AAAA-AAAGAAGATAGAAAAAAAG
3628858 AAAAAA
1 AAAAAA
3628864 GGAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAAGATAGAAAAAAAG
Found at i:3628867 original size:16 final size:18
Alignment explanation
Indices: 3628835--3628872 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
3628825 AGAAAAAAAG
3628835 AAAA-GAAAAAGATGGAA
1 AAAATGAAAAAGATGGAA
3628852 AAAATGAAAAA-A-GGAA
1 AAAATGAAAAAGATGGAA
3628868 AAAAT
1 AAAAT
3628873 TGAATCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (18 bp):
AAAATGAAAAAGATGGAA
Found at i:3629371 original size:15 final size:15
Alignment explanation
Indices: 3629351--3629381 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3629341 TAAAATTTCT
3629351 AAATAACATCTTGAA
1 AAATAACATCTTGAA
3629366 AAATAACATCTTGAA
1 AAATAACATCTTGAA
3629381 A
1 A
3629382 CCAAATGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAACATCTTGAA
Found at i:3632952 original size:36 final size:36
Alignment explanation
Indices: 3632900--3633172 Score: 224
Period size: 36 Copynumber: 7.5 Consensus size: 36
3632890 TTCAAATAGT
*
3632900 AATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-A
1 AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* ** ** **
3632935 AATTGTGTCTCTCTTGAGACAGTTTCACTCGAAACAGA
1 AATT-TGTCTCACTTGAGATTGTTTTTCTTAAAACA-A
***
3632973 AATGAATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* * ** ** **
3633009 AATTTGTTTCGCTTGAGACAGTTTCACTCGAAACAA
1 AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
*
3633045 CAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 -AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* ** ** **
3633082 AATTTGTCTCGCTTGAGACAGTTTCACTCGAAACAA
1 AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* *
3633118 CAATTTATCTTACTTGAGATTGTTTTTCTTAAAACAA
1 -AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* *
3633155 AATTCGTCTCGCTTGAGA
1 AATTTGTCTCACTTGAGA
3633173 CAGTTTCACT
Statistics
Matches: 174, Mismatches: 59, Indels: 9
0.72 0.24 0.04
Matches are distributed among these distances:
35 4 0.02
36 90 0.52
37 76 0.44
38 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (36 bp):
AATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
Found at i:3633196 original size:73 final size:73
Alignment explanation
Indices: 3632900--3633182 Score: 480
Period size: 73 Copynumber: 3.9 Consensus size: 73
3632890 TTCAAATAGT
*
3632900 AATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAATTGTGTCTCTCTTGAGACAGTTTCACT
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATT-TGTCTCGCTTGAGACAGTTTCACT
3632964 CGAAACAGA-
65 CGAAACA-AC
** *
3632973 AATGAATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTTTCGCTTGAGACAGTTTCACTC
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTC
3633038 GAAACAAC
66 GAAACAAC
3633046 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTC
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTC
3633111 GAAACAAC
66 GAAACAAC
* *
3633119 AATTTATCTTACTTGAGATTGTTTTTCTTAAAACAAAATTCGTCTCGCTTGAGACAGTTTCACT
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACT
3633183 ATAAACAGAA
Statistics
Matches: 199, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
72 1 0.01
73 193 0.97
74 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (73 bp):
AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACTC
GAAACAAC
Found at i:3633437 original size:123 final size:122
Alignment explanation
Indices: 3633213--3633662 Score: 677
Period size: 123 Copynumber: 3.7 Consensus size: 122
3633203 CTCGATTGAT
* *
3633213 CAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTGATAAT
1 CAACATTTCCAGA-GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
*
3633278 GAGAAGAACTTGTTCAACCTTTTGCTCGATTTTATCCCAGAAGGAGATAAATCAGCAC
65 GAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCCAGAAGGAGATAAATCAGCAC
* * * *
3633336 CAATATTTCCTGATGAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTTATAAT
1 CAACATTTCCAGA-GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * *
3633401 GAGAAGAACTTGTTCAACCTTTTACTCAATTCTATCCCAGAAGGAGATAAATCATCAC
65 GAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCCAGAAGGAGATAAATCAGCAC
* * * *
3633459 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTAATCTGAAGGGGAAGAATAAGGTCATAAT
1 CAACATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * * * *
3633524 GAGAAGAACTTGTTCAACCTTTTGCTCGACTCTTTCACAGAAGGAGATAGATCAGCAT
65 GAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCCAGAAGGAGATAAATCAGCAC
*
3633582 CAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAAT
1 CAACATTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
3633646 GAGAAGAACTTGTTCAA
65 GAGAAGAACTTGTTCAA
3633663 TCTTGCCTTA
Statistics
Matches: 294, Mismatches: 31, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
121 1 0.00
122 62 0.21
123 231 0.79
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (122 bp):
CAACATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCCAGAAGGAGATAAATCAGCAC
Found at i:3635102 original size:16 final size:16
Alignment explanation
Indices: 3635057--3635103 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
3635047 TAAAGCATGT
3635057 TTTTA-TTTATTATAA
1 TTTTAGTTTATTATAA
3635072 -TTTAG--TATTCA-AA
1 TTTTAGTTTATT-ATAA
3635085 TTTTAGTTTATTATAA
1 TTTTAGTTTATTATAA
3635101 TTT
1 TTT
3635104 AATCCTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 11
0.70 0.00 0.30
Matches are distributed among these distances:
13 6 0.23
14 10 0.38
15 1 0.04
16 9 0.35
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTTAGTTTATTATAA
Found at i:3638314 original size:10 final size:10
Alignment explanation
Indices: 3638299--3638324 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3638289 GTGCAGTCGG
3638299 ATTTATTCGT
1 ATTTATTCGT
3638309 ATTTATTCGT
1 ATTTATTCGT
3638319 ATTTAT
1 ATTTAT
3638325 CTCTTGTTCG
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (10 bp):
ATTTATTCGT
Found at i:3645402 original size:20 final size:20
Alignment explanation
Indices: 3645377--3645431 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
3645367 TTATATGAAT
3645377 GTGTATCGGTACACTGAGGA
1 GTGTATCGGTACACTGAGGA
3645397 GTGTATCGGTACACTGAGGA
1 GTGTATCGGTACACTGAGGA
*
3645417 GTGTATCGATACACT
1 GTGTATCGGTACACT
3645432 CAGAATATCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (20 bp):
GTGTATCGGTACACTGAGGA
Found at i:3645456 original size:35 final size:35
Alignment explanation
Indices: 3645417--3645501 Score: 152
Period size: 35 Copynumber: 2.4 Consensus size: 35
3645407 ACACTGAGGA
*
3645417 GTGTATCGATACACTCAGAATATCGAATGTCATTT
1 GTGTATCGATACACTCAGAACATCGAATGTCATTT
3645452 GTGTATCGATACACTCAGAACATCGAATGTCATTT
1 GTGTATCGATACACTCAGAACATCGAATGTCATTT
*
3645487 GTGTATCGGTACACT
1 GTGTATCGATACACT
3645502 AAGTAGTGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (35 bp):
GTGTATCGATACACTCAGAACATCGAATGTCATTT
Found at i:3645546 original size:54 final size:55
Alignment explanation
Indices: 3645452--3645574 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 55
3645442 AATGTCATTT
* * * *
3645452 GTGTATCGATACACTCAGAACATCGAATGTCATTTGTGTATCGGTACACTAAGTA
1 GTGTATCGATACCCTCAGAACATCGAATGTCATTTATGTATCGATACACTAAGGA
*
3645507 GTGTATCGATACCCTCA-AACATTGAATG-CAATTTATGTATCGATACACTAAGGA
1 GTGTATCGATACCCTCAGAACATCGAATGTC-ATTTATGTATCGATACACTAAGGA
3645561 GTGTATCGATACCC
1 GTGTATCGATACCC
3645575 CCATTTATGA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.73
55 16 0.26
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (55 bp):
GTGTATCGATACCCTCAGAACATCGAATGTCATTTATGTATCGATACACTAAGGA
Found at i:3650228 original size:25 final size:27
Alignment explanation
Indices: 3650198--3650314 Score: 72
Period size: 25 Copynumber: 4.4 Consensus size: 27
3650188 AATGCATCTT
3650198 TATATGTGA-ACTATGT-AAATACATA
1 TATATGTGATACTATGTAAAATACATA
*
3650223 TATATGTGATATTAGGCTATGTGATAATA-ATA
1 TATATGTG--A-TA--CTATGT-AAAATACATA
* * *
3650255 GATA--AGATA-TATGATAAAATAC-TT
1 TATATGTGATACTATG-TAAAATACATA
3650279 TATATGTGA-ACTATGT-AAATACATA
1 TATATGTGATACTATGTAAAATACATA
3650304 TATATGTGATA
1 TATATGTGATA
3650315 TTAGGCTATG
Statistics
Matches: 69, Mismatches: 8, Indels: 29
0.65 0.08 0.27
Matches are distributed among these distances:
24 19 0.28
25 21 0.30
26 7 0.10
27 3 0.04
28 1 0.01
29 1 0.01
30 1 0.01
31 6 0.09
32 6 0.09
33 4 0.06
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.38
Consensus pattern (27 bp):
TATATGTGATACTATGTAAAATACATA
Found at i:3650245 original size:40 final size:40
Alignment explanation
Indices: 3650200--3650327 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 40
3650190 TGCATCTTTA
3650200 TATGTGAACTATGTAAATACATATATATGTGATATTAGGC
1 TATGTGAACTATGTAAATACATATATATGTGATATTAGGC
* * * * *
3650240 TATGTGATAATA-ATAGATA-AGATATATGATAAAATACTTTA---
1 TATGTGA-ACTATGTAAATACATATATATG-T--GATA--TTAGGC
3650281 TATGTGAACTATGTAAATACATATATATGTGATATTAGGC
1 TATGTGAACTATGTAAATACATATATATGTGATATTAGGC
3650321 TATGTGA
1 TATGTGA
3650328 TAATAATAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
37 3 0.04
39 11 0.16
40 23 0.34
41 16 0.24
42 11 0.16
44 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (40 bp):
TATGTGAACTATGTAAATACATATATATGTGATATTAGGC
Found at i:3650267 original size:39 final size:39
Alignment explanation
Indices: 3650222--3650348 Score: 118
Period size: 39 Copynumber: 3.2 Consensus size: 39
3650212 GTAAATACAT
3650222 ATATATGTGATATTAGGCTATGTGATAATAATAGATAAG
1 ATATATGTGATATTAGGCTATGTGATAATAATAGATAAG
* * * * *
3650261 ATATATGATAAAATACTTTA---TATGTGA-ACTATGTAAATACAT
1 ATATATG-T--GATA--TTAGGCTATGTGATAATA-ATAGATA-AG
3650303 ATATATGTGATATTAGGCTATGTGATAATAATAGATAAG
1 ATATATGTGATATTAGGCTATGTGATAATAATAGATAAG
3650342 ATATATG
1 ATATATG
3650349 ATAAAATATA
Statistics
Matches: 67, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
37 3 0.04
39 18 0.27
40 16 0.24
41 16 0.24
42 11 0.16
44 3 0.04
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (39 bp):
ATATATGTGATATTAGGCTATGTGATAATAATAGATAAG
Found at i:3650330 original size:81 final size:81
Alignment explanation
Indices: 3650195--3650356 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
3650185 TCTAATGCAT
3650195 CTTTATATGTGAACTATGTAAATACATATATATGTGATATTAGGCTATGTGATAATAATAGATAA
1 CTTTATATGTGAACTATGTAAATACATATATATGTGATATTAGGCTATGTGATAATAATAGATAA
3650260 GATATATGATAAAATA
66 GATATATGATAAAATA
3650276 CTTTATATGTGAACTATGTAAATACATATATATGTGATATTAGGCTATGTGATAATAATAGATAA
1 CTTTATATGTGAACTATGTAAATACATATATATGTGATATTAGGCTATGTGATAATAATAGATAA
3650341 GATATATGATAAAATA
66 GATATATGATAAAATA
3650357 TATGTGAAAG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.37
Consensus pattern (81 bp):
CTTTATATGTGAACTATGTAAATACATATATATGTGATATTAGGCTATGTGATAATAATAGATAA
GATATATGATAAAATA
Found at i:3655228 original size:160 final size:163
Alignment explanation
Indices: 3654957--3655280 Score: 627
Period size: 160 Copynumber: 2.0 Consensus size: 163
3654947 CAAAATTATT
3654957 TCGTTCTTTGATAAAGAAAGGAGGGAAAATATTTTCAAACATGACAGTCTCAAATGAGAAAGGTT
1 TCGTTCTTTGATAAAGAAAGGAGGGAAAATATTTTCAAACATGACAGTCTCAAATGAGAAAGGTT
3655022 TTTGAAGCAAGTTGGTGTCTAATTCTACCGCTATTAAAGAAAAAAATGAGTAAGGCT-AAATGAT
66 TTTGAAGCAAGTTGGTGTCTAATTCTACCGCTATTAAAGAAAAAAATGAGTAAGGCTAAAATGAT
3655086 GAAGCA-TTCACATATTTTGAAAGCAAGTGACC
131 GAAGCACTTCACATATTTTGAAAGCAAGTGACC
3655118 TCGTTC-TTGATAAAGAAAGGAGGGAAAATATTTTCAAACATGACAGTCTCAAATGAGAAAGGTT
1 TCGTTCTTTGATAAAGAAAGGAGGGAAAATATTTTCAAACATGACAGTCTCAAATGAGAAAGGTT
3655182 TTTGAAGCAAGTTGGTGTCTAATTCTACCGCTATTAAAGAAAAAAATGAGTAAGGCTAAAATGAT
66 TTTGAAGCAAGTTGGTGTCTAATTCTACCGCTATTAAAGAAAAAAATGAGTAAGGCTAAAATGAT
3655247 GAAGCACTTCACATATTTTGAAAGCAAGTGACC
131 GAAGCACTTCACATATTTTGAAAGCAAGTGACC
3655280 T
1 T
3655281 GATAGACCAA
Statistics
Matches: 161, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
160 115 0.71
161 19 0.12
162 27 0.17
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (163 bp):
TCGTTCTTTGATAAAGAAAGGAGGGAAAATATTTTCAAACATGACAGTCTCAAATGAGAAAGGTT
TTTGAAGCAAGTTGGTGTCTAATTCTACCGCTATTAAAGAAAAAAATGAGTAAGGCTAAAATGAT
GAAGCACTTCACATATTTTGAAAGCAAGTGACC
Found at i:3656959 original size:20 final size:20
Alignment explanation
Indices: 3656934--3656998 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
3656924 GTTCAAAAAA
3656934 GTAAAACC-TCTGGGTCATTT
1 GTAAAACCTTC-GGGTCATTT
*
3656954 GTAAAACATTCGGGTCATTT
1 GTAAAACCTTCGGGTCATTT
* * *
3656974 ATAAAACCTTCAGGTAATTT
1 GTAAAACCTTCGGGTCATTT
3656994 GTAAA
1 GTAAA
3656999 TCTTTCGAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 36 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
GTAAAACCTTCGGGTCATTT
Found at i:3658398 original size:22 final size:22
Alignment explanation
Indices: 3658368--3658434 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
3658358 AGTCGAGAGT
*
3658368 TACATAGGTCCTTTGGGACATA
1 TACATAGGTCCTTCGGGACATA
*
3658390 TACACAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGGGACATA
* *
3658412 TGCATAGGTGCTTCGGGACATA
1 TACATAGGTCCTTCGGGACATA
3658434 T
1 T
3658435 TTCAAATTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (22 bp):
TACATAGGTCCTTCGGGACATA
Found at i:3662126 original size:557 final size:556
Alignment explanation
Indices: 3661071--3662737 Score: 3030
Period size: 557 Copynumber: 3.0 Consensus size: 556
3661061 GTTTGGTTAT
*
3661071 TATGGTAAGGTAATTAGAGAGTAACAAACGAAGCAATTTGACTCATGATTTGAATAGAAATGATT
1 TATGGTAAGGTAATTAGAGAGTAATAAACGAAGCAATTTGACTCATGATTTGAATAGAAATGATT
3661136 GAAGTTATTGGTTAATGCCTTGATGATAAATGATAGTAGATGGAAGTATAAAGGAGAAAGGTAGT
66 GAAGTTATTGGTTAATGCCTTGATGATAAATGATAGTAGATGGAAGTATAAAGGAGAAAGGTAGT
3661201 A-AAGAACTAAAGTAATGAAATGCAAGTTCTCTGACGGTGAAGGGAAAGATTAATTAAAGAAAGT
131 AGAAGAACTAAAGTAATGAAATGCAAGTTCTCTGACGGTGAAGGGAAAGATTAATTAAAGAAAGT
* *
3661265 AGCATGAGAACATTAGAAGATATATTCTTATCAATGTCTGTAGTGAAAATTCGAGGACGAATTTT
196 AGCATGAGAACATTAGAAGATATATTCTTATCAATGTGTGCAGTGAAAATTCGAGGACGAATTTT
*
3661330 CTTAAAAAGAGGGGAGATTTGTAACATCTCAAATTCAGGGTTAGTGACTAAAATGTAAATTTTGG
261 CTTAAAAAGATGGGAGATTTGTAACATCTCAAATTCAGGGTTAGTGACTAAAATGTAAATTTTGG
* * * * *
3661395 AAACTTTATGCTCAATTTCGAAATAAATTAAAAGTTCAGGGATTTAATTAAAAAATTTATGAGTA
326 AAACTTTATGCTCAATTTCGAAATAAGTCAAAAGTTTAGGGATTTAATTAAAAATTTTGTGAGTA
*
3661460 GGATTGATTAGTAAAAATGAAAAGAAAGAAGGGTAAAATGGTCATTTAATAAGAAAGATTTTTAT
391 GGATTGATTAGTAAAAATGAAAAGAAAGAAGGGTAAAATGGTCATTTAACAAGAAAGATTTTTAT
*
3661525 CTTTCTTTTGAGGGCTATATAACATGTGGGAATTAAGTTGAAAAAGGAAAAAGAAGAGTCTAGAG
456 CTTTCTTTTGAGGGCTATATAACATGTGGGAATTAAGATGAAAAAGGAAAAAGAAGAGTCTAGAG
*
3661590 ATGGGTGGAGCTATATTCTTCTCTTCTCGTGTCTAGA
521 ATGGGTGGAGCTATCTTCTTCTCTTC-CGTGTCTAGA
3661627 TATGGTAAGGTAATTAGAGAGTAATAAACGAAGCAATTTGACTCATGATTTGAATAGAAATGATT
1 TATGGTAAGGTAATTAGAGAGTAATAAACGAAGCAATTTGACTCATGATTTGAATAGAAATGATT
3661692 GAAGTTATTGGTTAATGCCTTGATGATAAATGATAGTAGATGGAAGTATAAAGGAGAAAGGTAGT
66 GAAGTTATTGGTTAATGCCTTGATGATAAATGATAGTAGATGGAAGTATAAAGGAGAAAGGTAGT
3661757 AGAAGAACTAAAGTAATGAAATGCAAGTTCTCTGACGGTGAAGGGAAAGATTAATTAAAGAAAGT
131 AGAAGAACTAAAGTAATGAAATGCAAGTTCTCTGACGGTGAAGGGAAAGATTAATTAAAGAAAGT
* *
3661822 AGCATGAGAACATTAAAAGATATATTCTTATCAATGTGTGCAGTGAAAATTCGAGGACGAACTTT
196 AGCATGAGAACATTAGAAGATATATTCTTATCAATGTGTGCAGTGAAAATTCGAGGACGAATTTT
*
3661887 CTTAAAAAGATGGGAGATTTGTAATATCTCAAATTCAGGGTTAGTGACTAAAATGTAAATTTTGG
261 CTTAAAAAGATGGGAGATTTGTAACATCTCAAATTCAGGGTTAGTGACTAAAATGTAAATTTTGG
3661952 AAACTTTATGCTCAATTTCGAAATAAGTCAAAAGTTTAGGGATTTAATTAAAAATTTTGTGAGTA
326 AAACTTTATGCTCAATTTCGAAATAAGTCAAAAGTTTAGGGATTTAATTAAAAATTTTGTGAGTA
3662017 GGATTGATTAGTAAAAATGAAAAGAAAGAAGGGTAAAATGGTCATTTAACAAGAAAGATTTTTAT
391 GGATTGATTAGTAAAAATGAAAAGAAAGAAGGGTAAAATGGTCATTTAACAAGAAAGATTTTTAT
3662082 CTTTCTTTTGAGGGCTATATAACATGTGGGAATTAAGATGAAAAAGGAAAAAGAAGAGTCTAGAG
456 CTTTCTTTTGAGGGCTATATAACATGTGGGAATTAAGATGAAAAAGGAAAAAGAAGAGTCTAGAG
3662147 ATGGGTGGAGCTATCTTCTTCTCTTCCTGTGTCTAGA
521 ATGGGTGGAGCTATCTTCTTCTCTTCC-GTGTCTAGA
* *
3662184 TATGGTAAGGTAATTAGAGAGTAATAAACGAAGCAATTTGACTCATGATTTAAATGGAAATGATT
1 TATGGTAAGGTAATTAGAGAGTAATAAACGAAGCAATTTGACTCATGATTTGAATAGAAATGATT
* *
3662249 GAAGTTATTGGTTAATCCCTTGATGATAAATAATAGTAGATGGAAGTATAAAGGAGAAAGGTAGT
66 GAAGTTATTGGTTAATGCCTTGATGATAAATGATAGTAGATGGAAGTATAAAGGAGAAAGGTAGT
* * *
3662314 AGAAGAACTAAAGTAATGAAATACAAGTTCTCTGACAGTGAAGGAAAAGATTAATTAAAGAAAGT
131 AGAAGAACTAAAGTAATGAAATGCAAGTTCTCTGACGGTGAAGGGAAAGATTAATTAAAGAAAGT
*
3662379 AGCATGAGAACATTAGAAGATATATTCTTATCAATGTGTGCAGTGAAAATTTGAGGACGAATTTT
196 AGCATGAGAACATTAGAAGATATATTCTTATCAATGTGTGCAGTGAAAATTCGAGGACGAATTTT
*
3662444 CTTAAAAAGATGGGAGATTTGTAACATCTCAAATTCAGGGTTAGTGACTAAAATATAAATTTTGG
261 CTTAAAAAGATGGGAGATTTGTAACATCTCAAATTCAGGGTTAGTGACTAAAATGTAAATTTTGG
* * *
3662509 AAACTTTATGCTTAATTTCGAAATAAGTCAAAAGTTTAGGGGTTTAATTAAAAATTTTGTGAGTT
326 AAACTTTATGCTCAATTTCGAAATAAGTCAAAAGTTTAGGGATTTAATTAAAAATTTTGTGAGTA
* *
3662574 GGATTGATTAGTAGAGATGAAAAGAAAGAAGGGTAAAATGGTCATTTAACAAGAAAGATTTTTAT
391 GGATTGATTAGTAAAAATGAAAAGAAAGAAGGGTAAAATGGTCATTTAACAAGAAAGATTTTTAT
3662639 CTTTCTTTTGAGGGCTATATAACATGTGGGAATTAAGATGAAAAAGGAAAAAGAAGAGTCTAGAG
456 CTTTCTTTTGAGGGCTATATAACATGTGGGAATTAAGATGAAAAAGGAAAAAGAAGAGTCTAGAG
*
3662704 ATGGGTTGAGCTATCTTCTTCTCTTCCCGTGTCT
521 ATGGGTGGAGCTATCTTCTTCTCTT-CCGTGTCT
3662738 TTATGCAAAA
Statistics
Matches: 1075, Mismatches: 33, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
556 131 0.12
557 942 0.88
558 2 0.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (556 bp):
TATGGTAAGGTAATTAGAGAGTAATAAACGAAGCAATTTGACTCATGATTTGAATAGAAATGATT
GAAGTTATTGGTTAATGCCTTGATGATAAATGATAGTAGATGGAAGTATAAAGGAGAAAGGTAGT
AGAAGAACTAAAGTAATGAAATGCAAGTTCTCTGACGGTGAAGGGAAAGATTAATTAAAGAAAGT
AGCATGAGAACATTAGAAGATATATTCTTATCAATGTGTGCAGTGAAAATTCGAGGACGAATTTT
CTTAAAAAGATGGGAGATTTGTAACATCTCAAATTCAGGGTTAGTGACTAAAATGTAAATTTTGG
AAACTTTATGCTCAATTTCGAAATAAGTCAAAAGTTTAGGGATTTAATTAAAAATTTTGTGAGTA
GGATTGATTAGTAAAAATGAAAAGAAAGAAGGGTAAAATGGTCATTTAACAAGAAAGATTTTTAT
CTTTCTTTTGAGGGCTATATAACATGTGGGAATTAAGATGAAAAAGGAAAAAGAAGAGTCTAGAG
ATGGGTGGAGCTATCTTCTTCTCTTCCGTGTCTAGA
Found at i:3664338 original size:22 final size:22
Alignment explanation
Indices: 3664304--3664346 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3664294 TCGAGGGTTA
*
3664304 CATAAGTCTTTCGGGATATATG
1 CATAAGTCCTTCGGGATATATG
*
3664326 CATAGGTCCTTCGGGATATAT
1 CATAAGTCCTTCGGGATATAT
3664347 TTCACAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (22 bp):
CATAAGTCCTTCGGGATATATG
Found at i:3669234 original size:22 final size:22
Alignment explanation
Indices: 3669206--3669269 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
3669196 TCGAGGGTTA
*
3669206 ATAGGTCCTTTGGGACATATAC
1 ATAGGTCCTTCGGGACATATAC
* * *
3669228 ATAGGTCCTTCAGAACATATGC
1 ATAGGTCCTTCGGGACATATAC
*
3669250 ATAGGTCCTTCGAGACATAT
1 ATAGGTCCTTCGGGACATAT
3669270 TTCACATGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (22 bp):
ATAGGTCCTTCGGGACATATAC
Found at i:3670134 original size:36 final size:35
Alignment explanation
Indices: 3670013--3670139 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
3670003 ACCTCAAATT
* *
3670013 AACCTTCAC-GAAAGAGTAGTGCAGTTGATCATTTT
1 AACCTTCACAG-AAGAGTAGTGAAGTTGATCATTTC
* ** *
3670048 AACCTTCACGGAAGAGTAGTGAAGTCAATAATTTC
1 AACCTTCACAGAAGAGTAGTGAAGTTGATCATTTC
3670083 AACCTTCACAGAAGAGTAGTGAAGTTGATCATTGTC
1 AACCTTCACAGAAGAGTAGTGAAGTTGATCATT-TC
* * *
3670119 AACATCCACATAAGAGTAGTG
1 AACCTTCACAGAAGAGTAGTG
3670140 GAAACAAATC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
35 57 0.73
36 21 0.27
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (35 bp):
AACCTTCACAGAAGAGTAGTGAAGTTGATCATTTC
Found at i:3670274 original size:47 final size:47
Alignment explanation
Indices: 3670215--3670433 Score: 141
Period size: 47 Copynumber: 4.6 Consensus size: 47
3670205 TCATTTTCAA
*
3670215 CCTTCACGGAAGAGTAGTGAAGCAAATCATTTGCAAATCATCCTCAT
1 CCTTCACGGAAGAGTAGTGAAACAAATCATTTGCAAATCATCCTCAT
* * *
3670262 CCTTCACAGAAGAGTAGTGGAAACAAATCAAACTTG---A--AT-CTGAT
1 CCTTCACGGAAGAGTAGT-GAAACAAATC--ATTTGCAAATCATCCTCAT
* ** *
3670306 -CTTCACGGAAGAGTAGTGAAACATAGT-ATTCT-CAAGTTTATCATTTTCAA
1 CCTTCACGGAAGAGTAGTGAAACA-AATCATT-TGCAA----ATCATCCTCAT
* * ** *
3670356 CCTTCACGGAAGAGTAGTGAAGCAAATTATTTATAAATCATCCTCAG
1 CCTTCACGGAAGAGTAGTGAAACAAATCATTTGCAAATCATCCTCAT
* * *
3670403 CCTCCACAGAAGAGTAGTGAACCAAGATCAT
1 CCTTCACGGAAGAGTAGTGAAACAA-ATCAT
3670434 ATCAAAATTC
Statistics
Matches: 133, Mismatches: 20, Indels: 37
0.70 0.11 0.19
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 6 0.05
43 18 0.14
44 4 0.03
45 2 0.02
47 49 0.37
48 13 0.10
49 2 0.02
50 9 0.07
51 27 0.20
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (47 bp):
CCTTCACGGAAGAGTAGTGAAACAAATCATTTGCAAATCATCCTCAT
Found at i:3670364 original size:141 final size:141
Alignment explanation
Indices: 3670123--3670421 Score: 490
Period size: 141 Copynumber: 2.1 Consensus size: 141
3670113 ATTGTCAACA
* *
3670123 TCCACATAAGAGTAGTGGAAACAAATCAAACTCGAATCTGATCATCATGGAAGAGTAGTGAAACA
1 TCCACAGAAGAGTAGTGGAAACAAATCAAACTCGAATCTGATCATCACGGAAGAGTAGTGAAACA
* * *
3670188 GATTCTTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTGCAAAT
66 GAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTACAAAT
*
3670253 CATCCTCATCC
131 CATCCTCAGCC
* * *
3670264 TTCACAGAAGAGTAGTGGAAACAAATCAAACTTGAATCTGATCTTCACGGAAGAGTAGTGAAACA
1 TCCACAGAAGAGTAGTGGAAACAAATCAAACTCGAATCTGATCATCACGGAAGAGTAGTGAAACA
* * *
3670329 TAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATTATTTATAAAT
66 GAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTACAAAT
3670394 CATCCTCAGCC
131 CATCCTCAGCC
3670405 TCCACAGAAGAGTAGTG
1 TCCACAGAAGAGTAGTG
3670422 AACCAAGATC
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 145 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (141 bp):
TCCACAGAAGAGTAGTGGAAACAAATCAAACTCGAATCTGATCATCACGGAAGAGTAGTGAAACA
GAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTACAAAT
CATCCTCAGCC
Found at i:3670448 original size:141 final size:141
Alignment explanation
Indices: 3670123--3670464 Score: 474
Period size: 141 Copynumber: 2.4 Consensus size: 141
3670113 ATTGTCAACA
* ** *
3670123 TCCACATAAGAGTAGTGGAAACAAATCAAACTCGAATCTGATCATCATGGAAGAGTAGTGAAACA
1 TCCACAGAAGAGTAGTGGAAACAAATCAAACTAAAATCTGATCTTCATGGAAGAGTAGTGAAACA
* * *
3670188 GATTCTTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTGCAAAT
66 GAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTACAAAT
*
3670253 CATCCTCATCC
131 CATCCTCAGCC
* ** *
3670264 TTCACAGAAGAGTAGTGGAAACAAATCAAACTTGAATCTGATCTTCACGGAAGAGTAGTGAAACA
1 TCCACAGAAGAGTAGTGGAAACAAATCAAACTAAAATCTGATCTTCATGGAAGAGTAGTGAAACA
* * *
3670329 TAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATTATTTATAAAT
66 GAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTACAAAT
3670394 CATCCTCAGCC
131 CATCCTCAGCC
* * *
3670405 TCCACAGAAGAGTAGT-GAACCAAGATCATA-TCAAAAT-TCGATCTCCATGGAAGAGTAGTG
1 TCCACAGAAGAGTAGTGGAAACAA-ATCAAACT-AAAATCT-GATCTTCATGGAAGAGTAGTG
3670465 GAACGAATTT
Statistics
Matches: 179, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
140 8 0.04
141 171 0.96
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (141 bp):
TCCACAGAAGAGTAGTGGAAACAAATCAAACTAAAATCTGATCTTCATGGAAGAGTAGTGAAACA
GAGTATTCTCAAGTTTATCATTTTCAACCTTCACGGAAGAGTAGTGAAGCAAATCATTTACAAAT
CATCCTCAGCC
Found at i:3670632 original size:21 final size:22
Alignment explanation
Indices: 3670608--3670656 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
3670598 TTCTATTATA
3670608 TATAATATATTATAATAAT-AT
1 TATAATATATTATAATAATAAT
* *
3670629 TATAATATATTATTATTATAAT
1 TATAATATATTATAATAATAAT
3670651 TATAAT
1 TATAAT
3670657 TACAAGGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATATATTATAATAATAAT
Found at i:3670637 original size:16 final size:16
Alignment explanation
Indices: 3670613--3670656 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
3670603 TTATATATAA
*
3670613 TATATTATAATAATAT
1 TATAATATAATAATAT
* *
3670629 TATAATATATTATTAT
1 TATAATATAATAATAT
3670645 TATAATTATAAT
1 TATAA-TATAAT
3670657 TACAAGGCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAATATAATAATAT
Found at i:3671119 original size:3 final size:3
Alignment explanation
Indices: 3671096--3671135 Score: 53
Period size: 3 Copynumber: 12.3 Consensus size: 3
3671086 GATCGAACCT
3671096 ACA AGCA ACAA ACA CACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA A-CA AC-A ACA -ACA ACA ACA ACA ACA ACA ACA ACA A
3671136 AAGACAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 25 0.74
4 9 0.26
ACGTcount: A:0.65, C:0.33, G:0.03, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:3671550 original size:13 final size:13
Alignment explanation
Indices: 3671532--3671570 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
3671522 TTTTTATGCT
3671532 TTTTAATTTTATC
1 TTTTAATTTTATC
*
3671545 TTTTAATTTTATT
1 TTTTAATTTTATC
3671558 TATTTATATTTTA
1 T-TTTA-ATTTTA
3671571 GTCTGTGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.57
14 4 0.17
15 6 0.26
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTATC
Found at i:3677108 original size:2 final size:2
Alignment explanation
Indices: 3677101--3677130 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3677091 ATATAAGGGA
3677101 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3677131 AAATAAATAT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3679143 original size:43 final size:45
Alignment explanation
Indices: 3679070--3679278 Score: 147
Period size: 43 Copynumber: 4.6 Consensus size: 45
3679060 ATAACTCGGT
* * * *
3679070 TCCTACGTGATGAGGACGGCTGATTATCTAA-GGT-TGACACGGC
1 TCCTACGTGATGAGGAAGTCTGGTCATCTAAGGGTATGACACGGC
* * *
3679113 TCCTACGTGATGAGGAAGTCTGGTCGTCTAAGGGTAGATGACATGGT
1 TCCTACGTGATGAGGAAGTCTGGTCATCTAAGGGT--ATGACACGGC
* * * * * * * *
3679160 TCATACATGATGAAGAACTCTGGCCATCTTTAAGAAGGGTGATAACTCGGT
1 TCCTACGTGATGAGGAAGTCTGGTCATC--T---AAGGGT-ATGACACGGC
* * * *
3679211 TCCTACGTGATGAGGACGGCTGATTATCTAA-GGT-TGACACGGC
1 TCCTACGTGATGAGGAAGTCTGGTCATCTAAGGGTATGACACGGC
3679254 TCCTACGTGATGAGGAAGTCTGGTC
1 TCCTACGTGATGAGGAAGTCTGGTC
3679279 GGTTGATGTT
Statistics
Matches: 125, Mismatches: 32, Indels: 18
0.71 0.18 0.10
Matches are distributed among these distances:
43 53 0.42
44 3 0.02
45 3 0.02
46 2 0.02
47 29 0.23
49 2 0.02
51 27 0.22
52 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (45 bp):
TCCTACGTGATGAGGAAGTCTGGTCATCTAAGGGTATGACACGGC
Found at i:3680245 original size:16 final size:15
Alignment explanation
Indices: 3680224--3680297 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 15
3680214 TCCTTTATTT
3680224 ATTTTTCTTCTTTTTC
1 ATTTTTCTT-TTTTTC
3680240 ATTTTT-TATTTTTTC
1 ATTTTTCT-TTTTTTC
**
3680255 ATTTCCCTTTTTTTTC
1 ATTTTTC-TTTTTTTC
* *
3680271 A-TTTCCCTTTTTTC
1 ATTTTTCTTTTTTTC
*
3680285 A-TTTCCTTTTTTT
1 ATTTTTCTTTTTTT
3680298 TTTTTAAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
14 19 0.38
15 15 0.30
16 15 0.30
17 1 0.02
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTCTTTTTTTC
Found at i:3680297 original size:14 final size:14
Alignment explanation
Indices: 3680234--3680297 Score: 74
Period size: 14 Copynumber: 4.4 Consensus size: 14
3680224 ATTTTTCTTC
**
3680234 TTTTTCATTTTTTAT
1 TTTTTCATTTCCT-T
3680249 TTTTTCATTTCCCTTT
1 TTTTTCATTT-CC-TT
*
3680265 TTTTTCATTTCCCT
1 TTTTTCATTTCCTT
3680279 TTTTTCATTTCCTT
1 TTTTTCATTTCCTT
3680293 TTTTT
1 TTTTT
3680298 TTTTTAAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
14 19 0.44
15 12 0.28
16 11 0.26
17 1 0.02
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATTTCCTT
Found at i:3680298 original size:16 final size:16
Alignment explanation
Indices: 3680234--3680299 Score: 77
Period size: 16 Copynumber: 4.3 Consensus size: 16
3680224 ATTTTTCTTC
3680234 TTTTTCATTT--TTTAT
1 TTTTTCATTTCCTTT-T
*
3680249 TTTTTCATTTCCCTTT
1 TTTTTCATTTCCTTTT
*
3680265 TTTTTCATTTCC--CT
1 TTTTTCATTTCCTTTT
3680279 TTTTTCATTTCCTTTT
1 TTTTTCATTTCCTTTT
3680295 TTTTT
1 TTTTT
3680300 TTTAAAGTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.30
15 10 0.23
16 19 0.43
17 2 0.05
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTCATTTCCTTTT
Found at i:3692316 original size:2 final size:2
Alignment explanation
Indices: 3692309--3692349 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3692299 ATATAAGGGA
3692309 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3692350 AATAAATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3697105 original size:18 final size:18
Alignment explanation
Indices: 3697082--3697132 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
3697072 ACTAATTTTA
3697082 ATAATCTTATTATC-ACCG
1 ATAATCTTATT-TCTACCG
* *
3697100 ATAATCTCATTTCTACTG
1 ATAATCTTATTTCTACCG
3697118 ATAATCTTATATTCT
1 ATAATCTTAT-TTCT
3697133 GTGAACTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 22 0.79
19 4 0.14
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (18 bp):
ATAATCTTATTTCTACCG
Found at i:3703281 original size:23 final size:23
Alignment explanation
Indices: 3703255--3703302 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
3703245 ATAAAGTACA
* *
3703255 ATAACATACTAGGTATCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
**
3703278 ATAATGTAATAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
3703301 AT
1 AT
3703303 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:3703747 original size:23 final size:23
Alignment explanation
Indices: 3703684--3703756 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
3703674 ACACTTTACA
* *
3703684 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
3703707 ATATAAACGATACATATTACATT
1 ATATAAACGCTACCTATTACATT
** *
3703730 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
3703753 ATAT
1 ATAT
3703757 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:3704215 original size:39 final size:39
Alignment explanation
Indices: 3704159--3704284 Score: 225
Period size: 39 Copynumber: 3.2 Consensus size: 39
3704149 TCAAGTTGTA
3704159 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
*
3704198 GATTTTGATTTCTTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
* *
3704237 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
3704276 GATTTTGAT
1 GATTTTGAT
3704285 GAGCATCGGA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.17, C:0.13, G:0.21, T:0.49
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
Found at i:3704855 original size:25 final size:25
Alignment explanation
Indices: 3704827--3704877 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
3704817 TTAATCCAAA
*
3704827 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
3704852 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
3704877 T
1 T
3704878 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:3705170 original size:21 final size:22
Alignment explanation
Indices: 3705145--3705196 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
3705135 ACACTTTACA
*
3705145 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
3705168 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
3705191 ATATAA
1 ATATAA
3705197 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:3705181 original size:23 final size:23
Alignment explanation
Indices: 3705155--3705217 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3705145 ATATAACCAC
3705155 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
3705178 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
3705201 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3705218 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3705596 original size:21 final size:22
Alignment explanation
Indices: 3705571--3705622 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
3705561 ACACTTTACA
*
3705571 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
3705594 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
3705617 ATATAA
1 ATATAA
3705623 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:3705607 original size:23 final size:23
Alignment explanation
Indices: 3705581--3705643 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3705571 ATATAACCAC
3705581 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
3705604 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
3705627 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3705644 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3706065 original size:21 final size:22
Alignment explanation
Indices: 3705995--3706070 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
3705985 GATAGACACT
* *
3705995 TTACA-ATATAACCACTACCTA
1 TTACATATATAAACGCTACCTA
*
3706016 TTACATTATATAAACGATACCTA
1 TTACA-TATATAAACGCTACCTA
**
3706039 TTACAT-TATAAGGGCTACCTA
1 TTACATATATAAACGCTACCTA
3706060 TTACATCATAT
1 TTACAT-ATAT
3706071 GTTTACCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 23 0.51
22 1 0.02
23 21 0.47
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACATATATAAACGCTACCTA
Found at i:3706159 original size:427 final size:431
Alignment explanation
Indices: 3704909--3706599 Score: 3206
Period size: 426 Copynumber: 3.9 Consensus size: 431
3704899 TTTGAATTAT
* *
3704909 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
* * *
3704974 TTAGAATTTTTAATTTAATAATAATATATATCGTAACGTCAAAAA-AAATCATTATACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
3705038 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
131 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
3705103 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
196 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
3705168 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
261 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
3705233 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
326 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
*
3705298 TCAATATTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
391 TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
3705339 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTAT-AAA-A-TAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
3705401 TTAGAATTTTTAATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
3705464 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
131 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
3705529 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
196 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
3705594 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
261 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
3705659 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
326 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
3705724 TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
391 TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
3705765 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
3705830 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
3705894 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
131 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
3705959 AAAAAGTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
196 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
3706023 ATATAAACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
261 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
3706086 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
326 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
3706151 TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
391 TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
3706192 TTGATTTAATAATTTCATTTGCACAAAAAATTA-TTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
* *
3706256 TTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAGAAATAAATCATTAGACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
* *
3706321 ATTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACTTTAAATTAATGTTTTCCACAGTGA
131 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
3706386 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
196 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
*
3706451 ATATAAACGATACCTATTACATTATATAAGGGGTACCTATTACATCATATGTTTACCTATTATAT
261 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
3706516 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
326 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
3706581 TCAATTTTTTTAACAGTGT
391 TCAATTTTTTTAACAGTGT
3706600 ACTGCGAATT
Statistics
Matches: 1241, Mismatches: 10, Indels: 20
0.98 0.01 0.02
Matches are distributed among these distances:
425 18 0.01
426 443 0.36
427 316 0.25
428 67 0.05
429 93 0.07
430 290 0.23
431 14 0.01
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
Found at i:3706453 original size:21 final size:22
Alignment explanation
Indices: 3706428--3706479 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
3706418 ACACTTTACA
*
3706428 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
3706451 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
3706474 ATATAA
1 ATATAA
3706480 GGGGTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:3706464 original size:23 final size:23
Alignment explanation
Indices: 3706438--3706500 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3706428 ATATAACCAC
3706438 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
3706461 TACCTATTACATTATATAAGGGG
1 TACCTATTACATTATATAAACGA
*
3706484 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3706501 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3706560 original size:857 final size:856
Alignment explanation
Indices: 3704909--3706599 Score: 3203
Period size: 857 Copynumber: 2.0 Consensus size: 856
3704899 TTTGAATTAT
3704909 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
* *
3704974 TTAGAATTTTTAATTTAATAATAATATATATCGTAACGTCAAAAAAAATCATTATACGCCTATAA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTCAAAAAAAATCATTAGACGCCTATAA
3705039 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
131 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
3705104 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
196 AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
3705169 TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
261 TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
3705234 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTT
326 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTT
3705299 CAATATTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACA
391 CAATATTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACA
3705364 AAAAATTATTTGATTGTTTTTATATTTTATAAAATATTTAGAATTTTTAATTTAATAATAATATA
456 AAAAATTATTTGATTGTTTTTATATTTTATAAAATATTTAGAATTTTTAATTTAATAATAATATA
3705429 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
521 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
3705494 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
586 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
3705559 AGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
651 AGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
3705624 GGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
716 GGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
3705689 TCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTC
781 TCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTC
3705754 CACCTACAATA
846 CACCTACAATA
* *
3705765 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
3705830 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTCAAAAA-AAATCATTAGACGCCTATA
3705894 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
130 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
3705959 AAAAAGTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
195 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
3706023 ATATAAACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
260 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
3706086 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
325 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
*
3706151 TCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAC
390 TCAATATTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAC
3706216 AAAAAATTA-TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAA
455 AAAAAATTATTTGATTGTTTTTATATTTTAT-AAA-A-TATTTAGAATTTTTAATTTAATAAT-A
* *
3706280 TATATATCGTAACGTAAGAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
516 -ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
* *
3706345 TCACTCAAAGGATAACTTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
580 TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
3706410 AAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
645 AAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTA
*
3706475 TATAAGGGGTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAA
710 TATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAA
3706540 AAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
775 AAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
3706600 ACTGCGAATT
Statistics
Matches: 819, Mismatches: 10, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
852 21 0.03
853 182 0.22
854 2 0.00
855 94 0.11
856 206 0.25
857 314 0.38
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (856 bp):
TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTCAAAAAAAATCATTAGACGCCTATAA
TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
AAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTA
TATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATT
GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTT
CAATATTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACA
AAAAATTATTTGATTGTTTTTATATTTTATAAAATATTTAGAATTTTTAATTTAATAATAATATA
CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
GGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
TCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTC
CACCTACAATA
Found at i:3709654 original size:22 final size:23
Alignment explanation
Indices: 3709623--3709665 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
3709613 TTCCACAGTG
3709623 AAAAAAGTATCGACAC-TTTTAT
1 AAAAAAGTATCGACACATTTTAT
*
3709645 AAAAAGGTATCGACACATTTT
1 AAAAAAGTATCGACACATTTT
3709666 TATACCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (23 bp):
AAAAAAGTATCGACACATTTTAT
Found at i:3710107 original size:365 final size:365
Alignment explanation
Indices: 3709661--3710354 Score: 1223
Period size: 365 Copynumber: 1.9 Consensus size: 365
3709651 GTATCGACAC
*
3709661 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
3709726 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
*
3709791 AATATTAGAAAGTGTCGATA-AAGGTTGTAGACCTATTCGCTCAT-AAACCGGTATTTTTATACC
131 AATATTAGAAAGTGTCGATATAA-GTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACC
3709854 GGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG-TGTAAATGTCGACACT
195 GGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTGTAAA--TCGACACT
* * *
3709918 TTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACACAATATTAGAA
258 TTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAATACAGACACAATATTAAAA
3709983 AGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
323 AGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
3710026 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
*
3710091 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
3710156 AATATTAGAAAGTGTCGATATAAGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
131 AATATTAGAAAGTGTCGATATAAGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
* *
3710221 GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTTCAATCGACACTT
196 GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG--TTGTAAATCGACACTT
* * *
3710286 TTTTAAATGGTATCGACACATTTTTCTTTCATTCTGGACATAAAATACAGACACAATATTAAAAA
259 TTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAATACAGACACAATATTAAAAA
3710351 GTGT
324 GTGT
3710355 GAAAACTTTG
Statistics
Matches: 313, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
365 169 0.54
366 68 0.22
367 72 0.23
369 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (365 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATATAAGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
GTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTGTAAATCGACACTTTT
TTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAATACAGACACAATATTAAAAAGT
GTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:3710145 original size:183 final size:183
Alignment explanation
Indices: 3709661--3710354 Score: 1225
Period size: 183 Copynumber: 3.8 Consensus size: 183
3709651 GTATCGACAC
3709661 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
3709726 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
3709791 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCAT-AAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
3709843 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
3709908 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
3709973 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
*
3710026 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
*
3710091 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
3710156 AATATTAGAAAGTGTCGATATAA-GTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATA-AAGGTTGTAGACCTATTCGCTCATAAAACCGGT
* *
3710209 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTT
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGT
* * * * * *
3710274 CAA--TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTTCATTCTGGACATAAAATACAGA
63 AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGA
*
3710337 CACAATATTAAAAAGTGT
128 CACAATATTAGAAAGTGT
3710355 GAAAACTTTG
Statistics
Matches: 496, Mismatches: 11, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
182 174 0.35
183 243 0.49
184 75 0.15
186 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:3711560 original size:3 final size:3
Alignment explanation
Indices: 3711552--3711623 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
3711542 ACTTGTTTGG
* * * **
3711552 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
3711600 AGC TTC ATC GTC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC
3711624 TGTTAAAAGA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.25, C:0.35, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:3713924 original size:197 final size:198
Alignment explanation
Indices: 3713052--3714795 Score: 3276
Period size: 195 Copynumber: 8.9 Consensus size: 198
3713042 TATTTAAATT
3713052 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3713117 TAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
3713181 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTATTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT-GTTTCCATTCATTCTGGGA
3713246 AAAA
195 AAAA
3713250 AGTATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTC-TAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3713313 TAATTGTACCGGTTAGATTGAAAAATTAC--ATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3713376 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3713441 AAA
196 AAA
*
3713444 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCT-TCATAAAACCGGTG
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3713508 TAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3713572 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3713637 AAA
196 AAA
3713640 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3713705 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3713770 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3713835 AAA
196 AAA
3713838 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3713902 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3713967 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3714032 AAA
196 AAA
*
3714035 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTG
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3714100 TAATTGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3714164 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTT-TTTCCATTCATTCTGGG-A
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3714227 AAA
196 AAA
3714230 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3714295 TAA-TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3714359 ATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
3714422 AAA
196 AAA
3714425 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3714490 TAATTGTACCGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGGGTTCGATGA-TTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3714553 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATTCTGGGA
3714618 AAAA
195 AAAA
3714622 AGTATCGACACAAACTATATTA-TGTCGACACATTATTTAGACATA-TCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3714685 TAATTGTACCGGTTAGATTGAAAAATTACATATTACA-T-TACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* * *
3714748 ATTGACACTTTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTT
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
3714796 GGCCATATTG
Statistics
Matches: 1521, Mismatches: 8, Indels: 38
0.97 0.01 0.02
Matches are distributed among these distances:
193 31 0.02
194 111 0.07
195 474 0.31
196 287 0.19
197 415 0.27
198 203 0.13
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (198 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATTCTGGGAA
AAA
Found at i:3714960 original size:19 final size:19
Alignment explanation
Indices: 3714914--3714962 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
3714904 TTATATTCAC
*
3714914 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
3714933 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
3714952 ATACAAAATTA
1 ATACAAAATTA
3714963 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:3716880 original size:21 final size:21
Alignment explanation
Indices: 3716840--3716881 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3716830 CCCCTTATTC
*
3716840 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTGTATCTACGACT
* *
3716861 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTGTATCTACGACT
3716882 TGATCAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTCGAGTGTATCTACGACT
Found at i:3718974 original size:20 final size:19
Alignment explanation
Indices: 3718918--3718965 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
3718908 ATCCGGTATC
3718918 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
*
3718937 TTTGTTACCGGTTTTATCAT
1 ATT-TTACCGGTTTTATCAT
3718957 AATTTTACC
1 -ATTTTACC
3718966 TGTTATATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:3719113 original size:20 final size:20
Alignment explanation
Indices: 3719088--3719132 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
3719078 CACTTTTAAA
3719088 TTACCGGTTTTATCAT-TTT
1 TTACCGGTTTTATCATATTT
3719107 GTTACCGGTTTTATCATATTT
1 -TTACCGGTTTTATCATATTT
3719128 TTACC
1 TTACC
3719133 TGGTATATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (20 bp):
TTACCGGTTTTATCATATTT
Found at i:3720461 original size:18 final size:18
Alignment explanation
Indices: 3720438--3720473 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3720428 TTTTAATGAC
3720438 AAAATTAGGAAACACAAA
1 AAAATTAGGAAACACAAA
3720456 AAAATTAGGAAACACAAA
1 AAAATTAGGAAACACAAA
3720474 GATTTGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAATTAGGAAACACAAA
Found at i:3721037 original size:197 final size:191
Alignment explanation
Indices: 3720636--3721145 Score: 525
Period size: 192 Copynumber: 2.6 Consensus size: 191
3720626 ATAAATATAT
* *
3720636 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAACATCGAAACTGATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGATCTCAAAAACATCGAAACCGATAATTA-AATGTAAT
* * * * * **
3720699 AGGTAAATTTATAATGTAAACGGTATAAATATATC-ATTTTATGATAGAATATGTCAACATATCG
64 AGGT-AATTTACAATGT-AACGGTATAAATATACCGATTTTATGAGAAAATAAGTCAACATAAAG
* * *
3720763 CACAAATTTAAAAAGTGTCGATACATTTTGTCCAGAATGAATGTCAAACGAGGTGCACGCATAAA
127 CACAAATTTAAAAAGTGACGATACATTTTGTCCAGAATAAATGCCAAACGAGGTGCACGCATAAA
* * *
3720828 GTATCGATACATTTATTAAAAGTATCGATATCAAAAACATAGAAACCGATAATTACAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCTCAAAAACATCGAAACCGATAATTA-AATGTAATA
* * * *
3720893 GGTAATTTACAATGTACCCGTAAAAATATACCGATTTTATGAGAAAATAAGTCTACATAAAGCAT
65 GGTAATTTACAATGTAACGGTATAAATATACCGATTTTATGAGAAAATAAGTCAACATAAAGCA-
* *** * * *
3720958 CGACACGTTTTAAGTTTGTGACGATAC-TTTTTTTCAGAATAAATGCCCAACGAGGTGCACGCAT
129 C-A-A--ATTTAA-AAAGTGACGATACATTTTGTCCAGAATAAATGCCAAACGAGGTGCACGCAT
3721022 AAA
189 AAA
* *
3721025 GTGTCGATACATTTA--AAATTGTATCGATCTCAAAAACATCGAAA-CAAT-ATT-AATGTAATA
1 GTGTCGATACATTTATTAAA-AGTATCGATCTCAAAAACATCGAAACCGATAATTAAATGTAATA
* * * * * * *
3721085 GATAATTTACAATGTTATCGGTATAAATATACTGGTTTAATTAGAAAATAAGTCAATATAA
65 GGTAATTTACAATG-TAACGGTATAAATATACCGATTTTATGAGAAAATAAGTCAACATAA
3721146 GTACTACTTA
Statistics
Matches: 265, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
191 13 0.05
192 83 0.31
193 73 0.28
194 4 0.02
195 7 0.03
196 22 0.08
197 54 0.20
198 9 0.03
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (191 bp):
GTGTCGATACATTTATTAAAAGTATCGATCTCAAAAACATCGAAACCGATAATTAAATGTAATAG
GTAATTTACAATGTAACGGTATAAATATACCGATTTTATGAGAAAATAAGTCAACATAAAGCACA
AATTTAAAAAGTGACGATACATTTTGTCCAGAATAAATGCCAAACGAGGTGCACGCATAAA
Found at i:3725081 original size:19 final size:19
Alignment explanation
Indices: 3725057--3725098 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3725047 CATACAATTC
3725057 ATTTAAAAAT-TGCATAAAT
1 ATTTAAAAATCT-CATAAAT
*
3725076 ATTTAAAAATCTTATAAAT
1 ATTTAAAAATCTCATAAAT
3725095 ATTT
1 ATTT
3725099 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTTAAAAATCTCATAAAT
Found at i:3728627 original size:15 final size:15
Alignment explanation
Indices: 3728607--3728638 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3728597 ATGTAAGACT
3728607 AACAATCATTTGATC
1 AACAATCATTTGATC
3728622 AACAATCATTTGATC
1 AACAATCATTTGATC
3728637 AA
1 AA
3728639 GAGATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (15 bp):
AACAATCATTTGATC
Found at i:3729812 original size:20 final size:20
Alignment explanation
Indices: 3729789--3729849 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
3729779 TAATATTCAA
3729789 ATTTCATTCTATCTATTAAT
1 ATTTCATTCTATCTATTAAT
* *
3729809 ATTT-ATTTTA-ATATTCAA-
1 ATTTCATTCTATCTATT-AAT
*
3729827 AGTTGCATTCTATCTATTAAT
1 A-TTTCATTCTATCTATTAAT
3729848 AT
1 AT
3729850 AGTATTTCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
18 5 0.16
19 9 0.29
20 12 0.39
21 5 0.16
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.52
Consensus pattern (20 bp):
ATTTCATTCTATCTATTAAT
Found at i:3729815 original size:38 final size:39
Alignment explanation
Indices: 3729773--3729849 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
3729763 ATCCCCCGAA
*
3729773 TTATTTTAATATTCAAA-TTTCATTCTATCTATTAATAT
1 TTATTTTAATATTCAAAGTTGCATTCTATCTATTAATAT
3729811 TTATTTTAATATTCAAAGTTGCATTCTATCTATTAATAT
1 TTATTTTAATATTCAAAGTTGCATTCTATCTATTAATAT
3729850 AGTATTTCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 17 0.46
39 20 0.54
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (39 bp):
TTATTTTAATATTCAAAGTTGCATTCTATCTATTAATAT
Found at i:3733626 original size:18 final size:18
Alignment explanation
Indices: 3733603--3733638 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3733593 AGGGGGTTTG
*
3733603 GTAAAATGAGAGTAAATA
1 GTAAAAAGAGAGTAAATA
*
3733621 GTAAAAAGAGATTAAATA
1 GTAAAAAGAGAGTAAATA
3733639 AATAAAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.22
Consensus pattern (18 bp):
GTAAAAAGAGAGTAAATA
Found at i:3734531 original size:27 final size:26
Alignment explanation
Indices: 3734501--3734553 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
3734491 AAAAGAGTGT
*
3734501 TGACTAGATCTTCTAGAAAACTGCCAC
1 TGACTAGACCTTCTAG-AAACTGCCAC
*
3734528 TGACTGGACCTTCTAGAAACTGCCAC
1 TGACTAGACCTTCTAGAAACTGCCAC
3734554 ATCAAACCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (26 bp):
TGACTAGACCTTCTAGAAACTGCCAC
Found at i:3734810 original size:35 final size:36
Alignment explanation
Indices: 3734764--3734858 Score: 129
Period size: 36 Copynumber: 2.7 Consensus size: 36
3734754 ATCAATCATT
*
3734764 AATTACATTCTAAACCCCAAATTTC-AAAATGCTTC
1 AATTACATTCTAAACCCCAAATTTCAAAAATACTTC
* * *
3734799 AATTACATTCTAAACCACAAATTCCAAAAATACTTT
1 AATTACATTCTAAACCCCAAATTTCAAAAATACTTC
**
3734835 AATTACATTCCCAACCCCAAATTT
1 AATTACATTCTAAACCCCAAATTT
3734859 ATAATCCATT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 23 0.45
36 28 0.55
ACGTcount: A:0.42, C:0.26, G:0.01, T:0.31
Consensus pattern (36 bp):
AATTACATTCTAAACCCCAAATTTCAAAAATACTTC
Found at i:3734839 original size:36 final size:35
Alignment explanation
Indices: 3734762--3734844 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
3734752 TCATCAATCA
* * *
3734762 TTAATTACATTCTAAACCCCAAATTTCAAAATGCT
1 TTAATTACATTCTAAACCACAAATTCCAAAATACT
*
3734797 TCAATTACATTCTAAACCACAAATTCCAAAAATACT
1 TTAATTACATTCTAAACCACAAATTCC-AAAATACT
3734833 TTAATTACATTC
1 TTAATTACATTC
3734845 CCAACCCCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 24 0.57
36 18 0.43
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (35 bp):
TTAATTACATTCTAAACCACAAATTCCAAAATACT
Found at i:3735371 original size:9 final size:9
Alignment explanation
Indices: 3735357--3735392 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
3735347 AGAATCAAAT
3735357 AATATTATA
1 AATATTATA
3735366 AATATTATA
1 AATATTATA
3735375 AATATT-TA
1 AATATTATA
3735383 AA-ATTA-A
1 AATATTATA
3735390 AAT
1 AAT
3735393 TAAACATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.24
8 4 0.16
9 15 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATATTATA
Found at i:3735597 original size:148 final size:149
Alignment explanation
Indices: 3735341--3735636 Score: 452
Period size: 148 Copynumber: 2.0 Consensus size: 149
3735331 TATAACTATT
* * *
3735341 TAAATTAGAATCAAATAATATTATAAATATTATAAATATTTAAAATTAAAATTAAACATAAACTC
1 TAAATTAGAATCAAATAATATGATAAATATGATAAATATTTAAAATTAAAATTAAACAGAAACTC
* * * *
3735406 GAAAATTCAATTTAATTTGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTT-GAGAC
66 AAAAAATCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCG-AAAAAATTTCGAGAC
3735470 AACTATTTTATAAACTGAAC
130 AACTATTTTATAAACTGAAC
* *
3735490 TAAATTAGAATCAAATAATATGAT-AATATGATAAATATTTATAATTAAATTTAAACAGAAACTC
1 TAAATTAGAATCAAATAATATGATAAATATGATAAATATTTAAAATTAAAATTAAACAGAAACTC
* * *
3735554 AAAAAATCAATTCAATTCGGCTTGATTTAAGTTTTATAAACTCAAATCGAAAAAATTTCGAGTCA
66 AAAAAATCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGACA
*
3735619 ACTATTTTGTAAACTGAA
131 ACTATTTTATAAACTGAA
3735637 TTGAGTATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
147 9 0.07
148 101 0.76
149 23 0.17
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (149 bp):
TAAATTAGAATCAAATAATATGATAAATATGATAAATATTTAAAATTAAAATTAAACAGAAACTC
AAAAAATCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGACA
ACTATTTTATAAACTGAAC
Found at i:3737173 original size:3 final size:3
Alignment explanation
Indices: 3737165--3737252 Score: 176
Period size: 3 Copynumber: 29.3 Consensus size: 3
3737155 GTCTAAAAAA
3737165 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
3737213 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G
3737253 CTCAATATTA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:3741077 original size:8 final size:8
Alignment explanation
Indices: 3741049--3741086 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
3741039 ATTTTCAGAT
3741049 AATTTGAG
1 AATTTGAG
3741057 AATTT-AG
1 AATTTGAG
* *
3741064 AGTTTGGG
1 AATTTGAG
3741072 AATTTGAG
1 AATTTGAG
3741080 AATTTGA
1 AATTTGA
3741087 AAGATTGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.39
Consensus pattern (8 bp):
AATTTGAG
Found at i:3741385 original size:128 final size:128
Alignment explanation
Indices: 3741157--3741657 Score: 921
Period size: 128 Copynumber: 3.9 Consensus size: 128
3741147 TAATCGGAGT
*
3741157 ACTATTCACATGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
* *
3741222 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTAGATATATCAGTACATATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
3741285 ACTATTCACATGAAGGCGCGTTCCCGGGGCCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
3741350 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
3741413 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCACCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
3741478 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
3741541 ACTATTCACATGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
* *
3741606 CATTTCCTTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
3741658 AATCAGGTAA
Statistics
Matches: 362, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 362 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:3742104 original size:21 final size:21
Alignment explanation
Indices: 3742016--3742107 Score: 125
Period size: 21 Copynumber: 4.4 Consensus size: 21
3742006 TATGGTATAA
*
3742016 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
3742037 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
3742058 AA-CCTAGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
3742079 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
3742100 AACCCTGC
1 AACCCTGC
3742108 AGAGATGGCA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
20 3 0.05
21 60 0.91
22 3 0.05
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:3742139 original size:21 final size:21
Alignment explanation
Indices: 3742113--3742160 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
3742103 CCTGCAGAGA
*
3742113 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
3742134 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
3742155 GGGCAT
1 TGGCAT
3742161 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:3742513 original size:35 final size:32
Alignment explanation
Indices: 3742472--3742556 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
3742462 AATTCTAAAT
3742472 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
3742507 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* *
3742539 AAATAATAACTATTTAAA
1 AAATAATAATTATATAAA
3742557 AAAATACTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 23 0.53
34 2 0.05
35 18 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:3742546 original size:32 final size:34
Alignment explanation
Indices: 3742467--3742547 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
3742457 TTAATAATTC
*
3742467 TAAATAAATAATAATTATATAAATATTATTTTAATA
1 TAAA-AAATAATAATTACATAAATATTA-TTTAATA
* *
3742503 AAAAAAATAATATTTACATAAATA-TA-TTAATA
1 TAAAAAATAATAATTACATAAATATTATTTAATA
3742535 TAAAAAATAATAA
1 TAAAAAATAATAA
3742548 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.43
34 2 0.05
35 18 0.45
36 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
TAAAAAATAATAATTACATAAATATTATTTAATA
Found at i:3742572 original size:34 final size:34
Alignment explanation
Indices: 3742500--3742579 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
3742490 TATTATTTTA
* * *
3742500 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAAAAATAATATTTACATAAAAATACTAAC
3742534 ATAAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAAA-AATAA-TATTTACATAAAAATACTAAC
3742568 ATAAAAATAAAT
1 ATAAAAA-AAAT
3742580 TTCTTACCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 27 0.68
35 7 0.17
36 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAAAAATAATATTTACATAAAAATACTAAC
Found at i:3745002 original size:28 final size:28
Alignment explanation
Indices: 3744969--3745031 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
3744959 TAAAATTATA
*
3744969 AAAAAACACCTTAAATTCCAAAAAATCTC
1 AAAAAACTCC-TAAATTCCAAAAAATCTC
* * *
3744998 AAAAAACTCCTAAGTTTCTAAAAATCTC
1 AAAAAACTCCTAAATTCCAAAAAATCTC
3745026 AAAAAA
1 AAAAAA
3745032 AAATCTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.56, C:0.21, G:0.02, T:0.22
Consensus pattern (28 bp):
AAAAAACTCCTAAATTCCAAAAAATCTC
Found at i:3745144 original size:19 final size:21
Alignment explanation
Indices: 3745112--3745164 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 21
3745102 GAAATTGTTA
* *
3745112 AAATTCCCAAAAAAAAC-CTT
1 AAATTCCTAAAAAAAACTCCT
3745132 AAATT-CT-AAAAAAACTCCT
1 AAATTCCTAAAAAAAACTCCT
3745151 AAATTCCTAAAAAA
1 AAATTCCTAAAAAA
3745165 TCCAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 7 0.25
21 5 0.18
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATTCCTAAAAAAAACTCCT
Found at i:3746017 original size:28 final size:28
Alignment explanation
Indices: 3745986--3746075 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
3745976 GTTTATGATT
3745986 TTTTTTGGAATTTT-TAGGAATTTA-GGAG
1 TTTTTTGGAATTTTCTA-GAATTTATGG-G
*
3746014 TTTTTT-GAGATTTTCTAGAATTTATGGT
1 TTTTTTGGA-ATTTTCTAGAATTTATGGG
* *
3746042 TTTTTTGGAATTTT-AATAATTTCATGGG
1 TTTTTTGGAATTTTCTAGAATTT-ATGGG
3746070 TTTTTT
1 TTTTTT
3746076 AGAAATAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 8 0.15
28 39 0.74
29 6 0.11
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.57
Consensus pattern (28 bp):
TTTTTTGGAATTTTCTAGAATTTATGGG
Found at i:3746202 original size:30 final size:29
Alignment explanation
Indices: 3746140--3746215 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
3746130 AGTTTATGTT
3746140 TTTTTTTTAGATTTTTAGAAACTTAGGAG
1 TTTTTTTTAGATTTTTAGAAACTTAGGAG
* *
3746169 TTTTTTTTAGATTTTCTAG-AATTTAAGGTG
1 TTTTTTTTAGATTTT-TAGAAACTT-AGGAG
* *
3746199 TTTTTTTGAGAATTTTA
1 TTTTTTTTAGATTTTTA
3746216 ATAATTTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 21 0.51
30 20 0.49
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.57
Consensus pattern (29 bp):
TTTTTTTTAGATTTTTAGAAACTTAGGAG
Found at i:3757178 original size:15 final size:14
Alignment explanation
Indices: 3757137--3757192 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 14
3757127 CGTCCATTCG
*
3757137 TTTTATTTTATTAT
1 TTTTATTATATTAT
*
3757151 TTTTATTACTATTAC
1 TTTTATTA-TATTAT
*
3757166 TATTATT-T-TTAT
1 TTTTATTATATTAT
3757178 TTTTATTATAATTAT
1 TTTTATTAT-ATTAT
3757193 ATATATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
12 9 0.27
13 2 0.06
14 7 0.21
15 15 0.45
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTATATTAT
Found at i:3757191 original size:21 final size:20
Alignment explanation
Indices: 3757137--3757192 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
3757127 CGTCCATTCG
*
3757137 TTTTATTTTATTATTTTTAT
1 TTTTATTATATTATTTTTAT
**
3757157 TACTATTACTATTATTTTTAT
1 TTTTATTA-TATTATTTTTAT
3757178 TTTTATTATAATTAT
1 TTTTATTAT-ATTAT
3757193 ATATATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTATATTATTTTTAT
Found at i:3757197 original size:2 final size:2
Alignment explanation
Indices: 3757190--3757214 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3757180 TTATTATAAT
3757190 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 T
3757215 TATTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3758688 original size:24 final size:23
Alignment explanation
Indices: 3758661--3758710 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
3758651 AAATTTTATA
3758661 AATA-TATATATTTGATTAAATATT
1 AATATTATATATTT--TTAAATATT
*
3758685 AATATTTATTTATTTTTAAATATT
1 AATA-TTATATATTTTTAAATATT
3758709 AA
1 AA
3758711 GAAAATGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 15 0.65
26 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
AATATTATATATTTTTAAATATT
Found at i:3761321 original size:26 final size:27
Alignment explanation
Indices: 3761269--3761345 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 27
3761259 ACATTTGTTG
* ** *
3761269 CATTTGCATTTTGCATTCGTATTTTTTT
1 CATTTACA-TTTGCATTTTTATATTTTT
3761297 CA-TTACATTTGCATTTTTATA-TTTT
1 CATTTACATTTGCATTTTTATATTTTT
* *
3761322 CATTTTCATTTTCA-TTTTATATTT
1 CATTTACATTTGCATTTTTATATTT
3761346 GCATCTTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
25 13 0.32
26 22 0.54
27 4 0.10
28 2 0.05
ACGTcount: A:0.19, C:0.13, G:0.05, T:0.62
Consensus pattern (27 bp):
CATTTACATTTGCATTTTTATATTTTT
Done.