Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 44 of 226
Found at i:18619542 original size:72 final size:70
Alignment explanation
Indices: 18619184--18619507 Score: 211
Period size: 72 Copynumber: 4.6 Consensus size: 70
18619174 AACCTAATTT
* * *
18619184 AATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAA
1 AATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAAATTAA--TCACTAACAATTAA
* *
18619249 CTAATTT
64 CTAACTA
* ** *
18619256 AATTAAAAACCCAAACCC-AAACCTAATTTAATTAAAAACCCTAACCCTAA--ACTAATTTAATT
1 AATTAAAAACCCTAACCCTAAA-CTAATTTAATTAAAAACCCTAA-ATTAATCACTAA--CAATT
*
18619318 AA-AAACCCTA
62 AACTAA--CTA
* * ***** ** * * * **
18619328 ATTTTATTTTACTAACAATTAACTAACTTAATTAAAAACCC-----TAA-CCCTAAC-CCTAACC
1 AATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAAATTAATCACTAACAATTAA-C
* *
18619386 TAATTT
65 TAACTA
* *
18619392 AATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAATTTAATTTTACTAACAATTAA
1 AATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAAATTAA--TCACTAACAATTAA
*
18619457 CTAACTT
64 CTAACTA
18619464 AATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAA
1 AATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAA
18619508 CCATTAACAC
Statistics
Matches: 190, Mismatches: 43, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
64 34 0.18
66 5 0.03
67 4 0.02
69 8 0.04
70 2 0.01
71 8 0.04
72 121 0.64
73 8 0.04
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (70 bp):
AATTAAAAACCCTAACCCTAAACTAATTTAATTAAAAACCCTAAATTAATCACTAACAATTAACT
AACTA
Found at i:18619569 original size:55 final size:55
Alignment explanation
Indices: 18619504--18619659 Score: 215
Period size: 55 Copynumber: 2.8 Consensus size: 55
18619494 ATTAAAAACC
* *
18619504 CTAACCATTAACACAAATTTTGGACTTAATAAATTTAAATAATTTGATAATTTTA
1 CTAACCATTAACACAAATTTTGGACTTAATAATTTTAAATAATTTGATAATATTA
* * * *
18619559 CTAATCATTAACACAATTTTTGGACTTAATAATTTTACATATTTTGATAATATTA
1 CTAACCATTAACACAAATTTTGGACTTAATAATTTTAAATAATTTGATAATATTA
* *
18619614 CTAACCATTAACAAAAATTTTTTGG-CTTAATAATTTTATATAATTT
1 CTAACCATTAACACAAA--TTTTGGACTTAATAATTTTAAATAATTT
18619660 TACATAATGT
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
55 63 0.72
56 19 0.22
57 6 0.07
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (55 bp):
CTAACCATTAACACAAATTTTGGACTTAATAATTTTAAATAATTTGATAATATTA
Found at i:18619726 original size:122 final size:122
Alignment explanation
Indices: 18619586--18619812 Score: 427
Period size: 122 Copynumber: 1.9 Consensus size: 122
18619576 TTTTGGACTT
*
18619586 AATAATTTTACATATTTTGATAATATTACTAACCATTAACAAAAATTTTTTGGCTTAATAATTTT
1 AATAATTTTACATATTTTGATAATATAACTAACCATTAACAAAAATTTTTTGGCTTAATAATTTT
*
18619651 ATATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATCA
66 ACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATCA
18619708 AATAATTTTACATATTTTGATAATATAACTAACCATTAACAAAAATTTTTTGGCTTAATAATTTT
1 AATAATTTTACATATTTTGATAATATAACTAACCATTAACAAAAATTTTTTGGCTTAATAATTTT
*
18619773 ACATACTTTTACATAATGTTAGATTTGGTAAAATGTTTTG
66 ACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTG
18619813 GCTTAATAAT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 102 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (122 bp):
AATAATTTTACATATTTTGATAATATAACTAACCATTAACAAAAATTTTTTGGCTTAATAATTTT
ACATAATTTTACATAATGTTAGATTTGGTAAAATGTTTTGTCTGGAACTAACAATCA
Found at i:18619816 original size:53 final size:53
Alignment explanation
Indices: 18619749--18619865 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
18619739 ACCATTAACA
*
18619749 AAAATTTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
1 AAAATATTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
*
18619802 AAAATGTTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
1 AAAATATTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
18619855 AAAATATTTTG
1 AAAATATTTTG
18619866 TCTGGAACTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (53 bp):
AAAATATTTTGGCTTAATAATTTTACATACTTTTACATAATGTTAGATTTGGT
Found at i:18623199 original size:123 final size:124
Alignment explanation
Indices: 18622954--18623301 Score: 594
Period size: 123 Copynumber: 2.8 Consensus size: 124
18622944 CCCAAACTTG
18622954 CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
18623019 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTC-AAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * * *
18623077 CTACTGTAGCAAAATCGCGTCCACGA-GGCGCAATTTCACAATTTCTACTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
18623141 TAGAAGCAATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
18623200 CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
18623265 TAGAAGCGATTTTATACAATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTT-ACTCAGAAACGTCAA
18623302 CTCGAGATAA
Statistics
Matches: 209, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
122 67 0.32
123 73 0.35
124 67 0.32
125 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:18627010 original size:16 final size:17
Alignment explanation
Indices: 18626974--18627010 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
18626964 CAATTTTATT
18626974 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
18626991 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
18627006 TAATA
1 TAATA
18627011 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:18630218 original size:20 final size:21
Alignment explanation
Indices: 18630189--18630231 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
18630179 AAAAACTTTT
*
18630189 GGGGAGAAAAAT-AGAATAAG
1 GGGGAAAAAAATCAGAATAAG
*
18630209 GGGGAAAAAAATCAGCATAAG
1 GGGGAAAAAAATCAGAATAAG
18630230 GG
1 GG
18630232 TGGTTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.51, C:0.05, G:0.35, T:0.09
Consensus pattern (21 bp):
GGGGAAAAAAATCAGAATAAG
Found at i:18630755 original size:2 final size:2
Alignment explanation
Indices: 18630748--18630777 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18630738 TGCATCTACT
18630748 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18630778 TTACTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18632907 original size:2 final size:2
Alignment explanation
Indices: 18632900--18632929 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18632890 AACCTTTTTC
18632900 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
18632930 TTGGTTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18637049 original size:2 final size:2
Alignment explanation
Indices: 18637042--18637080 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18637032 TACGTTAAAT
18637042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18637081 TCCTTCGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18648681 original size:25 final size:25
Alignment explanation
Indices: 18648621--18648672 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
18648611 TAAAAAAAAC
* *
18648621 ATTTAATTTTCCTATTATTATTATT
1 ATTTACTTTTACTATTATTATTATT
18648646 ATTTACTTTTACTATT-TTATT-TT
1 ATTTACTTTTACTATTATTATTATT
18648669 ATTT
1 ATTT
18648673 TCATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 5 0.20
25 14 0.56
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (25 bp):
ATTTACTTTTACTATTATTATTATT
Found at i:18649139 original size:18 final size:18
Alignment explanation
Indices: 18649116--18649151 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18649106 AAATCTATTC
18649116 AACAAAAAAAAACAAAAA
1 AACAAAAAAAAACAAAAA
* *
18649134 AACAAAAATAAATAAAAA
1 AACAAAAAAAAACAAAAA
18649152 TAAATAAAAA
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:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (18 bp):
AACAAAAAAAAACAAAAA
Found at i:18651418 original size:23 final size:23
Alignment explanation
Indices: 18651392--18651533 Score: 221
Period size: 23 Copynumber: 6.2 Consensus size: 23
18651382 ATAAGTGCCA
*
18651392 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
18651415 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
**
18651438 CACTGAAACATAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
18651461 CACTGATATGTAGCAGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
18651484 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
18651507 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
18651530 CACT
1 CACT
18651534 AATCAATAAC
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 109 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:18652017 original size:30 final size:29
Alignment explanation
Indices: 18651982--18652045 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
18651972 GTCGTTGACT
*
18651982 CAAACTTTTGCAAAATTACAATTTTGCCC
1 CAAACTTTTACAAAATTACAATTTTGCCC
* * *
18652011 CTAAACTTTTACATATTTACACTTTTGCCC
1 C-AAACTTTTACAAAATTACAATTTTGCCC
18652041 CAAAC
1 CAAAC
18652046 CTCGTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (29 bp):
CAAACTTTTACAAAATTACAATTTTGCCC
Found at i:18671475 original size:22 final size:21
Alignment explanation
Indices: 18671433--18671496 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
18671423 TCAGTTTTGT
* *
18671433 ACTTAAATTAATGATTATTTA
1 ACTTTAATTAATCATTATTTA
*
18671454 ACTTTAATTAATCATATTTTTA
1 ACTTTAATTAATCAT-TATTTA
**
18671476 GTTTTAATTAATC-TTAATTTA
1 ACTTTAATTAATCATT-ATTTA
18671497 CTAAATTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.03
21 18 0.51
22 16 0.46
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (21 bp):
ACTTTAATTAATCATTATTTA
Found at i:18673481 original size:27 final size:27
Alignment explanation
Indices: 18673451--18673505 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18673441 TCTAGCTTGA
18673451 TCTGTAGTTTAGAGAATAGTAGAGGCT
1 TCTGTAGTTTAGAGAATAGTAGAGGCT
18673478 TCTGTAGTTTAGAGAATAGTAGAGGCT
1 TCTGTAGTTTAGAGAATAGTAGAGGCT
18673505 T
1 T
18673506 TGGTTCTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.35
Consensus pattern (27 bp):
TCTGTAGTTTAGAGAATAGTAGAGGCT
Found at i:18678605 original size:3 final size:3
Alignment explanation
Indices: 18678599--18678625 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18678589 GCTGCTGAGC
18678599 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
18678626 ACGATTAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18680697 original size:3 final size:3
Alignment explanation
Indices: 18680683--18680719 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
18680673 AATGAATTCC
*
18680683 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18680720 CAAACATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18683773 original size:18 final size:16
Alignment explanation
Indices: 18683741--18683774 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
18683731 AGCCACAAAT
18683741 AAAAAAAAAGAGAGCA
1 AAAAAAAAAGAGAGCA
18683757 AAAACAAAAAGATGAGCA
1 AAAA-AAAAAGA-GAGCA
18683775 TGAAAGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.71, C:0.09, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAGAGCA
Found at i:18685218 original size:32 final size:32
Alignment explanation
Indices: 18685161--18685244 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 32
18685151 ATTAAATAAT
*
18685161 TATTTTAAATATCATCATTATTTTTATATGTAAAA
1 TATTTTAAATAT--T-ATTATTTTTATACGTAAAA
*
18685196 TATTTTAAATATTATTATTTTTATACGTGAAA
1 TATTTTAAATATTATTATTTTTATACGTAAAA
*
18685228 TATTTTAATTAATTATT
1 TATTTTAAAT-ATTATT
18685245 TCAAATACCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
32 26 0.58
33 7 0.16
35 12 0.27
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (32 bp):
TATTTTAAATATTATTATTTTTATACGTAAAA
Found at i:18690861 original size:10 final size:10
Alignment explanation
Indices: 18690848--18690906 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
18690838 TTTTGATGCA
18690848 TTTTATAATT
1 TTTTATAATT
18690858 TTTTA-ATATT
1 TTTTATA-ATT
**
18690868 TTTTATAAAA
1 TTTTATAATT
18690878 TTTTATATATT
1 TTTTATA-ATT
*
18690889 TTTTCTAATT
1 TTTTATAATT
*
18690899 TTTAATAA
1 TTTTATAA
18690907 AATTTAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 1 0.03
10 30 0.77
11 8 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:18690871 original size:20 final size:19
Alignment explanation
Indices: 18690848--18690969 Score: 79
Period size: 19 Copynumber: 6.3 Consensus size: 19
18690838 TTTTGATGCA
18690848 TTTTATAATTTTTTAATATT
1 TTTTATAA-TTTTTAATATT
*
18690868 TTTTATAAAATTTTATATATT
1 TTTTAT-AATTTTTA-ATATT
* **
18690889 TTTTCTAATTTTTAATAAA
1 TTTTATAATTTTTAATATT
* *
18690908 ATTTA-AATATTTTTATA-T
1 TTTTATAAT-TTTTAATATT
**
18690926 TTTTATTAAAATTTAATA-T
1 TTTTA-TAATTTTTAATATT
* *
18690945 TTTTATAACTTTTATTGATT
1 TTTTATAATTTTTAAT-ATT
18690965 TTTTA
1 TTTTA
18690970 CTTTTTATAA
Statistics
Matches: 79, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
18 15 0.19
19 26 0.33
20 26 0.33
21 12 0.15
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTAATATT
Found at i:18690881 original size:21 final size:20
Alignment explanation
Indices: 18690848--18690952 Score: 71
Period size: 20 Copynumber: 5.4 Consensus size: 20
18690838 TTTTGATGCA
*
18690848 TTTTAT-AATTTTTTAATATT
1 TTTTATAAAATTTTTAATA-T
18690868 TTTTATAAAA-TTTTATATAT
1 TTTTATAAAATTTTTA-ATAT
** *
18690888 TTTT-TCTAATTTTTAATAAA
1 TTTTATAAAATTTTTAAT-AT
* *
18690908 ATTTA-AATATTTTT-ATAT
1 TTTTATAAAATTTTTAATAT
18690926 TTTTATTAAAA--TTTAATAT
1 TTTTA-TAAAATTTTTAATAT
18690945 TTTTATAA
1 TTTTATAA
18690953 CTTTTATTGA
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
18 11 0.17
19 16 0.24
20 34 0.52
21 5 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATAAAATTTTTAATAT
Found at i:18690881 original size:30 final size:29
Alignment explanation
Indices: 18690847--18690948 Score: 104
Period size: 31 Copynumber: 3.5 Consensus size: 29
18690837 TTTTTGATGC
18690847 ATTTTATAATTTTTTAATATTTTTTATAAA
1 ATTTTATAATTTTTT-ATATTTTTTATAAA
* *
18690877 ATTTTATATATTTTTTCTAATTTTTAATAAA
1 ATTTTATA-ATTTTTTAT-ATTTTTTATAAA
18690908 A-TTTA-AATATTTTTATA-TTTTTATTAAA
1 ATTTTATAAT-TTTTTATATTTTTTA-TAAA
*
18690936 ATTTAAT-ATTTTT
1 ATTTTATAATTTTT
18690949 ATAACTTTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
27 5 0.08
28 12 0.20
29 12 0.20
30 13 0.21
31 19 0.31
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTATAATTTTTTATATTTTTTATAAA
Found at i:18690957 original size:28 final size:28
Alignment explanation
Indices: 18690853--18690960 Score: 114
Period size: 28 Copynumber: 3.8 Consensus size: 28
18690843 ATGCATTTTA
*
18690853 TAAT-TTTTTAATATTTTTTA-TAAAATTT
1 TAATATTTTT-ATAATTTTTATTAAAA-TT
* *
18690881 TATATATTTTTTCTAATTTTTAATAAAATT
1 TA-ATA-TTTTTATAATTTTTATTAAAATT
18690911 TAAATATTTTTAT-ATTTTTATTAAAATT
1 T-AATATTTTTATAATTTTTATTAAAATT
*
18690939 TAATATTTTTATAACTTTTATT
1 TAATATTTTTATAATTTTTATT
18690961 GATTTTTTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
27 11 0.16
28 25 0.36
29 8 0.12
30 14 0.20
31 11 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TAATATTTTTATAATTTTTATTAAAATT
Found at i:18692064 original size:3 final size:3
Alignment explanation
Indices: 18692056--18692106 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
18692046 AAAATAGTAA
* * * *
18692056 AAG AAG AAG AAG AA- AAG AAG ATG AAA AAC AAG CAG AAG AAG AAG -AG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
18692102 AAG AA
1 AAG AA
18692107 ATGGAGATGC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.67, C:0.04, G:0.27, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:18703742 original size:24 final size:24
Alignment explanation
Indices: 18703715--18703761 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18703705 ATTGAAATGG
18703715 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
18703739 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
18703762 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:18712901 original size:46 final size:46
Alignment explanation
Indices: 18712835--18713134 Score: 516
Period size: 46 Copynumber: 6.6 Consensus size: 46
18712825 TTTGAGTACT
*
18712835 TCTGATC-AGTGGCAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
18712880 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* *
18712926 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
18712972 TCTGATCAAGTGACAAAGTAATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
18713018 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
18713064 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCATAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
*
18713110 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
18713135 ATCATATGTA
Statistics
Matches: 243, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
44 12 0.05
45 12 0.05
46 219 0.90
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:18714014 original size:17 final size:18
Alignment explanation
Indices: 18713984--18714023 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
18713974 AATATTAATT
18713984 AATTAATTAACTTAACTA
1 AATTAATTAACTTAACTA
* *
18714002 AATTAATT-TCTTAATTA
1 AATTAATTAACTTAACTA
18714019 AATTA
1 AATTA
18714024 TTGTCTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAATTAACTTAACTA
Found at i:18715485 original size:15 final size:15
Alignment explanation
Indices: 18715465--18715494 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18715455 CTTTTTCGGC
18715465 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
18715480 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
18715495 TTTACCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.20, T:0.47
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:18717179 original size:19 final size:19
Alignment explanation
Indices: 18717155--18717191 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18717145 GCATGACCTC
18717155 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
18717174 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
18717192 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:18718680 original size:342 final size:342
Alignment explanation
Indices: 18718055--18718739 Score: 1370
Period size: 342 Copynumber: 2.0 Consensus size: 342
18718045 AACTTTCTTT
18718055 TGGATTTTACAAGTTCCCTACTATCTTGATGAAGCTACAGGATGGGGTTTGGAAGTATCTGAGCT
1 TGGATTTTACAAGTTCCCTACTATCTTGATGAAGCTACAGGATGGGGTTTGGAAGTATCTGAGCT
18718120 TAAGAAACAACTGCAGGAAGCCAAGTCTAATGGCATCACTGTTAGGGCCTTGGTTGTAATAAATC
66 TAAGAAACAACTGCAGGAAGCCAAGTCTAATGGCATCACTGTTAGGGCCTTGGTTGTAATAAATC
18718185 CAGGCAACCCAACAGGACAGGTATCAATGAAATGCTTTCAGAAAAGTATATTATAAATGAAAAAG
131 CAGGCAACCCAACAGGACAGGTATCAATGAAATGCTTTCAGAAAAGTATATTATAAATGAAAAAG
18718250 GTTCATGCAATTTCATTTTTCTATTATTTCATTTACGGAATGTGAATGAGCTTATACAAAGTTTG
196 GTTCATGCAATTTCATTTTTCTATTATTTCATTTACGGAATGTGAATGAGCTTATACAAAGTTTG
18718315 GAATTTTGACACAGAATATAAACTCTTTTACTGTCTCCAGGGTATTATGGAGAGTGTGGAAAAAG
261 GAATTTTGACACAGAATATAAACTCTTTTACTGTCTCCAGGGTATTATGGAGAGTGTGGAAAAAG
18718380 GGGAGGTTACATGGAGG
326 GGGAGGTTACATGGAGG
18718397 TGGATTTTACAAGTTCCCTACTATCTTGATGAAGCTACAGGATGGGGTTTGGAAGTATCTGAGCT
1 TGGATTTTACAAGTTCCCTACTATCTTGATGAAGCTACAGGATGGGGTTTGGAAGTATCTGAGCT
18718462 TAAGAAACAACTGCAGGAAGCCAAGTCTAATGGCATCACTGTTAGGGCCTTGGTTGTAATAAATC
66 TAAGAAACAACTGCAGGAAGCCAAGTCTAATGGCATCACTGTTAGGGCCTTGGTTGTAATAAATC
18718527 CAGGCAACCCAACAGGACAGGTATCAATGAAATGCTTTCAGAAAAGTATATTATAAATGAAAAAG
131 CAGGCAACCCAACAGGACAGGTATCAATGAAATGCTTTCAGAAAAGTATATTATAAATGAAAAAG
18718592 GTTCATGCAATTTCATTTTTCTATTATTTCATTTACGGAATGTGAATGAGCTTATACAAAGTTTG
196 GTTCATGCAATTTCATTTTTCTATTATTTCATTTACGGAATGTGAATGAGCTTATACAAAGTTTG
18718657 GAATTTTGACACAGAATATAAACTCTTTTACTGTCTCCAGGGTATTATGGAGAGTGTGGAAAAAG
261 GAATTTTGACACAGAATATAAACTCTTTTACTGTCTCCAGGGTATTATGGAGAGTGTGGAAAAAG
18718722 GGGAGGTTACATGGAGG
326 GGGAGGTTACATGGAGG
18718739 T
1 T
18718740 TACTGGGTTT
Statistics
Matches: 343, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
342 343 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (342 bp):
TGGATTTTACAAGTTCCCTACTATCTTGATGAAGCTACAGGATGGGGTTTGGAAGTATCTGAGCT
TAAGAAACAACTGCAGGAAGCCAAGTCTAATGGCATCACTGTTAGGGCCTTGGTTGTAATAAATC
CAGGCAACCCAACAGGACAGGTATCAATGAAATGCTTTCAGAAAAGTATATTATAAATGAAAAAG
GTTCATGCAATTTCATTTTTCTATTATTTCATTTACGGAATGTGAATGAGCTTATACAAAGTTTG
GAATTTTGACACAGAATATAAACTCTTTTACTGTCTCCAGGGTATTATGGAGAGTGTGGAAAAAG
GGGAGGTTACATGGAGG
Found at i:18719824 original size:18 final size:17
Alignment explanation
Indices: 18719798--18719832 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18719788 AATATTAAGA
*
18719798 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18719815 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18719833 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18719844 original size:120 final size:120
Alignment explanation
Indices: 18719691--18719974 Score: 437
Period size: 120 Copynumber: 2.4 Consensus size: 120
18719681 TAATTGAAAA
* * *
18719691 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
18719755 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
18719810 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
18719875 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* *
18719930 TATATATTTTAATTAAAATATATTTAATAAAAAATATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
18719975 ATGATTAAAT
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 14 0.09
120 130 0.87
121 5 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:18719946 original size:18 final size:17
Alignment explanation
Indices: 18719918--18719952 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18719908 ATTATTAAGA
*
18719918 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18719935 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18719953 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18719952 original size:16 final size:16
Alignment explanation
Indices: 18719918--18719972 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
18719908 ATTATTAAGA
18719918 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
18719935 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
18719951 A-TTTAA-TAAAAAAT
1 ATTTTAATTAAAATAT
18719965 ATGTTTAA
1 AT-TTTAA
18719973 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:18720210 original size:16 final size:16
Alignment explanation
Indices: 18720189--18720240 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
18720179 GATTTGCTAT
18720189 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
18720205 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
*
18720221 TACACCTCTAATACAA
1 TACACCTCTAATCCAA
18720237 TACA
1 TACA
18720241 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18722202 original size:15 final size:15
Alignment explanation
Indices: 18722176--18722215 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
18722166 CTTTGTTGTG
18722176 TGTTT-TTTT-TTTT
1 TGTTTCTTTTATTTT
*
18722189 T-TTCCTTTTATTTT
1 TGTTTCTTTTATTTT
18722203 TGTTTCTTTTATT
1 TGTTTCTTTTATT
18722216 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 5 0.23
14 5 0.23
15 10 0.45
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.82
Consensus pattern (15 bp):
TGTTTCTTTTATTTT
Found at i:18726559 original size:40 final size:40
Alignment explanation
Indices: 18726500--18726639 Score: 160
Period size: 37 Copynumber: 3.5 Consensus size: 40
18726490 AGCACACCAG
* *
18726500 TTTGGCACCTAATGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAATGCCTCATCGGATAATTCGAAGTAATAA
* * *
18726540 TTTGACACCCAATGTCTCATCGGCTAAATCG-A--AATAA
1 TTTGACACCCAATGCCTCATCGGATAATTCGAAGTAATAA
* * * *
18726577 ATTGAAACCCAATGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAATGCCTCATCGGATA-ATTCGAAGTAATAA
*
18726618 TTTGACACCCAATGTCTCATCG
1 TTTGACACCCAATGCCTCATCG
18726640 ACTCGAAGTC
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 26 0.32
38 3 0.04
39 2 0.02
40 26 0.32
41 24 0.30
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAATGCCTCATCGGATAATTCGAAGTAATAA
Found at i:18727006 original size:18 final size:18
Alignment explanation
Indices: 18726983--18727049 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
18726973 AAATTAACTG
* *
18726983 AATTAACCGAGTTACCCT
1 AATTAACCGAATTACCCA
* *
18727001 AATTAATCGAATTACCCG
1 AATTAACCGAATTACCCA
*
18727019 AATTAACTGAATTACCCA
1 AATTAACCGAATTACCCA
18727037 AATTAACCGAATT
1 AATTAACCGAATT
18727050 GAATCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTACCCA
Found at i:18727049 original size:9 final size:9
Alignment explanation
Indices: 18726974--18727049 Score: 71
Period size: 9 Copynumber: 8.4 Consensus size: 9
18726964 TTTGGTTAAA
*
18726974 AATTAACTG
1 AATTAACCG
18726983 AATTAACCG
1 AATTAACCG
* * *
18726992 AGTTACCCT
1 AATTAACCG
*
18727001 AATTAATCG
1 AATTAACCG
*
18727010 AATTACCCG
1 AATTAACCG
*
18727019 AATTAACTG
1 AATTAACCG
* *
18727028 AATTACCCA
1 AATTAACCG
18727037 AATTAACCG
1 AATTAACCG
18727046 AATT
1 AATT
18727050 GAATCACTAC
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:18728365 original size:12 final size:12
Alignment explanation
Indices: 18728306--18728373 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
18728296 TTATTCTTAT
*
18728306 TATATATTATAA
1 TATATATAATAA
*
18728318 TATGTATAAT-A
1 TATATATAATAA
18728329 TATATACT--TAA
1 TATATA-TAATAA
* *
18728340 -ACAT-TAAGAA
1 TATATATAATAA
18728350 TATATATAATAA
1 TATATATAATAA
18728362 TATATATAATAA
1 TATATATAATAA
18728374 ACTTATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
8 1 0.02
10 6 0.14
11 10 0.23
12 26 0.60
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (12 bp):
TATATATAATAA
Found at i:18739715 original size:129 final size:129
Alignment explanation
Indices: 18739457--18739858 Score: 677
Period size: 129 Copynumber: 3.1 Consensus size: 129
18739447 AACTTCAGAA
*
18739457 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTTCTTTC
1 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTC
*
18739521 -GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTTAGGG
66 TGTCTGCTCCACTACTGCTTAGGGAGATAAGACTAGATGTGATCTGCTCCACTACTGCTTAGGG
*
18739584 AGATAAGATCTGTGGTTTTAGTCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTC
1 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTC
* * *
18739649 TGTCTGCTCCACTACGGCTTAGGGAGATAAGACTAGATGCGATCTGCTCTACTACTGCTTAGGG
66 TGTCTGCTCCACTACTGCTTAGGGAGATAAGACTAGATGTGATCTGCTCCACTACTGCTTAGGG
* * *
18739713 AGATAAGATCTATGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGTTTTTTTTTT
1 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG-GTTTTTTTT
*
18739778 CTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGG
65 CTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTAGATGTGATCTGCTCCACTACTGCTTAGGG
18739843 AGATAAGAT-T-TGGTTT
1 AGATAAGATCTGTGGTTT
18739859 CTTTCGTCTG
Statistics
Matches: 258, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
127 55 0.21
128 13 0.05
129 112 0.43
130 78 0.30
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (129 bp):
AGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTC
TGTCTGCTCCACTACTGCTTAGGGAGATAAGACTAGATGTGATCTGCTCCACTACTGCTTAGGG
Found at i:18740056 original size:131 final size:131
Alignment explanation
Indices: 18739781--18740221 Score: 558
Period size: 131 Copynumber: 3.4 Consensus size: 131
18739771 TTTTTTTCTG
* ** * *
18739781 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGA--TGTGATCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGG
* * ** *** * * * *
18739842 GAGATAAGATTTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTT-G--A--TT
66 GAGATAGGA-CTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGA-TTCGCCATCTT
18739902 CGA
129 CGA
*
18739905 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTCCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGG
* * * * *
18739970 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAAGATGAGATTCGCCGTCTTCG
66 GAGATAGGACTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGATTCGCCATCTTCG
18740035 A
131 A
18740036 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGG
*
18740101 GAGATAGGACTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGATTCGCCATTTTCG
66 GAGATAGGACTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGATTCGCCATCTTCG
18740166 A
131 A
* * * *
18740167 TCTGCTCCACTACTGCTTAGGGAGGTAAGATCTACCATCTTCGACCTGCTCCACT
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACT
18740222 GTAACCTTAG
Statistics
Matches: 279, Mismatches: 29, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
124 29 0.10
125 2 0.01
126 3 0.01
127 34 0.12
128 31 0.11
131 180 0.65
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (131 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGG
GAGATAGGACTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGATTCGCCATCTTCG
A
Found at i:18740126 original size:87 final size:84
Alignment explanation
Indices: 18739497--18740199 Score: 373
Period size: 87 Copynumber: 8.2 Consensus size: 84
18739487 CTGCAACTTC
** ** *
18739497 AGGGAGATAGGAT-TGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGT
1 AGGGAGATAGGATCTGGCGTCTTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATTT
18739560 GATCTGCTCCACTACTGCTT
65 GATCTGCTCCACTACTGCTT
* * * ** **
18739580 AGGGAGATAAGATCTGTG-GT-TTT-AGTCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTT
1 AGGGAGATAGGATCTG-GCGTCTTTGA-TCTGCTCCACTACTGCTT-AGGGAGATA--A---GAC
** *
18739642 TTTTTTCTG-TCTGCTCCACTACGGCTT
58 TTCATT-TGATCTGCTCCACTACTGCTT
* * * * **
18739669 AGGGAGATAAGA-CTAG-ATGC---GATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATGGT
1 AGGGAGATAGGATCTGGCGT-CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-CA
* * * * **
18739729 TTTAATCCGCTCTACTGCAACTT
62 TTTGATCTGCTCCACTACTGCTT
*** * *
18739752 CAGGGAGATAGGAT-TGTTTTTTTTTTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
1 -AGGGAGATAGGATCTG---GCGTCTT-TGATCTGCTCCACTACTGCTTAGGGAGATAAGACTTC
*
18739815 ATGTGATCTGCTCCACTACTGCTT
61 ATTTGATCTGCTCCACTACTGCTT
* * ** * *
18739839 AGGGAGATAAGATTTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATTC
1 AGGGAGATAGGATCTGGCGTCTTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATTT
18739903 GATCTGCTCCACTACTGCTT
65 GATCTGCTCCACTACTGCTT
** * * * *
18739923 AGGGAGATAGGATCTAACATCTTTGACCTCCTCCACTACTGCTTAGGGAGATAGGACTGGTGGC-
1 AGGGAGATAGGATCTGGCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACT--T--CA
** * *
18739987 TTAAATCTGCTTCACTACTGTTT
62 TTTGATCTGCTCCACTACTGCTT
* * * * *
18740010 AGGAAGAT-GAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACA
1 AGGGAGATAG-GATCT-GGCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TCA
*
18740073 TCTTTGACCTGCTCCACTACTGCTT
62 --TTTGATCTGCTCCACTACTGCTT
* * ** * * * *
18740098 AGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGA-TTCGCCAT
1 AGGGAGATAGGATCTGGCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACTT---CA-
18740161 TTTCGATCTGCTCCACTACTGCTT
62 TTT-GATCTGCTCCACTACTGCTT
* *
18740185 AGGGAGGTAAGATCT
1 AGGGAGATAGGATCT
18740200 ACCATCTTCG
Statistics
Matches: 480, Mismatches: 92, Indels: 91
0.72 0.14 0.14
Matches are distributed among these distances:
80 1 0.00
81 1 0.00
82 2 0.00
83 48 0.10
84 133 0.28
85 12 0.03
86 32 0.07
87 148 0.31
88 36 0.08
89 35 0.07
90 31 0.06
91 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (84 bp):
AGGGAGATAGGATCTGGCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGACTTCATTTG
ATCTGCTCCACTACTGCTT
Found at i:18740210 original size:44 final size:44
Alignment explanation
Indices: 18739518--18740245 Score: 361
Period size: 44 Copynumber: 16.9 Consensus size: 44
18739508 ATTGGTTTCT
*
18739518 TTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTG-GAT-
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
* *** *
18739558 GT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
* * * ** * *** *
18739601 TTAG-TCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTTTT
1 TTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCT-G-CCATC
*
18739646 TTCTG-TCTGCTCCACTACGGCTTAGGGAGATAAGA-CTAG--A--
1 TTC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCATC
* * ****
18739686 TGCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATGGT-
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
** * * * ** * *** *
18739729 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGAT-TGTTTTTTTT
1 TTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTG---CCATC
18739776 TTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTG--AT-
1 TTC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGCCATC
* * ***
18739817 GT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGGTTTC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
18739860 TTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTG--A--
1 -TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGCCATC
* **
18739900 TTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
* * * * ****
18739944 TTTGACCTCCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
** * * * * *
18739987 TTAAATCTGCTTCACTACTGTTTAGGAAGATGAGAT-TCGCCGTC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCATC
* **
18740031 TTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
* * * ****
18740075 TTTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
** * * * * *
18740118 TTAAATCTGCTTCACCACTGCTTAGGAAAATAAGAT-TCGCCATT
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCCATC
* *
18740162 TTCGATCTGCTCCACTACTGCTTAGGGAGGTAAGATCTACCATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
*
18740206 TTCGACCTGCTCCACTGTAAC--CTTAGGGAGATAAGATCTG
1 TTCGATCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATCTG
18740246 AAATTCTTCG
Statistics
Matches: 529, Mismatches: 113, Indels: 87
0.73 0.16 0.12
Matches are distributed among these distances:
39 7 0.01
40 123 0.23
41 7 0.01
42 5 0.01
43 94 0.18
44 207 0.39
45 38 0.07
46 29 0.05
47 19 0.04
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (44 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCCATC
Found at i:18740271 original size:46 final size:45
Alignment explanation
Indices: 18740215--18740686 Score: 344
Period size: 44 Copynumber: 10.6 Consensus size: 45
18740205 CTTCGACCTG
* *
18740215 CTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTTTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTA
* * *
18740261 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTA
* * * * ** ** **
18740302 CTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTC-T-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGAATTCTTCGGTCTA
* * * ** *
18740346 CTCCACTGTAACTTCAGGGAGATAGGAT-T--ATTAGCTCCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATT--CTTCGGTCTA
*
18740390 CTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTA
* * *** *
18740436 CTCCACTGTAACCTCAGGGAGATAAGA-CTTGCA-TATTCAACCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATC-TGAATTCTTCGGTCTA
* * * * * * *
18740480 CCCCACTGTAACTTCAGGGAGATAAGGTTTG--TGGCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGGTCTA
* * * * * * *
18740524 CTCCTCTGTAATCTCAGGGAGATAAGGTTTG--TGGCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGGTCTA
* * *
18740568 CTCCTCTGTAATCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTA
18740614 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGGTCTA
18740660 CTCCACTGTAACCTCAGGGAGATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
18740687 CTTGCATATT
Statistics
Matches: 350, Mismatches: 56, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
40 3 0.01
41 29 0.08
42 4 0.01
43 1 0.00
44 165 0.47
45 3 0.01
46 141 0.40
47 1 0.00
48 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGGTCTA
Found at i:18740605 original size:178 final size:174
Alignment explanation
Indices: 18740205--18740645 Score: 541
Period size: 178 Copynumber: 2.5 Consensus size: 174
18740195 GATCTACCAT
* *
18740205 CTTCGACCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGT
1 CTTCGATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
* * * * *
18740270 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTT
66 AACCTCAGGGAGATAAGACCTGATGCAACCTACCCCACTGTAACTTCAGAGAGATAAGAT-CTTT
18740335 ATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATTAG
130 ATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATTAG
* * * *
18740380 CTCCAATCTGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
* * * * *
18740445 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGT-T
66 AACCTCAGGGAGATAAGACCTG---ATGCAACCTACCCCACTGTAACTTCAGAGAGATAAGATCT
* * * * *
18740509 TGTGGCTTC-GATCTGCTCCTCTGTAA-TCTCAGGGAGATAAGG-TT-TGTGG
128 T-T--ATTCTAATCCGCTCCACTGTAACT-TCAGGGAGAT-AGGATTAT-TAG
* *
18740558 CTTCGATCTGCTCCTCTGTAATCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
*
18740623 AACCTCAGGGAGATAAGATCTGA
66 AACCTCAGGGAGATAAGACCTGA
18740646 AATTCTTCGG
Statistics
Matches: 228, Mismatches: 29, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
175 81 0.36
176 2 0.01
177 3 0.01
178 136 0.60
179 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (174 bp):
CTTCGATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
AACCTCAGGGAGATAAGACCTGATGCAACCTACCCCACTGTAACTTCAGAGAGATAAGATCTTTA
TTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATTAG
Found at i:18740728 original size:44 final size:43
Alignment explanation
Indices: 18740345--18740729 Score: 164
Period size: 44 Copynumber: 8.7 Consensus size: 43
18740335 ATTCTAATCC
* * * *
18740345 GCTCC-ACTGTAACTTCAGGGAGATAGGATT-ATTAGCTCCAATCT
1 GCTCCTACTGTAACTTCAGGGAGATAAGATTGA--A-ATTCAACCT
* * **
18740389 GCTCC-ACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCTACTGTAACTTCAGGGAGATAAGAT-TGAAATTCAAC---CT
* * *
18740435 ACTCC-ACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCT
1 GCTCCTACTGTAACTTCAGGGAGATAAGA-TTG-AAATTCAACCT
* * *** * *
18740479 GC-CCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCT
1 GCTCCTACTGTAACTTCAGGGAGATAA-GATTG-AAATTCAACCT
* *** * *
18740523 GCTCCT-CTGTAA-TCTCAGGGAGATAAGGTTTGTGGCTTCGATCT
1 GCTCCTACTGTAACT-TCAGGGAGATAA-GATTG-AAATTCAACCT
**
18740567 GCTCCT-CTGTAATCTT-AGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCTACTGTAA-CTTCAGGGAGATAAGAT-TGAAATTCAAC---CT
* * **
18740613 ACTCC-ACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCTACTGTAACTTCAGGGAGATAAGAT-TGAAATTCAAC---CT
* * *
18740659 ACTCC-ACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCT
1 GCTCCTACTGTAACTTCAGGGAGATAAGA-TTG-AAATTCAACCT
18740703 GC-CCTACTGTAACTTCAGGGAGATAAG
1 GCTCCTACTGTAACTTCAGGGAGATAAG
18740730 GTTTGTGGCT
Statistics
Matches: 282, Mismatches: 37, Indels: 44
0.78 0.10 0.12
Matches are distributed among these distances:
43 12 0.04
44 145 0.51
45 7 0.02
46 104 0.37
47 14 0.05
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
GCTCCTACTGTAACTTCAGGGAGATAAGATTGAAATTCAACCT
Found at i:18743012 original size:7 final size:7
Alignment explanation
Indices: 18742960--18743012 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
18742950 TAGCTTCTCA
18742960 ATTTTTC
1 ATTTTTC
*
18742967 AATTTTC
1 ATTTTTC
18742974 A-TTTTC
1 ATTTTTC
*
18742980 TTTTTTC
1 ATTTTTC
*
18742987 AATTTTC
1 ATTTTTC
*
18742994 A-TTCTC
1 ATTTTTC
18743000 ATTTTTC
1 ATTTTTC
18743007 ATTTTT
1 ATTTTT
18743013 TCAGAGTGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 10 0.26
7 28 0.74
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTTC
Found at i:18743012 original size:20 final size:20
Alignment explanation
Indices: 18742954--18743011 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
18742944 TCCCCTTAGC
18742954 TTCTCAATTTTTCAATTTTCA
1 TTCTC-ATTTTTCAATTTTCA
* *
18742975 TTTTCTTTTTTCAATTTTCA
1 TTCTCATTTTTCAATTTTCA
18742995 TTCTCATTTTTC-ATTTT
1 TTCTCATTTTTCAATTTT
18743012 TTCAGAGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.15
20 24 0.73
21 4 0.12
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTCATTTTTCAATTTTCA
Found at i:18743954 original size:6 final size:6
Alignment explanation
Indices: 18743945--18743973 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18743935 TCTCAGTTTC
18743945 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
18743974 TTCCTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:18748389 original size:2 final size:2
Alignment explanation
Indices: 18748337--18748369 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18748327 TGTATGTATG
18748337 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18748370 GAAAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18756654 original size:16 final size:16
Alignment explanation
Indices: 18756633--18756684 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
18756623 TATTTTTTAA
*
18756633 AACAACTACCTTTGAG
1 AACAACTACCTTGGAG
**
18756649 AACAAC-ATGTTGGA-
1 AACAACTACCTTGGAG
*
18756663 AACAACTACCTTGGGG
1 AACAACTACCTTGGAG
18756679 AACAAC
1 AACAAC
18756685 CTTGCAAGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 6 0.21
15 10 0.36
16 12 0.43
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (16 bp):
AACAACTACCTTGGAG
Found at i:18764787 original size:39 final size:38
Alignment explanation
Indices: 18764738--18764877 Score: 136
Period size: 39 Copynumber: 3.4 Consensus size: 38
18764728 CCAGTAACAT
*
18764738 TAATCAGTAACGGTAACAGTGTTCGACACACAAAGTGCC
1 TAATCAGTAACAGTAACAGTGTTCGACACACAAAGTG-C
* *
18764777 TAATCGGTAACGGTAACAGTAACAGTATTCGACACACAAAGTATC
1 TAATC----A--GTAACAGTAACAGTGTTCGACACACAAAGT-GC
* * *
18764822 GAATCAGTAACAGTAACAGTATTCAACACACAAAGTGC
1 TAATCAGTAACAGTAACAGTGTTCGACACACAAAGTGC
*
18764860 TGAATCTGTAACAGTAAC
1 T-AATCAGTAACAGTAAC
18764878 GGTAACAGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
38 1 0.01
39 49 0.58
41 1 0.01
43 1 0.01
45 33 0.39
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (38 bp):
TAATCAGTAACAGTAACAGTGTTCGACACACAAAGTGC
Found at i:18764799 original size:45 final size:43
Alignment explanation
Indices: 18764742--18764887 Score: 167
Period size: 45 Copynumber: 3.4 Consensus size: 43
18764732 TAACATTAAT
* *
18764742 CAGTAACGGTAACAGTGTTCGACACACAAAGTGCCTAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTG-CTAATC-GTAA
*
18764787 CGGTAACAGTAACAGTATTCGACACACAAA--G-T-ATCG-AA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTAATCGTAA
*
18764825 TCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAA
1 -CAGTAACAGTAACAGTATTCGACACACAAAGTGCT-AATC-GTAA
*
18764871 CAGTAACGGTAACAGTA
1 CAGTAACAGTAACAGTA
18764888 ACAGTAGTCG
Statistics
Matches: 87, Mismatches: 6, Indels: 16
0.80 0.06 0.15
Matches are distributed among these distances:
38 2 0.02
39 29 0.33
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 3 0.03
45 44 0.51
46 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (43 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCTAATCGTAA
Found at i:18772063 original size:2 final size:2
Alignment explanation
Indices: 18772056--18772089 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18772046 TATTGTTCAT
18772056 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18772090 ATCCTGTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18773898 original size:75 final size:75
Alignment explanation
Indices: 18773775--18773927 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
18773765 GTTTGCTTTC
18773775 CAAATATTTAGCATCGTTTGCTTTTGGATATAGTAATTGGATGCAAGTGTAGGCTGAGTAACCTA
1 CAAATATTTAGCATCGTTTGCTTTTGGATATAGTAATTGGATGCAAGTGTAGGCTGAGTAACCTA
18773840 AAACAAGGAA
66 AAACAAGGAA
18773850 CAAATATTTAGCATCGTTTGCTTTTGGATATAGTAATTGGATGCAAGTGTAGGCTGAGTAACCTA
1 CAAATATTTAGCATCGTTTGCTTTTGGATATAGTAATTGGATGCAAGTGTAGGCTGAGTAACCTA
18773915 AAACAAGGAA
66 AAACAAGGAA
18773925 CAA
1 CAA
18773928 GGGACTGACT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (75 bp):
CAAATATTTAGCATCGTTTGCTTTTGGATATAGTAATTGGATGCAAGTGTAGGCTGAGTAACCTA
AAACAAGGAA
Found at i:18780892 original size:6 final size:6
Alignment explanation
Indices: 18780881--18780905 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18780871 GTTACCGATA
18780881 ATGAAG ATGAAG ATGAAG ATGAAG A
1 ATGAAG ATGAAG ATGAAG ATGAAG A
18780906 AAAAGACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
ATGAAG
Found at i:18781583 original size:14 final size:15
Alignment explanation
Indices: 18781559--18781587 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18781549 TATTTTTGTG
18781559 TTTATCATGTGTGAA
1 TTTATCATGTGTGAA
18781574 TTTA-CATGTGTGAA
1 TTTATCATGTGTGAA
18781588 AGTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (15 bp):
TTTATCATGTGTGAA
Found at i:18784746 original size:163 final size:163
Alignment explanation
Indices: 18784476--18784801 Score: 634
Period size: 163 Copynumber: 2.0 Consensus size: 163
18784466 TTGGTTTCAT
18784476 TATGTACATATACAGAAGTTATAAAATGAAATGTTTGATATTTAGATAATGAAATTATGTACGAA
1 TATGTACATATACAGAAGTTATAAAATGAAATGTTTGATATTTAGATAATGAAATTATGTACGAA
18784541 CATATTTTCTGTATTTGAAAAGTGAGGTTATATGCTTGAATATGATTTAATTATGAAAATGTCAT
66 CATATTTTCTGTATTTGAAAAGTGAGGTTATATGCTTGAATATGATTTAATTATGAAAATGTCAT
*
18784606 TAATATTATGGATTTAGGGAATCAAATATTGAA
131 TAATATGATGGATTTAGGGAATCAAATATTGAA
18784639 TATGTACATATACAGAAGTTATAAAATGAAATGTTTGATATTTAGATAATGAAATTATGTACGAA
1 TATGTACATATACAGAAGTTATAAAATGAAATGTTTGATATTTAGATAATGAAATTATGTACGAA
*
18784704 CGTATTTTCTGTATTTGAAAAGTGAGGTTATATGCTTGAATATGATTTAATTATGAAAATGTCAT
66 CATATTTTCTGTATTTGAAAAGTGAGGTTATATGCTTGAATATGATTTAATTATGAAAATGTCAT
18784769 TAATATGATGGATTTAGGGAATCAAATATTGAA
131 TAATATGATGGATTTAGGGAATCAAATATTGAA
18784802 AGTATTATTT
Statistics
Matches: 161, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 161 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (163 bp):
TATGTACATATACAGAAGTTATAAAATGAAATGTTTGATATTTAGATAATGAAATTATGTACGAA
CATATTTTCTGTATTTGAAAAGTGAGGTTATATGCTTGAATATGATTTAATTATGAAAATGTCAT
TAATATGATGGATTTAGGGAATCAAATATTGAA
Found at i:18789267 original size:20 final size:20
Alignment explanation
Indices: 18789230--18789281 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
18789220 CTGGTTTTCC
*
18789230 TTATT-TTT-AATAGATTGT
1 TTATTGTTTAAATCGATTGT
*
18789248 TTTTTGTTTAAATCGATTGT
1 TTATTGTTTAAATCGATTGT
*
18789268 TTATTGTTTGAATC
1 TTATTGTTTAAATC
18789282 TATTCATCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 4 0.14
19 3 0.11
20 21 0.75
ACGTcount: A:0.23, C:0.04, G:0.13, T:0.60
Consensus pattern (20 bp):
TTATTGTTTAAATCGATTGT
Found at i:18792710 original size:4 final size:4
Alignment explanation
Indices: 18792701--18792731 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
18792691 TTCTTCTAGT
18792701 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
18792732 ACCTGAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:18793038 original size:2 final size:2
Alignment explanation
Indices: 18793031--18793067 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18793021 CTGTCTTTTC
18793031 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18793068 TCAAATGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18798142 original size:2 final size:2
Alignment explanation
Indices: 18798135--18798161 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18798125 TGAAACAAAC
18798135 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 A
18798162 CCTTTAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18801689 original size:22 final size:22
Alignment explanation
Indices: 18801664--18801737 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
18801654 GGATTGATTA
18801664 GGATATTTTATAGGATTTTATG
1 GGATATTTTATAGGATTTTATG
*
18801686 GGATATTTTAT-GAGATTTTAAG
1 GGATATTTTATAG-GATTTTATG
**
18801708 GGAT-TGAT-TAGGATTTTATG
1 GGATATTTTATAGGATTTTATG
*
18801728 GGATGTTTTA
1 GGATATTTTA
18801738 AATTAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 13 0.31
21 6 0.14
22 23 0.55
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (22 bp):
GGATATTTTATAGGATTTTATG
Found at i:18801712 original size:10 final size:10
Alignment explanation
Indices: 18801668--18801731 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
18801658 TGATTAGGAT
*
18801668 ATTTTATAGG
1 ATTTTATGGG
18801678 ATTTTATGGG
1 ATTTTATGGG
*
18801688 ATATTTTATGAG
1 --ATTTTATGGG
*
18801700 ATTTTAAGGG
1 ATTTTATGGG
18801710 ATTGATTA--GG
1 ATT--TTATGGG
18801720 ATTTTATGGG
1 ATTTTATGGG
18801730 AT
1 AT
18801732 GTTTTAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 3 0.07
10 29 0.66
12 12 0.27
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (10 bp):
ATTTTATGGG
Found at i:18802930 original size:39 final size:38
Alignment explanation
Indices: 18802902--18803048 Score: 159
Period size: 39 Copynumber: 3.8 Consensus size: 38
18802892 CCATGACAAG
*
18802902 GGCTGGATCTCGTCATATTACCCTAGAATCTGCAATAA
1 GGCTAGATCTCGTCATATTACCCTAGAATCTGCAATAA
* * *
18802940 GGCTAGATCTCGTTATATTACCCCTAGAATTTGCAACAA
1 GGCTAGATCTCGTCATATTA-CCCTAGAATCTGCAATAA
* * * * *
18802979 GGCTAGATCTTGTTATATTACTCGAGAATCGGCAATAAA
1 GGCTAGATCTCGTCATATTACCCTAGAATCTGCAAT-AA
* * * *
18803018 TGCTAGATCTCATTATATTACCTTAGAATCT
1 GGCTAGATCTCGTCATATTACCCTAGAATCT
18803049 ATAATAGATT
Statistics
Matches: 90, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 29 0.32
39 61 0.68
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (38 bp):
GGCTAGATCTCGTCATATTACCCTAGAATCTGCAATAA
Found at i:18803829 original size:63 final size:63
Alignment explanation
Indices: 18803751--18803878 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
18803741 TGCTTTACAT
18803751 TTTATTCAATTTAGTCTCTTATCTTTAATTAACCACTTTTTCGGCTAAATTACTTATATGAAA
1 TTTATTCAATTTAGTCTCTTATCTTTAATTAACCACTTTTTCGGCTAAATTACTTATATGAAA
18803814 TTTATTCAATTTAGTCTCTTATCTTTAATTAACCACTTTTTCGGCTAAATTACTTATATGAAA
1 TTTATTCAATTTAGTCTCTTATCTTTAATTAACCACTTTTTCGGCTAAATTACTTATATGAAA
18803877 TT
1 TT
18803879 CAATATATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (63 bp):
TTTATTCAATTTAGTCTCTTATCTTTAATTAACCACTTTTTCGGCTAAATTACTTATATGAAA
Found at i:18805818 original size:6 final size:6
Alignment explanation
Indices: 18805802--18805835 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18805792 TCGGTAATTA
18805802 TCGAG- TCGAGC TCGAGC TCGAGC TCGAGC TCGAG
1 TCGAGC TCGAGC TCGAGC TCGAGC TCGAGC TCGAG
18805836 TTACCAATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (6 bp):
TCGAGC
Found at i:18810855 original size:37 final size:37
Alignment explanation
Indices: 18810805--18810878 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
18810795 GCTAAATGAG
18810805 TCTATTTTCACATAAAAGAAACAGAGCAAACAAAAGA
1 TCTATTTTCACATAAAAGAAACAGAGCAAACAAAAGA
*
18810842 TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
1 TCTATTTTCACATAAAAGAAACAGAGCAAACAAAAGA
18810879 GTTATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (37 bp):
TCTATTTTCACATAAAAGAAACAGAGCAAACAAAAGA
Found at i:18819080 original size:17 final size:18
Alignment explanation
Indices: 18819042--18819080 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
18819032 CCAATTGCCG
*
18819042 CAGTGAGGCGGCTAGCAAC
1 CAGTGAGGCAGCTA-CAAC
18819061 CAGTGAGGCAGCTA-AAC
1 CAGTGAGGCAGCTACAAC
18819078 CAG
1 CAG
18819081 CAATGTACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.31, C:0.26, G:0.33, T:0.10
Consensus pattern (18 bp):
CAGTGAGGCAGCTACAAC
Found at i:18820537 original size:16 final size:16
Alignment explanation
Indices: 18820518--18820558 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
18820508 GTACTGTTTC
*
18820518 TCAAAGGTACTTTGGA
1 TCAAAAGTACTTTGGA
18820534 TCAAAAAGTACTTTGGA
1 TC-AAAAGTACTTTGGA
*
18820551 GCAAAAGT
1 TCAAAAGT
18820559 TCAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (16 bp):
TCAAAAGTACTTTGGA
Found at i:18820546 original size:17 final size:17
Alignment explanation
Indices: 18820524--18820556 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18820514 TTTCTCAAAG
*
18820524 GTACTTTGGATCAAAAA
1 GTACTTTGGAGCAAAAA
18820541 GTACTTTGGAGCAAAA
1 GTACTTTGGAGCAAAA
18820557 GTTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (17 bp):
GTACTTTGGAGCAAAAA
Found at i:18824128 original size:96 final size:96
Alignment explanation
Indices: 18823964--18824155 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
18823954 AGATAGTATA
18823964 ACGTTAGTGTTAGGCAAGAAAATTTCTAACTTATAAAATTTGTCCAACTTGACAATGGAAGACCC
1 ACGTTAGTGTTAGGCAAGAAAATTTCTAACTTATAAAATTTGTCCAACTTGACAATGGAAGACCC
18824029 AAAAAGTGGAGGAGACTTTTCCAAGTCTTTC
66 AAAAAGTGGAGGAGACTTTTCCAAGTCTTTC
18824060 ACGTTAGTGTTAGGCAAGAAAATTTCTAACTTATAAAATTTGTCCAACTTGACAATGGAAGACCC
1 ACGTTAGTGTTAGGCAAGAAAATTTCTAACTTATAAAATTTGTCCAACTTGACAATGGAAGACCC
18824125 AAAAAGTGGAGGAGACTTTTCCAAGTCTTTC
66 AAAAAGTGGAGGAGACTTTTCCAAGTCTTTC
18824156 TCTTATTATT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (96 bp):
ACGTTAGTGTTAGGCAAGAAAATTTCTAACTTATAAAATTTGTCCAACTTGACAATGGAAGACCC
AAAAAGTGGAGGAGACTTTTCCAAGTCTTTC
Found at i:18833409 original size:2 final size:2
Alignment explanation
Indices: 18833404--18833444 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18833394 ACATTATTCT
18833404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18833445 TAACTCAAAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18834897 original size:24 final size:24
Alignment explanation
Indices: 18834870--18834915 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18834860 CTACTTTAAT
* *
18834870 TTTACAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
18834894 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
18834916 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:18840561 original size:71 final size:71
Alignment explanation
Indices: 18840483--18840645 Score: 222
Period size: 72 Copynumber: 2.3 Consensus size: 71
18840473 TTGTTATAAA
* * **
18840483 TTGTTAGTTATTTTGTTAGTGTTTTGTGTTTTGTGATTTTTTATTAATGTAAAATTATTTT-ATT
1 TTGTTAGTTATTTTGTTAGTGTTTTGTGTTTTGTGATTTTTTAGTAATATAAAA-TATTTTAAAA
*
18840547 AATTATT
65 AAATATT
* *
18840554 TTGTTAGTAATTTATGTAAGTGTTTTGTGTTTTGTGATTTTTTAGTAATATAAAATATTTTAAAA
1 TTGTTAGTTATTT-TGTTAGTGTTTTGTGTTTTGTGATTTTTTAGTAATATAAAATATTTTAAAA
18840619 AAATATT
65 AAATATT
18840626 TT-TATAGTTATTTTGTTAGT
1 TTGT-TAGTTATTTTGTTAGT
18840646 AATTTATGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
71 25 0.31
72 55 0.69
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (71 bp):
TTGTTAGTTATTTTGTTAGTGTTTTGTGTTTTGTGATTTTTTAGTAATATAAAATATTTTAAAAA
AATATT
Found at i:18840942 original size:102 final size:105
Alignment explanation
Indices: 18840823--18841030 Score: 316
Period size: 104 Copynumber: 2.0 Consensus size: 105
18840813 TAAAAATTGT
*
18840823 TAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTTTAG-GATTTT
1 TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAATTTAGTG-TTTT
18840885 GTGATTTTTTAGTAATAT-AATTTTTAAAAAAATAATTTTA
65 GTGATTTTTTAGTAATATAAATTTTTAAAAAAATAATTTTA
*
18840925 TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATTAATTGTTAGTGTTTAATTTAGTGTTTTG
1 TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAATTTAGTGTTTTG
* * * * *
18840990 TGATTTTTTATTAATGTAAATTTTTTATAATATAATTTTA
66 TGATTTTTTAGTAATATAAATTTTTAAAAAAATAATTTTA
18841030 T
1 T
18841031 TTTTATTTGA
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
102 28 0.29
103 3 0.03
104 43 0.45
105 21 0.22
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.56
Consensus pattern (105 bp):
TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAATTTAGTGTTTTG
TGATTTTTTAGTAATATAAATTTTTAAAAAAATAATTTTA
Found at i:18850309 original size:38 final size:38
Alignment explanation
Indices: 18850267--18850341 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
18850257 AGGTTGTTAG
* **
18850267 ATAGTTTTTGTG-TCCTACAGGGAAAGGTCCCTTATGAC
1 ATAGTTTTGGTGCT-CTACAGGGAAACATCCCTTATGAC
*
18850305 ATAGTTTTGGTGCTCTGCAGGGAAACATCCCTTATGA
1 ATAGTTTTGGTGCTCTACAGGGAAACATCCCTTATGA
18850342 GGACTTTGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (38 bp):
ATAGTTTTGGTGCTCTACAGGGAAACATCCCTTATGAC
Found at i:18860333 original size:47 final size:47
Alignment explanation
Indices: 18860278--18860599 Score: 502
Period size: 47 Copynumber: 6.7 Consensus size: 47
18860268 GTGAGTGTGC
18860278 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
* *
18860325 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
* * *
18860372 CAATGTAAGACCATGTCTGGGACATGGCATC-GCTCGAGATGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
18860418 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
*
18860465 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
* *
18860512 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATTAGTTTTGAGTGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTC-A-A-TA----TGAGAGT
18860566 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
18860600 ACCGATATGT
Statistics
Matches: 255, Mismatches: 12, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
46 44 0.17
47 169 0.66
49 1 0.00
50 2 0.01
54 39 0.15
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGT
Found at i:18860530 original size:140 final size:145
Alignment explanation
Indices: 18860277--18860599 Score: 557
Period size: 140 Copynumber: 2.2 Consensus size: 145
18860267 AGTGAGTGTG
*
18860277 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGTTAGTGTAAGACCATGTC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGTCAGTGTAAGACCATGTC
18860342 TGGGACATGGCATCGGCTCGATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATC-GCT
66 TGGGACATGGCATCGGCTCGATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCT
18860406 CGAGA-T-G-AGAGT
131 CGAGATTAGTAGAGT
18860418 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGTCAGTGTAAGACCATGTC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGTCAGTGTAAGACCATGTC
*
18860482 TGGGACATGGCATCGGCTCGATATGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT
66 TGGGACATGGCATCGGCTCGATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCT
*
18860547 CGAGATTAGTTTTGAGT
131 CGAGATTAG--TAGAGT
18860564 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
18860600 ACCGATATGT
Statistics
Matches: 171, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
140 123 0.72
141 8 0.05
142 1 0.01
143 1 0.01
146 4 0.02
148 34 0.20
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (145 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGAGAGTCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCTCGATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCT
CGAGATTAGTAGAGT
Found at i:18876258 original size:13 final size:13
Alignment explanation
Indices: 18876240--18876264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18876230 CATAGATAGA
18876240 TAATATTGGAAAT
1 TAATATTGGAAAT
18876253 TAATATTGGAAA
1 TAATATTGGAAA
18876265 AGGGAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TAATATTGGAAAT
Found at i:18877308 original size:18 final size:18
Alignment explanation
Indices: 18877266--18877312 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
18877256 AATATAACAA
18877266 ATATATTTAAAAAGTAAG
1 ATATATTTAAAAAGTAAG
18877284 ATA-ATTTAATAAAG-AA-
1 ATATATTTAA-AAAGTAAG
18877300 ATTATATTTAAAA
1 A-TATATTTAAAA
18877313 TCATAAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 12 0.46
18 13 0.50
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
ATATATTTAAAAAGTAAG
Found at i:18879175 original size:20 final size:20
Alignment explanation
Indices: 18879142--18879180 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18879132 ATTGACTTGA
*
18879142 TGTTGATTGACATTAATCAC
1 TGTTGATCGACATTAATCAC
* *
18879162 TGTTGATCGGCATTGATCA
1 TGTTGATCGACATTAATCA
18879181 TCATTGATTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
TGTTGATCGACATTAATCAC
Found at i:18883618 original size:16 final size:16
Alignment explanation
Indices: 18883597--18883630 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18883587 TCTTAAATTT
18883597 CTGCTTGGATTTCAAA
1 CTGCTTGGATTTCAAA
18883613 CTGCTTGGATTTCAAA
1 CTGCTTGGATTTCAAA
18883629 CT
1 CT
18883631 AGTCCTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (16 bp):
CTGCTTGGATTTCAAA
Found at i:18883661 original size:3 final size:3
Alignment explanation
Indices: 18883653--18883723 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
18883643 CTTTTTGTAC
* *
18883653 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18883701 TAT GGTAT TAT TAT TAT TAT TAT
1 TAT --TAT TAT TAT TAT TAT TAT
18883724 AACAATGTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 61 0.95
5 3 0.05
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:18883807 original size:18 final size:19
Alignment explanation
Indices: 18883779--18883816 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18883769 TTTTATTCTA
18883779 TATATATACATATACATTT
1 TATATATACATATACATTT
*
18883798 TATA-ATACATATATATTT
1 TATATATACATATACATTT
18883816 T
1 T
18883817 CCATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATACATATACATTT
Found at i:18883985 original size:23 final size:22
Alignment explanation
Indices: 18883929--18883987 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
18883919 TATATATACT
* *
18883929 TATATATATACGTATTTTAATA
1 TATACATATACATATTTTAATA
*
18883951 TATACATATACATATTTTCATAA
1 TATACATATACATATTTTAAT-A
* *
18883974 TTTACTTATACATA
1 TATACATATACATA
18883988 GATCATACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (22 bp):
TATACATATACATATTTTAATA
Found at i:18888220 original size:26 final size:27
Alignment explanation
Indices: 18888175--18888226 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18888165 AAATCCCAAA
*
18888175 TTTTCTTCCTTTGCTTCCCT-TTTTCT
1 TTTTCTTCCTTTGCTCCCCTGTTTTCT
18888201 TTTTCTTTCCTTT-CTCCCCTGTTTTC
1 TTTTC-TTCCTTTGCTCCCCTGTTTTC
18888227 GTTTGCCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTCTTCCTTTGCTCCCCTGTTTTCT
Found at i:18889012 original size:30 final size:30
Alignment explanation
Indices: 18888956--18889013 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
18888946 AAAATATTAT
* *
18888956 ATATAATAAATTATTTAAAATACAAAAATC
1 ATATAATAAAATATATAAAATACAAAAATC
*
18888986 ATAT-ATAAAATATATAATAATTCAAAAA
1 ATATAATAAAATATATAA-AATACAAAAA
18889014 AAGTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (30 bp):
ATATAATAAAATATATAAAATACAAAAATC
Found at i:18889049 original size:16 final size:17
Alignment explanation
Indices: 18889012--18889050 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18889002 ATAATTCAAA
*
18889012 AAAAGTTTTAAAAAATAT
1 AAAA-TTTTAAAAAATAC
18889030 AAAATTTTAAAAAAT-C
1 AAAATTTTAAAAAATAC
18889046 AAAAT
1 AAAAT
18889051 ATTATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 11 0.55
18 4 0.20
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAATTTTAAAAAATAC
Found at i:18889341 original size:69 final size:70
Alignment explanation
Indices: 18889252--18889381 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 70
18889242 ATTTGACAAC
* * *
18889252 TTTTCAATTTTTATATAATATTTT-ATTTTTTAAAATCTATATTTATATATTTTAGATTTTTTTA
1 TTTTCAATTTTTATATAATATTTTGATTTTTT-AAATCTATAATTACATATTTTAGAATTTTTTA
18889316 TTTTTT
65 TTTTTT
* *
18889322 TTTTCAA-TTTTATGTAATATTTTGATTTTTTAAATTTATAATTACATATTTTAGAATTTT
1 TTTTCAATTTTTATATAATATTTTGATTTTTTAAATCTATAATTACATATTTTAGAATTTT
18889382 GGGTTCAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
69 40 0.74
70 14 0.26
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (70 bp):
TTTTCAATTTTTATATAATATTTTGATTTTTTAAATCTATAATTACATATTTTAGAATTTTTTAT
TTTTT
Found at i:18889938 original size:31 final size:31
Alignment explanation
Indices: 18889903--18889981 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
18889893 AAAAAACTTA
* **
18889903 AATATAATAATAAATTATATTTAAATAATTT
1 AATATAATAATAAATGATATTTAAATAAAAT
* *
18889934 AATATAATGATTAATGATATTTAAATAAAAT
1 AATATAATAATAAATGATATTTAAATAAAAT
* *
18889965 AATAAAATAATATATGA
1 AATATAATAATAAATGA
18889982 AATATGAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (31 bp):
AATATAATAATAAATGATATTTAAATAAAAT
Found at i:18896373 original size:44 final size:44
Alignment explanation
Indices: 18896322--18896522 Score: 176
Period size: 44 Copynumber: 4.7 Consensus size: 44
18896312 TGTGATCCAT
*
18896322 TCCACTGTAACCTCAGGAAGATAAGATCTCTGGCTTCAATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
* * * *
18896366 TCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTAC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
** * * * *** * *
18896407 TCTGCTGTAACTTCAGAGAGATAAGATCCCTCATTTTAATCCGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
* * ** * *
18896451 TCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
*
18896494 TCCGCTGTAACCTCAGGGAGATAAGATCT
1 TCCACTGTAACCTCAGGGAGATAAGATCT
18896523 GCAATTCTTC
Statistics
Matches: 121, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
41 30 0.25
42 3 0.02
43 35 0.29
44 53 0.44
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (44 bp):
TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
Found at i:18896429 original size:85 final size:85
Alignment explanation
Indices: 18896276--18896473 Score: 211
Period size: 85 Copynumber: 2.3 Consensus size: 85
18896266 GTGGTTTTAG
* ** * * *
18896276 TCTGCTCCACTGCAATGTCAAGGAGATAAGACTGGATGTGATCCATTCCACTGTAACCTCAGGAA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATCCACTCCACTGTAACCTCAGGAA
* **
18896341 GATAAGATCTCTGGCTTCAA
66 GATAAGATCCCTCACTTCAA
* ** *
18896361 TCTGCTCCACTGTAACCTCAGGGAGATAAGACCT-GATGCGATCTACTCTGCTGTAACTTCA-GA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGA-CTGGATGCGATCCACTCCACTGTAACCTCAGGA
* *
18896424 GAGATAAGATCCCTCATTTTAA
65 -AGATAAGATCCCTCACTTCAA
* *
18896446 TCCGCTCCACTGTAACTTCAGGGAGATA
1 TCTGCTCCACTGTAACCTCAGGGAGATA
18896474 GGATAGTGTC
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
84 2 0.02
85 90 0.96
86 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (85 bp):
TCTGCTCCACTGTAACCTCAGGGAGATAAGACTGGATGCGATCCACTCCACTGTAACCTCAGGAA
GATAAGATCCCTCACTTCAA
Found at i:18913027 original size:17 final size:17
Alignment explanation
Indices: 18912993--18913028 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18912983 TTCTATAATG
*
18912993 AAATGCCATGTAGACAA
1 AAATGCCATGCAGACAA
*
18913010 AAATGCCATGCAGTCAA
1 AAATGCCATGCAGACAA
18913027 AA
1 AA
18913029 CAAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (17 bp):
AAATGCCATGCAGACAA
Found at i:18914140 original size:112 final size:109
Alignment explanation
Indices: 18913941--18914140 Score: 328
Period size: 112 Copynumber: 1.8 Consensus size: 109
18913931 AAAATTCAAG
* * *
18913941 AGGATATTTGGCCATTTGGTTAAACGAGAAATCGATACCCAGCACCTTAGGGCATGTTCCTCGAA
1 AGGATATTTAGCCATTTGGTTAAACGAGAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAA
18914006 TTTCCAAACGCAAAACATTGCCTTATTTTGTAATTTTTTTGGAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTGTAATTTTTTTGGAA
* *
18914050 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTAAACGAG--AAATCGACACCCAGCACCTTAGGGCACG-TTCCTC
18914115 GAATTTCCAAACGCAAAACATTGCCT
63 GAATTTCCAAACGCAAAACATTGCCT
18914141 CAATTAGAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
109 26 0.31
111 26 0.31
112 31 0.37
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.29
Consensus pattern (109 bp):
AGGATATTTAGCCATTTGGTTAAACGAGAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTGTAATTTTTTTGGAA
Found at i:18917130 original size:120 final size:120
Alignment explanation
Indices: 18916917--18917147 Score: 365
Period size: 120 Copynumber: 1.9 Consensus size: 120
18916907 TTAGCCTTCA
* *
18916917 CCCCCATAGATCCCCTTATTTTGTCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCATACAA
1 CCCCCACAGATCCCCTTATTTTGCCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCATACAA
** *
18916982 CTCTAACAATCTTCTCCTTGGCACGAATTCTCAACGAACAAGTTCTCCACCTCTT
66 CTCTAACAATCCCCTCCTTGACACGAATTCTCAACGAACAAGTTCTCCACCTCTT
*
18917037 CCCCCACAGATCTCCC-TATTTTGCCACTGTATTTTATTTCTTTAATAGGAATTTGGGTCATACA
1 CCCCCACAGATC-CCCTTATTTTGCCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCATACA
* * *
18917101 ATTCTAACAATCCCCTCCTTGACACGAATTCTCAATGGACAAGTTCT
65 ACTCTAACAATCCCCTCCTTGACACGAATTCTCAACGAACAAGTTCT
18917148 TTATCACGAA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 98 0.97
121 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (120 bp):
CCCCCACAGATCCCCTTATTTTGCCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCATACAA
CTCTAACAATCCCCTCCTTGACACGAATTCTCAACGAACAAGTTCTCCACCTCTT
Found at i:18922067 original size:8 final size:8
Alignment explanation
Indices: 18922056--18922083 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
18922046 AATTATATGG
18922056 TATAGATA
1 TATAGATA
18922064 TATAGATA
1 TATAGATA
18922072 TATAGATA
1 TATAGATA
18922080 TATA
1 TATA
18922084 TAACATGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (8 bp):
TATAGATA
Found at i:18922238 original size:4 final size:4
Alignment explanation
Indices: 18922229--18922253 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18922219 TTGAAAATAA
18922229 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
18922254 TGATATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:18927658 original size:27 final size:26
Alignment explanation
Indices: 18927606--18927667 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
18927596 AAAAATTAAC
*
18927606 CAAAATATTATACTTTTTTTTGTTTA
1 CAAAATATTATACTTTTTTTTATTTA
18927632 TCAAAATATTA-A-TTTTATTATTATTTA
1 -CAAAATATTATACTTTT-TT-TTATTTA
18927659 CGAAAATAT
1 C-AAAATAT
18927668 ACAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 23 0.74
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (26 bp):
CAAAATATTATACTTTTTTTTATTTA
Found at i:18927758 original size:27 final size:27
Alignment explanation
Indices: 18927728--18927811 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 27
18927718 GGCCAATCAC
18927728 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
* *
18927755 ATTGGTGGCACCAATGGATTGGTGCCAAAGTG
1 ATTGGCGGCACCAA---A--GGTGCCAAAGAG
* * *
18927787 ATTCGCAGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
18927812 GACTAAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
27 23 0.50
30 1 0.02
32 22 0.48
ACGTcount: A:0.30, C:0.21, G:0.31, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:18927784 original size:32 final size:32
Alignment explanation
Indices: 18927743--18927803 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
18927733 CGGCACCAAA
* **
18927743 GGTGCCAAAGAGATTGGTGGCACCAATGGATT
1 GGTGCCAAAGAGATTCGCAGCACCAATGGATT
*
18927775 GGTGCCAAAGTGATTCGCAGCACCAATGG
1 GGTGCCAAAGAGATTCGCAGCACCAATGG
18927804 TGCCAAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (32 bp):
GGTGCCAAAGAGATTCGCAGCACCAATGGATT
Found at i:18927922 original size:18 final size:18
Alignment explanation
Indices: 18927885--18927960 Score: 80
Period size: 19 Copynumber: 4.1 Consensus size: 18
18927875 TGAACTCATT
* *
18927885 TTTTTATTTAATAATTCTA
1 TTTTAATTTAATAA-ACTA
*
18927904 TTTTAATTTTATAAACTA
1 TTTTAATTTAATAAACTA
* * *
18927922 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAA-ACTA
18927941 TTTTAATTTAATAAACTA
1 TTTTAATTTAATAAACTA
18927959 TT
1 TT
18927961 AAGTAATACT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
18 19 0.41
19 27 0.59
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAATTTAATAAACTA
Found at i:18927935 original size:37 final size:37
Alignment explanation
Indices: 18927890--18927960 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
18927880 TCATTTTTTT
* *
18927890 ATTTAATAATTCTATTTTAATTTTATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
18927927 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
18927961 AAGTAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:18928318 original size:19 final size:19
Alignment explanation
Indices: 18928249--18928317 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
18928239 ACTTAATATT
18928249 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* *
18928268 TTATTAAATGAGAAT-G-G
1 TTATTAAATTAAAATAGAG
18928285 TTTATTAAATTAAAATAGAG
1 -TTATTAAATTAAAATAGAG
18928305 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
18928318 AAAATGAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 1 0.02
18 19 0.44
19 22 0.51
20 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:18928574 original size:37 final size:37
Alignment explanation
Indices: 18928532--18928602 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
18928522 AGTATTACTT
18928532 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
18928569 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
18928603 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:18928607 original size:19 final size:19
Alignment explanation
Indices: 18928538--18928606 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
18928528 ACTTAATAGT
18928538 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
18928557 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
18928575 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
18928594 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
18928607 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:18928714 original size:27 final size:26
Alignment explanation
Indices: 18928677--18928732 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
18928667 ATCACATTTT
18928677 AATCCTTTGGCACCATTGGTGCCGCC
1 AATCCTTTGGCACCATTGGTGCCGCC
* *
18928703 AATCTCTTTGGCACCTTTGGTGCCTCC
1 AATC-CTTTGGCACCATTGGTGCCGCC
18928730 AAT
1 AAT
18928733 GTGATTGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (26 bp):
AATCCTTTGGCACCATTGGTGCCGCC
Found at i:18928740 original size:27 final size:27
Alignment explanation
Indices: 18928683--18928741 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
18928673 TTTTAATCCT
*
18928683 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * * *
18928710 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
18928737 TTGGC
1 TTGGC
18928742 CTAATCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:18943067 original size:25 final size:25
Alignment explanation
Indices: 18943030--18943110 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
18943020 CGGACACACC
* *
18943030 ACAGTTCGTATGAGCTTCCCGTTAT
1 ACAGCTCGCATGAGCTTCCCGTTAT
18943055 ACAGCTCGCATGAGCTTCCCGTTAT
1 ACAGCTCGCATGAGCTTCCCGTTAT
* * * * *
18943080 TCAGCTTGGAGGAGCTTCCTGTT-T
1 ACAGCTCGCATGAGCTTCCCGTTAT
18943104 ACAGCTC
1 ACAGCTC
18943111 ATATGAGCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 6 0.13
25 41 0.87
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (25 bp):
ACAGCTCGCATGAGCTTCCCGTTAT
Found at i:18947765 original size:19 final size:19
Alignment explanation
Indices: 18947730--18947795 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
18947720 TATTGCTAAT
18947730 TAATTTTTAA-AAA-TTTA
1 TAATTTTTAATAAATTTTA
* *
18947747 TAATTTTTTATAATTTTTA
1 TAATTTTTAATAAATTTTA
* *
18947766 TACTTTTTAATAAATTTAA
1 TAATTTTTAATAAATTTTA
*
18947785 TAAATTTTAAT
1 TAATTTTTAAT
18947796 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.23
18 2 0.05
19 28 0.72
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATTTTTAATAAATTTTA
Found at i:18949593 original size:27 final size:26
Alignment explanation
Indices: 18949544--18949594 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
18949534 ACAAGAAAAA
* * *
18949544 CCACGATCCTAATTTTCTGGAGATAG
1 CCACAATCCTAATTCTCTAGAGATAG
18949570 CCACAATCCTAAATTCTCTAGAGAT
1 CCACAATCCT-AATTCTCTAGAGAT
18949595 TAATCAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (26 bp):
CCACAATCCTAATTCTCTAGAGATAG
Found at i:18952910 original size:2 final size:2
Alignment explanation
Indices: 18952905--18952945 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18952895 ATAGCATCAA
18952905 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
18952946 ATTATTTAAT
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:18958615 original size:12 final size:12
Alignment explanation
Indices: 18958598--18958643 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
18958588 CCATTAAAAA
*
18958598 TCCATGTCCATG
1 TCCATGTCTATG
*
18958610 TCCATGTTTATTG
1 TCCATGTCTA-TG
*
18958623 TCTATGTCTATG
1 TCCATGTCTATG
18958635 TCCATGTCT
1 TCCATGTCT
18958644 TGTTAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (12 bp):
TCCATGTCTATG
Found at i:18963930 original size:16 final size:16
Alignment explanation
Indices: 18963905--18963944 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
18963895 GAGGGAGACC
*
18963905 AAAAATAAAACAAAAA
1 AAAAAGAAAACAAAAA
* *
18963921 AAAAAGAAAAGATAAA
1 AAAAAGAAAACAAAAA
18963937 AAAAAGAA
1 AAAAAGAA
18963945 GAAGAAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.85, C:0.03, G:0.07, T:0.05
Consensus pattern (16 bp):
AAAAAGAAAACAAAAA
Found at i:18963949 original size:17 final size:16
Alignment explanation
Indices: 18963918--18963949 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
18963908 AATAAAACAA
18963918 AAAAAAAAGAAAAGAT
1 AAAAAAAAGAAAAGAT
18963934 AAAAAAAAGAAGAAGA
1 AAAAAAAAGAA-AAGA
18963950 AGAAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAAAGAT
Found at i:18971915 original size:7 final size:7
Alignment explanation
Indices: 18971903--18971930 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18971893 GTGTGTTTAA
18971903 AAATAAT
1 AAATAAT
18971910 AAATAAT
1 AAATAAT
18971917 AAATAAT
1 AAATAAT
18971924 AAATAAT
1 AAATAAT
18971931 GAAACGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATAAT
Found at i:18977048 original size:18 final size:18
Alignment explanation
Indices: 18977025--18977060 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18977015 ATGTAAATAA
18977025 GTAAGTAGGTTACCCTAT
1 GTAAGTAGGTTACCCTAT
18977043 GTAAGTAGGTTACCCTAT
1 GTAAGTAGGTTACCCTAT
18977061 TAACTGTCCC
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:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
GTAAGTAGGTTACCCTAT
Done.