Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 156 of 226
Found at i:48536310 original size:75 final size:75
Alignment explanation
Indices: 48536220--48536378 Score: 300
Period size: 75 Copynumber: 2.1 Consensus size: 75
48536210 GGTGACTTAC
* *
48536220 TATTTTTTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAATGTGATACCA
1 TATTTATTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCA
48536285 CTGCGAATTT
66 CTGCGAATTT
48536295 TATTTATTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCA
1 TATTTATTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCA
48536360 CTGCGAATTT
66 CTGCGAATTT
48536370 TATTTATTT
1 TATTTATTT
48536379 ATTTTTATTT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.48
Consensus pattern (75 bp):
TATTTATTTTCTTTCGATTATTTTTTACTTATTTACGATTTTAAAAAAGGGAGAAGGTGATACCA
CTGCGAATTT
Found at i:48536756 original size:22 final size:22
Alignment explanation
Indices: 48536716--48536788 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
48536706 ATACGCATAT
* *
48536716 TTATTTTTTCTAGTATAATATAA
1 TTATTTTTTATA-TGTAATATAA
48536739 TTATTTTTTATATGTAAT-T-A
1 TTATTTTTTATATGTAATATAA
* *
48536759 TTTTTTTATCTATATGT-ATATAT
1 TTATTTT-T-TATATGTAATATAA
48536782 TTATTTT
1 TTATTTT
48536789 AGTATACATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.17
21 4 0.10
22 13 0.32
23 17 0.41
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTTTTTATATGTAATATAA
Found at i:48536794 original size:22 final size:22
Alignment explanation
Indices: 48536733--48536794 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
48536723 TTCTAGTATA
* *
48536733 ATATAATTATTTT-TTATATGT
1 ATATATTTATTTTACTATATGT
48536754 A-ATTATTT-TTTTATCTATATGT
1 ATA-TATTTATTTTA-CTATATGT
*
48536776 ATATATTTATTTTAGTATA
1 ATATATTTATTTTACTATA
48536795 CATATGTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 17 0.52
23 6 0.18
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
ATATATTTATTTTACTATATGT
Found at i:48536858 original size:25 final size:24
Alignment explanation
Indices: 48536830--48536886 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
48536820 TTTTAACTAA
* *
48536830 TTTTTATATATATGAACATAT-TT
1 TTTTTATATAAATGAAAATATATT
*
48536853 ATTTTT-TAAAAATGAAAATATATT
1 -TTTTTATATAAATGAAAATATATT
48536877 TTTTTATATA
1 TTTTTATATA
48536887 CTTTATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTTTATATAAATGAAAATATATT
Found at i:48542177 original size:3 final size:3
Alignment explanation
Indices: 48542169--48542194 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48542159 ATAGTAGGGT
48542169 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
48542195 TTTTGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48545365 original size:1 final size:1
Alignment explanation
Indices: 48545359--48545384 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
48545349 TGAGCTCCAC
48545359 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
48545385 GCTTAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:48546928 original size:1 final size:1
Alignment explanation
Indices: 48546922--48546947 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
48546912 CTTCTTCTTC
48546922 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
48546948 GCCATGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:48555368 original size:21 final size:22
Alignment explanation
Indices: 48555327--48555369 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
48555317 GGTCTACTTA
48555327 TTTAAACAATAATTCAAATATT
1 TTTAAACAATAATTCAAATATT
* *
48555349 TTTAAA-AATGATTTAAATATT
1 TTTAAACAATAATTCAAATATT
48555370 ATATGTAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTAAACAATAATTCAAATATT
Found at i:48563624 original size:27 final size:27
Alignment explanation
Indices: 48563574--48563663 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 27
48563564 ATCATGGTAT
* *
48563574 GCCACTAAGGCAACCCATTCAGAGTAC
1 GCCACAAAAGCAACCCATTCAGAGTAC
* * * *
48563601 GTCACAAAAGCAATCCATTTAGAGTAT
1 GCCACAAAAGCAACCCATTCAGAGTAC
* *** *
48563628 GCCACAAAAGTAGTTCTTTCAGAGTAC
1 GCCACAAAAGCAACCCATTCAGAGTAC
48563655 GCCA-AAAAG
1 GCCACAAAAG
48563664 GTTATTCATA
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 5 0.10
27 45 0.90
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (27 bp):
GCCACAAAAGCAACCCATTCAGAGTAC
Found at i:48567042 original size:172 final size:171
Alignment explanation
Indices: 48566727--48567066 Score: 581
Period size: 172 Copynumber: 2.0 Consensus size: 171
48566717 TTACTTAAAC
* * * *
48566727 ACAATAAATAATTCAGTGATTTTATCACAAACATATAAACAACGTCCACACACTTAAAATGTACA
1 ACAACAAATAATTCAGGGATTTTATCACAAACATATAAACAACCTCCACACACTTAAAATATACA
*
48566792 TTGTCCTCAATGTAGAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACAA
66 TTGTCCTCAATGTAAAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACAA
48566857 CTGAAACTACCCTGAATATGGATGAAATTGCTAGAATATAA
131 CTGAAACTACCCTGAATATGGATGAAATTGCTAGAATATAA
* * *
48566898 ACAACAAATAATTTAGGGATTTTATCACAAACATATAAACAACCTCCCCACACTTAAACTATACA
1 ACAACAAATAATTCAGGGATTTTATCACAAACATATAAACAACCTCCACACACTTAAAATATACA
*
48566963 TTGTCCTCAATGTAAAAAACATATATAAGCACAAAATAAGCAAAATATCAAAAGAGAGGGAGACA
66 TTGTCCTCAATGT-AAAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACA
*
48567028 ATTGAAACTACCCTGAATATGGATGAAATTGCTAGAATA
130 ACTGAAACTACCCTGAATATGGATGAAATTGCTAGAATA
48567067 GAGAAAACCA
Statistics
Matches: 158, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
171 71 0.45
172 87 0.55
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (171 bp):
ACAACAAATAATTCAGGGATTTTATCACAAACATATAAACAACCTCCACACACTTAAAATATACA
TTGTCCTCAATGTAAAAACATATATAAGCACAAAATAAGAAAAATATCAAAAGAGAGGGAGACAA
CTGAAACTACCCTGAATATGGATGAAATTGCTAGAATATAA
Found at i:48567578 original size:19 final size:20
Alignment explanation
Indices: 48567542--48567579 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48567532 AATTATAGTA
*
48567542 AAACTAATAGTTATAATAAT
1 AAACTAATAGTAATAATAAT
48567562 AAACTAA-AGTAATAATAA
1 AAACTAATAGTAATAATAA
48567580 GTATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAACTAATAGTAATAATAAT
Found at i:48572158 original size:28 final size:28
Alignment explanation
Indices: 48572118--48572174 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
48572108 ACTTTTAAAG
48572118 TCTGAGAAATTATGCTTAATTACATGAT
1 TCTGAGAAATTATGCTTAATTACATGAT
*
48572146 TCTGTGAAATTATGCTTAATTACATGAT
1 TCTGAGAAATTATGCTTAATTACATGAT
48572174 T
1 T
48572175 TTTGTACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (28 bp):
TCTGAGAAATTATGCTTAATTACATGAT
Found at i:48578611 original size:28 final size:27
Alignment explanation
Indices: 48578575--48578646 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
48578565 TGAGCTTGAA
*
48578575 TTTAGGGTTTAGTGTTTAAGGTTTAAGG
1 TTTATGGTTT-GTGTTTAAGGTTTAAGG
*
48578603 TTTATGGTTTGATGTTTGAGGTTTAAGG
1 TTTATGGTTTG-TGTTTAAGGTTTAAGG
* *
48578631 TTCATAGTTTGGTGTT
1 TTTATGGTTT-GTGTT
48578647 CGGGGTTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (27 bp):
TTTATGGTTTGTGTTTAAGGTTTAAGG
Found at i:48578653 original size:28 final size:28
Alignment explanation
Indices: 48578593--48578653 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
48578583 TTAGTGTTTA
* * *
48578593 AGGTTTAAGGTTTATGGTTTGATGTTTG
1 AGGTTTAAGGTTCATAGTTTGATGTTCG
*
48578621 AGGTTTAAGGTTCATAGTTTGGTGTTCG
1 AGGTTTAAGGTTCATAGTTTGATGTTCG
*
48578649 GGGTT
1 AGGTT
48578654 CAAAGTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.46
Consensus pattern (28 bp):
AGGTTTAAGGTTCATAGTTTGATGTTCG
Found at i:48584767 original size:19 final size:20
Alignment explanation
Indices: 48584725--48584764 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48584715 CACACATATA
*
48584725 TATACCATTGTTAAGACTTT
1 TATACCATAGTTAAGACTTT
48584745 TATACCATAGTTAAGACTTT
1 TATACCATAGTTAAGACTTT
48584765 ATAATTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (20 bp):
TATACCATAGTTAAGACTTT
Found at i:48585308 original size:18 final size:18
Alignment explanation
Indices: 48585274--48585308 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48585264 TACATTTACT
* *
48585274 AATTTAAAAATTTTAAAA
1 AATTTAAAAAGTCTAAAA
48585292 AATTTAAAAAGTCTAAA
1 AATTTAAAAAGTCTAAA
48585309 TAAAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTTAAAAAGTCTAAAA
Found at i:48585969 original size:20 final size:20
Alignment explanation
Indices: 48585931--48585978 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
48585921 TCAACCTTTT
48585931 AAATATAATTTAAAACTAAAG
1 AAATA-AATTTAAAACTAAAG
* * *
48585952 TAATAAATTTGAATCTAAAG
1 AAATAAATTTAAAACTAAAG
48585972 AAATAAA
1 AAATAAA
48585979 AAACAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATAAATTTAAAACTAAAG
Found at i:48592466 original size:23 final size:23
Alignment explanation
Indices: 48592436--48592492 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
48592426 ATGTGAGCCA
48592436 TGTAACAGGAAGCTTATCTGGGC
1 TGTAACAGGAAGCTTATCTGGGC
48592459 TGTAACAGGAAGCTTATCTGGGC
1 TGTAACAGGAAGCTTATCTGGGC
*
48592482 TATAACAGGAA
1 TGTAACAGGAA
48592493 ACTCATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (23 bp):
TGTAACAGGAAGCTTATCTGGGC
Found at i:48595702 original size:30 final size:30
Alignment explanation
Indices: 48595668--48595727 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
48595658 CTTGCTTAAC
48595668 ATAGAACACACTTATCTATATTCATTCATA
1 ATAGAACACACTTATCTATATTCATTCATA
48595698 ATAGAACACACTTATCTATATTCATTCATA
1 ATAGAACACACTTATCTATATTCATTCATA
48595728 CTCCTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (30 bp):
ATAGAACACACTTATCTATATTCATTCATA
Found at i:48598369 original size:16 final size:18
Alignment explanation
Indices: 48598348--48598382 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
48598338 TTAAATTAAT
48598348 TAATTTTCT-AA-CCAAA
1 TAATTTTCTCAACCCAAA
48598364 TAATTTTCTCAACCCAAA
1 TAATTTTCTCAACCCAAA
48598382 T
1 T
48598383 CTAATTCCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATTTTCTCAACCCAAA
Found at i:48599320 original size:41 final size:40
Alignment explanation
Indices: 48599275--48599414 Score: 129
Period size: 41 Copynumber: 3.5 Consensus size: 40
48599265 CGCAATAAGA
*
48599275 AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGT
1 AAAGCAATAGCGACGTTTATGA-AAAAACGCCATAAAAGGT
* * * * ** * * * *
48599316 AAAGCAGTAGTGACATTTTTCTCATAATCGCTACAAAAGGT
1 AAAGCAATAGCGACGTTTAT-GAAAAAACGCCATAAAAGGT
* *
48599357 AAAGCAATAGCGGCGTTTATGAAAAAACGCCGCT-AAAGGT
1 AAAGCAATAGCGACGTTTATGAAAAAACGCC-ATAAAAGGT
48599397 AAAGCAATAGCGACGTTT
1 AAAGCAATAGCGACGTTT
48599415 TGCCCATAAA
Statistics
Matches: 73, Mismatches: 24, Indels: 5
0.72 0.24 0.05
Matches are distributed among these distances:
40 29 0.40
41 44 0.60
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAGCAATAGCGACGTTTATGAAAAAACGCCATAAAAGGT
Found at i:48599423 original size:81 final size:82
Alignment explanation
Indices: 48599275--48599433 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 82
48599265 CGCAATAAGA
* * * *
48599275 AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGTAAAGCAGTAGTGACATTTTTCTCA
1 AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGTAAAGCAATAGCGACATTTTGCCCA
* *
48599340 TAATCGCTACAAAAGGT
66 TAAACGCCACAAAAGGT
* * * *
48599357 AAAGCAATAGCGGCGTTTATGA-AAAAACGCCGCT-AAAGGTAAAGCAATAGCGACGTTTTGCCC
1 AAAGCAATAACGACGTTTATGAGAAAAACGCC-ATAAAAGGTAAAGCAATAGCGACATTTTGCCC
48599420 ATAAACGCCACAAA
65 ATAAACGCCACAAA
48599434 TATCCTTTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
81 45 0.68
82 21 0.32
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (82 bp):
AAAGCAATAACGACGTTTATGAGAAAAACGCCATAAAAGGTAAAGCAATAGCGACATTTTGCCCA
TAAACGCCACAAAAGGT
Found at i:48599597 original size:25 final size:25
Alignment explanation
Indices: 48599563--48599625 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
48599553 TCCCCCAATG
* * * *
48599563 TCTGTTGCATCGCTGTCGATAATCC
1 TCTGCTGCATCGCCGTCAACAATCC
*
48599588 TCTGCTGCATCGCCGTCAACAGTCC
1 TCTGCTGCATCGCCGTCAACAATCC
48599613 TCTGCTGCATCGC
1 TCTGCTGCATCGC
48599626 AGTGTAAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.14, C:0.35, G:0.21, T:0.30
Consensus pattern (25 bp):
TCTGCTGCATCGCCGTCAACAATCC
Found at i:48599778 original size:2 final size:2
Alignment explanation
Indices: 48599771--48599843 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
48599761 ACAACGCAAA
48599771 AG AG AG AG AG AG 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 AG AG AG AG AG AG
48599813 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 A
48599844 CAAGCGAGAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48601174 original size:20 final size:20
Alignment explanation
Indices: 48601149--48601188 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48601139 GCAGTATTTC
*
48601149 TTGTTTTGTGCTGTCGGTGT
1 TTGTTTTGTGCTGTCAGTGT
48601169 TTGTTTTGTGCTGTCAGTGT
1 TTGTTTTGTGCTGTCAGTGT
48601189 GAAAGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.03, C:0.10, G:0.33, T:0.55
Consensus pattern (20 bp):
TTGTTTTGTGCTGTCAGTGT
Found at i:48603881 original size:42 final size:42
Alignment explanation
Indices: 48603829--48603943 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 42
48603819 ATCTGCTAAA
*
48603829 TTTAGTGGCGTTTTCTCACAAACGCCGCTATAA-AACATGATC
1 TTTAGCGGCGTTTTCTCACAAACGCCGCTA-AAGAACATGATC
* * * * * *
48603871 TTTAGCGGCGTTTTTATGAGAAGCGCCGCTAAAGACCATGCTC
1 TTTAGCGGCG-TTTTCTCACAAACGCCGCTAAAGAACATGATC
* *
48603914 TATAGCGGCATTTTCTCACATAAACGCCGC
1 TTTAGCGGCGTTTTCTCAC--AAACGCCGC
48603944 AAAATTTAGC
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 17 0.30
43 31 0.55
44 8 0.14
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCTCACAAACGCCGCTAAAGAACATGATC
Found at i:48605237 original size:21 final size:21
Alignment explanation
Indices: 48605213--48605252 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48605203 ACTCTTGGAA
*
48605213 GAGGAAGAGGAGGAGGAAGTG
1 GAGGAAGAAGAGGAGGAAGTG
48605234 GAGGAAGAAGAGGAGGAAG
1 GAGGAAGAAGAGGAGGAAG
48605253 AGTCGGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (21 bp):
GAGGAAGAAGAGGAGGAAGTG
Found at i:48605251 original size:12 final size:12
Alignment explanation
Indices: 48605216--48605253 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
48605206 CTTGGAAGAG
*
48605216 GAAGAGGAGGAG
1 GAAGAGGAGGAA
*
48605228 GAAGTGGAGGAA
1 GAAGAGGAGGAA
48605240 GAAGAGGAGGAA
1 GAAGAGGAGGAA
48605252 GA
1 GA
48605254 GTCGGAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.03
Consensus pattern (12 bp):
GAAGAGGAGGAA
Found at i:48616823 original size:26 final size:26
Alignment explanation
Indices: 48616780--48616833 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
48616770 GTAGTTTCAA
48616780 AATATCATAACATATATCAGTTTTAG
1 AATATCATAACATATATCAGTTTTAG
*
48616806 AATATCATAGCA-AGTATCAGTTTTAG
1 AATATCATAACATA-TATCAGTTTTAG
48616832 AA
1 AA
48616834 AACTTACAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (26 bp):
AATATCATAACATATATCAGTTTTAG
Found at i:48620347 original size:63 final size:63
Alignment explanation
Indices: 48620248--48620376 Score: 206
Period size: 63 Copynumber: 2.0 Consensus size: 63
48620238 CAACCTGATT
** *
48620248 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGTGCCTCATT-CTCGATGTGGTAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCACCTCATTCCT-GATGTGATAAGAA
*
48620311 TATAACTTAAATTTGGTAATTTAAACTCTATTAAGATGCACCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCACCTCATTCCTGATGTGATAAGAA
48620374 TAT
1 TAT
48620377 CTCCATGTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 59 0.97
64 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCACCTCATTCCTGATGTGATAAGAA
Found at i:48620764 original size:12 final size:12
Alignment explanation
Indices: 48620747--48620771 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48620737 TTATTTTGTG
48620747 TGTGTATATATA
1 TGTGTATATATA
48620759 TGTGTATATATA
1 TGTGTATATATA
48620771 T
1 T
48620772 ATCTAAAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTGTATATATA
Found at i:48622142 original size:46 final size:46
Alignment explanation
Indices: 48622064--48622183 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
48622054 ATAAGTGCAA
* * * *
48622064 CACTGATATGTAGCCGAAGCTTCCATTATTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
48622110 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
* *
48622156 CACTGAAACGTAGTCGAAGCTACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
48622184 ATCAATAACA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
Found at i:48622158 original size:23 final size:23
Alignment explanation
Indices: 48622064--48622185 Score: 165
Period size: 23 Copynumber: 5.3 Consensus size: 23
48622054 ATAAGTGCAA
*
48622064 CACTGATATGTAGCCGAAGCTTC
1 CACTGATATGTAGCCGAAGCTAC
*
48622087 CA-TTATTATGTAGCCGAAGCTAC
1 CACTGA-TATGTAGCCGAAGCTAC
*
48622110 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48622133 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
48622156 CACTGAAACGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48622179 CACTGAT
1 CACTGAT
48622186 CAATAACATT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
22 2 0.02
23 82 0.95
24 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48624169 original size:16 final size:16
Alignment explanation
Indices: 48624145--48624209 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
48624135 CTGATTGCAA
48624145 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
* * *
48624161 TTTTATTCCATTACAA
1 CTCTATTCCATTACAG
*
48624177 CTCTATTCCATTATAG
1 CTCTATTCCATTACAG
48624193 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
48624209 C
1 C
48624210 GAACCACACG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.42
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:48624180 original size:32 final size:32
Alignment explanation
Indices: 48624142--48624207 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
48624132 TTACTGATTG
* *
48624142 CAACTCTATTCCATTACAGTTTTATTCCATTA
1 CAACTCTATTCCATTACAGCTCTATTCCATTA
*
48624174 CAACTCTATTCCATTATAGCTCTATTCCATTA
1 CAACTCTATTCCATTACAGCTCTATTCCATTA
48624206 CA
1 CA
48624208 GCGAACCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (32 bp):
CAACTCTATTCCATTACAGCTCTATTCCATTA
Found at i:48632936 original size:25 final size:26
Alignment explanation
Indices: 48632863--48632925 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
48632853 ATACATGTAT
*
48632863 GCTCATACGAGC--AATAAACGGTAA
1 GCTCATACGAGCTGAATAATCGGTAA
* *
48632887 GCTCCTTCGAGCTGAATAAT-GGTAA
1 GCTCATACGAGCTGAATAATCGGTAA
48632912 GCTCATACGAGCTG
1 GCTCATACGAGCTG
48632926 GGTATCGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 10 0.31
25 17 0.53
26 5 0.16
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (26 bp):
GCTCATACGAGCTGAATAATCGGTAA
Found at i:48642040 original size:70 final size:70
Alignment explanation
Indices: 48641819--48642171 Score: 193
Period size: 70 Copynumber: 5.1 Consensus size: 70
48641809 GCTCCAACAC
* * ** * *
48641819 AGCTAGCAGACCTACGCTCCTAATTGATGTTATAAAGTTTTGTCGGTTTACA-ATTGCAACCTCC
1 AGCTAGCGGACCTACGCTCCCAGCTGATGTTATAAAGGTTTGTCAGTTTA-AGATTGCAACCTCC
48641883 AAAAAT
65 AAAAAT
* * * * * * * * * * *
48641889 AGCTAGTGGACCTACACTCCCAACT-A-GTAATCTAAGAGCTCGT-AGAGTTAAGCTCGC-AGCT
1 AGCTAGCGGACCTACGCTCCCAGCTGATGTTAT-AAAG-GTTTGTCAG-TTTAAGATTGCAACCT
* *
48641950 CC-AACAC
63 CCAAAAAT
* * * * * *
48641957 AGCTAGTGAACCTACACTCCTAGCTGATGTTATAAAGGTTTGTCAGTTTATGGTTGCAACCTCCA
1 AGCTAGCGGACCTACGCTCCCAGCTGATGTTATAAAGGTTTGTCAGTTTAAGATTGCAACCTCCA
48642022 AAAAT
66 AAAAT
* * * * * * * * *
48642027 AGCTAGCGGACCTACGCTCCCAGTTGGTATTCTAAAAGCTTGT-AGAGTTAAGCTTGC-AGCT-C
1 AGCTAGCGGACCTACGCTCCCAGCTGATGTTATAAAGGTTTGTCAG-TTTAAGATTGCAACCTCC
** * *
48642089 TTACAC
65 AAAAAT
* * * * * * *
48642095 AGGTAGCGGACCTATGCTCCCAGCTGATGTTATAAAGGTTTGCCAGTTTATGATCGTAACCTACA
1 AGCTAGCGGACCTACGCTCCCAGCTGATGTTATAAAGGTTTGTCAGTTTAAGATTGCAACCTCCA
48642160 AAAAT
66 AAAAT
48642165 AGCTAGC
1 AGCTAGC
48642172 CGAGCTGATA
Statistics
Matches: 201, Mismatches: 69, Indels: 26
0.68 0.23 0.09
Matches are distributed among these distances:
68 83 0.41
69 32 0.16
70 86 0.43
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (70 bp):
AGCTAGCGGACCTACGCTCCCAGCTGATGTTATAAAGGTTTGTCAGTTTAAGATTGCAACCTCCA
AAAAT
Found at i:48642061 original size:138 final size:137
Alignment explanation
Indices: 48641801--48642171 Score: 463
Period size: 138 Copynumber: 2.7 Consensus size: 137
48641791 GTATTCTAAG
* ** * *
48641801 AGCTCGCAGCTCCAACACAGCTAGCAGACCTACGCTCCTAATTGATGTTATAAAGTTTTGTCGGT
1 AGCTCGCAGCTCCAACACAGCTAGGA-ACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGT
** * *
48641866 TTACAATTGCAACCTCCAAAAATAGCTAGTGGACCTACACTCCCAACTAGTAATCTAAGAGCTCG
65 TTATGATTGCAACCTCCAAAAATAGCTAGCGGACCTACACTCCCAACTAGTAATCTAAAAGCTCG
48641931 TAGAGTTA
130 TAGAGTTA
*
48641939 AGCTCGCAGCTCCAACACAGCTAGTGAACCTACACTCCTAGCTGATGTTATAAAGGTTTGTCAGT
1 AGCTCGCAGCTCCAACACAGCTAG-GAACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGT
* * ** * * *
48642004 TTATGGTTGCAACCTCCAAAAATAGCTAGCGGACCTACGCTCCCAGTTGGTATTCTAAAAGCTTG
65 TTATGATTGCAACCTCCAAAAATAGCTAGCGGACCTACACTCCCAACTAGTAATCTAAAAGCTCG
48642069 TAGAGTTA
130 TAGAGTTA
* ** * * * * *
48642077 AGCTTGCAGCTCTTACACAGGTAGCGGACCTATGCTCCCAGCTGATGTTATAAAGGTTTGCCAGT
1 AGCTCGCAGCTCCAACACAGCTAG-GAACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGT
* * *
48642142 TTATGATCGTAACCTACAAAAATAGCTAGC
65 TTATGATTGCAACCTCCAAAAATAGCTAGC
48642172 CGAGCTGATA
Statistics
Matches: 201, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
138 200 1.00
139 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (137 bp):
AGCTCGCAGCTCCAACACAGCTAGGAACCTACGCTCCTAGCTGATGTTATAAAGGTTTGTCAGTT
TATGATTGCAACCTCCAAAAATAGCTAGCGGACCTACACTCCCAACTAGTAATCTAAAAGCTCGT
AGAGTTA
Found at i:48642376 original size:17 final size:17
Alignment explanation
Indices: 48642354--48642479 Score: 128
Period size: 17 Copynumber: 7.4 Consensus size: 17
48642344 AAATCCACCC
* *
48642354 AAGTTCAGAACTTGCTT
1 AAGTTCAAAATTTGCTT
* *
48642371 AAGTTCAAAATATCCTT
1 AAGTTCAAAATTTGCTT
48642388 AAGTTCAAAATTTGCTT
1 AAGTTCAAAATTTGCTT
* *
48642405 GAGTCCAAAATTTG-TT
1 AAGTTCAAAATTTGCTT
48642421 GAAAGTTCAAAATTTGCTT
1 --AAGTTCAAAATTTGCTT
* *
48642440 AAGTTCAAGATTTGATT
1 AAGTTCAAAATTTGCTT
* *
48642457 AAATTCAAAAATTGCTT
1 AAGTTCAAAATTTGCTT
*
48642474 GAGTTC
1 AAGTTC
48642480 GTAGAAAGAT
Statistics
Matches: 88, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
16 2 0.02
17 72 0.82
18 12 0.14
19 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (17 bp):
AAGTTCAAAATTTGCTT
Found at i:48642434 original size:35 final size:35
Alignment explanation
Indices: 48642388--48642477 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 35
48642378 AAATATCCTT
48642388 AAGTTCAAAATTTGCTTGAGTCCAAAATTTG-TTGA
1 AAGTTCAAAATTTGCTTGAGTCCAAAATTTGATT-A
* * *
48642423 AAGTTCAAAATTTGCTTAAGTTCAAGATTTGATTA
1 AAGTTCAAAATTTGCTTGAGTCCAAAATTTGATTA
*
48642458 AA-TTCAAAAATTGCTTGAGT
1 AAGTTCAAAATTTGCTTGAGT
48642478 TCGTAGAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 16 0.33
35 31 0.63
36 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (35 bp):
AAGTTCAAAATTTGCTTGAGTCCAAAATTTGATTA
Found at i:48642466 original size:52 final size:53
Alignment explanation
Indices: 48642371--48642475 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
48642361 GAACTTGCTT
* * * *
48642371 AAGTTCAAAATATCCTTAAGTTCAAAATTTGCTTGAGTCCAAAATTTG-TTGA
1 AAGTTCAAAATATCCTTAAGTTCAAAATTTGATTAAATCCAAAAATTGCTTGA
* * * *
48642423 AAGTTCAAAATTTGCTTAAGTTCAAGATTTGATTAAATTCAAAAATTGCTTGA
1 AAGTTCAAAATATCCTTAAGTTCAAAATTTGATTAAATCCAAAAATTGCTTGA
48642476 GTTCGTAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 40 0.91
53 4 0.09
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (53 bp):
AAGTTCAAAATATCCTTAAGTTCAAAATTTGATTAAATCCAAAAATTGCTTGA
Found at i:48647536 original size:24 final size:24
Alignment explanation
Indices: 48647504--48647553 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
48647494 CATGTGTAAA
48647504 TGAGATATATGTAATTGCAAAAAC
1 TGAGATATATGTAATTGCAAAAAC
48647528 TGAGATATATGTAATTGCAAAAAC
1 TGAGATATATGTAATTGCAAAAAC
48647552 TG
1 TG
48647554 TTAAAGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (24 bp):
TGAGATATATGTAATTGCAAAAAC
Found at i:48648423 original size:27 final size:27
Alignment explanation
Indices: 48648385--48648440 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
48648375 CTTCTAGGTT
48648385 TAGACAAACACAACAAAAGAGTACACC
1 TAGACAAACACAACAAAAGAGTACACC
48648412 TAGACAAACACAACAAAAGAGTACACC
1 TAGACAAACACAACAAAAGAGTACACC
48648439 TA
1 TA
48648441 AGCACGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.55, C:0.25, G:0.11, T:0.09
Consensus pattern (27 bp):
TAGACAAACACAACAAAAGAGTACACC
Found at i:48648771 original size:20 final size:20
Alignment explanation
Indices: 48648734--48648772 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48648724 GTCTTCTCAT
*
48648734 ATGTTTTAGAGACTTTTGGG
1 ATGTTTTAGAGACCTTTGGG
48648754 ATGTTTTAG-GAACCTTTGG
1 ATGTTTTAGAG-ACCTTTGG
48648773 ACTCTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.21, C:0.08, G:0.28, T:0.44
Consensus pattern (20 bp):
ATGTTTTAGAGACCTTTGGG
Found at i:48652969 original size:27 final size:27
Alignment explanation
Indices: 48652925--48653178 Score: 232
Period size: 27 Copynumber: 9.4 Consensus size: 27
48652915 AGCGATTCGT
* *
48652925 GGGTAAAATGATCGAAATACCTTTGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
48652952 GGGTAAAATGA-CAAAAATACCCCCGAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
* * *
48652979 GAGTAAAATGATCGAAATATCCTTGGAA
1 GGGTAAAATGATCGAAATA-CCCTCGAA
* * *
48653007 GAGTAAAATGACCGAAATACCCTCAAA
1 GGGTAAAATGATCGAAATACCCTCGAA
48653034 GGGTAAAATGA-CTGAAATA-CCTCGAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
* *
48653060 GGATAAAATGATCGAAATACCCTTGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* * *
48653087 GGGTAAAATAAACGAAATACCCTCGGA
1 GGGTAAAATGATCGAAATACCCTCGAA
* * *
48653114 GGGTATAGTGACCGAAATAACCC-CGAA
1 GGGTAAAATGATCGAAAT-ACCCTCGAA
* *
48653141 GGGTAAAAT-AACTGAAATACCC-CCATA
1 GGGTAAAATGATC-GAAATACCCTCGA-A
48653168 GGGTAAAATGA
1 GGGTAAAATGA
48653179 CTATTATACC
Statistics
Matches: 186, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
26 32 0.17
27 125 0.67
28 29 0.16
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.19
Consensus pattern (27 bp):
GGGTAAAATGATCGAAATACCCTCGAA
Found at i:48653392 original size:27 final size:26
Alignment explanation
Indices: 48653362--48653420 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
48653352 GTACTGGTGG
48653362 CTTTGCCAC-ATATACTGTTACTGGCAA
1 CTTTGCCACGAT-T-CTGTTACTGGCAA
** *
48653389 CTTTGCTGCGATTCTGTTACTGGCAG
1 CTTTGCCACGATTCTGTTACTGGCAA
48653415 CTTTGC
1 CTTTGC
48653421 TGCGATATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 18 0.64
27 8 0.29
28 2 0.07
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
CTTTGCCACGATTCTGTTACTGGCAA
Found at i:48653412 original size:26 final size:26
Alignment explanation
Indices: 48653376--48653426 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
48653366 GCCACATATA
48653376 CTGTTACTGGCAACTTTGCTGCGATT
1 CTGTTACTGGCAACTTTGCTGCGATT
*
48653402 CTGTTACTGGCAGCTTTGCTGCGAT
1 CTGTTACTGGCAACTTTGCTGCGAT
48653427 ATTGGTGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.37
Consensus pattern (26 bp):
CTGTTACTGGCAACTTTGCTGCGATT
Found at i:48659546 original size:15 final size:15
Alignment explanation
Indices: 48659526--48659554 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48659516 ATGATGAAGT
48659526 AAGAGAAATAGATCA
1 AAGAGAAATAGATCA
48659541 AAGAGAAATAGATC
1 AAGAGAAATAGATC
48659555 GCATTCGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.14
Consensus pattern (15 bp):
AAGAGAAATAGATCA
Found at i:48660729 original size:48 final size:50
Alignment explanation
Indices: 48660671--48660774 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 50
48660661 CTGCATCAAT
*
48660671 TAAATATTTATATTAGCACT-AATTAAATTAAAATAAT-AAA-ATTAATAA
1 TAAATATTTATATTAGCACTAAATT-AATTAAAATAATAAAAGATAAATAA
* * * * **
48660719 TAAATGTTTATTTTATCTCTAAATTAATTAATTTAATAAAAGATAAATAA
1 TAAATATTTATATTAGCACTAAATTAATTAAAATAATAAAAGATAAATAA
48660769 TAAATA
1 TAAATA
48660775 AAAGAGTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
48 26 0.58
49 7 0.16
50 12 0.27
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (50 bp):
TAAATATTTATATTAGCACTAAATTAATTAAAATAATAAAAGATAAATAA
Found at i:48665329 original size:6 final size:6
Alignment explanation
Indices: 48665318--48665364 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
48665308 ATTATCGGTA
48665318 AATCCT AATCCT AATCCT AATCCT AATCCT AATCCT AATCCT AATCC
1 AATCCT AATCCT AATCCT AATCCT AATCCT AATCCT AATCCT AATCC
48665365 ATATCCATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (6 bp):
AATCCT
Found at i:48667414 original size:12 final size:12
Alignment explanation
Indices: 48667397--48667422 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48667387 ACAAAGGTAC
48667397 TTGTCTCAGGGT
1 TTGTCTCAGGGT
48667409 TTGTCTCAGGGT
1 TTGTCTCAGGGT
48667421 TT
1 TT
48667423 TTCCCACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTGTCTCAGGGT
Found at i:48671624 original size:10 final size:10
Alignment explanation
Indices: 48671580--48671646 Score: 62
Period size: 10 Copynumber: 6.5 Consensus size: 10
48671570 TAAAAATATT
*
48671580 TTTTTTATAA
1 TTTTTTAAAA
*
48671590 TTCTTTAATAA
1 TTTTTTAA-AA
** *
48671601 TAATTTAATA
1 TTTTTTAAAA
*
48671611 TTTTTTAAAC
1 TTTTTTAAAA
48671621 TTTTTTAATAA
1 TTTTTTAA-AA
48671632 TTTTTTAAAA
1 TTTTTTAAAA
48671642 TTTTT
1 TTTTT
48671647 ATATATAGAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
10 28 0.62
11 17 0.38
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:48671628 original size:31 final size:31
Alignment explanation
Indices: 48671580--48671651 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
48671570 TAAAAATATT
*
48671580 TTTTTTATAATTCTTTAATAATAATTTAATA
1 TTTTTTATAATTCTTTAATAATAATTTAAAA
* **
48671611 TTTTTTA-AACTTTTTTAATAATTTTTTAAAA
1 TTTTTTATAA-TTCTTTAATAATAATTTAAAA
48671642 TTTTTATATA
1 TTTTT-TATA
48671652 TAGACTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.85
32 2 0.06
33 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTATAATTCTTTAATAATAATTTAAAA
Found at i:48671634 original size:21 final size:20
Alignment explanation
Indices: 48671604--48671646 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
48671594 TTAATAATAA
*
48671604 TTTAATATTTTTTAAACTTT
1 TTTAATATTTTTTAAAATTT
48671624 TTTAATAATTTTTTAAAATTT
1 TTTAAT-ATTTTTTAAAATTT
48671645 TT
1 TT
48671647 ATATATAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAATATTTTTTAAAATTT
Found at i:48671635 original size:11 final size:11
Alignment explanation
Indices: 48671574--48671646 Score: 71
Period size: 11 Copynumber: 6.9 Consensus size: 11
48671564 AAAATTTAAA
*
48671574 AATATTTTTTT
1 AATAATTTTTT
* *
48671585 TATAATTCTTT
1 AATAATTTTTT
**
48671596 AATAATAATTT
1 AATAATTTTTT
48671607 AAT-ATTTTTT
1 AATAATTTTTT
*
48671617 AA-ACTTTTTT
1 AATAATTTTTT
48671627 AATAATTTTTT
1 AATAATTTTTT
48671638 AA-AATTTTT
1 AATAATTTTT
48671647 ATATATAGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
10 22 0.44
11 28 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
AATAATTTTTT
Found at i:48675201 original size:13 final size:13
Alignment explanation
Indices: 48675183--48675210 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48675173 TGCAAATCAG
48675183 TTTTGAGTGACTA
1 TTTTGAGTGACTA
48675196 TTTTGAGTGACTA
1 TTTTGAGTGACTA
48675209 TT
1 TT
48675211 GTAATGGTTA
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:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (13 bp):
TTTTGAGTGACTA
Found at i:48675445 original size:18 final size:18
Alignment explanation
Indices: 48675422--48675456 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
48675412 ATTGGTTAAA
48675422 ATAAAAATAATTAAATTC
1 ATAAAAATAATTAAATTC
48675440 ATAAAAATAATTAAATT
1 ATAAAAATAATTAAATT
48675457 ATATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAAATAATTAAATTC
Found at i:48675455 original size:26 final size:26
Alignment explanation
Indices: 48675419--48675493 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 26
48675409 AGCATTGGTT
*
48675419 AAAATAA--AAATAATTA-AATTCATA
1 AAAATAATTAAATAA-TATAATTAATA
* * *
48675443 AAAATAATTAAATTATATATTTAATT
1 AAAATAATTAAATAATATAATTAATA
* *
48675469 AAAATAATTAAATTATATATTTAAT
1 AAAATAATTAAATAATATAATTAAT
48675494 TATTAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.16
25 2 0.05
26 35 0.80
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAATAATTAAATAATATAATTAATA
Found at i:48675466 original size:13 final size:12
Alignment explanation
Indices: 48675453--48675496 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
48675443 AAAATAATTA
48675453 AATTATATATTT
1 AATTATATATTT
* *
48675465 AATTAAAATAATTA
1 AATT-ATAT-ATTT
48675479 AATTATATATTT
1 AATTATATATTT
48675491 AATTAT
1 AATTAT
48675497 TAAATATCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 13 0.50
13 6 0.23
14 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTATATATTT
Found at i:48675494 original size:26 final size:26
Alignment explanation
Indices: 48675443--48675495 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48675433 TAAATTCATA
48675443 AAAATAATTAAATTATATATTTAATT
1 AAAATAATTAAATTATATATTTAATT
48675469 AAAATAATTAAATTATATATTTAATT
1 AAAATAATTAAATTATATATTTAATT
48675495 A
1 A
48675496 TTAAATATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAATAATTAAATTATATATTTAATT
Found at i:48675618 original size:138 final size:138
Alignment explanation
Indices: 48675469--48675742 Score: 487
Period size: 138 Copynumber: 2.0 Consensus size: 138
48675459 ATATTTAATT
*
48675469 AAAATAATTAAA-TTATATATTTAATTATTAAATATCGTTTAATAATTACAAAGTCTTCAGTTTT
1 AAAATAATTAAATTTATA-ATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTT
* * *
48675533 AATTAAAAAAATATTGTTTTAATTAACTGTAATGAATATTAATAATAAATATGGAAACAACAAAA
65 AATTAAAAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAAAAAAA
48675598 TTTGAAATG
130 TTTGAAATG
48675607 AAAATAATTAAATTTATAATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTTA
1 AAAATAATTAAATTTATAATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTTA
*
48675672 ATTAACAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAAAAAAAT
66 ATTAAAAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAAAAAAAT
48675737 TTGAAA
131 TTGAAA
48675743 AAAATCTAAA
Statistics
Matches: 130, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
138 125 0.96
139 5 0.04
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.38
Consensus pattern (138 bp):
AAAATAATTAAATTTATAATTTAATTATTAAATACCGTTTAATAATTACAAAGTCTTCAGTTTTA
ATTAAAAAAATATTGTTTTAATTAAATGTAATGAATATTAATAATAAATAGGGAAACAAAAAAAT
TTGAAATG
Found at i:48677758 original size:49 final size:48
Alignment explanation
Indices: 48677685--48677787 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 48
48677675 TCATGTGTTA
* * *
48677685 TAATTTTATAAAGTGTTGAGCTTTT-GATCCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTAG-TCCATGATATTAAACTTAA-TT
*
48677734 TAATTTTATAAAGTGTTCACCTTTTAGTTCATGATATTAAACTTAATT
1 TAATTTTATAAAGTGTTCACCTTTTAGTCCATGATATTAAACTTAATT
48677782 TAATTT
1 TAATTT
48677788 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
48 8 0.16
49 40 0.82
50 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (48 bp):
TAATTTTATAAAGTGTTCACCTTTTAGTCCATGATATTAAACTTAATT
Found at i:48679272 original size:28 final size:27
Alignment explanation
Indices: 48679223--48679298 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 27
48679213 TTCATATAAG
* *
48679223 AATAATTA-TATTGAATTTTATTAAAT
1 AATAATTATTATTAAATTATATTAAAT
* * * *
48679249 TATATGTTTTTATTAAATTATATTTAAT
1 AATA-ATTATTATTAAATTATATTAAAT
48679277 AATAATTATT-TTAAATTATATT
1 AATAATTATTATTAAATTATATT
48679299 TTATAGTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 15 0.38
27 6 0.15
28 18 0.46
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
AATAATTATTATTAAATTATATTAAAT
Found at i:48679364 original size:15 final size:16
Alignment explanation
Indices: 48679336--48679365 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48679326 TAAATTCATG
48679336 TAAGAATATTTAATAT
1 TAAGAATATTTAATAT
48679352 TAAGAAT-TTTAATA
1 TAAGAATATTTAATA
48679366 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (16 bp):
TAAGAATATTTAATAT
Found at i:48679411 original size:26 final size:28
Alignment explanation
Indices: 48679381--48679437 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
48679371 TATATTTTTA
48679381 TTAAATTATATTTAATA-ATAA-ATATT
1 TTAAATTATATTTAATAGATAATATATT
*
48679407 TTAAATTATATTTTATAGTATAATATATT
1 TTAAATTATATTTAATAG-ATAATATATT
48679436 TT
1 TT
48679438 GATTTTAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 16 0.59
28 4 0.15
29 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
TTAAATTATATTTAATAGATAATATATT
Found at i:48679619 original size:17 final size:17
Alignment explanation
Indices: 48679597--48679630 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48679587 AATATTAAGA
48679597 ATTTTATTAAATCATAT
1 ATTTTATTAAATCATAT
*
48679614 ATTTTATTAAATTATAT
1 ATTTTATTAAATCATAT
48679631 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATTAAATCATAT
Found at i:48679649 original size:26 final size:25
Alignment explanation
Indices: 48679620--48679669 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
48679610 ATATATTTTA
48679620 TTAAATTATATTTAATAATTATTATT
1 TTAAATTATATTTAAT-ATTATTATT
*
48679646 TTAAATTATATTTTATATTATTAT
1 TTAAATTATATTTAATATTATTAT
48679670 ATATTATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAAATTATATTTAATATTATTATT
Found at i:48679688 original size:119 final size:120
Alignment explanation
Indices: 48679175--48679889 Score: 1253
Period size: 120 Copynumber: 6.0 Consensus size: 120
48679165 TAGATTATAT
* *
48679175 ATTAT-TTTTATAGTATTATATATTGTGATTTTAGTAAATTCATATAAGAATAATT-ATATT--G
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
48679236 AATTTTATTAAATTATATGTTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
48679291 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATGTAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
48679356 AATTTTAATAAATTATATATTTTTATTAAATTATATTTAATAATAAATATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
* *
48679411 ATTATATTTTATAGTATAATATATTTTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
48679476 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAAATATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
48679531 ATTATATTTTATAGTATTATATATTTTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
48679596 AATTTTATTAAATCATATA-TTTTATTAAATTATATTTAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
48679650 ATTATATTTTATATTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
48679715 AATTTTA-TAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
48679769 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
48679834 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
48679889 A
1 A
48679890 ATATGATTAA
Statistics
Matches: 573, Mismatches: 20, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
116 5 0.01
117 47 0.08
118 15 0.03
119 209 0.36
120 297 0.52
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:48679793 original size:7 final size:7
Alignment explanation
Indices: 48679624--48679795 Score: 51
Period size: 7 Copynumber: 24.7 Consensus size: 7
48679614 ATTTTATTAA
48679624 ATTATAT
1 ATTATAT
48679631 -TTA-AT
1 ATTATAT
48679636 AATTAT-T
1 -ATTATAT
* *
48679643 ATTTTAA
1 ATTATAT
48679650 ATTATAT
1 ATTATAT
*
48679657 TTTATATT
1 ATTATA-T
48679665 ATTATAT
1 ATTATAT
48679672 ATTATGAT
1 ATTAT-AT
* *
48679680 TTTAGTAA
1 ATTA-TAT
48679688 ATTCATAT
1 ATT-ATAT
**
48679696 AAGA-AT
1 ATTATAT
48679702 ATT-TAAT
1 ATTAT-AT
*
48679709 ATTAAGAAT
1 ATT-A-TAT
* *
48679718 TTTATAA
1 ATTATAT
48679725 ATTATAT
1 ATTATAT
*
48679732 ATT-TTT
1 ATTATAT
48679738 ATTA-A-
1 ATTATAT
48679743 ATTATAT
1 ATTATAT
48679750 -TTA-AT
1 ATTATAT
48679755 AATTAT-T
1 -ATTATAT
* *
48679762 ATTTTAA
1 ATTATAT
48679769 ATTATAT
1 ATTATAT
*
48679776 TTTATAGT
1 ATTATA-T
48679784 ATTATAT
1 ATTATAT
48679791 ATTAT
1 ATTAT
48679796 GATTTTAGTA
Statistics
Matches: 116, Mismatches: 28, Indels: 42
0.62 0.15 0.23
Matches are distributed among these distances:
5 8 0.07
6 23 0.20
7 55 0.47
8 24 0.21
9 6 0.05
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (7 bp):
ATTATAT
Found at i:48680152 original size:16 final size:16
Alignment explanation
Indices: 48680106--48680153 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
48680096 CTATTACGCA
* *
48680106 TCTATTTCATTACACC
1 TCTATTCCATTACAGC
*
48680122 TCTATTCCATTACAGT
1 TCTATTCCATTACAGC
48680138 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
48680154 GAACCAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.42
Consensus pattern (16 bp):
TCTATTCCATTACAGC
Found at i:48680682 original size:20 final size:20
Alignment explanation
Indices: 48680659--48680739 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
48680649 TATTTTTCTG
48680659 TTTAAAAAATATAAAAAAAT
1 TTTAAAAAATATAAAAAAAT
* ** *
48680679 TTTAAAATAAGA-GCAAAATT
1 TTTAAAA-AATATAAAAAAAT
48680699 TTTAAAAAAATTATAAAAAAA-
1 TTT-AAAAAA-TATAAAAAAAT
* *
48680720 TTCATAAAAATCTAAAAAAA
1 TTTA-AAAAATATAAAAAAA
48680740 CTAAAAAATC
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
20 27 0.59
21 15 0.33
22 4 0.09
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
TTTAAAAAATATAAAAAAAT
Found at i:48684607 original size:44 final size:44
Alignment explanation
Indices: 48684544--48684634 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
48684534 ATATGTCAAA
*
48684544 TAATATTAAAATAACCTACATTAATCAAAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAAC
* * *
48684588 TAATATTAAAATAATCTACACTGATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAAC
48684632 TAA
1 TAA
48684635 AAACATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAAC
Found at i:48687405 original size:114 final size:113
Alignment explanation
Indices: 48686940--48687502 Score: 414
Period size: 114 Copynumber: 4.9 Consensus size: 113
48686930 AAAAATGTTA
* * * * *
48686940 ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTAGTT-AAAAACGCCG
1 ACCAAAACGCAG-AGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTA-TTGGAAAACGCCG
** * * *
48687003 CTAAAGTATAAAATTAGCGGCGATTTTCTAGAATCACCGCAAGATATGCAC
64 CTAAAGTATATTATTAGCGGCGCTTTT-TAGAAGCGCCGCAAGATATGCAC
* * * **
48687054 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCGT-TTGGAGAAGTGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTATTGGA-AAACGCCGC
** * * *
48687118 TAAAG-AGTATTATTAGCGGCGCATTTGGAGAAGCGCCGCTATAT-TTCTTA-
65 TAAAGTA-TATTATTAGCGGCGC-TTTTTAGAAGCGCCGCAAGATATGC--AC
* * * * * ****
48687168 ACCAAAACTCA-ACGTTTTGGTCTTGATGTATAATATAATTCGTGGCACTTACAATAAAACGCCG
1 ACCAAAACGCAGA-G-TTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTATTGGAAAACGCCG
* * *
48687232 CTAAA-TATCAGTATTAGCGGCGC-TTTCAGTTAAGTGCCGCAAGATATGCAC
64 CTAAAGTAT-ATTATTAGCGGCGCTTTTTAG--AAGCGCCGCAAGATATGCAC
* * *
48687283 ACCAAAACGCAGAGTTTGGTATTAAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTATTGGAAAACGCCGCT
* **
48687348 AAAGTATACTATTAGCGGCGCTTTATTAGAAGCGCCGCAAGATATATTA-
66 AAAGTATATTATTAGCGGCGCTTT-TTAGAAGCGCCGCAAGATAT-GCAC
* * * ** * * * * *
48687397 ACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCG-TTCA-CGAGAAATCGCC
1 ACCAAAACGCAGAGTTT-GGTCTTGAGGTATAATAGAATTAGTGGCGCTT-ATTG-GAAAACGCC
*
48687460 GCTAAA-TCATATTATTAGCGGCGCTTTTTTATAAGCGCCGCAA
63 GCTAAAGT-ATATTATTAGCGGCGC-TTTTTAGAAGCGCCGCAA
48687503 AAGATCTTTA
Statistics
Matches: 351, Mismatches: 72, Indels: 51
0.74 0.15 0.11
Matches are distributed among these distances:
112 2 0.01
113 37 0.11
114 151 0.43
115 151 0.43
116 10 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (113 bp):
ACCAAAACGCAGAGTTTGGTCTTGAGGTATAATAGAATTAGTGGCGCTTATTGGAAAACGCCGCT
AAAGTATATTATTAGCGGCGCTTTTTAGAAGCGCCGCAAGATATGCAC
Found at i:48687502 original size:229 final size:228
Alignment explanation
Indices: 48686937--48687502 Score: 565
Period size: 229 Copynumber: 2.5 Consensus size: 228
48686927 TCAAAAAATG
* ** * * * **
48686937 TTAACCAAAACGCAGCGGTTT-GGTCTCGATGTATAATACAATTAGTGGC-GTTAGTTA-AAAAC
1 TTAACCAAAACGCAAC-GTTTAAATCTTGATGTATAATAGAATTAGTGGCACTTA-CAAGAAAAC
* * * * *
48686999 GCCGCTAAAGTATAAAATTAGCGGCGATTTTCTAGAATCACCGCAAGATATGCACACCAAAACGC
64 GCCGCTAAA-TATAATATTAGCGGCGCTTTTCTATAAGCGCCGCAAGATATGCACACCAAAACGC
* * * ** *
48687064 AGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCGTTTGGAGAAGTGCCGCTAAAGAGTATT
128 AGAGTTTGGTATTAAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAACGCCGCTAAAGAGTACT
* * * *
48687129 ATTAGCGGCGCATTTGGAGAAGCGCCGCTATATTTC
193 ATTAGCGGCGCATTTGGAGAAGCGCCGCAAGATATA
* *** * * *
48687165 TTAACCAAAACTCAACGTTTTGGTCTTGATGTATAATATAATTCGTGGCACTTACAATAAAACGC
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCACTTACAAGAAAACGC
* *
48687230 CGCTAAATATCAGTATTAGCGGCGC-TTTC-AGTTAAGTGCCGCAAGATATGCACACCAAAACGC
66 CGCTAAATAT-AATATTAGCGGCGCTTTTCTA--TAAGCGCCGCAAGATATGCACACCAAAACGC
*
48687293 AGAGTTTGGTATTAAGGTATATTAGAATTAGTGGCGCTTATTGGA-AAACGCCGCTAAAGTA-TA
128 AGAGTTTGGTATTAAGGTATATTAGAATTAGTGGCGCGT-TTGGAGAAACGCCGCTAAAG-AGTA
**
48687356 CTATTAGCGGCGC-TTTATTAGAAGCGCCGCAAGATATA
191 CTATTAGCGGCGCATTT-GGAGAAGCGCCGCAAGATATA
* ** * * * * *
48687394 TTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGC-GTTCACGAGAAATCG
1 TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCACTT-ACAAGAAAACG
* *
48687458 CCGCTAAATCATATTATTAGCGGCGCTTTTTTATAAGCGCCGCAA
65 CCGCTAAAT-ATAATATTAGCGGCGCTTTTCTATAAGCGCCGCAA
48687503 AAGATCTTTA
Statistics
Matches: 279, Mismatches: 46, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
227 5 0.02
228 52 0.19
229 210 0.75
230 11 0.04
231 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (228 bp):
TTAACCAAAACGCAACGTTTAAATCTTGATGTATAATAGAATTAGTGGCACTTACAAGAAAACGC
CGCTAAATATAATATTAGCGGCGCTTTTCTATAAGCGCCGCAAGATATGCACACCAAAACGCAGA
GTTTGGTATTAAGGTATATTAGAATTAGTGGCGCGTTTGGAGAAACGCCGCTAAAGAGTACTATT
AGCGGCGCATTTGGAGAAGCGCCGCAAGATATA
Found at i:48687864 original size:7 final size:7
Alignment explanation
Indices: 48687852--48687899 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
48687842 GTGTTTTGGA
48687852 TTTAGGG
1 TTTAGGG
48687859 TTTAGGAG
1 TTTAGG-G
*
48687867 TTTGGGG
1 TTTAGGG
* *
48687874 TTTAAGA
1 TTTAGGG
48687881 TTTAGGG
1 TTTAGGG
*
48687888 TTTGGGG
1 TTTAGGG
48687895 TTTAG
1 TTTAG
48687900 ACAGCTTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:48687876 original size:15 final size:14
Alignment explanation
Indices: 48687850--48687890 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
48687840 TGGTGTTTTG
*
48687850 GATTTAGGGTTTAG
1 GATTTAGGGTTTAA
*
48687864 GAGTTTGGGGTTTAA
1 GA-TTTAGGGTTTAA
48687879 GATTTAGGGTTT
1 GATTTAGGGTTT
48687891 GGGGTTTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
GATTTAGGGTTTAA
Found at i:48688303 original size:14 final size:17
Alignment explanation
Indices: 48688269--48688304 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
48688259 TATAATACAT
48688269 TAATTGAATAATATAAA
1 TAATTGAATAATATAAA
48688286 TAATT-AATAAT-T-AA
1 TAATTGAATAATATAAA
48688300 TAATT
1 TAATT
48688305 TTAAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 6 0.32
17 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAATTGAATAATATAAA
Found at i:48689133 original size:44 final size:44
Alignment explanation
Indices: 48689070--48689156 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
48689060 TCTTGCGTCC
* *
48689070 TTCTTGGCCAATTTCTTGAATTCAC-AAATCCGTAAATCGCCTCA
1 TTCTTGGCCAATTTCTTGAAATC-CGAAATCCCTAAATCGCCTCA
48689114 TTCTT-GCCGAATTTCTTGAAATCCGAAATCCCTAAATCGCCTC
1 TTCTTGGCC-AATTTCTTGAAATCCGAAATCCCTAAATCGCCTC
48689157 CTTCCTCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 4 0.10
44 35 0.90
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (44 bp):
TTCTTGGCCAATTTCTTGAAATCCGAAATCCCTAAATCGCCTCA
Found at i:48690883 original size:35 final size:35
Alignment explanation
Indices: 48690796--48690876 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
48690786 TAAAGTTATA
* *
48690796 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
48690831 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTGAATCACGAATAT
48690866 TTTTAAATATT
1 TTTTAAATATT
48690877 AAATTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTGAATCACGAATAT
Found at i:48690926 original size:18 final size:17
Alignment explanation
Indices: 48690895--48690950 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
48690885 TTAAAGTTCA
48690895 AATTTCATAACTTACGT
1 AATTTCATAACTTACGT
* *
48690912 AATTTACATATCTTACAT
1 AATTT-CATAACTTACGT
48690930 AA-TTCATAACTTACGT
1 AATTTCATAACTTACGT
48690946 AATTT
1 AATTT
48690951 AAATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.36
17 9 0.27
18 12 0.36
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACGT
Found at i:48690970 original size:29 final size:33
Alignment explanation
Indices: 48690900--48690972 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
48690890 GTTCAAATTT
*
48690900 CATAACTTACGTAATTTACATATCTTACATAATT
1 CATAACTTACGTAATTTACATATCTTA-ATAATA
48690934 CATAACTTACGTAATTTA-A-AT-TT-ATAATA
1 CATAACTTACGTAATTTACATATCTTAATAATA
48690963 CATAACTTAC
1 CATAACTTAC
48690973 ATAACTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
29 15 0.39
31 2 0.05
32 2 0.05
33 1 0.03
34 18 0.47
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (33 bp):
CATAACTTACGTAATTTACATATCTTAATAATA
Found at i:48691067 original size:23 final size:22
Alignment explanation
Indices: 48691017--48691217 Score: 74
Period size: 24 Copynumber: 9.3 Consensus size: 22
48691007 ATAAAAATTG
48691017 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
48691040 CTACATACATAAGCTTACAT---
1 ATACATACATAA-CTTACATAAC
*
48691060 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
* * * *
48691081 TTAAATTTAGCA-ATCATATCATAAC
1 ATACA--TA-CATAACTTA-CATAAC
* *
48691106 TTACATACATAA-TTA-GT-A-
1 ATACATACATAACTTACATAAC
*
48691124 AT-CATATCACAACTTACATAACC
1 ATACATA-CATAACTTACATAA-C
* *
48691147 A-ACATA-ATGACTTACATAATA
1 ATACATACATAACTTACATAA-C
*
48691168 ATCTACATA-ATAACTTACATAATA
1 A--TACATACATAACTTACATAA-C
48691192 ATACATA-ATAA--TACATAAC
1 ATACATACATAACTTACATAAC
48691211 ATACATA
1 ATACATA
48691218 AATTAAATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
17 4 0.03
18 11 0.08
19 19 0.14
20 11 0.08
21 15 0.11
22 22 0.16
23 19 0.14
24 26 0.19
25 11 0.08
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:48691165 original size:12 final size:11
Alignment explanation
Indices: 48691148--48691201 Score: 56
Period size: 12 Copynumber: 4.7 Consensus size: 11
48691138 TACATAACCA
48691148 ACATAATGACTT
1 ACATAAT-ACTT
*
48691160 ACATAATAATCT
1 ACATAATACT-T
48691172 ACATAATAACTT
1 ACATAAT-ACTT
*
48691184 ACATAATA-AT
1 ACATAATACTT
48691194 ACATAATA
1 ACATAATA
48691202 ATACATAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 9 0.24
11 3 0.08
12 23 0.62
13 2 0.05
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (11 bp):
ACATAATACTT
Found at i:48691175 original size:24 final size:22
Alignment explanation
Indices: 48691134--48691218 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 22
48691124 ATCATATCAC
**
48691134 AACTTACATAACCA-ACATAAT
1 AACTTACATAATAATACATAAT
*
48691155 GACTTACATAATAATCTACATAAT
1 AACTTACATAATAA--TACATAAT
48691179 AACTTACATAATAATACATAAT
1 AACTTACATAATAATACATAAT
*
48691201 AA--TACATAA-CATACATAA
1 AACTTACATAATAATACATAA
48691219 ATTAAATAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 8 0.14
20 7 0.12
21 11 0.20
22 10 0.18
24 20 0.36
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (22 bp):
AACTTACATAATAATACATAAT
Found at i:48691198 original size:10 final size:10
Alignment explanation
Indices: 48691159--48691218 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 10
48691149 CATAATGACT
48691159 TACATAATAA
1 TACATAATAA
48691169 TCTACATAATAA
1 --TACATAATAA
48691181 CTTACATAATAA
1 --TACATAATAA
48691193 TACATAATAA
1 TACATAATAA
*
48691203 TACATAA-CA
1 TACATAATAA
48691212 TACATAA
1 TACATAA
48691219 ATTAAATAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.18
10 17 0.38
12 20 0.44
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (10 bp):
TACATAATAA
Found at i:48691267 original size:34 final size:33
Alignment explanation
Indices: 48691224--48691367 Score: 86
Period size: 34 Copynumber: 4.5 Consensus size: 33
48691214 CATAAATTAA
*
48691224 ATAAGTTACATAATACACAAAAACAAAAACTTAC
1 ATAACTTACATAATAC-CAAAAACAAAAACTTAC
* * * ***
48691258 ATAACTTACATAATATCCTACATC-CCTACTTAC
1 ATAACTTACATAATA-CCAAAAACAAAAACTTAC
** * *
48691291 ATAA--TA-ATACATACC--GTACATAAA-TTAA
1 ATAACTTACATA-ATACCAAAAACAAAAACTTAC
* *
48691319 ATAAGTTACATAATAAACAAAAACAAAAACTTAC
1 ATAACTTACATAAT-ACCAAAAACAAAAACTTAC
48691353 ATAACTTACATAATA
1 ATAACTTACATAATA
48691368 ACTTACATAA
Statistics
Matches: 80, Mismatches: 20, Indels: 21
0.66 0.17 0.17
Matches are distributed among these distances:
28 8 0.10
29 1 0.01
30 9 0.11
31 10 0.12
33 17 0.21
34 34 0.43
35 1 0.01
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (33 bp):
ATAACTTACATAATACCAAAAACAAAAACTTAC
Found at i:48691370 original size:12 final size:12
Alignment explanation
Indices: 48691353--48691380 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
48691343 AAAAACTTAC
48691353 ATAACTTACATA
1 ATAACTTACATA
48691365 ATAACTTACATA
1 ATAACTTACATA
48691377 ATAA
1 ATAA
48691381 TGCATACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:48691375 original size:95 final size:93
Alignment explanation
Indices: 48691171--48691473 Score: 338
Period size: 95 Copynumber: 3.3 Consensus size: 93
48691161 CATAATAATC
48691171 TACATAATAACTTACATAATAATACATAATAATACATAACATACATAAATTAAATAAGTTACATA
1 TACATAATAACTTACATAATAATACATAATAATACATAACATACATAAATTAAATAAGTTACATA
*
48691236 ATACACAAAAACAAAAACTTACATAACT
66 ATAAACAAAAACAAAAACTTACATAACT
* * ** * * *
48691264 TACATAATATCCTACATCCCTACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACA
1 TACATAATAACTTACAT-AATA-ATACATAATAATACATAACATACATAAATTAAATAAGTTACA
48691329 TAATAAACAAAAACAAAAACTTACATAACT
64 TAATAAACAAAAACAAAAACTTACATAACT
* *
48691359 TACATAATAACTTACATAATAATGC------ATAC----CCTACATAAATTAAATAAGTTACATA
1 TACATAATAACTTACATAATAATACATAATAATACATAACATACATAAATTAAATAAGTTACATA
* ** * **
48691414 ATACACAATAAGGTTAAAAACATAGTGTAACT
66 ATAAACAA-AA--ACAAAAACTTA-CATAACT
48691446 TACATAATAACTTACATAATAATACATA
1 TACATAATAACTTACATAATAATACATA
48691474 CTCTACATAA
Statistics
Matches: 179, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
83 32 0.18
84 2 0.01
86 8 0.04
87 33 0.18
93 17 0.09
94 4 0.02
95 83 0.46
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (93 bp):
TACATAATAACTTACATAATAATACATAATAATACATAACATACATAAATTAAATAAGTTACATA
ATAAACAAAAACAAAAACTTACATAACT
Found at i:48691411 original size:37 final size:37
Alignment explanation
Indices: 48691287--48691416 Score: 109
Period size: 37 Copynumber: 3.3 Consensus size: 37
48691277 ACATCCCTAC
*
48691287 TTACATAATAATACATACCGTACATAAATTAAATAAG
1 TTACATAATAATACATACCCTACATAAATTAAATAAG
* * * *
48691324 TTACATAATAA-ACAAAAACAAAAACTTACATAACTTACATAATAAC
1 TTACATAATAATAC--ATAC-----CCTACATAAATT--A-AATAAG
*
48691370 TTACATAATAATGCATACCCTACATAAATTAAATAAG
1 TTACATAATAATACATACCCTACATAAATTAAATAAG
48691407 TTACATAATA
1 TTACATAATA
48691417 CACAATAAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
36 2 0.03
37 26 0.36
38 4 0.05
40 10 0.14
43 10 0.14
45 4 0.05
46 16 0.22
47 1 0.01
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.28
Consensus pattern (37 bp):
TTACATAATAATACATACCCTACATAAATTAAATAAG
Found at i:48691458 original size:12 final size:12
Alignment explanation
Indices: 48691441--48691467 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48691431 AAACATAGTG
48691441 TAACTTACATAA
1 TAACTTACATAA
48691453 TAACTTACATAA
1 TAACTTACATAA
48691465 TAA
1 TAA
48691468 TACATACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:48691474 original size:87 final size:83
Alignment explanation
Indices: 48691285--48691502 Score: 283
Period size: 83 Copynumber: 2.6 Consensus size: 83
48691275 CTACATCCCT
* *
48691285 ACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACT
1 ACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACA
48691350 TACATAACTTACATAATA
66 TACATAACTTACATAATA
* * **
48691368 ACTTACATAATAATGCATACCCTACATAAATTAAATAAGTTACATAATACACAATAAGGTTAAAA
1 ACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATAAACAA-AA--ACAAAA
**
48691433 ACATAGTGTAACTTACATAATA
63 ACATA-CATAACTTACATAATA
* * * *
48691455 ACTTACATAATAATACATACTCTACATAATAATACATAACTTACATAA
1 ACTTACATAATAATACATACCCTACATAA-ATTAAATAAGTTACATAA
48691503 GACATAACTT
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
83 51 0.44
84 2 0.02
86 8 0.07
87 41 0.35
88 15 0.13
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.28
Consensus pattern (83 bp):
ACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACA
TACATAACTTACATAATA
Found at i:48691482 original size:19 final size:19
Alignment explanation
Indices: 48691452--48691518 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
48691442 AACTTACATA
48691452 ATAACTTACATAATAATAC
1 ATAACTTACATAATAATAC
48691471 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAATAATAC
*
48691490 ATAACTTAC---ATAAGAC
1 ATAACTTACATAATAATAC
48691506 ATAACTTACATAA
1 ATAACTTACATAA
48691519 GTTTCATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.36
18 3 0.07
19 21 0.50
20 3 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATAATAC
Found at i:48691499 original size:9 final size:9
Alignment explanation
Indices: 48691452--48691552 Score: 72
Period size: 9 Copynumber: 11.4 Consensus size: 9
48691442 AACTTACATA
48691452 ATAACTTAC
1 ATAACTTAC
48691461 ATAA-TAATAC
1 ATAACT--TAC
48691471 AT-ACTCTAC
1 ATAACT-TAC
48691480 ATAA-TAATAC
1 ATAACT--TAC
48691490 ATAACTTAC
1 ATAACTTAC
*
48691499 ATAA--GAC
1 ATAACTTAC
48691506 ATAACTTAC
1 ATAACTTAC
* *
48691515 ATAAGTTTC
1 ATAACTTAC
48691524 ATAA--TAC
1 ATAACTTAC
*
48691531 ACAACTTAC
1 ATAACTTAC
48691540 ATAACTTAC
1 ATAACTTAC
48691549 ATAA
1 ATAA
48691553 GACATAACTT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
7 11 0.15
8 1 0.01
9 46 0.63
10 14 0.19
11 1 0.01
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:48691502 original size:16 final size:16
Alignment explanation
Indices: 48691483--48691563 Score: 76
Period size: 16 Copynumber: 4.9 Consensus size: 16
48691473 ACTCTACATA
48691483 ATAATACATAACTTAC
1 ATAATACATAACTTAC
*
48691499 ATAAGACATAACTTAC
1 ATAATACATAACTTAC
*
48691515 ATAAGTTTCATAA--TAC
1 ATAA--TACATAACTTAC
*
48691531 ACAACTTACATAACTTAC
1 ATAA--TACATAACTTAC
*
48691549 ATAAGACATAACTTA
1 ATAATACATAACTTA
48691564 TTCCTAAATC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
16 42 0.79
18 11 0.21
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (16 bp):
ATAATACATAACTTAC
Found at i:48691526 original size:25 final size:25
Alignment explanation
Indices: 48691487--48691563 Score: 118
Period size: 25 Copynumber: 3.1 Consensus size: 25
48691477 TACATAATAA
48691487 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAAGACATAACT
* * * *
48691512 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAAGACATAACT
48691537 TACATAACTTACATAAGACATAACT
1 TACATAACTTACATAAGACATAACT
48691562 TA
1 TA
48691564 TTCCTAAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAAGACATAACT
Found at i:48697039 original size:21 final size:21
Alignment explanation
Indices: 48697013--48697102 Score: 73
Period size: 21 Copynumber: 4.4 Consensus size: 21
48697003 CAACAACTTA
*
48697013 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
48697034 AAGCAGAGGCTA-CAGCGAGAC
1 AAGCAGAGGC-AGCAGCGAGAG
* *
48697055 AAGGAGAGGCCGCA--GAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
48697074 AA-CA-AGAGAAGCAGCGATAG
1 AAGCAGAG-GCAGCAGCGAGAG
48697094 AAGCAGAGG
1 AAGCAGAGG
48697103 TTCAAAAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 2 0.04
18 5 0.09
19 6 0.11
20 6 0.11
21 32 0.60
22 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:48697592 original size:42 final size:42
Alignment explanation
Indices: 48697538--48697823 Score: 350
Period size: 42 Copynumber: 6.8 Consensus size: 42
48697528 TGAAATAAGT
*
48697538 GCCGCTAAAGAACACT-ACTTTTAGCGGCGTTTT-TGACCAAGC
1 GCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTCT-TCCAAGC
* * *
48697580 GCCGCTATAGAACATTACTTTTAGCGGCATTTTCTTCCTAAGC
1 GCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCC-AAGC
*
48697623 GCCGCTAAAGAACATGATTTTTAGCGGCGTTTTCTTCCTAAGC
1 GCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCC-AAGC
* *
48697666 GCCGCTAAATAACATGA-TCTTTAGCGGCGTTTTCTTCAAAGC
1 GCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTCTTCCAAGC
* *
48697708 GCCGCTAAAGAACATGA-TCTTTAGCGGCATTTTCTTTCAAGC
1 GCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTCTTCCAAGC
* *
48697750 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTT-TCCCAAGC
1 GCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCCAAGC
* *
48697791 GCCGCTAAAGATCATG-TTCTTTAGCGGCGTTTT
1 GCCGCTAAAGAACATGACT-TTTAGCGGCGTTTT
48697824 TTTCAGTTAG
Statistics
Matches: 218, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
41 36 0.17
42 104 0.48
43 78 0.36
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (42 bp):
GCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCCAAGC
Found at i:48697628 original size:85 final size:85
Alignment explanation
Indices: 48697533--48697823 Score: 348
Period size: 85 Copynumber: 3.5 Consensus size: 85
48697523 GTTTGTGAAA
* * * *
48697533 TAAGTGCCGCTAAAGAACACT-ACT-TTTAGCGGCGTTTT-TGACCAAGCGCCGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATTCTTTAGCGGCGTTTTCT-TCCAAGCGCCGCTAAAGAACAT
*
48697595 TACTTTTAGCGGCATTTTCTTCC
64 GACTTTTAGCGGC-TTTTCTTCC
*
48697618 TAAGCGCCGCTAAAGAACATGATT-TTTAGCGGCGTTTTCTTCCTAAGCGCCGCTAAATAACATG
1 TAAGCGCCGCTAAAGAACATGATTCTTTAGCGGCGTTTTCTTCC-AAGCGCCGCTAAAGAACATG
48697682 A-TCTTTAGCGGCGTTTTCTT-C
65 ACT-TTTAGCGGC-TTTTCTTCC
* * *
48697703 AAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCATTTTCTTTCAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATTCTTTAGCGGCGTTTTCTTCCAAGCGCCGCTAAAGAACATGA
* *
48697767 CCTTTAGCGGCGTTT-TTCC
66 CTTTTAGCGGCTTTTCTTCC
* *
48697786 CAAGCGCCGCTAAAGATCATG-TTCTTTAGCGGCGTTTT
1 TAAGCGCCGCTAAAGAACATGATTCTTTAGCGGCGTTTT
48697824 TTTCAGTTAG
Statistics
Matches: 182, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
82 2 0.01
83 38 0.21
84 31 0.17
85 76 0.42
86 35 0.19
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGATTCTTTAGCGGCGTTTTCTTCCAAGCGCCGCTAAAGAACATGA
CTTTTAGCGGCTTTTCTTCC
Found at i:48697827 original size:128 final size:128
Alignment explanation
Indices: 48697538--48697828 Score: 389
Period size: 128 Copynumber: 2.3 Consensus size: 128
48697528 TGAAATAAGT
* * * *
48697538 GCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTT-TGACCAAGCGCCGCTATAGAACATTACTT
1 GCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTCT-TCAAAGCGCCGCTAAAGAACATGACTT
** *
48697600 TTAGCGGCATTTTCTTCCTAAGCGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTCTTCCTAAG
63 TTAGCGGCATTTTCTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTCCCAAG
48697665 C
128 C
*
48697666 GCCGCTAAATAACATGATCTTTAGCGGCGTTTTCTTCAAAGCGCCGCTAAAGAACATGA-TCTTT
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCAAAGCGCCGCTAAAGAACATGACT-TTT
*
48697730 AGCGGCATTTTCTTTC-AAGCGCCGCTAAAGAACATGACCTTTAGCGGCG-TTT-TTCCCAAGC
65 AGCGGCATTTTCTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTCCCAAGC
* * *
48697791 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCA
1 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCA
48697829 GTTAGCGACG
Statistics
Matches: 146, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
125 42 0.29
126 3 0.02
127 33 0.23
128 66 0.45
129 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (128 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCAAAGCGCCGCTAAAGAACATGACTTTTA
GCGGCATTTTCTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTCTTCCCAAGC
Found at i:48698008 original size:21 final size:21
Alignment explanation
Indices: 48697984--48698024 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48697974 TAAATCTTAA
48697984 AGATACTAATAATATAATAAT
1 AGATACTAATAATATAATAAT
* *
48698005 AGATACTAATACTATCATAA
1 AGATACTAATAATATAATAA
48698025 CAATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (21 bp):
AGATACTAATAATATAATAAT
Found at i:48704181 original size:11 final size:11
Alignment explanation
Indices: 48704161--48704227 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
48704151 TAAAAATTAA
48704161 AAAAAGTATTTT
1 AAAAA-TATTTT
48704173 AAAAATATTTT
1 AAAAATATTTT
48704184 --AAA-A--TT
1 AAAAATATTTT
*
48704190 AAAAAAATTTT
1 AAAAATATTTT
*
48704201 AAAATTTATTTT
1 AAAA-ATATTTT
48704213 AAAAATATTTT
1 AAAAATATTTT
48704224 AAAA
1 AAAA
48704228 TTAAAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
6 2 0.04
8 4 0.09
9 4 0.09
11 22 0.48
12 14 0.30
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:48704211 original size:40 final size:40
Alignment explanation
Indices: 48704152--48704285 Score: 198
Period size: 40 Copynumber: 3.4 Consensus size: 40
48704142 AATTTATTTT
* *
48704152 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTAA
* *
48704192 AAAAATTTTAAAATTTATTTTAAAAATATTTTAAAATT-A
1 AAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTAA
** *
48704231 AAAAATAAAAAAAATTATTTTAAAAATATTTTTAAATTAA
1 AAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTAA
48704271 AAAAATTTAAAAAAT
1 AAAAATTTAAAAAAT
48704286 AAATATATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.41
40 48 0.59
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (40 bp):
AAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTAA
Found at i:48709678 original size:26 final size:26
Alignment explanation
Indices: 48709647--48709703 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
48709637 ACTTCTAAAG
48709647 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCCAAGAGAGAATTCTTGGAGA
48709673 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCCAAGAGAGAATTCTTGGAGA
48709699 AAAAC
1 AAAAC
48709704 TAAACAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (26 bp):
AAAACCCAAGAGAGAATTCTTGGAGA
Found at i:48709713 original size:27 final size:26
Alignment explanation
Indices: 48709647--48709719 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
48709637 ACTTCTAAAG
* *
48709647 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCAAAAAGAGAATTCTTGGAGA
* *
48709673 AAAACCCAAGAGAGAATTCTTGGAGA
1 AAAACCAAAAAGAGAATTCTTGGAGA
*
48709699 AAAACTAAACAAGAGAATTCT
1 AAAACCAAA-AAGAGAATTCT
48709720 GCACTTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
26 33 0.77
27 10 0.23
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.16
Consensus pattern (26 bp):
AAAACCAAAAAGAGAATTCTTGGAGA
Found at i:48709728 original size:95 final size:93
Alignment explanation
Indices: 48709517--48709692 Score: 300
Period size: 95 Copynumber: 1.9 Consensus size: 93
48709507 AAGATGGCTC
48709517 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
1 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
*
48709582 CTAAACACGAGAATTCTGCACTTAAACAAA
66 CCAAACACGAGAATTCTGCA--TAAACAAA
48709612 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
1 CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
* *
48709677 CCCAAGA-GAGAATTCT
66 CCAAACACGAGAATTCT
48709693 TGGAGAAAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 9 0.12
95 69 0.88
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.19
Consensus pattern (93 bp):
CCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAACCCAAGAGAGAATTCTTGGAGAAAAA
CCAAACACGAGAATTCTGCATAAACAAA
Found at i:48714617 original size:25 final size:25
Alignment explanation
Indices: 48714569--48714617 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48714559 CATAACTGAA
* * *
48714569 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
48714594 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
48714618 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:48720548 original size:19 final size:17
Alignment explanation
Indices: 48720524--48720561 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
48720514 TTTAATTATT
48720524 TTATTAATATTATTTGATA
1 TTATTAATATT-TTTG-TA
48720543 TTATTAATATTTTTGTA
1 TTATTAATATTTTTGTA
48720560 TT
1 TT
48720562 GTGACGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TTATTAATATTTTTGTA
Found at i:48721457 original size:19 final size:19
Alignment explanation
Indices: 48721433--48721470 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
48721423 TTTTTAAAAT
48721433 AATTAAG-TTTACTTTTTAA
1 AATTAAGATTTA-TTTTTAA
48721452 AATTAAGATTTATTTTTAA
1 AATTAAGATTTATTTTTAA
48721471 TTTAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTAAGATTTATTTTTAA
Found at i:48721904 original size:15 final size:16
Alignment explanation
Indices: 48721886--48721916 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48721876 TTAAAAAAGC
48721886 TTCA-TGAATAAAAAA
1 TTCATTGAATAAAAAA
48721901 TTCATTGAATAAAAAA
1 TTCATTGAATAAAAAA
48721917 ATATATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
TTCATTGAATAAAAAA
Found at i:48724411 original size:6 final size:6
Alignment explanation
Indices: 48724400--48724432 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
48724390 ATTCTAGACC
48724400 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTC
1 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTC
48724433 TTCATCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCCTA
Found at i:48728521 original size:62 final size:62
Alignment explanation
Indices: 48728452--48728593 Score: 189
Period size: 62 Copynumber: 2.3 Consensus size: 62
48728442 AATCGCAAAA
* *
48728452 AGTAAGTCACATGGCCTAGACACACG-CTCGTGTCTCTGGCCCGTGAGGT-TTCTAATAGCAAC
1 AGTAAGTCACACGGCCTAGACAAACGTC-CGTGTCTCTGGCCCGTGAGGTCTTC-AATAGCAAC
* * * *
48728514 AGTAAGTCACACGACCTGGACAAACGTCCGTGTGTCTGGCCCGTGTGGTCTTCAATAGCAAC
1 AGTAAGTCACACGGCCTAGACAAACGTCCGTGTCTCTGGCCCGTGAGGTCTTCAATAGCAAC
*
48728576 AGTGAGTCACACGGCCTA
1 AGTAAGTCACACGGCCTA
48728594 CCATATGACC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
62 65 0.94
63 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (62 bp):
AGTAAGTCACACGGCCTAGACAAACGTCCGTGTCTCTGGCCCGTGAGGTCTTCAATAGCAAC
Found at i:48729144 original size:14 final size:12
Alignment explanation
Indices: 48729113--48729153 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
48729103 AGACGTAATC
*
48729113 AAAAAGAAAAAT
1 AAAAAGAAAAAA
48729125 AAAAAGAATTAAAA
1 AAAAAGAA--AAAA
48729139 AAAAAGAAAAAA
1 AAAAAGAAAAAA
48729151 AAA
1 AAA
48729154 GAAGGAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:48729591 original size:23 final size:24
Alignment explanation
Indices: 48729531--48729592 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
48729521 TACAAGATAG
*
48729531 ATGCAAACCCTATATATTTTATAC
1 ATGCAAACCTTATATATTTTATAC
* *
48729555 ATGTAAA-CTCTATA-AGTTTTA-AT
1 ATGCAAACCT-TATATA-TTTTATAC
48729578 ATGCAAACCTTATAT
1 ATGCAAACCTTATAT
48729593 GTATTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (24 bp):
ATGCAAACCTTATATATTTTATAC
Found at i:48729645 original size:34 final size:34
Alignment explanation
Indices: 48729601--48729669 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
48729591 ATGTATTATA
48729601 TATGTCAACCCCCATGTTATATACTATGACATAG
1 TATGTCAACCCCCATGTTATATACTATGACATAG
* *
48729635 TATGTGAACCCCCATGTTATATAGTATGACATAG
1 TATGTCAACCCCCATGTTATATACTATGACATAG
48729669 T
1 T
48729670 GAACTGTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (34 bp):
TATGTCAACCCCCATGTTATATACTATGACATAG
Found at i:48729720 original size:27 final size:27
Alignment explanation
Indices: 48729682--48729748 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
48729672 ACTGTTAGTA
* *
48729682 CATGTACGCGAACAC-CCATGCGAACCC
1 CATGTATGCGAACACTCCATACGAA-CC
48729709 CATGTATGCGAACACTCCATACGAACC
1 CATGTATGCGAACACTCCATACGAACC
*
48729736 TATGTATGCGAAC
1 CATGTATGCGAAC
48729749 CCCCTTTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (27 bp):
CATGTATGCGAACACTCCATACGAACC
Found at i:48729885 original size:15 final size:15
Alignment explanation
Indices: 48729808--48729885 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 15
48729798 CGATTCAGTA
*
48729808 TGCGAACACCATATATG
1 TGCGAAC-CC-TACATG
* *
48729825 TGCGAACCTTGCATG
1 TGCGAACCCTACATG
* **
48729840 TGCAAACCCTGTATG
1 TGCGAACCCTACATG
48729855 TGCGAACCTTCTACATG
1 TGCGAACC--CTACATG
48729872 TGCGAACCCTACAT
1 TGCGAACCCTACAT
48729886 ATGAACCTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 29 0.58
16 1 0.02
17 20 0.40
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (15 bp):
TGCGAACCCTACATG
Found at i:48731128 original size:5 final size:5
Alignment explanation
Indices: 48731118--48731143 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48731108 TGAGCATTCG
48731118 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
48731144 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:48731932 original size:31 final size:30
Alignment explanation
Indices: 48731897--48731956 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48731887 GGAGGTGGGA
*
48731897 TGGGAAAGGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AAGGAATAAAAATTTTAGGGGAAAAG
* * *
48731928 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGAATAAAAATTTTAGGGGAAAA
48731957 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAATAAAAATTTTAGGGGAAAAG
Found at i:48732184 original size:9 final size:9
Alignment explanation
Indices: 48732170--48732224 Score: 101
Period size: 9 Copynumber: 6.1 Consensus size: 9
48732160 TATAGTTTGA
48732170 TATTCGAAT
1 TATTCGAAT
48732179 TATTCGAAT
1 TATTCGAAT
48732188 TATTCGAAT
1 TATTCGAAT
48732197 TATTCGAAT
1 TATTCGAAT
*
48732206 TATTCGAGT
1 TATTCGAAT
48732215 TATTCGAAT
1 TATTCGAAT
48732224 T
1 T
48732225 CGAAAACTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48732294 original size:18 final size:18
Alignment explanation
Indices: 48732268--48732310 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
48732258 AAAAAAATAT
*
48732268 TCGAGTTAATTCGAATAAC
1 TCGA-TTAACTCGAATAAC
48732287 TCGATTAACTCGAATAAC
1 TCGATTAACTCGAATAAC
48732305 TCGATT
1 TCGATT
48732311 CGTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (18 bp):
TCGATTAACTCGAATAAC
Done.