Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 240 of 255
Found at i:78474220 original size:14 final size:14
Alignment explanation
Indices: 78474201--78474230 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78474191 AATAATAAAG
78474201 TAGTAAAAACATAA
1 TAGTAAAAACATAA
*
78474215 TAGTAAAAATATAA
1 TAGTAAAAACATAA
78474229 TA
1 TA
78474231 AATAATAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (14 bp):
TAGTAAAAACATAA
Found at i:78474867 original size:10 final size:11
Alignment explanation
Indices: 78474843--78474875 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
78474833 GAAAGGTATC
*
78474843 TATTTTTTATT
1 TATTTTTTATG
78474854 TATTTTTT-TG
1 TATTTTTTATG
78474864 TATTTTTTATG
1 TATTTTTTATG
78474875 T
1 T
78474876 CTTTAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (11 bp):
TATTTTTTATG
Found at i:78477537 original size:22 final size:24
Alignment explanation
Indices: 78477489--78477540 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
78477479 ATATAATAAA
78477489 ATACGTTTTTAAGGAATATATTAT
1 ATACGTTTTTAAGGAATATATTAT
78477513 ATACGTTTTTAAGGAATATATTAT
1 ATACGTTTTTAAGGAATATATTAT
78477537 ATAC
1 ATAC
78477541 ATAACAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (24 bp):
ATACGTTTTTAAGGAATATATTAT
Found at i:78477597 original size:28 final size:27
Alignment explanation
Indices: 78477565--78477661 Score: 85
Period size: 26 Copynumber: 3.6 Consensus size: 27
78477555 AGGTATATAC
*
78477565 ATAAAATAGTTTAAAGTAAATAACATAT
1 ATAAAATAGTTTAAAATAAATAA-ATAT
* *
78477593 ATAAAAATA-TTGAAAATAAAT-AATAC
1 AT-AAAATAGTTTAAAATAAATAAATAT
* *
78477619 GTAAAATAGTTTAAAATAACTAATATAT
1 ATAAAATAGTTTAAAATAAATAA-ATAT
*
78477647 ATACAA-A-TTTAAAAT
1 ATAAAATAGTTTAAAAT
78477662 GGGTAATAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
25 6 0.11
26 22 0.39
27 3 0.05
28 19 0.34
29 6 0.11
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (27 bp):
ATAAAATAGTTTAAAATAAATAAATAT
Found at i:78477624 original size:54 final size:52
Alignment explanation
Indices: 78477561--78477661 Score: 139
Period size: 54 Copynumber: 1.9 Consensus size: 52
78477551 TAAAAGGTAT
*
78477561 ATACATAAAATAGTTTAAAGTAAATAACATATATAAAAATATTGAAAATAAATA
1 ATACATAAAATAGTTTAAAATAAATAACATATATAAAAAT-TT-AAAATAAATA
* * * *
78477615 ATACGTAAAATAGTTTAAAATAACTAATATATATACAAATTTAAAAT
1 ATACATAAAATAGTTTAAAATAAATAACATATATAAAAATTTAAAAT
78477662 GGGTAATAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 5 0.12
53 2 0.05
54 35 0.83
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (52 bp):
ATACATAAAATAGTTTAAAATAAATAACATATATAAAAATTTAAAATAAATA
Found at i:78477634 original size:26 final size:26
Alignment explanation
Indices: 78477561--78477643 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 26
78477551 TAAAAGGTAT
*
78477561 ATACATAAAATAGTTTAAAGTAAATAA
1 ATACATAAAATAGTTTAAAATAAAT-A
* *
78477588 CATATATAAAAATA-TTGAAAATAAATA
1 -ATACAT-AAAATAGTTTAAAATAAATA
* *
78477615 ATACGTAAAATAGTTTAAAATAACTA
1 ATACATAAAATAGTTTAAAATAAATA
78477641 ATA
1 ATA
78477644 TATATACAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 6 0.13
26 18 0.39
27 1 0.02
28 15 0.33
29 6 0.13
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (26 bp):
ATACATAAAATAGTTTAAAATAAATA
Found at i:78477763 original size:25 final size:27
Alignment explanation
Indices: 78477702--78477781 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 27
78477692 TAATATGTCA
*
78477702 AAAACTTAAAGTAAATAATAATAGAAC
1 AAAACTTAAAATAAATAATAATAGAAC
** *
78477729 -AATTTTAAAATAAGTAAT-ATA-AAC
1 AAAACTTAAAATAAATAATAATAGAAC
* *
78477753 AAAACTTAAAATATAATAATGATAAAAC
1 AAAACTTAAAATA-AATAATAATAGAAC
78477781 A
1 A
78477782 GTTTTATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 3 0.07
25 13 0.31
26 19 0.45
27 3 0.07
28 4 0.10
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAACTTAAAATAAATAATAATAGAAC
Found at i:78479232 original size:33 final size:33
Alignment explanation
Indices: 78479191--78479464 Score: 196
Period size: 33 Copynumber: 8.2 Consensus size: 33
78479181 CTTGGGCACA
* *
78479191 TCAGGAACTTTAGGCAATTCTGACTTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
* * * * *
78479224 TCAAGAACTTTTGGTAATTTAGGATTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
** * * * * *
78479257 TTGGGAGCTTTGGGCAATTTTGGCTTGGGCACC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
78479290 TCAGGAACTTT-GGACAATTTTGGCTTTGGTAAC
1 TCAGGAACTTTAGG-CAATTTTGGCTTTGGTAAC
* *
78479323 TCAGGAGCTTTGGGCAATTTTGGC-TTGG-ACATC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTA-A-C
* *
78479356 TCAGGAACTTTAAGCAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
** * * * ** *
78479389 TTGGGAATTTTTGGTAATTCAAGAGCTTTGGGAATC
1 TCAGGAACTTTAGGCAATT-TTG-GCTTTGGTAA-C
* * *
78479425 TTAGGAAC-TTAGGTAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
*
78479457 TCTGGAAC
1 TCAGGAAC
78479465 ATTGACTTTT
Statistics
Matches: 186, Mismatches: 46, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
31 1 0.01
32 14 0.08
33 136 0.73
34 9 0.05
35 19 0.10
36 7 0.04
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (33 bp):
TCAGGAACTTTAGGCAATTTTGGCTTTGGTAAC
Found at i:78479342 original size:99 final size:99
Alignment explanation
Indices: 78479161--78479342 Score: 267
Period size: 99 Copynumber: 1.8 Consensus size: 99
78479151 TGACAATTTA
*
78479161 GGAGCTTTGGGTAATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTC
1 GGAGCTTTGGGCAATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTC
* *
78479226 AAGAACTTTTGGTAATTTAGGATTTGGTAACTTG
66 AAGAACTTTGGGCAATTTAGGATTTGGTAACTTG
* * * *
78479260 GGAGCTTTGGGCAATTTTGGCTTGGGCACCTCAGGAACTTT-GGACAATTTTGGCTTTGGTAACT
1 GGAGCTTTGGGCAATTCTGGCTTGGGCACATCAGGAACTTTAGG-CAATTCTGACTTTGGTAACT
* *
78479324 CAGGAGCTTTGGGCAATTT
65 CAAGAACTTTGGGCAATTT
78479343 TGGCTTGGAC
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 2 0.03
99 71 0.97
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (99 bp):
GGAGCTTTGGGCAATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTC
AAGAACTTTGGGCAATTTAGGATTTGGTAACTTG
Found at i:78479373 original size:99 final size:99
Alignment explanation
Indices: 78479173--78479381 Score: 235
Period size: 99 Copynumber: 2.1 Consensus size: 99
78479163 AGCTTTGGGT
*
78479173 AATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTCAAGAACTTTTGG
1 AATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTCAAGAACTTTGGG
* * ** * **
78479238 TAATTTAGGATTTGGTAACTTGGGAGCTTTGGGC
66 CAATTTAGGACTTGGTAACTCAGGAACTTTAAGC
* * * * * *
78479272 AATTTTGGCTTGGGCACCTCAGGAACTTT-GGACAATTTTGGCTTTGGTAACTCAGGAGCTTTGG
1 AATTCTGGCTTGGGCACATCAGGAACTTTAGG-CAATTCTGACTTTGGTAACTCAAGAACTTTGG
*
78479336 GCAATTTTGG-CTTGG-ACATCTCAGGAACTTTAAGC
65 GCAATTTAGGACTTGGTA-A-CTCAGGAACTTTAAGC
78479371 AATTCTGGCTT
1 AATTCTGGCTT
78479382 TGGTAACTTG
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
97 1 0.01
98 7 0.08
99 83 0.91
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (99 bp):
AATTCTGGCTTGGGCACATCAGGAACTTTAGGCAATTCTGACTTTGGTAACTCAAGAACTTTGGG
CAATTTAGGACTTGGTAACTCAGGAACTTTAAGC
Found at i:78479417 original size:35 final size:32
Alignment explanation
Indices: 78479371--78479457 Score: 84
Period size: 35 Copynumber: 2.6 Consensus size: 32
78479361 AACTTTAAGC
* * * *
78479371 AATTCTGGCTTTGGTAACTTGGGAATTTTTGGT
1 AATTCAGGCTTTGGTAACTTAGGAA-CTTAGGT
*
78479404 AATTCAAGAGCTTTGGGAATCTTAGGAACTTAGGT
1 AATTC-AG-GCTTTGGTAA-CTTAGGAACTTAGGT
*
78479439 AATTCTGGCTTTGGTAACT
1 AATTCAGGCTTTGGTAACT
78479458 CTGGAACATT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
32 2 0.05
33 14 0.32
34 2 0.05
35 19 0.43
36 7 0.16
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.39
Consensus pattern (32 bp):
AATTCAGGCTTTGGTAACTTAGGAACTTAGGT
Found at i:78481880 original size:20 final size:21
Alignment explanation
Indices: 78481857--78481895 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
78481847 TGGCCTACGA
78481857 AAAGA-TCGCTTGGATTTAAG
1 AAAGAGTCGCTTGGATTTAAG
78481877 AAAGAGTCGCTTGGATTTA
1 AAAGAGTCGCTTGGATTTA
78481896 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (21 bp):
AAAGAGTCGCTTGGATTTAAG
Found at i:78484383 original size:46 final size:44
Alignment explanation
Indices: 78484324--78484438 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
78484314 ACAGGACAGA
* *
78484324 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
78484370 ATAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
78484414 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
78484439 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:78484430 original size:44 final size:45
Alignment explanation
Indices: 78484324--78484457 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
78484314 ACAGGACAGA
* * *
78484324 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
78484370 ATAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
78484414 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
78484458 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:78485265 original size:11 final size:11
Alignment explanation
Indices: 78485249--78485274 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
78485239 TCAACTTTGG
78485249 AAATTCACCAT
1 AAATTCACCAT
78485260 AAATTCACCAT
1 AAATTCACCAT
78485271 AAAT
1 AAAT
78485275 GAGTAGCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATTCACCAT
Found at i:78490669 original size:87 final size:85
Alignment explanation
Indices: 78490315--78490912 Score: 674
Period size: 88 Copynumber: 6.8 Consensus size: 85
78490305 TGAATTCACA
* * * *
78490315 AGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTGTCTCCCTAAGCAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCACCCTAAGCAGTAG
* ** *
78490380 CGGAGTAGATCGAAGACGATG
66 -GAAACAGATCGAAGATGATG
* * * * *
78490401 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTATAGATATTGTCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTACAGATCTTATCACCCTAAGCAGT
* * * *
78490466 AGTGGAGCAGATCGAAGACGGTG
64 AG-GAAACAGATCGAAGATGATG
* * * * *
78490489 AGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCACCCCAAGAAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT--GAATTACAGATCTTATCACCCTAAGCAGT
*
78490554 AGGGAAACAGATCGAAGATGACG
64 A-GGAAACAGATCGAAGATGATG
* * * *
78490577 GGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTGATAGATCTTTTCACCCTAAGCAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTATCACCCTAAGCAGTA
* * *
78490642 GGAAAACAGATCAAAGGTGGTG
65 GG-AAACAGATCGAAGATGATG
* * *
78490664 AGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTGACAGATCTTATCACCCTAAGAAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTATCACCCTAAGCAGT-
*
78490729 AGGAAACAGATCGAAGGTGATG
64 AGGAAACAGATCGAAGATGATG
* * *
78490751 GGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTATCACCCTAAGCAGTA
* *
78490816 GGGAAACAGATCGAAGGTGGTG
65 -GGAAACAGATCGAAGATGATG
* *
78490838 AGCCTTAACCCCCCTAAGCAGTAGGGTAAAAGGCTGAATTGACAGATCTTATCACCCTAAACAGT
1 AGCCTTAA-CCCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTATCACCCTAAGCAGT
*
78490903 AAGGCAACAG
64 -AGGAAACAG
78490913 GCTAAAAATT
Statistics
Matches: 450, Mismatches: 49, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
86 40 0.09
87 198 0.44
88 209 0.46
89 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (85 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTATCACCCTAAGCAGTAG
GAAACAGATCGAAGATGATG
Found at i:78490757 original size:174 final size:171
Alignment explanation
Indices: 78490315--78490912 Score: 752
Period size: 174 Copynumber: 3.4 Consensus size: 171
78490305 TGAATTCACA
* * * *
78490315 AGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTGTCTCCCTAAGCAGT-A
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTATCACCCTAAGAAGTAA
* ** * *
78490379 GCGGAGTAGATCGAAGACGATGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTAT
66 G-GAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT-AA-ATTAT
* * * * * **
78490444 AGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTG
128 AGATCTTATCACCCTAAGCAGTAG-GAAACAGATCGAAGGTGGTG
* * * * *
78490489 AGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCACCCCAAGAAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCT--GAATTACAGATCTTATCACCCTAAGAAGT
* * *
78490554 AGGGAAACAGATCGAAGATGACGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTGAT
64 AAGGAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATT-AT
* *
78490619 AGATCTTTTCACCCTAAGCAGTAGGAAAACAGATCAAAGGTGGTG
128 AGATCTTATCACCCTAAGCAGTAGG-AAACAGATCGAAGGTGGTG
*
78490664 AGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTGACAGATCTTATCACCCTAAGAAGTA
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATT-ACAGATCTTATCACCCTAAGAAGTA
* * * *
78490729 AGGAAACAGATCGAAGGTGATGGGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAATTTACA
65 AGGAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT-AAATTATA
78490794 GATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTGGTG
129 GATCTTATCACCCTAAGCAGTA-GGAAACAGATCGAAGGTGGTG
78490838 AGCCTTAACCCCCCTAAGCAGTAGGGTAA-AAGGCTGAATTGACAGATCTTATCACCCTAA-ACA
1 AGCCTTAA-CCCCCTAAGCAGTAGGGTAACAA-GCTGAATT-ACAGATCTTATCACCCTAAGA-A
*
78490901 GTAAGGCAACAG
62 GTAAGGAAACAG
78490913 GCTAAAAATT
Statistics
Matches: 371, Mismatches: 42, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
173 4 0.01
174 161 0.43
175 135 0.36
176 70 0.19
177 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (171 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTATCACCCTAAGAAGTAA
GGAAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTATAGA
TCTTATCACCCTAAGCAGTAGGAAACAGATCGAAGGTGGTG
Found at i:78490978 original size:45 final size:45
Alignment explanation
Indices: 78490924--78491048 Score: 171
Period size: 45 Copynumber: 2.8 Consensus size: 45
78490914 CTAAAAATTA
* *
78490924 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGTCTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
*
78490969 CAAGTCTTATCTCCTTGAAGTTGC-GTTGGAGCAGACTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAG-TGGAGCAGACTGAAGATAG
* * * *
78491014 CAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
78491049 TCTCCTTGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 68 0.97
46 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
Found at i:78492564 original size:24 final size:26
Alignment explanation
Indices: 78492536--78492601 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 26
78492526 TTGTGAATTT
78492536 GTATTATTATTTATATCATT-G-TTA
1 GTATTATTATTTATATCATTAGTTTA
*
78492560 GTATTATTA-TTAT-TCCTTAGTTTA
1 GTATTATTATTTATATCATTAGTTTA
*
78492584 TTATTATTATTT-TATCAT
1 GTATTATTATTTATATCAT
78492602 CATTTTCCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 4 0.11
23 5 0.14
24 21 0.60
25 5 0.14
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (26 bp):
GTATTATTATTTATATCATTAGTTTA
Found at i:78497001 original size:60 final size:60
Alignment explanation
Indices: 78496901--78497039 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 60
78496891 AACTGTGTCA
* *
78496901 ATATGGGCAAGGCCCAATATATCTCAACTTGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATATCTCAACTTGTAATAGGGCTACGGCCCAGATTAATACTG
* * * * *
78496961 ATATGGGCTAGGCCTAATATACTCTGATAC-TGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAGATTAATACTG
78497021 ATATGGGCTAAGGCCCAAT
1 ATATGGGCT-AGGCCCAAT
78497040 TAACTTTGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
60 49 0.72
61 17 0.25
62 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCAACTTGTAATAGGGCTACGGCCCAGATTAATACTG
Found at i:78498608 original size:33 final size:33
Alignment explanation
Indices: 78498504--78498721 Score: 161
Period size: 33 Copynumber: 6.6 Consensus size: 33
78498494 TTCTGGTTTC
* * * *
78498504 AATTCAGGCTTTGGTAATTCAGGAGCTTTGGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
** * * * *
78498537 AATTTTGGCTTAGGC-ACTTCAAGAACTTTAGGC
1 AATTCAGGCTTTGGCAAC-TCAGGAACTTTTGGT
* * *
78498570 AATTCAGGCATTGGTAACTTAGGAACTTTTGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
* * * * *
78498603 GATTCATGTTTTGGCAACTTAGGAACTTTGGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
* * * ** *
78498636 AATTCTGGCTTGGGCATCTCAGGAACTTTAAGC
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
* *
78498669 AATTCAGGCTTTGGTAAATCAGGAACTTTTGGT
1 AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
*
78498702 AATTC-GGGTTATGGCAACTC
1 AATTCAGGCTT-TGGCAACTC
78498722 TAGCTTGGGC
Statistics
Matches: 137, Mismatches: 45, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
32 5 0.04
33 130 0.95
34 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (33 bp):
AATTCAGGCTTTGGCAACTCAGGAACTTTTGGT
Found at i:78498676 original size:99 final size:99
Alignment explanation
Indices: 78498524--78498720 Score: 270
Period size: 99 Copynumber: 2.0 Consensus size: 99
78498514 TTGGTAATTC
* * * *
78498524 AGGAGCTTTGGGTAATTTTGGCTTAGGCACTTCAAGAACTTTAGGCAATTCAGGCATTGGTAACT
1 AGGAACTTTGGGTAATTCTGGCTTAGGCACTTCAAGAACTTTAAGCAATTCAGGCATTGGTAAAT
* * * *
78498589 TAGGAACTTTTGGTGATTCATGTTTTGGCAACTT
66 CAGGAACTTTTGGTAATTCAGGTTATGGCAACTT
* * *
78498623 AGGAACTTTGGGTAATTCTGGCTTGGGCA-TCTCAGGAACTTTAAGCAATTCAGGCTTTGGTAAA
1 AGGAACTTTGGGTAATTCTGGCTTAGGCACT-TCAAGAACTTTAAGCAATTCAGGCATTGGTAAA
*
78498687 TCAGGAACTTTTGGTAATTCGGGTTATGGCAACT
65 TCAGGAACTTTTGGTAATTCAGGTTATGGCAACT
78498721 CTAGCTTGGG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 84 0.99
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (99 bp):
AGGAACTTTGGGTAATTCTGGCTTAGGCACTTCAAGAACTTTAAGCAATTCAGGCATTGGTAAAT
CAGGAACTTTTGGTAATTCAGGTTATGGCAACTT
Found at i:78498738 original size:81 final size:81
Alignment explanation
Indices: 78498643--78498801 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
78498633 GGTAATTCTG
* * * *
78498643 GCTTGGGCATCTCAGGAACTTTAAGCAATTCAGGCTTTGGTAAATCAGGAACTTTTGGTAATTCG
1 GCTTGGGCACCTCAGGAACTTTAAGAAATTCAGACTTTGGTAAATCAGGAACTTTTAGTAATTCG
78498708 GGTTATGGCAACTCTA
66 GGTTATGGCAACTCTA
* ** * *
78498724 GCTTGGGCACCTCAGGAAGTTTGGGAAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAATTCG
1 GCTTGGGCACCTCAGGAACTTTAAGAAATTCAGACTTTGGTAAATCAGGAACTTTTAGTAATTCG
*
78498789 GGTTTTGGCAACT
66 GGTTATGGCAACT
78498802 TAGGAGCTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (81 bp):
GCTTGGGCACCTCAGGAACTTTAAGAAATTCAGACTTTGGTAAATCAGGAACTTTTAGTAATTCG
GGTTATGGCAACTCTA
Found at i:78498787 original size:33 final size:33
Alignment explanation
Indices: 78498734--78499142 Score: 216
Period size: 33 Copynumber: 12.7 Consensus size: 33
78498724 GCTTGGGCAC
* * * *
78498734 CTCAGGAAGTTTGGGAAATTCTGACTTTGGTAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * *
78498767 CTCAGGAACTTTTA-GTAATTCGGGTTTTGGCAA
1 CTCAGGAAC-TTTAGGTAATTCTGGCTTTGGTAA
* *
78498800 CTTAGGAGCTTTAGGTAATTCTGGC-TTGG-ACA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTA-A
*
78498832 CCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAA
1 -CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* *
78498866 CTCAGAAACTTTAAGTAA---TGGC------AA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * *
78498890 CTCAGGAGCTTTAGGTAATTCTAGCTTGGGCAC
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * *
78498923 CTCAGGAATTTTGGGTAATTCTAGCTTTGGTAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * * * *
78498956 CTCAAGAGCTTTTGATAATTCAGGTTTTGGCAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * * * *
78498989 TTCAGGAACTTTGGGTGATTCTAGCTTGGGCAC
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * *
78499022 CTTAGGAACTTTCGGCAATTCTTGTTTTGGTAA
1 CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
* * * * *
78499055 TTCAGGAACTTTTGGTAATT-TAGGTTTTAGTAG
1 CTCAGGAACTTTAGGTAATTCT-GGCTTTGGTAA
* ** * *
78499088 CTCAAGAGTTTTAGGTAATTCTGG-TTTGGGCAC
1 CTCAGGAACTTTAGGTAATTCTGGCTTT-GGTAA
* *
78499121 CTTAGGAACTTTAAGTAATTCT
1 CTCAGGAACTTTAGGTAATTCT
78499143 ATCTTTGGAA
Statistics
Matches: 280, Mismatches: 78, Indels: 36
0.71 0.20 0.09
Matches are distributed among these distances:
24 17 0.06
27 3 0.01
30 4 0.01
31 1 0.00
32 13 0.05
33 232 0.83
34 9 0.03
35 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (33 bp):
CTCAGGAACTTTAGGTAATTCTGGCTTTGGTAA
Found at i:78498840 original size:99 final size:99
Alignment explanation
Indices: 78498720--78499132 Score: 427
Period size: 99 Copynumber: 4.3 Consensus size: 99
78498710 TTATGGCAAC
* *
78498720 TCTAGCTTGGGCACCTCAGGAAGTTTGGGAAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
* *
78498785 TTCGGGTTTTGGCAACTTAGGAGCTTTAGGTAAT
66 TTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * * * * *
78498819 TCTGGCTTGGACACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGAAACTTTAAGT-A
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
78498883 ---A-----TGGCAACTCAGGAGCTTTAGGTAAT
66 TTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * * *
78498909 TCTAGCTTGGGCACCTCAGGAATTTTGGGTAATTCT-AGCTTTGGTAACTCAAGAGCTTTT-GAT
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGA-CTTTGGTAACTCAGGAACTTTTAG-T
* * * *
78498972 AATTCAGGTTTTGGCAATTCAGGAACTTTGGGTGAT
64 AATTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * * * *
78499008 TCTAGCTTGGGCACCTTAGGAACTTTCGGCAATTCTTG-TTTTGGTAATTCAGGAACTTTTGGTA
1 TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTC-TGACTTTGGTAACTCAGGAACTTTTAGTA
* * * * * *
78499072 ATTTAGGTTTTAGTAGCTCAAGAGTTTTAGGTAAT
65 ATTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
* * *
78499107 TCTGGTTTGGGCACCTTAGGAACTTT
1 TCTAGCTTGGGCACCTCAGGAACTTT
78499133 AAGTAATTCT
Statistics
Matches: 256, Mismatches: 44, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
89 1 0.00
90 74 0.29
91 1 0.00
94 1 0.00
98 1 0.00
99 176 0.69
100 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (99 bp):
TCTAGCTTGGGCACCTCAGGAACTTTGGGCAATTCTGACTTTGGTAACTCAGGAACTTTTAGTAA
TTCAGGTTTTGGCAACTCAGGAGCTTTAGGTAAT
Found at i:78498950 original size:90 final size:90
Alignment explanation
Indices: 78498794--78498959 Score: 269
Period size: 90 Copynumber: 1.8 Consensus size: 90
78498784 ATTCGGGTTT
* * *
78498794 TGGCAACTTAGGAGCTTTAGGTAATTCTGGCTTGGACACCTCAGGAACTTTAGGCAATTCTGGCT
1 TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGACACCTCAGGAACTTTAGGCAATTCTAGCT
78498859 TTGGTAACTCAGAAACTTTAAGTAA
66 TTGGTAACTCAGAAACTTTAAGTAA
* * * *
78498884 TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGGCACCTCAGGAATTTTGGGTAATTCTAGCT
1 TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGACACCTCAGGAACTTTAGGCAATTCTAGCT
78498949 TTGGTAACTCA
66 TTGGTAACTCA
78498960 AGAGCTTTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (90 bp):
TGGCAACTCAGGAGCTTTAGGTAATTCTAGCTTGGACACCTCAGGAACTTTAGGCAATTCTAGCT
TTGGTAACTCAGAAACTTTAAGTAA
Found at i:78500329 original size:20 final size:19
Alignment explanation
Indices: 78500303--78500360 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
78500293 CTCTATTAAC
78500303 AAAAATTACAAAATAATTT-T
1 AAAAATT-CAAAAT-ATTTAT
*
78500323 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
78500342 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
78500360 A
1 A
78500361 TTTCTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.32
19 17 0.50
20 6 0.18
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:78502956 original size:23 final size:22
Alignment explanation
Indices: 78502898--78502941 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
78502888 AAGAAAAAGA
78502898 AAGAAAAATCTAATGAGAGTTC
1 AAGAAAAATCTAATGAGAGTTC
78502920 AAGAAAAATCTAATGAGAGTTC
1 AAGAAAAATCTAATGAGAGTTC
78502942 TTTTAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (22 bp):
AAGAAAAATCTAATGAGAGTTC
Found at i:78503220 original size:14 final size:15
Alignment explanation
Indices: 78503201--78503256 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
78503191 AATCTTCAAT
78503201 GATATG-CAATCTTA
1 GATATGACAATCTTA
78503215 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
78503232 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
78503250 GATATGA
1 GATATGA
78503257 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:78503227 original size:17 final size:17
Alignment explanation
Indices: 78503207--78503270 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
78503197 CAATGATATG
78503207 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
78503224 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
78503242 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
78503261 CAATCTTAGA
1 CAATCTTAGA
78503271 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.36
18 15 0.36
19 11 0.26
20 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:78503245 original size:35 final size:37
Alignment explanation
Indices: 78503199--78503277 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
78503189 ATAATCTTCA
78503199 ATGATATGCAATCTTAGATATG-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
78503235 ATGAT-TGCAATCTTAGATATGATATACAATCTTAGA-
1 ATGATATGCAATCTTAGATATGA-ATACAATCTTAGAT
78503271 A-GATATG
1 ATGATATG
78503278 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 19 0.47
36 8 0.20
37 13 0.32
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:78503837 original size:26 final size:26
Alignment explanation
Indices: 78503789--78503838 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
78503779 TTATAAATAT
* * * *
78503789 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
78503815 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
78503839 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:78505802 original size:22 final size:22
Alignment explanation
Indices: 78505760--78505802 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
78505750 GATATATAAT
*
78505760 AGATTAATTATAACGTAGAATC
1 AGATTAATTATAACGGAGAATC
*
78505782 AGATTAA-TATAATGGATGAAT
1 AGATTAATTATAACGGA-GAAT
78505803 AATCATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (22 bp):
AGATTAATTATAACGGAGAATC
Found at i:78507498 original size:17 final size:17
Alignment explanation
Indices: 78507473--78507524 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
78507463 CAATGATATG
*
78507473 CAATTTTAGATATGATA
1 CAATATTAGATATGATA
*
78507490 CAATATTAGATATGATTG
1 CAATATTAGATATGA-TA
*
78507508 CAATCTTAGATATGATA
1 CAATATTAGATATGATA
78507525 TGCAATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (17 bp):
CAATATTAGATATGATA
Found at i:78507543 original size:17 final size:19
Alignment explanation
Indices: 78507465--78507536 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
78507455 ATAATCTTCA
*
78507465 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
*
78507484 ATGATA--CAATATTAGAT
1 ATGATATGCAATCTTAGAT
78507501 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
78507519 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
78507537 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 15 0.31
19 18 0.38
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:78507562 original size:22 final size:22
Alignment explanation
Indices: 78507497--78507559 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
78507487 ATACAATATT
78507497 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
78507515 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
78507537 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
78507560 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:78508937 original size:3 final size:3
Alignment explanation
Indices: 78508931--78508960 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
78508921 TAGTAGTTCC
78508931 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
78508961 GTAAAACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:78511517 original size:39 final size:39
Alignment explanation
Indices: 78511471--78511610 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
78511461 GCTCTGATGA
*
78511471 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
* *
78511510 GCTTCAGTTAGCCTTC-AGGTTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGA-GCTTCCGTTTAGCACTTGTGT
* *
78511549 ACTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
* *
78511588 GCTTCAGCTAGACTTCGAGCTTC
1 GCTTCAGTTAGCCTTCGAGCTTC
78511611 AGATCACAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 88 0.99
40 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
Found at i:78513939 original size:15 final size:15
Alignment explanation
Indices: 78513919--78513947 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78513909 GGGTTCTTCC
78513919 GGTTTTGGCAATTCA
1 GGTTTTGGCAATTCA
78513934 GGTTTTGGCAATTC
1 GGTTTTGGCAATTC
78513948 GGGAACTTTT
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:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (15 bp):
GGTTTTGGCAATTCA
Found at i:78513959 original size:33 final size:33
Alignment explanation
Indices: 78513921--78514067 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
78513911 GTTCTTCCGG
* *
78513921 TTTTGGCAATTCAGGTTTTGGCAATTCGGGAAC
1 TTTTGGCAATTCAGGTTTTGGCAACTCAGGAAC
* * *
78513954 TTTTGGTAATTCAAGTTTTGGTC-CCTCAGGAAC
1 TTTTGGCAATTCAGGTTTTGG-CAACTCAGGAAC
* * * * *
78513987 TTTGGGCAATTCTGGTTTCGGTACCTCAGGAA-
1 TTTTGGCAATTCAGGTTTTGGCAACTCAGGAAC
* ** * *
78514019 TTTTAGGCAATTCTGGTTTTGTTAACTCGGGAAT
1 TTTT-GGCAATTCAGGTTTTGGCAACTCAGGAAC
*
78514053 TTTTGGTAATTCAGG
1 TTTTGGCAATTCAGG
78514068 AGCTTTGGGC
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
32 3 0.03
33 84 0.91
34 5 0.05
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39
Consensus pattern (33 bp):
TTTTGGCAATTCAGGTTTTGGCAACTCAGGAAC
Found at i:78513975 original size:15 final size:15
Alignment explanation
Indices: 78513920--78513974 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
78513910 GGTTCTTCCG
*
78513920 GTTTTGGCAATTCAG
1 GTTTTGGCAATTCAA
78513935 GTTTTGGCAATTCGGGAA
1 GTTTTGGCAATTC---AA
* *
78513953 CTTTTGGTAATTCAA
1 GTTTTGGCAATTCAA
78513968 GTTTTGG
1 GTTTTGG
78513975 TCCCTCAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 21 0.64
18 12 0.36
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (15 bp):
GTTTTGGCAATTCAA
Found at i:78514068 original size:84 final size:84
Alignment explanation
Indices: 78513969--78514227 Score: 275
Period size: 84 Copynumber: 3.1 Consensus size: 84
78513959 GTAATTCAAG
** * * * *
78513969 TTTTGGTCCCTCAGGAACTTTGGGCAATTCTGGTTTCGGTACCTCAGGAATTTTAGGCAATTCTG
1 TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
* *
78514034 GTTTTGTTAACTCGGGAAT
66 GCTTTGGTAACTCGGGAAT
* * * **
78514053 TTTTGGTAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCTGGAACTTTAGGCAATTCCA
1 TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
* * * * *
78514118 ACGTCGGTAACTCTGGAAC
66 GCTTTGGTAACTCGGGAAT
* * * * * * * *
78514137 TTTTGGCAACTCGGGAGCCTTGGGTAATTCAGGCTTGGGTACCTCGGGAACTTTAGGCAACTCTG
1 TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
*
78514202 GCTTTGGCAACTCGGGAAT
66 GCTTTGGTAACTCGGGAAT
78514221 TTTTGGT
1 TTTTGGT
78514228 GCTTCAAATT
Statistics
Matches: 138, Mismatches: 37, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
84 138 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (84 bp):
TTTTGGTAACTCAGGAGCTTTGGGCAATTCTGGCTTAGGTACCTCAGGAACTTTAGGCAATTCTG
GCTTTGGTAACTCGGGAAT
Found at i:78514410 original size:51 final size:51
Alignment explanation
Indices: 78514333--78514466 Score: 196
Period size: 51 Copynumber: 2.6 Consensus size: 51
78514323 TTTCATCTCG
* ** *
78514333 GGAACCTTAGGAAATTCAAGCATTGGCAACTCTGACACTTTTGGAAACTCA
1 GGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGACACTTTCGGAAACTCA
* * *
78514384 GGAACCTTAGGTAATTCAGGTTTTGGCAACTCTGGCACTTTCGGAAACTCG
1 GGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGACACTTTCGGAAACTCA
*
78514435 GGAACCTTAGGCAATTCAGGTTTTGGCAACTC
1 GGAACCTTAGGAAATTCAGGTTTTGGCAACTC
78514467 CGGAACTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (51 bp):
GGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGACACTTTCGGAAACTCA
Found at i:78514494 original size:18 final size:18
Alignment explanation
Indices: 78514455--78514496 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
78514445 GCAATTCAGG
78514455 TTTT-GGCAACTCCGGAA
1 TTTTAGGCAACTCCGGAA
* * *
78514472 CTTTAGGCAACTCTGGCA
1 TTTTAGGCAACTCCGGAA
78514490 TTTTAGG
1 TTTTAGG
78514497 TATTTCGGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (18 bp):
TTTTAGGCAACTCCGGAA
Found at i:78514496 original size:51 final size:51
Alignment explanation
Indices: 78514329--78514511 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
78514319 GTTTTTTCAT
* * ** * *
78514329 CTCGGGAACCTTAGGAAATTCAAGCATTGGCAACT-CTGACACTTTTGGAAA
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGA-ACTTTAGGAAA
* * * *
78514380 CTCAGGAACCTTAGGTAATTCAGGTTTTGGCAACTCTGGCACTTTCGGAAA
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGAACTTTAGGAAA
* *
78514431 CTCGGGAACCTTAGGCAATTCAGGTTTTGGCAACTCCGGAACTTTAGGCAA
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGAACTTTAGGAAA
* * ** * *
78514482 CTCTGGCATTTTAGGTATTTCGGGTTTTGG
1 CTCGGGAACCTTAGGTAATTCAGGTTTTGG
78514512 AATTTCTGGC
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
51 108 0.99
52 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (51 bp):
CTCGGGAACCTTAGGTAATTCAGGTTTTGGCAACTCCGGAACTTTAGGAAA
Found at i:78515848 original size:19 final size:20
Alignment explanation
Indices: 78515806--78515850 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
78515796 CTCTGTTTTT
*
78515806 TTTTTATATTCCCTCAATAT
1 TTTTTATATTCCCTCAATAG
* *
78515826 TTTTTGTATTTCCTC-ATAG
1 TTTTTATATTCCCTCAATAG
78515845 TTTTTA
1 TTTTTA
78515851 GTACTTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTTATATTCCCTCAATAG
Found at i:78515901 original size:20 final size:19
Alignment explanation
Indices: 78515861--78515945 Score: 84
Period size: 20 Copynumber: 4.4 Consensus size: 19
78515851 GTACTTATTC
**
78515861 ATAATTTTTATTATTCGCTT
1 ATAATTTTTA-TATTTTCTT
78515881 ATAATTTTTGATATTTTCTT
1 ATAATTTTT-ATATTTTCTT
* * *
78515901 A-ATTTTTTTTATTTTCTC
1 ATAATTTTTATATTTTCTT
78515919 ATAATTTTTAGTATTTTCTT
1 ATAATTTTTA-TATTTTCTT
78515939 AT-ATTTT
1 ATAATTTT
78515946 CCGGTAGTCC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 9 0.17
19 17 0.31
20 27 0.50
21 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.66
Consensus pattern (19 bp):
ATAATTTTTATATTTTCTT
Found at i:78515905 original size:18 final size:17
Alignment explanation
Indices: 78515882--78515945 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 17
78515872 TATTCGCTTA
78515882 TAATTTTTGATATTTTCT
1 TAATTTTT-ATATTTTCT
*
78515900 TAATTTTTTTTATTTTCT
1 TAA-TTTTTATATTTTCT
78515918 CATAATTTTTAGTATTTTCT
1 --TAATTTTTA-TATTTTCT
78515938 TATATTTT
1 TA-ATTTT
78515946 CCGGTAGTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 13 0.33
19 15 0.38
20 11 0.28
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
TAATTTTTATATTTTCT
Found at i:78515913 original size:38 final size:38
Alignment explanation
Indices: 78515838--78515945 Score: 119
Period size: 38 Copynumber: 2.8 Consensus size: 38
78515828 TTTGTATTTC
* *
78515838 CTCATAGTTTTTAGTACTTATTCATAATTTTTATTATTCG
1 CTCATAATTTTTAGTA-TT-TTCTTAATTTTTATTATTCG
* * **
78515878 CTTATAATTTTT-GATATTTTCTTAATTTTTTTTATTTT
1 CTCATAATTTTTAG-TATTTTCTTAATTTTTATTATTCG
78515916 CTCATAATTTTTAGTATTTTCTTATATTTT
1 CTCATAATTTTTAGTATTTTCTTA-ATTTT
78515946 CCGGTAGTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
38 37 0.64
39 9 0.16
40 12 0.21
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (38 bp):
CTCATAATTTTTAGTATTTTCTTAATTTTTATTATTCG
Found at i:78517412 original size:13 final size:13
Alignment explanation
Indices: 78517394--78517428 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
78517384 AGTTTGGCAA
78517394 TGCTTTTGAGAAC
1 TGCTTTTGAGAAC
*
78517407 TGCTTTTGAGAAG
1 TGCTTTTGAGAAC
78517420 TGCTTTTGA
1 TGCTTTTGA
78517429 AATTTGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAGAAC
Found at i:78518394 original size:7 final size:7
Alignment explanation
Indices: 78518357--78518399 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
78518347 TTGTTACTTA
78518357 ATAT-TT
1 ATATATT
78518363 ATATATT
1 ATATATT
78518370 AGTATATT
1 A-TATATT
78518378 ATATCA-T
1 ATAT-ATT
78518385 ATATATT
1 ATATATT
78518392 ATATATT
1 ATATATT
78518399 A
1 A
78518400 CAAGGTTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 5 0.15
7 20 0.61
8 8 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:78520271 original size:33 final size:33
Alignment explanation
Indices: 78520228--78520487 Score: 178
Period size: 33 Copynumber: 7.9 Consensus size: 33
78520218 TGGCATGCTA
* *
78520228 GGCAATTCAGGAACTTTAGGTAATTCAGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
** * * *
78520261 GGCAACTCAGGAGTTTTGGGCAATTCTGGTTTC
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * * *
78520294 GGTACCTCTGGAACTTTAGGCAATTCTGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
** * * * *
78520327 GTTAACTCGGGAATTTTAGGTAATTGAGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * * * * * * *
78520360 GGTAATTTAGGAGCTTTTGGCAATTCTGGCTTA
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * *
78520393 GGCACCTCAGGAACTTTTGGTAATTCAGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* *** * *
78520426 GGCAGCTCAGTCGCTTTGGGCAATTCTGGTTTT
1 GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
* * * *
78520459 GGTACCTCAGGAATTTTTGGCAATTCAGG
1 GGCAACTCAGGAACTTTAGGCAATTCAGG
78520488 AGCTTTGGGC
Statistics
Matches: 170, Mismatches: 57, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 170 1.00
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (33 bp):
GGCAACTCAGGAACTTTAGGCAATTCAGGTTTT
Found at i:78520418 original size:99 final size:99
Alignment explanation
Indices: 78520237--78520426 Score: 256
Period size: 99 Copynumber: 1.9 Consensus size: 99
78520227 AGGCAATTCA
* * *
78520237 GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGGCAATTCTGGTTTCGGTACCTC
1 GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGGCAATTCTGGCTTAGGCACCTC
* *
78520302 TGGAACTTTAGGCAATTCTGGTTTTGTTAACTCG
66 AGGAACTTTAGGCAATTCAGGTTTTGTTAACTCG
* * * * *
78520336 GGAATTTTAGGTAATTGAGGTTTTGGTAATTTAGGAGCTTTT-GGCAATTCTGGCTTAGGCACCT
1 GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAG-TTTTGGGCAATTCTGGCTTAGGCACCT
* *
78520400 CAGGAACTTTTGGTAATTCAGGTTTTG
65 CAGGAACTTTAGGCAATTCAGGTTTTG
78520427 GCAGCTCAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 74 0.95
100 4 0.05
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (99 bp):
GGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGGCAATTCTGGCTTAGGCACCTC
AGGAACTTTAGGCAATTCAGGTTTTGTTAACTCG
Found at i:78520493 original size:51 final size:51
Alignment explanation
Indices: 78520438--78520535 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
78520428 CAGCTCAGTC
* * * * *
78520438 GCTTTGGGCAA-TTCTGGTTTTGGTACCTCAGGAATTTTTGGCAATTCAGGA
1 GCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGA
78520489 GCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTC
1 GCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTC
78520536 TGGCTTTGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 37 0.90
52 4 0.10
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (51 bp):
GCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGA
Found at i:78520520 original size:33 final size:32
Alignment explanation
Indices: 78520474--78520823 Score: 254
Period size: 33 Copynumber: 10.6 Consensus size: 32
78520464 CTCAGGAATT
* *
78520474 TTTGGCAATTCAGGAGCTTTGGGCAATTTCTGC
1 TTTGGCAACTCAGGAACTTTGGGCAA-TTCTGC
* * *
78520507 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTCT-GC
* * ** *
78520540 TTTGGTAACTCAGGAACTTTTGGTGATTCAAGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * * *
78520573 TTTGGCAACTCGGGAGCTTTGGGTAATTCAGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * *
78520606 TTGGGC-ACTTCAGGAGCTTTGGGCAATTCCGGC
1 TTTGGCAAC-TCAGGAACTTTGGGCAATT-CTGC
* * *
78520639 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTCT-GC
* * *
78520672 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTCT-GC
* * * * *
78520705 TTTGGTAACTCAGGAACTTTTGGTAATTCAGGT
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * *
78520738 TTTGGCAACTCAGGAGCTTTGGGTAATTCAGGC
1 TTTGGCAACTCAGGAACTTTGGGCAATTC-TGC
* * *
78520771 TTGGGC-ACTTCAGGAACTTTAGGAAATTCTGGC
1 TTTGGCAAC-TCAGGAACTTTGGGCAATTCT-GC
* *
78520804 TTTGGTAACTCCGGAACTTT
1 TTTGGCAACTCAGGAACTTT
78520824 TGGTGCTTCA
Statistics
Matches: 262, Mismatches: 45, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
32 9 0.03
33 249 0.95
34 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (32 bp):
TTTGGCAACTCAGGAACTTTGGGCAATTCTGC
Found at i:78520577 original size:117 final size:117
Alignment explanation
Indices: 78520356--78520577 Score: 266
Period size: 117 Copynumber: 1.9 Consensus size: 117
78520346 GTAATTGAGG
* * * * *
78520356 TTTTGGTAATTTAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTCAGGAACTTTTGGTAATTCAG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
* * *** ** *
78520421 GTTTTGGCAGCTCAGTCGCTTTGGGCAATTCTGGTTTTGGTACCTCAGGAAT
66 GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGTACCTCAGGAAT
*
78520473 TTTTGGCAATTCAGGAGCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCT
1 TTTTGGCAATTCAGGAGCTTTGGGCAA-TTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCA
* * **
78520537 GGCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGG
65 GGCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGG
78520578 CAACTCGGGA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
117 82 0.95
118 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (117 bp):
TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGTACCTCAGGAAT
Found at i:78520601 original size:117 final size:117
Alignment explanation
Indices: 78520360--78520604 Score: 258
Period size: 117 Copynumber: 2.1 Consensus size: 117
78520350 TTGAGGTTTT
* * * * *
78520360 GGTAATTTAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTCAGGAACTTTTGGTAATTCAGGTTT
1 GGTAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGCTT
* *** ** * * * * *
78520425 TGGCAGCTCAGTCGCTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTT
66 TGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGCAACTCAGGAACTTTG
* *
78520477 GGCAATTCAGGAGCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCT
1 GGTAATTCAGGAGCTTTGGGCAA-TTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGCT
* * ** * *
78520541 TTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGGCAACTCGGGAGCTTTG
65 TTGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGCAACTCAGGAACTTTG
78520594 GGTAATTCAGG
1 GGTAATTCAGG
78520605 CTTGGGCACT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
117 98 0.96
118 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (117 bp):
GGTAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAGGCTT
TGGCAACTCAGGAACTTTGGGCAATTCAAGCTTTGGCAACTCAGGAACTTTG
Found at i:78520607 original size:66 final size:66
Alignment explanation
Indices: 78520474--78520823 Score: 328
Period size: 66 Copynumber: 5.3 Consensus size: 66
78520464 CTCAGGAATT
* * * * * * *
78520474 TTTGGCAATTCAGGAGCTTTGGGCAATTTC-TGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
1 TTTGGCAACTCAGGAACTTTGGGTAA-TTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTG
78520538 GC
65 GC
* * * * * * * *
78520540 TTTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGGCAACTCGGGAGCTTTGGGTAATTCAGG
1 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTGG
78520605 C
66 C
* * * * * * *
78520606 TTGGGC-ACTTCAGGAGCTTTGGGCAATTCCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
1 TTTGGCAAC-TCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTG
78520670 GC
65 GC
* * * * * * * *
78520672 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTAATTCAGG
1 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTGG
*
78520737 T
66 C
* * *
78520738 TTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTGGGC-ACTTCAGGAACTTTAGGAAATTCTG
1 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAAC-TCAGGAACTTTAGGTAATTCTG
78520802 GC
65 GC
* *
78520804 TTTGGTAACTCCGGAACTTT
1 TTTGGCAACTCAGGAACTTT
78520824 TGGTGCTTCA
Statistics
Matches: 224, Mismatches: 56, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
65 7 0.03
66 216 0.96
67 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (66 bp):
TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTTGGCAACTCAGGAACTTTAGGTAATTCTGG
C
Found at i:78520629 original size:18 final size:18
Alignment explanation
Indices: 78520570--78520634 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
78520560 TGGTGATTCA
* *
78520570 AGCTTT-GGCAACTCGGG
1 AGCTTTGGGCAATTCAGG
*
78520587 AGCTTTGGGTAATTCA-G
1 AGCTTTGGGCAATTCAGG
*
78520604 -GC-TTGGGCACTTCAGG
1 AGCTTTGGGCAATTCAGG
78520620 AGCTTTGGGCAATTC
1 AGCTTTGGGCAATTC
78520635 CGGCTTAGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
15 10 0.26
16 3 0.08
17 9 0.24
18 16 0.42
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.29
Consensus pattern (18 bp):
AGCTTTGGGCAATTCAGG
Found at i:78520662 original size:18 final size:18
Alignment explanation
Indices: 78520639--78520696 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
78520629 CAATTCCGGC
78520639 TTAGGCACCTCAGGAACT
1 TTAGGCACCTCAGGAACT
** *
78520657 TTAGGCAATTCTGG--C-
1 TTAGGCACCTCAGGAACT
78520672 TTAGGCACCTCAGGAACT
1 TTAGGCACCTCAGGAACT
78520690 TTAGGCA
1 TTAGGCA
78520697 ATTCTGGCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 11 0.35
16 1 0.03
17 1 0.03
18 18 0.58
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (18 bp):
TTAGGCACCTCAGGAACT
Found at i:78520728 original size:18 final size:17
Alignment explanation
Indices: 78520705--78520769 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
78520695 CAATTCTGGC
78520705 TTTGGTAACTCAGGAACT
1 TTTGGTAACTCAGG-ACT
*
78520723 TTTGGTAATTCAGG--T
1 TTTGGTAACTCAGGACT
*
78520738 TTTGGCAACTCAGGAGCT
1 TTTGGTAACTCAGGA-CT
* *
78520756 TTGGGTAATTCAGG
1 TTTGGTAACTCAGG
78520770 CTTGGGCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.34
18 25 0.66
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (17 bp):
TTTGGTAACTCAGGACT
Found at i:78520791 original size:99 final size:99
Alignment explanation
Indices: 78520477--78520826 Score: 337
Period size: 99 Copynumber: 3.5 Consensus size: 99
78520467 AGGAATTTTT
* * * * * * * *
78520477 GGCAATTCAGGAGCTTTGGGCAATTTCT-GCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCT
1 GGCACTTCAGGAACTTTAGGCAA-TTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGGCT
* * * * *
78520541 TTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTT
65 TTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
* * * * * ** * * *
78520576 GGCAAC-TCGGGAGCTTTGGGTAATTCAGGC-TTGGGCACTTCAGGAGCTTTGGGCAATTCCGGC
1 GGC-ACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAAC-TCAGGAACTTTTGGCAATTCAGGC
* * * * *
78520639 TTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTTA
64 TTTGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
* * *
78520675 GGCACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTT
1 GGCACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGGCTT
* *
78520740 TGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTG
66 TGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
* *
78520774 GGCACTTCAGGAACTTTAGGAAATTCTGGCTTTGGTAACTCCGGAACTTTTGG
1 GGCACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGG
78520827 TGCTTCAGAT
Statistics
Matches: 204, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
98 9 0.04
99 188 0.92
100 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (99 bp):
GGCACTTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGGCTT
TGGCAACTCAGGAACTTTGGGTAATTCAGGCTTA
Found at i:78520820 original size:132 final size:131
Alignment explanation
Indices: 78520473--78520823 Score: 470
Period size: 132 Copynumber: 2.7 Consensus size: 131
78520463 CCTCAGGAAT
* *
78520473 TTTTGGCAATTCAGGAGCTTTGGGCAATTTCTGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAACTCAGGAGCTTTGGGCAA-TTCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
* ** * *
78520538 GCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGCTTTGGCAACTCGGGAGCTTTGGGTAATTCA
65 GCTTTGGTAACTCAGGAACTTTAGGCAATTCAAGCTTTGGCAACTCAGGAACTTTGGGTAATTCA
78520603 GG
130 GG
* *
78520605 CTTGGGC-ACTTCAGGAGCTTTGGGCAATTCCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCT
1 TTTTGGCAAC-TCAGGAGCTTTGGGCAATT-CGGCTTAGGCACCTCAGGAACTTTAGGCAATTCT
* * * ** * *
78520669 GGCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTAATTC
64 GGCTTTGGTAACTCAGGAACTTTAGGCAATTCAAGCTTTGGCAACTCAGGAACTTTGGGTAATTC
78520734 AGG
129 AGG
* * * *
78520737 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAATTCTG
1 TTTTGGCAACTCAGGAGCTTTGGGCAATTC-GGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
*
78520802 GCTTTGGTAACTCCGGAACTTT
65 GCTTTGGTAACTCAGGAACTTT
78520824 TGGTGCTTCA
Statistics
Matches: 189, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
131 4 0.02
132 183 0.97
133 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (131 bp):
TTTTGGCAACTCAGGAGCTTTGGGCAATTCGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTGG
CTTTGGTAACTCAGGAACTTTAGGCAATTCAAGCTTTGGCAACTCAGGAACTTTGGGTAATTCAG
G
Found at i:78520827 original size:99 final size:99
Alignment explanation
Indices: 78520642--78520861 Score: 296
Period size: 99 Copynumber: 2.2 Consensus size: 99
78520632 TTCCGGCTTA
* * * * *
78520642 GGCACCTCAGGAACTTTAGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
1 GGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGAAATTCTGGCTT
*
78520707 TGGTAACTCAGGAACTTTTGGTAATTCAGGTTTT
66 TGGTAACTCAGGAACTTTTGGTAATTCAGATTTT
* * *
78520741 GGCAACTCAGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAATTCTGGCTT
1 GGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGAAATTCTGGCTT
* **
78520806 TGGTAACTCCGGAACTTTTGGTGCTTCAGATTTT
66 TGGTAACTCAGGAACTTTTGGTAATTCAGATTTT
* * * *
78520840 GACAATTTAGGAGCATTGGGCA
1 GGCAACTCAGGAGCTTTGGGCA
78520862 TCTCTGGAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (99 bp):
GGCAACTCAGGAGCTTTGGGCAATTCAGGCTTAGGCACCTCAGGAACTTTAGGAAATTCTGGCTT
TGGTAACTCAGGAACTTTTGGTAATTCAGATTTT
Found at i:78520973 original size:51 final size:51
Alignment explanation
Indices: 78520894--78521042 Score: 183
Period size: 51 Copynumber: 2.9 Consensus size: 51
78520884 AGGTTTTTTC
* *
78520894 AACTCAGGAATCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCGGA
1 AACTCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCAGA
* * * *
78520945 AACTCAGGAACCTTGGGTAATTCTGGTTTTGGCAATTCTGGAACTTTCAGA
1 AACTCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCAGA
* * * * *
78520996 AACTTC-GGAACCTCAGGCAATTCGGGCTTTGGCAACTCCGGAACTTT
1 AAC-TCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTT
78521043 AGGCAATTCA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 82 0.98
52 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (51 bp):
AACTCAGGAACCTTAGGAAATTCAGGTTTTGGCAACTCTGGAACTTTCAGA
Found at i:78521047 original size:33 final size:33
Alignment explanation
Indices: 78520996--78521066 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
78520986 AACTTTCAGA
* *
78520996 AACTTCGGAACCTCAGGCAATTCGGGCTTTGGC
1 AACTCCGGAACCTCAGGCAATTCAGGCTTTGGC
* * *
78521029 AACTCCGGAACTTTAGGCAATTCAGGTTTTGGC
1 AACTCCGGAACCTCAGGCAATTCAGGCTTTGGC
78521062 AACTC
1 AACTC
78521067 AGGCATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (33 bp):
AACTCCGGAACCTCAGGCAATTCAGGCTTTGGC
Found at i:78521077 original size:33 final size:33
Alignment explanation
Indices: 78521010--78521090 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
78521000 TCGGAACCTC
* * *
78521010 AGGCAATTCGGGCTTTGGCAACTCCGGAACTTT
1 AGGCAATTCAGGTTTTGGCAACTCAGGAACTTT
* *
78521043 AGGCAATTCAGGTTTTGGCAACTCAGGCATTTT
1 AGGCAATTCAGGTTTTGGCAACTCAGGAACTTT
* *
78521076 AGGTATTTCAGGTTT
1 AGGCAATTCAGGTTT
78521091 CGGGATTTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (33 bp):
AGGCAATTCAGGTTTTGGCAACTCAGGAACTTT
Found at i:78523657 original size:47 final size:47
Alignment explanation
Indices: 78523559--78523719 Score: 218
Period size: 46 Copynumber: 3.5 Consensus size: 47
78523549 TGATGTCATA
* * *
78523559 GTATCTTTCAACCATGGTTTTACTCGTTTT-CTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTAATCATTTTCCTGTCATGTTGCCATG
* * *
78523605 GTATCTTTCAACCATTGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTAATCATTTTCCTGTCATGTTGCCATG
* * * *
78523652 GTATCTTTCAACCATGGTCTTAAACA-TTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTAATCATTTTCCTGTCATGTTGCCATG
78523698 GTATCTTTCAACCATGGTCTTA
1 GTATCTTTCAACCATGGTCTTA
78523720 CACATTCCAT
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 64 0.63
47 38 0.37
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTAATCATTTTCCTGTCATGTTGCCATG
Found at i:78526739 original size:24 final size:25
Alignment explanation
Indices: 78526712--78526760 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
78526702 CTTTTTTTAT
*
78526712 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
78526736 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
78526761 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:78526753 original size:25 final size:23
Alignment explanation
Indices: 78526724--78526787 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
78526714 AATAAAAAAC
*
78526724 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
78526749 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
78526770 -TTAAAAC--AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
78526788 AAAAATAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
18 10 0.27
20 7 0.19
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:78528140 original size:21 final size:21
Alignment explanation
Indices: 78528114--78528155 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78528104 GGCCCAGACC
78528114 AACAAACAAACAAAAACAAAA
1 AACAAACAAACAAAAACAAAA
* * *
78528135 AACAAACTAACTAAAATAAAA
1 AACAAACAAACAAAAACAAAA
78528156 GTCCATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.17, G:0.00, T:0.07
Consensus pattern (21 bp):
AACAAACAAACAAAAACAAAA
Found at i:78531740 original size:48 final size:48
Alignment explanation
Indices: 78531678--78531823 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 48
78531668 TACAAGATAA
**
78531678 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
78531726 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAGTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
78531774 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
78531822 AT
1 AT
78531824 GTGTGTATAT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:78532014 original size:37 final size:37
Alignment explanation
Indices: 78531964--78532034 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
78531954 GGAAATATAT
*
78531964 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
78532001 TCCGGGTAAGACCCGATAACTACGTGTGGGGATT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATT
78532035 ATTCGAGCTA
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:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:78533718 original size:52 final size:49
Alignment explanation
Indices: 78533662--78533778 Score: 114
Period size: 50 Copynumber: 2.3 Consensus size: 49
78533652 TTAGACTATT
* **
78533662 TTATTTATTTTAAATTTCATATATTGA-ACTTTTTTAAATTGTTTTAGATACA
1 TTATTTATTTTAAATTTCATATACT-ATAC-ACTTTAAATTGTTTT-G-TACA
**
78533714 TTATTTTAAATT--ATTTCATATACTATACACTTTAAATTGTTTTGTACA
1 TTA-TTTATTTTAAATTTCATATACTATACACTTTAAATTGTTTTGTACA
*
78533762 TTGTTTATTTTAAATTT
1 TTATTTATTTTAAATTT
78533779 GTTTAATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
47 6 0.11
48 6 0.11
49 5 0.09
50 14 0.26
51 13 0.25
52 3 0.06
53 6 0.11
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (49 bp):
TTATTTATTTTAAATTTCATATACTATACACTTTAAATTGTTTTGTACA
Found at i:78533852 original size:48 final size:48
Alignment explanation
Indices: 78533765--78533858 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
78533755 TTGTACATTG
* * *
78533765 TTTATTTTAAATTTGTTTAATGTATTATCCATTTTAAATTGTTTTATTA
1 TTTACTTTAAATTTGTTTAATGTATTATCAATTTCAAATT-TTTTATTA
* *
78533814 TTTACTTTAAATTT-TTTCATGTATTATTAATTTCAAATTTTTTAT
1 TTTACTTTAAATTTGTTTAATGTATTATCAATTTCAAATTTTTTAT
78533859 ATGTTTATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 6 0.15
48 21 0.52
49 13 0.32
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (48 bp):
TTTACTTTAAATTTGTTTAATGTATTATCAATTTCAAATTTTTTATTA
Found at i:78533872 original size:26 final size:27
Alignment explanation
Indices: 78533767--78533873 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 27
78533757 GTACATTGTT
78533767 TATTTTAAATTTGTTTA-ATGTATTATC
1 TATTTTAAATTT-TTTATATGTATTATC
* *
78533794 CATTTTAAATTGTTT-TAT-TA-T-T-
1 TATTTTAAATTTTTTATATGTATTATC
* *
78533816 TACTTTAAATTTTTT-CATGTATTAT-
1 TATTTTAAATTTTTTATATGTATTATC
*
78533841 TAATTTCAAATTTTTTATATGT-TTATC
1 T-ATTTTAAATTTTTTATATGTATTATC
78533868 TATTTT
1 TATTTT
78533874 TTTTATATCC
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
22 14 0.22
23 3 0.05
24 2 0.03
25 4 0.06
26 25 0.40
27 15 0.24
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.62
Consensus pattern (27 bp):
TATTTTAAATTTTTTATATGTATTATC
Found at i:78536384 original size:21 final size:20
Alignment explanation
Indices: 78536359--78536421 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
78536349 TGTTATTTAA
78536359 TATTTACATTATAATATATAT
1 TATTT-CATTATAATATATAT
78536380 TATTT-A-TATAATATTATAT
1 TATTTCATTATAATA-TATAT
* *
78536399 TATATCATATATATTATATAT
1 TATTTCAT-TATAATATATAT
78536420 TA
1 TA
78536422 CAAGGTTCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 7 0.19
19 10 0.28
20 1 0.03
21 12 0.33
22 6 0.17
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTCATTATAATATATAT
Found at i:78536389 original size:11 final size:10
Alignment explanation
Indices: 78536368--78536418 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
78536358 ATATTTACAT
78536368 TATAATA-TA
1 TATAATATTA
*
78536377 TATTAT-TTA
1 TATAATATTA
78536386 TATAATATTA
1 TATAATATTA
* *
78536396 TATTATATCA
1 TATAATATTA
78536406 TAT-ATATTA
1 TATAATATTA
78536415 TATA
1 TATA
78536419 TTACAAGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
TATAATATTA
Found at i:78536393 original size:5 final size:5
Alignment explanation
Indices: 78536375--78536417 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
78536365 CATTATAATA
* *
78536375 TATAT TAT-T TATAT AATAT TATAT TATAT CATA- TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
78536418 ATTACAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:78537447 original size:13 final size:13
Alignment explanation
Indices: 78537426--78537459 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
78537416 TCATTTGAAG
78537426 AAATTTATAAATT
1 AAATTTATAAATT
* *
78537439 AAGTTTATAATTT
1 AAATTTATAAATT
78537452 AAATTTAT
1 AAATTTAT
78537460 TCATATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
AAATTTATAAATT
Found at i:78538855 original size:33 final size:33
Alignment explanation
Indices: 78538818--78539101 Score: 244
Period size: 33 Copynumber: 8.6 Consensus size: 33
78538808 GCTAGGCAAT
* * *
78538818 TCAGGAACTTTAGGTAATTCAGGTTTTGGCAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
** * * *
78538851 TCAGGAGTTTTGGGCAATTCTGGTTTCGGTACC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* *
78538884 TCTGGAACTTTAGGCAATTCTGGTTTTGTTAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* * * * ** *
78538917 CCGGGAATTTTAGGTAATTGAGGTTTTGGTAAT
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* * * * * *
78538950 TCAGGAGCTTTTGGCAATTCTGGCTTAGGCACC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* * * * *
78538983 TCTGGAACTTTTGGTAATTCAGGTTTTGGCAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
** * *
78539016 TCAGTCACTTTGGGCAATTCTGGTTTTGGTACC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* *
78539049 TCAGGAATTTTAGGCAATTCTGGTTTTGTTAAC
1 TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
* *
78539082 TCAGGAATTTTTGGCAATTC
1 TCAGGAACTTTAGGCAATTC
78539102 AGGAGCTTTG
Statistics
Matches: 193, Mismatches: 58, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 193 1.00
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (33 bp):
TCAGGAACTTTAGGCAATTCTGGTTTTGGTAAC
Found at i:78539041 original size:99 final size:99
Alignment explanation
Indices: 78538819--78539071 Score: 292
Period size: 99 Copynumber: 2.6 Consensus size: 99
78538809 CTAGGCAATT
* * * * *
78538819 CAGGAACTTTAGGTAATTCAGGTTTTGGCAACTCAGGAGTTTTGGGCAATTCTGGTTTCGGTACC
1 CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAGTTTTAGGCAATTCTGGCTTAGGCACC
* **
78538884 TCTGGAACTTTAGGCAATTCTGGTTTTGTTAACC
66 TCTGGAACTTTAGGCAATTCAGGTTTTGGCAACC
* * * *
78538918 CGGGAATTTTAGGTAATTGAGGTTTTGGTAATTCAGGAGCTTTT-GGCAATTCTGGCTTAGGCAC
1 CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAG-TTTTAGGCAATTCTGGCTTAGGCAC
* * *
78538982 CTCTGGAACTTTTGGTAATTCAGGTTTTGGCAACT
65 CTCTGGAACTTTAGGCAATTCAGGTTTTGGCAACC
** * * * * *
78539017 CAGTCACTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCAATTCTGG
1 CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAGTTTTAGGCAATTCTGG
78539072 TTTTGTTAAC
Statistics
Matches: 127, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
98 4 0.03
99 119 0.94
100 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (99 bp):
CAGGAACTTTAGGTAATTCAGGTTTTGGTAACTCAGGAGTTTTAGGCAATTCTGGCTTAGGCACC
TCTGGAACTTTAGGCAATTCAGGTTTTGGCAACC
Found at i:78539103 original size:18 final size:18
Alignment explanation
Indices: 78539082--78539374 Score: 76
Period size: 18 Copynumber: 17.6 Consensus size: 18
78539072 TTTTGTTAAC
* *
78539082 TCAGGAATTTTTGGCAAT
1 TCAGGAACTTTGGGCAAT
*
78539100 TCAGGAGCTTTGGGCAAT
1 TCAGGAACTTTGGGCAAT
* * *
78539118 TCTGG--C-TTAGGCACT
1 TCAGGAACTTTGGGCAAT
*
78539133 TCAGGAACTTTAGGCAAT
1 TCAGGAACTTTGGGCAAT
* * *
78539151 TCTGG--CTTT-GGTAAC
1 TCAGGAACTTTGGGCAAT
* **
78539166 TCAGGAACTTTTGGTGAT
1 TCAGGAACTTTGGGCAAT
* * *
78539184 TC---AAGTTTTGGCAAC
1 TCAGGAACTTTGGGCAAT
* * *
78539199 TCGGGAGCTTTGGGTAAT
1 TCAGGAACTTTGGGCAAT
*
78539217 TCAGG--C-TTGGGCACT
1 TCAGGAACTTTGGGCAAT
*
78539232 TCAGGAGCTTTGGGCAAT
1 TCAGGAACTTTGGGCAAT
* * * **
78539250 TC-CG-AC-TTAGGTACC
1 TCAGGAACTTTGGGCAAT
*
78539265 TCAGGAACTTTAGGCAAT
1 TCAGGAACTTTGGGCAAT
* * *
78539283 TCTGG--CTTT-GGTAAC
1 TCAGGAACTTTGGGCAAT
* *
78539298 TCAGGAACTTTTGGTAAT
1 TCAGGAACTTTGGGCAAT
* *
78539316 TCAGG---TTTTGGCAAC
1 TCAGGAACTTTGGGCAAT
* * *
78539331 TCGGGAGCTTTGGGTAAT
1 TCAGGAACTTTGGGCAAT
*
78539349 TCAGG--C-TTGGGCACT
1 TCAGGAACTTTGGGCAAT
78539364 TCAGGAACTTT
1 TCAGGAACTTT
78539375 AGGAAATTCT
Statistics
Matches: 200, Mismatches: 51, Indels: 48
0.67 0.17 0.16
Matches are distributed among these distances:
15 81 0.41
16 13 0.06
17 14 0.07
18 92 0.46
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (18 bp):
TCAGGAACTTTGGGCAAT
Found at i:78539149 original size:33 final size:32
Alignment explanation
Indices: 78539091--78539383 Score: 208
Period size: 33 Copynumber: 8.9 Consensus size: 32
78539081 CTCAGGAATT
* * *
78539091 TTTGGCAATTCAGGAGCTTTGGGCAATTCTGGC
1 TTTGGC-ACTCAGGAACTTTGGGCAATTCAGGC
* * *
78539124 TTAGGCACTTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCAC-TCAGGAACTTTGGGCAATTCAGGC
* * ** * *
78539157 TTTGGTAACTCAGGAACTTTTGGTGATTCAAGT
1 TTTGG-CACTCAGGAACTTTGGGCAATTCAGGC
* * *
78539190 TTTGGCAACTCGGGAGCTTTGGGTAATTCAGGC
1 TTTGGC-ACTCAGGAACTTTGGGCAATTCAGGC
* * * *
78539223 TTGGGCACTTCAGGAGCTTTGGGCAATTCCGAC
1 TTTGGCAC-TCAGGAACTTTGGGCAATTCAGGC
* * * *
78539256 TTAGGTACCTCAGGAACTTTAGGCAATTCTGGC
1 TTTGGCA-CTCAGGAACTTTGGGCAATTCAGGC
* * * *
78539289 TTTGGTAACTCAGGAACTTTTGGTAATTCAGGT
1 TTTGG-CACTCAGGAACTTTGGGCAATTCAGGC
* * *
78539322 TTTGGCAACTCGGGAGCTTTGGGTAATTCAGGC
1 TTTGGC-ACTCAGGAACTTTGGGCAATTCAGGC
* * *
78539355 TTGGGCACTTCAGGAACTTTAGGAAATTC
1 TTTGGCAC-TCAGGAACTTTGGGCAATTC
78539384 TAGATTTGGT
Statistics
Matches: 206, Mismatches: 46, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
32 5 0.02
33 197 0.96
34 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (32 bp):
TTTGGCACTCAGGAACTTTGGGCAATTCAGGC
Found at i:78539186 original size:84 final size:84
Alignment explanation
Indices: 78539006--78539179 Score: 242
Period size: 84 Copynumber: 2.1 Consensus size: 84
78538996 GTAATTCAGG
* * * * * *
78539006 TTTTGGCAACTCAGTCA-CTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCAATTCT
1 TTTTGGCAATTCAG-GAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCT
* * *
78539070 GGTTTTGTTAACTCAGGAAT
65 GGCTTTGGTAACTCAGGAAC
*
78539090 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
78539155 GCTTTGGTAACTCAGGAAC
66 GCTTTGGTAACTCAGGAAC
78539174 TTTTGG
1 TTTTGG
78539180 TGATTCAAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 78 0.99
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (84 bp):
TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCTG
GCTTTGGTAACTCAGGAAC
Found at i:78539197 original size:132 final size:132
Alignment explanation
Indices: 78539094--78539383 Score: 463
Period size: 132 Copynumber: 2.2 Consensus size: 132
78539084 AGGAATTTTT
* * *
78539094 GGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTGGCTT
1 GGCAATTCAGGAGCTTTGGGCAATTCCGACTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
* *
78539159 TGGTAACTCAGGAACTTTTGGTGATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCT
66 TGGTAACTCAGGAACTTTTGGTAATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAACTCAGGCT
78539224 TG
131 TG
* *
78539226 GGCACTTCAGGAGCTTTGGGCAATTCCGACTTAGGTACCTCAGGAACTTTAGGCAATTCTGGCTT
1 GGCAATTCAGGAGCTTTGGGCAATTCCGACTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
* *
78539291 TGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCT
66 TGGTAACTCAGGAACTTTTGGTAATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAACTCAGGCT
78539356 TG
131 TG
* * * *
78539358 GGCACTTCAGGAACTTTAGGAAATTC
1 GGCAATTCAGGAGCTTTGGGCAATTC
78539384 TAGATTTGGT
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 148 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (132 bp):
GGCAATTCAGGAGCTTTGGGCAATTCCGACTTAGGCACCTCAGGAACTTTAGGCAATTCTGGCTT
TGGTAACTCAGGAACTTTTGGTAATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAACTCAGGCT
TG
Found at i:78539221 original size:84 final size:83
Alignment explanation
Indices: 78539049--78539203 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 83
78539039 TTTTGGTACC
* * * *
78539049 TCAGGAATTTTAGGCAATTCTGGTTTTGTTAACTCAGGAATTTTTGGCAATTCAGGAGCTTTGGG
1 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCA-GAGCTTTGGG
* * *
78539114 CAATTCTGGCTTAGGCACT
65 CAACTCGGGCTTAGGCAAT
** *
78539133 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTGATTCA-AG-TTTTGGC
1 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGAGCTTTGGGC
78539196 AACTCGGG
66 AACTCGGG
78539204 AGCTTTGGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 12 0.19
82 2 0.03
84 48 0.77
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (83 bp):
TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGAGCTTTGGGC
AACTCGGGCTTAGGCAAT
Found at i:78539236 original size:150 final size:150
Alignment explanation
Indices: 78538940--78539251 Score: 329
Period size: 150 Copynumber: 2.1 Consensus size: 150
78538930 GTAATTGAGG
* * * * *
78538940 TTTTGGTAATTCAGGAGCTTTTGGCAATTCTGGCTTAGGCACCTCTGGAACTTTTGGTAATTCAG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
* ** ** * * * *
78539005 GTTTTGGCAACTCAGTCACTTTGGGCAATTCTGGTTTTGGTACCTCAGGAATTTTAGGCAATTCT
66 GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGTTTTGGCAACTCAGGAACTTTAGGCAATTCA
* ** *
78539070 GGTTTTGTTAACTCAGGAAT
131 GGTCTTGGGAACTCAGGAAC
* *
78539090 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
* * ** * * * *
78539155 GCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAATTCA
66 GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGTTTTGGCAACTCAGGAACTTTAGGCAATTCA
* *
78539220 GG-CTTGGGCACTTCAGGAGC
131 GGTCTTGGGAAC-TCAGGAAC
*
78539240 TTTGGGCAATTC
1 TTTTGGCAATTC
78539252 CGACTTAGGT
Statistics
Matches: 130, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
149 5 0.04
150 125 0.96
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (150 bp):
TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACCTCAGGAACTTTAGGCAATTCAG
GCTTTGGCAACTCAGGAACTTTGGGCAATTCAAGTTTTGGCAACTCAGGAACTTTAGGCAATTCA
GGTCTTGGGAACTCAGGAAC
Found at i:78539268 original size:99 final size:99
Alignment explanation
Indices: 78539090--78539407 Score: 314
Period size: 99 Copynumber: 3.2 Consensus size: 99
78539080 ACTCAGGAAT
* * * * * *
78539090 TTTTGGCAATTCAGGAGCTTTGGGCAATTCTGGCTTAGGCACTTCAGGAACTTTAGGCAATTCTG
1 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGCACTTCAGGAGCTTTGGGCAATTCAG
* * * **
78539155 GCTTTGGTAACTCAGGAACTTTTGGTGATTCAAG
66 GCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
* * *
78539189 TTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAGCTTTGGGCAATTCCG
1 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGCACTTCAGGAGCTTTGGGCAATTCAG
* **
78539254 ACTTAGGTACCTCAGGAACTTTAGGCAATTCTGG
66 GCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
* * * * * * * *
78539288 CTTTGGTAACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAAC-TCGGGAGCTTTGGGTAATTCA
1 TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGC-ACTTCAGGAGCTTTGGGCAATTCA
* * * * *
78539352 GGCTTGGGCACTTCAGGAACTTTAGGAAATTCTAG
65 GGCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
* * * *
78539387 ATTTGGTAACTCCGGAACTTT
1 TTTTGGCAACTCAGGAGCTTT
78539408 TGGTGCTTCA
Statistics
Matches: 184, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
99 182 0.99
100 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (99 bp):
TTTTGGCAACTCAGGAGCTTTGGGTAATTCAGGCTTAGGCACTTCAGGAGCTTTGGGCAATTCAG
GCTTAGGTACCTCAGGAACTTTAGGCAATTCAAG
Found at i:78539404 original size:33 final size:32
Alignment explanation
Indices: 78539133--78539422 Score: 166
Period size: 33 Copynumber: 8.8 Consensus size: 32
78539123 CTTAGGCACT
* * *
78539133 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * * *
78539166 TCAGGAACTTTTGGTGATTCAAGTTTTGGCAAC
1 TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * * ** **
78539199 TCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTAGGTAATTCAGATTTGGTAAC
* * * * * *
78539231 TTCAGGAGCTTTGGGCAATTCCGACTTAGGTACC
1 -TCAGGAACTTTAGGTAATTCAGA-TTTGGTAAC
* * *
78539265 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAAC
1 TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * *
78539298 TCAGGAACTTTTGGTAATTCAGGTTTTGGCAAC
1 TCAGGAACTTTAGGTAATTCA-GATTTGGTAAC
* * * ** **
78539331 TCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTAGGTAATTCAGATTTGGTAAC
*
78539363 TTCAGGAACTTTAGGAAATTCTAGATTTGGTAAC
1 -TCAGGAACTTTAGGTAATTC-AGATTTGGTAAC
* * **
78539397 TCCGGAACTTTTGGTGCTTCAGATTT
1 TCAGGAACTTTAGGTAATTCAGATTT
78539423 TGACAATTTA
Statistics
Matches: 196, Mismatches: 55, Indels: 13
0.74 0.21 0.05
Matches are distributed among these distances:
32 21 0.11
33 162 0.83
34 13 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (32 bp):
TCAGGAACTTTAGGTAATTCAGATTTGGTAAC
Found at i:78539418 original size:66 final size:65
Alignment explanation
Indices: 78539166--78539407 Score: 234
Period size: 66 Copynumber: 3.7 Consensus size: 65
78539156 CTTTGGTAAC
* * *
78539166 TCAGGAACTTTTGGTGATTCAAGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTTGGTAATTC-AGATTTGGCAACTCGGGAACTTTGGGTAATTCAGGCTTGGGCAC
78539231 T
65 T
* * * * * * * * * * * **
78539232 TCAGGAGCTTTGGGCAATTCCGACTTAGGTACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTAA
1 TCAGGAACTTTTGGTAATTCAGA-TTTGGCAACTCGGGAACTTTGGGTAATTCAGGC-TTGGGCA
78539297 C-
64 CT
* *
78539298 TCAGGAACTTTTGGTAATTCAGGTTTTGGCAACTCGGGAGCTTTGGGTAATTCAGGCTTGGGCAC
1 TCAGGAACTTTTGGTAATTCA-GATTTGGCAACTCGGGAACTTTGGGTAATTCAGGCTTGGGCAC
78539363 T
65 T
* * * *
78539364 TCAGGAACTTTAGGAAATTCTAGATTTGGTAACTCCGGAACTTT
1 TCAGGAACTTTTGGTAATTC-AGATTTGGCAACTCGGGAACTTT
78539408 TGGTGCTTCA
Statistics
Matches: 134, Mismatches: 37, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
65 7 0.05
66 119 0.89
67 8 0.06
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (65 bp):
TCAGGAACTTTTGGTAATTCAGATTTGGCAACTCGGGAACTTTGGGTAATTCAGGCTTGGGCACT
Found at i:78539437 original size:99 final size:99
Alignment explanation
Indices: 78539133--78539445 Score: 268
Period size: 99 Copynumber: 3.2 Consensus size: 99
78539123 CTTAGGCACT
* * * * * * * * ** * * *
78539133 TCAGGAACTTTAGGCAATTCTGGCTTTGGTAACTCAGGAACTTTTGGTGATTCAAGTTTTGGCAA
1 TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
* * * ** * *
78539198 CTCGGGAGCTTTGGGTAATTCAGGCTTGGGC-AC
66 CTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
* * * * *
78539231 TTCAGGAGCTTTGGGCAATTCCGACTTAGGTACCTCAGGAACTTTAGGCAATTCTGGCTTTGGTA
1 -TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTA
* *
78539296 ACTCAGGAACTTTTGGTAATTCAGGTTTTGGCAAC
65 ACTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
* * * * *
78539331 TCGGGAGCTTTGGGTAATTCAGGCTTGGGCACTTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
1 TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
* ** *
78539396 CTCCGGAACTTTTGGTGCTTCAGATTTTGACAAT
66 CTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
* *
78539430 TTAGGAGCATTGGGCA
1 TCAGGAGCTTTGGGCA
78539446 TCTCTGGAAC
Statistics
Matches: 175, Mismatches: 38, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
99 173 0.99
100 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (99 bp):
TCAGGAGCTTTGGGCAATTCAGACTTAGGCACCTCAGGAACTTTAGGAAATTCTAGATTTGGTAA
CTCAGGAACTTTTGGTAATTCAGATTTTGACAAC
Found at i:78539551 original size:51 final size:51
Alignment explanation
Indices: 78539478--78539626 Score: 217
Period size: 51 Copynumber: 2.9 Consensus size: 51
78539468 AGGTTTTTTC
* * *
78539478 AACTCGGGAATCTTAGGAAATTCAGGCTTTGGCAACTCTGGCACTTTCGGA
1 AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTTCGAA
* * * * *
78539529 AACTCAGGAACCTTGGGTAATTCCGGTTTTGGCAACTCTGGAACTTTCGAA
1 AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTTCGAA
*
78539580 AACTCGGGAACCTTAGGCAATTCAGGCTTTGGCAACTCTGGAACTTT
1 AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTT
78539627 AGGCAATTCA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (51 bp):
AACTCGGGAACCTTAGGAAATTCAGGCTTTGGCAACTCTGGAACTTTCGAA
Found at i:78539661 original size:33 final size:33
Alignment explanation
Indices: 78539580--78539677 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 33
78539570 AACTTTCGAA
* * *
78539580 AACTCGGGAACCTTAGGCAATTCAGGCTTTGGC
1 AACTCAGGAACTTTAGGCAATTCAGGTTTTGGC
*
78539613 AACTCTGGAACTTTAGGCAATTCAGGTTTTGGC
1 AACTCAGGAACTTTAGGCAATTCAGGTTTTGGC
* * * *
78539646 AACTCAGGCATTTTAGGTATTTCAGGTTTTGG
1 AACTCAGGAACTTTAGGCAATTCAGGTTTTGG
78539678 GATTTCTGGC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (33 bp):
AACTCAGGAACTTTAGGCAATTCAGGTTTTGGC
Found at i:78541784 original size:50 final size:49
Alignment explanation
Indices: 78541673--78541789 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 49
78541663 ATAAATGTTA
*
78541673 TGAGCTAAATTTATTGAATTAAGACTAAATTTAAAAAAATTATAAATAT
1 TGAGCTAAATTTATTAAATTAAGACTAAATTTAAAAAAATTATAAATAT
* * * * *
78541722 TGTGGGTCAAATTTATTAAATTAAGA-TCAATTTAACAAAATGTATAGACT-T
1 TG-AGCT-AAATTTATTAAATTAAGACTAAATTTAAAAAAAT-TATA-AATAT
78541773 TGAGACTAAATTTATTA
1 TGAG-CTAAATTTATTA
78541790 TTATACCAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
49 2 0.04
50 26 0.47
51 25 0.45
52 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (49 bp):
TGAGCTAAATTTATTAAATTAAGACTAAATTTAAAAAAATTATAAATAT
Found at i:78544726 original size:33 final size:33
Alignment explanation
Indices: 78544689--78544784 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 33
78544679 CAACTCCTAT
*
78544689 CTGATTAACCTGGCTGGTCCGCGTTGGCTCCGG
1 CTGATTAACCTGGCTGGTCCGCGTAGGCTCCGG
* * *
78544722 CTGATTAAGCTGGCTCGAT-TGCGTAGGCTCCGG
1 CTGATTAACCTGGCT-GGTCCGCGTAGGCTCCGG
* * * *
78544755 CCGGTTAACCTGGCTTGTCCGTGTAGGCTC
1 CTGATTAACCTGGCTGGTCCGCGTAGGCTC
78544785 TGGCCGACTA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
32 1 0.02
33 47 0.94
34 2 0.04
ACGTcount: A:0.11, C:0.28, G:0.32, T:0.28
Consensus pattern (33 bp):
CTGATTAACCTGGCTGGTCCGCGTAGGCTCCGG
Found at i:78545103 original size:48 final size:48
Alignment explanation
Indices: 78545051--78545273 Score: 284
Period size: 48 Copynumber: 4.5 Consensus size: 48
78545041 AACAGCGTTT
* *
78545051 GCGTTTGCGTTTCTTTCGGAGGCGGAGGCGCCGGTGGTTGCATAAACA
1 GCGTTTGCGTTTCTTTCGGAGGCGGAGGAGCCGGCGGTTGCATAAACA
*
78545099 GCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGAGCCGGTGGTTGCATAAACA
1 ------GCGTTTGCGTTTCTTTCGGAGGCGGAGGAGCCGGCGGTTGCATAAACA
* *
78545153 GCGTTTGCGTTTCCTTCGGAGGCGGAGGAGCCGGCGGCTGCATAAACA
1 GCGTTTGCGTTTCTTTCGGAGGCGGAGGAGCCGGCGGTTGCATAAACA
* * * * *
78545201 ACGTCTGCGTTTCCTTAGGAGGCGGAGGAGCAGGCGGTTGCATAAACA
1 GCGTTTGCGTTTCTTTCGGAGGCGGAGGAGCCGGCGGTTGCATAAACA
* *
78545249 GCGTCTGCGTCTCTTTCGGAGGCGG
1 GCGTTTGCGTTTCTTTCGGAGGCGG
78545274 CGGCGGTTGC
Statistics
Matches: 156, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
48 109 0.70
54 47 0.30
ACGTcount: A:0.16, C:0.22, G:0.37, T:0.25
Consensus pattern (48 bp):
GCGTTTGCGTTTCTTTCGGAGGCGGAGGAGCCGGCGGTTGCATAAACA
Found at i:78545116 original size:54 final size:54
Alignment explanation
Indices: 78545028--78545258 Score: 288
Period size: 54 Copynumber: 4.5 Consensus size: 54
78545018 TTTCTTTCGG
* *
78545028 CGGCGATTGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGCGC
1 CGGCGGTTGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGAGC
*
78545082 CGGTGGTTGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGAGC
1 CGGCGGTTGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGAGC
*
78545136 CGGTGGTTGCATAAACAGCGTTTGCGTTT-C----C-TTCGGAGGCGGAGGAGC
1 CGGCGGTTGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGAGC
* * * *
78545184 CGGCGGCTGCATAAACAACG--T-C---TGCGTTTCCTTAGGAGGCGGAGGAGC
1 CGGCGGTTGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGAGC
* *
78545232 AGGCGGTTGCATAAACAGCGTCTGCGT
1 CGGCGGTTGCATAAACAGCGTTTGCGT
78545259 CTCTTTCGGA
Statistics
Matches: 156, Mismatches: 10, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 67 0.43
49 1 0.01
50 1 0.01
51 1 0.01
53 1 0.01
54 80 0.51
ACGTcount: A:0.17, C:0.22, G:0.36, T:0.25
Consensus pattern (54 bp):
CGGCGGTTGCATAAACAGCGTTTGCGTTTGCGTTTCTTTCGGAGGCGGAGGAGC
Found at i:78545173 original size:42 final size:43
Alignment explanation
Indices: 78545126--78545290 Score: 152
Period size: 48 Copynumber: 3.6 Consensus size: 43
78545116 TCTTTCGGAG
* *
78545126 GCGGAGGAGCCGGTGGTTGCATAAACAGCGTTTGCGTTTCCTT
1 GCGGAGGAGCCGGCGGTTGCATAAACAGCGTCTGCGTTTCCTT
* *
78545169 CGGAGGCGGAGGAGCCGGCGGCTGCATAAACAACGTCTGCGTTTCCTT
1 -----GCGGAGGAGCCGGCGGTTGCATAAACAGCGTCTGCGTTTCCTT
* *
78545217 AGGAGGCGGAGGAGCAGGCGGTTGCATAAACAGCGTCTGCGTCT-CTT
1 -----GCGGAGGAGCCGGCGGTTGCATAAACAGCGTCTGCGTTTCCTT
* * *
78545264 TCGGAGGCGGCGGCGGTTGCATAAACA
1 GCGGAGGAGCCGGCGGTTGCATAAACA
78545291 ACGCCTGTGT
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
42 23 0.22
47 3 0.03
48 78 0.75
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.21
Consensus pattern (43 bp):
GCGGAGGAGCCGGCGGTTGCATAAACAGCGTCTGCGTTTCCTT
Found at i:78547062 original size:22 final size:21
Alignment explanation
Indices: 78547014--78547063 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
78547004 TGTTTGTTGT
* * *
78547014 TATTTTATTATTATTTTGCTA
1 TATTTTATTAATATATTACTA
78547035 TCATTTTATTAATATATTACTA
1 T-ATTTTATTAATATATTACTA
78547057 CTATTTT
1 -TATTTT
78547064 GTTGTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTTTATTAATATATTACTA
Found at i:78547994 original size:13 final size:14
Alignment explanation
Indices: 78547977--78548013 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
78547967 ACAAAAAGCA
78547977 AAAATTTAATTATC
1 AAAATTTAATTATC
*
78547991 -AAATTTAA-CATC
1 AAAATTTAATTATC
78548003 AAAATTTAATT
1 AAAATTTAATT
78548014 TAAAACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.16
13 16 0.84
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTTAATTATC
Found at i:78558373 original size:20 final size:22
Alignment explanation
Indices: 78558348--78558390 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
78558338 TTTTATTTAA
78558348 TTTATAA-AT-AAATTTAAATT
1 TTTATAATATAAAATTTAAATT
*
78558368 TTTATAATATAAAATTTATATT
1 TTTATAATATAAAATTTAAATT
78558390 T
1 T
78558391 AAAGAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTATAATATAAAATTTAAATT
Found at i:78564886 original size:18 final size:19
Alignment explanation
Indices: 78564858--78564894 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
78564848 TAATGGCAAC
78564858 TTTCATTGCTTTTGGTGTT
1 TTTCATTGCTTTTGGTGTT
*
78564877 TTTC-TTGCTTTTTGTGTT
1 TTTCATTGCTTTTGGTGTT
78564895 GGGCACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.11, G:0.19, T:0.68
Consensus pattern (19 bp):
TTTCATTGCTTTTGGTGTT
Found at i:78572606 original size:23 final size:21
Alignment explanation
Indices: 78572580--78572626 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
78572570 AAAAGTGCCT
78572580 TAAAATTATTATATTTTAAGGAA
1 TAAAA-TATT-TATTTTAAGGAA
* *
78572603 TAAAATGTTTATTTTGAGGAA
1 TAAAATATTTATTTTAAGGAA
78572624 TAA
1 TAA
78572627 TATTTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 3 0.14
23 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.43
Consensus pattern (21 bp):
TAAAATATTTATTTTAAGGAA
Found at i:78572740 original size:24 final size:23
Alignment explanation
Indices: 78572701--78572758 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
78572691 TTCATATTTT
* *
78572701 AATATATA-AAATATAAATTTTA
1 AATATTTATAAATATAAATATTA
*
78572723 AATATTTTTAAATAATAAATATTA
1 AATATTTATAAAT-ATAAATATTA
*
78572747 ATTATTTATAAA
1 AATATTTATAAA
78572759 AGTATTATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 19 0.66
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATTTATAAATATAAATATTA
Found at i:78584416 original size:44 final size:44
Alignment explanation
Indices: 78584292--78584822 Score: 790
Period size: 44 Copynumber: 12.2 Consensus size: 44
78584282 TCCTTGAAAC
*
78584292 AGATAACAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
78584336 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * *
78584376 AGATAACAGATTTGGCATCTCTGTAGTGGCAGAGAACAGATCAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
78584420 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
78584464 AGATAACAGATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
78584508 AGATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
78584552 AGATAACAGATTTGACATCTCCGTAGCGGTGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
78584596 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
78584640 AGAT----GATTTGGCATCTCTGTAGCGGCAGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
78584680 AGATAACAGATTTGGCGTCTTTGTAGCAGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
78584724 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
78584768 AGGTAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
78584812 AAATAACAGAT
1 AGATAACAGAT
78584823 CGGTGTTCTT
Statistics
Matches: 440, Mismatches: 39, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
40 75 0.17
44 365 0.83
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:78586121 original size:8 final size:8
Alignment explanation
Indices: 78586108--78586142 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
78586098 TTTTAATTCG
78586108 AATTTTAA
1 AATTTTAA
78586116 AATTTTAA
1 AATTTTAA
78586124 AATTTTAA
1 AATTTTAA
78586132 AATTTTAA
1 AATTTTAA
78586140 AAT
1 AAT
78586143 CGAGGAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AATTTTAA
Found at i:78589045 original size:43 final size:43
Alignment explanation
Indices: 78588998--78589106 Score: 218
Period size: 43 Copynumber: 2.5 Consensus size: 43
78588988 GCATTACGCT
78588998 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
78589041 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
78589084 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
78589107 TAATACCAGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.30, C:0.33, G:0.27, T:0.10
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:78589147 original size:38 final size:38
Alignment explanation
Indices: 78589099--78589532 Score: 616
Period size: 38 Copynumber: 11.3 Consensus size: 38
78589089 GGCACGAAGG
* * * *
78589099 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
78589137 CCCGGATATAATATCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * *
78589175 CCTGGATATTTTACTAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
78589214 GCCCGGATATAATACCAGCAAGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
78589253 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
78589291 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
78589330 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
78589369 CCCGGATATAATACTAGCACGAAGCCTGCGAAATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
78589407 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTTTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
78589446 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
78589485 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
78589523 CCCGGATATA
1 CCCGGATATA
78589533 CATCGAATAT
Statistics
Matches: 351, Mismatches: 39, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
38 234 0.67
39 30 0.09
40 87 0.25
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:78589229 original size:116 final size:116
Alignment explanation
Indices: 78589098--78589531 Score: 744
Period size: 116 Copynumber: 3.7 Consensus size: 116
78589088 AGGCACGAAG
* * * *
78589098 GCCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATA-TCAGCACGAAGC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACT-AGCACGAAGC
* * *
78589162 CTGCAGGATTTAACCTGGATATTTTACTAGCACGAAGCCTGCGGGTCTTTAA
65 CTGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
* *
78589214 GCCCGGATATAATACCAGCAAGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
78589279 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
66 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
78589330 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
** *
78589395 TGCGAAATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTTTTTAA
66 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
78589446 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
1 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
78589511 TGCGGGATTTAACCCGGATAT
66 TGCGGGATTTAACCCGGATAT
78589532 ACATCGAATA
Statistics
Matches: 301, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
116 301 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.22
Consensus pattern (116 bp):
GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
Found at i:78589233 original size:78 final size:76
Alignment explanation
Indices: 78589099--78589532 Score: 616
Period size: 78 Copynumber: 5.6 Consensus size: 76
78589089 GGCACGAAGG
* * * * *
78589099 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATATCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
*
78589164 GCAGGATTTAA
66 GCGGGATTTAA
* ** * * *
78589175 CCTGGATATTTTACTAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACCAGCAAGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
78589240 CTGCGGGATTTAA
64 CTGCGGGATTTAA
**
78589253 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
*
78589318 GCGGGTCTTTAA
66 GCGGG-ATTTAA
*
78589330 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
**
78589395 TGCGAAATTTAA
65 TGCGGGATTTAA
** *
78589407 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTTTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
78589472 CTGCGGGATTTAA
64 CTGCGGGATTTAA
*
78589485 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
78589533 CATCGAATAT
Statistics
Matches: 315, Mismatches: 37, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
76 94 0.30
77 29 0.09
78 192 0.61
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGGGATTTAA
Found at i:78605054 original size:16 final size:15
Alignment explanation
Indices: 78605033--78605075 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
78605023 TAAAAGGGTT
*
78605033 TTTTTTTTTGTCTTTC
1 TTTTTTTTTAT-TTTC
78605049 TTTTTTATTTATTTTC
1 TTTTTT-TTTATTTTC
78605065 TTTTTTTTTAT
1 TTTTTTTTTAT
78605076 CTACTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 4 0.16
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTATTTTC
Found at i:78605896 original size:3 final size:3
Alignment explanation
Indices: 78605888--78606229 Score: 94
Period size: 3 Copynumber: 112.3 Consensus size: 3
78605878 TATTTATTTG
* * * *
78605888 TTA TTA TTA -TA TTT TGTA TTA TTA TCA CTA TTA CTA TTA TTA -TA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
78605932 TTTA TTA TCA TTA TTA TTC TCC CTA TTA TTA TT- TCCTA CTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA
* * * ** * *
78605979 TTTA TTG TCA TTA TCA TTA TTA CGA CTA TCA TTA TTA TTA TT- TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
78606024 TTTA TTA TCA TTA TTA TTC CTA TTA TTA TT- TT- TTA CTG CTA ATA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
78606068 TTTA TTA TCA TTA TTG TTA CTA TTA TTA TTTA TTA TTG TTA CTA CTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * *
78606115 TTA CTTA -TA TTCG TTA GTA TCA TTA TTAA TT- TTA TCT- GTA TT- TTCT
1 TTA -TTA TTA TT-A TTA TTA TTA TTA TT-A TTA TTA T-TA TTA TTA TT-A
* * * *
78606161 TTA CTA TTA TTT TTA TTA TCA TTA TTTA TTTA TTTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA
* *
78606209 TTA TTA TTG TCA -TA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
78606230 ATATGTTTTA
Statistics
Matches: 243, Mismatches: 72, Indels: 48
0.67 0.20 0.13
Matches are distributed among these distances:
2 19 0.08
3 186 0.77
4 38 0.16
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:78605975 original size:16 final size:14
Alignment explanation
Indices: 78605941--78605981 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
78605931 ATTTATTATC
78605941 ATTATTATTCTCCCT
1 ATTATTATT-TCCCT
78605956 ATTATTATTTCCTACT
1 ATTATTATTTCC--CT
78605972 ATTATTATTT
1 ATTATTATTT
78605982 ATTGTCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.12
15 9 0.38
16 12 0.50
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTATTTCCCT
Found at i:78606000 original size:92 final size:89
Alignment explanation
Indices: 78605917--78606081 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
78605907 TATTATCACT
* *
78605917 ATTACTATTATTATATTTATTATCATTATTATTCTCCCTATTATTATTTCCTACTATTATTATTT
1 ATTACTATTATTATATTTATTATCATTATTA-T-T-CCTATTATTATTTCCTACTACTAATATTT
*
78605982 ATTGTCATTATCATTATTACGACTATC
63 ATTATCATTATCATTATTACGACTATC
* * ** *
78606009 ATTATTATTATTTTATTTATTATCATTATTATTCCTATTATTATTTTTTACTGCTAATATTTATT
1 ATTACTATTATTATATTTATTATCATTATTATTCCTATTATTATTTCCTACTACTAATATTTATT
78606074 ATCATTAT
66 ATCATTAT
78606082 TGTTACTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
89 34 0.52
90 1 0.02
91 1 0.02
92 29 0.45
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (89 bp):
ATTACTATTATTATATTTATTATCATTATTATTCCTATTATTATTTCCTACTACTAATATTTATT
ATCATTATCATTATTACGACTATC
Found at i:78606087 original size:28 final size:26
Alignment explanation
Indices: 78606044--78606103 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
78606034 TTATTATTCC
* *
78606044 TATTATTATTTTTTACTGCTAATATT
1 TATTATCATTTTTTACTACTAATATT
* *
78606070 TATTATCATTATTGTTACTATTATTATT
1 TATTATCATT-TT-TTACTACTAATATT
78606098 TATTAT
1 TATTAT
78606104 TGTTACTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.32
27 2 0.07
28 17 0.61
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATCATTTTTTACTACTAATATT
Found at i:78606102 original size:22 final size:22
Alignment explanation
Indices: 78606069--78606141 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
78606059 CTGCTAATAT
*
78606069 TTATTA-TCATTATTGTTACTA
1 TTATTATTTATTATTGTTACTA
78606090 TTATTATTTATTATTGTTACTA
1 TTATTATTTATTATTGTTACTA
* * *
78606112 CTATTACTTA-TATTCGTTAGTA
1 TTATTATTTATTATT-GTTACTA
*
78606134 TCATTATT
1 TTATTATT
78606142 AATTTTATCT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 10 0.23
22 33 0.77
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.58
Consensus pattern (22 bp):
TTATTATTTATTATTGTTACTA
Found at i:78610608 original size:27 final size:27
Alignment explanation
Indices: 78610552--78610756 Score: 155
Period size: 27 Copynumber: 7.6 Consensus size: 27
78610542 TTAGTTTACC
* * *
78610552 AAATTACCAAAATACCC-TCGATTAGCA
1 AAATTACCAAAATACCCTTGGTTTA-TA
* * *
78610579 AAATTACTAGAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
** *
78610606 AAAACACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
78610633 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
78610660 AAATTACTAGAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
78610687 AAATCACCAAAATA-CCTCGATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * ** *
78610713 AGATTACTAAAATA-CCTTCGACTTGTA
1 AAATTACCAAAATACCCTT-GGTTTATA
*
78610740 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
78610757 CCGATTTACA
Statistics
Matches: 138, Mismatches: 37, Indels: 5
0.77 0.21 0.03
Matches are distributed among these distances:
26 22 0.16
27 109 0.79
28 7 0.05
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:78610681 original size:81 final size:81
Alignment explanation
Indices: 78610545--78610702 Score: 246
Period size: 81 Copynumber: 2.0 Consensus size: 81
78610535 GAATATTTTA
* *
78610545 GTTTACCAAATTACCAAAATACCCTCGATTAGCAAAATTACTAGAATACCTTTGGTTTATAAAAA
1 GTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACTAGAATACCATTGGTTTATAAAAA
78610610 CACCAAAATACCCTTG
66 CACCAAAATACCCTTG
* * *
78610626 GTTTACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACTAGAATACCATTGGTTTATAAAA
1 GTTTACAAAATTACCAAAATACCCTC-GATTAGCAAAATTACTAGAATACCATTGGTTTATAAAA
*
78610690 TCACCAAAATACC
65 ACACCAAAATACC
78610703 TCGATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 69 0.99
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
GTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACTAGAATACCATTGGTTTATAAAAA
CACCAAAATACCCTTG
Found at i:78610742 original size:53 final size:54
Alignment explanation
Indices: 78610614--78610772 Score: 151
Period size: 54 Copynumber: 3.0 Consensus size: 54
78610604 TAAAAACACC
* ** * *
78610614 AAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCATTGACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACT
* ** * * *
78610668 AGAATACCATTGGTTTATAAAATCACCAAAATACCTC-GATTTGTAAGATTACT
1 AAAATACCATTGACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACT
* * * **
78610721 AAAATACC-TTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAAAATTA
1 AAAATACCATT-GACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTA
78610773 TCGTTTTACC
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.02
53 41 0.48
54 43 0.50
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATACCATTGACTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACT
Done.