Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 102 of 150
Found at i:31896971 original size:47 final size:47
Alignment explanation
Indices: 31896920--31897069 Score: 143
Period size: 47 Copynumber: 3.2 Consensus size: 47
31896910 ACATAATTAT
*
31896920 TATTAAATATAATTTAAAAAATATATATAATTTAATAAAATTCTTAA
1 TATTAAATATAATTTAATAAATATATATAATTTAATAAAATTCTTAA
* * * * *
31896967 TATTAAATAT--TCTTATATGAATTTACTAAAATCATAATATATAATAC-T-A
1 TATTAAATATAAT-TTA-ATAAATATA-TATAAT-TTAATA-A-AATTCTTAA
31897016 TA--AAATATAATTTAATAAA-ATATATAATTTAATAAAATTCTTAA
1 TATTAAATATAATTTAATAAATATATATAATTTAATAAAATTCTTAA
31897060 TATTAAATAT
1 TATTAAATAT
31897070 TTTTATATGA
Statistics
Matches: 80, Mismatches: 11, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
42 4 0.05
43 2 0.03
44 8 0.10
45 6 0.08
46 11 0.14
47 26 0.32
48 8 0.10
49 9 0.11
50 2 0.03
51 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (47 bp):
TATTAAATATAATTTAATAAATATATATAATTTAATAAAATTCTTAA
Found at i:31897048 original size:93 final size:94
Alignment explanation
Indices: 31896924--31897106 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 94
31896914 AATTATTATT
31896924 AAATATAATTTAAAAAATATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 AAATATAATTTAAAAAATATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
31896989 TTACTAAAATCATAATATATAATACTATA
66 TTACTAAAATCATAATATATAATACTATA
* *
31897018 AAATATAATTTAATAAA-ATATATAATTTAATAAAATTCTTAATATTAAATATTTTTATATGAAT
1 AAATATAATTTAAAAAATATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
31897082 TTACTAAAATCATAATATATAATAC
66 TTACTAAAATCATAATATATAATAC
31897107 AATTTACTAA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 71 0.82
94 16 0.18
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (94 bp):
AAATATAATTTAAAAAATATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
TTACTAAAATCATAATATATAATACTATA
Found at i:31897060 original size:17 final size:17
Alignment explanation
Indices: 31896926--31897053 Score: 71
Period size: 17 Copynumber: 7.0 Consensus size: 17
31896916 TTATTATTAA
*
31896926 ATATAATTTAAAAAATAT
1 ATATAATTTAATAAA-AT
31896944 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
* ***
31896961 -TCTTAATATTAAATATTCTT
1 AT-ATAAT-TT-AATA-AAAT
*
31896981 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
* *
31896999 CATA-ATATATAATACTATAAA
1 -ATATA-ATTTAATA--A-AAT
31897020 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31897037 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31897054 TCTTAATATT
Statistics
Matches: 83, Mismatches: 15, Indels: 25
0.67 0.12 0.20
Matches are distributed among these distances:
16 1 0.01
17 26 0.31
18 24 0.29
19 10 0.12
20 15 0.18
21 7 0.08
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31897111 original size:28 final size:28
Alignment explanation
Indices: 31897079--31897134 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
31897069 TTTTTATATG
31897079 AATTTACTAAAATCATAATATATAATAC
1 AATTTACTAAAATCATAATATATAATAC
31897107 AATTTACTAAAATCATAATATATAATAC
1 AATTTACTAAAATCATAATATATAATAC
31897135 TATAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.36
Consensus pattern (28 bp):
AATTTACTAAAATCATAATATATAATAC
Found at i:31897249 original size:121 final size:118
Alignment explanation
Indices: 31896906--31897265 Score: 432
Period size: 121 Copynumber: 3.0 Consensus size: 118
31896896 TTAATCATAT
* *
31896906 TTTAACATAATTATTATTAAATATAATTTAA-AAAATATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTAATATTAAATATAATTTAATAAAA-ATATATAATTTAATAAAATTCTTAATA-
31896970 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 T-AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * * *
31897026 TTTAATAA-AA-TATATAATTTAATAAAATTCTTAATATTAAATAT-T--TTTATATGAATTTAC
1 TTTAA-AATAATTA-AT-ATTAAATATAA-T-TTAATA-AAAATATATAATTTA-ATAAAATT-C
* * * *
31897086 TAAAATCATAATA-TATAATA-CAATTTACTAAAATCATAATATATAATACTATAAAATATAA
58 T-TAAT-ATAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
31897147 TTTAAAATAATTAATATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
1 TTTAAAATAATTAATATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
31897212 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 A-TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
31897265 T
1 T
31897266 ATATAATCTA
Statistics
Matches: 201, Mismatches: 20, Indels: 40
0.77 0.08 0.15
Matches are distributed among these distances:
116 4 0.02
117 11 0.05
118 19 0.09
119 44 0.22
120 23 0.11
121 63 0.31
122 14 0.07
123 11 0.05
124 9 0.04
125 3 0.01
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (118 bp):
TTTAAAATAATTAATATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:31898731 original size:49 final size:49
Alignment explanation
Indices: 31898659--31898762 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
31898649 AAAAAAAAAC
* * *
31898659 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
*
31898708 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAATACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
31898757 AAATTA
1 AAATTA
31898763 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:31901127 original size:16 final size:16
Alignment explanation
Indices: 31901108--31901146 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
31901098 AATAAATTGG
31901108 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
31901124 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
31901140 AAT-TTAA
1 AATATTAA
31901147 TTTAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATTAAAAATAAAA
Found at i:31902784 original size:78 final size:78
Alignment explanation
Indices: 31902655--31902798 Score: 207
Period size: 78 Copynumber: 1.8 Consensus size: 78
31902645 TATCAGCCAA
* * *
31902655 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
31902720 GGCAGTGACACTC
66 GGCAGTGACACTC
** * * * *
31902733 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
31902798 G
66 G
31902799 ACAGCAACAC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GGCAGTGACACTC
Found at i:31904130 original size:22 final size:22
Alignment explanation
Indices: 31904102--31904162 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
31904092 TTTATTGTTC
31904102 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
*
31904124 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTG
**
31904146 AGCCATGAGAGCTTAGT
1 AAACATGAGAGCTTAGT
31904163 TTTAGAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:31907399 original size:13 final size:13
Alignment explanation
Indices: 31907383--31907410 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31907373 AAATTTAGAG
31907383 AAAAAAATCTAAA
1 AAAAAAATCTAAA
31907396 AAAAAAATCTAAA
1 AAAAAAATCTAAA
31907409 AA
1 AA
31907411 CTTAGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATCTAAA
Found at i:31930840 original size:34 final size:35
Alignment explanation
Indices: 31930782--31930848 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
31930772 CAAACACCAG
31930782 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
31930817 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
31930849 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:31932409 original size:29 final size:29
Alignment explanation
Indices: 31932365--31932421 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
31932355 CTGTCTTCTC
*
31932365 CCCCAAACATTTTTTCCCCTCTGCTGGTT
1 CCCCAAACATTCTTTCCCCTCTGCTGGTT
*
31932394 CCCCAAACGTTCTTTCCCCTCTGCTGGT
1 CCCCAAACATTCTTTCCCCTCTGCTGGT
31932422 GAAATTGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.12, C:0.40, G:0.12, T:0.35
Consensus pattern (29 bp):
CCCCAAACATTCTTTCCCCTCTGCTGGTT
Found at i:31935079 original size:19 final size:19
Alignment explanation
Indices: 31935034--31935094 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
31935024 ATCTAACTAC
31935034 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
31935055 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
31935074 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
31935093 AA
1 AA
31935095 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:31935342 original size:13 final size:13
Alignment explanation
Indices: 31935321--31935384 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
31935311 ACACTCAAAT
31935321 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
31935334 TTCTCAAAAGTAT
1 TTTTCAAAAGCAC
31935347 TTTTCCAAAA-CAC
1 TTTT-CAAAAGCAC
31935360 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
31935373 TTTTCAAAAGCA
1 TTTTCAAAAGCA
31935385 ACGAAGAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 5 0.12
13 33 0.77
14 5 0.12
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:31937100 original size:54 final size:52
Alignment explanation
Indices: 31936976--31937109 Score: 146
Period size: 54 Copynumber: 2.5 Consensus size: 52
31936966 TCACATTGTC
* * * *
31936976 GTGTGACTCAAGTAAAAGAGTTACACGGTCTGGCACAAGGCTTGACACGCTT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACCT
* *
31937028 GTGGGACTCCAGTCAGAGAGTTACACGGTCTAGCGCAC-A-GCTTGACACACACCT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCT-G-GCACAAGGCTTG--ACACACCT
* *
31937082 GTGTGACTCAAGCCAGAGATTTACACGG
1 GTGTGACTCAAGTCAGAGAGTTACACGG
31937110 CTTGACACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 32 0.47
53 2 0.03
54 34 0.50
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (52 bp):
GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACCT
Found at i:31947341 original size:54 final size:54
Alignment explanation
Indices: 31947110--31947318 Score: 256
Period size: 54 Copynumber: 3.9 Consensus size: 54
31947100 CACGGATTGT
* * * * * * * *
31947110 CACACGGCCTAACACATAGTCGTGTGACTCAAGTTAGAGAGTTACATAGTCTGA
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
* *
31947164 CACATGGCCTGACACACGCCCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
* * * * *
31947218 CACACGGCCTGACACACGCTCGTGTGACTCAAGTCAAAGAGTTATACGGTCTAG
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
* * *
31947272 CACATGGCCTGACACATACTCGTCTGACTCAAGTCAGAGAGTTACAC
1 CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACAC
31947319 GGTTTGGCAT
Statistics
Matches: 134, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 134 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (54 bp):
CACATGGCCTGACACACACTCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
Found at i:31950221 original size:51 final size:50
Alignment explanation
Indices: 31950164--31950348 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
31950154 CCGGTTCACA
* * *
31950164 TAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATACACG
* * * * * *
31950215 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGATACACG
* * * *
31950266 TAGTAGCCTGCACATAGTACTAGACATGCGACC-TATCATTCC-AGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGA-TACACG
*
31950316 TATTAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
31950349 TAGCAACTTC
Statistics
Matches: 106, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
49 1 0.01
50 38 0.36
51 65 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATACACG
Found at i:31950346 original size:101 final size:101
Alignment explanation
Indices: 31950162--31950346 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
31950152 ACCCGGTTCA
* *
31950162 CATAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
31950227 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
* * * *
31950264 CATAGTAGCCTGCACATAGTACTAGACATGCGACC-TATCATTCC-AGTACATGTATTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCCGA-TACACGTAGTAGCCTGC
31950327 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
31950347 CCTAGCAACT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 5 0.07
101 38 0.51
102 32 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATTCGGTACG
Found at i:31956661 original size:89 final size:89
Alignment explanation
Indices: 31956462--31956663 Score: 230
Period size: 90 Copynumber: 2.3 Consensus size: 89
31956452 AACTTTCAAA
* * * * *
31956462 AAAAAGAAGCAATTAAGGCCCT-CCTTTTTTTGCACTTAATTGAGCACTCGAACTTTCAAAATGC
1 AAAAA-AAGCAATTAAGCCCCTGCTTTTTTTTCCACTCAATTGAGCACTCAAACTTTCAAAATGC
* * * *
31956526 ATCAAAAAGGCCTTCAAGCTTCTCC
65 ATAAAAAAGACCCTCAAGATTCTCC
* * *
31956551 AAAAAAAGCAATTAAGCCCCTGCTTTTTTTTCCCACTCAATTGGGTACTTAAACTTTCAAAATGC
1 AAAAAAAGCAATTAAGCCCCTGCTTTTTTTT-CCACTCAATTGAGCACTCAAACTTTCAAAATGC
* *
31956616 ATAAAAAAGACCCTCAA-ATTGTTTC
65 ATAAAAAAGACCCTCAAGATT-CTCC
31956641 -AAAAAAGCAATTAAGCCCCTGCT
1 AAAAAAAGCAATTAAGCCCCTGCT
31956664 CTTATTAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
88 15 0.16
89 38 0.40
90 43 0.45
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (89 bp):
AAAAAAAGCAATTAAGCCCCTGCTTTTTTTTCCACTCAATTGAGCACTCAAACTTTCAAAATGCA
TAAAAAAGACCCTCAAGATTCTCC
Found at i:31956739 original size:44 final size:46
Alignment explanation
Indices: 31956679--31956786 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 46
31956669 TAAAAATTAG
*
31956679 AAAATAATAAATAATAAATTTTA-GAAAAATTATTAA-ATTTTAATA
1 AAAATAATAAAAAATAAATTTTATGAAAAATTA-TAATATTTTAATA
* * *
31956724 AAAAT-ATAAAAAATAAATTTTATTAAAAATTATAATTTTTTTATA
1 AAAATAATAAAAAATAAATTTTATGAAAAATTATAATATTTTAATA
**
31956769 AAAATCGTAAAAAATAAA
1 AAAATAATAAAAAATAAA
31956787 AAATTGTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
44 19 0.35
45 25 0.45
46 11 0.20
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (46 bp):
AAAATAATAAAAAATAAATTTTATGAAAAATTATAATATTTTAATA
Found at i:31956763 original size:19 final size:20
Alignment explanation
Indices: 31956727--31956773 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
31956717 TTTAATAAAA
31956727 ATATAAAAA--ATAAATTTT
1 ATATAAAAATTATAAATTTT
*
31956745 AT-TAAAAATTATAATTTTT
1 ATATAAAAATTATAAATTTT
*
31956764 TTATAAAAAT
1 ATATAAAAAT
31956774 CGTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 2 0.08
19 9 0.38
20 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATAAAAATTATAAATTTT
Found at i:31956789 original size:37 final size:36
Alignment explanation
Indices: 31956748--31956819 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
31956738 AAATTTTATT
** *
31956748 AAAAATTATAATTTTTTTATAAAAATCGTAAAAAATA
1 AAAAATTATAA-AATTTTATAAAAATCATAAAAAATA
*
31956785 AAAAATTGTAAAATTTTATAAAAATCATAAAAAAT
1 AAAAATTATAAAATTTTATAAAAATCATAAAAAAT
31956820 TAATAACCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 21 0.68
37 10 0.32
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (36 bp):
AAAAATTATAAAATTTTATAAAAATCATAAAAAATA
Found at i:31957031 original size:29 final size:28
Alignment explanation
Indices: 31956998--31957085 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
31956988 TTACATTTTG
31956998 TATAATTTTCTTATGACTTTATAAAATTT
1 TATAATTTT-TTATGACTTTATAAAATTT
* *
31957027 TATAATTTTTTTAT-A-TTTCTATATATTT
1 TATAA-TTTTTTATGACTTTATA-AAATTT
* * *
31957055 TATAAATTTTTACGACATTTATAAATTTT
1 TATAATTTTTTATGAC-TTTATAAAATTT
31957084 TA
1 TA
31957086 CAATATTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
27 11 0.23
28 12 0.26
29 15 0.32
30 9 0.19
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (28 bp):
TATAATTTTTTATGACTTTATAAAATTT
Found at i:31957063 original size:19 final size:18
Alignment explanation
Indices: 31957015--31957125 Score: 66
Period size: 19 Copynumber: 5.9 Consensus size: 18
31957005 TTCTTATGAC
31957015 TTTATAAAATTTTATAATT
1 TTTAT-AAATTTTATAATT
* *
31957034 TTTTTATATTTCTAT-ATAT
1 TTTATAAATTT-TATAAT-T
**
31957053 TTTATAAATTTT-TACGACA
1 TTTATAAATTTTATA--ATT
* *
31957072 TTTATAAATTTTTACAATA
1 TTTATAAA-TTTTATAATT
* *
31957091 TTTATATATTTTTTAATT
1 TTTATAAATTTTATAATT
31957109 TTTAATAAATTTT-TAAT
1 TTT-ATAAATTTTATAAT
31957126 ATTTGAATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.01
18 22 0.31
19 42 0.59
20 5 0.07
21 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTATAAATTTTATAATT
Found at i:31957077 original size:57 final size:56
Alignment explanation
Indices: 31956977--31957123 Score: 163
Period size: 57 Copynumber: 2.6 Consensus size: 56
31956967 TTTTACGAAA
* * * *
31956977 TTTATATTTCTTTACATTTTGTATAATTTTCTTATGACTTTATAAAATTTTATAATTTT
1 TTTATATTTCTTTA-ATTTT-TATAAATTT-TTACGACTTTATAAAATTTTACAATATT
* *
31957036 TTTATATTTCTAT-ATATTTTATAAATTTTTACGACATTTATAAATTTTTACAATATT
1 TTTATATTTCTTTAAT-TTTTATAAATTTTTACGAC-TTTATAAAATTTTACAATATT
*
31957093 TATATATTT-TTTAATTTTTAATAAATTTTTA
1 TTTATATTTCTTTAATTTTT-ATAAATTTTTA
31957124 ATATTTGAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
56 12 0.16
57 49 0.64
58 3 0.04
59 12 0.16
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (56 bp):
TTTATATTTCTTTAATTTTTATAAATTTTTACGACTTTATAAAATTTTACAATATT
Found at i:31960756 original size:4 final size:4
Alignment explanation
Indices: 31960749--31960778 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
31960739 CAAAATAAAT
31960749 ATTA ATTA ATTA ATTA ATTA ATTAA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATT-A ATTA A
31960779 CTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:31960766 original size:12 final size:13
Alignment explanation
Indices: 31960749--31960790 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
31960739 CAAAATAAAT
31960749 ATTAATTAATT-A
1 ATTAATTAATTAA
31960761 ATTAATTAATTAA
1 ATTAATTAATTAA
*
31960774 ATTAACTAAATTAA
1 ATTAA-TTAATTAA
31960788 ATT
1 ATT
31960791 CTCAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATTAATTAA
Found at i:31962014 original size:42 final size:42
Alignment explanation
Indices: 31961955--31962042 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
31961945 CATACGACCG
*
31961955 TGTGGGGTGACCATGTGTGACACACGGTTGTGTGACAACCCA
1 TGTGGGGTGACCATGTGTGACACACGGCTGTGTGACAACCCA
* * * *
31961997 TGTGGGGTGACCTTGTGTGACACATGGCTGTGTGACAGCCCC
1 TGTGGGGTGACCATGTGTGACACACGGCTGTGTGACAACCCA
31962039 TGTG
1 TGTG
31962043 CTTTCAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.17, C:0.22, G:0.35, T:0.26
Consensus pattern (42 bp):
TGTGGGGTGACCATGTGTGACACACGGCTGTGTGACAACCCA
Found at i:31963392 original size:20 final size:20
Alignment explanation
Indices: 31963359--31963407 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
31963349 AGATGCAGAA
*
31963359 CAGGGGCA-ATTACGTGCAGT
1 CAGGGGCACA-TACGTGCAGC
*
31963379 CAGGTGCACATACGTGCAGC
1 CAGGGGCACATACGTGCAGC
31963399 CAGGGGCAC
1 CAGGGGCAC
31963408 CGAAGTGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.24, C:0.27, G:0.35, T:0.14
Consensus pattern (20 bp):
CAGGGGCACATACGTGCAGC
Found at i:31963556 original size:60 final size:59
Alignment explanation
Indices: 31963399--31963561 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 59
31963389 TACGTGCAGC
* * * * * *
31963399 CAGGGGCACCGAAGTGTGAACAAGGGCACAATCGTGCAAACAGGGATACCAAAGTGTATA
1 CAGGGGCACCGAAGTGAGAAC-AGGGCACAGTAGTGCAAATAGAGACACCAAAGTGTATA
* * * * * *
31963459 TAAGGGCACTGAAGTGCGAATAGGAGCACAGTAGTGCAAATAGAGACACCGAAGTGTATA
1 CAGGGGCACCGAAGTGAGAACAGG-GCACAGTAGTGCAAATAGAGACACCAAAGTGTATA
* *
31963519 CAGGGGCACCGAAGTGAGAACATGGGCATAGTTGTGCAAATAG
1 CAGGGGCACCGAAGTGAGAACA-GGGCACAGTAGTGCAAATAG
31963562 GGGCACTTCT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 3 0.04
60 78 0.94
61 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.15
Consensus pattern (59 bp):
CAGGGGCACCGAAGTGAGAACAGGGCACAGTAGTGCAAATAGAGACACCAAAGTGTATA
Found at i:31964678 original size:20 final size:20
Alignment explanation
Indices: 31964653--31964690 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31964643 ACATTCAAAA
31964653 TACCATAATCACAA-CCAAGT
1 TACCATAA-CACAAGCCAAGT
31964673 TACCATAACACAAGCCAA
1 TACCATAACACAAGCCAA
31964691 ACCATATGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.32, G:0.05, T:0.16
Consensus pattern (20 bp):
TACCATAACACAAGCCAAGT
Found at i:31965831 original size:34 final size:34
Alignment explanation
Indices: 31965784--31965851 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
31965774 CCTGTACATG
* *
31965784 TATGCTCATACGAGCTGTGAATTGGTATGCTCAC
1 TATGCTCATACGAGCTGTAAAATGGTATGCTCAC
31965818 TATGCTC-TCACGAGCTGTAAAATGGTATGCTCAC
1 TATGCTCAT-ACGAGCTGTAAAATGGTATGCTCAC
31965852 ACGAGCTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (34 bp):
TATGCTCATACGAGCTGTAAAATGGTATGCTCAC
Found at i:31965854 original size:25 final size:25
Alignment explanation
Indices: 31965818--31965874 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
31965808 GTATGCTCAC
*
31965818 TATGCTCTCACGAGCTGTAAAAT-GG
1 TATGCTCACACGAGCTGT-AAATCGG
*
31965843 TATGCTCACACGAGCTGTAGATCGG
1 TATGCTCACACGAGCTGTAAATCGG
31965868 TATGCTC
1 TATGCTC
31965875 TCAAGAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTAAATCGG
Found at i:31969848 original size:3 final size:3
Alignment explanation
Indices: 31969840--31969888 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
31969830 CTTATGGCAT
*
31969840 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31969888 T
1 T
31969889 AAATTGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31972215 original size:14 final size:15
Alignment explanation
Indices: 31972196--31972224 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31972186 TTATCCCAAT
31972196 CAAATAAAG-AAAAA
1 CAAATAAAGCAAAAA
31972210 CAAATAAAGCAAAAA
1 CAAATAAAGCAAAAA
31972225 TGATTAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (15 bp):
CAAATAAAGCAAAAA
Found at i:31985644 original size:70 final size:70
Alignment explanation
Indices: 31985543--31985674 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
31985533 GAGACATAAT
* *
31985543 CAAACATTTTGACGCAAAACGAGATGGCAACCCAAGCACCTCA-TCCCGGTTACTCAATTTGGCT
1 CAAACATTTTGACGCAAAACGAGATGACAACCCAAGCACCTCACT-CCGGTTACTCAACTTGGCT
31985607 CGTCAC
65 CGTCAC
* * * * *
31985613 CAAACCTTTTGACGCGAAATGATATGACAACCCAAGCACCTCACTCGGGTTACTCAACTTGG
1 CAAACATTTTGACGCAAAACGAGATGACAACCCAAGCACCTCACTCCGGTTACTCAACTTGG
31985675 TCACATTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 53 0.98
71 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (70 bp):
CAAACATTTTGACGCAAAACGAGATGACAACCCAAGCACCTCACTCCGGTTACTCAACTTGGCTC
GTCAC
Found at i:31998297 original size:17 final size:17
Alignment explanation
Indices: 31998252--31998302 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
31998242 ACCGTAAAAC
31998252 ATTTATTATTAATATAT
1 ATTTATTATTAATATAT
31998269 -TTATAATT-TTAATATAT
1 ATT-T-ATTATTAATATAT
*
31998286 ATTTATTATTAAAATAT
1 ATTTATTATTAATATAT
31998303 TAATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.17
17 19 0.66
18 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTATTATTAATATAT
Found at i:31998301 original size:19 final size:19
Alignment explanation
Indices: 31998263--31998302 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31998253 TTTATTATTA
**
31998263 ATATATTTATAATTTTAAT
1 ATATATTTATAATTAAAAT
*
31998282 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
31998301 AT
1 AT
31998303 TAATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:32006227 original size:19 final size:18
Alignment explanation
Indices: 32006183--32006227 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
32006173 ATGTCGTTCG
32006183 TTTCCAAAACATTATTCA
1 TTTCCAAAACATTATTCA
* *
32006201 TTTACAAATCATTATTCAA
1 TTTCCAAAACATTATTC-A
32006220 TTTCCAAA
1 TTTCCAAA
32006228 GTTTTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTCCAAAACATTATTCA
Found at i:32007110 original size:23 final size:23
Alignment explanation
Indices: 32007083--32007157 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
32007073 CACTTTGCCG
32007083 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
32007106 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
32007129 ATCAGACACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
32007152 TTCAGG
1 ATCAGG
32007158 AACCTCGTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:32007168 original size:23 final size:21
Alignment explanation
Indices: 32007142--32007193 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
32007132 AGACACTTTA
*
32007142 TGTGTCGTATTTCAGGAACCTCG
1 TGTGTCGTA--TCAAGAACCTCG
*
32007165 TGTGTCGTATCAAGCACCTCG
1 TGTGTCGTATCAAGAACCTCG
32007186 TGTGTCGT
1 TGTGTCGT
32007194 TTTAAGCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAAGAACCTCG
Found at i:32007169 original size:46 final size:46
Alignment explanation
Indices: 32007083--32007174 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
32007073 CACTTTGCCG
* * * *
32007083 ATCAGGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTATATCAGGAACCTCATGTGTCGTAT
* *
32007129 ATCAGACACTTTATGTGTCGTATTTCAGGAACCTCGTGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTATATCAGGAACCTCATGTGTCGTAT
32007175 CAAGCACCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (46 bp):
ATCAGACACTTTATGTGTCGTATATCAGGAACCTCATGTGTCGTAT
Found at i:32007183 original size:21 final size:21
Alignment explanation
Indices: 32007159--32007202 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
32007149 TATTTCAGGA
32007159 ACCTCGTGTGTCGTATCAAGC
1 ACCTCGTGTGTCGTATCAAGC
* *
32007180 ACCTCGTGTGTCGTTTTAAGC
1 ACCTCGTGTGTCGTATCAAGC
32007201 AC
1 AC
32007203 TTATGTGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (21 bp):
ACCTCGTGTGTCGTATCAAGC
Found at i:32016778 original size:7 final size:8
Alignment explanation
Indices: 32016750--32016782 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
32016740 ATATTTATAC
32016750 TTTTTAATA
1 TTTTTAA-A
32016759 TTTTTAAA
1 TTTTTAAA
32016767 TTTTTAAA
1 TTTTTAAA
32016775 TTTTTAAA
1 TTTTTAAA
32016783 AATTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:32020602 original size:13 final size:13
Alignment explanation
Indices: 32020579--32020603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32020569 CAAGGTTAAG
32020579 GTTTAAGGTTCGA
1 GTTTAAGGTTCGA
32020592 GTTTAAGGTTCG
1 GTTTAAGGTTCG
32020604 GGGTTCAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.40
Consensus pattern (13 bp):
GTTTAAGGTTCGA
Found at i:32020608 original size:20 final size:20
Alignment explanation
Indices: 32020558--32020612 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
32020548 TGAACCTTAG
32020558 GGTTCGGGGTTCAAGGTTAA
1 GGTTCGGGGTTCAAGGTTAA
*** * *
32020578 GGTTTAAGGTTCGAGTTTAA
1 GGTTCGGGGTTCAAGGTTAA
32020598 GGTTCGGGGTTCAAG
1 GGTTCGGGGTTCAAG
32020613 ATAAAATAAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.09, G:0.38, T:0.33
Consensus pattern (20 bp):
GGTTCGGGGTTCAAGGTTAA
Found at i:32022244 original size:17 final size:19
Alignment explanation
Indices: 32022214--32022248 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
32022204 ATATATATAT
32022214 ATATATGAATAATTATTTG
1 ATATATGAATAATTATTTG
32022233 ATATAT-AA-AATTATTT
1 ATATATGAATAATTATTT
32022249 TAATTTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
ATATATGAATAATTATTTG
Found at i:32022381 original size:2 final size:2
Alignment explanation
Indices: 32022374--32022409 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32022364 GCTTCAAATG
32022374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32022410 TAGTGAGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32026466 original size:11 final size:9
Alignment explanation
Indices: 32026441--32026470 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
32026431 ATATTTGTCC
32026441 AAATATATA
1 AAATATATA
32026450 AAATATATA
1 AAATATATA
32026459 AAATATATA
1 AAATATATA
32026468 AAA
1 AAA
32026471 CATCATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAATATATA
Found at i:32026572 original size:26 final size:25
Alignment explanation
Indices: 32026508--32026572 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 25
32026498 TTTGTATTTT
32026508 AATTTAATAATAATATAAAAATATTAC
1 AATTT-ATAA-AATATAAAAATATTAC
*
32026535 AATTTATGAAAATTTAAAAATATATA-
1 AATTTAT-AAAATATAAAAATAT-TAC
32026561 AATTTACTAAAA
1 AATTTA-TAAAA
32026573 AGCATGTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (25 bp):
AATTTATAAAATATAAAAATATTAC
Found at i:32026727 original size:9 final size:8
Alignment explanation
Indices: 32026662--32026728 Score: 62
Period size: 9 Copynumber: 7.9 Consensus size: 8
32026652 GTGACAAATA
32026662 ATATTTTT
1 ATATTTTT
32026670 AATATTTTT
1 -ATATTTTT
32026679 AATATTTTT
1 -ATATTTTT
*
32026688 ATAATTTT
1 ATATTTTT
**
32026696 ATAAATTT
1 ATATTTTT
32026704 ATATTTTTT
1 ATA-TTTTT
*
32026713 AGATTTTCT
1 ATATTTT-T
32026722 ATATTTT
1 ATATTTT
32026729 GAATGTATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
8 21 0.42
9 29 0.58
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (8 bp):
ATATTTTT
Found at i:32028813 original size:29 final size:29
Alignment explanation
Indices: 32028774--32028883 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
32028764 AGAAAAACTA
* *
32028774 TAAAATCTGGAAAACCAGTGGTAAAATTG
1 TAAAATCTGGAAAAACAGTGGCAAAATTG
* *
32028803 TAAAATATGGAAAAATAGTGGCAAAACTT-
1 TAAAATCTGGAAAAACAGTGGCAAAA-TTG
* * * *
32028832 TAAAATTTTGAAAACCAGTTGCAAAATTG
1 TAAAATCTGGAAAAACAGTGGCAAAATTG
32028861 TAAAATCTGGAAAAACAGTGGCA
1 TAAAATCTGGAAAAACAGTGGCA
32028884 GATCAATGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 62 0.94
30 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (29 bp):
TAAAATCTGGAAAAACAGTGGCAAAATTG
Found at i:32028881 original size:58 final size:58
Alignment explanation
Indices: 32028767--32028883 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
32028757 GAATAGTAGA
* *
32028767 AAAACTATAAAATCTGGAAAACCAGTGGTAAAATTGTAAAATATGGAAAAATAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
* * * * *
32028825 AAAACTTTAAAATTTTGAAAACCAGTTGCAAAATTGTAAAATCTGGAAAAACAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
32028883 A
1 A
32028884 GATCAATGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (58 bp):
AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
Found at i:32029354 original size:33 final size:32
Alignment explanation
Indices: 32029292--32029360 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
32029282 AAGAAAGATA
* *
32029292 AATTCTATTAGAATTTAAATAGTAGTAATTTG
1 AATTCTATTAGAATTTAAATAGGAGTAATTTC
* *
32029324 AATTCTAATTAGGATTTTAAA-AGGATTAATTTC
1 AATTCT-ATTA-GAATTTAAATAGGAGTAATTTC
32029357 AATT
1 AATT
32029361 TCAAATTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 6 0.19
33 17 0.55
34 8 0.26
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (32 bp):
AATTCTATTAGAATTTAAATAGGAGTAATTTC
Found at i:32031652 original size:41 final size:41
Alignment explanation
Indices: 32031607--32031696 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
32031597 GCTTAGTAGA
32031607 CTTAATGCC-AGTGAAATAATTCAGACTGTACGTCTAGCAAG
1 CTTAATGCCGA-TGAAATAATTCAGACTGTACGTCTAGCAAG
* * *
32031648 CTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGG
1 CTTAATGCCGATGAAATAATTCAGACTGTACGTCTAGCAAG
32031689 CTTAATGC
1 CTTAATGC
32031697 TGGTGTTCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (41 bp):
CTTAATGCCGATGAAATAATTCAGACTGTACGTCTAGCAAG
Found at i:32037878 original size:13 final size:13
Alignment explanation
Indices: 32037847--32037879 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
32037837 GAAGGAGATC
*
32037847 ACACATGGCCTGG
1 ACACACGGCCTGG
32037860 -CACACGGCCTGG
1 ACACACGGCCTGG
32037872 ACACACGG
1 ACACACGG
32037880 GCATGTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.24, C:0.36, G:0.30, T:0.09
Consensus pattern (13 bp):
ACACACGGCCTGG
Found at i:32038429 original size:21 final size:21
Alignment explanation
Indices: 32038399--32038489 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 21
32038389 CATTTTCCCC
32038399 ATTTTA-TTTATTATTTTATT
1 ATTTTATTTTATTATTTTATT
**
32038419 ATTTTATTTTATTCCTTTATT
1 ATTTTATTTTATTATTTTATT
* *
32038440 AATTTATTTTTCTTAGTTTTA-T
1 ATTTTA-TTTTATTA-TTTTATT
32038462 -TTTTA-TTT-TTATTTTATTT
1 ATTTTATTTTATTATTTTA-TT
*
32038481 ATTCTATTT
1 ATTTTATTT
32038490 AGTACATTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.09
18 3 0.05
19 4 0.07
20 10 0.18
21 23 0.41
22 7 0.12
23 4 0.07
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (21 bp):
ATTTTATTTTATTATTTTATT
Found at i:32038522 original size:53 final size:52
Alignment explanation
Indices: 32038405--32038523 Score: 127
Period size: 53 Copynumber: 2.2 Consensus size: 52
32038395 CCCCATTTTA
* * * *
32038405 TTTATTAT-TTTATTATTTTATTTTATTCCTTTATTAATTTATTTTTCTTAGT
1 TTTATTATATTT-TTATTTTATTTTATTCATTTAGTAATTTAATTTTATTAGT
*
32038457 TTTATTTTTATTTTTATTTTA-TTTATTCTATTTAGTACATTTAATTTTATT-GT
1 TTTA-TTATATTTTTATTTTATTTTATTC-ATTTAGTA-ATTTAATTTTATTAGT
32038510 TTTATTACTATTTT
1 TTTATTA-TATTTT
32038524 ACATGCTACC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
52 13 0.23
53 29 0.52
54 14 0.25
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.71
Consensus pattern (52 bp):
TTTATTATATTTTTATTTTATTTTATTCATTTAGTAATTTAATTTTATTAGT
Found at i:32044681 original size:50 final size:48
Alignment explanation
Indices: 32044627--32044789 Score: 137
Period size: 50 Copynumber: 3.3 Consensus size: 48
32044617 TGCAATGTCG
*
32044627 GGGAAGCAAGATTCGTCGTTGTGGCTTTAATTTGTTCCACTGCACCGCCA
1 GGGAAGCAAGATTC-ACGTTGTGGCTTTAATTT-TTCCACTGCACCGCCA
** * * ** ** *
32044677 GGGAAATAAGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCA-CGTTGTGGCTTTAAT-TTTTCCACTGCACCGCCA
* * *
32044727 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTATTCCACTGCACCGCCT
1 GGGAAGCAAGATTCAC-GTTGTGGCTTTAAT-TTTTCCACTGCACCGCCA
* *
32044777 GGGGAGTAAGATT
1 GGGAAGCAAGATT
32044790 TGCCATTATA
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
49 1 0.01
50 83 0.97
51 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (48 bp):
GGGAAGCAAGATTCACGTTGTGGCTTTAATTTTTCCACTGCACCGCCA
Found at i:32044774 original size:100 final size:100
Alignment explanation
Indices: 32044601--32044789 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 100
32044591 TAACTCATAA
* * * * *
32044601 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATTTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCCTCGATGTGGCTTTAATCTATTCCA
32044666 CTGCACCGCCAGGGAAATAAGATTCACCGTTATAG
66 CTGCACCGCCAGGGAAATAAGATTCACCGTTATAG
32044701 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACT-GATGTGGCTTTAATCTATTCC
1 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTC-CTCGATGTGGCTTTAATCTATTCC
* * *
32044765 ACTGCACCGCCTGGGGAGTAAGATT
65 ACTGCACCGCCAGGGAAATAAGATT
32044790 TGCCATTATA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 79 0.99
101 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCCTCGATGTGGCTTTAATCTATTCCA
CTGCACCGCCAGGGAAATAAGATTCACCGTTATAG
Found at i:32044856 original size:80 final size:80
Alignment explanation
Indices: 32044720--32044869 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 80
32044710 TTTTAACTGC
**
32044720 AATGTCAGGGAAGCAAGATTCACTGATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
1 AATGTCAGGGAAGCAAGATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
32044785 AGATTTGCCATTATA
66 AGATTTGCCATTATA
* * *
32044800 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTA
1 AATGTCAGGGAAGCAAGATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
32044865 AGATT
66 AGATT
32044870 CGCTGTTGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (80 bp):
AATGTCAGGGAAGCAAGATTCACCAATGTGGCTTTAATCTATTCCACTGCACCGCCTGGGGAGTA
AGATTTGCCATTATA
Found at i:32044922 original size:180 final size:180
Alignment explanation
Indices: 32044620--32044969 Score: 547
Period size: 180 Copynumber: 1.9 Consensus size: 180
32044610 TTTTAACTGC
** ** *
32044620 AATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATTTGTTCCACTGCACCGCCAGGGAAATA
1 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATA
*
32044685 AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTGATGTG
66 AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTG
*
32044750 GCTTTAATCTATTCCACTGCACCGCCTGGGGAGTAAGATTTGCCATTATA
131 GCTTTAATCTATTCCACTACACCGCCTGGGGAGTAAGATTTGCCATTATA
* * * *
32044800 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTA
1 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATA
* * * *
32044865 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
66 AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTG
* *
32044930 GCTTTAATCTGTTCCACTACATCGCCTGGGGAGTAAGATT
131 GCTTTAATCTATTCCACTACACCGCCTGGGGAGTAAGATT
32044970 CGCTGTTGTA
Statistics
Matches: 153, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
180 153 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (180 bp):
AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAATA
AGATTCACCGTTATAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGATGTG
GCTTTAATCTATTCCACTACACCGCCTGGGGAGTAAGATTTGCCATTATA
Found at i:32045018 original size:50 final size:50
Alignment explanation
Indices: 32044800--32045043 Score: 217
Period size: 50 Copynumber: 4.9 Consensus size: 50
32044790 TGCCATTATA
* * *
32044800 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGC
1 AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * * * * * *
32044850 -ATCGCCTGGGG-AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
1 AAT-GTC-GGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * *
32044900 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTAC
1 AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * * * * * *
32044950 -ATCGCCTGGGG-AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
1 AAT-GTC-GGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
* * *
32045000 AATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATATGTTC
1 AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTC
32045044 CACTACACCT
Statistics
Matches: 146, Mismatches: 40, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
49 12 0.08
50 122 0.84
51 12 0.08
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (50 bp):
AATGTCGGGGAAGCAAGATTCACCGATGTAGCTTTAATCTGTTCAACTGC
Found at i:32045068 original size:100 final size:100
Alignment explanation
Indices: 32044800--32045050 Score: 466
Period size: 100 Copynumber: 2.5 Consensus size: 100
32044790 TGCCATTATA
* *
32044800 AATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTA
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
32044865 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
66 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
32044900 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
32044965 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
66 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
* *
32045000 AATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATATGTTCCACTACA
1 AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACA
32045051 CCTCTTGGGA
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 147 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
AATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGGGAGTA
AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGC
Found at i:32045759 original size:87 final size:88
Alignment explanation
Indices: 32045332--32046165 Score: 998
Period size: 88 Copynumber: 9.5 Consensus size: 88
32045322 GGACTTGTAA
* * * * * * * *
32045332 TCTTCGATTTGATTCACTGTTGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTACACTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* *
32045397 GACCGAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * * *
32045420 TCTTCGATCTGCTTCGCTATTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTTCTCCGCTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
32045485 AACCCAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * * *
32045508 TCTTCGATCTGCTTCGCTGTCGGTGCATGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* *
32045573 AACCCAGGGAGACAAGGTTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
32045596 TCTTCGATCTGGTTCGCTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
32045661 AACCCAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * * ** *
32045684 TCTTCGATTTGCTTTGCTATCGGTGCAGGAA-GCAAGATCTGCTATTTTTAACCTGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
*
32045748 AACCCAAGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
32045771 TCTTCGATCTGCTTCGCTGTCTATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGG
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* * * *
32045836 AACCTATGGAGGCAAGACTGGGG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
32045859 TCTTCGATCTGCTTCGCTGTCTATGTAGGAAGGCAAGATCTGCTATATTTAACCATG-TCCGCTG
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACC-TGCTCCACTG
* * * *
32045923 CAACCGATGGAGGCAAAGCT-TTG
65 CAACCCAGGGAGGCAAGGCTGGTG
* * * * *
32045946 TTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATATTTAACCTACTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
* * *
32046011 AACCGATGGAGGCAAGGCT-TTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * * *
32046033 TTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCT-CTCCACTA
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAA-CCTGCTCCACTG
* * *
32046097 CAACCGATGGAGGCAAGGCT-TTG
65 CAACCCAGGGAGGCAAGGCTGGTG
*
32046120 -CTTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
1 TC-TTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTAT
32046166 CTTCACTGAT
Statistics
Matches: 668, Mismatches: 73, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
86 1 0.00
87 278 0.42
88 387 0.58
89 2 0.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGC
AACCCAGGGAGGCAAGGCTGGTG
Found at i:32045805 original size:263 final size:263
Alignment explanation
Indices: 32045332--32046165 Score: 1052
Period size: 263 Copynumber: 3.2 Consensus size: 263
32045322 GGACTTGTAA
* * * * * * *
32045332 TCTTCGATTTGATTCACTGTTGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTACACTGC
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACCTGCTCCACTGC
* *
32045397 GACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATTGGTGCAGGAAGGCAAGATCTG
66 AACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
* *
32045462 CTATTTTTAACCTTCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
131 CTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
** * * * * *
32045527 TCGGTGCATGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGACAAGGTT
196 TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCT-CTCCACTACAACCCATGGAGGCAAGGTT
32045592 GGTG
260 GGTG
* * * * * *
32045596 TCTTCGATCTGGTTCGCTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACCTGCTCCACTGC
* * *
32045661 AACCCAGGGAGGCAAGGCTGGTGTCTTCGATTTGCTTTGCTATCGGTGCAGGAA-GCAAGATCTG
66 AACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
* * *
32045725 CTATTTTTAACCTGCTCTGCTACAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
131 CTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* ** * **
32045790 TCTATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGGAACCTATGGAGGCAAGACT
196 TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCT-CTCCACTACAACCCATGGAGGCAAGGTT
*
32045855 GGGG
260 GGTG
* * * *
32045859 TCTTCGATCTGCTTCGCTGTCTATGTAGGAAGGCAAGATCTGCTATATTTAACCATG-TCCGCTG
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACC-TGCTCCACTG
* * * * * **
32045923 CAACCGATGGAGGCAAAGCT-TTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
65 CAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCT
* * * * * * *
32045987 ACTATATTTAACCTACTCCACTGCAACCGATGGAGGCAAGGCT-TTGTTTTCGATCTGCTTCGCT
130 GCTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCT
* *
32046051 GTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCTCTCCACTACAACCGATGGAGGCAAGGC
195 GTCAATGCAAGAAGGCAAGATCTGCTATCTTTAA-CCTCTCCACTACAACCCATGGAGGCAAGG-
32046116 TT--TG
258 TTGGTG
32046120 -CTTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
1 TC-TTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTAT
32046166 CTTCACTGAT
Statistics
Matches: 492, Mismatches: 73, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
260 1 0.00
261 42 0.09
262 100 0.20
263 244 0.50
264 105 0.21
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (263 bp):
TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATATTTAACCTGCTCCACTGC
AACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
CTATTTTTAACCTACTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCTCTCCACTACAACCCATGGAGGCAAGGTTG
GTG
Found at i:32045893 original size:44 final size:44
Alignment explanation
Indices: 32045757--32045896 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
32045747 CAACCCAAGG
* * *
32045757 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCTATGCAAGA
1 AGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
* * ** * * * ** **
32045801 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTG-GAACCTATGG-
1 AGGCAAGA-CTGGTGTCTTCGATCTGCTTCGCTGTCTATGTA-GGA
*
32045845 AGGCAAGACTGGGGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
1 AGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
32045889 AGGCAAGA
1 AGGCAAGA
32045897 TCTGCTATAT
Statistics
Matches: 66, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 19 0.29
44 28 0.42
45 19 0.29
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (44 bp):
AGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCTATGTAGGA
Found at i:32046069 original size:43 final size:43
Alignment explanation
Indices: 32045933--32046069 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
32045923 CAACCGATGG
*
32045933 AGGCAAAGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * * *
32045976 AGGCAAGATCTACTATATTT-AACCTACTCCACTG-CAA-CCGATGG-
1 AGGCAAG-GCT-TTGT-TTTCGATCTGCTTCGCTGTCAATGC-A-GGA
32046020 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
32046063 AGGCAAG
1 AGGCAAG
32046070 ATCTGCTATC
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
41 3 0.05
42 13 0.20
43 20 0.30
44 14 0.21
45 13 0.20
46 3 0.05
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:32047136 original size:22 final size:22
Alignment explanation
Indices: 32047108--32047152 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
32047098 TTTGAGTTGG
32047108 ACATGTGTTTAGGAGATCTACA
1 ACATGTGTTTAGGAGATCTACA
32047130 ACATGTGTTTAGGAGATCTACA
1 ACATGTGTTTAGGAGATCTACA
32047152 A
1 A
32047153 TGCTTTGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGTGTTTAGGAGATCTACA
Found at i:32047382 original size:6 final size:6
Alignment explanation
Indices: 32047373--32047408 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
32047363 CATTTTTACT
32047373 TTTTCA TTTTCA TTTTTCA TTTTCA TTTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA TTTTCA -TTTTCA TTTT
32047409 TCACCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:32047382 original size:7 final size:7
Alignment explanation
Indices: 32047363--32047411 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
32047353 TTAGCCTCTC
32047363 CATTTTT
1 CATTTTT
32047370 -ACTTTTT
1 CA-TTTTT
32047377 CA-TTTT
1 CATTTTT
32047383 CATTTTT
1 CATTTTT
32047390 CA-TTTT
1 CATTTTT
32047396 CATTTTT
1 CATTTTT
32047403 CATTTTT
1 CATTTTT
32047410 CA
1 CA
32047412 CCTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 13 0.34
7 24 0.63
8 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:32047388 original size:13 final size:13
Alignment explanation
Indices: 32047372--32047408 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
32047362 CCATTTTTAC
32047372 TTTTTCATTTTCA
1 TTTTTCATTTTCA
32047385 TTTTTCATTTTCA
1 TTTTTCATTTTCA
32047398 TTTTTCATTTT
1 TTTTTCATTTT
32047409 TCACCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:32047410 original size:20 final size:19
Alignment explanation
Indices: 32047363--32047411 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
32047353 TTAGCCTCTC
*
32047363 CATTTTTACTTTTTCATTTT
1 CATTTTT-CATTTTCATTTT
32047383 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTTTCA-TTTT
32047403 CATTTTTCA
1 CATTTTTCA
32047412 CCTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (19 bp):
CATTTTTCATTTTCATTTT
Found at i:32048137 original size:15 final size:13
Alignment explanation
Indices: 32048108--32048151 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
32048098 TCTCCTTTTC
32048108 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
*
32048121 TTTTTCTTCTCTCT
1 TTTTTCTTTTCT-T
*
32048135 TTTTTCATTTTCAT
1 TTTTTC-TTTTCTT
32048149 TTT
1 TTT
32048152 GACCTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.42
14 11 0.42
15 4 0.15
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:32053569 original size:64 final size:64
Alignment explanation
Indices: 32053468--32053595 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
32053458 AATTGAAGTC
32053468 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
32053532 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
32053596 CAGCGTTCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (64 bp):
TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
Found at i:32055091 original size:13 final size:13
Alignment explanation
Indices: 32055075--32055099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32055065 CATTAACGAC
32055075 AATAAATAACATT
1 AATAAATAACATT
32055088 AATAAATAACAT
1 AATAAATAACAT
32055100 GCATCCTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAACATT
Found at i:32056237 original size:29 final size:29
Alignment explanation
Indices: 32056147--32056251 Score: 133
Period size: 29 Copynumber: 3.6 Consensus size: 29
32056137 AGAAAAATCA
* *
32056147 GTGGCAAAACTATAAAATACGGGAAAAAG
1 GTGGCAAAACTGTAAAATATGGGAAAAAG
32056176 GTGGCAAAACTGTAAAATATGGGAAAAAG
1 GTGGCAAAACTGTAAAATATGGGAAAAAG
* *
32056205 GTGGCAGAACTGTAAAAT-TTGGAAAACTA-
1 GTGGCAAAACTGTAAAATATGGGAAAA--AG
*
32056234 GTGGCAAAATTGTAAAAT
1 GTGGCAAAACTGTAAAAT
32056252 CTAAAAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 7 0.10
29 60 0.88
30 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.20
Consensus pattern (29 bp):
GTGGCAAAACTGTAAAATATGGGAAAAAG
Found at i:32063712 original size:23 final size:23
Alignment explanation
Indices: 32063681--32063779 Score: 137
Period size: 23 Copynumber: 4.3 Consensus size: 23
32063671 ATAAGTGCCA
*
32063681 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32063704 CACGGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
32063727 CATTG-TAATGTAGCCGTAGCTAC
1 CACTGAT-ATGTAGCCGAAGCTAC
*
32063750 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32063773 CACTGAT
1 CACTGAT
32063780 CAACAACACT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
22 1 0.02
23 64 0.98
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32078889 original size:12 final size:12
Alignment explanation
Indices: 32078872--32078901 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32078862 TCAGGCAGTT
32078872 ACACGGCCTAGC
1 ACACGGCCTAGC
*
32078884 ACACGGCCTGGC
1 ACACGGCCTAGC
32078896 ACACGG
1 ACACGG
32078902 GCATGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:32082567 original size:24 final size:25
Alignment explanation
Indices: 32082498--32082594 Score: 119
Period size: 24 Copynumber: 4.0 Consensus size: 25
32082488 AAGCTCTTCC
* **
32082498 GAGCTGAATAACGGGAAGCTCATGT
1 GAGCTGAATATCGGGAAGCTCATAA
* *
32082523 GAGCTAAATATTGGGAAGCTCATAA
1 GAGCTGAATATCGGGAAGCTCATAA
32082548 GAGCTGAA-ATCGGGAAGCTCATAA
1 GAGCTGAATATCGGGAAGCTCATAA
32082572 G-GCCTGAA-ATCGGGAAGCTCATA
1 GAG-CTGAATATCGGGAAGCTCATA
32082595 CCAGCTATGG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 36 0.56
25 27 0.42
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (25 bp):
GAGCTGAATATCGGGAAGCTCATAA
Found at i:32086531 original size:18 final size:18
Alignment explanation
Indices: 32086497--32086532 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32086487 TTTAATATTT
* *
32086497 TATATTATATTATTTTTA
1 TATATTATATAACTTTTA
32086515 TATATTATATAACTTTTA
1 TATATTATATAACTTTTA
32086533 ACACATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTATATAACTTTTA
Found at i:32087332 original size:25 final size:25
Alignment explanation
Indices: 32087288--32087351 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
32087278 ATAAATTAAA
*
32087288 AAATATATAAATATT-TATAAATATC
1 AAATATA-AAATATTGAATAAATATC
* *
32087313 AAATA-AATAATATTGAATAAATTTT
1 AAATATAA-AATATTGAATAAATATC
32087338 AAATATAAAATATT
1 AAATATAAAATATT
32087352 CATCAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.03
24 7 0.21
25 23 0.70
26 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATATAAAATATTGAATAAATATC
Found at i:32087887 original size:23 final size:24
Alignment explanation
Indices: 32087856--32087904 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
32087846 TAATAAAATT
* *
32087856 TACATAAAATGAAAAACGACAAAG
1 TACATAAAATAAAAAACAACAAAG
*
32087880 TACA-AAAATAAAAAATAACAAAG
1 TACATAAAATAAAAAACAACAAAG
32087903 TA
1 TA
32087905 AATGATGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.14
Consensus pattern (24 bp):
TACATAAAATAAAAAACAACAAAG
Found at i:32091875 original size:26 final size:25
Alignment explanation
Indices: 32091846--32091945 Score: 83
Period size: 26 Copynumber: 3.9 Consensus size: 25
32091836 AGTATACTGT
32091846 TACTGGCAGCTTTGCTGCGATACTCA
1 TACTGGCAGCTTTGCTGCGATACT-A
* * * *
32091872 TACTAGTAGCCTTGCTGCGATACTGT
1 TACTGGCAGCTTTGCTGCGATACT-A
* * * * *
32091898 TACTGGTAGTTTTGTTACGATAATA
1 TACTGGCAGCTTTGCTGCGATACTA
*
32091923 TAACGGGCAGCTTTGCTGCGATA
1 T-ACTGGCAGCTTTGCTGCGATA
32091946 TTGGTGTGTT
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
25 1 0.02
26 55 0.98
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (25 bp):
TACTGGCAGCTTTGCTGCGATACTA
Found at i:32099521 original size:26 final size:26
Alignment explanation
Indices: 32099466--32099566 Score: 100
Period size: 26 Copynumber: 3.9 Consensus size: 26
32099456 TGGAGGAAGT
* *
32099466 ATACTGTTACTGGCAG-TTTACTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
32099491 ATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* * *
32099517 ATACTGTTACTAGCTA-CTTTGCTGTG
1 ATACTGATACTGGC-AGCTTTGCTGCG
* *
32099543 ATACT-ATTACGGGCAACTTTGCTG
1 ATACTGA-TACTGGCAGCTTTGCTG
32099567 TGACATTTGC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
25 16 0.25
26 47 0.73
27 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:32099563 original size:52 final size:51
Alignment explanation
Indices: 32099466--32099566 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 51
32099456 TGGAGGAAGT
* * * *
32099466 ATACTGTTACTGGCAGTTTACTGCGATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCACTTTACTGCGATACTGATACGGGCAACTTTGCTGCG
* *
32099517 ATACTGTTACTAGCTACTTTGCTGTGATACT-ATTACGGGCAACTTTGCTG
1 ATACTGTTACTAGC-ACTTTACTGCGATACTGA-TACGGGCAACTTTGCTG
32099567 TGACATTTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 14 0.33
52 28 0.67
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (51 bp):
ATACTGTTACTAGCACTTTACTGCGATACTGATACGGGCAACTTTGCTGCG
Found at i:32104045 original size:26 final size:26
Alignment explanation
Indices: 32104015--32104072 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
32104005 AAGGAAACCA
32104015 TTGAAGAGGACCTCAACCGAGGACAT
1 TTGAAGAGGACCTCAACCGAGGACAT
32104041 TTGAAGAGGACCTCAACCGAGGACAT
1 TTGAAGAGGACCTCAACCGAGGACAT
32104067 TTGAAG
1 TTGAAG
32104073 CAATTTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (26 bp):
TTGAAGAGGACCTCAACCGAGGACAT
Found at i:32104857 original size:20 final size:20
Alignment explanation
Indices: 32104816--32104857 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32104806 ATTTCCACAA
* *
32104816 TGGCTGGGCACACGCCCGTG
1 TGGCTGGCCACACGCCCATG
*
32104836 TGGCTGGCCACACGCCTATG
1 TGGCTGGCCACACGCCCATG
32104856 TG
1 TG
32104858 CCAACCCGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.33, G:0.36, T:0.19
Consensus pattern (20 bp):
TGGCTGGCCACACGCCCATG
Found at i:32112359 original size:28 final size:28
Alignment explanation
Indices: 32112279--32112359 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
32112269 AATCCCTGGT
* *
32112279 GGACATTCCACCTAAGATAGT-CTGTGGT
1 GGACATTCCACTTAAGATAGTCCT-TGGA
*
32112307 GGACATTCCACTTAAAATA-TCCCTTGGA
1 GGACATTCCACTTAAGATAGT-CCTTGGA
* *
32112335 GGATATTCTACTTAAGATAGTCCTT
1 GGACATTCCACTTAAGATAGTCCTT
32112360 TCCGGACTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 1 0.02
28 40 0.91
29 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (28 bp):
GGACATTCCACTTAAGATAGTCCTTGGA
Found at i:32122590 original size:41 final size:41
Alignment explanation
Indices: 32122529--32122675 Score: 167
Period size: 41 Copynumber: 3.6 Consensus size: 41
32122519 ATTTCTTCAT
* *
32122529 CCTGTTTGTACTT-TGCTACCCTTGAACTGTACATACGTGCC
1 CCTGTTTGTACTTCAG-TACCCTTGAAATGTACATACGTGCC
* *
32122570 CCTGTTTGTACTTCAGTACCCTTGAATTGCACATACGTGCC
1 CCTGTTTGTACTTCAGTACCCTTGAAATGTACATACGTGCC
* *
32122611 CCTGTTT-TACTTCAGTACCCCTGAAAT-TCACATATGTG-C
1 CCTGTTTGTACTTCAGTACCCTTGAAATGT-ACATACGTGCC
** *
32122650 CCTGTTTACACTTCAGTAACCTTGAA
1 CCTGTTTGTACTTCAGTACCCTTGAA
32122676 TCTAGTAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
39 8 0.09
40 41 0.44
41 43 0.46
42 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (41 bp):
CCTGTTTGTACTTCAGTACCCTTGAAATGTACATACGTGCC
Found at i:32122643 original size:40 final size:41
Alignment explanation
Indices: 32122545--32122676 Score: 153
Period size: 40 Copynumber: 3.3 Consensus size: 41
32122535 TGTACTTTGC
* * * *
32122545 TACCCTTGAACTGTACATACGTGCCCCTGTTTGTACTTCAG
1 TACCCCTGAATTGCACATACGTGCCCCTGTTTATACTTCAG
*
32122586 TACCCTTGAATTGCACATACGTGCCCCTGTTT-TACTTCAG
1 TACCCCTGAATTGCACATACGTGCCCCTGTTTATACTTCAG
* *
32122626 TACCCCTGAAATT-CACATATGTG-CCCTGTTTACACTTCAG
1 TACCCCTG-AATTGCACATACGTGCCCCTGTTTATACTTCAG
* *
32122666 TAACCTTGAAT
1 TACCCCTGAAT
32122677 CTAGTAAAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
39 11 0.13
40 37 0.45
41 34 0.41
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (41 bp):
TACCCCTGAATTGCACATACGTGCCCCTGTTTATACTTCAG
Found at i:32138629 original size:22 final size:21
Alignment explanation
Indices: 32138604--32138647 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
32138594 TTGTTAATAA
* *
32138604 TTAAGTGACATAACTTTTGAAT
1 TTAAGAGAAATAACTTTT-AAT
32138626 TTAAGAGAAATAACTTTTAAT
1 TTAAGAGAAATAACTTTTAAT
32138647 T
1 T
32138648 ATTTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (21 bp):
TTAAGAGAAATAACTTTTAAT
Found at i:32139627 original size:20 final size:20
Alignment explanation
Indices: 32139578--32139628 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
32139568 AAGATATATT
* *
32139578 AATTATATTTTATTAAATGA
1 AATTAAATTTTAATAAATGA
* *
32139598 AAATAAATTTTAATACATGA
1 AATTAAATTTTAATAAATGA
*
32139618 AATTAGATTTT
1 AATTAAATTTT
32139629 TAAATTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (20 bp):
AATTAAATTTTAATAAATGA
Found at i:32140618 original size:114 final size:112
Alignment explanation
Indices: 32140418--32140972 Score: 815
Period size: 114 Copynumber: 4.9 Consensus size: 112
32140408 AAAATAAGCA
* *
32140418 TTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
32140483 TCGGGGATTTAGCAGCGTTTTTAATAAAGCGCCGCTGATGCTCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGGGCT
*
32140532 TTAGCGGCGCTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
32140597 TCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTTAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGGGCT
* * *
32140646 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAGAGCTAAGCCTAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
32140711 TCGAGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCCAGAGCT
65 TCGGGGATTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCAGGGCT
* *
32140760 TTAGCGGTGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCTTTTTCTGAGCTT
1 TTAGCGGCGTTTTT-GGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
32140825 TCGGGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCAGGGCT
* *
32140874 TTAGCGGTGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
32140938 TCGGTGATTTAGCGGCGTTTTTGGAAAAGCGCCGC
65 TCGGGGATTTAGCGGCGTTTTT-AAAAAGCGCCGC
32140973 AAAAAATATT
Statistics
Matches: 399, Mismatches: 36, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
113 66 0.17
114 330 0.83
115 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (112 bp):
TTAGCGGCGTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
Found at i:32141243 original size:15 final size:15
Alignment explanation
Indices: 32141223--32141253 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32141213 CATATTTTAA
32141223 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
32141238 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
32141253 G
1 G
32141254 ATTAGGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:32141312 original size:23 final size:23
Alignment explanation
Indices: 32141264--32141312 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
32141254 ATTAGGGGTT
* *
32141264 GGGATTTAAAGGTTAGGGGTTTA
1 GGGATTTAAAGGTTAGGGATTCA
32141287 GGGATTT-AAGGTTTAGGGATTCA
1 GGGATTTAAAGG-TTAGGGATTCA
32141310 GGG
1 GGG
32141313 GTCGAGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.33
Consensus pattern (23 bp):
GGGATTTAAAGGTTAGGGATTCA
Found at i:32141532 original size:21 final size:21
Alignment explanation
Indices: 32141498--32141575 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
32141488 TATGGAATTA
*
32141498 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
*
32141518 GGGATTTAAGGTTTAGGGGTT
1 GGGATTTAAGGTTTAAGGGTT
* * **
32141539 -AGATGTTAGGGTTTAATAGTT
1 GGGAT-TTAAGGTTTAAGGGTT
32141560 AGGGATTTAAGGTTTA
1 -GGGATTTAAGGTTTA
32141576 GGGATTCAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 7 0.16
21 26 0.58
22 9 0.20
23 3 0.07
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGGTT
Found at i:32144318 original size:19 final size:19
Alignment explanation
Indices: 32144294--32144357 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
32144284 AAAACGCCGC
32144294 AAAAAATAAATCAATTTAT
1 AAAAAATAAATCAATTTAT
* * *** *
32144313 AAAAAAAAAATTAGCATACC
1 AAAAAATAAATCAATTTA-T
32144333 AAAAAATAAATCAATTTAT
1 AAAAAATAAATCAATTTAT
32144352 AAAAAA
1 AAAAAA
32144358 CAAAATAAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAAATAAATCAATTTAT
Found at i:32144971 original size:3 final size:3
Alignment explanation
Indices: 32144963--32144991 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32144953 CATCGCCTCT
32144963 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
32144992 ATATCTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:32148634 original size:43 final size:43
Alignment explanation
Indices: 32148409--32148636 Score: 253
Period size: 43 Copynumber: 5.3 Consensus size: 43
32148399 CATGATATTT
* * * * * *
32148409 TTTAGCGGCGTTT-TTGAGAGAAGCGTCGCTAACGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGGTCATGGTC
* * * *
32148451 TATAGCGGCATTTGTGATAAAAAGCGCCGCTAAAGGTCATGGTT
1 TTTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
32148495 TTTAGCGGCGTTTATGGAAAAAGTGCCGCTAAAGGTCATTGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
*
32148538 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * **
32148581 TATAGCGGCGTTTGTGGAAAATGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
*
32148624 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
32148637 ATTTTCAAAA
Statistics
Matches: 155, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
42 11 0.07
43 127 0.82
44 17 0.11
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:32149216 original size:41 final size:40
Alignment explanation
Indices: 32149156--32149475 Score: 424
Period size: 41 Copynumber: 7.8 Consensus size: 40
32149146 CGACCTTTTG
* *
32149156 GGGCTTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
32149197 GGAGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GG-GCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
* *
32149238 AGGCCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
* * *
32149279 AGGCCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATACTC
1 -GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
* * * *
32149320 AGGCTTTTAGCAGCGTTTCTGAGGAAGCGCCGCTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
*
32149361 AGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
* * *
32149402 AGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGTTAATGCTC
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
*
32149443 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 -GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
32149476 AAAAACATTT
Statistics
Matches: 256, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 247 0.96
42 7 0.03
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
Found at i:32149298 original size:82 final size:82
Alignment explanation
Indices: 32149157--32149475 Score: 478
Period size: 82 Copynumber: 3.9 Consensus size: 82
32149147 GACCTTTTGG
* *
32149157 GGCTTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC-GGAGCTTTAGCGGCGTTTTTGAGA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGG-CCTTTAGCGGCGTTTTTGAGA
32149221 AAGCGCCGCTAATGCTCA
65 AAGCGCCGCTAATGCTCA
* * *
32149239 GGCCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAA
* *
32149304 AGCGCTGCTAATACTCA
66 AGCGCCGCTAATGCTCA
* * ** *
32149321 GGCTTTTAGCAGCGTTTCTGAGGAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTGAGAA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAA
32149386 AGCGCCGCTAATGCTCA
66 AGCGCCGCTAATGCTCA
* * * *
32149403 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGTTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAA
32149468 AGCGCCGC
66 AGCGCCGC
32149476 AAAAACATTT
Statistics
Matches: 212, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
82 210 0.99
83 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (82 bp):
GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAA
AGCGCCGCTAATGCTCA
Found at i:32149380 original size:123 final size:122
Alignment explanation
Indices: 32149161--32149475 Score: 486
Period size: 123 Copynumber: 2.6 Consensus size: 122
32149151 TTTTGGGGCT
*
32149161 TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGAGCTTTAGCGGCGTTTTTGAGAAAGCG
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG-GCTTTAGCGGCGTTTTTGAGAAAGCG
*
32149226 CCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGCC
65 CCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGCC
* * * * * * *
32149284 TTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATACTCAGGCTTTTAGCAGCGTTTCTGAGGAAGCG
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGC-TTTAGCGGCGTTTTTGAGAAAGCG
* *
32149349 CCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGCT
65 CCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGCC
* *
32149407 TTTAGCGGCGTTTTTGAAAAAGCGCCGTTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCG
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-GGGCTTTAGCGGCGTTTTTGAGAAAGCG
32149472 CCGC
65 CCGC
32149476 AAAAACATTT
Statistics
Matches: 170, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
122 2 0.01
123 165 0.97
124 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (122 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
CGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGCC
Found at i:32150679 original size:27 final size:27
Alignment explanation
Indices: 32150647--32150703 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
32150637 TTACATGTTG
32150647 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
32150674 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
32150701 AAA
1 AAA
32150704 AAAAATGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.21
Consensus pattern (27 bp):
AAATTAATTAAGGGAATGTAAACAAGA
Found at i:32152154 original size:46 final size:46
Alignment explanation
Indices: 32152087--32152180 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
32152077 TTAATGACAA
32152087 TATTGCCAATTTATGGAGTTTACCCTTAGGGCACTTGGTAATTCTT
1 TATTGCCAATTTATGGAGTTTACCCTTAGGGCACTTGGTAATTCTT
32152133 TATTGCCAATTTATGGAGTTTACCCTTAGGGCACTTGGTAATTCTT
1 TATTGCCAATTTATGGAGTTTACCCTTAGGGCACTTGGTAATTCTT
32152179 TA
1 TA
32152181 CTTTTTGTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (46 bp):
TATTGCCAATTTATGGAGTTTACCCTTAGGGCACTTGGTAATTCTT
Found at i:32154589 original size:43 final size:43
Alignment explanation
Indices: 32154541--32154704 Score: 206
Period size: 43 Copynumber: 3.8 Consensus size: 43
32154531 AGATTATGTT
* *
32154541 TTTAGCGGCGTTTTTGAAAAAAGTGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCGTGGTC
** *
32154584 TTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
32154627 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATAGCT-GTT
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCG-TGGTC
* *
32154670 TTTAGCGGTGATTGT-AGAAAAAGCGCCGCTAAAGG
1 TTTAGCGGCGTTTGTGA-AAAAAGCGCCGCTAAAGG
32154705 CCTAAAAAAG
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 103 0.98
44 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:32154714 original size:22 final size:22
Alignment explanation
Indices: 32154687--32154729 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32154677 GTGATTGTAG
*
32154687 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
32154709 AAAAAGCGTCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
32154730 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:32169658 original size:44 final size:43
Alignment explanation
Indices: 32169608--32169771 Score: 193
Period size: 44 Copynumber: 3.6 Consensus size: 43
32169598 TTTGAGTACT
32169608 TCTGATCAGTGACAAATGATAAGTAGTAGCTTCAGCTACACTTA
1 TCTGATCAGTGACAAATGATAAGT-GTAGCTTCAGCTACACTTA
32169652 TCTGATCAGTGACAAATGGCAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAGTGAC--A----AA-TGATAAGTG-TAGCTTCAGCTACACTTA
* * * *
32169703 TCTGATCAATGACAAGTGATAAGTGGTAGCTTTAGCTACAGTTA
1 TCTGATCAGTGACAAATGATAAGT-GTAGCTTCAGCTACACTTA
*
32169747 TCTGATCAGTGACAAGTGATAAGTG
1 TCTGATCAGTGACAAATGATAAGTG
32169772 ATAAGTGGCA
Statistics
Matches: 106, Mismatches: 5, Indels: 19
0.82 0.04 0.15
Matches are distributed among these distances:
43 1 0.01
44 60 0.57
45 2 0.02
46 1 0.01
49 1 0.01
50 3 0.03
51 38 0.36
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTGATCAGTGACAAATGATAAGTGTAGCTTCAGCTACACTTA
Found at i:32169770 original size:7 final size:7
Alignment explanation
Indices: 32169749--32169792 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
32169739 TACAGTTATC
*
32169749 TGATCAG
1 TGATAAG
*
32169756 TGACAAG
1 TGATAAG
32169763 TGATAAG
1 TGATAAG
32169770 TGATAAG
1 TGATAAG
**
32169777 TGGCAAG
1 TGATAAG
32169784 TGATAAG
1 TGATAAG
32169791 TG
1 TG
32169793 GTAGCTTAGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (7 bp):
TGATAAG
Found at i:32169778 original size:21 final size:21
Alignment explanation
Indices: 32169749--32169792 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
32169739 TACAGTTATC
*
32169749 TGATCAGTGACAAGTGATAAG
1 TGATAAGTGACAAGTGATAAG
*
32169770 TGATAAGTGGCAAGTGATAAG
1 TGATAAGTGACAAGTGATAAG
32169791 TG
1 TG
32169793 GTAGCTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (21 bp):
TGATAAGTGACAAGTGATAAG
Found at i:32169779 original size:51 final size:51
Alignment explanation
Indices: 32169615--32169779 Score: 209
Period size: 51 Copynumber: 3.4 Consensus size: 51
32169605 ACTTCTGATC
* *
32169615 AGTGACAAATGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
32169666 AATGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG---A-T--CA
1 AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
32169711 A-TGACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
*
32169761 AGTGATAAGTGATAAGTGG
1 AGTGACAAGTGATAAGTGG
32169780 CAAGTGATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
44 35 0.36
45 3 0.03
47 2 0.02
48 2 0.02
50 3 0.03
51 52 0.54
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:32169818 original size:64 final size:65
Alignment explanation
Indices: 32169715--32169837 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 65
32169705 TGATCAATGA
* *
32169715 CAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAGTGACAAGTGATAAGTGATAAGTGG
1 CAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGATAAGTGG
32169780 CAAGTGATAAGTGGTAGC-TTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGAT
1 CAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGAT
32169838 CATACGTAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 38 0.68
65 18 0.32
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.28
Consensus pattern (65 bp):
CAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGATAAGTGG
Found at i:32185411 original size:17 final size:16
Alignment explanation
Indices: 32185389--32185422 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32185379 GGGGATGGCG
32185389 TTTGTTTGATGTTTATT
1 TTTGTTTGATG-TTATT
*
32185406 TTTGTTTGTTGTTATT
1 TTTGTTTGATGTTATT
32185422 T
1 T
32185423 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (16 bp):
TTTGTTTGATGTTATT
Found at i:32193191 original size:46 final size:46
Alignment explanation
Indices: 32193125--32193746 Score: 558
Period size: 46 Copynumber: 13.6 Consensus size: 46
32193115 TTTGAGTACT
32193125 TCTGATC-AGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
32193170 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGGTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
32193216 TTTGATCAAGTGACAAAGTGATAAGTGTTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
32193262 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
32193308 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* ** * ** * * ** * * ** *
32193354 CCATGCCATTCTTCGTAGTA-TACCTGACAAATCGGGAGGTGTAGCCGCA-ATA
1 TC-TG--A-TC-AAGT-G-ACAAAGTGATAAGT-GTTAGCTTTAGCTACACTTA
* ** *** * * * * ****
32193406 GC--A-CCCGTTTTTATA-TG-T--CTGTTGGCTTTACCTTTTTTTAAAAA
1 TCTGATCAAG-TGACAAAGTGATAAGTGTTAGCTTTAGCTACACTT----A
* * ** *
32193450 TATG-T-ATGTG-CGTAGT--TCAAGTGTTAGCTCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGAT-AAGTGTTAGCTTTAGCTACACTTA
*
32193492 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCGTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
32193538 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
32193584 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* * *
32193630 TCTGATCAAGCGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
32193676 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
32193722 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
32193747 ATCATATGTA
Statistics
Matches: 480, Mismatches: 69, Indels: 57
0.79 0.11 0.09
Matches are distributed among these distances:
39 6 0.01
40 2 0.00
42 4 0.01
43 6 0.01
44 21 0.04
45 19 0.04
46 391 0.81
47 4 0.01
49 1 0.00
50 2 0.00
51 2 0.00
52 11 0.02
53 11 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
Found at i:32195927 original size:79 final size:79
Alignment explanation
Indices: 32195796--32195956 Score: 286
Period size: 79 Copynumber: 2.0 Consensus size: 79
32195786 ATTTTGGTTT
* *
32195796 TCCCGTCGTTGGTAATGCTGCTATGCCAGGAAAAATGGATCCTACCCCGTAATGATTAAGAAGTC
1 TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAAGTC
*
32195861 TTAGAAAATAAGGG
66 CTAGAAAATAAGGG
*
32195875 TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAGGTC
1 TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAAGTC
32195940 CTAGAAAATAAGGG
66 CTAGAAAATAAGGG
32195954 TCC
1 TCC
32195957 GATCAATGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (79 bp):
TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAAGTC
CTAGAAAATAAGGG
Found at i:32223455 original size:29 final size:29
Alignment explanation
Indices: 32223421--32223476 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
32223411 TTTGATTATT
* * *
32223421 TTTAATAGTATAGGGGTTAAATTGATCCA
1 TTTAATAGTAAAGAGATTAAATTGATCCA
32223450 TTTAATAGTAAAGAGATTAAATTGATC
1 TTTAATAGTAAAGAGATTAAATTGATC
32223477 ATGTCCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (29 bp):
TTTAATAGTAAAGAGATTAAATTGATCCA
Found at i:32224451 original size:14 final size:14
Alignment explanation
Indices: 32224434--32224460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32224424 AAAATACCAA
32224434 AATTTAAATAAATC
1 AATTTAAATAAATC
32224448 AATTTAAATAAAT
1 AATTTAAATAAAT
32224461 TATGACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTAAATAAATC
Found at i:32225656 original size:20 final size:21
Alignment explanation
Indices: 32225619--32225663 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
32225609 AAGGAGAACA
*
32225619 AAATTGAATTGAAAAAGAAAC
1 AAATTAAATTGAAAAAGAAAC
32225640 AAATTAAATTG-AAAAGAAAC
1 AAATTAAATTGAAAAAGAAAC
32225660 AAAT
1 AAAT
32225664 AGCACACGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.20
Consensus pattern (21 bp):
AAATTAAATTGAAAAAGAAAC
Found at i:32227247 original size:12 final size:13
Alignment explanation
Indices: 32227219--32227247 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32227209 TAAGATAAGT
32227219 TATGATAAAACTA
1 TATGATAAAACTA
32227232 TATGATAAAA-TA
1 TATGATAAAACTA
32227244 TATG
1 TATG
32227248 TGAGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (13 bp):
TATGATAAAACTA
Found at i:32232920 original size:29 final size:27
Alignment explanation
Indices: 32232888--32232964 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 27
32232878 GCTCAAGTAC
32232888 ATTTTCTTTTGTTTGCATGTTT-GTTTCTT
1 ATTTTCTTTTGTTT--ATGTTTGGTTT-TT
* *
32232917 ATTTTCAGTTTGGTTTATTTTTGGTTTTT
1 ATTTTC--TTTTGTTTATGTTTGGTTTTT
*
32232946 ATTTTCTTTTGCTTA-GTTT
1 ATTTTCTTTTGTTTATGTTT
32232965 ACTTAAGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.08
27 7 0.17
29 19 0.47
30 4 0.10
31 7 0.17
ACGTcount: A:0.09, C:0.08, G:0.14, T:0.69
Consensus pattern (27 bp):
ATTTTCTTTTGTTTATGTTTGGTTTTT
Done.