Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 229 of 240
Found at i:69011893 original size:16 final size:17
Alignment explanation
Indices: 69011859--69011894 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
69011849 ATATTAGTAA
69011859 TTTTATTAAATAATATAT
1 TTTTATTAAAT-ATATAT
69011877 TTTTATTAAAT-TATAT
1 TTTTATTAAATATATAT
69011893 TT
1 TT
69011895 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
18 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:69012136 original size:45 final size:44
Alignment explanation
Indices: 69012051--69012146 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
69012041 ATTACAACAT
*
69012051 CATTTCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
* *
69012095 CATTACATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
69012140 CATTACA
1 CATTACA
69012147 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:69019077 original size:18 final size:18
Alignment explanation
Indices: 69019054--69019096 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
69019044 ACTCAATTCA
**
69019054 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
69019072 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
69019090 AACCCAA
1 AACCCAA
69019097 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:69019147 original size:6 final size:6
Alignment explanation
Indices: 69019138--69019166 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
69019128 AAATAAAATT
69019138 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
69019167 GTCTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:69019220 original size:9 final size:9
Alignment explanation
Indices: 69019206--69019281 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
69019196 GTAGTGATTC
*
69019206 AATTCGATT
1 AATTCGGTT
*
69019215 AATTCGGGT
1 AATTCGGTT
69019224 AATTCGAG-T
1 AATTCG-GTT
69019233 AATTCGGTT
1 AATTCGGTT
*
69019242 AATTCGGGT
1 AATTCGGTT
69019251 AATTCGGTT
1 AATTCGGTT
*
69019260 AATTTGGTT
1 AATTCGGTT
*
69019269 AATTCAGTT
1 AATTCGGTT
69019278 AATT
1 AATT
69019282 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 1 0.02
9 56 0.97
10 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:69019281 original size:27 final size:27
Alignment explanation
Indices: 69019206--69019273 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
69019196 GTAGTGATTC
*
69019206 AATTCGATTAATTCGGGTAATTCGAGT
1 AATTCGGTTAATTCGGGTAATTCGAGT
69019233 AATTCGGTTAATTCGGGTAATTCG-GTT
1 AATTCGGTTAATTCGGGTAATTCGAG-T
*
69019260 AATTTGGTTAATTC
1 AATTCGGTTAATTC
69019274 AGTTAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATTCGAGT
Found at i:69029483 original size:42 final size:42
Alignment explanation
Indices: 69029424--69029507 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
69029414 TTGTCCCTAA
69029424 ATTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAAC
1 ATTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAAC
*
69029466 ATTTCCTTTTGTCTTCAATTTAGTCCCTACAAGATGAAAAAC
1 ATTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAAC
69029508 CATAAACAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.38
Consensus pattern (42 bp):
ATTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAAC
Found at i:69030209 original size:18 final size:18
Alignment explanation
Indices: 69030186--69030228 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
69030176 CAATAGGTTT
69030186 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
69030204 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
69030222 TTAATTA
1 TTAATTA
69030229 CATGTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:69034047 original size:13 final size:13
Alignment explanation
Indices: 69034029--69034062 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
69034019 TATACATTAT
*
69034029 TTATTTTATTTTC
1 TTATTTTATGTTC
69034042 TTATTTTATGTTC
1 TTATTTTATGTTC
69034055 TTGATTTT
1 TT-ATTTT
69034063 TTTAGGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (13 bp):
TTATTTTATGTTC
Found at i:69036177 original size:153 final size:152
Alignment explanation
Indices: 69035795--69036156 Score: 530
Period size: 153 Copynumber: 2.4 Consensus size: 152
69035785 GATCTTCCAC
* *
69035795 GTGATATTTCTGGTCTATCCTCTTTGTGGCGTCTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 GTGATATTTCTGGTCTATCCTCTTTG-GTCATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
*
69035860 CCTGCATCTCTTACTCGACTCTCAAAGCTTGCAGATCTTATATTGTCAAATTGCAACATGTGCAC
65 CCTGCATCTCTTACTCGACTCTCAAAACTTGCAGATCTTATATTGTCAAATTGCAACATGTGCAC
* *
69035925 TTTTGGTGAAGCAGATACTGATA
130 TCTTGGTGAAGCAGATACTCATA
* *
69035948 GTGATATTTCTGGTCTATCCACTTTGCGTCATCTTGATCTTAGTGGTAACAATTTCATCAGTATA
1 GTGATATTTCTGGTCTATCCTCTTTG-GTCATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
* * *
69036013 CCTGCATCTCTTGCTCGACTCTCAAAACTT-CATGTTCTTGA-CTTGTCAAATTGCAACATGTGC
65 CCTGCATCTCTTACTCGACTCTCAAAACTTGCA-GATCTT-ATATTGTCAAATTGCAACATGTGC
* *
69036076 ACTCTTGGTGAAGCCGATATTCATA
128 ACTCTTGGTGAAGCAGATACTCATA
* * *
69036101 GTGATCTTTCTGGTCTATCCTCTTTGGTACATCTTTATCTTAGTGGTAAGAATTTC
1 GTGATATTTCTGGTCTATCCTCTTTGGT-CATCTTGATCTTAGTGGTAACAATTTC
69036157 CTCACCATTC
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
152 4 0.02
153 184 0.97
154 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (152 bp):
GTGATATTTCTGGTCTATCCTCTTTGGTCATCTTGATCTTAGTGGTAACAATTTCATCAGCATAC
CTGCATCTCTTACTCGACTCTCAAAACTTGCAGATCTTATATTGTCAAATTGCAACATGTGCACT
CTTGGTGAAGCAGATACTCATA
Found at i:69036212 original size:153 final size:151
Alignment explanation
Indices: 69035795--69036213 Score: 498
Period size: 153 Copynumber: 2.7 Consensus size: 151
69035785 GATCTTCCAC
* *
69035795 GTGATATTTCTGGTCTATCCTCTTTGTGGCGTCTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 GTGATATTTCTGGTCTATCCTCTTTG-GTCATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
* *
69035860 CCTGCATCTCTTACTCGACTCTCAAAGCTTGCAGA-TCTTATATTGTCAAATTGCAACATGTGCA
65 CCTGCATCTCTTACTCGACTCTCAAAGCTT--AAATTCTTAAATTGTCAAATTGCAACATGTGCA
* *
69035924 CTTTTGGTGAAGCAGATACTGATA
128 CTCTTGGTGAAGCAGATACTCATA
* *
69035948 GTGATATTTCTGGTCTATCCACTTTGCGTCATCTTGATCTTAGTGGTAACAATTTCATCAGTATA
1 GTGATATTTCTGGTCTATCCTCTTTG-GTCATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
* * ** * *
69036013 CCTGCATCTCTTGCTCGACTCTCAAAACTTCATGTTCTTGACTTGTCAAATTGCAACATGTGCAC
65 CCTGCATCTCTTACTCGACTCTCAAAGCTT-AAATTCTTAAATTGTCAAATTGCAACATGTGCAC
* *
69036078 TCTTGGTGAAGCCGATATTCATA
129 TCTTGGTGAAGCAGATACTCATA
* * * * * *
69036101 GTGATCTTTCTGGTCTATCCTCTTTGGTACATCTTTATCTTAGTGGTAAGAATTTCCTCACCATT
1 GTGATATTTCTGGTCTATCCTCTTTGGT-CATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
**** * * * *
69036166 CCTTTGGCTCTTACTCAACTTTCCAGGCTTAAATTGCTTAAATTGTCA
65 CCTGCATCTCTTACTCGACTCTCAAAGCTTAAATT-CTTAAATTGTCA
69036214 GTTGCAAGAT
Statistics
Matches: 225, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
152 7 0.03
153 218 0.97
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (151 bp):
GTGATATTTCTGGTCTATCCTCTTTGGTCATCTTGATCTTAGTGGTAACAATTTCATCAGCATAC
CTGCATCTCTTACTCGACTCTCAAAGCTTAAATTCTTAAATTGTCAAATTGCAACATGTGCACTC
TTGGTGAAGCAGATACTCATA
Found at i:69060419 original size:21 final size:21
Alignment explanation
Indices: 69060387--69060427 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
69060377 GAACATTTGG
69060387 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
69060408 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
69060428 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:69063520 original size:24 final size:24
Alignment explanation
Indices: 69063493--69063538 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
69063483 AAAATATAAT
*
69063493 TTTACCATTTTAATAGTTTATATA
1 TTTACAATTTTAATAGTTTATATA
*
69063517 TTTATAATTTTAATAGTTTATA
1 TTTACAATTTTAATAGTTTATA
69063539 ACAAATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTACAATTTTAATAGTTTATATA
Found at i:69064526 original size:69 final size:69
Alignment explanation
Indices: 69064415--69064552 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
69064405 AAATCCAAGA
69064415 TAAGAAAATATCAACTCCAATAGCTCTACCATGAAACTAACCCAATCTAGCTTGAGAATGAAAAC
1 TAAGAAAATATCAACTCCAATAGCTCTACCATGAAACTAACCCAATCTAGCTTGAGAATGAAAAC
69064480 TGTC
66 TGTC
69064484 TAAGAAAATATCAACTCCAATAGCTCTACCATGAAACTAACCCAATCTAGCTTGAGAATGAAAAC
1 TAAGAAAATATCAACTCCAATAGCTCTACCATGAAACTAACCCAATCTAGCTTGAGAATGAAAAC
69064549 TGTC
66 TGTC
69064553 AAAGGTTACC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (69 bp):
TAAGAAAATATCAACTCCAATAGCTCTACCATGAAACTAACCCAATCTAGCTTGAGAATGAAAAC
TGTC
Found at i:69070937 original size:9 final size:9
Alignment explanation
Indices: 69070919--69070968 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
69070909 TCAATAGCAC
69070919 CTGTATCAT
1 CTGTATCAT
*
69070928 CTGTACCAT
1 CTGTATCAT
69070937 CTGTATCAT
1 CTGTATCAT
*
69070946 CTGTACCAT
1 CTGTATCAT
*
69070955 CTGTGTCAT
1 CTGTATCAT
69070964 CTGTA
1 CTGTA
69070969 GCACTCTCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (9 bp):
CTGTATCAT
Found at i:69070942 original size:18 final size:18
Alignment explanation
Indices: 69070919--69070968 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
69070909 TCAATAGCAC
69070919 CTGTATCATCTGTACCAT
1 CTGTATCATCTGTACCAT
69070937 CTGTATCATCTGTACCAT
1 CTGTATCATCTGTACCAT
*
69070955 CTGTGTCATCTGTA
1 CTGTATCATCTGTA
69070969 GCACTCTCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (18 bp):
CTGTATCATCTGTACCAT
Found at i:69070982 original size:18 final size:18
Alignment explanation
Indices: 69070924--69070982 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
69070914 AGCACCTGTA
* *
69070924 TCATCTGTACCATCTGTA
1 TCATCTGTACCATCTCTG
*
69070942 TCATCTGTACCATCTGTG
1 TCATCTGTACCATCTCTG
*
69070960 TCATCTGTAGCACTCTCTG
1 TCATCTGTACCA-TCTCTG
69070979 -CATC
1 TCATC
69070983 CACGTAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 32 0.86
19 5 0.14
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.37
Consensus pattern (18 bp):
TCATCTGTACCATCTCTG
Found at i:69075102 original size:18 final size:19
Alignment explanation
Indices: 69075079--69075127 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
69075069 AAGTTTTATT
*
69075079 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
69075097 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
69075116 TTTAATTTTTAT
1 TTT-ATTTTTAT
69075128 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:69075107 original size:22 final size:22
Alignment explanation
Indices: 69075070--69075127 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
69075060 CAAGTTGTAA
* *
69075070 AGTTTTATTTTTATTTTTATTT
1 AGTTTAATTTTTATTTTTACTT
*
69075092 A-TTTATTTATTTATTTTTACTT
1 AGTTTAATT-TTTATTTTTACTT
69075114 AGTTTAATTTTTAT
1 AGTTTAATTTTTAT
69075128 GTAAATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (22 bp):
AGTTTAATTTTTATTTTTACTT
Found at i:69078241 original size:20 final size:21
Alignment explanation
Indices: 69078218--69078258 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
69078208 AACTAATTTT
69078218 TAAAAAT-TTTAAAAAATAAA
1 TAAAAATATTTAAAAAATAAA
* *
69078238 TAAATATATTTAAAAATTAAA
1 TAAAAATATTTAAAAAATAAA
69078259 AATTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAAAATATTTAAAAAATAAA
Found at i:69078281 original size:28 final size:29
Alignment explanation
Indices: 69078216--69078301 Score: 97
Period size: 29 Copynumber: 2.9 Consensus size: 29
69078206 TTAACTAATT
69078216 TTTAAAAATTTTAAAAAATAAATAAATATA
1 TTTAAAAA-TTTAAAAAATAAATAAATATA
69078246 TTTAAAAA-TTAAAAATTATAAA-AAATAT-
1 TTTAAAAATTTAAAAA--ATAAATAAATATA
* *
69078274 TTTTAAAATTTAAAAAATTAATTAAATA
1 TTTAAAAATTTAAAAAA-TAAATAAATA
69078302 CTAACATGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
27 1 0.02
28 17 0.35
29 18 0.37
30 13 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTAAAAATTTAAAAAATAAATAAATATA
Found at i:69085278 original size:23 final size:23
Alignment explanation
Indices: 69085252--69085304 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
69085242 AGTGTTATTG
69085252 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
69085275 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
69085298 ATCAGTG
1 ATCAGTG
69085305 TGGCACGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:69088058 original size:154 final size:154
Alignment explanation
Indices: 69087778--69088084 Score: 596
Period size: 154 Copynumber: 2.0 Consensus size: 154
69087768 AAGCAGTGTG
69087778 ACTACTAGAGGAAGACCACCGAGAAATATGGGGACTGGAACTAGTGGTAAAGGTGTAACAAAAGA
1 ACTACTAGAGGAAGACCACCGAGAAATATGGGGACTGGAACTAGTGGTAAAGGTGTAACAAAAGA
*
69087843 CACTACTGTAAGATCTGAAGTGAGAGCTCCAGCGAGAGCTTATGCCATCCGAGCTAGAGAGGAAG
66 CACTACTGTAAGATCTGAAGCGAGAGCTCCAGCGAGAGCTTATGCCATCCGAGCTAGAGAGGAAG
69087908 CATCTTCCCCTGATGTGATCACTA
131 CATCTTCCCCTGATGTGATCACTA
*
69087932 ACTACTAGAGGAAGACCACCGAGAAATGTGGGGACTGGAACTAGTGGTAAAGGTGTAACAAAAGA
1 ACTACTAGAGGAAGACCACCGAGAAATATGGGGACTGGAACTAGTGGTAAAGGTGTAACAAAAGA
69087997 CACTACTGTAAGATCTGAAGCGAGAGCTCCAGCGAGAGCTTATGCCATCCGAGCTAGAGAGGAAG
66 CACTACTGTAAGATCTGAAGCGAGAGCTCCAGCGAGAGCTTATGCCATCCGAGCTAGAGAGGAAG
69088062 CATCTTCCCCTGATGTGATCACT
131 CATCTTCCCCTGATGTGATCACT
69088085 GGTATATTTT
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 151 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (154 bp):
ACTACTAGAGGAAGACCACCGAGAAATATGGGGACTGGAACTAGTGGTAAAGGTGTAACAAAAGA
CACTACTGTAAGATCTGAAGCGAGAGCTCCAGCGAGAGCTTATGCCATCCGAGCTAGAGAGGAAG
CATCTTCCCCTGATGTGATCACTA
Found at i:69092783 original size:23 final size:23
Alignment explanation
Indices: 69092757--69092809 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
69092747 GGTGTTATTG
69092757 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
69092780 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
69092803 ATCAGTG
1 ATCAGTG
69092810 TGGCACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:69099819 original size:10 final size:10
Alignment explanation
Indices: 69099804--69099828 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
69099794 GGAGCTTATA
69099804 GGCTAGATCG
1 GGCTAGATCG
69099814 GGCTAGATCG
1 GGCTAGATCG
69099824 GGCTA
1 GGCTA
69099829 TGCAAGGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (10 bp):
GGCTAGATCG
Found at i:69105072 original size:3 final size:3
Alignment explanation
Indices: 69105052--69105096 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
69105042 TATTATATCA
*
69105052 TAT TAT TAGT TTT GTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
69105097 TACTCATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 34 0.89
4 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:69109365 original size:30 final size:30
Alignment explanation
Indices: 69109329--69109452 Score: 135
Period size: 30 Copynumber: 4.2 Consensus size: 30
69109319 CAAATTTCGT
* *
69109329 CTTTTTTAAAATTACACTTTCACCCTTAAA
1 CTTTTTTAAAATTACATTTTGACCCTTAAA
* *
69109359 CTTTTTTAAAATTATATTTTGACCCCTAAA
1 CTTTTTTAAAATTACATTTTGACCCTTAAA
* * * *
69109389 -TTTTCCTCATATTATATTTTGACCCTTAAA
1 CTTTT-TTAAAATTACATTTTGACCCTTAAA
* *
69109419 TTTTTTTGAAATTACATTTTGACCCTT-AA
1 CTTTTTTAAAATTACATTTTGACCCTTAAA
69109448 CTTTT
1 CTTTT
69109453 CACAAAATTA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
29 10 0.13
30 65 0.82
31 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (30 bp):
CTTTTTTAAAATTACATTTTGACCCTTAAA
Found at i:69109461 original size:30 final size:30
Alignment explanation
Indices: 69109336--69109469 Score: 128
Period size: 30 Copynumber: 4.5 Consensus size: 30
69109326 CGTCTTTTTT
* * * *
69109336 AAAATTACACTTTCACCCTTAAACTTTT-TT
1 AAAATTATATTTTGACCCTTAAA-TTTTCTC
*
69109366 AAAATTATATTTTGACCCCTAAATTTTCCTC
1 AAAATTATATTTTGACCCTTAAATTTT-CTC
* * *
69109397 -ATATTATATTTTGACCCTTAAATTTTTTT
1 AAAATTATATTTTGACCCTTAAATTTTCTC
* * * *
69109426 GAAATTACATTTTGACCCTTAACTTTTCAC
1 AAAATTATATTTTGACCCTTAAATTTTCTC
69109456 AAAATTATATTTTG
1 AAAATTATATTTTG
69109470 GCTCCAATAC
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
29 5 0.06
30 78 0.93
31 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (30 bp):
AAAATTATATTTTGACCCTTAAATTTTCTC
Found at i:69109463 original size:60 final size:60
Alignment explanation
Indices: 69109335--69109469 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 60
69109325 TCGTCTTTTT
* * * *
69109335 TAAAATTACACTTTCACCCTTAAACTTTTTTAAAATTATATTTTGACCCCTAAATTTTCC
1 TAAAATTATATTTTGACCCTTAAACTTTTTTAAAATTACATTTTGACCCCTAAATTTTCC
* * * * * *
69109395 TCATATTATATTTTGACCCTTAAATTTTTTTGAAATTACATTTTGACCCTTAACTTTTCAC
1 TAAAATTATATTTTGACCCTTAAACTTTTTTAAAATTACATTTTGACCCCTAAATTTTC-C
69109456 -AAAATTATATTTTG
1 TAAAATTATATTTTG
69109470 GCTCCAATAC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
60 61 0.98
61 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (60 bp):
TAAAATTATATTTTGACCCTTAAACTTTTTTAAAATTACATTTTGACCCCTAAATTTTCC
Found at i:69109498 original size:90 final size:90
Alignment explanation
Indices: 69109330--69109498 Score: 198
Period size: 90 Copynumber: 1.9 Consensus size: 90
69109320 AAATTTCGTC
** *
69109330 TTTTTTAAAATTACACTTTCACCCTTAAACTTTTTTAAAATTATATTTTGACCCCTAAATTTTCC
1 TTTTTTAAAATTACACTTTCACCCTTAAACTTTTACAAAATTATATTTTGACCCCTAAACTTTCC
** * *
69109395 TCATATTATATTTTGACCCTTAAAT
66 AAAAATTACATTTTGACCCTTAAAT
* * * * *
69109420 TTTTTTGAAATTACATTTTGACCCTT-AACTTTTCACAAAATTATATTTTGGCTCC-AATACTTT
1 TTTTTTAAAATTACACTTTCACCCTTAAACTTTT-ACAAAATTATATTTTGACCCCTAA-ACTTT
69109483 CCAAAAATTACATTTT
64 CCAAAAATTACATTTT
69109499 AGCCCCAAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 9 0.14
90 56 0.86
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (90 bp):
TTTTTTAAAATTACACTTTCACCCTTAAACTTTTACAAAATTATATTTTGACCCCTAAACTTTCC
AAAAATTACATTTTGACCCTTAAAT
Found at i:69109801 original size:18 final size:17
Alignment explanation
Indices: 69109769--69109931 Score: 116
Period size: 18 Copynumber: 9.3 Consensus size: 17
69109759 ATTCGTGTCC
* *
69109769 AAAAATCTTCATGTTTT
1 AAAAATTTTCGTGTTTT
*
69109786 AAAAAATTTTTGTG-TTT
1 -AAAAATTTTCGTGTTTT
***
69109803 AAAAAAAATCGTGTTTTT
1 AAAAATTTTCGTG-TTTT
*
69109821 AAAAAAATTCTCGTGTTTT
1 --AAAAATTTTCGTGTTTT
* *
69109840 -GAAATTGTCGTGTTTT
1 AAAAATTTTCGTGTTTT
*
69109856 CAAAAATTTTTGTGTTTT
1 -AAAAATTTTCGTGTTTT
* *
69109874 GAGAATTTTCGTGTTTCT
1 AAAAATTTTCGTGTTT-T
*
69109892 -AAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTT
69109908 AAAAATTTTTCGTGTTTT
1 AAAAA-TTTTCGTGTTTT
69109926 CAAAAA
1 -AAAAA
69109932 AATTGTTTCA
Statistics
Matches: 114, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
16 24 0.21
17 33 0.29
18 38 0.33
19 9 0.08
20 10 0.09
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTT
Found at i:69109803 original size:17 final size:17
Alignment explanation
Indices: 69109769--69109924 Score: 82
Period size: 17 Copynumber: 8.9 Consensus size: 17
69109759 ATTCGTGTCC
* *
69109769 AAAAATCTTCATGTTTTA
1 AAAAATTTTCGTG-TTTA
*
69109787 AAAAATTTTTGTGTTTA
1 AAAAATTTTCGTGTTTA
**
69109804 AAAAA-AATCGTGTTTTTAA
1 AAAAATTTTCGTG--TTT-A
*
69109823 AAAAATTCTCGTGTTT-
1 AAAAATTTTCGTGTTTA
** * *
69109839 TGAAATTGTCGTGTTTTC
1 AAAAATTTTCGTG-TTTA
* *
69109857 AAAAATTTTTGTGTTTT
1 AAAAATTTTCGTGTTTA
* * *
69109874 GAGAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTA
* *
69109891 TAAAATTCTCGTGTTTTA
1 AAAAATTTTCGTG-TTTA
*
69109909 AAAATTTTTCGTGTTT
1 AAAAATTTTCGTGTTT
69109925 TCAAAAAAAT
Statistics
Matches: 104, Mismatches: 27, Indels: 15
0.71 0.18 0.10
Matches are distributed among these distances:
16 14 0.13
17 41 0.39
18 38 0.37
19 6 0.06
20 5 0.05
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTA
Found at i:69109873 original size:34 final size:34
Alignment explanation
Indices: 69109823--69109961 Score: 133
Period size: 34 Copynumber: 4.1 Consensus size: 34
69109813 GTGTTTTTAA
* *
69109823 AAAAATTCTCGTGTTTTGAAATTGTCGTGTTTTC
1 AAAAATTCTCGTGTTTTAAAATTTTCGTGTTTTC
* * *
69109857 AAAAATTTTTGTGTTTTGAGAATTTTCGTG-TTTC
1 AAAAATTCTCGTGTTTT-AAAATTTTCGTGTTTTC
*
69109891 TAAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTTC
1 AAAAATTCTCGTGTTTT-AAAA-TTTTCGTGTTTTC
** * *
69109927 AAAAA-AAT--TGTTTCAAAATTCTCGTGTTTTC
1 AAAAATTCTCGTGTTTTAAAATTTTCGTGTTTTC
69109958 AAAA
1 AAAA
69109962 CAAAAAAATT
Statistics
Matches: 87, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
31 16 0.18
32 4 0.05
33 5 0.06
34 36 0.41
35 18 0.21
36 8 0.09
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (34 bp):
AAAAATTCTCGTGTTTTAAAATTTTCGTGTTTTC
Found at i:69109886 original size:35 final size:34
Alignment explanation
Indices: 69109823--69109931 Score: 139
Period size: 34 Copynumber: 3.1 Consensus size: 34
69109813 GTGTTTTTAA
*
69109823 AAAAATTCTCGTGTTTTGAAATTGTCGTGTTTTC
1 AAAAATTCTCGTGTTTTGAAATTTTCGTGTTTTC
* *
69109857 AAAAATTTTTGTGTTTTGAGAATTTTCGTG-TTTC
1 AAAAATTCTCGTGTTTTGA-AATTTTCGTGTTTTC
* *
69109891 TAAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTTC
1 AAAAATTCTCGTGTTTT-GAAA-TTTTCGTGTTTTC
69109927 AAAAA
1 AAAAA
69109932 AATTGTTTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 37 0.59
35 18 0.29
36 8 0.13
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (34 bp):
AAAAATTCTCGTGTTTTGAAATTTTCGTGTTTTC
Found at i:69109897 original size:52 final size:51
Alignment explanation
Indices: 69109826--69109925 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 51
69109816 TTTTTAAAAA
* *
69109826 AATTCTCGTGTTTTGAAATTGTCGTGTTTTCAAAAATTTTT-GTGTTTTGAG
1 AATTCTCGTGTTTTAAAATTCTCGTGTTTT-AAAAATTTTTCGTGTTTTGAG
*
69109877 AATTTTCGTGTTTCTAAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTT
1 AATTCTCGTGTTT-TAAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTT
69109926 CAAAAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 22 0.50
52 22 0.50
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (51 bp):
AATTCTCGTGTTTTAAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTTGAG
Found at i:69109959 original size:17 final size:17
Alignment explanation
Indices: 69109824--69109961 Score: 106
Period size: 17 Copynumber: 8.2 Consensus size: 17
69109814 TGTTTTTAAA
69109824 AAAATTCTCGTGTTTT-
1 AAAATTCTCGTGTTTTC
* *
69109840 GAAATTGTCGTGTTTTC
1 AAAATTCTCGTGTTTTC
* * *
69109857 AAAAATTTTTGTGTTTTG
1 -AAAATTCTCGTGTTTTC
* *
69109875 AGAATTTTCGTG-TTTC
1 AAAATTCTCGTGTTTTC
*
69109891 TAAAATTCTCGTGTTTTA
1 -AAAATTCTCGTGTTTTC
*
69109909 AAAATTTTTCGTGTTTTC
1 AAAA-TTCTCGTGTTTTC
***
69109927 AAAAAAAT--TG-TTTC
1 AAAATTCTCGTGTTTTC
69109941 AAAATTCTCGTGTTTTC
1 AAAATTCTCGTGTTTTC
69109958 AAAA
1 AAAA
69109962 CAAAAAAATT
Statistics
Matches: 94, Mismatches: 20, Indels: 15
0.73 0.16 0.12
Matches are distributed among these distances:
14 9 0.10
15 2 0.02
16 19 0.20
17 33 0.35
18 31 0.33
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (17 bp):
AAAATTCTCGTGTTTTC
Found at i:69117347 original size:20 final size:20
Alignment explanation
Indices: 69117322--69117365 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
69117312 TATTATGCCT
* *
69117322 AAAAAAATA-AAAGAAACAA
1 AAAAAAACACAAAAAAACAA
*
69117341 AAAAAAACACAAAAAAAGAA
1 AAAAAAACACAAAAAAACAA
69117361 AAAAA
1 AAAAA
69117366 GAAAATGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAAAACACAAAAAAACAA
Found at i:69118755 original size:78 final size:78
Alignment explanation
Indices: 69118221--69119137 Score: 1128
Period size: 78 Copynumber: 11.7 Consensus size: 78
69118211 AGAATTATAT
* * * * *
69118221 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACACA
*
69118286 TGCCGACGTA--TC
65 TGCCGAGGTATTTC
* * *
69118298 -TTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCATCGGGTCA
1 TTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
*
69118361 CATACCGAGGTATTTC
63 CATGCCGAGGTATTTC
* * * * * *
69118377 TTTTTAATTTCTATTTTTTCCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGCCG
1 TTTTAAATTTCT-GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
*
69118442 CACGCCGAGGTA--T-
63 CATGCCGAGGTATTTC
* * *
69118455 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGAACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
*
69118520 ACCGAGGTATTTC
66 GCCGAGGTATTTC
* *
69118533 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGGACAC
1 TTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
69118598 ATGCCGAGGTATTTC
64 ATGCCGAGGTATTTC
* * *
69118613 TTTTAAATTTCTATTTTTCAAAAAAGCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACA
69118678 TGCCGAGGTATTTC
65 TGCCGAGGTATTTC
69118692 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
69118757 GCCGAGGTATTT-
66 GCCGAGGTATTTC
* * *
69118769 TTTTAAAATTTCTATTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTT-AAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACAC
*
69118834 ATGCCGATGTA---C
64 ATGCCGAGGTATTTC
* * * * *
69118846 TTTT-AATTTCTATTTTTTCAAAAAAGTCAGCTCATATTGCGAGATGTGAGTTTAGCCTCAGACA
1 TTTTAAATTTCT-GTTTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
69118910 CATGCCGAGGTATTTC
63 CATGCCGAGGTATTTC
*
69118926 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACA
** *
69118991 TGTTGAGGTATTTA
65 TGCCGAGGTATTTC
* ** * *
69119005 TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTTTGTGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACA
*
69119070 CGCCGAGGTA-TT-
65 TGCCGAGGTATTTC
* *
69119082 TATT--ATTTCTGTTTTTTCCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
1 TTTTAAATTTCTG-TTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
69119138 TAGGCACATG
Statistics
Matches: 741, Mismatches: 72, Indels: 54
0.85 0.08 0.06
Matches are distributed among these distances:
75 38 0.05
76 51 0.07
77 118 0.16
78 197 0.27
79 181 0.24
80 86 0.12
81 64 0.09
82 5 0.01
83 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (78 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
GCCGAGGTATTTC
Found at i:69118882 original size:313 final size:311
Alignment explanation
Indices: 69118221--69119137 Score: 1217
Period size: 313 Copynumber: 2.9 Consensus size: 311
69118211 AGAATTATAT
* * * * *
69118221 TTTTCAATTTCTGTCTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCAC
1 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACAC
* *
69118285 ATGCCGACGTA--TC-TTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAG
65 ATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
69118346 TTGAGCATCGGGTCACATACCGAGGTATTTCTTTTTAATTTCTATTTTTTCCAAAAATCAACTCA
129 TTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTTCTA-TTTTT-CAAAAATCAACTCA
* * * * *
69118411 TAATACGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTTCAATTTCTGTTTTTCAA
192 TATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCCGAGGTATTTTTTAATTTCTATTTTTCAA
*
69118476 AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGAACACATACCGAGGTATTTC
257 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACACATACCGAGGTA--TC
* *
69118533 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGTCTCGGACAC
1 TTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
* *
69118598 ATGCCGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAGCAACTCATATTGCGAGAGGTGAGT
65 ATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
69118663 TGAGCCTC-AGACACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAT
130 TGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATAT
* *
69118727 TGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTATTTTTTTAAAATTTCTATTTTTCAA
195 TACGAGAGGTGAGTTGAGCCTCGGGACACACGCCGAGGTA-TTTTTT--AATTTCTATTTTTCAA
* ** * *
69118791 AAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGATGTA-C
257 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAACACATACCGAGGTATC
* * * * *
69118846 TTTT-AATTTCTATTTTTTCAAAAAAGTCAGCTCATATTGCGAGATGTGAGTTTAGCCTCAGACA
1 TTTTAAATTTCT-GTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
69118910 CATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAG
64 CATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
** *
69118974 TTGAGCCTCGGGTCACATGTTGAGGTATTTATTTTAAATTTCTATTTTTCAAAAATCAACTCATA
129 TTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATA
** * * * *
69119039 TTTTGTGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTATT-ATTTCTGTTTTTTCCAA
194 TTACGAGAGGTGAGTTGAGCCTCGGGACACACGCCGAGGTATTTTTTAATTTCT-ATTTTT-CAA
*
69119103 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
257 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
69119138 TAGGCACATG
Statistics
Matches: 535, Mismatches: 54, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
310 6 0.01
311 5 0.01
312 117 0.22
313 209 0.39
314 53 0.10
315 80 0.15
316 52 0.10
317 13 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (311 bp):
TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACA
TGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATATT
ACGAGAGGTGAGTTGAGCCTCGGGACACACGCCGAGGTATTTTTTAATTTCTATTTTTCAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAACACATACCGAGGTATC
Found at i:69119804 original size:8 final size:8
Alignment explanation
Indices: 69119791--69119877 Score: 70
Period size: 8 Copynumber: 10.4 Consensus size: 8
69119781 AGGGTTTCTG
69119791 AAAGAAGA
1 AAAGAAGA
69119799 AAAGAAGA
1 AAAGAAGA
69119807 AGAATGAAGA
1 A-AA-GAAGA
69119817 AGAAGAAAGA
1 A-AAG-AAGA
*
69119827 AAAAAAGA
1 AAAGAAGA
*
69119835 AAAAAAG-
1 AAAGAAGA
69119842 AAAGAAGGA
1 AAAGAA-GA
*
69119851 AAAAAAGA
1 AAAGAAGA
69119859 AAA-AGAGA
1 AAAGA-AGA
*
69119867 AAAAAAGA
1 AAAGAAGA
69119875 AAA
1 AAA
69119878 ATAAAAATTA
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
7 6 0.09
8 38 0.55
9 11 0.16
10 14 0.20
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (8 bp):
AAAGAAGA
Found at i:69119818 original size:13 final size:11
Alignment explanation
Indices: 69119792--69119877 Score: 54
Period size: 10 Copynumber: 7.9 Consensus size: 11
69119782 GGGTTTCTGA
69119792 AAGAAGAAAAG
1 AAGAAGAAAAG
*
69119803 AAGAAG-AATG
1 AAGAAGAAAAG
*
69119813 AAGAAGAAGA-
1 AAGAAGAAAAG
*
69119823 AAGAAAAAAAG
1 AAGAAGAAAAG
* *
69119834 AAAAAAAGAAAG
1 AAGAAGA-AAAG
*
69119846 AAGGAAAAAAAG
1 AA-GAAGAAAAG
*
69119858 AAAAAGAGAAA-
1 AAGAAGA-AAAG
69119869 AA-AAGAAAA
1 AAGAAGAAAA
69119878 ATAAAAATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
9 3 0.05
10 21 0.34
11 18 0.30
12 15 0.25
13 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (11 bp):
AAGAAGAAAAG
Found at i:69119878 original size:8 final size:8
Alignment explanation
Indices: 69119822--69119878 Score: 87
Period size: 8 Copynumber: 7.1 Consensus size: 8
69119812 GAAGAAGAAG
69119822 AAAGAAAA
1 AAAGAAAA
69119830 AAAGAAAA
1 AAAGAAAA
*
69119838 AAAGAAAG
1 AAAGAAAA
*
69119846 AAGGAAAA
1 AAAGAAAA
69119854 AAAGAAAA
1 AAAGAAAA
*
69119862 AGAGAAAA
1 AAAGAAAA
69119870 AAAGAAAA
1 AAAGAAAA
69119878 A
1 A
69119879 TAAAAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:69120527 original size:17 final size:17
Alignment explanation
Indices: 69120507--69120800 Score: 89
Period size: 18 Copynumber: 17.3 Consensus size: 17
69120497 TATTTAATCG
69120507 AAAAATTCGTGTTTTCA
1 AAAAATTCGTGTTTTCA
*
69120524 AAAAATTC-TCCTGTTTCA
1 AAAAATTCGT-GT-TTTCA
* *
69120542 AAAATTTCTGTGTTTTTA
1 AAAAATTC-GTGTTTTCA
** *
69120560 AAATTTTCGTGTCTTC-
1 AAAAATTCGTGTTTTCA
*
69120576 AAAAATTAGTG-TTTCA
1 AAAAATTCGTGTTTTCA
**
69120592 AAATTTTTTTCCGTGTTTTC-
1 AAA---AATT-CGTGTTTTCA
* *
69120612 -ACAATT--T-TTTTAA
1 AAAAATTCGTGTTTTCA
69120625 AAAAATTCGTG--TTC-
1 AAAAATTCGTGTTTTCA
69120639 AAAAA-TCTGTGTTTTC-
1 AAAAATTC-GTGTTTTCA
* **
69120655 AAAATTTTTTGTGTTTCA
1 AAAAATTCGTGT-TTTCA
*
69120673 AAAAAATCGTGTTTTCA
1 AAAAATTCGTGTTTTCA
*
69120690 AAAAATTTC-TCATGTTTCA
1 AAAAA-TTCGT-GT-TTTCA
* *
69120709 AAATAGTCGTGTTTTCA
1 AAAAATTCGTGTTTTCA
* *
69120726 AAAATTTTCGTGTTTTGA
1 AAAA-ATTCGTGTTTTCA
* ** *
69120744 GAATTTTCGTG-TTTCT
1 AAAAATTCGTGTTTTCA
**
69120760 AAATTTCTCGTGTTTT-A
1 AAAAAT-TCGTGTTTTCA
*
69120777 AAAATTTTTCGTGTTTTCA
1 AAAA--ATTCGTGTTTTCA
69120796 AAAAA
1 AAAAA
69120801 ATTGTTTCAA
Statistics
Matches: 202, Mismatches: 44, Indels: 62
0.66 0.14 0.20
Matches are distributed among these distances:
12 4 0.02
13 3 0.01
14 13 0.06
15 5 0.02
16 33 0.16
17 54 0.27
18 61 0.30
19 21 0.10
20 4 0.02
21 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (17 bp):
AAAAATTCGTGTTTTCA
Found at i:69120528 original size:18 final size:18
Alignment explanation
Indices: 69120507--69120800 Score: 109
Period size: 17 Copynumber: 17.3 Consensus size: 18
69120497 TATTTAATCG
69120507 AAAAA-TTCGTGTTTTCA
1 AAAAATTTCGTGTTTTCA
*
69120524 AAAAATTCTCCTG-TTTC-
1 AAAAATT-TCGTGTTTTCA
*
69120541 AAAAATTTCTGTGTTTT-T
1 AAAAATTTC-GTGTTTTCA
* *
69120559 AAAATTTTCGTGTCTTC-
1 AAAAATTTCGTGTTTTCA
*
69120576 AAAAA-TTAGTG-TTTCA
1 AAAAATTTCGTGTTTTCA
**
69120592 AAATTTTTTTCCGTGTTTTC-
1 AAA--AATTT-CGTGTTTTCA
*
69120612 -ACAA-TT--T-TTTT-A
1 AAAAATTTCGTGTTTTCA
*
69120624 AAAAAATTCGTG--TTC-
1 AAAAATTTCGTGTTTTCA
*
69120639 AAAAATCT-GTGTTTTCA
1 AAAAATTTCGTGTTTTCA
** *
69120656 AAATTTTTTGTG-TTTCA
1 AAAAATTTCGTGTTTTCA
*
69120673 AAAAA-ATCGTGTTTTCA
1 AAAAATTTCGTGTTTTCA
*
69120690 AAAAATTTC-TCATGTTTCA
1 AAAAATTTCGT-GT-TTTCA
* *
69120709 AAATA-GTCGTGTTTTCA
1 AAAAATTTCGTGTTTTCA
* *
69120726 AAAATTTTCGTGTTTT-G
1 AAAAATTTCGTGTTTTCA
* *
69120743 AGAATTTTCGTG-TTTC-
1 AAAAATTTCGTGTTTTCA
* *
69120759 TAAATTTCTCGTGTTTT-A
1 AAAAATT-TCGTGTTTTCA
*
69120777 AAAATTTTTCGTGTTTTCA
1 AAAA-ATTTCGTGTTTTCA
69120796 AAAAA
1 AAAAA
69120801 ATTGTTTCAA
Statistics
Matches: 205, Mismatches: 37, Indels: 69
0.66 0.12 0.22
Matches are distributed among these distances:
12 4 0.02
13 4 0.02
14 5 0.02
15 11 0.05
16 28 0.14
17 72 0.35
18 49 0.24
19 25 0.12
20 3 0.01
21 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (18 bp):
AAAAATTTCGTGTTTTCA
Found at i:69120655 original size:16 final size:16
Alignment explanation
Indices: 69120636--69120693 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
69120626 AAAATTCGTG
69120636 TTCAAAAATCTGTGTT
1 TTCAAAAATCTGTGTT
* * *
69120652 TTCAAAATTTTTTGTGT
1 TTCAAAAATCTGTGT-T
69120669 TTCAAAAAAATC-GTGTT
1 TTC--AAAAATCTGTGTT
69120686 TTCAAAAA
1 TTCAAAAA
69120694 ATTTCTCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 5 0.15
16 12 0.36
17 8 0.24
18 3 0.09
19 5 0.15
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (16 bp):
TTCAAAAATCTGTGTT
Found at i:69120694 original size:16 final size:16
Alignment explanation
Indices: 69120619--69120695 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
69120609 TTCACAATTT
*
69120619 TTTTAAAAAAATTCGTG
1 TTTTCAAAAAA-TCGTG
69120636 --TTC-AAAAATCTGTG
1 TTTTCAAAAAATC-GTG
** **
69120650 TTTTCAAAATTTTTTG
1 TTTTCAAAAAATCGTG
69120666 TGTTTCAAAAAAATCGTG
1 T-TTTC-AAAAAATCGTG
69120684 TTTTCAAAAAAT
1 TTTTCAAAAAAT
69120696 TTCTCATGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 13
0.67 0.13 0.19
Matches are distributed among these distances:
13 2 0.04
14 8 0.18
15 2 0.04
16 13 0.29
17 12 0.27
18 8 0.18
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (16 bp):
TTTTCAAAAAATCGTG
Found at i:69120706 original size:36 final size:36
Alignment explanation
Indices: 69120639--69120734 Score: 115
Period size: 36 Copynumber: 2.7 Consensus size: 36
69120629 ATTCGTGTTC
* **
69120639 AAAAATCTGTGTTTTC--AAAATTTTTTGTGTTTCAA
1 AAAAATC-GTGTTTTCAAAAAATTTCTCATGTTTCAA
69120674 AAAAATCGTGTTTTCAAAAAATTTCTCATGTTTCAA
1 AAAAATCGTGTTTTCAAAAAATTTCTCATGTTTCAA
* * *
69120710 AATAGTCGTGTTTTCAAAAATTTTC
1 AAAAATCGTGTTTTCAAAAAATTTC
69120735 GTGTTTTGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
34 8 0.15
35 7 0.13
36 38 0.72
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (36 bp):
AAAAATCGTGTTTTCAAAAAATTTCTCATGTTTCAA
Found at i:69120749 original size:52 final size:52
Alignment explanation
Indices: 69120693--69120793 Score: 134
Period size: 52 Copynumber: 1.9 Consensus size: 52
69120683 GTTTTCAAAA
*
69120693 AATTTCTCATGTTTC-AAAATAGTCGTGTTTTCAAAAA-TTTTCGTGTTTTGAG
1 AATTT-TCATGTTTCTAAAATACTCGTGTTTT-AAAAATTTTTCGTGTTTTGAG
* * *
69120745 AATTTTCGTGTTTCTAAATTTCTCGTGTTTTAAAAATTTTTCGTGTTTT
1 AATTTTCATGTTTCTAAAATACTCGTGTTTTAAAAATTTTTCGTGTTTT
69120794 CAAAAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 13 0.30
52 30 0.70
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (52 bp):
AATTTTCATGTTTCTAAAATACTCGTGTTTTAAAAATTTTTCGTGTTTTGAG
Found at i:69120754 original size:35 final size:36
Alignment explanation
Indices: 69120647--69120799 Score: 138
Period size: 35 Copynumber: 4.4 Consensus size: 36
69120637 TCAAAAATCT
* * * **
69120647 GTGTTTTC-AAAATTTTTTGTGTTTCAAAAA-AATC
1 GTGTTTTCAAAAATTTCTCGTGTTTTAAAAATTTTC
* * **
69120681 GTGTTTTCAAAAAATTTCTCATG-TTTCAAAATAGTC
1 GTGTTTTC-AAAAATTTCTCGTGTTTTAAAAATTTTC
* *
69120717 GTGTTTTCAAAAATTT-TCGTGTTTTGAGAATTTTC
1 GTGTTTTCAAAAATTTCTCGTGTTTTAAAAATTTTC
*
69120752 GTG-TTTC-TAAATTTCTCGTGTTTTAAAAATTTTTC
1 GTGTTTTCAAAAATTTCTCGTGTTTTAAAAA-TTTTC
69120787 GTGTTTTCAAAAA
1 GTGTTTTCAAAAA
69120800 AATTGTTTCA
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
33 6 0.06
34 28 0.29
35 34 0.35
36 25 0.26
37 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (36 bp):
GTGTTTTCAAAAATTTCTCGTGTTTTAAAAATTTTC
Found at i:69125058 original size:91 final size:91
Alignment explanation
Indices: 69124781--69125039 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
69124771 TTAAATGTAT
69124781 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
69124846 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
69124872 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
69124937 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
69124963 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
69125028 GAAAATTTATTA
66 GAAAATTTATTA
69125040 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:69125172 original size:37 final size:35
Alignment explanation
Indices: 69125131--69125300 Score: 100
Period size: 38 Copynumber: 4.7 Consensus size: 35
69125121 TAGTATCATA
*
69125131 TATTATGATTTTAGTAAATTCATATAAGAATATTGAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* * *
69125168 TATTAATAATTTTATTAAATTATAT---ATTTTAAT
1 TATT-ATGATTTTAGTAAATTATATAAAATATTAAT
* * * *
69125201 TATAAT-ATATTTAATAATAATTATGTTAAATTATCT-A-
1 TATTATGAT-TTTAGT-A-AATTAT-ATAAAATAT-TAAT
*
69125238 TATTATGATTTGAGTAAATTCATATAAGAATATTAAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* *
69125275 TATTAAGAATTTTATTAAATTATATA
1 TATTATG-ATTTTAGTAAATTATATA
69125301 TTTTAATTAT
Statistics
Matches: 101, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
31 2 0.02
32 7 0.07
33 10 0.10
34 6 0.06
35 9 0.09
36 8 0.08
37 28 0.28
38 30 0.30
39 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (35 bp):
TATTATGATTTTAGTAAATTATATAAAATATTAAT
Found at i:69125210 original size:16 final size:16
Alignment explanation
Indices: 69125189--69125234 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
69125179 TTATTAAATT
69125189 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
69125205 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
69125220 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
69125235 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:69125241 original size:107 final size:108
Alignment explanation
Indices: 69125124--69125323 Score: 366
Period size: 107 Copynumber: 1.9 Consensus size: 108
69125114 TATTTTATAG
* * *
69125124 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
69125189 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
69125232 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
69125296 ATATATTTTAATTATAATATATTTAATA
66 ATATATTTTAATTATAATATATTTAATA
69125324 TATCTAATAA
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 85 0.96
108 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (108 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:69125336 original size:24 final size:24
Alignment explanation
Indices: 69125304--69125350 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
69125294 TTATATATTT
*
69125304 TAATTATAA-TATATTTAATATATC
1 TAATAATAATTATATTTAA-ATATC
*
69125328 TAATAATAATTATGTTTAAATAT
1 TAATAATAATTATATTTAAATAT
69125351 GATTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TAATAATAATTATATTTAAATATC
Found at i:69125581 original size:16 final size:16
Alignment explanation
Indices: 69125560--69125613 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
69125550 TTAATTTGCT
69125560 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
69125576 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
69125592 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
69125608 AATACA
1 ATTACA
69125614 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:69128304 original size:43 final size:42
Alignment explanation
Indices: 69128190--69128651 Score: 381
Period size: 43 Copynumber: 10.8 Consensus size: 42
69128180 TTTTTTACCG
* *
69128190 CGCCACTATAGACTACGGTCTTTAGCGGCGCTTACAC-AAAAA
1 CGCCACTATAGA-TAGGGTCTTTAGCGGCGCTTATACAAAAAA
* * * **
69128232 CGCCACTATGGGTGGGAGTCTTTCTCGGCGCTTATACAAAAAA
1 CGCCACTATAGATAGG-GTCTTTAGCGGCGCTTATACAAAAAA
* * * * *
69128275 TGCCACGATAGATCGGGTTCTCTGGCGGCGCTTATACAAAAAA
1 CGCCACTATAGATAGGG-TCTTTAGCGGCGCTTATACAAAAAA
* * ** * * *
69128318 TGCCACTATAGATAAGGATCTTTCCCGGCGTTTGTACAGAAAA
1 CGCCACTATAGAT-AGGGTCTTTAGCGGCGCTTATACAAAAAA
** *
69128361 CGCCACTATAGATAGTGG-CTTTCTCGGGGCTTATACAAAAAA
1 CGCCACTATAGATAG-GGTCTTTAGCGGCGCTTATACAAAAAA
* * * ** *
69128403 TGCCACGATAGCTCAGGGTCGATAGCGGCGCTTATA-AAGAAA
1 CGCCACTATAGAT-AGGGTCTTTAGCGGCGCTTATACAAAAAA
* * *
69128445 CGCCACTATAGATATGGCTCTTTACCGGCGCTTATACAAGAAA
1 CGCCACTATAGATA-GGGTCTTTAGCGGCGCTTATACAAAAAA
* * * * *
69128488 CGCCACTATAGATTGGCATCTTTCGCGGTGCTTATTCAAAAAA
1 CGCCACTATAGATAGG-GTCTTTAGCGGCGCTTATACAAAAAA
* * * *
69128531 TGCCACTATAGATTGGAGTCTTTTGCGGCGCTTATACAGAAAA
1 CGCCACTATAGATAGG-GTCTTTAGCGGCGCTTATACAAAAAA
* **
69128574 CGCCACTATAGATTGGGGTCTTTAGCGGCGCTTGGACAAAAAA
1 CGCCACTATAGA-TAGGGTCTTTAGCGGCGCTTATACAAAAAA
*** *
69128617 CGCCACTATAGGCGGGGTTCTTTAGCGGCACTTAT
1 CGCCACTATAGATAGGG-TCTTTAGCGGCGCTTAT
69128652 CGAAGAAACG
Statistics
Matches: 336, Mismatches: 72, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.01
42 99 0.29
43 229 0.68
44 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (42 bp):
CGCCACTATAGATAGGGTCTTTAGCGGCGCTTATACAAAAAA
Found at i:69128384 original size:128 final size:125
Alignment explanation
Indices: 69128190--69128627 Score: 450
Period size: 128 Copynumber: 3.4 Consensus size: 125
69128180 TTTTTTACCG
* * ** * * *
69128190 CGCCACTATAGACTACGG-TCTTTAGCGGCGCTTACACAAAAACGCCACTATGGGTGGGAGTCTT
1 CGCCACTATAGA-TAAGGATCTTTACCGGCGCTTGTACAAAAACGCCACTATAGATTGGA--CTT
* *
69128254 TCTCGGCGCTTATACAAAAAATGCCACGATAGATCGGGTTCTCTGGCGGCGCTTATACAAAAAA
63 TCTCGGCGCTTATACAAAAAATGCCACGATAGATCGGG-TCTATAGCGGCGCTTATACAAAAAA
* * *
69128318 TGCCACTATAGATAAGGATCTTTCCCGGCGTTTGTACAGAAAACGCCACTATAGATAGTGG-CTT
1 CGCCACTATAGATAAGGATCTTTACCGGCGCTTGTACA-AAAACGCCACTATAGAT--TGGACTT
* * * *
69128382 TCTCGGGGCTTATACAAAAAATGCCACGATAGCTCAGGGTCGATAGCGGCGCTTATA-AAGAAA
63 TCTCGGCGCTTATACAAAAAATGCCACGATAGATC-GGGTCTATAGCGGCGCTTATACAAAAAA
* * *
69128445 CGCCACTATAGATATGGCTCTTTACCGGCGCTTATACAAGAAACGCCACTATAGATTGGCATCTT
1 CGCCACTATAGATAAGGATCTTTACCGGCGCTTGTACAA-AAACGCCACTATAGATTGG-A-CTT
* * * * * * * *
69128510 TCGCGGTGCTTATTCAAAAAATGCCACTATAGATTGGAGTCTTTTGCGGCGCTTATACAGAAAA
63 TCTCGGCGCTTATACAAAAAATGCCACGATAGATCGG-GTCTATAGCGGCGCTTATACAAAAAA
** * * *
69128574 CGCCACTATAGATTGGGGTCTTTAGCGGCGCTTGGACAAAAAACGCCACTATAG
1 CGCCACTATAGATAAGGATCTTTACCGGCGCTTGTAC-AAAAACGCCACTATAG
69128628 GCGGGGTTCT
Statistics
Matches: 259, Mismatches: 39, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
125 3 0.01
126 1 0.00
127 59 0.23
128 125 0.48
129 67 0.26
130 2 0.01
131 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (125 bp):
CGCCACTATAGATAAGGATCTTTACCGGCGCTTGTACAAAAACGCCACTATAGATTGGACTTTCT
CGGCGCTTATACAAAAAATGCCACGATAGATCGGGTCTATAGCGGCGCTTATACAAAAAA
Found at i:69128432 original size:85 final size:84
Alignment explanation
Indices: 69128300--69128586 Score: 235
Period size: 85 Copynumber: 3.4 Consensus size: 84
69128290 GGTTCTCTGG
** * * * *
69128300 CGGCGCTTATACAAAAAATGCCACTATAGATAAGGATCTTTCCCGGCGTTTGTACAGAAAACGCC
1 CGGCGCTTATACAAAAAATGCCACTATAGATAAGGATCGATACCGGCGCTTATAAAG-AAACGCC
69128365 ACTATAGATAGTGGCT-TTCT-
65 ACTATAGATA-TGGCTCTT-TA
* * * * * *
69128385 CGGGGCTTATACAAAAAATGCCACGATAGCTCAGGGTCGATAGCGGCGCTTATAAAGAAACGCCA
1 CGGCGCTTATACAAAAAATGCCACTATAGATAAGGATCGATACCGGCGCTTATAAAGAAACGCCA
69128450 CTATAGATATGGCTCTTTA
66 CTATAGATATGGCTCTTTA
* * * * * *
69128469 CCGGCGCTTATACAAGAAACGCCACTATAGAT-TGGCATC-TTTCGCGGTGCTTATTCAAA-AAA
1 -CGGCGCTTATACAAAAAATGCCACTATAGATAAGG-ATCGATAC-CGGCGCTTA-T-AAAGAAA
* * *
69128531 TGCCACTATAGAT-TGGAGTCTTTTG
61 CGCCACTATAGATATGG-CTC-TTTA
* *
69128556 CGGCGCTTATACAGAAAACGCCACTATAGAT
1 CGGCGCTTATACAAAAAATGCCACTATAGAT
69128587 TGGGGTCTTT
Statistics
Matches: 165, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
83 6 0.04
84 22 0.13
85 84 0.51
86 47 0.28
87 6 0.04
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (84 bp):
CGGCGCTTATACAAAAAATGCCACTATAGATAAGGATCGATACCGGCGCTTATAAAGAAACGCCA
CTATAGATATGGCTCTTTA
Found at i:69129008 original size:21 final size:21
Alignment explanation
Indices: 69128984--69129025 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
69128974 CCCTCATTTT
69128984 AGCCTCTAATTCCCTCGCTGC
1 AGCCTCTAATTCCCTCGCTGC
* *
69129005 AGCCTCTACTTCTCTCGCTGC
1 AGCCTCTAATTCCCTCGCTGC
69129026 TGCATCTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.43, G:0.14, T:0.31
Consensus pattern (21 bp):
AGCCTCTAATTCCCTCGCTGC
Found at i:69129105 original size:87 final size:87
Alignment explanation
Indices: 69129001--69129173 Score: 226
Period size: 87 Copynumber: 2.0 Consensus size: 87
69128991 AATTCCCTCG
* *
69129001 CTGCAGCCTCTACTTCTCTCGCTGCTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CT
1 CTGCAGCCTCTACTTCTCTCACTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCT
69129064 TTCGTTGAACCTCAGCTTCTCTCA
65 TT-GTTGAACCTCAGCTTCTCTCA
* * * * *
69129088 CTGCTGCCTCTGA-TTCTCTCATTGCCGCATCTTCTTTAAGTTGTAGTTGGAGTTCTTCATATCT
1 CTGCAGCCTCT-ACTTCTCTCACTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCT
*
69129152 TTTTTGAACCTCAGCTTCTCTC
65 TTGTTGAACCTCAGCTTCTCTC
69129174 GATGTTGCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
86 1 0.01
87 69 0.92
88 5 0.07
ACGTcount: A:0.14, C:0.29, G:0.16, T:0.40
Consensus pattern (87 bp):
CTGCAGCCTCTACTTCTCTCACTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTT
TGTTGAACCTCAGCTTCTCTCA
Found at i:69129565 original size:99 final size:99
Alignment explanation
Indices: 69129394--69129592 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
69129384 ATAACCCGGT
69129394 TATCAATGTCGTCAATATGAACAGAACTATCACTTGAAGCAATCACTTCGTACTCCGCCTTTTTG
1 TATCAATGTCGTCAATATGAACAGAACTATCACTTGAAGCAATCACTTCGTACTCCGCCTTTTTG
69129459 TCCTTCAGTTTTTCCTAAAAAATAAATGACATAG
66 TCCTTCAGTTTTTCCTAAAAAATAAATGACATAG
*
69129493 TATCAATGTCGTCAATATGAACAGAACTATCACTTGAAGCAATCGCTTCGTACTCCGCCTTTTTG
1 TATCAATGTCGTCAATATGAACAGAACTATCACTTGAAGCAATCACTTCGTACTCCGCCTTTTTG
69129558 TCCTTCAGTTTTTCCTAAAAAATAAATGACATAG
66 TCCTTCAGTTTTTCCTAAAAAATAAATGACATAG
69129592 T
1 T
69129593 TAAGAACGCA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (99 bp):
TATCAATGTCGTCAATATGAACAGAACTATCACTTGAAGCAATCACTTCGTACTCCGCCTTTTTG
TCCTTCAGTTTTTCCTAAAAAATAAATGACATAG
Found at i:69132712 original size:41 final size:41
Alignment explanation
Indices: 69132650--69133009 Score: 260
Period size: 41 Copynumber: 8.8 Consensus size: 41
69132640 TTTTGTTACT
** * * * *
69132650 ATTAGCGGCGCTTGGGA-AAAAACACCGCTAAAGGCCGGAGA
1 ATTAGCGGCGC-TCAGATAAAAACGCCACTAAAGACCGGAGC
* * * *
69132691 ATTAGTGGCGCTCAGATAAAAACGTCACTAAAGATCTGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCACTAAAGACCGGAGC
* * * * ** **
69132732 ATTAGCGGCGCTTAGACAAAATCGCCGCTAAATTCTAGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCACTAAAGACCGGAGC
* * * *
69132773 ATTGGTGGCGCTCAGATAAAAACGCCACTAAAGATCC-AAGT
1 ATTAGCGGCGCTCAGATAAAAACGCCACTAAAGA-CCGGAGC
* * * * * *
69132814 ATTAGCGGCGTTGAAATAAAATCGCCGCTAAAGACCTGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCACTAAAGACCGGAGC
* * * * * *
69132855 TTTTGCGGCGTTCATATAAAAACGCCACTAAAGATCGGTG-
1 ATTAGCGGCGCTCAGATAAAAACGCCACTAAAGACCGGAGC
* * * *
69132895 ATTTCGCGGCGCTCAGATAAAAACGCTACTAAAGATCGGAGA
1 A-TTAGCGGCGCTCAGATAAAAACGCCACTAAAGACCGGAGC
* *
69132937 ATTAGCGGCGCTAAGATAAAAACGCCACTAAAGATCC-GCGC
1 ATTAGCGGCGCTCAGATAAAAACGCCACTAAAGA-CCGGAGC
* * * *
69132978 ATTAGTGGCGCACAAATAAAAACGCCGCTAAA
1 ATTAGCGGCGCTCAGATAAAAACGCCACTAAA
69133010 CGTTTAAAAA
Statistics
Matches: 246, Mismatches: 67, Indels: 12
0.76 0.21 0.04
Matches are distributed among these distances:
40 5 0.02
41 238 0.97
42 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCACTAAAGACCGGAGC
Found at i:69132787 original size:82 final size:82
Alignment explanation
Indices: 69132650--69133009 Score: 314
Period size: 82 Copynumber: 4.4 Consensus size: 82
69132640 TTTTGTTACT
* * * ** * * *
69132650 ATTAGCGGCGCTTGGGA-AAAAACACCGCTAAAGGCCGGAGAATTAGTGGCGCTCAGATAAAAAC
1 ATTAGCGGCGCTT-AGATAAAATCGCCGCTAAAGATCTGAGCATTAGCGGCGCTCAGATAAAAAC
* *
69132714 GTCACTAAAGATCTGAGC
65 GCCACTAAAGATCCGAGC
* * * *
69132732 ATTAGCGGCGCTTAGACAAAATCGCCGCTAAA-TTCTAGAGCATTGGTGGCGCTCAGATAAAAAC
1 ATTAGCGGCGCTTAGATAAAATCGCCGCTAAAGATCT-GAGCATTAGCGGCGCTCAGATAAAAAC
* *
69132796 GCCACTAAAGATCCAAGT
65 GCCACTAAAGATCCGAGC
* * * * * *
69132814 ATTAGCGGCG-TTGAAATAAAATCGCCGCTAAAGACCTGAGCTTTTGCGGCGTTCATATAAAAAC
1 ATTAGCGGCGCTT-AGATAAAATCGCCGCTAAAGATCTGAGCATTAGCGGCGCTCAGATAAAAAC
* *
69132878 GCCACTAAAGATCGGTG-
65 GCCACTAAAGATCCGAGC
* * * ** * * *
69132895 ATTTCGCGGCGCTCAGATAAAAACGCTACTAAAGATCGGAGAATTAGCGGCGCTAAGATAAAAAC
1 A-TTAGCGGCGCTTAGATAAAATCGCCGCTAAAGATCTGAGCATTAGCGGCGCTCAGATAAAAAC
*
69132960 GCCACTAAAGATCCGCGC
65 GCCACTAAAGATCCGAGC
* ** * *
69132978 ATTAGTGGCGCACAAATAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTAGATAAAATCGCCGCTAAA
69133010 CGTTTAAAAA
Statistics
Matches: 225, Mismatches: 46, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
81 6 0.03
82 215 0.96
83 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (82 bp):
ATTAGCGGCGCTTAGATAAAATCGCCGCTAAAGATCTGAGCATTAGCGGCGCTCAGATAAAAACG
CCACTAAAGATCCGAGC
Found at i:69132997 original size:123 final size:123
Alignment explanation
Indices: 69132667--69133009 Score: 334
Period size: 123 Copynumber: 2.8 Consensus size: 123
69132657 GCGCTTGGGA
* * ** * * * *
69132667 AAAAACACCGCTAAAGGCCGGAGAATTAGTGGCGCTCAGATAAAAACGTCACTAAAGATCTGAGC
1 AAAAACGCCACTAAAGATCGGAGAATTAGCGGCGCTAAGATAAAAACGCCACTAAAGATCCGAGC
* * * * * * *
69132732 ATTAGCGGCGCTTAGACAAAATCGCCGCTAAATTCTAGAGCATTGGTGGCGCTCAGAT
66 ATTAGCGGCGCTCAAATAAAAACGCCGCTAAAATCTAGAGCATTCGCGGCGCTCAGAT
** * * * *
69132790 AAAAACGCCACTAAAGATCCAAGTATTAGCGGCGTTGAA-ATAAAATCGCCGCTAAAGA-CCTGA
1 AAAAACGCCACTAAAGATCGGAGAATTAGCGGCGCT-AAGATAAAAACGCCACTAAAGATCC-GA
* * * * * * *
69132853 GCTTTTGCGGCGTTCATATAAAAACGCCACTAAAGATC-GGTG-ATTTCGCGGCGCTCAGAT
64 GCATTAGCGGCGCTCAAATAAAAACGCCGCTAAA-ATCTAGAGCA-TTCGCGGCGCTCAGAT
* *
69132913 AAAAACGCTACTAAAGATCGGAGAATTAGCGGCGCTAAGATAAAAACGCCACTAAAGATCCGCGC
1 AAAAACGCCACTAAAGATCGGAGAATTAGCGGCGCTAAGATAAAAACGCCACTAAAGATCCGAGC
* *
69132978 ATTAGTGGCGCACAAATAAAAACGCCGCTAAA
66 ATTAGCGGCGCTCAAATAAAAACGCCGCTAAA
69133010 CGTTTAAAAA
Statistics
Matches: 172, Mismatches: 42, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
122 4 0.02
123 163 0.95
124 5 0.03
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (123 bp):
AAAAACGCCACTAAAGATCGGAGAATTAGCGGCGCTAAGATAAAAACGCCACTAAAGATCCGAGC
ATTAGCGGCGCTCAAATAAAAACGCCGCTAAAATCTAGAGCATTCGCGGCGCTCAGAT
Found at i:69133388 original size:20 final size:21
Alignment explanation
Indices: 69133352--69133391 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
69133342 TTTAATTAAT
69133352 TTTTTAAAATTTCAAAAAATA
1 TTTTTAAAATTTCAAAAAATA
69133373 TTTTTAAAATTT-AAAAAAT
1 TTTTTAAAATTTCAAAAAAT
69133392 TAATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTTAAAATTTCAAAAAATA
Found at i:69136226 original size:22 final size:21
Alignment explanation
Indices: 69136200--69136242 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
69136190 AGTTTATATC
69136200 TTTGTGTATTATAAATGATGAT
1 TTTGTGTATTATAAATG-TGAT
* *
69136222 TTTGTTTATTTTAAATGTGAT
1 TTTGTGTATTATAAATGTGAT
69136243 AAGAAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (21 bp):
TTTGTGTATTATAAATGTGAT
Found at i:69138403 original size:39 final size:39
Alignment explanation
Indices: 69138347--69138429 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
69138337 TCAAGGAAAA
*
69138347 GGTTTGATATTACTATGCCTGGAAGTGAAATCCCAGAAT
1 GGTTTGATATTACTATGCCCGGAAGTGAAATCCCAGAAT
* * *
69138386 GGTTTGATATTATTATGCCCGGAAGTGGAATCTCAGAAT
1 GGTTTGATATTACTATGCCCGGAAGTGAAATCCCAGAAT
69138425 GGTTT
1 GGTTT
69138430 AGCCAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (39 bp):
GGTTTGATATTACTATGCCCGGAAGTGAAATCCCAGAAT
Found at i:69140599 original size:16 final size:16
Alignment explanation
Indices: 69140556--69140622 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
69140546 TGGGTATACA
69140556 TATATAAAGTATA-AAG
1 TATATAAA-TATATAAG
* *
69140572 TACAAATAATATATAAG
1 TATATA-AATATATAAG
*
69140589 TATATATATAT-TAAAG
1 TATATAAATATAT-AAG
*
69140605 TATATAAAAATATAAG
1 TATATAAATATATAAG
69140621 TA
1 TA
69140623 CGTACATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
15 1 0.03
16 29 0.73
17 10 0.25
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.34
Consensus pattern (16 bp):
TATATAAATATATAAG
Found at i:69140654 original size:23 final size:24
Alignment explanation
Indices: 69140605--69140657 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
69140595 TATATTAAAG
**
69140605 TATATAAAAATATAAGTACGTACA
1 TATATAAAAATATAAAAACGTACA
* *
69140629 TATATAAAAAT-TAAAAATGTATA
1 TATATAAAAATATAAAAACGTACA
69140652 TATATA
1 TATATA
69140658 TGTTAGTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
TATATAAAAATATAAAAACGTACA
Found at i:69140730 original size:3 final size:3
Alignment explanation
Indices: 69140724--69140795 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
69140714 ATAACGAAAG
* *
69140724 TAA TAA TAA TAAA TGCAA TAA CAA GAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA T--AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
***
69140772 GCT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
69140796 CGGGATTAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
3 51 0.89
4 3 0.05
5 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:69147420 original size:26 final size:25
Alignment explanation
Indices: 69147391--69147454 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 25
69147381 TAATATATAT
69147391 AAAATATATATTTGATGAAAAATAAA
1 AAAATATATATTTGATGAAAAAT-AA
* *
69147417 AAAATACATATTTGATTAAAAATAA
1 AAAATATATATTTGATGAAAAATAA
69147442 AAAATATATATTT
1 AAAATATATATTT
69147455 AATATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 14 0.40
26 21 0.60
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (25 bp):
AAAATATATATTTGATGAAAAATAA
Found at i:69149683 original size:27 final size:27
Alignment explanation
Indices: 69149648--69149727 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 27
69149638 TTAATTAATT
69149648 TTTTAAAATTTTAAAAATTAAAAAATAA
1 TTTT-AAATTTTAAAAATTAAAAAATAA
*
69149676 TTTTAAATTTTAAAAATATTAAAAA-AA
1 TTTTAAATTTTAAAAAT-TAAAAAATAA
* **
69149703 -TATATTTTTTAAAATATTAAAAAAT
1 TTTTAAATTTTAAAA-ATTAAAAAAT
69149728 TAATGAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 17 0.39
27 17 0.39
28 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTTAAATTTTAAAAATTAAAAAATAA
Found at i:69153560 original size:13 final size:13
Alignment explanation
Indices: 69153542--69153567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69153532 GAATTCTGCA
69153542 TACAATGGATAAG
1 TACAATGGATAAG
69153555 TACAATGGATAAG
1 TACAATGGATAAG
69153568 AATTCTGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
TACAATGGATAAG
Found at i:69157733 original size:47 final size:45
Alignment explanation
Indices: 69157638--69157729 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 45
69157628 TAATTATTCA
*
69157638 AAATTTTAAAATTGTTAAAAATTTTAAAAGTTCCAGAAAATACAAT
1 AAATTGTAAAATTGTTAAAAATTTTAAAAGTT-CAGAAAATACAAT
*
69157684 AAATTGTAAATATTTTTAAAAATTATTAAAAGTT-A-AAAAT-CAAT
1 AAATTGTAAA-ATTGTTAAAAATT-TTAAAAGTTCAGAAAATACAAT
69157728 AA
1 AA
69157730 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 6 0.14
45 5 0.12
46 10 0.24
47 12 0.29
48 9 0.21
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (45 bp):
AAATTGTAAAATTGTTAAAAATTTTAAAAGTTCAGAAAATACAAT
Found at i:69162546 original size:12 final size:12
Alignment explanation
Indices: 69162531--69162555 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69162521 AAGAATAATT
69162531 TTTTTAATATTA
1 TTTTTAATATTA
69162543 TTTTTAATATTA
1 TTTTTAATATTA
69162555 T
1 T
69162556 AAAAATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAATATTA
Found at i:69163328 original size:36 final size:36
Alignment explanation
Indices: 69163287--69163359 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
69163277 GATGAAAATT
69163287 TTAATTTTTTTTAACTTTACTGATATAGCATACATG
1 TTAATTTTTTTTAACTTTACTGATATAGCATACATG
*
69163323 TTAATTTTTTTTAACTTTGCTGATATAGCATACATG
1 TTAATTTTTTTTAACTTTACTGATATAGCATACATG
69163359 T
1 T
69163360 ATATTACCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (36 bp):
TTAATTTTTTTTAACTTTACTGATATAGCATACATG
Found at i:69163432 original size:30 final size:30
Alignment explanation
Indices: 69163398--69163457 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
69163388 TTTAATTAAT
*
69163398 TTTTTAAAATTTAAAAAAATTAAAAATATA
1 TTTTTAAAAATTAAAAAAATTAAAAATATA
* *
69163428 TTTTTAAAAATTAAAAATATTAAAATTATA
1 TTTTTAAAAATTAAAAAAATTAAAAATATA
69163458 AAAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTTTAAAAATTAAAAAAATTAAAAATATA
Found at i:69163452 original size:46 final size:44
Alignment explanation
Indices: 69163401--69163494 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 44
69163391 AATTAATTTT
69163401 TTAAAATTTAAAAAAAT-TAAAAATATATTTTTAAAAATTAAAAATA
1 TTAAAA-TTAAAAAAATATAAAAATATATTTTT-AAAATTAAAAA-A
* *
69163447 TTAAAATTATAAAAATATAAAAATATATTTTTAAATTTAAAAAA
1 TTAAAATTAAAAAAATATAAAAATATATTTTTAAAATTAAAAAA
69163491 TTAA
1 TTAA
69163495 TTAAATACTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 5 0.11
45 19 0.42
46 21 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (44 bp):
TTAAAATTAAAAAAATATAAAAATATATTTTTAAAATTAAAAAA
Found at i:69163473 original size:8 final size:8
Alignment explanation
Indices: 69163432--69163473 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
69163422 AATATATTTT
69163432 TAAAAAT-
1 TAAAAATA
69163439 TAAAAATA
1 TAAAAATA
*
69163447 TTAAAATTA
1 -TAAAAATA
69163456 TAAAAATA
1 TAAAAATA
69163464 TAAAAATA
1 TAAAAATA
69163472 TA
1 TA
69163474 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 7 0.23
8 17 0.55
9 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TAAAAATA
Found at i:69185962 original size:21 final size:21
Alignment explanation
Indices: 69185936--69185976 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69185926 ATCTGCTCAA
* *
69185936 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
69185957 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
69185977 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:69200863 original size:19 final size:18
Alignment explanation
Indices: 69200808--69200895 Score: 70
Period size: 18 Copynumber: 4.7 Consensus size: 18
69200798 TTTAATTCTG
69200808 TAAT-TTTTTTCTTAGTTT
1 TAATATTTTTT-TTAGTTT
* * * *
69200826 TTATAATTTTCTAAGTTT
1 TAATATTTTTTTTAGTTT
*
69200844 TAATATTTTTTTTGGATTT
1 TAATATTTTTTTTAG-TTT
*
69200863 TAATGAGTTTTTTTAGTTT
1 TAAT-ATTTTTTTTAGTTT
69200882 TCAAGTATTTTTTT
1 T-AA-TATTTTTTT
69200896 ACTTTTGACA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
18 19 0.36
19 15 0.28
20 18 0.34
21 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.66
Consensus pattern (18 bp):
TAATATTTTTTTTAGTTT
Found at i:69208726 original size:31 final size:30
Alignment explanation
Indices: 69208665--69208730 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
69208655 AAAAAATTTC
* *
69208665 AAAAA-AT-ATATAAAATTATTAAATATTA
1 AAAAATATAATATAAAATTATTAAAAAATA
69208693 AAATAATATAATATAAATATT-TTAAAAAATA
1 AAA-AATATAATATAAA-ATTATTAAAAAATA
69208724 AAAAATA
1 AAAAATA
69208731 GTACAGGCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 2 0.06
30 6 0.19
31 18 0.56
32 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAAATATAATATAAAATTATTAAAAAATA
Found at i:69209126 original size:16 final size:17
Alignment explanation
Indices: 69209105--69209143 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
69209095 TCATCCTGTG
*
69209105 TATTTTATCCTC-TAAT
1 TATTTTATACTCTTAAT
*
69209121 TATTTTATATTCTTAAT
1 TATTTTATACTCTTAAT
69209138 TATTTT
1 TATTTT
69209144 TAAGCTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTATACTCTTAAT
Found at i:69211323 original size:12 final size:12
Alignment explanation
Indices: 69211306--69211330 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69211296 TAACGAGTAA
69211306 TTCTTTCTTTTC
1 TTCTTTCTTTTC
69211318 TTCTTTCTTTTC
1 TTCTTTCTTTTC
69211330 T
1 T
69211331 AGTTTTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTTCTTTTC
Found at i:69212760 original size:13 final size:13
Alignment explanation
Indices: 69212742--69212775 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
69212732 TATACATTAT
*
69212742 TTATTTTATTTTC
1 TTATTTTATGTTC
69212755 TTATTTTATGTTC
1 TTATTTTATGTTC
69212768 TTGATTTT
1 TT-ATTTT
69212776 TTTAGGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (13 bp):
TTATTTTATGTTC
Found at i:69214772 original size:147 final size:147
Alignment explanation
Indices: 69214505--69214789 Score: 466
Period size: 147 Copynumber: 1.9 Consensus size: 147
69214495 ATATTCCACC
*
69214505 TGATATTTCTGGTCTATCCTCTTTGTGGAGCCTTGATCTTAGTGGTAACAATTTCATCAGCATAC
1 TGATATTTCTGGTCTATCCTCTTTGAGGAGCCTTGATCTTAGTGGTAACAATTTCATCAGCATAC
* *
69214570 CTGCATCTCTTACTCGACTCTCGAAGCTTGAATGTCTTGAATTGTCAAATTGCAACATGTGCACT
66 CTGCATCTCTTACTCGACTCTCAAAACTTGAATGTCTTGAATTGTCAAATTGCAACATGTGCACT
69214635 CTTGGTGATACTCATTA
131 CTTGGTGATACTCATTA
* * *
69214652 TGATATTTCTGGTCTATCCTCTTTGAGTTA-TCTTGATCTTAGTGGTAACAATTTCATCCGCATA
1 TGATATTTCTGGTCTATCCTCTTTGAG-GAGCCTTGATCTTAGTGGTAACAATTTCATCAGCATA
* *
69214716 CCTGCATCTCTTACTCGACTCTCAAAACTT-CATGTTCTTGACTTGTCAAATTGCAACATGTGCA
65 CCTGCATCTCTTACTCGACTCTCAAAACTTGAATG-TCTTGAATTGTCAAATTGCAACATGTGCA
69214780 CTCTTGGTGA
129 CTCTTGGTGA
69214790 AGCCGATATT
Statistics
Matches: 128, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
146 3 0.02
147 124 0.97
148 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (147 bp):
TGATATTTCTGGTCTATCCTCTTTGAGGAGCCTTGATCTTAGTGGTAACAATTTCATCAGCATAC
CTGCATCTCTTACTCGACTCTCAAAACTTGAATGTCTTGAATTGTCAAATTGCAACATGTGCACT
CTTGGTGATACTCATTA
Found at i:69223138 original size:3 final size:3
Alignment explanation
Indices: 69223119--69223175 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
69223109 GTATAACAAG
* * *
69223119 AAT AAT AAGT AAT -AT AAT AAT AAT GATT AAT AAT GAT AGT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
69223165 AAT AAT AAT AA
1 AAT AAT AAT AA
69223176 AATGTCTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:69223848 original size:15 final size:16
Alignment explanation
Indices: 69223830--69223868 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
69223820 GAAGGGGAAA
69223830 AAAATAAAATAAAAT-
1 AAAATAAAATAAAATG
69223845 AAAAT-AAATAAAATG
1 AAAATAAAATAAAATG
*
69223860 AAACTAAAA
1 AAAATAAAA
69223869 AGCCGATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.43
15 9 0.43
16 3 0.14
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATG
Found at i:69223855 original size:4 final size:5
Alignment explanation
Indices: 69223830--69223868 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
69223820 GAAGGGGAAA
*
69223830 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT GAAACT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
69223869 AGCCGATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:69223855 original size:19 final size:19
Alignment explanation
Indices: 69223827--69223869 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
69223817 CGCGAAGGGG
69223827 AAAAAAATAAAAT-AAAAT
1 AAAAAAATAAAATGAAAAT
*
69223845 AAAATAAATAAAATGAAACT
1 AAAA-AAATAAAATGAAAAT
69223865 AAAAA
1 AAAAA
69223870 GCCGATTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAAAAATAAAATGAAAAT
Found at i:69227552 original size:9 final size:9
Alignment explanation
Indices: 69227538--69227567 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
69227528 TCTCTTTTCA
69227538 GTAGCATCT
1 GTAGCATCT
69227547 GTAGCATCT
1 GTAGCATCT
*
69227556 GTATCATCT
1 GTAGCATCT
69227565 GTA
1 GTA
69227568 TCACTCTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (9 bp):
GTAGCATCT
Found at i:69232427 original size:13 final size:14
Alignment explanation
Indices: 69232400--69232433 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
69232390 TTGATGTAAT
69232400 TTTTATTTTTATTTG
1 TTTT-TTTTTATTTG
69232415 TTTTTTTTT-TTTG
1 TTTTTTTTTATTTG
69232428 TTTTTT
1 TTTTTT
69232434 CACTAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 5 0.26
15 4 0.21
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTATTTG
Found at i:69239523 original size:15 final size:16
Alignment explanation
Indices: 69239503--69239532 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
69239493 GCTACCAACA
69239503 AGTATAG-TAGTTGTG
1 AGTATAGATAGTTGTG
69239518 AGTATAGATAGTTGT
1 AGTATAGATAGTTGT
69239533 TCTTCACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (16 bp):
AGTATAGATAGTTGTG
Found at i:69244688 original size:103 final size:103
Alignment explanation
Indices: 69244508--69244873 Score: 581
Period size: 103 Copynumber: 3.5 Consensus size: 103
69244498 CCTGGAATAG
* * * *
69244508 GGAATCAGCACTTAGCAACCACCAAATGGGTCGGGGAGTCAGCACTTAGCAACCCCTCGGGGAAA
1 GGAATCAGCACTTAGCAACCACC-AATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
*
69244573 TCAACACTTAGCAACCCCCTTTCACATTTAAAATACGGT
65 TCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
69244612 GGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
1 GGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
* *
69244677 TAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGT
66 CAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
**
69244715 GGAATCAGCACTTAGCAACCACCAATAATTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
1 GGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
69244780 CAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
66 CAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
* * * **
69244818 GGGATCAGCACTTAGCAACCACCAAT-GAATCGGGGAATCAGCACACAGCAACCCCT
1 GGAATCAGCACTTAGCAACCACCAATAG-GTAGGGGAATCAGCACTTAGCAACCCCT
69244874 TTATATGCAA
Statistics
Matches: 244, Mismatches: 17, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
103 221 0.91
104 23 0.09
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.19
Consensus pattern (103 bp):
GGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
CAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
Found at i:69249389 original size:25 final size:25
Alignment explanation
Indices: 69249347--69249395 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
69249337 TCAAAAGCTA
* *
69249347 CGACAAATGCTTGGAGTTTGCAAGG
1 CGACAAATGCTAGGAGTTAGCAAGG
69249372 CGACAAATGC-AGGAAGTTAGCAAG
1 CGACAAATGCTAGG-AGTTAGCAAG
69249396 ATTTTTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (25 bp):
CGACAAATGCTAGGAGTTAGCAAGG
Found at i:69253700 original size:18 final size:18
Alignment explanation
Indices: 69253677--69253719 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
69253667 CAATAGGTTT
69253677 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
69253695 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
69253713 TTAATTA
1 TTAATTA
69253720 CATGTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:69253836 original size:13 final size:13
Alignment explanation
Indices: 69253801--69253829 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
69253791 AATTATTCTC
69253801 ATCCTAGTTGGAA
1 ATCCTAGTTGGAA
69253814 ATCCTAGTTGGAA
1 ATCCTAGTTGGAA
69253827 ATC
1 ATC
69253830 TAAGTTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (13 bp):
ATCCTAGTTGGAA
Found at i:69256957 original size:4 final size:4
Alignment explanation
Indices: 69256948--69257006 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
69256938 GTTTTGGATA
69256948 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
69256996 TATG TATG TAT
1 TATG TATG TAT
69257007 AACTGTTGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:69259132 original size:26 final size:24
Alignment explanation
Indices: 69259082--69259128 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
69259072 AATGTATGTA
69259082 TTTTTGAAATATTAATGGTATATT
1 TTTTTGAAATATTAATGGTATATT
69259106 TTTTGTGAAA-ATTAATGGTATAT
1 TTTT-TGAAATATTAATGGTATAT
69259129 ATTTAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
TTTTTGAAATATTAATGGTATATT
Found at i:69262943 original size:18 final size:18
Alignment explanation
Indices: 69262920--69262962 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
69262910 CAATAGGTTT
69262920 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
69262938 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
69262956 TTAATTA
1 TTAATTA
69262963 CATGTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:69268589 original size:153 final size:153
Alignment explanation
Indices: 69268175--69268568 Score: 521
Period size: 153 Copynumber: 2.6 Consensus size: 153
69268165 ACTAAGGGAC
* * * * * *
69268175 TGCAATCTTTGTGAAGGAGATATTCCA-CGTGATATTTCTGGTCTATCCTGTTTGGAA-AAACTT
1 TGCACTCTTGGTGAAGCAGATATT-CATAGTGATATTTCTGGTCTATCCTCTTT-GAATAATCTT
* **
69268238 GATCTTAGTGGTAACAATTTCATCAGCATGCCTGCATCTCTTACTCGACTCTTGAAGCTTGCAAA
64 GATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAA
69268303 TCTTATATTGTCAAATTGCAACATG
129 TCTTATATTGTCAAATTGCAACATG
* * * *
69268328 TGCACTTTTGGTGAAGCAGATACTT-ATAGTGATATTTCTGGTCTATCCTCTTTGAGTTATCTTA
1 TGCACTCTTGGTGAAGCAGATA-TTCATAGTGATATTTCTGGTCTATCCTCTTTGAATAATCTTG
**
69268392 ATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTT-CATGT
65 ATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTTGCA-AA
* *
69268456 TCTTGA-CTTGTCAAATTGCAACGTG
129 TCTT-ATATTGTCAAATTGCAACATG
*
69268481 TGCACTCTTGGTGAAGCAGATATTCATAGTGATCTTTCTGGTCTATCCTCTTT-AATAAGTCTTG
1 TGCACTCTTGGTGAAGCAGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGAATAA-TCTTG
*
69268545 ATCTTAGTGGTAATAATTTCATCA
65 ATCTTAGTGGTAACAATTTCATCA
69268569 CCATTCCTTT
Statistics
Matches: 211, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
152 10 0.05
153 198 0.94
154 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (153 bp):
TGCACTCTTGGTGAAGCAGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGAATAATCTTGA
TCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAATC
TTATATTGTCAAATTGCAACATG
Found at i:69272299 original size:14 final size:14
Alignment explanation
Indices: 69272280--69272314 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
69272270 AAAAGTAAGC
69272280 CATTTTCTAGAAAT
1 CATTTTCTAGAAAT
* *
69272294 CATTTTCTGGAATT
1 CATTTTCTAGAAAT
69272308 CATTTTC
1 CATTTTC
69272315 AGTCTAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (14 bp):
CATTTTCTAGAAAT
Found at i:69273198 original size:16 final size:16
Alignment explanation
Indices: 69273177--69273215 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
69273167 ATTTTGTTAC
*
69273177 AACAATTATTACAATT
1 AACAATTAATACAATT
69273193 AACAATTAATACAATT
1 AACAATTAATACAATT
*
69273209 AATAATT
1 AACAATT
69273216 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:69273306 original size:16 final size:16
Alignment explanation
Indices: 69273285--69273326 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
69273275 AATAATTTGA
*
69273285 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
69273301 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
69273317 TAGTTTTAAT
1 TAATTTTAAT
69273327 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:69299264 original size:100 final size:100
Alignment explanation
Indices: 69299091--69299290 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
69299081 TATAAGAGTT
69299091 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
1 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
69299156 TTAAACTTGTACACAAAGATAAGCTGACATATTAG
66 TTAAACTTGTACACAAAGATAAGCTGACATATTAG
69299191 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
1 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
69299256 TTAAACTTGTACACAAAGATAAGCTGACATATTAG
66 TTAAACTTGTACACAAAGATAAGCTGACATATTAG
69299291 CTATTACATC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (100 bp):
ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
TTAAACTTGTACACAAAGATAAGCTGACATATTAG
Found at i:69318391 original size:7 final size:7
Alignment explanation
Indices: 69318379--69318410 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
69318369 AAAATATTTT
69318379 TATTTAA
1 TATTTAA
69318386 TATTTAA
1 TATTTAA
69318393 TATTTAA
1 TATTTAA
69318400 TATTT-A
1 TATTTAA
69318406 TATTT
1 TATTT
69318411 TTTCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTTAA
Found at i:69318396 original size:14 final size:13
Alignment explanation
Indices: 69318371--69318410 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
69318361 ATTTTAGAAA
*
69318371 AATATTTTTATTT
1 AATATTTATATTT
69318384 AATATTTAATATTT
1 AATATTT-ATATTT
69318398 AATATTTATATTT
1 AATATTTATATTT
69318411 TTTCTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:69318396 original size:20 final size:20
Alignment explanation
Indices: 69318371--69318410 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69318361 ATTTTAGAAA
*
69318371 AATATTTTTATTTAATATTT
1 AATATTTATATTTAATATTT
69318391 AATATTTAATATTT-ATATTT
1 AATATTT-ATATTTAATATTT
69318411 TTTCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATATTTATATTTAATATTT
Found at i:69320341 original size:26 final size:26
Alignment explanation
Indices: 69320311--69320362 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
69320301 ATTTTTAATT
69320311 AGTAAAAGTAAAATAATAAATTGATC
1 AGTAAAAGTAAAATAATAAATTGATC
69320337 AGTAAAAGTAAAATAATAAATTGATC
1 AGTAAAAGTAAAATAATAAATTGATC
69320363 CCTAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.27
Consensus pattern (26 bp):
AGTAAAAGTAAAATAATAAATTGATC
Found at i:69320368 original size:26 final size:26
Alignment explanation
Indices: 69320313--69320369 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
69320303 TTTTAATTAG
*
69320313 TAAAAGTAAAATAATAAATTGATCAG
1 TAAAAGTAAAATAATAAATTGATCAC
*
69320339 TAAAAGTAAAATAATAAATTGATCCC
1 TAAAAGTAAAATAATAAATTGATCAC
69320365 TAAAA
1 TAAAA
69320370 ATATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (26 bp):
TAAAAGTAAAATAATAAATTGATCAC
Found at i:69320661 original size:18 final size:18
Alignment explanation
Indices: 69320630--69320680 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
69320620 AACATACATT
*
69320630 TTAAATAT-TTTTATATTA
1 TTAAATATATATTAT-TTA
*
69320648 TTAAAT-TATATTATTTC
1 TTAAATATATATTATTTA
*
69320665 TTTAATATATATTATT
1 TTAAATATATATTATT
69320681 AACTTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAATATATATTATTTA
Found at i:69326303 original size:153 final size:154
Alignment explanation
Indices: 69325918--69326279 Score: 552
Period size: 153 Copynumber: 2.4 Consensus size: 154
69325908 ATATTCCACC
* * *
69325918 TGATATTTCTGGTCTATCCTGTTTG-GAAATACTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCATCAGCATA
* * *
69325982 CCTGCATCTCTTACTCGACTCTCGAAGCTTGAAATTCTGCGATTGTCAAATTGTAACATGTGCAC
66 CCTGCATCTCTTACTCGACTCTCGAAGCTGGAAATTCTGAGATTGTCAAATTGCAACATGTGCAC
69326047 TTTTGGTGAAGCAGATACTCATAG
131 TTTTGGTGAAGCAGATACTCATAG
*
69326071 TGATATTTCTGGTCTATCCTCTTTGA-ATATACTTAATCTTAGTGATAACAATTTCATCAGCATA
1 TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCATCAGCATA
* * * * *
69326135 CCTGCATCTCTTACTCGACTGTCGAATCTCGGAAA-TCTTATATTGTCAAATTGCAACATTTGCA
66 CCTGCATCTCTTACTCGACTCTCGAAGCT-GGAAATTCTGAGATTGTCAAATTGCAACATGTGCA
*
69326199 CTTTTGGTGAAGCAGATACTCATGG
130 CTTTTGGTGAAGCAGATACTCATAG
* *
69326224 TGATATTTCTGGTCTATCCTCTTTGAGTTAT-CTTAATCTTAGTGGTAAGAATTTCA
1 TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCA
69326280 CCACCCTTCC
Statistics
Matches: 190, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
153 183 0.96
154 7 0.04
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (154 bp):
TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCATCAGCATA
CCTGCATCTCTTACTCGACTCTCGAAGCTGGAAATTCTGAGATTGTCAAATTGCAACATGTGCAC
TTTTGGTGAAGCAGATACTCATAG
Found at i:69326343 original size:153 final size:152
Alignment explanation
Indices: 69325918--69326335 Score: 464
Period size: 153 Copynumber: 2.7 Consensus size: 152
69325908 ATATTCCACC
* * * * *
69325918 TGATATTTCTGGTCTATCCTGTTTGGAA-ATACTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 TGATATTTCTGGTCTATCCTCTTT-GAATATACTTAATCTTAGTGATAACAATTTCACCACCATA
* * * * * *** *
69325982 CCTGCATCTCTTACTCGACTCTCGAAGCTTGAAATTCTGCGATTGTCAAATTGTAACATGTGCAC
65 CCTGCAGCTCTTACTCAACTGTCCAAGCTCGAAA-TCTTAAATTGTCAAATTGCAACATGTGCAC
69326047 TTTTGGTGAAGCAGATACTCATAG
129 TTTTGGTGAAGCAGATACTCATAG
* *
69326071 TGATATTTCTGGTCTATCCTCTTTGAATATACTTAATCTTAGTGATAACAATTTCATCAGCATAC
1 TGATATTTCTGGTCTATCCTCTTTGAATATACTTAATCTTAGTGATAACAATTTCACCACCATAC
* * * * * *
69326136 CTGCATCTCTTACTCGACTGTCGAATCTCGGAAATCTTATATTGTCAAATTGCAACATTTGCACT
66 CTGCAGCTCTTACTCAACTGTCCAAGCTC-GAAATCTTAAATTGTCAAATTGCAACATGTGCACT
*
69326201 TTTGGTGAAGCAGATACTCATGG
130 TTTGGTGAAGCAGATACTCATAG
* * * * *
69326224 TGATATTTCTGGTCTATCCTCTTTGAGT-TATCTTAATCTTAGTGGTAAGAATTTCACCACCCTT
1 TGATATTTCTGGTCTATCCTCTTTGAATATA-CTTAATCTTAGTGATAACAATTTCACCACCATA
*** * *
69326288 CCTTTGGCTCTTACTCAACTTTCCAGGCTC-AAATTGCTTAAATTGTCA
65 CCTGCAGCTCTTACTCAACTGTCCAAGCTCGAAA-T-CTTAAATTGTCA
69326336 GGTTGCAAGA
Statistics
Matches: 231, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
151 3 0.01
152 6 0.03
153 218 0.94
154 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (152 bp):
TGATATTTCTGGTCTATCCTCTTTGAATATACTTAATCTTAGTGATAACAATTTCACCACCATAC
CTGCAGCTCTTACTCAACTGTCCAAGCTCGAAATCTTAAATTGTCAAATTGCAACATGTGCACTT
TTGGTGAAGCAGATACTCATAG
Found at i:69331969 original size:5 final size:5
Alignment explanation
Indices: 69331961--69331991 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
69331951 AATAATCAAG
69331961 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
69331992 AAAATTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:69341144 original size:19 final size:19
Alignment explanation
Indices: 69341120--69341166 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
69341110 AATATTTTAT
69341120 ATTATTTATTTT-TAATATA
1 ATTATTTATTTTATAAT-TA
*
69341139 ATTATTCTTTTTTATAATTA
1 ATTATT-TATTTTATAATTA
*
69341159 ATTTTTTA
1 ATTATTTA
69341167 ATCTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTATTTATTTTATAATTA
Found at i:69341163 original size:32 final size:32
Alignment explanation
Indices: 69341104--69341164 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
69341094 AATGATATTC
* *
69341104 ATAATTAATATTTTATATTATTTATTTTTAAT
1 ATAATTAATATTTTATATAATTAATTTTTAAT
* * *
69341136 ATAATTATTCTTTTTTATAATTAATTTTT
1 ATAATTAATATTTTATATAATTAATTTTT
69341165 TAATCTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (32 bp):
ATAATTAATATTTTATATAATTAATTTTTAAT
Found at i:69341165 original size:16 final size:16
Alignment explanation
Indices: 69341104--69341166 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
69341094 AATGATATTC
*
69341104 ATAATTAATATTTTAT
1 ATAATTAATTTTTTAT
* * *
69341120 ATTATTTATTTTTAAT
1 ATAATTAATTTTTTAT
*
69341136 ATAATT-ATTCTTTTTT
1 ATAATTAATT-TTTTAT
69341152 ATAATTAATTTTTTA
1 ATAATTAATTTTTTA
69341167 ATCTATAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 3 0.08
16 31 0.84
17 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
ATAATTAATTTTTTAT
Found at i:69342587 original size:9 final size:9
Alignment explanation
Indices: 69342573--69342875 Score: 241
Period size: 9 Copynumber: 33.7 Consensus size: 9
69342563 TATTATGTAC
69342573 TAAGTTATG
1 TAAGTTATG
*
69342582 TAAGTTGTG
1 TAAGTTATG
69342591 T-A-TTATG
1 TAAGTTATG
*
69342598 TGAGTTATG
1 TAAGTTATG
*
69342607 TGAGTTATG
1 TAAGTTATG
69342616 TAAGTTATG
1 TAAGTTATG
*
69342625 TAAGTTATT
1 TAAGTTATG
69342634 TAA-TATATG
1 TAAGT-TATG
69342643 TAAGTTATG
1 TAAGTTATG
69342652 TAAGTTATG
1 TAAGTTATG
* *
69342661 TAGGCTATG
1 TAAGTTATG
69342670 T-A-TTATG
1 TAAGTTATG
* *
69342677 TAAATAATG
1 TAAGTTATG
*
69342686 TAAGTTAGG
1 TAAGTTATG
* * *
69342695 GAGGTTATT
1 TAAGTTATG
69342704 TAAGTTATG
1 TAAGTTATG
69342713 TAAGTTAT-
1 TAAGTTATG
*
69342721 TCAATTTATG
1 T-AAGTTATG
69342731 TAAGTTATG
1 TAAGTTATG
69342740 TAAGTTATG
1 TAAGTTATG
69342749 TAAGTTATG
1 TAAGTTATG
*
69342758 TAAGTTATT
1 TAAGTTATG
*
69342767 TAATTTATG
1 TAAGTTATG
69342776 TAAGTTATTTAG
1 TAAGTTA--T-G
* *
69342788 AAAAAATTATG
1 --TAAGTTATG
69342799 TAAGTTATG
1 TAAGTTATG
69342808 TACTAAGTTATG
1 ---TAAGTTATG
69342820 T-A-TTATG
1 TAAGTTATG
* *
69342827 TAAATAATG
1 TAAGTTATG
69342836 TAAGTTA-G
1 TAAGTTATG
* *
69342844 GAAGGTTATT
1 TAA-GTTATG
69342854 TAAGTTATG
1 TAAGTTATG
69342863 T-A-TTATG
1 TAAGTTATG
69342870 TAAGTT
1 TAAGTT
69342876 TATATATAAG
Statistics
Matches: 235, Mismatches: 37, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
7 22 0.09
8 12 0.05
9 179 0.76
10 4 0.02
11 2 0.01
12 11 0.05
14 5 0.02
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:69345037 original size:40 final size:39
Alignment explanation
Indices: 69344983--69345058 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
69344973 TTTGTAATAC
* * *
69344983 ACAGTTGCTGCGTTTTCAGA-AAAAACGCCGCTAAAGCTT
1 ACAGTTGCGGCGTTTT-AAATAAAAACGCCACTAAAGCTT
69345022 ACAGTTTGCGGCGTTTTAAATAAAAACGCCACTAAAG
1 ACAG-TTGCGGCGTTTTAAATAAAAACGCCACTAAAG
69345059 AGTTAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 6 0.19
40 26 0.81
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (39 bp):
ACAGTTGCGGCGTTTTAAATAAAAACGCCACTAAAGCTT
Found at i:69345562 original size:7 final size:7
Alignment explanation
Indices: 69345546--69345585 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
69345536 TAAACTTTTT
*
69345546 ACCCTAA
1 ACCCTTA
69345553 ACCCTTA
1 ACCCTTA
69345560 ACCCTTA
1 ACCCTTA
* *
69345567 ATCCTAA
1 ACCCTTA
69345574 ACCCTTA
1 ACCCTTA
69345581 ACCCT
1 ACCCT
69345586 AAATTAACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (7 bp):
ACCCTTA
Done.