Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 21 of 147
Found at i:4478943 original size:2 final size:2
Alignment explanation
Indices: 4478936--4478965 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4478926 AAACTCTACT
4478936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4478966 AGTGGTGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4481137 original size:18 final size:18
Alignment explanation
Indices: 4481098--4481139 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
4481088 AAATTTAAAG
*
4481098 TATATTATTTTTATATTT
1 TATATAATTTTTATATTT
*
4481116 TATATAA-TTTT-TGTTT
1 TATATAATTTTTATATTT
4481132 TATATAAT
1 TATATAAT
4481140 CATATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 4 0.19
18 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TATATAATTTTTATATTT
Found at i:4481533 original size:26 final size:24
Alignment explanation
Indices: 4481504--4481557 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
4481494 TGTAATTGAA
4481504 AAAAATG-GATTAAAAATAATGTATTT
1 AAAAATGTGA-TAAAAAT-ATG-ATTT
*
4481530 AAAAGTGTGATAAAAATATGATTT
1 AAAAATGTGATAAAAATATGATTT
4481554 AAAA
1 AAAA
4481558 GTTTTATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
25 3 0.12
26 13 0.50
27 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (24 bp):
AAAAATGTGATAAAAATATGATTT
Found at i:4482089 original size:6 final size:5
Alignment explanation
Indices: 4482064--4482097 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
4482054 GGAAACAAAC
*
4482064 CTTTCT CTTTT CTTTT CTTTT CCTTT CTTTT CTT
1 CTTT-T CTTTT CTTTT CTTTT CTTTT CTTTT CTT
4482098 GTTTTCTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
CTTTT
Found at i:4482091 original size:22 final size:23
Alignment explanation
Indices: 4482063--4482105 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4482053 AGGAAACAAA
4482063 CCTTTCTCTT-TTCTTTTCTTTT
1 CCTTTCTCTTCTTCTTTTCTTTT
* *
4482085 CCTTTCTTTTCTTGTTTTCTT
1 CCTTTCTCTTCTTCTTTTCTT
4482106 GCAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (23 bp):
CCTTTCTCTTCTTCTTTTCTTTT
Found at i:4488223 original size:15 final size:15
Alignment explanation
Indices: 4488203--4488274 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
4488193 AAATTTTGAT
4488203 ATATTTATTAAATAA
1 ATATTTATTAAATAA
4488218 ATATTT-TT-AATAA
1 ATATTTATTAAATAA
* *
4488231 AAATATTAATAAA-AA
1 ATAT-TTATTAAATAA
* * *
4488246 TTTTATTGTTAAATAA
1 ATAT-TTATTAAATAA
*
4488262 ATATTGATTAAAT
1 ATATTTATTAAAT
4488275 TTAAATTATA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
13 8 0.19
14 4 0.10
15 24 0.57
16 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
ATATTTATTAAATAA
Found at i:4488316 original size:11 final size:12
Alignment explanation
Indices: 4488285--4488309 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4488275 TTAAATTATA
4488285 AATAATATTTTT
1 AATAATATTTTT
4488297 AATAATATTTTT
1 AATAATATTTTT
4488309 A
1 A
4488310 TATTATTAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:4488776 original size:21 final size:21
Alignment explanation
Indices: 4488750--4488789 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4488740 ATAATATGTG
4488750 AGATTAAATATT-ATAATAATA
1 AGATTAAA-ATTAATAATAATA
4488771 AGATTAAAATTAATAATAA
1 AGATTAAAATTAATAATAA
4488790 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AGATTAAAATTAATAATAATA
Found at i:4492840 original size:21 final size:20
Alignment explanation
Indices: 4492813--4492859 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4492803 CATCTCTAAG
*
4492813 TAAAAATTAGAAAATTTTCA
1 TAAAAAATAGAAAATTTTCA
*
4492833 TAAAAAATAGACAATTTTCA
1 TAAAAAATAGAAAATTTTCA
4492853 TAAAAAA
1 TAAAAAA
4492860 CTCAGAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAAATAGAAAATTTTCA
Found at i:4493153 original size:39 final size:39
Alignment explanation
Indices: 4493099--4493174 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
4493089 GTCTAATTGA
*
4493099 TTTGCCCAAACCAATCTTGAATAGGGATAATGGATTTTT
1 TTTGCCCAAACCAATCTTGAAGAGGGATAATGGATTTTT
4493138 TTTGCCCAAACCAATCTTGAAGAGGGATAATGGATTT
1 TTTGCCCAAACCAATCTTGAAGAGGGATAATGGATTT
4493175 CTTAAAGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (39 bp):
TTTGCCCAAACCAATCTTGAAGAGGGATAATGGATTTTT
Found at i:4502698 original size:26 final size:26
Alignment explanation
Indices: 4502630--4502704 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
4502620 TTAGTCCAAG
* *
4502630 CCCAATTGAGCCCATT-TCGGTCTGGA
1 CCCAATTGAGCACATTCT-GGTCCGGA
4502656 CCCAATT-AGGCACATTCTGGTCCGGA
1 CCCAATTGA-GCACATTCTGGTCCGGA
* *
4502682 CTCAATTGAGCACATTCTAGTCC
1 CCCAATTGAGCACATTCTGGTCC
4502705 AAGCCCAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 39 0.93
27 2 0.05
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (26 bp):
CCCAATTGAGCACATTCTGGTCCGGA
Found at i:4502921 original size:9 final size:9
Alignment explanation
Indices: 4502835--4502920 Score: 113
Period size: 9 Copynumber: 9.6 Consensus size: 9
4502825 ATTAAACGTT
*
4502835 TTATTTTTA
1 TTATTATTA
4502844 TT-TTCATTA
1 TTATT-ATTA
4502853 TTATTATTA
1 TTATTATTA
*
4502862 TTATTGTTA
1 TTATTATTA
4502871 TTATTATTA
1 TTATTATTA
4502880 TTATTATTA
1 TTATTATTA
4502889 TTATTATTA
1 TTATTATTA
*
4502898 TTGTTATTA
1 TTATTATTA
4502907 TTATTTATT-
1 TTA-TTATTA
4502916 TTATT
1 TTATT
4502921 TTTCCTTTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
8 4 0.06
9 58 0.84
10 7 0.10
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (9 bp):
TTATTATTA
Found at i:4502923 original size:6 final size:6
Alignment explanation
Indices: 4502835--4502920 Score: 113
Period size: 6 Copynumber: 14.3 Consensus size: 6
4502825 ATTAAACGTT
* *
4502835 TTATTT TTATT- TTCATTA TTATTA TTATTA TTGTTA TTATTA TTATTA
1 TTATTA TTATTA TT-ATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
4502883 TTATTA TTATTA TTATTG TTATTA TTATTTA TT-TTA TT
1 TTATTA TTATTA TTATTA TTATTA TTA-TTA TTATTA TT
4502921 TTTCCTTTTC
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
5 7 0.10
6 59 0.81
7 7 0.10
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (6 bp):
TTATTA
Found at i:4515413 original size:115 final size:119
Alignment explanation
Indices: 4514965--4515585 Score: 499
Period size: 119 Copynumber: 5.3 Consensus size: 119
4514955 CATTTGCATT
* * * * ***
4514965 ATCTCGATCATTTGGTCTTGGTTCAATCCAGATTATTTTTTATAATTCCTGGTTCCATCCTGATC
1 ATCTCGATCACTTGGTCTTGGCTCAGTCCAGATTATTTTTTATAATTCGTGGTTTTGTCCTGATC
* * * ** * *
4515030 ATTTATTCCCGACTTTGACTCGGTCCTAATCGTTTTATTTTGACTTGTGGTTTT
66 ATTTATTCTCGACCTTGACTCGATCCTGGTCGTTTTATTTTGACTTATGGTTTC
* * * * * *
4515084 GTCTGGATCACTTGGTCTTGACTCAGTCCAGATTATTTTTTATGATTCATGGTTTCGT-CTCGAT
1 ATCTCGATCACTTGGTCTTGGCTCAGTCCAGATTATTTTTTATAATTCGTGGTTTTGTCCT-GAT
* * * *
4515148 TATTTATTCTTGACTTTGACTCGATCCTGGTTC-TTTTATTTCGACTTATGGTTTC
65 CATTTATTCTCGACCTTGACTCGATCCTGG-TCGTTTTATTTTGACTTATGGTTTC
* * * * * * * **
4515203 GTCTC-AGTCCCTTGATTTTGGCTCAGTCTAGATAATTTTTTATAATTCGTGGTTCTGTCCCAAT
1 ATCTCGA-TCACTTGGTCTTGGCTCAGTCCAGATTATTTTTTATAATTCGTGGTTTTGTCCTGAT
* * * * *
4515267 CATGTATTCTCAATCC-CGACTCGATCTTGGTCGCTTTATTTTGACTTATGGTTTC
65 CATTTATTCTCGA-CCTTGACTCGATCCTGGTCGTTTTATTTTGACTTATGGTTTC
* * *
4515322 ATCTCGATCACTTGGTCTTGGCTTAGTCCAGATTA-TTTCT-T-ATT-GTGGTTTTGTCCTGATT
1 ATCTCGATCACTTGGTCTTGGCTCAGTCCAGATTATTTTTTATAATTCGTGGTTTTGTCCTGATC
* * * *
4515383 ATTTATTCTCGACCTTAACTCGATCATGGTCGTTTTATTTTGACTTGTGGTTTT
66 ATTTATTCTCGACCTTGACTCGATCCTGGTCGTTTTATTTTGACTTATGGTTTC
* * * * * * * ** *
4515437 ACCTCGGTCACTTGGTCTTGGATCAGTCTAGATCATTTTTTATGATTCATGGTTCCGT-CTCAAT
1 ATCTCGATCACTTGGTCTTGGCTCAGTCCAGATTATTTTTTATAATTCGTGGTTTTGTCCT-GAT
* * ** * * * * *
4515501 CATTCATTTTCGATTTTGACTCGATCATGATCATTTTA-TTTGACTTGTGGTTTA
65 CATTTATTCTCGACCTTGACTCGATCCTGGTCGTTTTATTTTGACTTATGGTTTC
* ** *
4515555 ATCCCGA-CTGTTCGATCTTGGCTCAGTCCAG
1 ATCTCGATCACTT-GGTCTTGGCTCAGTCCAG
4515586 GTCAATTTTC
Statistics
Matches: 399, Mismatches: 89, Indels: 29
0.77 0.17 0.06
Matches are distributed among these distances:
114 2 0.01
115 85 0.21
116 7 0.02
117 5 0.01
118 48 0.12
119 247 0.62
120 5 0.01
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (119 bp):
ATCTCGATCACTTGGTCTTGGCTCAGTCCAGATTATTTTTTATAATTCGTGGTTTTGTCCTGATC
ATTTATTCTCGACCTTGACTCGATCCTGGTCGTTTTATTTTGACTTATGGTTTC
Found at i:4515524 original size:234 final size:236
Alignment explanation
Indices: 4514967--4515553 Score: 603
Period size: 234 Copynumber: 2.5 Consensus size: 236
4514957 TTTGCATTAT
* * * * * * * * *
4514967 CTCGATCATTTGGTCTTGGTTCAATCCAGATTATTTTTTATAATTCCTGGTTCCATCCTGATCAT
1 CTCGGTCACTTGGTCTTGGATCAGTCTAGATAATTTTTTATAATTCATGGTTCCGTCC-AATCA-
* * * * * ** *
4515032 TTATTCCCGACTTTGACTCGGTCCTAATCGTTTTATTTTGACTTGTGGTTTTGTCTGGATCACTT
64 TTATTCTCGATTTTGACTCGATCATGATCGTTTTATTTTGACTTGTGGTTTCATCTCGATCACTT
* *
4515097 GGTCTTGACTCAGTCCAGATTATTTTTTATGATTCATGGTTTCGTCTCGATTATTTATTCTTGAC
129 GGTCTTGACTCAGTCCAGATTATTTTCTATGATTCATGGTTTCGTCTCGATTATTTATTCTCGAC
* * * **
4515162 TTTGACTCGATCCTGGTTCTTTTATTTCGACTTATGGTTTCGT
194 CTTAACTCGATCATGGTTCTTTTATTTCGACTTATGGTTTCAC
* * * * * * *
4515205 CTCAGTCCCTTGATTTTGGCTCAGTCTAGATAATTTTTTATAATTCGTGGTTCTGTCCCAATCAT
1 CTCGGTCACTTGGTCTTGGATCAGTCTAGATAATTTTTTATAATTCATGGTTCCGT-CCAATCAT
* *** * * * *
4515270 GTATTCTCAATCCCGACTCGATCTTGGTCGCTTTATTTTGACTTATGGTTTCATCTCGATCACTT
65 -TATTCTCGATTTTGACTCGATCATGATCGTTTTATTTTGACTTGTGGTTTCATCTCGATCACTT
* * * *
4515335 GGTCTTGGCTTAGTCCAGATTA-TTTCT-T-ATT-GTGGTTTTGTC-CTGATTATTTATTCTCGA
129 GGTCTTGACTCAGTCCAGATTATTTTCTATGATTCATGGTTTCGTCTC-GATTATTTATTCTCGA
* * *
4515395 CCTTAACTCGATCATGG-TCGTTTTATTTTGACTTGTGGTTTTAC
193 CCTTAACTCGATCATGGTTC-TTTTATTTCGACTTATGGTTTCAC
* *
4515439 CTCGGTCACTTGGTCTTGGATCAGTCTAGATCATTTTTTATGATTCATGGTTCCGTCTCAATCAT
1 CTCGGTCACTTGGTCTTGGATCAGTCTAGATAATTTTTTATAATTCATGGTTCCGTC-CAATCAT
* *
4515504 TCATTTTCGATTTTGACTCGATCATGATCATTTTA-TTTGACTTGTGGTTT
65 T-ATTCTCGATTTTGACTCGATCATGATCGTTTTATTTTGACTTGTGGTTT
4515554 AATCCCGACT
Statistics
Matches: 281, Mismatches: 62, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
233 19 0.07
234 135 0.48
235 3 0.01
236 1 0.00
237 5 0.02
238 116 0.41
239 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (236 bp):
CTCGGTCACTTGGTCTTGGATCAGTCTAGATAATTTTTTATAATTCATGGTTCCGTCCAATCATT
ATTCTCGATTTTGACTCGATCATGATCGTTTTATTTTGACTTGTGGTTTCATCTCGATCACTTGG
TCTTGACTCAGTCCAGATTATTTTCTATGATTCATGGTTTCGTCTCGATTATTTATTCTCGACCT
TAACTCGATCATGGTTCTTTTATTTCGACTTATGGTTTCAC
Found at i:4515752 original size:26 final size:26
Alignment explanation
Indices: 4515678--4515756 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
4515668 GCTGTAGATA
* *
4515678 CCCATTTTTGTTCGAACCCAATTAGG
1 CCCATTTTGGTTCGGACCCAATTAGG
* * * *
4515704 CTCATTTTGG-TCTGGGCCTAATTTGG
1 CCCATTTTGGTTC-GGACCCAATTAGG
*
4515730 CCCATTTCGGTTCGGACCCAATTAGG
1 CCCATTTTGGTTCGGACCCAATTAGG
4515756 C
1 C
4515757 ATGTTCTGGT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
25 2 0.05
26 36 0.90
27 2 0.05
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.34
Consensus pattern (26 bp):
CCCATTTTGGTTCGGACCCAATTAGG
Found at i:4515792 original size:26 final size:26
Alignment explanation
Indices: 4515743--4515793 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
4515733 ATTTCGGTTC
* ** *
4515743 GGACCCAATTAGGCATGTTCTGGTCT
1 GGACCCAATTAAGCACATTATGGTCT
4515769 GGACCCAATTAAGCACATTATGGTC
1 GGACCCAATTAAGCACATTATGGTC
4515794 CAAGCGCAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
GGACCCAATTAAGCACATTATGGTCT
Found at i:4515933 original size:3 final size:3
Alignment explanation
Indices: 4515925--4515950 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4515915 ATTAAACATT
4515925 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4515951 CTTTTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4520218 original size:36 final size:37
Alignment explanation
Indices: 4520166--4520240 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 37
4520156 CTATCTTGCA
* **
4520166 TAACTTTTATGTCTTCCTGATCCATCCCTTGCCAAAG
1 TAACTTTTATGCCTTCCCCATCCATCCCTTGCCAAAG
*
4520203 TAAC-TTTATGCCTTCCCCATCCATCCCTTTCCAAAG
1 TAACTTTTATGCCTTCCCCATCCATCCCTTGCCAAAG
4520239 TA
1 TA
4520241 GCCTCTCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
36 30 0.88
37 4 0.12
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (37 bp):
TAACTTTTATGCCTTCCCCATCCATCCCTTGCCAAAG
Found at i:4520813 original size:64 final size:64
Alignment explanation
Indices: 4520725--4520853 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
4520715 CAAAATGATG
*
4520725 TTTGCCTCAACATCACGATATGCCCAAGTACTAGGATTTGGAACTATTTCAACTTATGACATCC
1 TTTGCCTCAAAATCACGATATGCCCAAGTACTAGGATTTGGAACTATTTCAACTTATGACATCC
* * *
4520789 TTTGCCTTAAAATCATGATATGCCCAAGTGCTAGGATTTGGAACTATTTCAACTTATGACATCC
1 TTTGCCTCAAAATCACGATATGCCCAAGTACTAGGATTTGGAACTATTTCAACTTATGACATCC
4520853 T
1 T
4520854 CTGGTAACTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (64 bp):
TTTGCCTCAAAATCACGATATGCCCAAGTACTAGGATTTGGAACTATTTCAACTTATGACATCC
Found at i:4525060 original size:2 final size:2
Alignment explanation
Indices: 4525053--4525086 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4525043 TATGGTCTTC
4525053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4525087 GACTTCTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4527879 original size:2 final size:2
Alignment explanation
Indices: 4527872--4527901 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4527862 GTTGGTTGGT
4527872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4527902 AATGGAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4530106 original size:30 final size:31
Alignment explanation
Indices: 4530055--4530117 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
4530045 TGTTTAATTG
* *
4530055 AAGACTCAATTAGAGTGAAAATATATTTTTA
1 AAGACTCAATTAGAGTGAAAATAGATGTTTA
* *
4530086 AAGATTCAATTATA-TGAAAATAGATGTTTA
1 AAGACTCAATTAGAGTGAAAATAGATGTTTA
4530116 AA
1 AA
4530118 TGTTTAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.35
Consensus pattern (31 bp):
AAGACTCAATTAGAGTGAAAATAGATGTTTA
Found at i:4530781 original size:33 final size:33
Alignment explanation
Indices: 4530601--4530781 Score: 119
Period size: 33 Copynumber: 5.7 Consensus size: 33
4530591 TAGATATCAG
* **
4530601 TTTAATCTAAATCATTTTTTTTTTTGCCTTTGA
1 TTTAATCTAAATCATTTTATTTTTTAACTTTGA
* *
4530634 TTTAATCTAAATCATTTTATTTCTCAA-TTTCGA
1 TTTAATCTAAATCATTTTATTTTTTAACTTT-GA
* * * *
4530667 TTCAATC-AAATTCATTTTATTTTCTAACTTCGG
1 TTTAATCTAAA-TCATTTTATTTTTTAACTTTGA
* * **
4530700 TTTAATTTAAGTCATTTTATTTTTCGACTTT-A
1 TTTAATCTAAATCATTTTATTTTTTAACTTTGA
* **
4530732 GTTCAA-CCCAA--A---TATTTTTTAACTTTGA
1 -TTTAATCTAAATCATTTTATTTTTTAACTTTGA
*
4530760 TTTAATCAAAATCATTTTATTT
1 TTTAATCTAAATCATTTTATTT
4530782 GAACTTCAAG
Statistics
Matches: 107, Mismatches: 29, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
27 16 0.15
28 4 0.04
30 2 0.02
32 7 0.07
33 74 0.69
34 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (33 bp):
TTTAATCTAAATCATTTTATTTTTTAACTTTGA
Found at i:4534961 original size:16 final size:19
Alignment explanation
Indices: 4534941--4534980 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
4534931 TTAAATTAAA
4534941 GTATTAA-ATAATA-ATTT
1 GTATTAATATAATATATTT
4534958 -TATTAATATAATATATTT
1 GTATTAATATAATATATTT
4534976 GTATT
1 GTATT
4534981 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 4 0.20
19 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
GTATTAATATAATATATTT
Found at i:4535992 original size:18 final size:18
Alignment explanation
Indices: 4535966--4536003 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
4535956 TAGAGTATTA
4535966 AATTTAAATTTAA-GTTT
1 AATTTAAATTTAAGGTTT
4535983 AATTTAAAATTTAAGGTTT
1 AATTT-AAATTTAAGGTTT
4536002 AA
1 AA
4536004 AATTTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 8 0.42
19 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
AATTTAAATTTAAGGTTT
Found at i:4536212 original size:18 final size:17
Alignment explanation
Indices: 4536189--4536245 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
4536179 AATTAACATA
4536189 ATAAAAATATATTTAAAT
1 ATAAAAAT-TATTTAAAT
*
4536207 ATAAAAATTTAATTAAACT
1 ATAAAAA-TTATTTAAA-T
*
4536226 A-ATAAATTATTTAAAT
1 ATAAAAATTATTTAAAT
4536242 -TAAA
1 ATAAA
4536246 TATAAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.09
17 8 0.25
18 18 0.56
19 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAAAATTATTTAAAT
Found at i:4536221 original size:38 final size:40
Alignment explanation
Indices: 4536177--4536254 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
4536167 AAATATTTTA
*
4536177 TTAATT-AACATAATAAA-AATAT-ATTTAAATATAAAAAT
1 TTAATTAAAC-TAATAAATAATATAAATTAAATATAAAAAT
* *
4536215 TTAATTAAACTAATAAATTATTTAAATTAAATATAAAAAT
1 TTAATTAAACTAATAAATAATATAAATTAAATATAAAAAT
4536255 ATTTAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 13 0.38
39 6 0.18
40 15 0.44
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (40 bp):
TTAATTAAACTAATAAATAATATAAATTAAATATAAAAAT
Found at i:4536247 original size:18 final size:18
Alignment explanation
Indices: 4536193--4536247 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
4536183 AACATAATAA
4536193 AAATATATTTAAATATAAA-
1 AAAT-TATTTAAAT-TAAAT
* * *
4536212 AATTTAATTAAACT-AAT
1 AAATTATTTAAATTAAAT
4536229 AAATTATTTAAATTAAAT
1 AAATTATTTAAATTAAAT
4536247 A
1 A
4536248 TAAAAATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
16 2 0.07
17 12 0.43
18 11 0.39
19 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTATTTAAATTAAAT
Found at i:4536257 original size:21 final size:21
Alignment explanation
Indices: 4536201--4536263 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
4536191 AAAAATATAT
4536201 TTAAATAT-AAAA-ATTT-AA
1 TTAAATATAAAAATATTTAAA
*
4536219 TTAAACTA-ATAAATTATTTAAA
1 TTAAA-TATA-AAAATATTTAAA
4536241 TTAAATATAAAAATATTTAAA
1 TTAAATATAAAAATATTTAAA
4536262 TT
1 TT
4536264 TGATTTAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.14
19 2 0.05
20 3 0.08
21 19 0.51
22 8 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAATATAAAAATATTTAAA
Found at i:4538832 original size:2 final size:2
Alignment explanation
Indices: 4538825--4538852 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4538815 AGCCAAATTA
4538825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4538853 CAGAATGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4541621 original size:57 final size:57
Alignment explanation
Indices: 4541547--4541664 Score: 209
Period size: 57 Copynumber: 2.1 Consensus size: 57
4541537 GTAATTATAT
*
4541547 TATGAAAATGAAATTTCTCAACTCAAAACTAGGGCCTGAAAAGTTTTTACACACACC
1 TATGAAAATGAAATTTCTCAACTCAAAACTAGGGCCTGAAAAGTTTGTACACACACC
* *
4541604 TATGAAAATGAATTTTCTCAACTCAAAACTAGGGCCTGAAAAGTTTGTACACATACC
1 TATGAAAATGAAATTTCTCAACTCAAAACTAGGGCCTGAAAAGTTTGTACACACACC
4541661 TATG
1 TATG
4541665 TGTTAAATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (57 bp):
TATGAAAATGAAATTTCTCAACTCAAAACTAGGGCCTGAAAAGTTTGTACACACACC
Found at i:4543355 original size:26 final size:25
Alignment explanation
Indices: 4543312--4543361 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4543302 ATTAATTTTG
*
4543312 TTATATAATTTTGATATTACTAATA
1 TTATATAATTATGATATTACTAATA
* *
4543337 TTATATTAATTATGTTATTATTAAT
1 TTATA-TAATTATGATATTACTAAT
4543362 TGTATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATATAATTATGATATTACTAATA
Found at i:4549853 original size:16 final size:17
Alignment explanation
Indices: 4549832--4549864 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4549822 CAAAATATGA
4549832 TTTTA-TTAATAAAATT
1 TTTTATTTAATAAAATT
*
4549848 TTTTATTTAATATAATT
1 TTTTATTTAATAAAATT
4549865 CAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTTAATAAAATT
Found at i:4556575 original size:14 final size:16
Alignment explanation
Indices: 4556534--4556576 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
4556524 AAACAAAGCT
4556534 TAAAATATGAAAATAAA
1 TAAAA-ATGAAAATAAA
4556551 TAAAAAT-AAAA-AAA
1 TAAAAATGAAAATAAA
4556565 T-AAAATGAAAAT
1 TAAAAATGAAAAT
4556577 GGAAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 4 0.17
16 2 0.08
17 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
TAAAAATGAAAATAAA
Found at i:4557445 original size:3 final size:3
Alignment explanation
Indices: 4557433--4557499 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
4557423 AAAAAACATA
* * *
4557433 AAT AAG AAT AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4557481 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
4557500 TCAATATACT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4559045 original size:57 final size:58
Alignment explanation
Indices: 4558971--4559094 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 58
4558961 CAACTTGAAC
*
4558971 TTTTTTTTTTGGTTCAAG-C-CACCTCTTCGGGTTTTCAACTTGA-A-TTTTTTCTTTTT
1 TTTTTTTTTTGGTTCAAGTCGC-CCT-TTCGGGTTTTCAACATGACACTTTTTTCTTTTT
*
4559027 TTTTTCTTTTTGGTTCAAGTCGCCCTTTTGGGTTTTCAACATGAGCACTTTTTTCTTTTT
1 TTTTT-TTTTTGGTTCAAGTCGCCCTTTCGGGTTTTCAACATGA-CACTTTTTTCTTTTT
4559087 TTTTTTTT
1 TTTTTTTT
4559095 AATTTTTTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 9
0.85 0.03 0.13
Matches are distributed among these distances:
56 5 0.08
57 29 0.48
58 4 0.07
59 5 0.08
60 17 0.28
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.59
Consensus pattern (58 bp):
TTTTTTTTTTGGTTCAAGTCGCCCTTTCGGGTTTTCAACATGACACTTTTTTCTTTTT
Found at i:4566175 original size:41 final size:41
Alignment explanation
Indices: 4566100--4566184 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
4566090 TATACAATAA
**
4566100 AAAAATAAATAATTAAGCAAGCATAAGTAATGAAAAAAAAT
1 AAAAATAAATAATTAAGCAAGCATAAACAATGAAAAAAAAT
* ** *
4566141 AAAAATAAATAATTAAGCAAGTATAAACGGTGAAAAGAAAT
1 AAAAATAAATAATTAAGCAAGCATAAACAATGAAAAAAAAT
4566182 AAA
1 AAA
4566185 TAGGAAAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (41 bp):
AAAAATAAATAATTAAGCAAGCATAAACAATGAAAAAAAAT
Found at i:4567068 original size:5 final size:5
Alignment explanation
Indices: 4567058--4567139 Score: 55
Period size: 5 Copynumber: 16.0 Consensus size: 5
4567048 AATAAATTAG
* *
4567058 TAAAA TAAAA TATAA T-AAA -AAAA TGAAAA TAAAA TAAAGCT TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAA--A TAAAA
*
4567104 TATAAA AATAAA TAAAA -ATAAA -AAAA TAAAA TAAAA
1 TA-AAA TA-AAA TAAAA TA-AAA TAAAA TAAAA TAAAA
4567140 ATGGAAAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
4 9 0.14
5 36 0.57
6 14 0.22
7 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:4567080 original size:13 final size:14
Alignment explanation
Indices: 4567071--4567140 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 14
4567061 AATAAAATAT
4567071 AATAAAAAAATGAA
1 AATAAAAAAATGAA
*
4567085 AATAAAATAAAGCTTAAA
1 AATAAAA-AAA---TGAA
*
4567103 ATATAAAAATAAATAAA
1 A-AT-AAAA-AAATGAA
4567120 AATAAAAAAAT-AA
1 AATAAAAAAATGAA
4567133 AATAAAAA
1 AATAAAAA
4567141 TGGAAAAGAG
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
13 10 0.20
14 11 0.22
15 7 0.14
16 2 0.04
17 5 0.10
18 4 0.08
19 2 0.04
20 8 0.16
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (14 bp):
AATAAAAAAATGAA
Found at i:4567086 original size:24 final size:22
Alignment explanation
Indices: 4567043--4567139 Score: 86
Period size: 23 Copynumber: 4.1 Consensus size: 22
4567033 TAAATAAGGT
** *
4567043 AAATAAATAAATTAGTAAAATA
1 AAATAAATAAAAAAATAAAATA
4567065 AAATATAATAAAAAAATGAAAATA
1 AAATA-AATAAAAAAAT-AAAATA
* *
4567089 AAATAAAGCTTAAAATATAAAAATA
1 AAATAAA--TAAAAAAAT-AAAATA
*
4567114 AATAAAAATAAAAAAATAAAATA
1 AA-ATAAATAAAAAAATAAAATA
4567137 AAA
1 AAA
4567140 ATGGAAAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
22 6 0.10
23 18 0.30
24 18 0.30
25 15 0.25
26 4 0.07
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (22 bp):
AAATAAATAAAAAAATAAAATA
Found at i:4567088 original size:19 final size:18
Alignment explanation
Indices: 4567059--4567140 Score: 65
Period size: 19 Copynumber: 4.1 Consensus size: 18
4567049 ATAAATTAGT
*
4567059 AAAATAAAATATAATAAA
1 AAAATAAAATAAAATAAA
4567077 AAAATGAAAATAAAATAAA
1 AAAAT-AAAATAAAATAAA
*
4567096 GCTTAAAATATAAAAATAAATAAA
1 ----AAAATA-AAATA-AAATAAA
*
4567120 AATAAAAAAATAAAATAAA
1 AA-AATAAAATAAAATAAA
4567139 AA
1 AA
4567141 TGGAAAAGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
18 5 0.10
19 21 0.40
20 6 0.12
21 3 0.06
22 1 0.02
23 9 0.17
24 7 0.13
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:4567147 original size:19 final size:18
Alignment explanation
Indices: 4567060--4567141 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
4567050 TAAATTAGTA
*
4567060 AAATAAAATATAATAAAA-
1 AAATAAAA-ATAAAAAAAT
* *
4567078 AAATGAAAATAAAATAA-
1 AAATAAAAATAAAAAAAT
** * *
4567095 AGCTTAAAATATAAAAAT
1 AAATAAAAATAAAAAAAT
4567113 AAATAAAAATAAAAAAAT
1 AAATAAAAATAAAAAAAT
4567131 AAAATAAAAAT
1 -AAATAAAAAT
4567142 GGAAAAGAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
17 19 0.38
18 21 0.42
19 10 0.20
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAAAATAAAAAAAT
Found at i:4568039 original size:19 final size:19
Alignment explanation
Indices: 4568010--4568053 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4568000 AACATAAATA
* *
4568010 ATAAT-AATATACTATGGT
1 ATAATAAATATACAATGCT
*
4568028 ATAATAAATATAGAATGCT
1 ATAATAAATATACAATGCT
4568047 ATAATAA
1 ATAATAA
4568054 CATACAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (19 bp):
ATAATAAATATACAATGCT
Found at i:4581401 original size:21 final size:22
Alignment explanation
Indices: 4581358--4581401 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4581348 CCAACACAAT
*
4581358 ACACAGATAGAACCATAGAATC
1 ACACACATAGAACCATAGAATC
*
4581380 ACACACATAGAA-CATTGAATC
1 ACACACATAGAACCATAGAATC
4581401 A
1 A
4581402 GAATCACACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.50, C:0.23, G:0.11, T:0.16
Consensus pattern (22 bp):
ACACACATAGAACCATAGAATC
Found at i:4582393 original size:30 final size:30
Alignment explanation
Indices: 4582357--4582413 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4582347 ATTCTAGATG
4582357 TGGCTCTCACAGTGTAGCACTTAGCTTTCA
1 TGGCTCTCACAGTGTAGCACTTAGCTTTCA
* **
4582387 TGGCTCTTATGGTGTAGCACTTAGCTT
1 TGGCTCTCACAGTGTAGCACTTAGCTT
4582414 CCGTCTCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (30 bp):
TGGCTCTCACAGTGTAGCACTTAGCTTTCA
Found at i:4585063 original size:2 final size:2
Alignment explanation
Indices: 4585056--4585083 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4585046 TTGCTTTTAG
4585056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4585084 GTATGCACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4594233 original size:237 final size:237
Alignment explanation
Indices: 4593622--4595393 Score: 1589
Period size: 237 Copynumber: 7.4 Consensus size: 237
4593612 TTCTAAGAGC
* * * *
4593622 AAATTATT-AAGGACATTTTTTAAGAAAAAATGCCTTGAATAAATTCTTTTTAAAAATTGTTTGG
1 AAATTATTGAAGG-CATTTCTTGAGAAAAAA-GCCTTCAATAAATTCTTTTTAAAAATTGTTTGA
* * *
4593686 GATTAATAAA-GGTGTATTCTAGTAGAAAACACCTTCAATATTT-CGTTACTAAATAGCAAGACG
64 GATTAATAAAGGGTGTCTTCTAGTAGAAAATACCTTCAATATTTAC--TACTAAATTGCAAGACG
* *** ** *
4593749 GTTATTGAAGATGTTTATTCTA-AAAAACACCTTCACTAATTTGTTCTAATTTTTGAAAAAATTT
127 GTTAATGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAAAATTT
* * * *
4593813 ATTAAAGGTATTTTTTGCATTATACACCTTCATTAATTTTTGTATA
192 ATTGAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* * * * *
4593859 GAATTATTGAAGGCATTTTTTTAAGAAAAAAAAAACACATTCAATAAATTCTTTTTAAAAATTAT
1 AAATTATTGAAGGCA-TTTCTT--G-AGAAAAAAGC-C-TTCAATAAATTCTTTTTAAAAATTGT
* * * * *
4593924 TTGAGATTACTAAA-GGCGTCTTCTACTAGAAAACACCTTCAATATTGCACTACTAAATTGCAAG
60 TTGAGATTAATAAAGGGTGTCTTCTAGTAGAAAATACCTTCAATATT-TACTACTAAATTGCAAG
* * * **
4593988 AAGGTTAATGAAGGCATTTATTTTAGAAAAATACCTTCACTAATTCGTTCTAATTTTTGAAGGAA
124 ACGGTTAATGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAAAA
* * * *
4594053 TTTATTGAAGGTATGTTTTGTATTACACACCTTCAATAATTTTTGTACA
189 TTTATTGAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* *
4594102 AAATTATTGAAGGCATTTCTTGAGAAAAAAACCTTTAATAAATTCTTTTTAAAAATTGTTTGAGA
1 AAATTATTGAAGGCATTTCTTGAGAAAAAAGCCTTCAATAAATTCTTTTTAAAAATTGTTTGAGA
* * *
4594167 TTATTAAA-GATGTCTTCTAGTAGAAAATACCTTCAATATTATACTACTAAATTGCAAGATGGTT
66 TTAATAAAGGGTGTCTTCTAGTAGAAAATACCTTCAATATT-TACTACTAAATTGCAAGACGGTT
* * * * * *
4594231 AATGAATGTGC--TTATTCCAGAAAAACGCTTTTACTAATTCATTCTAATTTTTGAAAGAATTTA
130 AATGAA-G-GCATTTATTCTAGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAAAATTTA
* * * * *
4594294 TTAAAAGTGTTTTTTGCATTATATGCCTTCAATAATTTTTGTATA
193 TTGAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* ** ** * ** *
4594339 GAATTATTGAAGGTGTTTCTTGAGAGAAAACTCCTTGAAT-AATT-TTTAAAAAAAAATTATTT-
1 AAATTATTGAAGGCATTTCTTGAGA-AAAAAGCCTTCAATAAATTCTTT--TTAAAAATTGTTTG
* * * *
4594401 AGGATTAATAAA-GGTATTTTCTAGTAAAAAATACCTTCAATATTTTGCT-CATAAATTGCAAGA
63 A-GATTAATAAAGGGTGTCTTCTAGTAGAAAATACCTTCAATA-TTTACTAC-TAAATTGCAAGA
** *
4594464 CGGTTAATGAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTTGTTCTAATTTTTGAAAAAAT
125 CGGTTAATGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAAAAT
* * * * *
4594529 TTATTGAAGGCATTTTTTACATTATATGCCTTCAACAATTTTTGTATA
190 TTATTGAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* * * * * * *
4594577 GAATTATTGAAAGCGTTTCTTGAGAGAAAATGCCTTGAATAAATTTTTTTTGAAAATAT-TTTGA
1 AAATTATTGAAGGCATTTCTTGAGA-AAAAAGCCTTCAATAAATTCTTTTTAAAAAT-TGTTTGA
* * * *
4594641 GATTAATAAAGGCAT-T-TT-TAGTAGAAAATGCCTTCAATATTTCGCTACTAAATTGTAAGACG
64 GATTAATAAAGG-GTGTCTTCTAGTAGAAAATACCTTCAATATTT-ACTACTAAATTGCAAGACG
* * * *
4594703 GTTAGTGAAGGCATTTATT-TCAGAAAAATGCCTTTACTAATTCATTCTAATTTTTGAAGAAATT
127 GTTAATGAAGGCATTTATTCT-AGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAAAATT
* * *
4594767 TATTAAAGGTATTTTTTGCATTATACGCCTACAATAATTTTTATACA
191 TATTGAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
* * * *
4594814 AAATTATTGAAGGCATTTCTTGAGAGAAAACGCCTTCAAT-AATTTTTTTTAAAAATTTTTTTGG
1 AAATTATTGAAGGCATTTCTTGAGA-AAAAAGCCTTCAATAAATTCTTTTTAAAAA-TTGTTTGA
* ** * * * * ** * *
4594878 GTTTGTTAAAGGCT-TCTTCTAGTAAAAAATGCCTTTAATATTTCACTACTAAAATTTTAATATG
64 GATTAATAAAGGGTGTCTTCTAGTAGAAAATACCTTCAATATTT-ACTACT-AAATTGCAAGACG
* * * * * * * **
4594942 GTTATTAAAGGCGTTTATTCTACATAAATGCCTTCACTAATCCATAT-TAATTTTTG-AAGGA--
127 GTTAATGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCGT-TCTAATTTTTGAAAAAATT
* * * *
4595003 -ATTGAAGATGTTTCTTGC-TGAATACGCCTTCAATAATTTTTG--CA
191 TATTGAAGGTATTTTTTGCAT-TATACGCCTTCAATAATTTTTGTACA
* * *
4595047 AGTAATTATTGAAAGCTTTTCTTGAGAAAAAATGCCTTCAATAATTTCTTTTTAAAAATTGTTT-
1 A--AATTATTGAAGGCATTTCTTGAGAAAAAA-GCCTTCAATAAATTCTTTTTAAAAATTGTTTG
* * ** *
4595111 AGGATTAATAAA-TGTATCTTCTAGTAGAAAACGCTTTCAATATTCT-CTTACTAAAATTGCAAG
63 A-GATTAATAAAGGGTGTCTTCTAGTAGAAAATACCTTCAATATT-TAC-TACT-AAATTGCAAG
** * * * *
4595174 ATAGTTAGTGAATGCATTTATTATAGAAAAATGCATTCACTAATTCGTTCTAATTTTTGAAAAAA
124 ACGGTTAATGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAAAA
* * * * *
4595239 TTTATTGAATGCATTTTTTG--TTGAATATGCCTTTAATTATTTTTGTACA
189 TTTATTGAAGGTATTTTTTGCATT--ATACGCCTTCAATAATTTTTGTACA
* * * * * *
4595288 AAATTATTGAAGGCATTTTTTTAGAACAAATGCCTTCAATAATTTCCTTTTAAAAATTGTTTGGG
1 AAATTATTGAAGGCATTTCTTGAGAA-AAAAGCCTTCAATAAATTCTTTTTAAAAATTGTTTGAG
* * *
4595353 ATTATTAAA-TGTGTCTTCCAGT-GAAAAATACCTTCAATATT
65 ATTAATAAAGGGTGTCTTCTAGTAG-AAAATACCTTCAATATT
4595394 CATTTTAATT
Statistics
Matches: 1275, Mismatches: 203, Indels: 112
0.80 0.13 0.07
Matches are distributed among these distances:
233 3 0.00
234 8 0.01
235 158 0.12
236 42 0.03
237 390 0.31
238 266 0.21
239 191 0.15
240 11 0.01
241 11 0.01
242 102 0.08
243 92 0.07
244 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (237 bp):
AAATTATTGAAGGCATTTCTTGAGAAAAAAGCCTTCAATAAATTCTTTTTAAAAATTGTTTGAGA
TTAATAAAGGGTGTCTTCTAGTAGAAAATACCTTCAATATTTACTACTAAATTGCAAGACGGTTA
ATGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAAAATTTATTG
AAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACA
Found at i:4594532 original size:475 final size:470
Alignment explanation
Indices: 4593622--4595393 Score: 1664
Period size: 475 Copynumber: 3.7 Consensus size: 470
4593612 TTCTAAGAGC
* * * *
4593622 AAATTATT-AAGGACATTTTTTAAGAAAAAATGCCTTGAATAAATTCTTTTTAAAAATTGTTTGG
1 AAATTATTGAAAG-CATTTCTTGAGAAAAAATGCCTTGAATAAATTCTTTTTAAAAATTGTTTGA
* *
4593686 GATTAATAAAGG-TGTATTCTAGTAGAAAACACCTTCAATATTTCGTTACTAAATAGCAAGACGG
65 GATTAATAAAGGATGTCTTCTAGTAGAAAACACCTTCAATATTTC-TTACTAAATTGCAAGACGG
* * * * **
4593750 TTATTGAAGATGTTTATTCTA-AAAAACACCTTCACTAATTTGTTCTAATTTTTGAAAAAATTTA
129 TTAGTGAAG-TGCTTATTCCAGAAAAACGCCTTCACTAATTCATTCTAATTTTTGAAAAAATTTA
* * * * *
4593814 TTAAAGGTATTTTTTGCATTATACACCTTCATTAATTTTTGTATAGAATTATTGAAGGCATTTTT
193 TTAAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGG--TTTTC
* * * * * *
4593879 TTAAGAAAAAAAAAACACATTCAATAAATTCTTTTTAAAAATTATTTGAGATTACTAAAGGCGTC
256 TT--G--AGAGAAAACACCTTCAAT-AATT-TTTTAAAAAATTATTTG-GATTAATAAAGG-TTC
* * * * *
4593944 TTCTACTAGAAAACACCTTCAATA--TTGCACTACTAAATTGCAAGAAGGTTAATGAAGGCATTT
313 TTCTAGTAAAAAATACCTTCAATATTTTGCTC-ACTAAATTGCAAGAAGGTTAATGAAGGCGTTT
* * *
4594007 ATTTTAGAAAAATACCTTCACTAATTCGTTCTAATTTTTGAAGGAATTTATTGAAGGTATGTTTT
377 ATTCTAGAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGG-ATGTTTT
* *
4594072 GTATTACACACCTTCAATAATTTTTGTACA
441 GTATTATACGCCTTCAATAATTTTTGTACA
* * *
4594102 AAATTATTGAAGGCATTTCTTGAGAAAAAA-ACCTTTAATAAATTCTTTTTAAAAATTGTTTGAG
1 AAATTATTGAAAGCATTTCTTGAGAAAAAATGCCTTGAATAAATTCTTTTTAAAAATTGTTTGAG
* * *
4594166 ATTATTAAA-GATGTCTTCTAGTAGAAAATACCTTCAATATTATAC-TACTAAATTGCAAGATGG
66 ATTAATAAAGGATGTCTTCTAGTAGAAAACACCTTCAATATT-T-CTTACTAAATTGCAAGACGG
* * * *
4594229 TTAATGAATGTGCTTATTCCAGAAAAACGCTTTTACTAATTCATTCTAATTTTTGAAAGAATTTA
129 TTAGTGAA-GTGCTTATTCCAGAAAAACGCCTTCACTAATTCATTCTAATTTTTGAAAAAATTTA
* * * * *
4594294 TTAAAAGTGTTTTTTGCATTATATGCCTTCAATAATTTTTGTATAGAATTATTGAAGGTGTTTCT
193 TTAAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGGT-TTTCT
* * * *
4594359 TGAGAGAAAACTCCTTGAATAATTTTTAAAAAAAAATTATTTAGGATTAATAAAGGTATTTTCTA
257 TGAGAGAAAACACCTTCAATAATTTTT--TAAAAAATTATTT-GGATTAATAAAGGT-TCTTCTA
* *
4594424 GTAAAAAATACCTTCAATATTTTGCTCA-TAAATTGCAAGACGGTTAATGAAGGTGTTTATTCTA
318 GTAAAAAATACCTTCAATATTTTGCTCACTAAATTGCAAGAAGGTTAATGAAGGCGTTTATTCTA
* * * **
4594488 GAAAAATGCCTTCACTAATTTGTTCTAATTTTTGAAAAAATTTATTGAAGGCATTTTTTACATTA
383 GAAAAATGCCTTCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGG-ATGTTTTGTATTA
* * *
4594553 TATGCCTTCAACAATTTTTGTATA
447 TACGCCTTCAATAATTTTTGTACA
* * * * *
4594577 GAATTATTGAAAGCGTTTCTTGAGAGAAAATGCCTTGAATAAATTTTTTTTGAAAATAT-TTTGA
1 AAATTATTGAAAGCATTTCTTGAGAAAAAATGCCTTGAATAAATTCTTTTTAAAAAT-TGTTTGA
** * *
4594641 GATTAATAAAGGCAT-T-TT-TAGTAGAAAATGCCTTCAATATTTCGCTACTAAATTGTAAGACG
65 GATTAATAAAGG-ATGTCTTCTAGTAGAAAACACCTTCAATATTTC-TTACTAAATTGCAAGACG
* * * *
4594703 GTTAGTGAAG-GCATTTATTTCAGAAAAATGCCTTTACTAATTCATTCTAATTTTTGAAGAAATT
128 GTTAGTGAAGTGC--TTATTCCAGAAAAACGCCTTCACTAATTCATTCTAATTTTTGAAAAAATT
* * *
4594767 TATTAAAGGTATTTTTTGCATTATACGCCTACAATAATTTTTATACAAAATTATTGAAGGCATTT
191 TATTAAAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGG-TTTT
* * * * **
4594832 CTTGAGAGAAAACGCCTTCAATAATTTTTTTTAAAAATTTTTTTGGGTTTGTTAAAGGCTTCTTC
255 CTTGAGAGAAAACACCTTCAATAA--TTTTTTAAAAAATTATTT-GGATTAATAAAGG-TTCTTC
* * ** ** * * * *
4594897 TAGTAAAAAATGCCTTTAATATTTCACT-ACTAAAATTTTAATATGGTTATTAAAGGCGTTTATT
316 TAGTAAAAAATACCTTCAATATTTTGCTCACT-AAATTGCAAGAAGGTTAATGAAGGCGTTTATT
* * * * *
4594961 CTACATAAATGCCTTCACTAATCCATAT-TAATTTTTG-AAGGA---ATTGAA-GATGTTTCTTG
380 CTAGAAAAATGCCTTCACTAATTCGT-TCTAATTTTTGAAAGAATTTATTGAAGGATG-TT-TTG
4595020 CTGA--ATACGCCTTCAATAATTTTTG--CA
442 -T-ATTATACGCCTTCAATAATTTTTGTACA
* * *
4595047 AGTAATTATTGAAAGCTTTTCTTGAGAAAAAATGCCTTCAATAATTTCTTTTTAAAAATTGTTT-
1 A--AATTATTGAAAGCATTTCTTGAGAAAAAATGCCTTGAATAAATTCTTTTTAAAAATTGTTTG
* * * *
4595111 AGGATTAATAAATG-TATCTTCTAGTAGAAAACGCTTTCAATATTCTCTTACTAAAATTGCAAGA
64 A-GATTAATAAAGGATGTCTTCTAGTAGAAAACACCTTCAATATT-TCTTACT-AAATTGCAAGA
** ** * * *
4595175 TAGTTAGTGAA-TGCATTTATTATAGAAAAATGCATTCACTAATTCGTTCTAATTTTTGAAAAAA
126 CGGTTAGTGAAGTGC--TTATTCCAGAAAAACGCCTTCACTAATTCATTCTAATTTTTGAAAAAA
* * * * * *
4595239 TTTATTGAATGCATTTTTTG--TTGAATATGCCTTTAATTATTTTTGTACAAAATTATTGAAGGC
189 TTTATTAAAGGTATTTTTTGCATT--ATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGG-
* ** * * * *
4595302 ATTTT-TTTAGA-ACAAATGCCTTCAATAATTTCCTTTTAAAAATTGTTTGGGATTATTAAATGT
251 -TTTTCTTGAGAGA-AAACACCTTCAATAATTT--TTTAAAAAATTATTT-GGATTAATAAAGGT
* *
4595365 GTCTTCCAGTGAAAAATACCTTCAATATT
311 -TCTTCTAGTAAAAAATACCTTCAATATT
4595394 CATTTTAATT
Statistics
Matches: 1085, Mismatches: 158, Indels: 104
0.81 0.12 0.08
Matches are distributed among these distances:
470 4 0.00
471 6 0.01
472 98 0.09
473 33 0.03
474 191 0.18
475 414 0.38
476 96 0.09
477 15 0.01
478 4 0.00
479 104 0.10
480 115 0.11
481 5 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (470 bp):
AAATTATTGAAAGCATTTCTTGAGAAAAAATGCCTTGAATAAATTCTTTTTAAAAATTGTTTGAG
ATTAATAAAGGATGTCTTCTAGTAGAAAACACCTTCAATATTTCTTACTAAATTGCAAGACGGTT
AGTGAAGTGCTTATTCCAGAAAAACGCCTTCACTAATTCATTCTAATTTTTGAAAAAATTTATTA
AAGGTATTTTTTGCATTATACGCCTTCAATAATTTTTGTACAAAATTATTGAAGGTTTTCTTGAG
AGAAAACACCTTCAATAATTTTTTAAAAAATTATTTGGATTAATAAAGGTTCTTCTAGTAAAAAA
TACCTTCAATATTTTGCTCACTAAATTGCAAGAAGGTTAATGAAGGCGTTTATTCTAGAAAAATG
CCTTCACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGGATGTTTTGTATTATACGCCTTC
AATAATTTTTGTACA
Found at i:4595321 original size:52 final size:51
Alignment explanation
Indices: 4595224--4595332 Score: 123
Period size: 51 Copynumber: 2.1 Consensus size: 51
4595214 TAATTCGTTC
* * * *
4595224 TAATTTTTGAAAAAATTTATTGAATGCATTTTTTGTTGAATATGCCTTTAA
1 TAATTTTTGAAAAAATTTATTGAAGGCATTTTTTGTAGAAAATGCCTTCAA
* *
4595275 TTATTTTTGTACAAAA-TTATTGAAGGCATTTTTT-TAGAACAAATGCCTTCAA
1 TAATTTTTG-AAAAAATTTATTGAAGGCATTTTTTGTAG-A-AAATGCCTTCAA
4595327 TAATTT
1 TAATTT
4595333 CCTTTTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
50 2 0.04
51 26 0.54
52 20 0.42
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (51 bp):
TAATTTTTGAAAAAATTTATTGAAGGCATTTTTTGTAGAAAATGCCTTCAA
Found at i:4596283 original size:28 final size:28
Alignment explanation
Indices: 4596198--4596276 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
4596188 TTATGGTTTA
*
4596198 CTGAATGATATTGTGTGATATTGTTTTG
1 CTGAATGGTATTGTGTGATATTGTTTTG
*
4596226 CTGAATGGTATTGTGTGATATTATTTTG
1 CTGAATGGTATTGTGTGATATTGTTTTG
*
4596254 CTGAATGGTATTGTATGATATTG
1 CTGAATGGTATTGTGTGATATTG
4596277 GTATGCTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.23, C:0.04, G:0.25, T:0.48
Consensus pattern (28 bp):
CTGAATGGTATTGTGTGATATTGTTTTG
Found at i:4599991 original size:179 final size:176
Alignment explanation
Indices: 4599580--4600167 Score: 621
Period size: 179 Copynumber: 3.3 Consensus size: 176
4599570 AAAAAAAAGT
* * * * * *
4599580 TTTTTTTTGATGGGATTACTGAAGGCATTTCTAGCAAGAAAACGCCTTGAATAATCCCTAAGAAC
1 TTTTTTTT-AT-GGATTATTAAAGGCATTTTTAGCAAGAAAATGCCTTGAATAATCCCTAAAAAA
* * * * * * **
4599645 ATGTTATTAAAAGCGTTTTAAACCAAAATCGTCTTTAATAATCCAAAGT-AAAATTTATTG-ATT
64 ATGTTATTGAAGGCTTTTTAAA-CAAAA-CTTCTTCAATAATCCTACCTAAAAATTTATTGTA-T
* * *
4599708 GGATTATTAAAGGCACTTTTGGCCAAAAATACCTTTAAGAATCCATTCCATA
126 GGAATATTAAAGGCA-TTTTGGCCAAAAATGCCTTCAAGAATCCATTCCATA
* * * * *
4599760 -TTTTCTTATGGATTATTAAGGGCATTTTTAGCCAGAAAATGCCTTTAATAATCCCTAACAAAAT
1 TTTTTTTTATGGATTATTAAAGGCATTTTTAGCAAGAAAATGCCTTGAATAATCCCTAAAAAAAT
* * *
4599824 GTTATTGAAGGCATTTTTGATCAAAACTATCTTCAATAATCCTACTTAAAAATTTATTGTATGGA
66 GTTATTGAAGGC-TTTTTAAACAAAACT-TCTTCAATAATCCTACCTAAAAATTTATTGTATGGA
* ** *
4599889 ATATTAAAGGCATTTTAGGTCAAAAGCGCCTTCAAGAATTCATTCCATA
129 ATATTAAAGGCATTTT-GGCCAAAAATGCCTTCAAGAATCCATTCCATA
** *
4599938 TTTTTTTTATGGATTATTAAAGGTTTTTTTAGCAAGAAAATACCTTGAATAATCCCTAAAAAAAT
1 TTTTTTTTATGGATTATTAAAGGCATTTTTAGCAAGAAAATGCCTTGAATAATCCCTAAAAAAAT
* * * * *
4600003 ATTATTGAAGG-TGTTTTCAACAAAAACTGCGTTCAATAATCTTACCTAAAAATTTATTGTGTGG
66 GTTATTGAAGGCT-TTTTAAAC-AAAACTTC-TTCAATAATCCTACCTAAAAATTTATTGTATGG
* * *
4600067 AATATTAAAGGCGTTTTGGGCCAAAAATGCTTTCAAGGATCCATT-CA-A
128 AATATTAAAGGCATTTT-GGCCAAAAATGCCTTCAAGAATCCATTCCATA
* * *
4600115 CTTTTTTGTATGGATTATTGAAGGCGTTTTTAGCAAGAAAATGCCTTGAATAA
1 -TTTTTTTTATGGATTATTAAAGGCATTTTTAGCAAGAAAATGCCTTGAATAA
4600168 GAAAACACCT
Statistics
Matches: 343, Mismatches: 55, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
176 1 0.00
177 81 0.24
178 115 0.34
179 146 0.43
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (176 bp):
TTTTTTTTATGGATTATTAAAGGCATTTTTAGCAAGAAAATGCCTTGAATAATCCCTAAAAAAAT
GTTATTGAAGGCTTTTTAAACAAAACTTCTTCAATAATCCTACCTAAAAATTTATTGTATGGAAT
ATTAAAGGCATTTTGGCCAAAAATGCCTTCAAGAATCCATTCCATA
Found at i:4600310 original size:194 final size:195
Alignment explanation
Indices: 4599971--4600339 Score: 526
Period size: 194 Copynumber: 1.9 Consensus size: 195
4599961 TTTTTTTAGC
* * *
4599971 AAGAAAATACCTTGAATAATCCCTAAAAAAATATTATTGAAGGTGTTTTCAACAAAAACTGCGTT
1 AAGAAAACACCTTGAATAATCCCTAAAAAAATATTATTGAAGGTGTTTTCAACAAAAACTACCTT
** * * * **
4600036 CAATAATCTTACCTAAAAATTTATTGTGTGGAATATTAAAGGCGTTTTGGGCCAAAAATGCTTTC
66 CAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTTGAGCCAAAAACACTTTC
** * *
4600101 AAGGATCCATTCAACTTTTTTGTATGGATTATTGAAGGCGTTTTTAGCAAGAAAATGCCTTGAAT
131 AAAAATCCATTCAACTTTTTTGTATGGATTAATAAAGGCGTTTTTAGCAAGAAAATGCCTTGAAT
* * *
4600166 AAGAAAACACCTTGAATAATCCCTAACAAAATGTTATTGAAGGTG-TTTCGATC-AAAACTACCT
1 AAGAAAACACCTTGAATAATCCCTAAAAAAATATTATTGAAGGTGTTTTC-AACAAAAACTACCT
4600229 TCAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTTGAGCCAAAAACACTTT
65 TCAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTTGAGCCAAAAACACTTT
* ** *
4600294 TAAAAATCTGTTCAACTTTTTTGTATGGATTAATAAAGGTGTTTTT
130 CAAAAATCCATTCAACTTTTTTGTATGGATTAATAAAGGCGTTTTT
4600340 GACAAAAATC
Statistics
Matches: 152, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
194 108 0.71
195 44 0.29
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (195 bp):
AAGAAAACACCTTGAATAATCCCTAAAAAAATATTATTGAAGGTGTTTTCAACAAAAACTACCTT
CAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTTGAGCCAAAAACACTTTC
AAAAATCCATTCAACTTTTTTGTATGGATTAATAAAGGCGTTTTTAGCAAGAAAATGCCTTGAAT
Found at i:4600440 original size:125 final size:127
Alignment explanation
Indices: 4600226--4600499 Score: 285
Period size: 125 Copynumber: 2.2 Consensus size: 127
4600216 ATCAAAACTA
*
4600226 CCTTCAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTTGAGCCAAAAACAC
1 CCTTCAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTCGAGCCAAAAACAC
* * * * *
4600291 TTTTAAAAATCTGTTCAAC-TTTTTTGTATGGATTAATAAAGGTGTTTTT-GACAA-AAATCG
66 CTTCAAAAATCCGTTCAACTTTTTTTCTATGGATTAATAAAGGTATTTTTAG-CAAGAAATCG
* * * *
4600351 CCTTTAATAA-CCCAAACTAAAAATTTATTGATTTG-ATTATTGAAGGCGATTTCGA-CCAAAAA
1 CCTTCAATAATCCC-AACTAAAAATTTATTG-TGTGAAATATTAAAGGCG-TTTCGAGCCAAAAA
* * * * **
4600413 TACCTTCAAGAATCCGTTCCA-TGTTTTTTCTATGGATTACTATGGGTATTTTTAGCAAGAAATC
63 CACCTTCAAAAATCCGTTCAACT-TTTTTTCTATGGATTAATAAAGGTATTTTTAGCAAGAAATC
4600477 G
127 G
*
4600478 CCTTGAATAATCCCTAAC-AAAA
1 CCTTCAATAATCCC-AACTAAAA
4600500 TGTTATTAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
124 3 0.02
125 58 0.47
126 36 0.29
127 20 0.16
128 6 0.05
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (127 bp):
CCTTCAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTCGAGCCAAAAACAC
CTTCAAAAATCCGTTCAACTTTTTTTCTATGGATTAATAAAGGTATTTTTAGCAAGAAATCG
Found at i:4600724 original size:125 final size:125
Alignment explanation
Indices: 4600514--4600761 Score: 315
Period size: 125 Copynumber: 2.0 Consensus size: 125
4600504 ATTAAAGGCA
* * * * **
4600514 TTTTTGACCAAAATCGCCTTCAATAATCCTACCTAAAAATTTATTGCGTGGAATATTAAAGGCAT
1 TTTTTGACAAAAATCGCCTTCAATAACCCAAACTAAAAATTTATTAAGTGGAATATTAAAGGCAT
4600579 TTTAGGCCAAAAACGCCTTCAAGAATCC-ATTCA-ACTTTTT-TGTATGGATTATTGAAGGTG
66 TTTAGGCCAAAAACGCCTTCAAGAATCCGATTCATA-TTTTTCT-TATGGATTATT-AAGGTG
* * * * *
4600639 TTTTTGACAAAAATCGCCTTTAATAACCCAAACTAAAAATTTATTAATTGGATTATTGAAGGTGA
1 TTTTTGACAAAAATCGCCTTCAATAACCCAAACTAAAAATTTATTAAGTGGAATATTAAAGG-CA
* *
4600704 -TTTCGGCCAAAAACGCCTTCAAGAATCCGTTTCATATTTTTCTTATGGATTATTAAGG
65 TTTTAGGCCAAAAACGCCTTCAAGAATCCGATTCATATTTTTCTTATGGATTATTAAGG
4600762 GCATTTTTAG
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
125 83 0.78
126 21 0.20
127 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (125 bp):
TTTTTGACAAAAATCGCCTTCAATAACCCAAACTAAAAATTTATTAAGTGGAATATTAAAGGCAT
TTTAGGCCAAAAACGCCTTCAAGAATCCGATTCATATTTTTCTTATGGATTATTAAGGTG
Found at i:4600753 original size:304 final size:303
Alignment explanation
Indices: 4600166--4601066 Score: 1188
Period size: 304 Copynumber: 3.0 Consensus size: 303
4600156 TGCCTTGAAT
* * * * *
4600166 AAGAAAACACCTTGAATAATCCCTAACAAAATGTTATTGAAGG-TGTTTCGATCAAAA-CTACCT
1 AAGAAATCGCCTTGAATAATCCCTAACAAAATGTTATTAAAGGCT-TTTTGACCAAAATC-ACCT
* *
4600229 TCAATAATCCCAACTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTT-GAGCCAAAAACACTT
64 TCAATAATCCCAACTAAAAATTTATTGTGTGGAATATTAAAGGCGTTTTAG-GCCAAAAACACCT
* * *
4600293 TTAAAAATCTGTTCAACTTTTTTGTATGGATTAATAAAGGTGTTTTTGACAAAAATCGCCTTTAA
128 TCAAAAATCCGTTCAACTTTTTTGTATGGATTATTAAAGGTGTTTTTGACAAAAATCGCCTTTAA
* * * **
4600358 TAACCCAAACTAAAAATTTATTGATTTGATTATTGAAGGCGATTTCGACCAAAAATACCTTCAAG
193 TAACCCAAACTAAAAATTTATTGATTGGATTATTGAAGGAGATTTCGGCCAAAAACGCCTTCAAG
* * *
4600423 AATCCGTTCCATGTTTTTTCTATGGATTACTATGGGTATTTTTAGC
258 AATCCGTTCCATATTTTTTCTATGGATTACTAAGGGCATTTTTAGC
*
4600469 AAGAAATCGCCTTGAATAATCCCTAACAAAATGTTATTAAAGGCATTTTTGACCAAAATCGCCTT
1 AAGAAATCGCCTTGAATAATCCCTAACAAAATGTTATTAAAGGC-TTTTTGACCAAAATCACCTT
* * * * *
4600534 CAATAATCCTACCTAAAAATTTATTGCGTGGAATATTAAAGGCATTTTAGGCCAAAAACGCCTTC
65 CAATAATCCCAACTAAAAATTTATTGTGTGGAATATTAAAGGCGTTTTAGGCCAAAAACACCTTC
* * *
4600599 AAGAATCCATTCAACTTTTTTGTATGGATTATTGAAGGTGTTTTTGACAAAAATCGCCTTTAATA
130 AAAAATCCGTTCAACTTTTTTGTATGGATTATTAAAGGTGTTTTTGACAAAAATCGCCTTTAATA
* *
4600664 ACCCAAACTAAAAATTTATTAATTGGATTATTGAAGGTGATTTCGGCCAAAAACGCCTTCAAGAA
195 ACCCAAACTAAAAATTTATTGATTGGATTATTGAAGGAGATTTCGGCCAAAAACGCCTTCAAGAA
* *
4600729 TCCGTTTCATA-TTTTTCTTATGGATTATTAAGGGCATTTTTAGC
260 TCCGTTCCATATTTTTTC-TATGGATTACTAAGGGCATTTTTAGC
*
4600773 AAGAAAAT-GCCTTGAATAATCCTTAACAAAATGTTATTAAAGGCGTTTTTGACCAAAATCACCT
1 AAG-AAATCGCCTTGAATAATCCCTAACAAAATGTTATTAAAGGC-TTTTTGACCAAAATCACCT
** * *
4600837 TCAATAATCCCATTTAGAAATTTATTGTGTGGAATATTAAAGGCGTTTTAGGCCAAAAACAACTT
64 TCAATAATCCCAACTAAAAATTTATTGTGTGGAATATTAAAGGCGTTTTAGGCCAAAAACACCTT
* * * * *
4600902 CAACAATTCGTTAAAACTTTTTTGTATGGATTATTAAAGGTATTTTTGACAAAAATCGCCTTAAA
129 CAAAAATCCGTT-CAACTTTTTTGTATGGATTATTAAAGGTGTTTTTGACAAAAATCGCCTTTAA
* * * *
4600967 TAAGCCC-AATTAAAAAATTTATTGATTGGATTATTGTA-GAGATTTCGGCTAAAAACG-CTTTA
193 TAA-CCCAAACT-AAAAATTTATTGATTGGATTATTGAAGGAGATTTCGGCCAAAAACGCCTTCA
* ** ** * *
4601029 AAAATCTATTCCATATTTTGCCTATGAATTATTAAGGG
256 AGAATCCGTTCCATATTTTTTCTATGGATTACTAAGGG
4601067 TGTTTTTTTG
Statistics
Matches: 527, Mismatches: 61, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
303 46 0.09
304 372 0.71
305 82 0.16
306 27 0.05
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (303 bp):
AAGAAATCGCCTTGAATAATCCCTAACAAAATGTTATTAAAGGCTTTTTGACCAAAATCACCTTC
AATAATCCCAACTAAAAATTTATTGTGTGGAATATTAAAGGCGTTTTAGGCCAAAAACACCTTCA
AAAATCCGTTCAACTTTTTTGTATGGATTATTAAAGGTGTTTTTGACAAAAATCGCCTTTAATAA
CCCAAACTAAAAATTTATTGATTGGATTATTGAAGGAGATTTCGGCCAAAAACGCCTTCAAGAAT
CCGTTCCATATTTTTTCTATGGATTACTAAGGGCATTTTTAGC
Found at i:4602515 original size:11 final size:11
Alignment explanation
Indices: 4602490--4602528 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4602480 TATTTAGTAT
4602490 ATTATT-ATTA
1 ATTATTAATTA
4602500 ATTATTAATTA
1 ATTATTAATTA
* *
4602511 TTTATTAATAA
1 ATTATTAATTA
4602522 ATTATTA
1 ATTATTA
4602529 TTTGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTAATTA
Found at i:4602955 original size:25 final size:24
Alignment explanation
Indices: 4602922--4602969 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4602912 TCAAATTTAT
*
4602922 CTTCCCTTTTTCCCTGCAACTATCC
1 CTTCCCTTTCTCCCTGCAA-TATCC
* *
4602947 CTTCTCTTTCTCCTTGCAATATC
1 CTTCCCTTTCTCCCTGCAATATC
4602970 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.12, C:0.40, G:0.04, T:0.44
Consensus pattern (24 bp):
CTTCCCTTTCTCCCTGCAATATCC
Found at i:4604546 original size:12 final size:12
Alignment explanation
Indices: 4604495--4604550 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
4604485 TATAATTATT
4604495 TATTTAATTTTA
1 TATTTAATTTTA
* *
4604507 TAATTATTTTTA
1 TATTTAATTTTA
*
4604519 TATATT-TTTATATA
1 TAT-TTAATT-T-TA
4604533 TATTTAATTTTA
1 TATTTAATTTTA
4604545 TATTTA
1 TATTTA
4604551 TATTAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 23 0.64
13 6 0.17
14 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTAATTTTA
Found at i:4609405 original size:20 final size:20
Alignment explanation
Indices: 4609368--4609406 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4609358 CACATCCAAA
*
4609368 AGTTCAAAATTTTTCATTCT
1 AGTTCAAAATTTTACATTCT
4609388 AGTTCGAAAA-TTTACATTC
1 AGTTC-AAAATTTTACATTC
4609407 GATGAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
AGTTCAAAATTTTACATTCT
Found at i:4609514 original size:21 final size:21
Alignment explanation
Indices: 4609451--4609933 Score: 218
Period size: 21 Copynumber: 21.1 Consensus size: 21
4609441 CATTTGAAAC
*
4609451 TTAAAACTCAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCAT
* *
4609472 TTGAAAATGTCTTAAAGATTCTCAT
1 TT---AA-GACTCAAAGATTCTCAT
*
4609497 TTAAGACTCAAAGGTTCTCAT
1 TTAAGACTCAAAGATTCTCAT
* * *
4609518 TTGAAAATGTCTTAAAAATTCTCAT
1 TT---AA-GACTCAAAGATTCTCAT
*
4609543 TTAAAACTC--AGATTCTCAT
1 TTAAGACTCAAAGATTCTCAT
*
4609562 TTGAAAACATCTTAAAGATTCTCAT
1 TT-AAGAC-TC--AAAGATTCTCAT
* *
4609587 TTAAGACTCAAAGGTTTTCAT
1 TTAAGACTCAAAGATTCTCAT
* *
4609608 TTGAAAATGTCTTAAAGATTCTCA-
1 TT---AA-GACTCAAAGATTCTCAT
*
4609632 TTAAGATTCAAAGATTCTCATTT
1 TTAAGACTCAAAGATTCTCA--T
*
4609655 GAAAATTAAAACTCAAAGATTCTCAT
1 -----TTAAGACTCAAAGATTCTCAT
*
4609681 TTAAGACTTAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCAT
* *
4609702 TTGAAAATGTCTTAAAGATTCTCAT
1 TT---AA-GACTCAAAGATTCTCAT
*
4609727 TTAAGACTCAAAGATTCACAAT
1 TTAAGACTCAAAGATTCTC-AT
* *
4609749 TTGAAAACATTTTAAA-ATTTCTCAT
1 TT-AAGAC---TCAAAGA-TTCTCAT
* * * *
4609774 TTAAAACTTAAAGATTTTTAT
1 TTAAGACTCAAAGATTCTCAT
*
4609795 TTGAAAACGTCCTAAAGATTCTCAT
1 TT-AAGAC-T-C-AAAGATTCTCAT
*
4609820 TTAAGACTCAAAGCTTCTCAT
1 TTAAGACTCAAAGATTCTCAT
* * *
4609841 TTGAAAACATTTTAAAGATTCTTAT
1 TT-AAGAC---TCAAAGATTCTCAT
* *
4609866 TTAAGACTCAAGGATTCTTAT
1 TTAAGACTCAAAGATTCTCAT
* *
4609887 TTGAAAATGCTTAAAGATTCTCAT
1 TT-AAGA--CTCAAAGATTCTCAT
* *
4609911 TTAAGACTCAAAAATTTTCAT
1 TTAAGACTCAAAGATTCTCAT
4609932 TT
1 TT
4609934 GAAATGTCTT
Statistics
Matches: 357, Mismatches: 57, Indels: 96
0.70 0.11 0.19
Matches are distributed among these distances:
19 11 0.03
20 18 0.05
21 122 0.34
22 24 0.07
23 11 0.03
24 41 0.11
25 103 0.29
26 9 0.03
28 18 0.05
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (21 bp):
TTAAGACTCAAAGATTCTCAT
Found at i:4609523 original size:46 final size:46
Alignment explanation
Indices: 4609451--4609959 Score: 627
Period size: 46 Copynumber: 11.1 Consensus size: 46
4609441 CATTTGAAAC
*
4609451 TTAAAACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* *
4609497 TTAAGACTCAAAGGTTCTCATTTGAAAATGTCTTAAAAATTCTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* **
4609543 TTAAAACTC--AGATTCTCATTTGAAAACATCTTAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* *
4609587 TTAAGACTCAAAGGTTTTCATTTGAAAATGTCTTAAAGATTCTCA-
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* *
4609632 TTAAGATTCAAAGATTCTCATTTGAAAAT-TAAAACTCAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGT----CTTAAAGATTCTCAT
*
4609681 TTAAGACTTAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* ** *
4609727 TTAAGACTCAAAGATTCACAATTTGAAAACATTTTAAA-ATTTCTCAT
1 TTAAGACTCAAAGATTCTC-ATTTGAAAATGTCTTAAAGA-TTCTCAT
* * * * * *
4609774 TTAAAACTTAAAGATTTTTATTTGAAAACGTCCTAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* ** * *
4609820 TTAAGACTCAAAGCTTCTCATTTGAAAACATTTTAAAGATTCTTAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* *
4609866 TTAAGACTCAAGGATTCTTATTTGAAAATG-CTTAAAGATTCTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
* * * *
4609911 TTAAGACTCAAAAATTTTCATTTG-AAATGTCTTAAGGATTTTCAT
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
4609956 TTAA
1 TTAA
4609960 AAAATTAGGA
Statistics
Matches: 396, Mismatches: 55, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
44 45 0.11
45 76 0.19
46 197 0.50
47 37 0.09
48 13 0.03
49 27 0.07
50 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (46 bp):
TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCAT
Found at i:4609724 original size:230 final size:230
Alignment explanation
Indices: 4609451--4609959 Score: 695
Period size: 230 Copynumber: 2.2 Consensus size: 230
4609441 CATTTGAAAC
* * *
4609451 TTAAAACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGGTTCTC
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCAC
** * *
4609516 -ATTTGAAAATGTCTTAAAAATTCTCATTTAAAAC-T-CAGATTCTCATTTGAAAACATCTTAAA
66 AATTTGAAAACATCTTAAAAATTCTCATTTAAAACTTAAAGATTCTCATTTGAAAACATCCTAAA
* * ** *
4609578 GATTCTCATTTAAGACTCAAAGGTTTTCATTTGAAAATGTCTTAAAGATTCTCA-TTAAGATTCA
131 GATTCTCATTTAAGACTCAAAGCTTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCA
4609642 AAGATTCTCATTTGAAAATTAAAACTCAAAGATTCTCAT
196 AAGATTCTCATTTGAAAA-T---ACTCAAAGATTCTCAT
*
4609681 TTAAGACTTAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCAC
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCAC
* * * * *
4609746 AATTTGAAAACATTTTAAAATTTCTCATTTAAAACTTAAAGATTTTTATTTGAAAACGTCCTAAA
66 AATTTGAAAACATCTTAAAAATTCTCATTTAAAACTTAAAGATTCTCATTTGAAAACATCCTAAA
* *
4609811 GATTCTCATTTAAGACTCAAAGCTTCTCATTTGAAAACATTTTAAAGATTCTTATTTAAGACTCA
131 GATTCTCATTTAAGACTCAAAGCTTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCA
* * * *
4609876 AGGATTCTTATTTGAAAATGCTTAAAGATTCTCAT
196 AAGATTCTCATTTGAAAATACTCAAAGATTCTCAT
* * * *
4609911 TTAAGACTCAAAAATTTTCATTTG-AAATGTCTTAAGGATTTTCATTTAA
1 TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAA
4609960 AAAATTAGGA
Statistics
Matches: 246, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
229 23 0.09
230 96 0.39
231 30 0.12
232 1 0.00
233 71 0.29
234 25 0.10
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (230 bp):
TTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCAC
AATTTGAAAACATCTTAAAAATTCTCATTTAAAACTTAAAGATTCTCATTTGAAAACATCCTAAA
GATTCTCATTTAAGACTCAAAGCTTCTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTCA
AAGATTCTCATTTGAAAATACTCAAAGATTCTCAT
Found at i:4610292 original size:23 final size:23
Alignment explanation
Indices: 4610266--4610310 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4610256 CATCTCACAT
4610266 TTCATAAGTTTT-ATCAATTGATA
1 TTCATAA-TTTTCATCAATTGATA
* *
4610289 TTCATTATTTTCATCACTTGAT
1 TTCATAATTTTCATCAATTGAT
4610311 CACCATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (23 bp):
TTCATAATTTTCATCAATTGATA
Found at i:4611179 original size:15 final size:15
Alignment explanation
Indices: 4611149--4611191 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4611139 TCAATTTGAG
4611149 TTTTCT-TTTTTCTCA
1 TTTTCTCTTTTT-TCA
4611164 -TTTCATCTTTTTTCA
1 TTTTC-TCTTTTTTCA
4611179 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
4611192 TTGTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.16
15 12 0.48
16 9 0.36
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCTCTTTTTTCA
Found at i:4611198 original size:11 final size:10
Alignment explanation
Indices: 4611179--4611238 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 10
4611169 TCTTTTTTCA
*
4611179 TTTTCTCTTT
1 TTTTTTCTTT
4611189 TTTTTGTCTTT
1 TTTTT-TCTTT
4611200 TTCTTTTCTTGT
1 TT-TTTTCTT-T
*
4611212 TTTTTTCATT
1 TTTTTTCTTT
*
4611222 TTTTCTCTTT
1 TTTTTTCTTT
4611232 TTCTTTT
1 TT-TTTT
4611239 TTTGCATCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 15 0.37
11 20 0.49
12 6 0.15
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:4611278 original size:45 final size:44
Alignment explanation
Indices: 4611202--4611315 Score: 115
Period size: 45 Copynumber: 2.5 Consensus size: 44
4611192 TTGTCTTTTT
* * *
4611202 CTTTTCTTGTTTTTTTCATTTTTTCTCTTTTTC-TTTTTTTGCATC
1 CTTTTCTTTTTTTTTTCA-TCTTTCTCTTTTTCATCTTTTT-CATC
* *
4611247 CATTTTTCTTTTTTTTTTC-TCTTTCTTTTTTTCATCTTTTTCATT
1 C--TTTTCTTTTTTTTTTCATCTTTCTCTTTTTCATCTTTTTCATC
* *
4611292 CTTTTCTTTTTTTTCTCATATTTC
1 CTTTTCTTTTTTTTTTCATCTTTC
4611316 ATCCATTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
43 15 0.26
44 5 0.09
45 17 0.29
46 6 0.10
47 15 0.26
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (44 bp):
CTTTTCTTTTTTTTTTCATCTTTCTCTTTTTCATCTTTTTCATC
Found at i:4611284 original size:15 final size:13
Alignment explanation
Indices: 4611249--4611305 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 13
4611239 TTTGCATCCA
4611249 TTTT-TCTTTTTT
1 TTTTCTCTTTTTT
4611261 TTTTCTCTTTCTTT
1 TTTTCTCTTT-TTT
4611275 TTTTCATCTTTTTCAT
1 TTTTC-TCTTTTT--T
4611291 TCTTT-TCTTTTTT
1 T-TTTCTCTTTTTT
4611304 TT
1 TT
4611306 CTCATATTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.13
13 7 0.18
14 10 0.26
15 12 0.31
16 2 0.05
17 3 0.08
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTCTTTTTT
Found at i:4611304 original size:17 final size:17
Alignment explanation
Indices: 4611149--4611286 Score: 53
Period size: 16 Copynumber: 8.2 Consensus size: 17
4611139 TCAATTTGAG
4611149 TTTTCTTTTTTCTCATT-
1 TTTTCTTTTTT-TCATTC
**
4611166 TCATC-TTTTTTCATT-
1 TTTTCTTTTTTTCATTC
*
4611181 TTCTCTTTTTTT--TGTC
1 TTTTCTTTTTTTCAT-TC
* * *
4611197 TTTTTCTTTTCTT-GTTT
1 -TTTTCTTTTTTTCATTC
*
4611214 TTTTCATTTTTTC--TC
1 TTTTCTTTTTTTCATTC
*
4611229 TTTTTCTTTTTTTGCATCC
1 -TTTTCTTTTTTT-CATTC
*
4611248 ATTTTTCTTTTTTT-TTTC
1 --TTTTCTTTTTTTCATTC
4611266 TCTTTCTTTTTTTCA-TC
1 T-TTTCTTTTTTTCATTC
4611283 TTTT
1 TTTT
4611287 TCATTCTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 27
0.69 0.11 0.20
Matches are distributed among these distances:
14 1 0.01
15 10 0.11
16 36 0.39
17 29 0.31
18 3 0.03
19 1 0.01
20 13 0.14
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTCTTTTTTTCATTC
Found at i:4611315 original size:27 final size:27
Alignment explanation
Indices: 4611263--4611317 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
4611253 TCTTTTTTTT
*
4611263 TTCTCTTTCTTTTTTTCATCTTTTTCA
1 TTCTCTTTCTTTTTTTCATCTATTTCA
4611290 TTCT-TTTCTTTTTTTTC-TCATATTTCA
1 TTCTCTTTC-TTTTTTTCATC-TATTTCA
4611317 T
1 T
4611318 CCATTGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (27 bp):
TTCTCTTTCTTTTTTTCATCTATTTCA
Found at i:4611319 original size:72 final size:71
Alignment explanation
Indices: 4611179--4611322 Score: 168
Period size: 70 Copynumber: 2.0 Consensus size: 71
4611169 TCTTTTTTCA
* * * * *
4611179 TTTTCTCTTTTTTTTGTCTTTTTCTTTTCTTGTTTTTTTCATTTTTTCTCTTTTTCTTTTTTTGC
1 TTTTCTCTTTTTTTTGTCTCTTTCTTTTCTTATCTTTTTCATTTTTTCTCTTTTTCTATATTTGC
4611244 ATCCAT
66 ATCCAT
* *
4611250 TTTTCT-TTTTTTTT-TCTCTTTCTTTTTTTCATCTTTTTCATTCTTTTCTTTTTTTTCTCATAT
1 TTTTCTCTTTTTTTTGTCTCTTTCTTTTCTT-ATCTTTTTCATT-TTTTC-TCTTTTTCT-ATAT
4611313 TT-CATCCAT
62 TTGCATCCAT
4611322 T
1 T
4611323 GTTGATATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
69 13 0.21
70 18 0.29
71 11 0.18
72 16 0.26
73 4 0.06
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (71 bp):
TTTTCTCTTTTTTTTGTCTCTTTCTTTTCTTATCTTTTTCATTTTTTCTCTTTTTCTATATTTGC
ATCCAT
Found at i:4614962 original size:12 final size:12
Alignment explanation
Indices: 4614947--4615002 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
4614937 ATTTTTAATA
4614947 TAAATATAAAAT
1 TAAATATAAAAT
4614959 TAAATATATATAA-
1 TAAATATA-A-AAT
* *
4614972 AAATATATAAAAA
1 TAA-ATATAAAAT
*
4614985 TAATTATAAAAT
1 TAAATATAAAAT
4614997 TAAATA
1 TAAATA
4615003 AATAATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
12 22 0.63
13 6 0.17
14 7 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:4614977 original size:10 final size:10
Alignment explanation
Indices: 4614959--4615014 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
4614949 AATATAAAAT
*
4614959 TAAATATATA
1 TAAAAATATA
4614969 TAAAAATATA
1 TAAAAATATA
4614979 TAAAAATAATTA
1 TAAAAAT-A-TA
* *
4614991 TAAAATTAAA
1 TAAAAATATA
4615001 TAAATAAT-TA
1 TAAA-AATATA
4615011 TAAA
1 TAAA
4615015 TTTTATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 26 0.68
11 4 0.11
12 8 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAATATA
Found at i:4616501 original size:25 final size:24
Alignment explanation
Indices: 4616469--4616516 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4616459 AAAAAAAAAA
*
4616469 GATATTGCAAGGAGAAAGAGAAGG
1 GATATTGCAAGGAAAAAGAGAAGG
* *
4616493 GATAGTTGCAGGGAAAAAGGGAAG
1 GATA-TTGCAAGGAAAAAGAGAAG
4616517 ATAAATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.44, C:0.04, G:0.40, T:0.12
Consensus pattern (24 bp):
GATATTGCAAGGAAAAAGAGAAGG
Found at i:4616757 original size:21 final size:21
Alignment explanation
Indices: 4616711--4616759 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4616701 TTAAAATAAT
*
4616711 AATAAAAATAAAATTAATTAC
1 AATAATAATAAAATTAATTAC
* *
4616732 TATAATAATTAAATTAAATT-C
1 AATAATAATAAAATT-AATTAC
4616753 AATAATA
1 AATAATA
4616760 GGGATATGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAATAATAAAATTAATTAC
Found at i:4616930 original size:11 final size:11
Alignment explanation
Indices: 4616914--4616952 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4616904 TAATTTCAAA
4616914 TAATAATTTAT
1 TAATAATTTAT
*
4616925 TAATAATTAAT
1 TAATAATTTAT
*
4616936 TAATAA-TTAA
1 TAATAATTTAT
4616946 TAATAAT
1 TAATAAT
4616953 ATACTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATAATTTAT
Found at i:4618828 original size:64 final size:63
Alignment explanation
Indices: 4618728--4618958 Score: 186
Period size: 64 Copynumber: 3.7 Consensus size: 63
4618718 AAATATGAAA
* * ** *
4618728 CGGATTCTTGAAGGCG-TTTTTGGCCGAAATCACCTTCAATAATCCAATCAATAAATTTTTAGTT
1 CGGATTATTGAAGGCGATTTTTGTCAAAAAT-GCCTTCAATAATCCAATCAATAAATTTTTAG-T
* * ** * *
4618792 CGGGTTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAATAATCC-ATACAA-AAAAGTTGA-A
1 CGGATTATTGAAGGCGATTTTTGTCAAAAATGCCTTCAATAATCCAAT-CAATAAATTTTTAGT
* * * * * *
4618853 CGGATTCTTGAAGGCG-TTTTTGGCCCAAAATGTCTTTAATATTCCACA-CAATAAATTTTTAAG
1 CGGATTATTGAAGGCGATTTTT-GTCAAAAATGCCTTCAATAATCCA-ATCAATAAATTTTT-AG
4618916 T
63 T
* * *
4618917 AGGATTATTGAAGGCGATTTTGGTAAAAAATGCCTTCAATAA
1 CGGATTATTGAAGGCGATTTTTGTCAAAAATGCCTTCAATAA
4618959 CATTTTGTTA
Statistics
Matches: 126, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
60 5 0.04
61 34 0.27
62 5 0.04
63 10 0.08
64 57 0.45
65 15 0.12
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (63 bp):
CGGATTATTGAAGGCGATTTTTGTCAAAAATGCCTTCAATAATCCAATCAATAAATTTTTAGT
Found at i:4618905 original size:125 final size:126
Alignment explanation
Indices: 4618664--4618958 Score: 336
Period size: 125 Copynumber: 2.3 Consensus size: 126
4618654 CATTTTGTTA
* * *
4618664 AGGATTTATTCAAGGCGTTTTCTTG-CTAAAAATGCCCTT-AATAATTCATAAGAAAAATATGAA
1 AGGA-TTATTAAAGGCGATTT-TTGTC-AAAAATG-CCTTCAATAATCCATAAGAAAAATATGAA
*
4618727 ACGGATTCTTGAAGGCGTTTTTGGCCGAAATCACCTTCAATAATCCAATCAATAAATTTTT-AGT
62 ACGGATTCTTGAAGGCGTTTTTGGCCAAAATCACCTTCAATAATCCAATCAATAAATTTTTAAG-
4618791 T
126 T
* *
4618792 CGGGTTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAATAATCCATACA-AAAAAGT-TG-AAC
1 AGGATTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAATAATCCATA-AGAAAAA-TATGAAAC
** * *
4618854 GGATTCTTGAAGGCGTTTTTGGCCCAAAAT-GTCTTTAATATTCCACA-CAATAAATTTTTAAGT
64 GGATTCTTGAAGGCGTTTTTGG-CCAAAATCACCTTCAATAATCCA-ATCAATAAATTTTTAAGT
* * *
4618917 AGGATTATTGAAGGCGATTTTGGTAAAAAATGCCTTCAATAA
1 AGGATTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAATAA
4618959 CATTTTGTTA
Statistics
Matches: 145, Mismatches: 15, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
125 90 0.62
126 36 0.25
127 17 0.12
128 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (126 bp):
AGGATTATTAAAGGCGATTTTTGTCAAAAATGCCTTCAATAATCCATAAGAAAAATATGAAACGG
ATTCTTGAAGGCGTTTTTGGCCAAAATCACCTTCAATAATCCAATCAATAAATTTTTAAGT
Found at i:4618924 original size:305 final size:302
Alignment explanation
Indices: 4618386--4619295 Score: 1189
Period size: 305 Copynumber: 3.0 Consensus size: 302
4618376 TTTTCGATAG
* * * * * * *
4618386 AAAAACACCCTTAATAATTCATAGGCAAAATATGAAACAGATT-TTTAAGACGTTTTTAGCCGAA
1 AAAAATACCCTTAATAATTCATAAGAAAAATATGAAACGGATTCTTGAAGGCGTTTTTGGCCGAA
* * * * * *
4618450 AGCTCTACAATAATCCAATCAATAAATTTTTTAATTGAGCTTATTTAAGGCGATTTTTGTCAAAA
66 ATCCCTTCAATAATCCAATCAATAAA-TTTTTAGTTG-GGTTATTAAAGGCGATTTTTGTCAAAA
* * * * * * *
4618515 ATATCTTTAATAATCCATACAAAAAAGTTTTAAAGAATTGTTGAAGTTGTTTTTGGCCTAAAACG
129 ATACCTTTAATAATCCATACAAAAAAG-TTGAACGGATTCTTGAAGGTGTTTTTGGCCCAAAACG
* *
4618580 CCTTTAATATTCCACACAATAAATTTCTAAATGGGATTATTGAAGGTGGTTTTGGTCAAAAACGC
193 CCTTTAATATTCCACACAATAAATTTTTAAGTGGGATTATTGAAGGTGGTTTTGGTCAAAAACGC
* *
4618645 CTTTAATAACATTTTGTTAAGGATTTATTCAAGGCGTTTTCTTGCT
258 CTTCAATAACATTTTGTTAGGGA-TTATTCAAGGCGTTTTCTTGCT
*
4618691 AAAAATGCCCTTAATAATTCATAAGAAAAATATGAAACGGATTCTTGAAGGCGTTTTTGGCCGAA
1 AAAAATACCCTTAATAATTCATAAGAAAAATATGAAACGGATTCTTGAAGGCGTTTTTGGCCGAA
4618756 ATCACCTTCAATAATCCAATCAATAAATTTTTAGTTCGGGTTATTAAAGGCGATTTTTGTCAAAA
66 ATC-CCTTCAATAATCCAATCAATAAATTTTTAGTT-GGGTTATTAAAGGCGATTTTTGTCAAAA
* * * * *
4618821 ATGCCTTCAATAATCCATACAAAAAAGTTGAACGGATTCTTGAAGGCGTTTTTGGCCCAAAATGT
129 ATACCTTTAATAATCCATACAAAAAAGTTGAACGGATTCTTGAAGGTGTTTTTGGCCCAAAACGC
* * * * *
4618886 CTTTAATATTCCACACAATAAATTTTTAAGTAGGATTATTGAAGGCGATTTTGGTAAAAAATGCC
194 CTTTAATATTCCACACAATAAATTTTTAAGTGGGATTATTGAAGGTGGTTTTGGTCAAAAACGCC
*
4618951 TTCAATAACATTTTGTTAGGGATTATTCAAGGCGATTTCTTGCT
259 TTCAATAACATTTTGTTAGGGATTATTCAAGGCGTTTTCTTGCT
* * * ** *
4618995 AAAAATACCCATAGTAATCCATATA-AAAAATATGAAACGGATTCTTGAAGGTATTTTTGGTCGA
1 AAAAATACCCTTAATAATTCATA-AGAAAAATATGAAACGGATTCTTGAAGGCGTTTTTGGCCGA
* *
4619059 AATCGCCTTCAATAATCAAATCAATAAATTTTTAGTTTTAGGTTATTAAAGGCGATTTTTGTCAA
65 AATC-CCTTCAATAATCCAATCAATAAATTTTTAG--TTGGGTTATTAAAGGCGATTTTTGTCAA
* * * * * * *
4619124 AAACACCTTTACTAATCCATACAAAAAAGTTGAACAGATTTTTAAAAGTGTTTTTGGCTCAAAAC
127 AAATACCTTTAATAATCCATACAAAAAAGTTGAACGGATTCTTGAAGGTGTTTTTGGCCCAAAAC
* * * *
4619189 GCCTTTAATATTTCACACAATAAATTTTT-AGTTGGGATTATTGAAGGTAGTTTTGATCGAAAAC
192 GCCTTTAATATTCCACACAATAAATTTTTAAG-TGGGATTATTGAAGGTGGTTTTGGTCAAAAAC
*
4619253 ACCTTCAATAACATTTTGTTAGGGATTA-TCAAGGCGTTTTCTT
256 GCCTTCAATAACATTTTGTTAGGGATTATTCAAGGCGTTTTCTT
4619296 ATTCAAGGCA
Statistics
Matches: 529, Mismatches: 69, Indels: 15
0.86 0.11 0.02
Matches are distributed among these distances:
304 125 0.24
305 303 0.57
306 79 0.15
307 22 0.04
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (302 bp):
AAAAATACCCTTAATAATTCATAAGAAAAATATGAAACGGATTCTTGAAGGCGTTTTTGGCCGAA
ATCCCTTCAATAATCCAATCAATAAATTTTTAGTTGGGTTATTAAAGGCGATTTTTGTCAAAAAT
ACCTTTAATAATCCATACAAAAAAGTTGAACGGATTCTTGAAGGTGTTTTTGGCCCAAAACGCCT
TTAATATTCCACACAATAAATTTTTAAGTGGGATTATTGAAGGTGGTTTTGGTCAAAAACGCCTT
CAATAACATTTTGTTAGGGATTATTCAAGGCGTTTTCTTGCT
Found at i:4619383 original size:194 final size:188
Alignment explanation
Indices: 4619101--4619668 Score: 542
Period size: 194 Copynumber: 3.0 Consensus size: 188
4619091 TAGTTTTAGG
* * **
4619101 TTATTAAAGGCGATTTTTGT-C-AAAAACACCTTTACTAATCCATACAAAAAAGTTGAACAGATT
1 TTATT-AAGGC-ATTTTTTTGCTAAAAAC-CC-TTAATAATCCATACAAAAAAGTTGAATGGATT
* * * * * *
4619164 TTTAAAAGTGTTTTTGGCTCAAAACGCCTTTAATATTTCACACAATAAATTTTTAGTTGGGATTA
62 CTTAAAGGCGTTTTTGGCCCAAAACGCCTTTAATATTCCACACAATAAATTTTTAG-TAGGATTA
4619229 TTGAAGGTAGTTTTGATCGAAAACACCTTCAATAACATTTTGTTAGGGATTATCAAGGCGTTTTC
126 TTGAAGGTAGTTTTGATCGAAAACACCTTCAATAACATTTTGTTAGGGATTAT-AAGGC-TTTTC
*
4619294 TTATTCAAGGCATTTTTTTGCTAAAAACGCCTTCAATAATCCATACAAAAAAGTTGAATGGATCC
1 TTATT-AAGGCATTTTTTTGCTAAAAAC-CCTT-AATAATCCATACAAAAAAGTTGAATGGATTC
* * *
4619359 TTGAAGGCATTTTTGGCCCAAAACGCCTTTAATATTCCACACAATAAATTTTTAGGTAAGATTAT
63 TTAAAGGCGTTTTTGGCCCAAAACGCCTTTAATATTCCACACAATAAATTTTTA-GTAGGATTAT
* * * * *
4619424 TGAACGCAGTTTTTG-TTGAAAACACCTTCAATAATATTTTTTTAGGGA-T-T-A-----TTC
127 TGAAGGTAG-TTTTGATCGAAAACACCTTCAATAACATTTTGTTAGGGATTATAAGGCTTTTC
* *
4619478 --A--AA-GCATTTTCTTGCTAAAAAAACCCTTAATAATCCATAGAAAAAA-TATGGAATGGATT
1 TTATTAAGGCATTTTTTTGCT--AAAAACCCTTAATAATCCATACAAAAAAGT-T-GAATGGATT
* * ** *
4619537 CTTAAAGGCGTTTTTGACCCGAAACGCCTTTAATATTCCGTACAATAAATTTTTAAGTAGAATTA
62 CTTAAAGGCGTTTTTGGCCCAAAACGCCTTTAATATTCCACACAATAAATTTTT-AGTAGGATTA
* * ** *
4619602 TTGAAGATAATTTT-AGTCGAAAATGCCTTTAATAACATTTTGTTAGGGATTATTGAAGGCATTT
126 TTGAAGGTAGTTTTGA-TCGAAAACACCTTCAATAACATTTTGTTAGGGATTA-T-AAGGC-TTT
4619666 TC
187 TC
4619668 T
1 T
4619669 GGCTAAAAAT
Statistics
Matches: 309, Mismatches: 42, Indels: 50
0.77 0.10 0.12
Matches are distributed among these distances:
177 1 0.00
178 34 0.11
179 102 0.33
180 8 0.03
182 2 0.01
184 4 0.01
190 4 0.01
192 8 0.03
193 14 0.05
194 126 0.41
195 6 0.02
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (188 bp):
TTATTAAGGCATTTTTTTGCTAAAAACCCTTAATAATCCATACAAAAAAGTTGAATGGATTCTTA
AAGGCGTTTTTGGCCCAAAACGCCTTTAATATTCCACACAATAAATTTTTAGTAGGATTATTGAA
GGTAGTTTTGATCGAAAACACCTTCAATAACATTTTGTTAGGGATTATAAGGCTTTTC
Found at i:4619604 original size:179 final size:178
Alignment explanation
Indices: 4619294--4619850 Score: 556
Period size: 179 Copynumber: 3.1 Consensus size: 178
4619284 AGGCGTTTTC
*
4619294 TTATTCAAGGCATTTTTTTGCT--AAAAACGCCTTCAATAATCCATACAAAAAAGT-T-GAATGG
1 TTATTCAAGGCATTTTCTTGCTAAAAAAAC-CCTT-AATAATCCATA-AAAAAA-TATGGAATGG
* * * *
4619355 ATCCTTGAAGGCATTTTTGGCCCAAAACGCCTTTAATATTCCACACAATAAATTTTTAGGTAAGA
62 ATTCTTAAAGGCATTTTTGACCCAAAACGCCTTTAATATTCCACACAATAAATTTTTAAGTAAGA
* * * * *
4619420 TTATTGAACG-CAGTTTTTGTTGAAAACACCTTCAATAATATTTTTTTAGGGA
127 TTATTGAA-GACAATTTTAGTCGAAAACACCTTCAATAACATTTTGTTAGGGA
*
4619472 TTATTCAAAGCATTTTCTTGCTAAAAAAACCCTTAATAATCCATAGAAAAAATATGGAATGGATT
1 TTATTCAAGGCATTTTCTTGCTAAAAAAACCCTTAATAATCCATA-AAAAAATATGGAATGGATT
* * **
4619537 CTTAAAGGCGTTTTTGACCCGAAACGCCTTTAATATTCCGTACAATAAATTTTTAAGT-AGAATT
65 CTTAAAGGCATTTTTGACCCAAAACGCCTTTAATATTCCACACAATAAATTTTTAAGTAAG-ATT
* ** *
4619601 ATTGAAGATAATTTTAGTCGAAAATGCCTTTAATAACATTTTGTTAGGGA
129 ATTGAAGACAATTTTAGTCGAAAACACCTTCAATAACATTTTGTTAGGGA
* * ** *
4619651 TTATTGAAGGCATTTTCTGGCTAAAAATGCCCTTAATAATCCATAAGAAAATATGGAATGGATTC
1 TTATTCAAGGCATTTTCTTGCTAAAAAAACCCTTAATAATCCATAAAAAAATATGGAATGGATTC
** * * * * ** **
4619716 TTAAAGTTATTTTTG-GCCAAAAGTGCCTTTAATAATCCA-ATCATTAAA-TTTTACTTTGGATT
66 TTAAAGGCATTTTTGACCCAAAA-CGCCTTTAATATTCCACA-CAATAAATTTTTAAGTAAGATT
* * * * ** * * * * *
4619778 ATTAAAGGCGATTTTGGTTTAAAACGCTTTTAATAACATGTTCTTAGGGA
129 ATTGAAGACAATTTTAGTCGAAAACACCTTCAATAACATTTTGTTAGGGA
*
4619828 TTATTCAAGGCGTTTTCTTGCTA
1 TTATTCAAGGCATTTTCTTGCTA
4619851 GAAATGCCTT
Statistics
Matches: 318, Mismatches: 52, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
177 75 0.24
178 92 0.29
179 145 0.46
180 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (178 bp):
TTATTCAAGGCATTTTCTTGCTAAAAAAACCCTTAATAATCCATAAAAAAATATGGAATGGATTC
TTAAAGGCATTTTTGACCCAAAACGCCTTTAATATTCCACACAATAAATTTTTAAGTAAGATTAT
TGAAGACAATTTTAGTCGAAAACACCTTCAATAACATTTTGTTAGGGA
Found at i:4623176 original size:37 final size:37
Alignment explanation
Indices: 4623101--4623176 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
4623091 TACTACATAC
*
4623101 AGAAACACCATTTAGCAAACTAATCAACAATGTGTTT
1 AGAAACACCATTTAGCAAACTAATCAACAATGTATTT
* * *
4623138 AGAAACACCCTTTAGCAAACTATTCAGCATATG-ATTT
1 AGAAACACCATTTAGCAAACTAATCAACA-ATGTATTT
4623175 AG
1 AG
4623177 CATACCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 31 0.91
38 3 0.09
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (37 bp):
AGAAACACCATTTAGCAAACTAATCAACAATGTATTT
Found at i:4623247 original size:28 final size:29
Alignment explanation
Indices: 4623182--4623260 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 29
4623172 TTTAGCATAC
* *
4623182 CAATATCATACAATACCATTCAGCAAAAA
1 CAATATCACACAATACCATTCAACAAAAA
*
4623211 TAATATCACACAATACCATTCAAC-AAAA
1 CAATATCACACAATACCATTCAACAAAAA
* *
4623239 CAATATCACAAAATATCATTCA
1 CAATATCACACAATACCATTCA
4623261 GTAAACCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.52, C:0.24, G:0.01, T:0.23
Consensus pattern (29 bp):
CAATATCACACAATACCATTCAACAAAAA
Found at i:4625124 original size:238 final size:237
Alignment explanation
Indices: 4624055--4625791 Score: 1699
Period size: 237 Copynumber: 7.3 Consensus size: 237
4624045 AATTAAAATG
* * * * * *
4624055 AATATTGAAGGTATTTT-TCACTGGAAGACACATTTAATAATCCCAAACAATTTTTAAAAGGAAA
1 AATATTGAAGGCATTTTCT-ACTAGAAGACACCTTTATTAATCCTAAACAATTTTTAAAA-AAAA
* * * * * *
4624119 TTATTGAAGGCA-TTTGT-TCTAAAAAAATGCCTTCAATAATTTTGTACAAAAATAATTAAAGGC
64 TTATTGAAGG-AGTTT-TCTCTCAAGAAATGCCTTCAATAATTCTATACAAAAATTATTGAAGGC
* * * * ** *
4624182 ATATTCAA--CAAAAAATGCATTCAATAAATTTTTTCAAAAATTAGAACAAATTAGTGAATGCAT
127 GTA-T-AATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGCAT
* * * *
4624245 TTTTCTATAATAAATGCCTTCACTAACTATCTTGCAATTTGAGTAG-GA
190 TTTTCTAGAATAAACGCCTTCATTAACCATCTTGCAATTT-AGTAGTGA
* * *
4624293 GAATATTGAAAGCGTTTTCTACTAGAAGATACCTTTATTAATCCTAAACAATTTTTAAAAAAAAA
1 -AATATTGAAGGCATTTTCTACTAGAAGACACCTTTATTAATCCTAAACAATTTTT-AAAAAAAA
* * * * *
4624358 TTATTGAA-AACGTTTTTTCTCAAGAAAAGCTTTCAATAATTACT-TACAAAAACTATTGAAGGC
64 TTATTGAAGGA-GTTTTCTCTCAAGAAATGCCTTCAATAATT-CTATACAAAAATTATTGAAGGC
* * * * * * *
4624421 GTATTCA-GCAAGAAACATCTTC----AATTCCTTCAAAAATTA-ATATGGATTAGTGAAAGCAT
127 GTA-TAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGA-ATGAATTAGTGAAGGCAT
* * * ** *
4624480 TTATGTAGAATAAACGCCTTCAATAACCATCTTAAAATTTTAGTAGTGG
190 TTTTCTAGAATAAACGCCTTCATTAACCATCTTGCAA-TTTAGTAGTGA
* * ** * * * *
4624529 AATATTAAAGGCATTTTTTACTAGAAGA-AGCCTTTAACAAACCCAAAAAAAATTTTAAAAAAAA
1 AATATTGAAGGCATTTTCTACTAGAAGACA-CCTTT-ATTAATCCTAAACAATTTTTAAAAAAAA
* * * *
4624593 TTATTGAAGGCGTTTTCTCTCAAGAAATGCCTTCAATAATTTTGTACAAAAATTATTGTAGGCGT
64 TTATTGAAGGAGTTTTCTCTCAAGAAATGCCTTCAATAATTCTATACAAAAATTATTGAAGGCGT
* * *
4624658 ATAATGCAAAAAATACCTTTAATAAATT-TCTTCAAAAATTAGAATGAATTAGTAAAGGTATTTT
129 ATAATGCAAAAAATACCTTCAATAAATTCT-TTCAAAAATTAGAATGAATTAGTGAAGGCATTTT
* * ** * *
4624722 TCT-GAAATAAATGCCTTCACTAACTGTCTTACAATTTAGTAGCGA
193 TCTAG-AATAAACGCCTTCATTAACCATCTTGCAATTTAGTAGTGA
* * ** *
4624767 AATATTGAAAGCATTTTCTACTA-AAAATGCCTTTATTAAT-CTCAAA-ATATTTTCAAAAAAAA
1 AATATTGAAGGCATTTTCTACTAGAAGACACCTTTATTAATCCT-AAACA-ATTTTTAAAAAAAA
* *
4624829 TTTATTCAAGGCA-TTTTCTCTCAAGAAATGCTTTCAATAATTCTATACAAAAATTATTGAAGGC
64 -TTATTGAAGG-AGTTTTCTCTCAAGAAATGCCTTCAATAATTCTATACAAAAATTATTGAAGGC
* * ** * **
4624893 ATATAATGTAAAAAACGCCTTCAATAAATTTTTTCAAAAATTAGAACAAATTAGTGAAGGCATTT
127 GTATAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGCATTT
* * * *
4624958 TTCTAGAATAAACACCTTCATTAACCGTCTTGCAATTTAGAAGTAA
192 TTCTAGAATAAACGCCTTCATTAACCATCTTGCAATTTAGTAGTGA
* * * * *
4625004 AATATTGAAGGTATTTTTTACTAGAAAATACCTTTATTAATCCTAAATAATTTTTTAAAAAAAAT
1 AATATTGAAGGCATTTTCTACTAGAAGACACCTTTATTAATCCTAAACAA-TTTTTAAAAAAAAT
* ** *
4625069 TATTCAAGGAGTTTTCTCTCAAGAAACACCTTCAATAATTCTATACAAAAATTATTGAAGGCATA
65 TATTGAAGGAGTTTTCTCTCAAGAAATGCCTTCAATAATTCTATACAAAAATTATTGAAGGCGTA
* * * * *
4625134 TAATGCAAAAAATACTTTTAATAAATTCTTTCAAAAATTAGAATGAATTAGTAAAAGCGTTTTTC
130 TAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGCATTTTTC
* * * *
4625199 TGGAATAAGCACATTCATTAACCATCTTGCAATTTAGTAGT-A
195 TAGAATAAACGCCTTCATTAACCATCTTGCAATTTAGTAGTGA
* * * *
4625241 TAATATTGAAGGTATTTTCTACTAGAAGACATCTTTAATAAT-CTCAAAAAATTTTTAAAAAGAA
1 -AATATTGAAGGCATTTTCTACTAGAAGACACCTTTATTAATCCT-AAACAATTTTTAAAAA-AA
* * * * * *
4625305 TTTATTAAAGG-TTTTTTTCTCAAGAAATGCCTTCAATAATTCTGTACAAAAATTATTGAAGGTG
63 ATTATTGAAGGAGTTTTCTCTCAAGAAATGCCTTCAATAATTCTATACAAAAATTATTGAAGGCG
* * * * *
4625369 TATAATACAAAACATACCTTCAATAAATTCCTTAAAAAATTAGAATGAATTAGTGAAGGTATTTT
128 TATAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGCATTTT
* * * *
4625434 TCTAAAATAAATGCCTTCATTAACCTTCTTGCAATTTAGTAGTGC
193 TCTAGAATAAACGCCTTCATTAACCATCTTGCAATTTAGTAGTGA
* * * * * *
4625479 AATATTGAAGGCGTTTTCTAGTAGAAGACGCCTTTAGTAAT-CTCAAATAATTTTTAAAAAGAAT
1 AATATTGAAGGCATTTTCTACTAGAAGACACCTTTATTAATCCT-AAACAATTTTTAAAAA-AAA
* * * * * * *
4625543 TTATTGAAGGTGTTTTTTTTCTTAAAAAACGCCTTCAATAATTCTATACAAAAATTAATGAAGGT
64 TTATTGAAGGAG--TTTTCTCTCAAGAAATGCCTTCAATAATTCTATACAAAAATTATTGAAGGC
**
4625608 GTATAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGTGTTT
127 GTATAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGCATTT
** * * *
4625673 TT-TAGAATAAACATCTTCAATAACCGTCTTGCAATTTAGTAATGA
192 TTCTAGAATAAACGCCTTCATTAACCATCTTGCAATTTAGTAGTGA
** * * *
4625718 AATATTGAAGGTGTTTTCTACTAGAATACACCTTTATTAATCCCAAACAATTTTTAAAAAGAATT
1 AATATTGAAGGCATTTTCTACTAGAAGACACCTTTATTAATCCTAAACAATTTTTAAAAA-AAAT
*
4625783 TATTCAAGG
65 TATTGAAGG
4625792 CATTTTTTCT
Statistics
Matches: 1253, Mismatches: 203, Indels: 84
0.81 0.13 0.05
Matches are distributed among these distances:
234 5 0.00
235 168 0.13
236 36 0.03
237 392 0.31
238 257 0.21
239 279 0.22
240 116 0.09
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (237 bp):
AATATTGAAGGCATTTTCTACTAGAAGACACCTTTATTAATCCTAAACAATTTTTAAAAAAAATT
ATTGAAGGAGTTTTCTCTCAAGAAATGCCTTCAATAATTCTATACAAAAATTATTGAAGGCGTAT
AATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGCATTTTTCT
AGAATAAACGCCTTCATTAACCATCTTGCAATTTAGTAGTGA
Found at i:4625125 original size:475 final size:474
Alignment explanation
Indices: 4624055--4625801 Score: 1846
Period size: 475 Copynumber: 3.7 Consensus size: 474
4624045 AATTAAAATG
* * * * * * *
4624055 AATATTGAAGGTATTTTTCACTGGAAGACACATTTAATAATCCCAAACAATTTTTAAAAGGAAAT
1 AATATTGAAGGCATTTTTTACTAGAAAACACCTTTAATAATCCCAAATAATTTTTAAAA-AAAAT
* * * * * *
4624120 TATTGAAGGCA-TTTGT-TCTAAAAAAATGCCTTCAATAATTTTGTACAAAAATAATTAAAGGCA
65 TATTGAAGG-AGTTT-TCTCTCAAAAAACGCCTTCAATAATTCTATACAAAAATTATTGAAGGCA
* * * ** * *
4624183 TATTCAA--CAAAAAATGCATTCAATAAATTTTTTCAAAAATTAGAACAAATTAGTGAATGCATT
128 TA-T-AATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTAAAGGCATT
* * *
4624246 TTTCTATAATAAATGCCTTCACTAACTATCTTGCAATTTGAGTAGGAGAATATTGAAAGCGTTTT
191 TTTCTAGAATAAATGCCTTCACTAACCATCTTGCAATTT-AGTAGGAGAATATTGAAAGCATTTT
* * * ** *
4624311 CTACTAGAAGATACCTTTATTAATC-CTAAACAATTTTTAAAAAAAAATTATTGAAAACGTTTTT
255 CTACTAGAAAATACCTTTATTAATCTC-AAACAATTTTTAAAAAAAATTTATTCAAGGCATTTTT
* * * * *
4624375 TCTCAAGAAAAGCTTTCAATAATTACTTACAAAAACTATTGAAGGCGTATTCA-GCAAGAAACAT
319 TCTCAAGAAATGCTTTCAATAATT-CTTACAAAAATTATTGAAGGCGTA-TAATGCAAAAAACAC
* * * *
4624439 CTTC----AATTCCTTCAAAAATTA-ATATGGATTAGTGAAAGCATTTATGTAGAATAAACGCCT
382 CTTCAATAAATTCCTTCAAAAATTAGA-ATGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* ** *
4624499 TCAATAACCATCTTAAAATTTTAGTAGTGG
446 TCATTAACCATCTTGCAA-TTTAGTAGTGA
* * * * * *
4624529 AATATTAAAGGCATTTTTTACTAGAAGAA-GCCTTTAACAAACCCAAAAAAAATTTTAAAAAAAA
1 AATATTGAAGGCATTTTTTACTAGAA-AACACCTTTAATAATCCC-AAATAATTTTTAAAAAAAA
* * * * * * *
4624593 TTATTGAAGGCGTTTTCTCTCAAGAAATGCCTTCAATAATTTTGTACAAAAATTATTGTAGGCGT
64 TTATTGAAGGAGTTTTCTCTCAAAAAACGCCTTCAATAATTCTATACAAAAATTATTGAAGGCAT
* *
4624658 ATAATGCAAAAAATACCTTTAATAAATT-TCTTCAAAAATTAGAATGAATTAGTAAAGGTATTTT
129 ATAATGCAAAAAATACCTTCAATAAATTCT-TTCAAAAATTAGAATGAATTAGTAAAGGCATTTT
** *
4624722 TCT-GAAATAAATGCCTTCACTAACTGTCTTACAATTTAGTAGCGA-AATATTGAAAGCATTTTC
193 TCTAG-AATAAATGCCTTCACTAACCATCTTGCAATTTAGTAG-GAGAATATTGAAAGCATTTTC
* * *
4624785 TACTA-AAAATGCCTTTATTAATCTCAAA-ATATTTTCAAAAAAAATTTATTCAAGGCATTTTCT
256 TACTAGAAAATACCTTTATTAATCTCAAACA-ATTTTTAAAAAAAATTTATTCAAGGCATTTTTT
* * *
4624848 CTCAAGAAATGCTTTCAATAATTCTATACAAAAATTATTGAAGGCATATAATGTAAAAAACGCCT
320 CTCAAGAAATGCTTTCAATAATTCT-TACAAAAATTATTGAAGGCGTATAATGCAAAAAACACCT
** ** *
4624913 TCAATAAATTTTTTCAAAAATTAGAACAAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCA
384 TCAATAAATTCCTTCAAAAATTAGAATGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCA
* * *
4624978 TTAACCGTCTTGCAATTTAGAAGTAA
449 TTAACCATCTTGCAATTTAGTAGTGA
* * * *
4625004 AATATTGAAGGTATTTTTTACTAGAAAATACCTTTATTAATCCTAAATAATTTTTTAAAAAAAAT
1 AATATTGAAGGCATTTTTTACTAGAAAACACCTTTAATAATCCCAAATAA-TTTTTAAAAAAAAT
* * *
4625069 TATTCAAGGAGTTTTCTCTCAAGAAACACCTTCAATAATTCTATACAAAAATTATTGAAGGCATA
65 TATTGAAGGAGTTTTCTCTCAAAAAACGCCTTCAATAATTCTATACAAAAATTATTGAAGGCATA
* * * *
4625134 TAATGCAAAAAATACTTTTAATAAATTCTTTCAAAAATTAGAATGAATTAGTAAAAGCGTTTTTC
130 TAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTAAAGGCATTTTTC
* * * * * *
4625199 TGGAAT-AA-GCACATTCATTAACCATCTTGCAATTTAGTAGTATAATATTGAAGGTATTTTCTA
195 TAGAATAAATGC-C-TTCACTAACCATCTTGCAATTTAGTAGGAGAATATTGAAAGCATTTTCTA
* * * * * * * *
4625262 CTAGAAGACATCTTTAATAATCTCAAAAAATTTTTAAAAAGAATTTATTAAAGG-TTTTTTTCTC
258 CTAGAAAATACCTTTATTAATCTCAAACAATTTTTAAAAAAAATTTATTCAAGGCATTTTTTCTC
* * * * *
4625326 AAGAAATGCCTTCAATAATTCTGTACAAAAATTATTGAAGGTGTATAATACAAAACATACCTTCA
323 AAGAAATGCTTTCAATAATTCT-TACAAAAATTATTGAAGGCGTATAATGCAAAAAACACCTTCA
* * * *
4625391 ATAAATTCCTTAAAAAATTAGAATGAATTAGTGAAGGTATTTTTCTAAAATAAATGCCTTCATTA
387 ATAAATTCCTTCAAAAATTAGAATGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCATTA
* *
4625456 ACCTTCTTGCAATTTAGTAGTGC
452 ACCATCTTGCAATTTAGTAGTGA
* * * * * * * *
4625479 AATATTGAAGGCGTTTTCTAGTAGAAGACGCCTTTAGTAATCTCAAATAATTTTTAAAAAGAATT
1 AATATTGAAGGCATTTTTTACTAGAAAACACCTTTAATAATCCCAAATAATTTTTAAAAA-AAAT
* * * * **
4625544 TATTGAAGGTGTTTTTTTTCTTAAAAAACGCCTTCAATAATTCTATACAAAAATTAATGAAGGTG
65 TATTGAAGGAG--TTTTCTCTCAAAAAACGCCTTCAATAATTCTATACAAAAATTATTGAAGGCA
* **
4625609 TATAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTGAAGGTGTTTT
128 TATAATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTAAAGGCATTTT
*** * * * * **
4625674 T-TAGAATAAACATCTTCAATAACCGTCTTGCAATTTAGTAATGA-AATATTGAAGGTGTTTTCT
193 TCTAGAATAAATGCCTTCACTAACCATCTTGCAATTTAGT-AGGAGAATATTGAAAGCATTTTCT
* * * *
4625737 ACTAGAATACACCTTTATTAATCCCAAACAATTTTTAAAAAGAATTTATTCAAGGCATTTTTTCT
257 ACTAGAAAATACCTTTATTAATCTCAAACAATTTTTAAAAAAAATTTATTCAAGGCATTTTTTCT
4625802 TAAAAAACGT
Statistics
Matches: 1075, Mismatches: 164, Indels: 65
0.82 0.13 0.05
Matches are distributed among these distances:
471 5 0.00
472 100 0.09
473 33 0.03
474 196 0.18
475 424 0.39
476 196 0.18
477 121 0.11
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (474 bp):
AATATTGAAGGCATTTTTTACTAGAAAACACCTTTAATAATCCCAAATAATTTTTAAAAAAAATT
ATTGAAGGAGTTTTCTCTCAAAAAACGCCTTCAATAATTCTATACAAAAATTATTGAAGGCATAT
AATGCAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAATGAATTAGTAAAGGCATTTTTCT
AGAATAAATGCCTTCACTAACCATCTTGCAATTTAGTAGGAGAATATTGAAAGCATTTTCTACTA
GAAAATACCTTTATTAATCTCAAACAATTTTTAAAAAAAATTTATTCAAGGCATTTTTTCTCAAG
AAATGCTTTCAATAATTCTTACAAAAATTATTGAAGGCGTATAATGCAAAAAACACCTTCAATAA
ATTCCTTCAAAAATTAGAATGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCATTAACCA
TCTTGCAATTTAGTAGTGA
Found at i:4632717 original size:24 final size:23
Alignment explanation
Indices: 4632679--4632726 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
4632669 TAAAAGGTCT
*
4632679 TAAAAAAAGAAAGAAAAGTAAAA
1 TAAAAAAAGAAAGAAAAGAAAAA
*
4632702 TAAAAGAAAGAGAGAAAAGAAAAA
1 TAAAA-AAAGAAAGAAAAGAAAAA
4632726 T
1 T
4632727 GCCATAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (23 bp):
TAAAAAAAGAAAGAAAAGAAAAA
Found at i:4633110 original size:15 final size:16
Alignment explanation
Indices: 4633084--4633177 Score: 65
Period size: 16 Copynumber: 6.0 Consensus size: 16
4633074 ACTAATAGAT
4633084 GAAAAAAGATGAAAAA
1 GAAAAAAGATGAAAAA
4633100 GAAAAAA-ATG-AAAA
1 GAAAAAAGATGAAAAA
* **
4633114 -AAAAATGAAAAAAAA
1 GAAAAAAGATGAAAAA
* *
4633129 TGAAAAAAAAAGCAAAAA
1 -GAAAAAAGATG-AAAAA
4633147 -AAAAAAGGA-GAAAAA
1 GAAAAAA-GATGAAAAA
4633162 GAAAGAAAGA-GAAAAA
1 GAAA-AAAGATGAAAAA
4633178 ACGAGTGCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.08
14 5 0.08
15 12 0.19
16 25 0.40
17 11 0.17
18 5 0.08
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (16 bp):
GAAAAAAGATGAAAAA
Found at i:4633121 original size:26 final size:24
Alignment explanation
Indices: 4633082--4633223 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 24
4633072 TCACTAATAG
* *
4633082 ATGAAAAAAGATGAAAAAGAAAAAA
1 ATGAAAAAAAAAGAAAAA-AAAAAA
4633107 ATGAAAAAAAAATG----AAAAAAA
1 ATGAAAAAAAAA-GAAAAAAAAAAA
*
4633128 ATGAAAAAAAAAGCAAAAAAAAAA
1 ATGAAAAAAAAAGAAAAAAAAAAA
*
4633152 AGGAGAAAAAGAAAGAAAGAGAAAAAACGA
1 ATGA-AAAAA-AAAGAAA-A-AAAAAA--A
* *
4633182 GTGCAAAAAAGAAA-AAATAAAAAAA
1 ATG-AAAAAA-AAAGAAAAAAAAAAA
*
4633207 AT-AAAAAGAAGAGAAAA
1 ATGAAAAA-AAAAGAAAA
4633224 TGAAAACTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
20 1 0.01
21 18 0.19
22 1 0.01
23 7 0.08
24 14 0.15
25 17 0.18
26 7 0.08
27 7 0.08
28 6 0.06
29 3 0.03
30 11 0.12
31 1 0.01
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (24 bp):
ATGAAAAAAAAAGAAAAAAAAAAA
Found at i:4633127 original size:21 final size:21
Alignment explanation
Indices: 4633101--4633149 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
4633091 GATGAAAAAG
4633101 AAAAAAATGAAAAAAAAATG-A
1 AAAAAAATGAAAAAAAAA-GCA
4633122 AAAAAAATGAAAAAAAAAGCA
1 AAAAAAATGAAAAAAAAAGCA
4633143 AAAAAAA
1 AAAAAAA
4633150 AAAGGAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (21 bp):
AAAAAAATGAAAAAAAAAGCA
Found at i:4633132 original size:36 final size:34
Alignment explanation
Indices: 4633082--4633178 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 34
4633072 TCACTAATAG
*
4633082 ATGAAAAAAGATGAAAAAGAAAAAAATGAAAAAAAA
1 ATGAAAAAAAATGAAAAAGAAAAAAA--AAAAAAAA
*
4633118 ATGAAAAAAAATGAAAAA-AAAAGCAAAAAAAAAA
1 ATGAAAAAAAATGAAAAAGAAAA-AAAAAAAAAAA
* * *
4633152 AGGAGAAAAAGAAAGAAAGAGAAAAAA
1 ATGA-AAAAA-AATGAAAAAGAAAAAA
4633179 CGAGTGCAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
34 11 0.22
35 9 0.18
36 27 0.53
37 4 0.08
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.05
Consensus pattern (34 bp):
ATGAAAAAAAATGAAAAAGAAAAAAAAAAAAAAA
Found at i:4633161 original size:11 final size:11
Alignment explanation
Indices: 4633101--4633150 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
4633091 GATGAAAAAG
4633101 AAAAAAATGAA
1 AAAAAAATGAA
4633112 AAAAAAATG-A
1 AAAAAAATGAA
4633122 AAAAAAATGAA
1 AAAAAAATGAA
4633133 AAAAAAA-GCAA
1 AAAAAAATG-AA
4633144 AAAAAAA
1 AAAAAAA
4633151 AAGGAGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 11 0.30
11 26 0.70
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:4633168 original size:10 final size:9
Alignment explanation
Indices: 4633085--4633178 Score: 62
Period size: 10 Copynumber: 9.4 Consensus size: 9
4633075 CTAATAGATG
*
4633085 AAAAAAGAT
1 AAAAAAGAA
*
4633094 GAAAAAGAA
1 AAAAAAGAA
*
4633103 AAAAATGAAA
1 AAAAAAG-AA
4633113 AAAAAATGAA
1 AAAAAA-GAA
4633123 AAAAAATGAAA
1 AAAAAA-G-AA
4633134 AAAAAAGCAA
1 AAAAAAG-AA
*
4633144 AAAAAAAAA
1 AAAAAAGAA
4633153 GGAGAAAAAGAA
1 --A-AAAAAGAA
*
4633165 AGAAAGAGAA
1 A-AAAAAGAA
4633175 AAAA
1 AAAA
4633179 CGAGTGCAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
9 17 0.24
10 36 0.51
11 10 0.14
12 7 0.10
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:4633229 original size:26 final size:26
Alignment explanation
Indices: 4633084--4633229 Score: 69
Period size: 26 Copynumber: 5.6 Consensus size: 26
4633074 ACTAATAGAT
* *
4633084 GAAAA-AAGATGAAAAAGAAA-AAAAT
1 GAAAAGAAAATGAAAAA-AAATAAAAA
*
4633109 GAAAAAAAAATGAAAAAAAATGAAAAA
1 GAAAAGAAAATGAAAAAAAAT-AAAAA
*
4633136 -AAAAGCAAAA--AAAAAAAGGAGAAAAA
1 GAAAAG-AAAATGAAAAAAA--ATAAAAA
*
4633162 G-AAAGAAAGA-GAAAAAACGAGTGCAAAAA
1 GAAAAGAAA-ATGAAAAAA--AAT--AAAAA
*
4633191 -AGAA-AAAAT-AAAAAAAATAAAAA
1 GAAAAGAAAATGAAAAAAAATAAAAA
*
4633214 GAAGAGAAAATGAAAA
1 GAAAAGAAAATGAAAA
4633230 CTCAAATTGA
Statistics
Matches: 93, Mismatches: 10, Indels: 35
0.67 0.07 0.25
Matches are distributed among these distances:
23 5 0.05
24 2 0.02
25 25 0.27
26 28 0.30
27 22 0.24
28 3 0.03
29 8 0.09
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (26 bp):
GAAAAGAAAATGAAAAAAAATAAAAA
Found at i:4634478 original size:13 final size:13
Alignment explanation
Indices: 4634460--4634485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4634450 AAAAAGAAAT
4634460 TGAGAATTTTTGA
1 TGAGAATTTTTGA
4634473 TGAGAATTTTTGA
1 TGAGAATTTTTGA
4634486 GTTCTCAAAT
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:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGAGAATTTTTGA
Found at i:4634517 original size:22 final size:22
Alignment explanation
Indices: 4634472--4634517 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
4634462 AGAATTTTTG
* * *
4634472 ATGAGAATTTTTGAGTTCTCAA
1 ATGAGAATCTTTGAGGTCTAAA
*
4634494 ATGAGAATCTTTGAGGTGTAAA
1 ATGAGAATCTTTGAGGTCTAAA
4634516 AT
1 AT
4634518 CCAAAATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (22 bp):
ATGAGAATCTTTGAGGTCTAAA
Found at i:4634574 original size:21 final size:20
Alignment explanation
Indices: 4634531--4634586 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
4634521 AAATTTGTTG
* *
4634531 AATGTGAATCTTCGAACTCA
1 AATGAGAATCTTTGAACTCA
*
4634551 AATGAGAATCTTTGAATTTCA
1 AATGAGAATCTTTGAA-CTCA
4634572 AATGAGAATCTTTGA
1 AATGAGAATCTTTGA
4634587 GGTGTGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (20 bp):
AATGAGAATCTTTGAACTCA
Found at i:4634581 original size:79 final size:80
Alignment explanation
Indices: 4634472--4634642 Score: 265
Period size: 79 Copynumber: 2.1 Consensus size: 80
4634462 AGAATTTTTG
* * * *
4634472 ATGAGAATTTTTGAGTTCTCAAATGAGAATCTTTGAGGTGTAAAA-TCCAAAATTTGTTGAATGT
1 ATGAGAATCTTTGAATTCTCAAATGAGAATCTTTGAGGTGTAAAACT-CAAAATTTGTCGAATAT
*
4634536 GAATCTTCGAACTCAA
65 GAATATTCGAACTCAA
*
4634552 ATGAGAATCTTTGAATT-TCAAATGAGAATCTTTGAGGTGTGAAACTCAAAATTTGTCGAATATG
1 ATGAGAATCTTTGAATTCTCAAATGAGAATCTTTGAGGTGTAAAACTCAAAATTTGTCGAATATG
4634616 AATATTCGAACTCAA
66 AATATTCGAACTCAA
4634631 ATGAGAATCTTT
1 ATGAGAATCTTT
4634643 AAGGTGTGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
79 68 0.81
80 16 0.19
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (80 bp):
ATGAGAATCTTTGAATTCTCAAATGAGAATCTTTGAGGTGTAAAACTCAAAATTTGTCGAATATG
AATATTCGAACTCAA
Found at i:4635037 original size:42 final size:42
Alignment explanation
Indices: 4634979--4635309 Score: 358
Period size: 42 Copynumber: 8.0 Consensus size: 42
4634969 CCAATAAGTC
4634979 TTTTA-TTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGAGCA
1 TTTTATTTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGAGCA
* * * *
4635020 TTTTATTTTTTCAAAGTTGTAGTGCCTCTATTTAGAGGCGCA
1 TTTTATTTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGAGCA
* * *
4635062 TTTTATTTTTCCAAAGTTGTGGTGCCTCTATTTAGA-GATGCA
1 TTTTATTTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGA-GCA
** *
4635104 TTTTATTTTTTCAAAGTTGTGGTGTCTTTGTTTAGAGGAGCA
1 TTTTATTTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGAGCA
* * *
4635146 -TTTATTTTCTCAAAAGTTGTGATACCTCTATTTAGAGGAGCA
1 TTTTATTTTTTC-AAAGTTGTGGTACCTCTGTTTAGAGGAGCA
* *
4635188 -TTTA-TTTTTCAAAAGTTGTGGTGCCTATGTTTAGAGGAGCA
1 TTTTATTTTTTC-AAAGTTGTGGTACCTCTGTTTAGAGGAGCA
* * * *
4635229 -TTTA-TTTTTCAAAAGTTGTTGTACCTTTGTTTAGAGAAGCC
1 TTTTATTTTTTC-AAAGTTGTGGTACCTCTGTTTAGAGGAGCA
*
4635270 TTTTATTTTTT-AAAGTTGT--TAAGCCTCTGTTTAAAGGAGC
1 TTTTATTTTTTCAAAGTTGTGGT-A-CCTCTGTTTAGAGGAGC
4635310 TTGATTTATT
Statistics
Matches: 252, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 106 0.42
42 137 0.54
43 7 0.03
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (42 bp):
TTTTATTTTTTCAAAGTTGTGGTACCTCTGTTTAGAGGAGCA
Found at i:4635119 original size:84 final size:83
Alignment explanation
Indices: 4634980--4635288 Score: 412
Period size: 84 Copynumber: 3.7 Consensus size: 83
4634970 CAATAAGTCT
* *
4634980 TTTATTTTTC-AAAGTTGTGGTACCTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTAGTG
1 TTTATTTTTCAAAAGTTGTGGTACCTCTATTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTG
* * *
4635044 CCTCTATTTAGAGGCGCA
66 CCTATGTTTAGAGGAGCA
* *
4635062 TTTTATTTTTCCAAAGTTGTGGTGCCTCTATTTAGA-GATGCATTTTATTTTTTCAAAGTTGTGG
1 -TTTATTTTTCAAAAGTTGTGGTACCTCTATTTAGAGGA-GCATTTTATTTTTTCAAAGTTGTGG
* *
4635126 TGTCTTTGTTTAGAGGAGCA
64 TGCCTATGTTTAGAGGAGCA
*
4635146 TTTATTTTCTCAAAAGTTGTGATACCTCTATTTAGAGGAGCA-TTTA-TTTTTCAAAAGTTGTGG
1 TTTATTTT-TCAAAAGTTGTGGTACCTCTATTTAGAGGAGCATTTTATTTTTTC-AAAGTTGTGG
4635209 TGCCTATGTTTAGAGGAGCA
64 TGCCTATGTTTAGAGGAGCA
* * * * *
4635229 TTTATTTTTCAAAAGTTGTTGTACCTTTGTTTAGAGAAGCCTTTTATTTTTT-AAAGTTGT
1 TTTATTTTTCAAAAGTTGTGGTACCTCTATTTAGAGGAGCATTTTATTTTTTCAAAGTTGT
4635289 TAAGCCTCTG
Statistics
Matches: 201, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
82 41 0.20
83 64 0.32
84 94 0.47
85 2 0.01
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (83 bp):
TTTATTTTTCAAAAGTTGTGGTACCTCTATTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTG
CCTATGTTTAGAGGAGCA
Found at i:4635507 original size:7 final size:7
Alignment explanation
Indices: 4635497--4635542 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
4635487 ATTTTTGTTG
4635497 ATAAAAA
1 ATAAAAA
4635504 ATAAAAA
1 ATAAAAA
4635511 ATTAAAAAA
1 A-T-AAAAA
4635520 ATAAAAAA
1 AT-AAAAA
4635528 ATAAAAA
1 ATAAAAA
*
4635535 ACAAAAA
1 ATAAAAA
4635542 A
1 A
4635543 ATAGCTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 20 0.56
8 10 0.28
9 6 0.17
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (7 bp):
ATAAAAA
Found at i:4635518 original size:9 final size:8
Alignment explanation
Indices: 4635499--4635545 Score: 69
Period size: 8 Copynumber: 6.0 Consensus size: 8
4635489 TTTTGTTGAT
4635499 AAAAAATA
1 AAAAAATA
*
4635507 AAAAATTA
1 AAAAAATA
4635515 AAAAAATA
1 AAAAAATA
4635523 AAAAAAT-
1 AAAAAATA
*
4635530 AAAAAACA
1 AAAAAATA
4635538 AAAAAATA
1 AAAAAATA
4635546 GCTAATTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:4635731 original size:19 final size:20
Alignment explanation
Indices: 4635707--4635750 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
4635697 ACACACACAA
4635707 AAAAATCAGAGAAAAAAGT-
1 AAAAATCAGAGAAAAAAGTC
*
4635726 AAAAATCAGAGAAAACAGTC
1 AAAAATCAGAGAAAAAAGTC
4635746 AAAAA
1 AAAAA
4635751 AATTTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.68, C:0.09, G:0.14, T:0.09
Consensus pattern (20 bp):
AAAAATCAGAGAAAAAAGTC
Found at i:4640384 original size:27 final size:27
Alignment explanation
Indices: 4640340--4640417 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
4640330 AAAAATTGGA
* * *
4640340 AATAAAATAGAAATAAAAACTTAAAAT
1 AATAAAATACAAATAAAAAATAAAAAT
4640367 AATAAAAT-CAAATCAAAAAATAAAAAT
1 AATAAAATACAAAT-AAAAAATAAAAAT
*
4640394 -A-AAAATA-AATATAAAATATAAAAA
1 AATAAAATACAA-ATAAAAAATAAAAA
4640418 AGGAAAACCT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 18 0.41
26 7 0.16
27 19 0.43
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (27 bp):
AATAAAATACAAATAAAAAATAAAAAT
Found at i:4640398 original size:7 final size:6
Alignment explanation
Indices: 4640382--4640417 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
4640372 AATCAAATCA
*
4640382 AAAAAT AAAAAT AAAAAT AAATAT AAAATAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAA
4640418 AGGAAAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:4641191 original size:3 final size:3
Alignment explanation
Indices: 4641183--4641303 Score: 67
Period size: 3 Copynumber: 42.3 Consensus size: 3
4641173 GAAAGAAAAT
* * * * *
4641183 ATA ATA ATA ATA ATA ATA ATA ATA AAA AAA ATA ATA GTA ATA ACA TAGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * *
4641232 ATA CT- ATA ATA AT- ACA ATA ATA A-A AT- ATA GTA AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
4641274 GT- ATA CTA ATA ACA ATG ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4641304 AAATCGATTT
Statistics
Matches: 87, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
2 11 0.13
3 74 0.85
4 2 0.02
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4641574 original size:55 final size:55
Alignment explanation
Indices: 4641515--4641654 Score: 181
Period size: 55 Copynumber: 2.5 Consensus size: 55
4641505 CACAAATCTA
* * * * * *
4641515 AAAAATGATTTGGATTGGGCCGAGATCAAATGACCATGATGGAACTAAGAGTTTG
1 AAAAATGATTTGGATTGAGCCAAGATCAAATGACCAAGACGAAACCAAGAGTTTG
* * * *
4641570 AAAAATGATCTGAATTGAGCCAAGATCGAATGACCAAGACGAAACCATGAGTTTG
1 AAAAATGATTTGGATTGAGCCAAGATCAAATGACCAAGACGAAACCAAGAGTTTG
*
4641625 AAAAATGATTTGGATTGAGTCAAGATCAAA
1 AAAAATGATTTGGATTGAGCCAAGATCAAA
4641655 CAACTAGGAC
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (55 bp):
AAAAATGATTTGGATTGAGCCAAGATCAAATGACCAAGACGAAACCAAGAGTTTG
Found at i:4647836 original size:13 final size:12
Alignment explanation
Indices: 4647818--4647870 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
4647808 TCAATAAAAT
4647818 AATAAAAAATGGA
1 AATAAAAAAT-GA
*
4647831 AATAAAATA-GA
1 AATAAAAAATGA
*
4647842 AATAAAAAATTAA
1 AATAAAAAA-TGA
4647855 AATAATAAAATGA
1 AATAA-AAAATGA
4647868 AAT
1 AAT
4647871 GAAATCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 10 0.30
13 19 0.58
14 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (12 bp):
AATAAAAAATGA
Found at i:4647846 original size:32 final size:29
Alignment explanation
Indices: 4647810--4647899 Score: 92
Period size: 32 Copynumber: 2.9 Consensus size: 29
4647800 GAAAAAGATC
*
4647810 AATAAAATAATAAAAAATGGAAATAAAATAGA
1 AATAAAA-AATAAAAAAT-AAAATAAAAT-GA
*
4647842 AATAAAAAATTAAAATAATAAAATGAAATGA
1 AATAAAAAA-TAAAA-AATAAAATAAAATGA
4647873 AATCAAAAAAT-AAAAATAAAATGAAAA
1 AAT-AAAAAATAAAAAATAAAAT-AAAA
4647900 AAAAAACTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
29 8 0.16
30 6 0.12
31 8 0.16
32 26 0.51
33 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.07, T:0.19
Consensus pattern (29 bp):
AATAAAAAATAAAAAATAAAATAAAATGA
Found at i:4647889 original size:19 final size:18
Alignment explanation
Indices: 4647830--4647905 Score: 57
Period size: 19 Copynumber: 4.1 Consensus size: 18
4647820 TAAAAAATGG
4647830 AAATAAAAT-AGAAATAAAA
1 AAATAAAATCA-AAA-AAAA
* **
4647849 AATTAAAAT-AATAAAATG
1 AAATAAAATCAA-AAAAAA
*
4647867 AAATGAAATCAAAAAATAA
1 AAATAAAATCAAAAAA-AA
*
4647886 AAATAAAATGAAAAAAAA
1 AAATAAAATCAAAAAAAA
4647904 AA
1 AA
4647906 CTTATGATCA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 18 0.40
19 27 0.60
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (18 bp):
AAATAAAATCAAAAAAAA
Found at i:4647904 original size:24 final size:24
Alignment explanation
Indices: 4647830--4647905 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
4647820 TAAAAAATGG
*
4647830 AAAT-AAAATAGAAAT-AAAAAATTA
1 AAATAAAAATA-AAATGAAAAAA-AA
* **
4647854 AAATAATAAAATGAAATGAAATCAAA
1 AAAT-A-AAAATAAAATGAAAAAAAA
4647880 AAATAAAAATAAAATGAAAAAAAA
1 AAATAAAAATAAAATGAAAAAAAA
4647904 AA
1 AA
4647906 CTTATGATCA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
24 22 0.54
25 1 0.02
26 9 0.22
27 9 0.22
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (24 bp):
AAATAAAAATAAAATGAAAAAAAA
Found at i:4648751 original size:3 final size:3
Alignment explanation
Indices: 4648680--4648733 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
4648670 GAAGGAGAAT
* * * * *
4648680 ATA ATA GTA ATA ATA ATA A-C ATA ATA AAA ATA ATA GTA ATA ATA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4648727 ATA ATA A
1 ATA ATA A
4648734 CATAGTATAC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4649537 original size:52 final size:52
Alignment explanation
Indices: 4649448--4649552 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
4649438 TAGACAAGAA
* *
4649448 GACTCGTAGAAGAAGAATTTTAAGAGAAAAGAGATTCTTAATAGGCAAGTTT
1 GACTCGTAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGCAAGTTT
* *
4649500 GACTTGTAAAAGAAGAATTCTAAGAGGAAAG-GAATTCTTAATAGGCAAGTTT
1 GACTCGTAAAAGAAGAATTCTAAGAGAAAAGAG-ATTCTTAATAGGCAAGTTT
4649552 G
1 G
4649553 TATGGTTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 1 0.02
52 47 0.98
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.27
Consensus pattern (52 bp):
GACTCGTAAAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGCAAGTTT
Found at i:4653144 original size:2 final size:2
Alignment explanation
Indices: 4653133--4653163 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4653123 AGTGTCTACT
4653133 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4653164 AATTATCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4655518 original size:26 final size:26
Alignment explanation
Indices: 4655489--4655544 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
4655479 TTCAAATAAT
4655489 ATTAATATAGCTATTAAA-ATATTAAA
1 ATTAATATA-CTATTAAAGATATTAAA
* *
4655515 ATT-ATTTATTATTAAAGTATATTAAA
1 ATTAATATACTATTAAAG-ATATTAAA
4655541 ATTA
1 ATTA
4655545 TTTATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 7 0.28
25 4 0.16
26 14 0.56
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (26 bp):
ATTAATATACTATTAAAGATATTAAA
Found at i:4655545 original size:26 final size:24
Alignment explanation
Indices: 4655500--4655558 Score: 91
Period size: 26 Copynumber: 2.4 Consensus size: 24
4655490 TTAATATAGC
4655500 TATTAAAATATTAAAATTATTTAT
1 TATTAAAATATTAAAATTATTTAT
4655524 TATTAAAGTATATTAAAATTATTTAT
1 TATTAAA--ATATTAAAATTATTTAT
*
4655550 TAATAAAAT
1 TATTAAAAT
4655559 TACTAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 9 0.28
26 23 0.72
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TATTAAAATATTAAAATTATTTAT
Found at i:4655670 original size:23 final size:22
Alignment explanation
Indices: 4655644--4655748 Score: 68
Period size: 23 Copynumber: 4.4 Consensus size: 22
4655634 TAAAATATAA
** *
4655644 TTATTTATTATTCTTTATATTAT
1 TTATTTATTATT-AATATAATAT
*
4655667 TTATTAATATATTAATATAATAT
1 TTATTTAT-TATTAATATAATAT
*
4655690 TTATTTATTAATATAATAATATTGAT
1 TTATTTATT-AT-TAAT-ATAAT-AT
4655716 TAATATATTACTTATTAATATAATA-
1 T--TAT-TTA-TTATTAATATAATAT
4655741 TTATTTAT
1 TTATTTAT
4655749 AAGTAAAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
21 1 0.02
22 4 0.06
23 26 0.39
24 8 0.12
25 5 0.08
26 4 0.06
27 4 0.06
28 7 0.11
29 5 0.08
30 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (22 bp):
TTATTTATTATTAATATAATAT
Found at i:4655680 original size:27 final size:27
Alignment explanation
Indices: 4655649--4655749 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 27
4655639 TATAATTATT
*
4655649 TATTATTCTTTATATTATTTATTAATA
1 TATTATTATTTATATTATTTATTAATA
* *
4655676 TATTAATA-TAATATTTATTTATTAATA
1 TATTATTATTTATA-TTATTTATTAATA
*
4655703 TAATAATATTGATTAATATATTACTTATTAATA
1 T-AT--TATT-ATT--TATATTATTTATTAATA
*
4655736 TAATATTATTTATA
1 TATTATTATTTATA
4655750 AGTAAAATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
26 4 0.07
27 24 0.41
28 2 0.03
29 3 0.05
30 7 0.12
31 1 0.02
32 2 0.03
33 13 0.22
34 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (27 bp):
TATTATTATTTATATTATTTATTAATA
Found at i:4655741 original size:18 final size:18
Alignment explanation
Indices: 4655676--4655748 Score: 89
Period size: 18 Copynumber: 4.2 Consensus size: 18
4655666 TTTATTAATA
4655676 TATTAATATAATATTTATT
1 TATTAATATAATA-TTATT
*
4655695 TATTAATATAATAATATT
1 TATTAATATAATATTATT
* *
4655713 GATT-A-AT-ATATTACT
1 TATTAATATAATATTATT
4655728 TATTAATATAATATTATT
1 TATTAATATAATATTATT
4655746 TAT
1 TAT
4655749 AAGTAAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
15 9 0.20
16 3 0.07
17 3 0.07
18 17 0.38
19 13 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (18 bp):
TATTAATATAATATTATT
Found at i:4656187 original size:70 final size:72
Alignment explanation
Indices: 4656111--4656259 Score: 164
Period size: 72 Copynumber: 2.1 Consensus size: 72
4656101 ATATATATTA
* * * * *
4656111 TGTTTTTTTATATC-A-ACATAA-ATTATATATAA-TTTCTATGTAAAACATAAGAAAATACACT
1 TGTTTTTTTATATCGATACA-AACATAATACATAATTTTC-ATATAAAACACAAGAAAATACACG
4656172 AATTGCTAG
64 AATTGCTAG
* *
4656181 TG-TTTTTTATATCGATACAAATCATAATACATAATTTTCATATAAAATACAATAAAATACACGA
1 TGTTTTTTTATATCGATACAAA-CATAATACATAATTTTCATATAAAACACAAGAAAATACACGA
4656245 ATTGCTAG
65 ATTGCTAG
*
4656253 TATTTTT
1 TGTTTTT
4656260 CATCACAGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
69 11 0.17
70 5 0.08
71 3 0.05
72 38 0.58
73 8 0.12
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (72 bp):
TGTTTTTTTATATCGATACAAACATAATACATAATTTTCATATAAAACACAAGAAAATACACGAA
TTGCTAG
Found at i:4657716 original size:2 final size:2
Alignment explanation
Indices: 4657709--4657742 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4657699 TGCATTCTTA
*
4657709 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4657743 CATAAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.