Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 8 of 153
Found at i:2525545 original size:28 final size:27
Alignment explanation
Indices: 2525505--2525577 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
2525495 GACAATAGCA
2525505 TTTTCTCTT-CATTTAATGTCTTAATAAT
1 TTTTC-CTTGCATTTAATGTCTTAAT-AT
*
2525533 TTTTCCTTGCATTTAATGTCTTAATGT
1 TTTTCCTTGCATTTAATGTCTTAATAT
*
2525560 TTTTTCTATGCATTTAAT
1 TTTTCCT-TGCATTTAAT
2525578 TCCTAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 10 0.24
28 31 0.76
ACGTcount: A:0.22, C:0.14, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTTCCTTGCATTTAATGTCTTAATAT
Found at i:2526052 original size:8 final size:8
Alignment explanation
Indices: 2526041--2526068 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
2526031 ATATAAATAA
2526041 ATATTTAT
1 ATATTTAT
2526049 ATATTTAT
1 ATATTTAT
2526057 ATATTTAT
1 ATATTTAT
2526065 ATAT
1 ATAT
2526069 AAAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTTAT
Found at i:2526570 original size:20 final size:20
Alignment explanation
Indices: 2526527--2526575 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
2526517 AGGAGTAATT
* *
2526527 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATA
**
2526547 AAATCAAATTGATTGGAATA
1 AAATCAAATTGATTAAAATA
*
2526567 AAATAAAAT
1 AAATCAAAT
2526576 CAGGATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:2544583 original size:46 final size:46
Alignment explanation
Indices: 2544513--2544731 Score: 341
Period size: 46 Copynumber: 4.8 Consensus size: 46
2544503 ACAATGCTAT
* * * *
2544513 AACTCAGTATGGTTTTC-TTCACTGAAATACCATGCCTGCTTTTCAT
1 AACTCAGTATGGTTTTCATT-ACTGAAATACCATACCTACTTCTCAC
2544559 AACTCAGTATGGTTTTCATTACTGAAATACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCATTACTGAAATACCATACCTACTTCTCAC
*
2544605 AACTCAGTATGGTTTTCATTACTGAAATAACATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCATTACTGAAATACCATACCTACTTCTCAC
* *
2544651 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCATTACTGAAATACCATACCTACTTCTCAC
* *
2544697 AACTCAATATGGTTTTCTTTACTGAAATACCATAC
1 AACTCAGTATGGTTTTCATTACTGAAATACCATAC
2544732 ATACATTCCA
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 161 0.99
47 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCATTACTGAAATACCATACCTACTTCTCAC
Found at i:2555099 original size:13 final size:13
Alignment explanation
Indices: 2555081--2555105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2555071 ATTCACAATA
2555081 GAGGTGTCCATGT
1 GAGGTGTCCATGT
2555094 GAGGTGTCCATG
1 GAGGTGTCCATG
2555106 GGCCGGGCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
GAGGTGTCCATGT
Found at i:2555299 original size:29 final size:30
Alignment explanation
Indices: 2555267--2555324 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
2555257 TATAATAAAT
2555267 AAATATTTTTTAATTTTAAAAT-AATTTTA
1 AAATATTTTTTAATTTTAAAATAAATTTTA
* *
2555296 AAATATTTTTTATTTTTTAAATAAATTTT
1 AAATATTTTTTAATTTTAAAATAAATTTT
2555325 TGGTGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
AAATATTTTTTAATTTTAAAATAAATTTTA
Found at i:2561233 original size:200 final size:200
Alignment explanation
Indices: 2560890--2561290 Score: 793
Period size: 200 Copynumber: 2.0 Consensus size: 200
2560880 TGTTAGGGCA
*
2560890 ATGCCTTATTTATAGCCAGTTTATGTAAAGAAATTTTTTCTCTAGCCAAGTTTTCTAAGTGGAAT
1 ATGCCTTATTTATAGCCAGTTTATGTAAAGAAATTTTTTCTCTAGCAAAGTTTTCTAAGTGGAAT
2560955 TGAATCATAATTAACGCCTTTCTTGCATTCATCTCATGCATCGCATCATATGCATTAAAAACGAA
66 TGAATCATAATTAACGCCTTTCTTGCATTCATCTCATGCATCGCATCATATGCATTAAAAACGAA
2561020 TATTTTCGCATAAAATAAAGCGATATTCAAAGTTCGGGAATTTTGAGAAATTGTACCCTAACGTA
131 TATTTTCGCATAAAATAAAGCGATATTCAAAGTTCGGGAATTTTGAGAAATTGTACCCTAACGTA
2561085 TTGGG
196 TTGGG
2561090 ATGCCTTATTTATAGCCAGTTTATGTAAAGAAATTTTTTCTCTAGCAAAGTTTTCTAAGTGGAAT
1 ATGCCTTATTTATAGCCAGTTTATGTAAAGAAATTTTTTCTCTAGCAAAGTTTTCTAAGTGGAAT
2561155 TGAATCATAATTAACGCCTTTCTTGCATTCATCTCATGCATCGCATCATATGCATTAAAAACGAA
66 TGAATCATAATTAACGCCTTTCTTGCATTCATCTCATGCATCGCATCATATGCATTAAAAACGAA
2561220 TATTTTCGCATAAAATAAAGCGATATTCAAAGTTCGGGAATTTTGAGAAATTGTACCCTAACGTA
131 TATTTTCGCATAAAATAAAGCGATATTCAAAGTTCGGGAATTTTGAGAAATTGTACCCTAACGTA
2561285 TTGGG
196 TTGGG
2561290 A
1 A
2561291 CTCGATTTCT
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (200 bp):
ATGCCTTATTTATAGCCAGTTTATGTAAAGAAATTTTTTCTCTAGCAAAGTTTTCTAAGTGGAAT
TGAATCATAATTAACGCCTTTCTTGCATTCATCTCATGCATCGCATCATATGCATTAAAAACGAA
TATTTTCGCATAAAATAAAGCGATATTCAAAGTTCGGGAATTTTGAGAAATTGTACCCTAACGTA
TTGGG
Found at i:2568011 original size:65 final size:65
Alignment explanation
Indices: 2567935--2568064 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
2567925 CCTCATTGGC
2567935 CTCTTATTTACTTCTTAGTATTTTTTTTTAAATAAGAAAAGCGAGTAAAAGGTGTTTGGGATGAT
1 CTCTTATTTACTTCTTAGTATTTTTTTTTAAATAAGAAAAGCGAGTAAAAGGTGTTTGGGATGAT
2568000 CTCTTATTTACTTCTTAGTATTTTTTTTTAAATAAGAAAAGCGAGTAAAAGGTGTTTGGGATGAT
1 CTCTTATTTACTTCTTAGTATTTTTTTTTAAATAAGAAAAGCGAGTAAAAGGTGTTTGGGATGAT
2568065 GTTTTAATTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (65 bp):
CTCTTATTTACTTCTTAGTATTTTTTTTTAAATAAGAAAAGCGAGTAAAAGGTGTTTGGGATGAT
Found at i:2583005 original size:30 final size:30
Alignment explanation
Indices: 2582969--2583032 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
2582959 TAACAAAAAA
2582969 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
2582999 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
2583029 CTCT
1 CTCT
2583033 ATTTAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.03, T:0.39
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:2584182 original size:7 final size:7
Alignment explanation
Indices: 2584170--2584201 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
2584160 ATACATAAAA
2584170 TATTTAG
1 TATTTAG
2584177 TATTTAG
1 TATTTAG
2584184 TATTTAG
1 TATTTAG
2584191 TATTTAG
1 TATTTAG
2584198 TATT
1 TATT
2584202 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:2584260 original size:14 final size:14
Alignment explanation
Indices: 2584243--2584287 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
2584233 AGTAAAATGT
*
2584243 TTTCTGGAAAATAA
1 TTTCTAGAAAATAA
*
2584257 TTTCTAGAAAATGA
1 TTTCTAGAAAATAA
2584271 TTTCTAGAAAATAA
1 TTTCTAGAAAATAA
2584285 TTT
1 TTT
2584288 ATTTTTCTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (14 bp):
TTTCTAGAAAATAA
Found at i:2584422 original size:20 final size:20
Alignment explanation
Indices: 2584399--2584436 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2584389 ATTTTTACAT
2584399 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
2584419 ATATTAATATATTTATAT
1 ATATTAATAAATTTATAT
2584437 TTTAAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:2586085 original size:17 final size:17
Alignment explanation
Indices: 2586038--2586088 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
2586028 TTCAACAGAT
2586038 AGATGCAAAATCCAAAC
1 AGATGCAAAATCCAAAC
*
2586055 AGAT--TAAA--CAAAC
1 AGATGCAAAATCCAAAC
2586068 AGATGCAAAATCCAAAC
1 AGATGCAAAATCCAAAC
2586085 AGAT
1 AGAT
2586089 TCTTCATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 9 0.32
15 6 0.21
17 13 0.46
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.14
Consensus pattern (17 bp):
AGATGCAAAATCCAAAC
Found at i:2587589 original size:24 final size:24
Alignment explanation
Indices: 2587557--2587602 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
2587547 TAATAAAATA
2587557 AAATTTTTTAATA-TTTTAATAGT
1 AAATTTTTTAATATTTTTAATAGT
*
2587580 AAATTATTTTTATATTTTTAATA
1 AAATT-TTTTAATATTTTTAATA
2587603 AAATAGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATTTTTTAATATTTTTAATAGT
Found at i:2591350 original size:42 final size:42
Alignment explanation
Indices: 2591293--2591396 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
2591283 GGGTTAAATG
* * * * *
2591293 GAAGCTCATAGGAGCTGAACGGAAATCCATAAAAGATAATCT
1 GAAGCTCAGAAGAGCTAAACGGAAACCCATAAAAGATAAACT
* * ** *
2591335 GAAGCTCAGAAGAGCTAAACTGAAACCCATTAGGGTTAAACT
1 GAAGCTCAGAAGAGCTAAACGGAAACCCATAAAAGATAAACT
*
2591377 GAAGCTCAGAAGATCTAAAC
1 GAAGCTCAGAAGAGCTAAAC
2591397 TAAAACTCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (42 bp):
GAAGCTCAGAAGAGCTAAACGGAAACCCATAAAAGATAAACT
Found at i:2591357 original size:21 final size:21
Alignment explanation
Indices: 2591333--2591397 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
2591323 AAAAGATAAT
2591333 CTGAAGCTCAGAAGAGCTAAA
1 CTGAAGCTCAGAAGAGCTAAA
* * ** * *
2591354 CTGAAACCCATTAGGGTTAAA
1 CTGAAGCTCAGAAGAGCTAAA
*
2591375 CTGAAGCTCAGAAGATCTAAA
1 CTGAAGCTCAGAAGAGCTAAA
2591396 CT
1 CT
2591398 AAAACTCATT
Statistics
Matches: 31, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
CTGAAGCTCAGAAGAGCTAAA
Found at i:2591397 original size:42 final size:42
Alignment explanation
Indices: 2591333--2591468 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
2591323 AAAAGATAAT
* *
2591333 CTGAAGCTCAGAAGAGCTAAACTGAAACCCATTAGGGTTAAA
1 CTGAAACTCAGAAGATCTAAACTGAAACCCATTAGGGTTAAA
* * *
2591375 CTGAAGCTCAGAAGATCTAAACTAAAACTCATTAGGGTTAAA
1 CTGAAACTCAGAAGATCTAAACTGAAACCCATTAGGGTTAAA
* * * **
2591417 CTGAAACTTAAAAGAGT-TGAACTGAAACCCAAAAGGGTTAAA
1 CTGAAACTCAGAAGA-TCTAAACTGAAACCCATTAGGGTTAAA
2591459 CTGAAACTCA
1 CTGAAACTCA
2591469 TATGAGTTGA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 80 0.99
43 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (42 bp):
CTGAAACTCAGAAGATCTAAACTGAAACCCATTAGGGTTAAA
Found at i:2591416 original size:21 final size:21
Alignment explanation
Indices: 2591350--2591470 Score: 109
Period size: 21 Copynumber: 5.8 Consensus size: 21
2591340 TCAGAAGAGC
* *
2591350 TAAACTGAAACCCATTAGGGT
1 TAAACTGAAACTCATAAGGGT
* * *
2591371 TAAACTGAAGCTCAGAA-GAT
1 TAAACTGAAACTCATAAGGGT
* *
2591391 CTAAACTAAAACTCATTAGGGT
1 -TAAACTGAAACTCATAAGGGT
* * *
2591413 TAAACTGAAACTTAAAAGAGT
1 TAAACTGAAACTCATAAGGGT
* * *
2591434 TGAACTGAAACCCAAAAGGGT
1 TAAACTGAAACTCATAAGGGT
2591455 TAAACTGAAACTCATA
1 TAAACTGAAACTCATA
2591471 TGAGTTGAAT
Statistics
Matches: 76, Mismatches: 22, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
20 2 0.03
21 72 0.95
22 2 0.03
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.22
Consensus pattern (21 bp):
TAAACTGAAACTCATAAGGGT
Found at i:2593821 original size:126 final size:125
Alignment explanation
Indices: 2593533--2594051 Score: 682
Period size: 125 Copynumber: 4.1 Consensus size: 125
2593523 TGCCAAACAT
* **
2593533 GAACTACTGTAGAAAAATAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCA-TAATTTTGTTGACAGTGCATC
* * * * * *
2593598 CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAATGTATTCTCAAAATCA-TTTTTCAG
65 CTGCTTGAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* * * *
2593658 GAACTATTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCGATTTTGTTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAT-AATTTTGTTGACAGTGCATC
** * * *
2593723 CTATTTGAAGTATTTTTTACACTATTTGTTCAAAAATGTCTTCTCAAAATTATTTTTTCAG
65 CTGCTTGAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
*
2593784 GAACTACTGTAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCATCAATTTTGTTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAT-AATTTTGTTGACAGTGCATC
* *
2593849 CTGCTTGAAGCGTTTTTAACACTATTTGTTCAAAACCGTCTTCTCAAAATTATTTTTTCAG
65 CTGCTTGAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* ** ** * * *
2593910 GAACTACTATAGAAAAAGAGTGTCCGTGTGGGAGCTTTTTTCAGTAA-TTTGGTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCA-TAATTTTGTTGACAGTGCATC
* * * * *
2593974 CTGCTTGAAGCATTTTTAACATTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTTCAA
65 CTGCTTGAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
2594035 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
2594052 AAAACCAAAA
Statistics
Matches: 349, Mismatches: 42, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
124 1 0.00
125 187 0.54
126 160 0.46
127 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCATAATTTTGTTGACAGTGCATCC
TGCTTGAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:2594002 original size:251 final size:250
Alignment explanation
Indices: 2593533--2594051 Score: 720
Period size: 251 Copynumber: 2.1 Consensus size: 250
2593523 TGCCAAACAT
* *
2593533 GAACTACTGTAGAAAAATAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
* *
2593598 CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAATGTATTCTCAAAATCATTTTTCAGGAACT
66 CTGCTTGAAGCATTTTTAACACTATTTATTCAGAAACGTATTCTCAAAATCATTTTTCAGGAACT
* * * * *
2593663 ATTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCGATTTTGTTGACAGTGCATCCTATT
131 ACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATC-AATTTGGTGACAGTGCATCCTACT
* * * *
2593728 TGAAGTATTTTTTACACTATTTGTTCAAAAATGTCTTCTCAAAATTATTTTTTCAG
195 TGAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
**
2593784 GAACTACTGTAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCA-TCAATTTTGTTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCAGT-AATTTTACTGACAGTGCAT
* * * *
2593848 CCTGCTTGAAGCGTTTTTAACACTATTTGTTCA-AAACCGTCTTCTCAAAATTATTTTTTCAGGA
65 CCTGCTTGAAGCATTTTTAACACTATTTATTCAGAAA-CGTATTCTCAAAATCA-TTTTTCAGGA
* ** *
2593912 ACTACTATAGAAAAAGAGTGTCCGTGTGGGAGCTTTTTTCAGT-AATTTGGTGATAGTGCATCCT
128 ACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTGGTGACAGTGCATCCT
* * * * *
2593976 GCTTGAAGCATTTTTAACATTATTTGTTCAGAACCGTCTTCTTAAAATTATTTTTTCAA
192 ACTTGAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
2594035 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
2594052 AAAACCAAAA
Statistics
Matches: 236, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
250 4 0.02
251 185 0.78
252 46 0.19
253 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (250 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTAAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
CTGCTTGAAGCATTTTTAACACTATTTATTCAGAAACGTATTCTCAAAATCATTTTTCAGGAACT
ACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTGGTGACAGTGCATCCTACTT
GAAGCATTTTTAACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:2594160 original size:34 final size:33
Alignment explanation
Indices: 2594119--2594217 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
2594109 TAAGAAAAAG
2594119 CTAAACCCAAATTTAATTAATTTTCTTAAAAACA
1 CTAAACCCAAATTTAATTAATTTT-TTAAAAACA
* * * * *
2594153 CTGAACCCAAAATTAATTAATTTATTTAGAACCC
1 CTAAACCCAAATTTAATTAATTT-TTTAAAAACA
** *
2594187 CTAAACCCTGATTTAATTAATTTTTAAAAAA
1 CTAAACCCAAATTTAATTAATTTTTTAAAAA
2594218 AGAGCACTAG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
33 5 0.10
34 46 0.88
35 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.35
Consensus pattern (33 bp):
CTAAACCCAAATTTAATTAATTTTTTAAAAACA
Found at i:2594289 original size:21 final size:21
Alignment explanation
Indices: 2594264--2594329 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
2594254 AAAGCCTAGG
2594264 ACCCTAAATTATTTTAACAAA
1 ACCCTAAATTATTTTAACAAA
* *** **
2594285 ACCCTAAA-CACTACAAACCTA
1 ACCCTAAATTA-TTTTAACAAA
2594306 ACCCTAAATTATTTTAACAAA
1 ACCCTAAATTATTTTAACAAA
2594327 ACC
1 ACC
2594330 TTAACCAAAA
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (21 bp):
ACCCTAAATTATTTTAACAAA
Found at i:2596089 original size:32 final size:32
Alignment explanation
Indices: 2596053--2596115 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2596043 TTTTTAAAAT
2596053 GAGTTCCTAAATTTTGTTTGTTTATGTTCATG
1 GAGTTCCTAAATTTTGTTTGTTTATGTTCATG
2596085 GAGTTCCTAAATTTTGTTTGTTTATGTTCAT
1 GAGTTCCTAAATTTTGTTTGTTTATGTTCAT
2596116 TTCGATGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.17, T:0.54
Consensus pattern (32 bp):
GAGTTCCTAAATTTTGTTTGTTTATGTTCATG
Found at i:2597188 original size:27 final size:27
Alignment explanation
Indices: 2597152--2597311 Score: 123
Period size: 27 Copynumber: 6.3 Consensus size: 27
2597142 AAGAAAAATG
*
2597152 TAAATTAAAATGGAAAGAAAGATAATT
1 TAAATGAAAATGGAAAGAAAGATAATT
2597179 TAAATGAAAA-GAGAAA-AAA-ATTAAATT
1 TAAATGAAAATG-GAAAGAAAGA-T-AATT
2597206 TAAATG-AAATGAGAAA-AAA-A-AA-T
1 TAAATGAAAATG-GAAAGAAAGATAATT
* *
2597229 TAAATTAAAATGGAAAGAAATATAATT
1 TAAATGAAAATGGAAAGAAAGATAATT
*
2597256 TAAATG-AAATGG---GGAAGA-AA-T
1 TAAATGAAAATGGAAAGAAAGATAATT
** *
2597277 TAAATTTAAATGGAAAAAAAGATAATT
1 TAAATGAAAATGGAAAGAAAGATAATT
2597304 TAAATGAA
1 TAAATGAA
2597312 GTAAGAAAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.06
22 8 0.07
23 14 0.13
24 10 0.09
25 6 0.06
26 18 0.17
27 46 0.43
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.24
Consensus pattern (27 bp):
TAAATGAAAATGGAAAGAAAGATAATT
Found at i:2597234 original size:29 final size:27
Alignment explanation
Indices: 2597175--2597248 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 27
2597165 AAAGAAAGAT
*
2597175 AATTTAAATGAAAAGAGAAAAAAATTA
1 AATTTAAATGAAAAGAAAAAAAAATTA
2597202 AATTTAAATGAAATGAGAAAAAAAAATTA
1 AATTTAAATGAAA--AGAAAAAAAAATTA
* *
2597231 AATTAAAATGGAAAGAAA
1 AATTTAAATGAAAAGAAA
2597249 TATAATTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 18 0.43
29 24 0.57
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (27 bp):
AATTTAAATGAAAAGAAAAAAAAATTA
Found at i:2597238 original size:77 final size:76
Alignment explanation
Indices: 2597152--2597428 Score: 260
Period size: 77 Copynumber: 3.8 Consensus size: 76
2597142 AAGAAAAATG
*
2597152 TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAGAAAAAAATTAAATTTAAATGAAATG
1 TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAATG
2597217 AGAAAAAAAAA
66 AGAAAAAAAAA
* * * *
2597228 TTAAATTAAAATGGAAAGAAATATAATTTAAATGAAATGGGGAAGAAATTAAA-TT---T-AAAT
1 -TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAAT
*
2597288 G-GAAAAAAAGA
65 GAGAAAAAAAAA
* * * * *
2597299 T-AATTTAAATGAAGTAAGAAA-A-AA-TTAAATTTACATG-G--AAAAA-T-AATATAAATGAA
1 TAAATTAAAATG--GAAAGAAAGATAATTTAAA-TGAAATGAGAAAAAAATTAAATTTAAATGAA
*
2597355 ATGAGAAAAATAAA
63 ATGAGAAAAAAAAA
* * * * *
2597369 TAAATGAAAATGGGAAGATAGATAATTTAAATGAAATGAGAAAAATATTAAATTAAAATG
1 TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATG
2597429 TAAACAAAGA
Statistics
Matches: 159, Mismatches: 23, Indels: 37
0.73 0.11 0.17
Matches are distributed among these distances:
64 2 0.01
65 2 0.01
66 4 0.03
68 7 0.04
69 27 0.17
70 12 0.08
71 31 0.19
72 11 0.07
73 1 0.01
74 4 0.03
75 1 0.01
76 10 0.06
77 47 0.30
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (76 bp):
TAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAATG
AGAAAAAAAAA
Found at i:2597288 original size:48 final size:48
Alignment explanation
Indices: 2597202--2597610 Score: 329
Period size: 48 Copynumber: 8.5 Consensus size: 48
2597192 AAAAAAATTA
* *
2597202 AATTTAAATGAAATGAGAAAAAAAAATTAAATTAAAATGGAAAGAAATAT
1 AATTTAAATGAAAT--GAAAAAAAAATTAAATTAAAATGGAAAAAAAGAT
*** * *
2597252 AATTTAAATGAAATGGGGAAGAAATTAAATTTAAATGGAAAAAAAGAT
1 AATTTAAATGAAATGAAAAAAAAATTAAATTAAAATGGAAAAAAAGAT
* * * *
2597300 AATTTAAATGAAGT-AAGAAAAAATTAAATTTACATGG---AAAA-AT
1 AATTTAAATGAAATGAAAAAAAAATTAAATTAAAATGGAAAAAAAGAT
* * * * *
2597343 AATATAAATGAAATGAGAAAAATAAA-TAAATGAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGA-AAAAA-AAATTAAATTAAAATGGAAAAAAAGAT
* * * *
2597392 AATTTAAATGAAATGAGAAAAATATTAAATTAAAATGTAAACAAAGAT
1 AATTTAAATGAAATGAAAAAAAAATTAAATTAAAATGGAAAAAAAGAT
* * *
2597440 AATTTAAATGAAATGAGAAAAAAATTTAATTTTAAAATGTAAAAAAAGAT
1 AATTTAAATGAAATGA-AAAAAAAATTAA-ATTAAAATGGAAAAAAAGAT
* * *
2597490 AATTTAAATGAAATG-AGAAAAAATATAAA-TGAAATGAGAAAAAAA-TT
1 AATTTAAATGAAATGAAAAAAAAAT-TAAATTAAAATG-GAAAAAAAGAT
* * * * * *
2597537 AAATTAAAATGGGAA-GATAGATAAATTAAA-TAAAATGAGAAAAAAATA-
1 -AATTTAAAT-GAAATGAAAAAAAAATTAAATTAAAATG-GAAAAAAAGAT
*
2597585 AATTTAAATGAAATAGAAATAAAAAT
1 AATTTAAATGAAAT-GAAAAAAAAAT
2597611 GGAAATGGAA
Statistics
Matches: 289, Mismatches: 52, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
43 14 0.05
44 5 0.02
45 14 0.05
46 6 0.02
47 36 0.12
48 130 0.45
49 37 0.13
50 47 0.16
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.25
Consensus pattern (48 bp):
AATTTAAATGAAATGAAAAAAAAATTAAATTAAAATGGAAAAAAAGAT
Found at i:2597341 original size:21 final size:21
Alignment explanation
Indices: 2597221--2597594 Score: 73
Period size: 21 Copynumber: 16.0 Consensus size: 21
2597211 GAAATGAGAA
*
2597221 AAAAAAATTAAATTAAAATGG
1 AAAAAAATTAAATTTAAATGG
* *
2597242 AAAGAAA-TATAATTTAAATGA
1 AAAAAAATTA-AATTTAAATGG
2597263 AATGGGGAAGAAATTAAATTTAAATGG
1 AA-----AA-AAATTAAATTTAAATGG
*
2597290 AAAAAAA-GATAATTTAAATGAAG
1 AAAAAAATTA-AATTTAAATG--G
*
2597313 TAAGAAAAAATTAAATTTACATGG
1 --A-AAAAAATTAAATTTAAATGG
*
2597337 AAAAATAATATAAA-TGAAATGAG
1 AAAAA-AAT-TAAATTTAAATG-G
* **
2597360 AAAAATAAATAAATGAAAATGGG
1 AAAAA-AATTAAATTTAAAT-GG
*
2597383 AAGATAGATAATTTAAA-TGAAATGAG
1 AA-A-A-A-AA-TTAAATTTAAATG-G
* * *
2597409 AAAAATATTAAATTAAAATGTAA
1 AAAAAAATTAAATTTAAATG--G
*
2597432 ACAAAGATAATTTAAA-TGAAATGAG
1 A-AAA-A-AA-TTAAATTTAAATG-G
* *
2597457 AAAAAAATTTAATTTTAAAATGT
1 AAAAAAA-TTAAATTT-AAATGG
*
2597480 AAAAAAA-GATAATTTAAATGAAATG
1 AAAAAAATTA-AATTTAAATG----G
*
2597505 AGAAAAAATATAAA-TGAAATGAG
1 A-AAAAAAT-TAAATTTAAATG-G
*
2597528 AAAAAAATTAAATTAAAATGGG
1 AAAAAAATTAAATTTAAAT-GG
*
2597550 AAGATAGATAAATTAAA-TAAAATGAG
1 -A-A-A-A-AAATTAAATTTAAATG-G
2597576 AAAAAAA-TAAATTTAAATG
1 AAAAAAATTAAATTTAAATG
2597595 AAATAGAAAT
Statistics
Matches: 270, Mismatches: 33, Indels: 100
0.67 0.08 0.25
Matches are distributed among these distances:
20 7 0.03
21 58 0.21
22 47 0.17
23 38 0.14
24 17 0.06
25 11 0.04
26 54 0.20
27 35 0.13
28 3 0.01
ACGTcount: A:0.61, C:0.01, G:0.13, T:0.25
Consensus pattern (21 bp):
AAAAAAATTAAATTTAAATGG
Found at i:2597396 original size:140 final size:144
Alignment explanation
Indices: 2597206--2597608 Score: 404
Period size: 140 Copynumber: 2.8 Consensus size: 144
2597196 AAATTAAATT
* * *
2597206 TAAATGAAATGAGAAAAAAAAATTAAATTAAAATGGAAAGAAATATAATTTAAATGAAATGGGGA
1 TAAATGAAATGAG-AAAAAAAA-TAAATGAAAATGGAAAGAAAGATAATTTAAATGAAAT-GAGA
* * *
2597271 AGAA-ATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAGTAAG-AAAAAA-TTAAATTT-A
63 AAAATATTAAATTAAAATGGAAAAAAAGATAATTTAAATGAAATAAGAAAAAAATTTAAATTTAA
* *
2597332 CATG-GAAAA-ATAATA
128 AATGAAAAAAGATAATA
* *
2597347 TAAATGAAATGAGAAAAATAAATAAATGAAAATGGGAAGATAGATAATTTAAATGAAATGAGAAA
1 TAAATGAAATGAGAAAAA-AAATAAATGAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAA
* * * *
2597412 AATATTAAATTAAAATGTAAACAAAGATAATTTAAATGAAATGAGAAAAAAATTTAATTTTAAAA
65 AATATTAAATTAAAATGGAAAAAAAGATAATTTAAATGAAATAAGAAAAAAATTTAAATTTAAAA
*
2597477 TGTAAAAAAAGATAATT
130 TG--AAAAAAGATAATA
* *
2597494 TAAATGAAATGAGAAAAAATATAAATG-AAATGAGAAA-AAA-ATTAAATTAAAATGGGAAGAT-
1 TAAATGAAATGAGAAAAAAAATAAATGAAAATG-GAAAGAAAGA-T-AATTTAAAT--GAA-ATG
* *
2597555 AG-ATAA-ATTAAA-TAAAATGAGAAAAAAATA-AATTTAAATGAAAT-AGAAATAAAA
60 AGAAAAATATTAAATTAAAATG-GAAAAAAAGATAATTTAAATGAAATAAGAAA-AAAA
2597609 ATGGAAATGG
Statistics
Matches: 222, Mismatches: 23, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
139 6 0.03
140 75 0.34
141 22 0.10
142 7 0.03
143 4 0.02
144 6 0.03
145 33 0.15
146 36 0.16
147 26 0.12
148 5 0.02
149 2 0.01
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (144 bp):
TAAATGAAATGAGAAAAAAAATAAATGAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAA
ATATTAAATTAAAATGGAAAAAAAGATAATTTAAATGAAATAAGAAAAAAATTTAAATTTAAAAT
GAAAAAAGATAATA
Found at i:2597595 original size:21 final size:21
Alignment explanation
Indices: 2597500--2597595 Score: 77
Period size: 21 Copynumber: 4.3 Consensus size: 21
2597490 AATTTAAATG
*
2597500 AAATGAGAAAAAATATAAA-TG
1 AAATGAGAAAAAA-ATAAATTT
*
2597521 AAATGAGAAAAAAATTAAATTA
1 AAATGAGAAAAAAA-TAAATTT
* * *
2597543 AAATGGGAAGATAGATAAATTAAAT
1 AAATGAGAA-AAAAATAAATT---T
2597568 AAAATGAGAAAAAAATAAATTT
1 -AAATGAGAAAAAAATAAATTT
2597590 AAATGA
1 AAATGA
2597596 AATAGAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 23 0.38
22 16 0.27
23 3 0.05
25 9 0.15
26 8 0.13
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.22
Consensus pattern (21 bp):
AAATGAGAAAAAAATAAATTT
Found at i:2597595 original size:69 final size:71
Alignment explanation
Indices: 2597444--2597587 Score: 204
Period size: 69 Copynumber: 2.1 Consensus size: 71
2597434 AAAGATAATT
* * * *
2597444 TAAATGAAATGAGAAAAAAATTTAATTTTAAAATGTAAAAAAAGATAATTTAAATGAAATGAGAA
1 TAAATGAAATGAGAAAAAAATTTAATATTAAAATGGAAAAAAAGATAAATTAAATAAAATGAGAA
2597509 AAAATA
66 AAAATA
* * *
2597515 TAAATGAAATGAGAAAAAAA-TTAA-ATTAAAATGGGAAGATAGATAAATTAAATAAAATGAGAA
1 TAAATGAAATGAGAAAAAAATTTAATATTAAAATGGAAAAAAAGATAAATTAAATAAAATGAGAA
2597578 AAAA-A
66 AAAATA
2597583 TAAAT
1 TAAAT
2597588 TTAAATGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 6 0.09
69 36 0.55
70 4 0.06
71 20 0.30
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (71 bp):
TAAATGAAATGAGAAAAAAATTTAATATTAAAATGGAAAAAAAGATAAATTAAATAAAATGAGAA
AAAATA
Found at i:2597648 original size:21 final size:22
Alignment explanation
Indices: 2597624--2597704 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
2597614 AATGGAATGG
*
2597624 AATGAAATGGAAATTC-AAATA
1 AATGAAATAGAAATTCAAAATA
2597645 AATGAAATAGAAATTCAAAATA
1 AATGAAATAGAAATTCAAAATA
* * * ** *
2597667 AACGTAATTGAAATAGAAATAGA
1 AATGAAATAGAAATTCAAA-ATA
2597690 AATAGAAATAGAAAT
1 AAT-GAAATAGAAAT
2597705 GAAATGAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 15 0.32
22 19 0.40
23 4 0.09
24 9 0.19
ACGTcount: A:0.60, C:0.04, G:0.14, T:0.22
Consensus pattern (22 bp):
AATGAAATAGAAATTCAAAATA
Found at i:2597693 original size:12 final size:12
Alignment explanation
Indices: 2597676--2597713 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
2597666 AAACGTAATT
2597676 GAAATAGAAATA
1 GAAATAGAAATA
2597688 GAAATAGAAATA
1 GAAATAGAAATA
2597700 GAAAT-GAAAT-
1 GAAATAGAAATA
2597710 GAAA
1 GAAA
2597714 AAAAAAGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.15
11 5 0.19
12 17 0.65
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (12 bp):
GAAATAGAAATA
Found at i:2597699 original size:18 final size:16
Alignment explanation
Indices: 2597590--2597713 Score: 67
Period size: 17 Copynumber: 7.5 Consensus size: 16
2597580 AAATAAATTT
*
2597590 AAATGAAATAGAAATAA
1 AAATGAAATAGAAAT-G
*
2597607 AAATGGAAAT-GGAATG
1 AAAT-GAAATAGAAATG
* * *
2597623 GAATGAAATGGAAATTC
1 AAATGAAATAGAAA-TG
2597640 AAAT-AAAT-GAAATAG
1 AAATGAAATAGAAAT-G
* * *
2597655 AAATTCAAA-ATAAACG
1 AAA-TGAAATAGAAATG
*
2597671 TAATTGAAATAGAAATAG
1 -AAATGAAATAGAAAT-G
2597689 AAATAGAAATAGAAATG
1 AAAT-GAAATAGAAATG
2597706 AAATGAAA
1 AAATGAAA
2597714 AAAAAAGAGG
Statistics
Matches: 82, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
14 1 0.01
15 12 0.15
16 20 0.24
17 32 0.39
18 17 0.21
ACGTcount: A:0.60, C:0.02, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGAAATAGAAATG
Found at i:2597710 original size:5 final size:5
Alignment explanation
Indices: 2597590--2597713 Score: 54
Period size: 6 Copynumber: 22.6 Consensus size: 5
2597580 AAATAAATTT
* * * *
2597590 AAATG AAATAG AAATAA AAATGG AAATG GAATG GAATG AAATGG AAATTC
1 AAATG AAAT-G AAAT-G AAAT-G AAATG AAATG AAATG AAAT-G AAA-TG
* * *
2597640 AAAT- AAATG AAATAG AAATTCA AAAT- AAACG TAATTG AAATAG AAATAG
1 AAATG AAATG AAAT-G AAA-T-G AAATG AAATG -AAATG AAAT-G AAAT-G
2597689 AAATAG AAATAG AAATG AAATG AAA
1 AAAT-G AAAT-G AAATG AAATG AAA
2597714 AAAAAAGAGG
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
4 7 0.07
5 34 0.35
6 52 0.53
7 5 0.05
ACGTcount: A:0.60, C:0.02, G:0.17, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:2598010 original size:19 final size:18
Alignment explanation
Indices: 2597972--2598011 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2597962 TTAAATGACC
**
2597972 GAATTGAAAAAAAATTTT
1 GAATTGAAAAAAAAAATT
2597990 GAATTGAAAAAAAAAAATT
1 GAATTG-AAAAAAAAAATT
2598009 GAA
1 GAA
2598012 ATGACACTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (18 bp):
GAATTGAAAAAAAAAATT
Found at i:2598094 original size:19 final size:18
Alignment explanation
Indices: 2598059--2598098 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2598049 TATATTAGGA
* *
2598059 AAAAAATAAATTTAAATG
1 AAAAAATAAAATGAAATG
2598077 AAAAAATAATAATGAAATG
1 AAAAAATAA-AATGAAATG
2598096 AAA
1 AAA
2598099 TGCTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
AAAAAATAAAATGAAATG
Found at i:2598097 original size:5 final size:5
Alignment explanation
Indices: 2598087--2598208 Score: 59
Period size: 5 Copynumber: 22.4 Consensus size: 5
2598077 AAAAAATAAT
* *
2598087 AATGA AATGA AATGCTA AATGAA ATATGA ATATGA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
* * *
2598139 AATGA ATATGA AATTA AATGA AATGTTA AATGA ATATAA AATAA AATG-
1 AATGA A-ATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA
* *
2598187 -ATGA TTATGA AATGG AATGA AA
1 AATGA -AATGA AATGA AATGA AA
2598209 GTTTAAATGA
Statistics
Matches: 93, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.03
5 49 0.53
6 26 0.28
7 15 0.16
ACGTcount: A:0.53, C:0.01, G:0.16, T:0.30
Consensus pattern (5 bp):
AATGA
Found at i:2598124 original size:30 final size:31
Alignment explanation
Indices: 2598071--2598130 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
2598061 AAAATAAATT
2598071 TAAATGAAAAAATAATAATGAAATGAAATGC
1 TAAATGAAAAAATAATAATGAAATGAAATGC
*
2598102 TAAATG-AAATATGAAT-ATGAAATGAAATG
1 TAAATGAAAAAAT-AATAATGAAATGAAATG
2598131 TAATTTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (31 bp):
TAAATGAAAAAATAATAATGAAATGAAATGC
Found at i:2598152 original size:28 final size:28
Alignment explanation
Indices: 2598112--2598187 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
2598102 TAAATGAAAT
* * *
2598112 ATGAATATGAAATGAAATGTAAT-TTGTA
1 ATGAATATGAAATAAAATGAAATGTT-AA
*
2598140 ATGAATATGAAATTAAATGAAATGTTAA
1 ATGAATATGAAATAAAATGAAATGTTAA
*
2598168 ATGAATATAAAATAAAATGA
1 ATGAATATGAAATAAAATGA
2598188 TGATTATGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (28 bp):
ATGAATATGAAATAAAATGAAATGTTAA
Found at i:2600552 original size:29 final size:29
Alignment explanation
Indices: 2600519--2600577 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2600509 GATATTTTTC
2600519 CATCGGCACCTCCGGTGACGCAATATCCA
1 CATCGGCACCTCCGGTGACGCAATATCCA
2600548 CATCGGCACCTCCGGTGACGCAATATCCA
1 CATCGGCACCTCCGGTGACGCAATATCCA
2600577 C
1 C
2600578 TAACTCCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.17
Consensus pattern (29 bp):
CATCGGCACCTCCGGTGACGCAATATCCA
Found at i:2601174 original size:90 final size:90
Alignment explanation
Indices: 2601080--2601399 Score: 527
Period size: 90 Copynumber: 3.6 Consensus size: 90
2601070 TACGAATTAA
* * * *
2601080 ATTAAATTTACAGATACAAAAAAATACAAACATTCTAAGAAATTAATGCACAAAAATATAAAAAT
1 ATTAAATTTAAAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
2601145 GAAACCTTAAATCCCAAACAACTAT
66 GAAACCTTAAATCCCAAACAACTAT
2601170 ATTAAATTTAAAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
1 ATTAAATTTAAAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
2601235 GAAACCTTAAATCCCAAACAACTAT
66 GAAACCTTAAATCCCAAACAACTAT
2601260 ATTAAATTTAAAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
1 ATTAAATTTAAAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
* * *
2601325 GATACCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCCAAACAACTAT
* *
2601350 ATTGAATTTATAA-ATATATAAAAATACAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTA-AAGATATAAAAAAATACAAACATTCT-AAGAAATTAATACA
2601400 ATTATTTTGA
Statistics
Matches: 219, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
90 211 0.96
91 8 0.04
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.25
Consensus pattern (90 bp):
ATTAAATTTAAAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
GAAACCTTAAATCCCAAACAACTAT
Found at i:2601188 original size:48 final size:48
Alignment explanation
Indices: 2601135--2601281 Score: 141
Period size: 48 Copynumber: 3.2 Consensus size: 48
2601125 ATGCACAAAA
2601135 ATATAAAAATGAAACCTTAAATCCCAAACAACTATATTAAATTTAAAG
1 ATATAAAAATGAAACCTTAAATCCCAAACAACTATATTAAATTTAAAG
* * * * * **
2601183 ATATAAAAA--AATA-C-AAACATTCTAAGA-AA-T-TAATACA-CGAAA-
1 ATATAAAAATGAA-ACCTTAA-ATCCCAA-ACAACTATATTAAATTTAAAG
2601225 ATATAAAAATGAAACCTTAAATCCCAAACAACTATATTAAATTTAAAG
1 ATATAAAAATGAAACCTTAAATCCCAAACAACTATATTAAATTTAAAG
2601273 ATATAAAAA
1 ATATAAAAA
2601282 AATACAAACA
Statistics
Matches: 73, Mismatches: 14, Indels: 24
0.66 0.13 0.22
Matches are distributed among these distances:
42 9 0.12
43 5 0.07
44 15 0.21
45 6 0.08
46 15 0.21
47 5 0.07
48 18 0.25
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (48 bp):
ATATAAAAATGAAACCTTAAATCCCAAACAACTATATTAAATTTAAAG
Found at i:2603252 original size:20 final size:20
Alignment explanation
Indices: 2603227--2603267 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2603217 CGACCTTTCG
* *
2603227 CCATTGCCGTTCATCGACCA
1 CCATTGCCATTCATCAACCA
*
2603247 CCATTGCTATTCATCAACCA
1 CCATTGCCATTCATCAACCA
2603267 C
1 C
2603268 TGTCAGCCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.10, T:0.27
Consensus pattern (20 bp):
CCATTGCCATTCATCAACCA
Found at i:2612650 original size:11 final size:11
Alignment explanation
Indices: 2612634--2612666 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
2612624 TTTTAAATAA
2612634 TATTTTTTTAT
1 TATTTTTTTAT
2612645 TATTTTTTTAT
1 TATTTTTTTAT
2612656 TATTTTATTTA
1 TATTTT-TTTA
2612667 GTATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTTTTTAT
Found at i:2615414 original size:13 final size:13
Alignment explanation
Indices: 2615396--2615420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2615386 TTTATGAACT
2615396 TTTTATTTTTTTA
1 TTTTATTTTTTTA
2615409 TTTTATTTTTTT
1 TTTTATTTTTTT
2615421 GAATATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:2621797 original size:39 final size:39
Alignment explanation
Indices: 2621739--2621882 Score: 158
Period size: 40 Copynumber: 3.7 Consensus size: 39
2621729 AAATATTTTT
2621739 ATTTTTT-ATTTTTATAA-TTTTAAAATACTTTTTTTAAA
1 ATTTTTTAATTTTTA-AATTTTTAAAATACTTTTTTTAAA
2621777 ATTTTTTAAATTTTTAAATTTTTTAAAAATAC--TTTTTAAA
1 ATTTTTT-AATTTTTAAA-TTTTT-AAAATACTTTTTTTAAA
* *
2621817 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
1 ATTTTTTAATTTT-TAA-ATTTTTAAAATACTTTTTTTAAA
*
2621858 ATTTTTT--GTTTT-AATTTTTAAAATA
1 ATTTTTTAATTTTTAAATTTTTAAAATA
2621883 AATTTTTGGT
Statistics
Matches: 92, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
36 12 0.13
37 1 0.01
38 7 0.08
39 18 0.20
40 28 0.30
41 19 0.21
42 7 0.08
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (39 bp):
ATTTTTTAATTTTTAAATTTTTAAAATACTTTTTTTAAA
Found at i:2621871 original size:40 final size:40
Alignment explanation
Indices: 2621739--2621864 Score: 161
Period size: 39 Copynumber: 3.2 Consensus size: 40
2621729 AAATATTTTT
* *
2621739 ATTTTTTATTTTTATAA--TTTTAAAATACTTTTTTTAAA
1 ATTTTTTAATTTTAAAATTTTTTAAAATACTTTTTTTAAA
*
2621777 ATTTTTTAAATTTTTAAATTTTTTAAAAATAC--TTTTTAAA
1 ATTTTTT-AATTTTAAAATTTTTT-AAAATACTTTTTTTAAA
*
2621817 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
1 ATTTTTTAATTTTAAAAT-TTTTTAAAATACTTTTTTTAAA
2621858 ATTTTTT
1 ATTTTTT
2621865 GTTTTAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
38 7 0.09
39 24 0.32
40 19 0.25
41 18 0.24
42 7 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTAATTTTAAAATTTTTTAAAATACTTTTTTTAAA
Found at i:2622664 original size:18 final size:18
Alignment explanation
Indices: 2622631--2622665 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2622621 TTTTTTAGTA
* *
2622631 AAAATAAATATGAAAAAT
1 AAAATAAAAATAAAAAAT
2622649 AAAATAAAAATAAAAAA
1 AAAATAAAAATAAAAAA
2622666 GAATCGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAAAAAAT
Found at i:2623040 original size:16 final size:18
Alignment explanation
Indices: 2623019--2623052 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2623009 CTTGGTTTAA
2623019 TGTATTTG-ATTT-ATTT
1 TGTATTTGTATTTGATTT
2623035 TGTATTTGTATTTGATTT
1 TGTATTTGTATTTGATTT
2623053 GTTTTGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.68
Consensus pattern (18 bp):
TGTATTTGTATTTGATTT
Found at i:2623064 original size:22 final size:22
Alignment explanation
Indices: 2623019--2623065 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2623009 CTTGGTTTAA
*
2623019 TGTATTTGATTTATTTTGTATT
1 TGTATTTGATTTATTTTGGATT
* *
2623041 TGTATTTGATTTGTTTTGGGTT
1 TGTATTTGATTTATTTTGGATT
2623063 TGT
1 TGT
2623066 TTCTGTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.66
Consensus pattern (22 bp):
TGTATTTGATTTATTTTGGATT
Found at i:2623747 original size:127 final size:126
Alignment explanation
Indices: 2623533--2623949 Score: 577
Period size: 127 Copynumber: 3.3 Consensus size: 126
2623523 AAGATTCATC
** * * ** *
2623533 GTTTTAATTTGCTTCACTGCAACTTCAGGGAGATAGGGTT-AGTAGCTTC-AGTCTGCTGCACTA
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA-GATTGA-TTTCTTCTA-TCTGCTCCACTA
* *
2623596 CTGCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
63 CTGCTTAGGGAGATAAGATTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
** *
2623660 GTTTTAATCTACTCCACTACAACTTCAGGGAGATATGATTGATTTCTTCTATCTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA-GATTGATTTCTTCTATCTGCTCCACTACT
* * * *
2623725 GCTTAGGGAGATAAGATTTGATGCGATCTGCTCCACTATTGCTTAGAGAGATAAAATCAGTG
65 GCTTAGGGAGATAAGATTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
* * * *
2623787 GTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGAATTGATTTCTTTTGTCTGCTCTACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG-ATTGATTTCTTCTATCTGCTCCACTACT
*
2623852 GCTTAAGGAGATAAGATTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
65 GCTTAGGGAGATAAGATTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
*
2623914 GTTTTAATCCGCTCCACTGCAACTTCAGTGAGATAG
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
2623950 GATTACTGGC
Statistics
Matches: 258, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
126 1 0.00
127 255 0.99
128 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (126 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGATTGATTTCTTCTATCTGCTCCACTACTG
CTTAGGGAGATAAGATTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG
Found at i:2623908 original size:40 final size:40
Alignment explanation
Indices: 2623584--2623908 Score: 224
Period size: 40 Copynumber: 7.8 Consensus size: 40
2623574 GTAGCTTCAG
* * * *
2623584 TCTGCTGCACTACTGCTTAGAGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGATTCGA
* **
2623624 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-T-GATTCGA
* ** * *
2623667 TCTACTCCACTACAACTTCAGGGAGATATGATTGATTT-CTTCTA
1 TCTGCTCCACTACTGCTT-AGGGAGATA--A--GATTTGATTCGA
*
2623711 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGATTCGA
* * * * * **
2623751 TCTGCTCCACTATTGCTTAGAGAGATAAAATCAGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGAT---TTGATTCGA
* * ** *
2623794 TCCGCTCCACTGCAACTTTAGGGAGAT-AGAATTGATTTCTTTTG-
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGATTTGA-TTC----GA
* * *
2623838 TCTGCTCTACTACTGCTTAAGGAGATAAGATTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGATTCGA
2623878 TCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGAT
2623909 CTGTGGTTTT
Statistics
Matches: 216, Mismatches: 49, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
39 6 0.03
40 90 0.42
41 4 0.02
42 1 0.00
43 55 0.25
44 54 0.25
46 2 0.01
47 1 0.00
48 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGATTCGA
Found at i:2624023 original size:44 final size:44
Alignment explanation
Indices: 2623945--2624304 Score: 179
Period size: 44 Copynumber: 8.2 Consensus size: 44
2623935 ACTTCAGTGA
* * *
2623945 GATAGGATTACTGGCTTCAATCTACTCCGCTGTAATCTCAAGGG
1 GATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGG
* * * *
2623989 GATAAGATTTCTGGCTTTAATCTGCTCCGTTGTAATCTCATGGA
1 GATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGG
* * *
2624033 GATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCT-TAGGG
1 GATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGG
* * ** ** *
2624076 AGATAAGATTTGAAAT-TCTTCGGTCTATTCCACTGTAATCTC-AGGG
1 -GATAAGATTT---CTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGG
* * * * ** ** *
2624122 AGATAAGA--CCT-GATACAATCTACTCTACTGTAAT-TTTAGAGA
1 -GATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAG-GG
** * * * *
2624164 GATAAGATCCTT-T-ATTTTAAACCGCTCCACTGTAATCTC-AGGG
1 GATAAGAT--TTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGG
* * * * *
2624207 AAATAGGATTACCGGCTTCAATCTGCTCCGCTGTAATCT-AAGGAA
1 -GATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAGG-G
*
2624252 GATAAGATTTCTGGCTTCAATCTGCTCCACTGTAA-CATC-AGGG
1 GATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAATC-TCAAGGG
2624295 AGATAAGATT
1 -GATAAGATT
2624305 CACCATTTTC
Statistics
Matches: 236, Mismatches: 60, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 26 0.11
42 2 0.01
43 4 0.02
44 170 0.72
45 1 0.00
46 31 0.13
47 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
GATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGG
Found at i:2624279 original size:88 final size:88
Alignment explanation
Indices: 2623900--2624304 Score: 290
Period size: 88 Copynumber: 4.6 Consensus size: 88
2623890 CTGCTTAGGG
* * * * * * * *
2623900 AGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAA-CTTCAGTGAGATAGGATTACTGGCTTCA
1 AGATAAGATTTCTGGCTTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACCGGCTTCA
*
2623964 ATCTACTCCGCTGTAATCTCAAGG-
65 ATCTACTCCACTGTAATCT-AAGGA
* ** * * *
2623988 GGATAAGATTTCTGGCTTTAATCTGCTCCGTTGTAATCTCATGGAGATAAGATTTCTGGCTTCAA
1 AGATAAGATTTCTGGCTTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACCGGCTTCAA
* * * *
2624053 TCTGCTCCACTGTAACCTTAGGG
66 TCTACTCCACTGTAATCTAAGGA
* * *** ** * * *
2624076 AGATAAGATTTGAAAT-TCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAG---ACCTGATA
1 AGATAAGATTT---CTGGCTTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACCGGCTT
* * *
2624137 CAATCTACTCTACTGTAATTTTA-GA
63 CAATCTACTCCACTGTAATCTAAGGA
** * * * *
2624162 GAGATAAGATCCTT-T-ATTTTAAACCGCTCCACTGTAATCTCAGGGAAATAGGATTACCGGCTT
1 -AGATAAGAT--TTCTGGCTTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACCGGCTT
* *
2624225 CAATCTGCTCCGCTGTAATCTAAGGA
63 CAATCTACTCCACTGTAATCTAAGGA
*
2624251 AGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAA-CATCAGGGAGATAAGATT
1 AGATAAGATTTCTGGCTTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
2624305 CACCATTTTC
Statistics
Matches: 239, Mismatches: 63, Indels: 30
0.72 0.19 0.09
Matches are distributed among these distances:
85 27 0.11
86 3 0.01
87 36 0.15
88 139 0.58
89 5 0.02
90 28 0.12
91 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (88 bp):
AGATAAGATTTCTGGCTTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACCGGCTTCAA
TCTACTCCACTGTAATCTAAGGA
Found at i:2624586 original size:88 final size:88
Alignment explanation
Indices: 2624437--2624709 Score: 417
Period size: 88 Copynumber: 3.1 Consensus size: 88
2624427 AAGATTCACC
* * * *
2624437 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAAGCAAGATCTGCTATCCTCAACCAGCTCCATTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
2624502 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* *
2624525 GTCTTC-ATTCTGCTTCACTGTCGATGCAGGAAGGCACGATCTGCTATCTTCAACTAGCTCCACT
1 GTCTTCGA-TCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACT
2624589 ACAACCGAGGGAGGCAAGGTTTGT
65 ACAACCGAGGGAGGCAAGGTTTGT
* * *
2624613 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAATATCTGCTATCTTCAACCGGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
* *
2624678 CAACTGAGGGAGGTAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
2624701 -T-TTCGATCT
1 GTCTTCGATCT
2624710 TCACTGATCC
Statistics
Matches: 170, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
86 8 0.05
87 2 0.01
88 159 0.94
89 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
CAACCGAGGGAGGCAAGGTTTGT
Found at i:2626779 original size:13 final size:13
Alignment explanation
Indices: 2626757--2626806 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2626747 TGACCTCTCA
2626757 TTTT-CTTTTTTC
1 TTTTCCTTTTTTC
2626769 TTTTCCTTTTTTC
1 TTTTCCTTTTTTC
*
2626782 TTCTCTCTTTTTTC
1 TTTTC-CTTTTTTC
*
2626796 ATTTTCATTTT
1 -TTTTCCTTTT
2626807 CATTTTGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 4 0.12
13 12 0.38
14 12 0.38
15 4 0.12
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCCTTTTTTC
Found at i:2626831 original size:25 final size:25
Alignment explanation
Indices: 2626797--2626864 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
2626787 TCTTTTTTCA
*
2626797 TTTTCATTTTCATTTTGACCTTGAT
1 TTTTTATTTTCATTTTGACCTTGAT
* *** **
2626822 TTTTTATTTTTATTTTCTTCTTTTT
1 TTTTTATTTTCATTTTGACCTTGAT
*
2626847 TTTTTATTTTGATTTTGA
1 TTTTTATTTTCATTTTGA
2626865 TTTTTTTGAG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.13, C:0.09, G:0.06, T:0.72
Consensus pattern (25 bp):
TTTTTATTTTCATTTTGACCTTGAT
Found at i:2626870 original size:25 final size:25
Alignment explanation
Indices: 2626821--2626871 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
2626811 TTGACCTTGA
* *
2626821 TTTTTTATTTTTATTTTCTTCTTTT
1 TTTTTTATTTTGATTTTATTCTTTT
2626846 TTTTTTATTTTGATTTTGATT-TTTT
1 TTTTTTATTTTGATTTT-ATTCTTTT
2626871 T
1 T
2626872 GAGCGCATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (25 bp):
TTTTTTATTTTGATTTTATTCTTTT
Found at i:2631483 original size:18 final size:18
Alignment explanation
Indices: 2631450--2631484 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2631440 TTTTTTAGTA
* *
2631450 AAAATAAATATGAAAAAT
1 AAAATAAAAATAAAAAAT
2631468 AAAATAAAAATAAAAAA
1 AAAATAAAAATAAAAAA
2631485 GAATCGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAAAAAAT
Found at i:2632340 original size:16 final size:16
Alignment explanation
Indices: 2632319--2632355 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
2632309 TTGGTTCGCT
2632319 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
2632335 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
2632351 GTAAT
1 GTAAT
2632356 AGCAAATCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:2632727 original size:16 final size:16
Alignment explanation
Indices: 2632683--2632729 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
2632673 TACTATAAAA
*
2632683 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
2632699 TATTATT-AAATATAT
1 TATAATTAAAATATAT
2632714 TATAATTAAAATATAT
1 TATAATTAAAATATAT
2632730 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:2632801 original size:120 final size:121
Alignment explanation
Indices: 2632567--2632983 Score: 689
Period size: 120 Copynumber: 3.5 Consensus size: 121
2632557 ATTTAATCAT
*
2632567 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
2632632 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
2632687 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
2632751 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
2632807 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
2632871 ATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* * * * *
2632927 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATT
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
2632984 TAAAATAATT
Statistics
Matches: 280, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
119 63 0.22
120 215 0.77
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:2632849 original size:18 final size:17
Alignment explanation
Indices: 2632828--2632862 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2632818 TTATTATTAA
*
2632828 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2632846 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2632863 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2632879 original size:16 final size:15
Alignment explanation
Indices: 2632854--2632883 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2632844 ATATATAATT
2632854 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
2632869 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
2632884 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:2634035 original size:43 final size:43
Alignment explanation
Indices: 2633979--2634189 Score: 233
Period size: 43 Copynumber: 4.9 Consensus size: 43
2633969 AAGATCAGGG
* *
2633979 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGA
1 TCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
* ** * * *
2634022 TCTCTAGTGGCGCTTTGGCCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
* * *
2634065 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGA
1 TCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
* * *
2634108 TCTTTAGTGGTGCTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 TCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
*** * * **
2634151 TCTTTAACAGCGCTTTTACCAAAAACGCTACTAAAGACC
1 TCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACC
2634190 AACACCTTTA
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 138 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (43 bp):
TCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCCTGA
Found at i:2634177 original size:86 final size:86
Alignment explanation
Indices: 2633979--2634190 Score: 280
Period size: 86 Copynumber: 2.5 Consensus size: 86
2633969 AAGATCAGGG
* *
2633979 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTCTAGTGGCGCTTTGGCCAC
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTCTAGTGGCGCTTTGGCCAC
2634044 AAACGCCACTAAAGAACCTAA
66 AAACGCCACTAAAGAACCTAA
* * * **
2634065 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGATCTTTAGTGGTGCTTTTTCCAC
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTCTAGTGGCGCTTTGGCCAC
* * *
2634130 AAACGCCGCTAAAGACCCTTA
66 AAACGCCACTAAAGAACCTAA
* * * * **
2634151 TCTTTAACAGCGCTTTTACCAAAAACGCTACTAAAGACCA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCA
2634191 ACACCTTTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (86 bp):
TCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTCTAGTGGCGCTTTGGCCAC
AAACGCCACTAAAGAACCTAA
Found at i:2634199 original size:129 final size:129
Alignment explanation
Indices: 2633965--2634199 Score: 292
Period size: 129 Copynumber: 1.8 Consensus size: 129
2633955 TGGAAGCACT
* * **
2633965 GCTAAAGATCAGGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTCTAGT
1 GCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTCTAAC
* * * * *
2634030 GGCGCTTTGGCCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCC
66 AGCGCTTTGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTTCCCCACAAACGCC
* * * * * * *
2634094 GCTAAAGACCATGATCTTTAGTGGTGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAAC
1 GCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTCTAAC
* *
2634159 AGCGCTTTTACCAAAAACGCTACTAAAG-ACCAACACCTTTA
66 AGCGCTTTGACCAAAAACGCCACTAAAGAACCAA-ACCTTTA
2634200 ATGGCGTTTT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
128 4 0.05
129 83 0.95
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (129 bp):
GCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTCTAAC
AGCGCTTTGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTTCCCCACAAACGCC
Found at i:2634211 original size:86 final size:86
Alignment explanation
Indices: 2634029--2634229 Score: 204
Period size: 86 Copynumber: 2.3 Consensus size: 86
2634019 TGATCTCTAG
** * * * *
2634029 TGGCGCTTTGGCCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCC
1 TGGCGCTTTTTCCACAAACGCCACTAAAGAACCTAATCTTTAACAGCGCTTTCACCAAAAACGCC
* ** * *
2634094 GCTAAAGACCATGATCTTTAG
66 ACTAAAGACCAACACCTTTAA
* * * * * *
2634115 TGGTGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAACAGCGCTTTTACCAAAAACGCT
1 TGGCGCTTTTTCCACAAACGCCACTAAAGAACCTAATCTTTAACAGCGCTTTCACCAAAAACGCC
2634180 ACTAAAGACCAACACCTTTAA
66 ACTAAAGACCAACACCTTTAA
* ** *
2634201 TGGCGTTTTTTTTTAAAAACGCCACTAAA
1 TGGCG-CTTTTTCCACAAACGCCACTAAA
2634230 ATTGGCAGAT
Statistics
Matches: 91, Mismatches: 23, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
86 73 0.80
87 18 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (86 bp):
TGGCGCTTTTTCCACAAACGCCACTAAAGAACCTAATCTTTAACAGCGCTTTCACCAAAAACGCC
ACTAAAGACCAACACCTTTAA
Found at i:2634567 original size:21 final size:21
Alignment explanation
Indices: 2634538--2634609 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
2634528 TTTGACACTG
*
2634538 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
**
2634559 CTCTACTTCCCTCGCTATAGC
1 CTCTACTTCCCTCGCTGCAGC
*
2634580 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
*
2634601 CTGTACTTC
1 CTCTACTTC
2634610 TCTNNNNNNN
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.08, C:0.44, G:0.15, T:0.32
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:2635786 original size:9 final size:9
Alignment explanation
Indices: 2635772--2636060 Score: 87
Period size: 9 Copynumber: 29.8 Consensus size: 9
2635762 ATTAATTAAG
2635772 TTATGTAAT
1 TTATGTAAT
2635781 TTATGTATAAT
1 TTATG--TAAT
*
2635792 ATTAATGTAAG
1 -TT-ATGTAAT
2635803 TTATGTAAT
1 TTATGTAAT
2635812 TTATGAATAAT
1 TTATG--TAAT
*
2635823 TATAAAAATGTAAG
1 T-T----ATGTAAT
2635837 TTATGTAA-
1 TTATGTAAT
* *
2635845 GT-TGTAAG
1 TTATGTAAT
*
2635853 TTATGTAAG
1 TTATGTAAT
2635862 TTATGT-AT
1 TTATGTAAT
2635870 TATAT-TAAT
1 T-TATGTAAT
* *
2635879 TAAT-TAAG
1 TTATGTAAT
2635887 TTATGTAAT
1 TTATGTAAT
2635896 TTATGTATAAT
1 TTATG--TAAT
2635907 ATTAATGTAATT
1 -TT-ATGTAA-T
2635919 AGTTATGTAAT
1 --TTATGTAAT
2635930 TTATG---T
1 TTATGTAAT
2635936 TTAT-TAAT
1 TTATGTAAT
* *
2635944 TAAT-TAAG
1 TTATGTAAT
2635952 TTATGTAAT
1 TTATGTAAT
2635961 TTATGTATAAT
1 TTATG--TAAT
*
2635972 ATTAATGTAAG
1 -TT-ATGTAAT
**
2635983 CAATGTAAT
1 TTATGTAAT
2635992 TTATGTGTAAT
1 TTA--TGTAAT
*
2636003 AATTAAT-TAAG
1 --TT-ATGTAAT
2636014 TTATGTAAT
1 TTATGTAAT
2636023 TTATGTATAAT
1 TTATG--TAAT
*
2636034 ATTAATGTAAC
1 -TT-ATGTAAT
2636045 TTATGTAAT
1 TTATGTAAT
2636054 TTATGTA
1 TTATGTA
2636061 TATTAATTAA
Statistics
Matches: 215, Mismatches: 25, Indels: 80
0.67 0.08 0.25
Matches are distributed among these distances:
6 5 0.02
7 5 0.02
8 25 0.12
9 91 0.42
10 4 0.02
11 43 0.20
12 17 0.08
13 17 0.08
14 5 0.02
16 3 0.01
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (9 bp):
TTATGTAAT
Found at i:2635806 original size:31 final size:31
Alignment explanation
Indices: 2635762--2636071 Score: 326
Period size: 31 Copynumber: 10.2 Consensus size: 31
2635752 NNNNATATTA
2635762 ATTAAT-TAAGTTATGTAATTTATGTATAAT
1 ATTAATGTAAGTTATGTAATTTATGTATAAT
*
2635792 ATTAATGTAAGTTATGTAATTTATGAATAATT
1 ATTAATGTAAGTTATGTAATTTATGTATAA-T
* *
2635824 ATAAAAATGTAAGTTATGTAA-GT-TG--TAA-
1 AT--TAATGTAAGTTATGTAATTTATGTATAAT
* *
2635852 GTT-ATGTAAGTTATGT-A-TTA--TATTA-
1 ATTAATGTAAGTTATGTAATTTATGTATAAT
2635877 ATTAAT-TAAGTTATGTAATTTATGTATAAT
1 ATTAATGTAAGTTATGTAATTTATGTATAAT
* *
2635907 ATTAATGTAATTAGTTATGTAATTTATGTTTATT
1 ATTAATGT-A--AGTTATGTAATTTATGTATAAT
2635941 AATTAAT-TAAGTTATGTAATTTATGTATAAT
1 -ATTAATGTAAGTTATGTAATTTATGTATAAT
** *
2635972 ATTAATGTAAGCAATGTAATTTATGTGTAAT
1 ATTAATGTAAGTTATGTAATTTATGTATAAT
2636003 AATTAAT-TAAGTTATGTAATTTATGTATAAT
1 -ATTAATGTAAGTTATGTAATTTATGTATAAT
* *
2636034 ATTAATGTAACTTATGTAATTTATGTATATT
1 ATTAATGTAAGTTATGTAATTTATGTATAAT
2636065 AATTAAT
1 -ATTAAT
2636072 TAAATGATAT
Statistics
Matches: 237, Mismatches: 21, Indels: 42
0.79 0.07 0.14
Matches are distributed among these distances:
24 2 0.01
25 27 0.11
26 3 0.01
27 3 0.01
28 1 0.00
29 4 0.02
30 27 0.11
31 107 0.45
32 18 0.08
33 2 0.01
34 37 0.16
35 6 0.03
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTAATGTAAGTTATGTAATTTATGTATAAT
Found at i:2635852 original size:16 final size:16
Alignment explanation
Indices: 2635831--2635863 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2635821 ATTATAAAAA
2635831 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
2635847 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
2635863 T
1 T
2635864 ATGTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:2636907 original size:18 final size:18
Alignment explanation
Indices: 2636884--2636972 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
2636874 ATATATAAAT
2636884 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
2636902 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
* *
2636924 TTTTAGTCA-GTAATATA
1 TTTAAGTAATGTAATATA
2636941 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
2636959 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
2636973 GTAATATATA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.49
19 3 0.05
20 3 0.05
21 4 0.07
22 8 0.13
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:2636948 original size:39 final size:43
Alignment explanation
Indices: 2636857--2636959 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 43
2636847 AGCTAATTTT
2636857 TATTTAAGTAATGTAATATATATAAATTTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATATATATAAATTTTAAGTAATGTAATA
* *
2636900 TATTTAAGTAATGTAA-GT-TATAAATTTT-AGTCA-GTAATA
1 TATTTAAGTAATGTAATATATATAAATTTTAAGTAATGTAATA
2636939 TATTTAAGTAATGTAATATAT
1 TATTTAAGTAATGTAATATAT
2636960 TTTAGTAAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
39 22 0.40
40 5 0.09
41 11 0.20
42 1 0.02
43 16 0.29
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.45
Consensus pattern (43 bp):
TATTTAAGTAATGTAATATATATAAATTTTAAGTAATGTAATA
Found at i:2639570 original size:30 final size:30
Alignment explanation
Indices: 2639535--2639610 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
2639525 ACCGTTGAAA
*
2639535 CCCTAAACCCTAA-ACCTCAAATCCA-TAACC
1 CCCTAAACCCTAACCCCT-AAATCCATTAA-C
* *
2639565 CCCTAACCCCTTACCCCTAAATCCATTAAC
1 CCCTAAACCCTAACCCCTAAATCCATTAAC
* *
2639595 CCCTAAAGCATAACCC
1 CCCTAAACCCTAACCC
2639611 TTAACCCCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 31 0.84
31 6 0.16
ACGTcount: A:0.36, C:0.45, G:0.01, T:0.18
Consensus pattern (30 bp):
CCCTAAACCCTAACCCCTAAATCCATTAAC
Found at i:2640363 original size:14 final size:14
Alignment explanation
Indices: 2640344--2640411 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
2640334 ATGACCGTTG
2640344 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
2640358 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
2640373 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
2640386 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
2640399 AAACCTTAAATCT
1 AAACCCTAAATCT
2640412 ATACCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:2640367 original size:15 final size:15
Alignment explanation
Indices: 2640347--2640384 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2640337 ACCGTTGAAA
2640347 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
2640362 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
2640377 CCCTAAAT
1 CCCTAAAT
2640385 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:2640962 original size:41 final size:41
Alignment explanation
Indices: 2640897--2641135 Score: 223
Period size: 41 Copynumber: 5.8 Consensus size: 41
2640887 AAGATAAATA
* * * *
2640897 CATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGACAAGAG
1 CATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGACAAGAG
* * * * * *
2640938 GATTAGTGGCACTCAGTTAAAAACGCTGCTAAAGATC-CGAG
1 CATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGA-CAAGAG
* * * * *
2640979 CATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAG
1 CATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGACAAGAG
* *
2641020 CATTAGCGGCGTTCAGATAAAAACGCCGCTAAAGACACGAG
1 CATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGACAAGAG
* * *
2641061 CATTAGCGGCGCTTAGATAAAAACGCCG-TGAAAGATC-TGAA
1 CATTAGCGGCGCTCAGATAAAAACGCCGCT-AAAGA-CAAGAG
* * *
2641102 AATTAGCGGCGCTTAGATGAAAACGCCGCTAAAG
1 CATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG
2641136 GTTTAAAAAA
Statistics
Matches: 161, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.01
41 156 0.97
42 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (41 bp):
CATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGACAAGAG
Found at i:2641025 original size:82 final size:82
Alignment explanation
Indices: 2640897--2641135 Score: 257
Period size: 82 Copynumber: 2.9 Consensus size: 82
2640887 AAGATAAATA
* * ** * * *
2640897 CATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGACAAGAGGATTAGTGGCACTCAGTTAAAAAC
1 CATTAGCGGCGCTTAGATAAAAACGCCGCCAAAGACAAGAGCATTAGCGGCACTCAGATAAAAAC
*
2640962 GCTGCTAAAGATC-CGAG
66 GCCGCTAAAGA-CACGAG
* * * **
2640979 CATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAGCATTAGCGGCGTTCAGATAAAAAC
1 CATTAGCGGCGCTTAGATAAAAACGCCGCCAAAGACAAGAGCATTAGCGGCACTCAGATAAAAAC
2641044 GCCGCTAAAGACACGAG
66 GCCGCTAAAGACACGAG
** * ** * * *
2641061 CATTAGCGGCGCTTAGATAAAAACGCCGTGAAAGATC-TGAAAATTAGCGGCGCTTAGATGAAAA
1 CATTAGCGGCGCTTAGATAAAAACGCCGCCAAAGA-CAAGAGCATTAGCGGCACTCAGATAAAAA
2641125 CGCCGCTAAAG
65 CGCCGCTAAAG
2641136 GTTTAAAAAA
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 1 0.01
82 130 0.98
83 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTAGATAAAAACGCCGCCAAAGACAAGAGCATTAGCGGCACTCAGATAAAAAC
GCCGCTAAAGACACGAG
Found at i:2641116 original size:123 final size:123
Alignment explanation
Indices: 2640897--2641136 Score: 304
Period size: 123 Copynumber: 2.0 Consensus size: 123
2640887 AAGATAAATA
* * * * * *
2640897 CATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGACAAGAGGATTAGTGGCACTCAGTTAAAAAC
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACAAGAGCATTAGCGGCACTCAGATAAAAAC
* ** *
2640962 GCTGCTAAAGATCCGAGCATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAG
66 GCCGCTAAAGATCCGAAAATTAGCGGCGCTTAGATAAAAACGCCGCCAAAGGCCAGAG
* * *
2641020 CATTAGCGGCG-TTCAGATAAAAACGCCGCTAAAGACACGAGCATTAGCGGCGCTTAGATAAAAA
1 CATTAGCGGCGCTT-AGATAAAAACGCCGCTAAAGACAAGAGCATTAGCGGCACTCAGATAAAAA
* * *
2641084 CGCCG-TGAAAGATCTGAAAATTAGCGGCGCTTAGATGAAAACGCCGCTAAAGG
65 CGCCGCT-AAAGATCCGAAAATTAGCGGCGCTTAGATAAAAACGCCGCCAAAGG
2641137 TTTAAAAAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
122 3 0.03
123 96 0.97
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (123 bp):
CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACAAGAGCATTAGCGGCACTCAGATAAAAAC
GCCGCTAAAGATCCGAAAATTAGCGGCGCTTAGATAAAAACGCCGCCAAAGGCCAGAG
Found at i:2641305 original size:40 final size:40
Alignment explanation
Indices: 2641182--2641308 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 40
2641172 GGTTTTTTGT
* * *
2641182 GGCGCTTTATATAAAACGCCGCTAATTC-CTATTTTTAGC
1 GGCGCTTTAGATAAATCGCCGCTAATGCTCTATTTTTAGC
* * * **
2641221 GGCGCTTCAGAAAAATCGCCGCTGATGCTCTACCTTTAGC
1 GGCGCTTTAGATAAATCGCCGCTAATGCTCTATTTTTAGC
* * * * *
2641261 GGCGCTTTGGCTAAATCGCCGCTAATGCTCGATTTTTTGT
1 GGCGCTTTAGATAAATCGCCGCTAATGCTCTATTTTTAGC
2641301 GGCGCTTT
1 GGCGCTTT
2641309 TGTTCCAAAC
Statistics
Matches: 69, Mismatches: 18, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
39 22 0.32
40 47 0.68
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (40 bp):
GGCGCTTTAGATAAATCGCCGCTAATGCTCTATTTTTAGC
Found at i:2645209 original size:16 final size:16
Alignment explanation
Indices: 2645188--2645223 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2645178 TTTGGTTCGC
2645188 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2645204 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2645220 TGTA
1 TGTA
2645224 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:2645480 original size:18 final size:17
Alignment explanation
Indices: 2645459--2645493 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2645449 TTATTATTAA
*
2645459 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2645477 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2645494 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2645720 original size:16 final size:16
Alignment explanation
Indices: 2645683--2645724 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2645673 TTAATCATAT
*
2645683 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
2645699 TT-AAATATATTATAA
1 TTAAAATATATTATAA
2645714 TTAAAATATAT
1 TTAAAATATAT
2645725 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:2645731 original size:14 final size:15
Alignment explanation
Indices: 2645692--2645733 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2645682 TTTAAACATA
*
2645692 ATTATTATTAAATAT
1 ATTATAATTAAATAT
2645707 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
2645721 A-TATAATTTAATA
1 ATTATAATTAAATA
2645734 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:2645783 original size:61 final size:61
Alignment explanation
Indices: 2645718--2645905 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
2645708 TTATAATTAA
2645718 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
2645779 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
2645837 A
61 T
2645838 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
2645899 AATATAT
1 AATATAT
2645906 GATACTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 16 0.16
61 35 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:2645815 original size:120 final size:121
Alignment explanation
Indices: 2645681--2645978 Score: 514
Period size: 120 Copynumber: 2.5 Consensus size: 121
2645671 ATTTAATCAT
*
2645681 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
2645746 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
2645803 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
2645866 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
2645922 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
2645979 TAAAATAATT
Statistics
Matches: 170, Mismatches: 3, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
119 7 0.04
120 158 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:2645851 original size:14 final size:15
Alignment explanation
Indices: 2645802--2645853 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
2645792 ATAAAATATA
2645802 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
2645817 TATTAAATATATTAT
1 AATTAAATATATTAT
2645832 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
2645845 AATTTAATA
1 AATTAAATA
2645854 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:2646065 original size:24 final size:25
Alignment explanation
Indices: 2646019--2646066 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
2646009 TATGAATTTG
2646019 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
2646045 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
2646067 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:2646070 original size:92 final size:92
Alignment explanation
Indices: 2645974--2646202 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
2645964 TGATTTAATA
* * *
2645974 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
2646036 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
2646066 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
2646131 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
2646156 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
2646203 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:2651413 original size:5 final size:5
Alignment explanation
Indices: 2651403--2651428 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2651393 AAAGAGAGTT
2651403 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
2651429 AAGAGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:2654282 original size:18 final size:18
Alignment explanation
Indices: 2654259--2654300 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2654249 TGTCCATGAC
* *
2654259 ACCCATGCCCATGCCCAT
1 ACCCATACCCATCCCCAT
2654277 ACCCATACCCATCCCCAT
1 ACCCATACCCATCCCCAT
*
2654295 CCCCAT
1 ACCCAT
2654301 CGCTGGGGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.55, G:0.05, T:0.17
Consensus pattern (18 bp):
ACCCATACCCATCCCCAT
Found at i:2654301 original size:12 final size:12
Alignment explanation
Indices: 2654259--2654301 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2654249 TGTCCATGAC
*
2654259 ACCCATGCCCAT
1 ACCCATCCCCAT
* *
2654271 GCCCATACCCAT
1 ACCCATCCCCAT
2654283 ACCCATCCCCAT
1 ACCCATCCCCAT
*
2654295 CCCCATC
1 ACCCATC
2654302 GCTGGGGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.23, C:0.56, G:0.05, T:0.16
Consensus pattern (12 bp):
ACCCATCCCCAT
Found at i:2657882 original size:758 final size:758
Alignment explanation
Indices: 2656427--2657942 Score: 3032
Period size: 758 Copynumber: 2.0 Consensus size: 758
2656417 CAAAGTAACG
2656427 CATCGGCTGTCTCGCTCTCTCCCGAACGTGGCACTGGCGCTTGCACTTTGTTCCTTGCTGCTCCA
1 CATCGGCTGTCTCGCTCTCTCCCGAACGTGGCACTGGCGCTTGCACTTTGTTCCTTGCTGCTCCA
2656492 CTCTGGCATTAGAGGAGCACGCGCCGCCCGTGTGCGTTTCCCGCTAACAAGTACCTCGTCGTCAT
66 CTCTGGCATTAGAGGAGCACGCGCCGCCCGTGTGCGTTTCCCGCTAACAAGTACCTCGTCGTCAT
2656557 TGGTACCGGCCCGCCCACTACAGGATCCCACCCTGGTCGAACCTCCCACCAAGCAAGTTCTTCCG
131 TGGTACCGGCCCGCCCACTACAGGATCCCACCCTGGTCGAACCTCCCACCAAGCAAGTTCTTCCG
2656622 AGTCCTGGTATAGATTCCATCGCGTGGGCGGTCCGGCCCTCCGTCCTTTTCGAGCAAGGAACCAA
196 AGTCCTGGTATAGATTCCATCGCGTGGGCGGTCCGGCCCTCCGTCCTTTTCGAGCAAGGAACCAA
2656687 AGCATCCATAGCTATGGTGGCAGATGACGCCGCTGCCTCACGGTGTTTGTTCAAACAGGGTACAA
261 AGCATCCATAGCTATGGTGGCAGATGACGCCGCTGCCTCACGGTGTTTGTTCAAACAGGGTACAA
2656752 GTTCATCCCGGCCATCATCAAGAGAAACCTTAAGATACGGAACGCGAGTGGCCTGGTTCACTATG
326 GTTCATCCCGGCCATCATCAAGAGAAACCTTAAGATACGGAACGCGAGTGGCCTGGTTCACTATG
2656817 GACTCCAAAGTGCCATTAGCCCTTGGTTTATCCCAAGTGTACTTAGAGGGAGGGTTGGAAACTAA
391 GACTCCAAAGTGCCATTAGCCCTTGGTTTATCCCAAGTGTACTTAGAGGGAGGGTTGGAAACTAA
2656882 GGGTTTAGCCGGCACACGTGCCGGACCTAAACCATGCATGGCTAGTTGGCCATTTTCCCATGTTA
456 GGGTTTAGCCGGCACACGTGCCGGACCTAAACCATGCATGGCTAGTTGGCCATTTTCCCATGTTA
2656947 ATTCTGCCACTTCGTAGTCCGACCTGCATAGTAAATCACATACATACATCAACAAAAGTACATAC
521 ATTCTGCCACTTCGTAGTCCGACCTGCATAGTAAATCACATACATACATCAACAAAAGTACATAC
2657012 AGGTGTGTGCATATAAAGATATAAGGGAGTAGAGAAAGCGAGAAAGTTAGTACATGTGAACATCA
586 AGGTGTGTGCATATAAAGATATAAGGGAGTAGAGAAAGCGAGAAAGTTAGTACATGTGAACATCA
2657077 GGGGCGGTGGAGTTGGAGTTAGAGCGTAAGGAATGGCGTGCAGTGACATGATTATCGTCCAGATC
651 GGGGCGGTGGAGTTGGAGTTAGAGCGTAAGGAATGGCGTGCAGTGACATGATTATCGTCCAGATC
2657142 CCAACTGGGAACACACTGACTCATTTTTAACCAAACTTTCTTT
716 CCAACTGGGAACACACTGACTCATTTTTAACCAAACTTTCTTT
2657185 CATCGGCTGTCTCGCTCTCTCCCGAACGTGGCACTGGCGCTTGCACTTTGTTCCTTGCTGCTCCA
1 CATCGGCTGTCTCGCTCTCTCCCGAACGTGGCACTGGCGCTTGCACTTTGTTCCTTGCTGCTCCA
2657250 CTCTGGCATTAGAGGAGCACGCGCCGCCCGTGTGCGTTTCCCGCTAACAAGTACCTCGTCGTCAT
66 CTCTGGCATTAGAGGAGCACGCGCCGCCCGTGTGCGTTTCCCGCTAACAAGTACCTCGTCGTCAT
2657315 TGGTACCGGCCCGCCCACTACAGGATCCCACCCTGGTCGAACCTCCCACCAAGCAAGTTCTTCCG
131 TGGTACCGGCCCGCCCACTACAGGATCCCACCCTGGTCGAACCTCCCACCAAGCAAGTTCTTCCG
2657380 AGTCCTGGTATAGATTCCATCGCGTGGGCGGTCCGGCCCTCCGTCCTTTTCGAGCAAGGAACCAA
196 AGTCCTGGTATAGATTCCATCGCGTGGGCGGTCCGGCCCTCCGTCCTTTTCGAGCAAGGAACCAA
2657445 AGCATCCATAGCTATGGTGGCAGATGACGCCGCTGCCTCACGGTGTTTGTTCAAACAGGGTACAA
261 AGCATCCATAGCTATGGTGGCAGATGACGCCGCTGCCTCACGGTGTTTGTTCAAACAGGGTACAA
2657510 GTTCATCCCGGCCATCATCAAGAGAAACCTTAAGATACGGAACGCGAGTGGCCTGGTTCACTATG
326 GTTCATCCCGGCCATCATCAAGAGAAACCTTAAGATACGGAACGCGAGTGGCCTGGTTCACTATG
2657575 GACTCCAAAGTGCCATTAGCCCTTGGTTTATCCCAAGTGTACTTAGAGGGAGGGTTGGAAACTAA
391 GACTCCAAAGTGCCATTAGCCCTTGGTTTATCCCAAGTGTACTTAGAGGGAGGGTTGGAAACTAA
2657640 GGGTTTAGCCGGCACACGTGCCGGACCTAAACCATGCATGGCTAGTTGGCCATTTTCCCATGTTA
456 GGGTTTAGCCGGCACACGTGCCGGACCTAAACCATGCATGGCTAGTTGGCCATTTTCCCATGTTA
2657705 ATTCTGCCACTTCGTAGTCCGACCTGCATAGTAAATCACATACATACATCAACAAAAGTACATAC
521 ATTCTGCCACTTCGTAGTCCGACCTGCATAGTAAATCACATACATACATCAACAAAAGTACATAC
2657770 AGGTGTGTGCATATAAAGATATAAGGGAGTAGAGAAAGCGAGAAAGTTAGTACATGTGAACATCA
586 AGGTGTGTGCATATAAAGATATAAGGGAGTAGAGAAAGCGAGAAAGTTAGTACATGTGAACATCA
2657835 GGGGCGGTGGAGTTGGAGTTAGAGCGTAAGGAATGGCGTGCAGTGACATGATTATCGTCCAGATC
651 GGGGCGGTGGAGTTGGAGTTAGAGCGTAAGGAATGGCGTGCAGTGACATGATTATCGTCCAGATC
2657900 CCAACTGGGAACACACTGACTCATTTTTAACCAAACTTTCTTT
716 CCAACTGGGAACACACTGACTCATTTTTAACCAAACTTTCTTT
2657943 TTTCAGAACT
Statistics
Matches: 758, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
758 758 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (758 bp):
CATCGGCTGTCTCGCTCTCTCCCGAACGTGGCACTGGCGCTTGCACTTTGTTCCTTGCTGCTCCA
CTCTGGCATTAGAGGAGCACGCGCCGCCCGTGTGCGTTTCCCGCTAACAAGTACCTCGTCGTCAT
TGGTACCGGCCCGCCCACTACAGGATCCCACCCTGGTCGAACCTCCCACCAAGCAAGTTCTTCCG
AGTCCTGGTATAGATTCCATCGCGTGGGCGGTCCGGCCCTCCGTCCTTTTCGAGCAAGGAACCAA
AGCATCCATAGCTATGGTGGCAGATGACGCCGCTGCCTCACGGTGTTTGTTCAAACAGGGTACAA
GTTCATCCCGGCCATCATCAAGAGAAACCTTAAGATACGGAACGCGAGTGGCCTGGTTCACTATG
GACTCCAAAGTGCCATTAGCCCTTGGTTTATCCCAAGTGTACTTAGAGGGAGGGTTGGAAACTAA
GGGTTTAGCCGGCACACGTGCCGGACCTAAACCATGCATGGCTAGTTGGCCATTTTCCCATGTTA
ATTCTGCCACTTCGTAGTCCGACCTGCATAGTAAATCACATACATACATCAACAAAAGTACATAC
AGGTGTGTGCATATAAAGATATAAGGGAGTAGAGAAAGCGAGAAAGTTAGTACATGTGAACATCA
GGGGCGGTGGAGTTGGAGTTAGAGCGTAAGGAATGGCGTGCAGTGACATGATTATCGTCCAGATC
CCAACTGGGAACACACTGACTCATTTTTAACCAAACTTTCTTT
Found at i:2660835 original size:24 final size:24
Alignment explanation
Indices: 2660808--2660893 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
2660798 GCTTGAACTT
2660808 CCCGTTAATTGCTCTTCGGAGCTA
1 CCCGTTAATTGCTCTTCGGAGCTA
* *
2660832 CCCGTTAATTGCTCTTCAGAGTTA
1 CCCGTTAATTGCTCTTCGGAGCTA
* * * *
2660856 CTCGTT-ATAGGCTCTTTGTGAGCTT
1 CCCGTTAAT-TGCTCTTCG-GAGCTA
2660881 CCCGTTATATTGC
1 CCCGTTA-ATTGC
2660894 CCGGATAAGC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 2 0.04
24 33 0.69
25 9 0.19
26 2 0.04
27 2 0.04
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (24 bp):
CCCGTTAATTGCTCTTCGGAGCTA
Found at i:2662738 original size:18 final size:17
Alignment explanation
Indices: 2662705--2662743 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
2662695 TTTTATAAAT
2662705 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
2662723 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
2662740 TGTG
1 TGTG
2662744 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:2667044 original size:51 final size:51
Alignment explanation
Indices: 2666881--2667075 Score: 189
Period size: 51 Copynumber: 3.8 Consensus size: 51
2666871 GAAGTTGCTA
* * *
2666881 GGTCACGTGTGTAGTACTATGTGCAGGGTACTACGTGTACCGGAATG-ATA-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGAAAAT
* * * * * ***
2666931 GGTCGCATGTGTAGTACTATGTGCAGACTACTATGCGTACCGAAT-AGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAAAAT
* * * *
2666981 CGATTACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAAAAT
* * *
2667033 GGTCACATGTGTAGTACTATGTGCAGGATACTATGTGAACCGG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
2667076 GTATCATTTA
Statistics
Matches: 112, Mismatches: 29, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
49 2 0.02
50 36 0.32
51 72 0.64
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAAAAT
Found at i:2687869 original size:9 final size:9
Alignment explanation
Indices: 2687855--2687882 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2687845 TATAGTTTGA
2687855 TATTCGAAT
1 TATTCGAAT
2687864 TATTCGAAT
1 TATTCGAAT
2687873 TATTCGAAT
1 TATTCGAAT
2687882 T
1 T
2687883 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:2693707 original size:27 final size:27
Alignment explanation
Indices: 2693676--2693739 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
2693666 TAAAAAAATA
*
2693676 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
2693703 ACCAAAATATTATAAATTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTATTT
*
2693730 ACTAAAATAT
1 ACCAAAATAT
2693740 ATCAAAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAAATTTTTTTATTT
Found at i:2694269 original size:15 final size:15
Alignment explanation
Indices: 2694249--2694278 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2694239 AACTATTATC
2694249 ATTTAATAAACTCTA
1 ATTTAATAAACTCTA
2694264 ATTTAATAAACTCTA
1 ATTTAATAAACTCTA
2694279 TTTTGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTAATAAACTCTA
Found at i:2694351 original size:45 final size:45
Alignment explanation
Indices: 2694284--2694369 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
2694274 CTCTATTTTG
*
2694284 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTACTAA
1 GTAATTTGATGAGAATAATTTATTAAATTAAAATAGAGTTACTAA
2694329 GTAATTTGATGAGAATAATTTATTAAATTAAAATAGAGTTA
1 GTAATTTGATGAGAATAATTTATTAAATTAAAATAGAGTTA
2694370 TTACTTCTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.38
Consensus pattern (45 bp):
GTAATTTGATGAGAATAATTTATTAAATTAAAATAGAGTTACTAA
Found at i:2694372 original size:19 final size:19
Alignment explanation
Indices: 2694348--2694410 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
2694338 TGAGAATAAT
2694348 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
** ** *
2694367 TTATTACTTCTTGAATAG-T
1 TTATTAAAT-TAAAATAGAG
*
2694386 TTATTAAATTAAAATAAAG
1 TTATTAAATTAAAATAGAG
2694405 TTATTA
1 TTATTA
2694411 CTTAATTAGA
Statistics
Matches: 31, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
18 5 0.16
19 20 0.65
20 6 0.19
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:2694389 original size:38 final size:38
Alignment explanation
Indices: 2694341--2694413 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
2694331 AATTTGATGA
*
2694341 GAATAATTTATTAAATTAAAATAGAGTTATTACTTCTT
1 GAATAATTTATTAAATTAAAATAAAGTTATTACTTCTT
*
2694379 GAATAGTTTATTAAATTAAAATAAAGTTATTACTT
1 GAATAATTTATTAAATTAAAATAAAGTTATTACTT
2694414 AATTAGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (38 bp):
GAATAATTTATTAAATTAAAATAAAGTTATTACTTCTT
Found at i:2695050 original size:27 final size:27
Alignment explanation
Indices: 2694976--2695052 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
2694966 CATTTTAGTC
*
2694976 CTTTGGCACCATTGGTGCCCCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
* *
2695003 CTTTGGCGCCATTGGTTCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
* *
2695030 CTTTGGCATCTTTGGTGCCGCCA
1 CTTTGGCACCATTGGTGCCGCCA
2695053 CAGGTTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.12, C:0.34, G:0.22, T:0.32
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:2695122 original size:27 final size:27
Alignment explanation
Indices: 2695090--2695153 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
2695080 TTGTTTTTTT
*
2695090 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
2695117 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
2695144 ATATTTTGGT
1 ATATTTTGGT
2695154 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:2696850 original size:19 final size:19
Alignment explanation
Indices: 2696826--2696874 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
2696816 TGTTATATTT
2696826 TGATTAATTAAATAAAATA
1 TGATTAATTAAATAAAATA
2696845 TGATTAATTAAGA-AAAATA
1 TGATTAATTAA-ATAAAATA
2696864 --ATTAATTAAAT
1 TGATTAATTAAAT
2696875 TATAATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 9 0.32
19 17 0.61
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
TGATTAATTAAATAAAATA
Found at i:2698147 original size:11 final size:11
Alignment explanation
Indices: 2698133--2698158 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2698123 ATTTTTTTAA
2698133 TTTTAAAATAC
1 TTTTAAAATAC
2698144 TTTTAAAATAC
1 TTTTAAAATAC
2698155 TTTT
1 TTTT
2698159 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:2698168 original size:38 final size:37
Alignment explanation
Indices: 2698126--2698259 Score: 123
Period size: 33 Copynumber: 3.9 Consensus size: 37
2698116 ATTTATTATT
2698126 TTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAA
1 TTTTTAATTTTAAAATA-TTTTAAAATACTTTTTTTAA
**
2698164 TTTTTTAATTTTAAAAT-TTTTTTAA-A-TTTTTTTAA
1 -TTTTTAATTTTAAAATATTTTAAAATACTTTTTTTAA
*
2698199 -TTTTAA----AATAT-TTTTAAAATACTTTTTTTAA
1 TTTTTAATTTTAAAATATTTTAAAATACTTTTTTTAA
*
2698230 TTTTTAA-TTT--AAT-TTTTAAAATAATTTTTT
1 TTTTTAATTTTAAAATATTTTAAAATACTTTTTT
2698260 GGTATTTATT
Statistics
Matches: 82, Mismatches: 7, Indels: 18
0.77 0.07 0.17
Matches are distributed among these distances:
29 10 0.12
30 1 0.01
31 9 0.11
32 6 0.07
33 24 0.29
35 9 0.11
36 1 0.01
37 6 0.07
39 16 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (37 bp):
TTTTTAATTTTAAAATATTTTAAAATACTTTTTTTAA
Found at i:2698175 original size:28 final size:28
Alignment explanation
Indices: 2698144--2698233 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 28
2698134 TTTAAAATAC
*
2698144 TTTTAAAATACTTTTTTTAA-TTTTTTAA
1 TTTTAAAATA-TTTTTTAAATTTTTTTAA
2698172 TTTTAAAAT-TTTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTTAAATTTTTTTAA
*
2698199 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTT-TAA-A-TTTTTTTAA
2698230 TTTT
1 TTTT
2698234 TAATTTAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
26 8 0.15
27 17 0.31
28 14 0.25
29 2 0.04
30 1 0.02
31 13 0.24
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTAAAATATTTTTTAAATTTTTTTAA
Found at i:2698202 original size:17 final size:17
Alignment explanation
Indices: 2698155--2698215 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
2698145 TTTAAAATAC
*
2698155 TTTTTTTAATTTTTTAA
1 TTTTTTTAATTTTTAAA
**
2698172 -TTTTAAAATTTTTTTAAA
1 TTTTTTTAA--TTTTTAAA
*
2698190 TTTTTTTAATTTTAAAA
1 TTTTTTTAATTTTTAAA
*
2698207 TATTTTTAA
1 TTTTTTTAA
2698216 AATACTTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 6 0.18
17 15 0.44
18 7 0.21
19 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTTAATTTTTAAA
Found at i:2698240 original size:12 final size:12
Alignment explanation
Indices: 2698225--2698258 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2698215 AAATACTTTT
2698225 TTTAATTTTTAA
1 TTTAATTTTTAA
2698237 TTTAATTTTTAA
1 TTTAATTTTTAA
**
2698249 AATAATTTTT
1 TTTAATTTTT
2698259 TGGTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTTAA
Found at i:2700918 original size:14 final size:14
Alignment explanation
Indices: 2700896--2700946 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
2700886 AAAGTATTTT
*
2700896 AAAATTAAAAATTA
1 AAAAATAAAAATTA
2700910 AAAAATAAAAATTA
1 AAAAATAAAAATTA
*
2700924 AAAAATAAAAAATA
1 AAAAATAAAAATTA
2700938 AAAAA-AAAA
1 AAAAATAAAA
2700947 TATATATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
13 4 0.11
14 31 0.89
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAATAAAAATTA
Found at i:2700920 original size:21 final size:21
Alignment explanation
Indices: 2700896--2700941 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
2700886 AAAGTATTTT
*
2700896 AAAATTAAAAATTAAAAAATA
1 AAAATTAAAAAATAAAAAATA
2700917 AAAATTAAAAAATAAAAAATA
1 AAAATTAAAAAATAAAAAATA
2700938 AAAA
1 AAAA
2700942 AAAAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATTAAAAAATAAAAAATA
Found at i:2700943 original size:8 final size:7
Alignment explanation
Indices: 2700896--2700946 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
2700886 AAAGTATTTT
*
2700896 AAAATTA
1 AAAAATA
*
2700903 AAAATTA
1 AAAAATA
2700910 AAAAATA
1 AAAAATA
*
2700917 AAAATTA
1 AAAAATA
2700924 AAAAATA
1 AAAAATA
2700931 AAAAATA
1 AAAAATA
2700938 AAAAA-A
1 AAAAATA
2700944 AAA
1 AAA
2700947 TATATATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 4 0.10
7 37 0.90
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:2701201 original size:9 final size:9
Alignment explanation
Indices: 2701183--2701231 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
2701173 TTTGGTTAAA
2701183 AATTAACCG
1 AATTAACCG
*
2701192 AATTACCCG
1 AATTAACCG
2701201 AATTAACCG
1 AATTAACCG
*
2701210 AATTACCCG
1 AATTAACCG
*
2701219 AATTAACCA
1 AATTAACCG
2701228 AATT
1 AATT
2701232 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:2701206 original size:18 final size:18
Alignment explanation
Indices: 2701183--2701231 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
2701173 TTTGGTTAAA
2701183 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
2701201 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
2701219 AATTAACCAAATT
1 AATTAACCGAATT
2701232 GAATCACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:2702344 original size:18 final size:19
Alignment explanation
Indices: 2702304--2702342 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2702294 GTCATATTAG
* *
2702304 TTAAAAATTTAATATAACT
1 TTAAAAATTAAATAAAACT
*
2702323 TTAACAATTAAATAAAACT
1 TTAAAAATTAAATAAAACT
2702342 T
1 T
2702343 AAGTTAAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAAATTAAATAAAACT
Found at i:2707782 original size:28 final size:27
Alignment explanation
Indices: 2707738--2707790 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
2707728 AAATCACACC
*
2707738 GTACAACAAAACAAAAACCAACAAACAA
1 GTACAACAAAACAAAAA-AAACAAACAA
**
2707766 GTACAACAAAAGGAAAAAAACAAAC
1 GTACAACAAAACAAAAAAAACAAAC
2707791 CCTAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.68, C:0.21, G:0.08, T:0.04
Consensus pattern (27 bp):
GTACAACAAAACAAAAAAAACAAACAA
Found at i:2712701 original size:26 final size:27
Alignment explanation
Indices: 2712643--2712699 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
2712633 TATAATTGTA
*
2712643 TTAAATATATTTAATTTTAAATTAAAG
1 TTAAATATATTTAATTTTAAATGAAAG
2712670 TTAAATATA-TTAATTTTATAA-GAAA-
1 TTAAATATATTTAATTTTA-AATGAAAG
2712695 TTAAA
1 TTAAA
2712700 ATTTTATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 5 0.18
26 12 0.43
27 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
TTAAATATATTTAATTTTAAATGAAAG
Done.