Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 164 of 344
Found at i:54762548 original size:26 final size:28
Alignment explanation
Indices: 54762504--54762555 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
54762494 TACAAGGGTA
54762504 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
54762531 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
54762556 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:54762630 original size:27 final size:27
Alignment explanation
Indices: 54762600--54762709 Score: 78
Period size: 27 Copynumber: 3.9 Consensus size: 27
54762590 GTAAATCTAC
54762600 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *
54762627 AAACCAATGGTATTCCTA-TAATTTTTT
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
54762654 AAAAAAGTCAAGGGTATTTTTGTAATTTTGT
1 ---AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
54762685 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
54762710 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
27 42 0.64
28 4 0.06
30 3 0.05
31 17 0.26
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:54762715 original size:27 final size:26
Alignment explanation
Indices: 54762665--54762761 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 26
54762655 AAAAAGTCAA
* *
54762665 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTT-CAAATCAG
*
54762692 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT-CAAATCAG
* * *
54762718 AGTGTATTTCGGTAATTTCTCAAACCAG
1 -GGGTATTTTGGTAATTT-TCAAATCAG
*
54762746 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
54762762 CTATCCTACA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.02
27 53 0.95
28 2 0.04
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCAAATCAG
Found at i:54762878 original size:27 final size:26
Alignment explanation
Indices: 54762793--54762884 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 26
54762783 GTAATTTCAC
*
54762793 AATCGAGGGCAAAACGATAATTTTGT
1 AATCGAGGGTAAAACGATAATTTTGT
* * * *
54762819 AAACTAAGGGTAAAATGGTAATTTTGT
1 AATC-GAGGGTAAAACGATAATTTTGT
54762846 AAATCGAGGGTAAAACGATAATTCTT-T
1 -AATCGAGGGTAAAACGATAATT-TTGT
54762873 ATATCGAGGGTA
1 A-ATCGAGGGTA
54762885 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
26 4 0.08
27 44 0.83
28 5 0.09
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (26 bp):
AATCGAGGGTAAAACGATAATTTTGT
Found at i:54764523 original size:18 final size:18
Alignment explanation
Indices: 54764480--54764515 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
54764470 CTTTCTTGGT
54764480 CTAAAATAACACATTTAG
1 CTAAAATAACACATTTAG
*
54764498 CTGAAATAATCACATTTA
1 CTAAAATAA-CACATTTA
54764516 TCAAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (18 bp):
CTAAAATAACACATTTAG
Found at i:54777064 original size:12 final size:12
Alignment explanation
Indices: 54777047--54777075 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
54777037 GTTTATGGTT
54777047 GTGTCATTGCCC
1 GTGTCATTGCCC
54777059 GTGTCATTGCCC
1 GTGTCATTGCCC
54777071 GTGTC
1 GTGTC
54777076 TGGGACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.31, G:0.28, T:0.34
Consensus pattern (12 bp):
GTGTCATTGCCC
Found at i:54779519 original size:42 final size:44
Alignment explanation
Indices: 54779456--54779539 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 44
54779446 CTCGATTGAG
**
54779456 ATTTACGTATAAGACCATGTCTGGGACATTGGCATC-ATATTTT
1 ATTTACGTATAAGACCATGTCTGGGACAGAGGCATCGATATTTT
* *
54779499 ATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 ATTTACGTATAAGACCATGTCTGGGACAGAGGCATCGATATT
54779540 GAATTATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (44 bp):
ATTTACGTATAAGACCATGTCTGGGACAGAGGCATCGATATTTT
Found at i:54779553 original size:43 final size:42
Alignment explanation
Indices: 54779465--54779554 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
54779455 GATTTACGTA
** ** *
54779465 TAAGACCATGTCTGGGACATTGGCATCATATTTTATTTCGTG
1 TAAGACCATGTCTGGGACAGAGGCATCATATTGAATTTCATG
*
54779507 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAT-ATG
1 TAAGACCATGTCTGGGACAGAGGCATC-ATATTGAATT-TCATG
54779550 TAAGA
1 TAAGA
54779555 ACACGTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 24 0.60
43 15 0.38
44 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAGAGGCATCATATTGAATTTCATG
Found at i:54797987 original size:64 final size:64
Alignment explanation
Indices: 54797886--54798093 Score: 186
Period size: 67 Copynumber: 3.2 Consensus size: 64
54797876 ACATCATTGT
*
54797886 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACG-G-GA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
54797951 TAA
62 TAA
* * * * * *
54797954 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
*
54798019 AG
63 AA
* * * * * * **
54798021 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGT
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAA
54798084 ACAAGAGAGC
1 ACAAGAGAGC
54798094 CGAACTATAT
Statistics
Matches: 115, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
63 19 0.17
64 21 0.18
65 11 0.10
66 17 0.15
67 31 0.27
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAA
Found at i:54801561 original size:40 final size:40
Alignment explanation
Indices: 54801492--54801657 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
54801482 AACCCAAGTA
* **
54801492 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54801531 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54801571 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54801611 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54801651 CCTTCGG
1 CCTTCGG
54801658 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 106 0.89
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54809472 original size:40 final size:40
Alignment explanation
Indices: 54809403--54809528 Score: 200
Period size: 40 Copynumber: 3.2 Consensus size: 40
54809393 AACCCAAGTA
* **
54809403 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54809442 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54809482 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54809522 CCTTCGG
1 CCTTCGG
54809529 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.16
40 68 0.84
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54810245 original size:32 final size:32
Alignment explanation
Indices: 54810204--54810268 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
54810194 TGTGGTCGAA
54810204 TATACATATTCCAATATGATATCATTTCAATT
1 TATACATATTCCAATATGATATCATTTCAATT
54810236 TATACATATTCCAATATGATATCATTTCAATT
1 TATACATATTCCAATATGATATCATTTCAATT
54810268 T
1 T
54810269 CATTTAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (32 bp):
TATACATATTCCAATATGATATCATTTCAATT
Found at i:54810250 original size:16 final size:17
Alignment explanation
Indices: 54810204--54810252 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
54810194 TGTGGTCGAA
54810204 TATACATATTCCAATAT
1 TATACATATTCCAATAT
*
54810221 GATATCAT-TT-CAAT-T
1 TATA-CATATTCCAATAT
54810236 TATACATATTCCAATAT
1 TATACATATTCCAATAT
54810253 GATATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.12
15 6 0.23
16 8 0.31
17 6 0.23
18 3 0.12
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (17 bp):
TATACATATTCCAATAT
Found at i:54810266 original size:16 final size:16
Alignment explanation
Indices: 54810215--54810266 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
54810205 ATACATATTC
54810215 CAATATGATATCATTT
1 CAATATGATATCATTT
*
54810231 CAAT-TTATA-CATATT
1 CAATATGATATCAT-TT
54810246 CCAATATGATATCATTT
1 -CAATATGATATCATTT
54810263 CAAT
1 CAAT
54810267 TTCATTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 3 0.10
15 6 0.20
16 12 0.40
17 6 0.20
18 3 0.10
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (16 bp):
CAATATGATATCATTT
Found at i:54825279 original size:40 final size:40
Alignment explanation
Indices: 54825228--54825609 Score: 644
Period size: 40 Copynumber: 9.6 Consensus size: 40
54825218 CATTTGAATG
54825228 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
54825268 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
54825308 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
54825348 ATATCCGGGCTAAGACCTGAAGGCA-TTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
54825387 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
54825427 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAA-TGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
54825465 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
54825505 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * * *
54825545 ATATCCGGGATAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
54825585 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
54825610 ATTGAGCTTG
Statistics
Matches: 324, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
38 28 0.09
39 56 0.17
40 240 0.74
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:54835374 original size:47 final size:47
Alignment explanation
Indices: 54835293--54835978 Score: 998
Period size: 47 Copynumber: 14.6 Consensus size: 47
54835283 TAATTGAATA
*
54835293 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
* * *
54835341 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
54835388 AATGTGGACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
54835435 AAAGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54835482 AAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54835529 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
54835576 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
54835623 AAAGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
54835670 AAAGTGAACATGTATATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54835717 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
54835764 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
54835811 AAAGTGAACATGTATATGTGTGATAAAGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
54835858 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * * *
54835905 AATGTGAGCATGTGTATGTGAGATAATGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
**
54835952 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACA-TGTATATGTGTGATAAG
54835979 TCCCGAAGGG
Statistics
Matches: 575, Mismatches: 61, Indels: 5
0.90 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 556 0.97
48 17 0.03
49 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:54835978 original size:188 final size:188
Alignment explanation
Indices: 54835307--54835966 Score: 1153
Period size: 188 Copynumber: 3.5 Consensus size: 188
54835297 TGAAAGTGTA
*
54835307 TATGTGTGAATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCG
1 TATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCG
*
54835372 AATGGCCAATGTGATGAATGTGGACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
65 AATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
54835437 AGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
130 AGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
54835496 TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
54835561 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
66 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
*
54835626 GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTA
131 GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
*
54835684 TATGTGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
54835749 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
66 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
* * *
54835814 GTGAACATGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACAGGTG
131 GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* * ** * * *
54835872 TATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAATGCCTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
*
54835937 ATGGCCGATGTGATGAATGTGAA-A-GTGTAT
66 ATGGCCAATGTGATGAATGTGAACATGTGTAT
54835967 AAATGTGATA
Statistics
Matches: 454, Mismatches: 17, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
186 6 0.01
187 1 0.00
188 439 0.97
189 8 0.02
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (188 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
Found at i:54836153 original size:37 final size:37
Alignment explanation
Indices: 54836097--54836176 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
54836087 CCGGGCTATA
* * *
54836097 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
54836134 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
54836171 AAGACT
1 AAGACT
54836177 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:54838376 original size:40 final size:40
Alignment explanation
Indices: 54838325--54838436 Score: 224
Period size: 40 Copynumber: 2.8 Consensus size: 40
54838315 CATTTTAATG
54838325 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
54838365 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
54838405 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
54838437 ATAGACCCGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:54840342 original size:14 final size:14
Alignment explanation
Indices: 54840323--54840357 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
54840313 GTACTCGCAT
54840323 AAATGGCTTCCTTC
1 AAATGGCTTCCTTC
*
54840337 AAATGGCTTCTTTC
1 AAATGGCTTCCTTC
54840351 AAATGGC
1 AAATGGC
54840358 CACGTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (14 bp):
AAATGGCTTCCTTC
Found at i:54844520 original size:42 final size:40
Alignment explanation
Indices: 54844432--54844601 Score: 277
Period size: 40 Copynumber: 4.2 Consensus size: 40
54844422 GCTCTCGATA
*
54844432 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
54844472 TAATATATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
54844512 TAATATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
54844552 TAATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
54844594 TACTATAT
1 TAATATAT
54844602 CCGGACTTAG
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 82 0.68
41 2 0.02
42 37 0.31
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:54844541 original size:80 final size:82
Alignment explanation
Indices: 54844432--54844601 Score: 281
Period size: 82 Copynumber: 2.1 Consensus size: 82
54844422 GCTCTCGATA
54844432 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGT-A-ATATATATCCGAGTTAAATCC
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATATCCGAGTTAAATCC
*
54844495 CGCAGGCTTCGTGCTGG
66 CGCAGGCTTAGTGCTGG
* * *
54844512 TAATATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCC
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATATCCGAGTTAAATCC
54844577 CGCAGGCTTAGTGCTGG
66 CGCAGGCTTAGTGCTGG
*
54844594 TACTATAT
1 TAATATAT
54844602 CCGGACTTAG
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 39 0.47
81 1 0.01
82 43 0.52
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (82 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATATCCGAGTTAAATCC
CGCAGGCTTAGTGCTGG
Found at i:54844620 original size:82 final size:80
Alignment explanation
Indices: 54844432--54844635 Score: 259
Period size: 82 Copynumber: 2.5 Consensus size: 80
54844422 GCTCTCGATA
*
54844432 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATCCGAGTTAAATCCCG
1 TAATATATATCCGGCTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATCCGAGTTAAATCCCG
*
54844497 CAGGCTTCGTGCTGG
66 CAGGCTTAGTGCTGG
* * * *
54844512 TAATATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCCGGGTTAAATCC
1 TAATATATATCCGGCTTAAATCCCGCAGGCTTCGTGCTAGT-A-ATATATATCCGAGTTAAATCC
54844577 CGCAGGCTTAGTGCTGG
64 CGCAGGCTTAGTGCTGG
* * * * *
54844594 T-A-CTATATCCGGACTTAGAGTTCCGCAGGCTTTGAGCTAGTA
1 TAATATATATCCGG-CTTA-AATCCCGCAGGCTTCGTGCTAGTA
54844636 CCTGGATTCG
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
80 47 0.44
81 6 0.06
82 55 0.51
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (80 bp):
TAATATATATCCGGCTTAAATCCCGCAGGCTTCGTGCTAGTAATATATATCCGAGTTAAATCCCG
CAGGCTTAGTGCTGG
Found at i:54847983 original size:29 final size:27
Alignment explanation
Indices: 54847965--54848034 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
54847955 ATATTAAGTC
54847965 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
54847992 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
54848020 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
54848035 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:54848028 original size:28 final size:28
Alignment explanation
Indices: 54847965--54848062 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
54847955 ATATTAAGTC
*
54847965 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
54847992 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54848020 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
54848049 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54848063 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54853619 original size:40 final size:40
Alignment explanation
Indices: 54853525--54853749 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 40
54853515 TATTCGAACG
* *
54853525 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGACT
* * * * *
54853566 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGACT
* * *
54853606 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* *
54853646 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
54853686 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
* * *
54853726 ACATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
54853750 CTTGCGCAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.80
41 29 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:54853709 original size:80 final size:80
Alignment explanation
Indices: 54853525--54853749 Score: 281
Period size: 80 Copynumber: 2.8 Consensus size: 80
54853515 TATTCGAACG
* * * *
54853525 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
54853590 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * * *
54853606 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
54853671 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
54853686 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
54853750 CTTGCGCAAG
Statistics
Matches: 122, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.01
80 90 0.74
81 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:54853739 original size:120 final size:121
Alignment explanation
Indices: 54853525--54853749 Score: 312
Period size: 120 Copynumber: 1.9 Consensus size: 121
54853515 TATTCGAACG
** * *
54853525 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
54853590 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
* *
54853646 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
54853709 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCAAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCAAAGGC
54853750 CTTGCGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 3 0.03
120 57 0.63
121 31 0.34
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
Found at i:54862007 original size:42 final size:43
Alignment explanation
Indices: 54861960--54862064 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 43
54861950 GATGTGCGAA
*
54861960 TAAGACAATGGCATCGATATATGTGTGCGAGTAAGACCA-TGT
1 TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCACTGT
* *
54862002 TAAGACAATGGCATCGATATATGTGTACGAGTTAGACCACGTTT
1 TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCAC-TGT
*
54862046 TAA-ACATTGGCATCGATAT
1 TAAGACAATGGCATCGATAT
54862065 GTGATTCCGA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 37 0.65
43 15 0.26
44 5 0.09
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (43 bp):
TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCACTGT
Found at i:54862104 original size:57 final size:56
Alignment explanation
Indices: 54862016--54862152 Score: 177
Period size: 57 Copynumber: 2.4 Consensus size: 56
54862006 ACAATGGCAT
* * *
54862016 CGATATATGTGT-ACGAGTTAGACCACGTTTTAAACATTGGCATCGATATGTGATTC
1 CGATATATGTGTGA-GAGTAAGACCACATTTTAAACATTAGCATCGATATGTGATTC
* * *
54862072 CGATATATTGTGTGAGAGTAAGACCACATTTTATACGTTAGCATTGATATGTGATTC
1 CGATATA-TGTGTGAGAGTAAGACCACATTTTAAACATTAGCATCGATATGTGATTC
* *
54862129 TGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGAGAGTAAGACC
54862153 CTGTCTAGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
56 23 0.32
57 47 0.66
58 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGAGAGTAAGACCACATTTTAAACATTAGCATCGATATGTGATTC
Found at i:54862178 original size:56 final size:57
Alignment explanation
Indices: 54862016--54862183 Score: 150
Period size: 57 Copynumber: 3.0 Consensus size: 57
54862006 ACAATGGCAT
* * * * *
54862016 CGATATA-TGTGT-ACGAGTTAGACCACGTTTTAAACATTGGCATCGATATGTGATTC
1 CGATATATTGTGTGA-GAGTAAGACCACATTCTAGACGTTGGCATCGATATGTGATTC
* * * *
54862072 CGATATATTGTGTGAGAGTAAGACCACATTTTATACGTTAGCATTGATATGTGATTC
1 CGATATATTGTGTGAGAGTAAGACCACATTCTAGACGTTGGCATCGATATGTGATTC
* * *
54862129 TGATATA-TGTGTGCGAGTAAGACC-C-TGTCTAGGACAG-TGGCATCAATATGTGATT
1 CGATATATTGTGTGAGAGTAAGACCACAT-TCTA-GAC-GTTGGCATCGATATGTGATT
54862184 ACATGTAAGA
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
54 1 0.01
55 4 0.04
56 40 0.43
57 48 0.51
58 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (57 bp):
CGATATATTGTGTGAGAGTAAGACCACATTCTAGACGTTGGCATCGATATGTGATTC
Found at i:54870620 original size:45 final size:45
Alignment explanation
Indices: 54870499--54870628 Score: 208
Period size: 45 Copynumber: 2.9 Consensus size: 45
54870489 TGATATCATT
* *
54870499 TCACTGGCATTATAGCCTGCTAGGCTCGAAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
54870544 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
54870589 TCACCGGCATTATAGCTTGCTAGGCTCAAAGGACCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
54870629 ATACTGTGCG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 3 0.04
45 77 0.96
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:54871486 original size:47 final size:47
Alignment explanation
Indices: 54871433--54871528 Score: 158
Period size: 47 Copynumber: 2.0 Consensus size: 47
54871423 AAAATTTTCT
*
54871433 TTAACTAAGTAACTTATCTGGAAATATTAA-AGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGA-GAAAATTTAACAAGC
*
54871480 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
54871527 TT
1 TT
54871529 TAAATTCAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 45 0.98
48 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
Found at i:54875967 original size:40 final size:40
Alignment explanation
Indices: 54875869--54876131 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
54875859 TCCTCGTTCA
* * * * *
54875869 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
54875908 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
54875948 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
54875988 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
54876028 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
54876068 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
54876108 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54876132 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:54876140 original size:41 final size:41
Alignment explanation
Indices: 54876063--54876140 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54876053 TTAGTATCTC
* * *
54876063 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
54876104 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54876141 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:54883259 original size:40 final size:40
Alignment explanation
Indices: 54883161--54883423 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
54883151 TCCTCGTTCA
* * * * *
54883161 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
54883200 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
54883240 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
54883280 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
54883320 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
54883360 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
54883400 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54883424 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:54883432 original size:41 final size:41
Alignment explanation
Indices: 54883355--54883432 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54883345 TTAGTATCTC
* * *
54883355 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
54883396 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54883433 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:54887786 original size:45 final size:45
Alignment explanation
Indices: 54887687--54887858 Score: 190
Period size: 45 Copynumber: 3.9 Consensus size: 45
54887677 CTGAATTCAT
* * * *
54887687 TCACTGACATT-TCGCCTACTAGGCTC-AAAGCCCG-ATA-TAATT
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGT-ATC
* * *
54887729 TCACCGGCATTATAGCTTGCTAGGCTCAAAAGCCTGAATAGTATC
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* * *
54887774 TCACCGATATTATAGCCTGTTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* * *
54887819 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATA
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
54887859 ATACTGTGCG
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 9 0.08
43 12 0.11
44 7 0.06
45 80 0.73
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (45 bp):
TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
Found at i:54888711 original size:47 final size:47
Alignment explanation
Indices: 54888659--54888750 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
54888649 AAAATTTTCT
* * *
54888659 TTAACTGAGTAACTTGT-TCGGAAATATTAAGGGCAAATTTAACAAAC
1 TTAACTAAGTAACTTATCT-GGAAATATTAAGAGCAAATTTAACAAAC
54888706 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
54888751 GCTTTAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 40 0.98
48 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAAC
Found at i:54908884 original size:40 final size:40
Alignment explanation
Indices: 54908829--54909095 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
54908819 AGCATTGGAT
54908829 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
54908869 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
54908909 TATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
54908949 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
54908989 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
54909029 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
54909069 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
54909096 ATGTGTTTGC
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:54912444 original size:93 final size:93
Alignment explanation
Indices: 54912328--54912498 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
54912318 CCGCCCATAA
* *
54912328 ACGAACTCAGACTCAACTCAACGAGCTT--GAGCGTTCGCATCCATAAGTGAACTCGGACTCAAC
1 ACGAACTCAGACTCAAATCAACGAG-TTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAAC
*
54912391 TCAACGAGTTTGGATACCTAGTTACATCTC
64 TCAACGAGTTCGGATACCTAGTTACATCTC
* *
54912421 ACGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATCAGTGAACTCGGACTCAACTC
1 ACGAACTCAGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
54912486 AACGAGTTCGGAT
66 AACGAGTTCGGAT
54912499 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 2 0.03
93 67 0.94
94 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
ACGAACTCAGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGTTCGGATACCTAGTTACATCTC
Found at i:54912496 original size:46 final size:47
Alignment explanation
Indices: 54912330--54912497 Score: 170
Period size: 46 Copynumber: 3.6 Consensus size: 47
54912320 GCCCATAAAC
* * * *
54912330 GAACTCAGACTCAACTCAACGAGCTT--GAGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAG-TTCGGACCATTCGCATCCATCAGT
* * *
54912376 GAACTCGGACTCAACTCAACGAGTTTGGATACCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGG--ACC-A-TTCGCATCCATCAGT
*
54912423 GAACTCGGACTCAAATCAACGAGTTCGGA-CATTCGCATCCATCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACCATTCGCATCCATCAGT
54912469 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
54912498 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.06
46 50 0.50
47 27 0.27
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACCATTCGCATCCATCAGT
Found at i:54912516 original size:46 final size:44
Alignment explanation
Indices: 54912373--54912516 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
54912363 CGCATCCATA
*
54912373 AGTGAACTCGGACTCAACTCAACGAGTTTGGATACCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATACC-A---ACCATCT
* * * *
54912420 CA-CGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATAC-CAACCATCT
*
54912466 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATAC-CAACCAT-CT
54912512 AGTGA
1 AGTGA
54912517 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 2 0.03
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATACCAACCATCT
Found at i:54914972 original size:56 final size:56
Alignment explanation
Indices: 54914886--54915005 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
54914876 GCAAGGGATG
*
54914886 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAAAATAAAATAAGAAGC
*
54914942 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAAAATAAAATAAGAAGC
54914998 ATGGGCAA
1 ATGGGCAA
54915006 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAAAATAAAATAAGAAGC
Found at i:54916531 original size:49 final size:47
Alignment explanation
Indices: 54916447--54917141 Score: 1029
Period size: 47 Copynumber: 14.6 Consensus size: 47
54916437 TATTTGAATA
54916447 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
54916494 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54916543 AATGTGAAAGTGTATATATATGTGATAAGGCTGAATGACCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
54916592 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54916641 AATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTAT--ATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54916690 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
54916737 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
54916784 AATGTAAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54916833 AATGTGGACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGT-GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54916880 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
54916927 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54916974 AATGCGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
54917021 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
54917068 AATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
54917115 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54917142 TCCCGAAGGG
Statistics
Matches: 611, Mismatches: 28, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
46 3 0.00
47 380 0.62
49 226 0.37
50 2 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:54917041 original size:25 final size:25
Alignment explanation
Indices: 54917013--54917091 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
54917003 CGAATGGCCA
54917013 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
54917038 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
54917060 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
54917085 ATGTGAT
1 ATGTGAT
54917092 AAGGCCAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:54928394 original size:38 final size:38
Alignment explanation
Indices: 54928351--54928423 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
54928341 TTCATCCTTT
*
54928351 TTCATTTCTTTTGGCCGAAAATTCTAAGAAAGGAGCAA
1 TTCATTTCTGTTGGCCGAAAATTCTAAGAAAGGAGCAA
*
54928389 TTCATTTCTGTTGGCCGAAAATTCTAAGGAAGGAG
1 TTCATTTCTGTTGGCCGAAAATTCTAAGAAAGGAG
54928424 GAAGGAGTTC
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:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTGTTGGCCGAAAATTCTAAGAAAGGAGCAA
Found at i:54929516 original size:38 final size:38
Alignment explanation
Indices: 54929473--54929548 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
54929463 TTCATCCTTT
54929473 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
54929511 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
54929549 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:54930828 original size:40 final size:40
Alignment explanation
Indices: 54930734--54930878 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
54930724 TACTCGAATG
* *
54930734 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
54930775 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
54930815 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
54930855 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
54930879 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:54937560 original size:38 final size:38
Alignment explanation
Indices: 54937517--54937592 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
54937507 TTCATCCTTT
54937517 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
54937555 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
54937593 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:54938917 original size:40 final size:40
Alignment explanation
Indices: 54938773--54938917 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
54938763 TACTCGAATG
* *
54938773 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * * *
54938814 ACATCCGGACTAAGATCCGAAGGTATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
54938854 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
54938894 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54938918 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 61 0.69
41 27 0.31
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:54943884 original size:30 final size:30
Alignment explanation
Indices: 54943850--54943910 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54943840 TCCTTAACTC
54943850 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
54943880 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
54943910 A
1 A
54943911 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:54949650 original size:39 final size:39
Alignment explanation
Indices: 54949596--54949684 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
54949586 TGCATGGTAT
* * *
54949596 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
1 TGGAAAAATATCCGGACTTAAAGTCAGCAGGC-TAAGTGC
*
54949635 TGGAAATATATCCGGACTTAAAGTCAGCAGGCTAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCAGCAGGCTAAGTGC
54949674 TGGAAAAATAT
1 TGGAAAAATAT
54949685 TCGGGCTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.05
39 42 0.95
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCAGCAGGCTAAGTGC
Found at i:54949713 original size:39 final size:39
Alignment explanation
Indices: 54949681--54949847 Score: 253
Period size: 39 Copynumber: 4.3 Consensus size: 39
54949671 TGCTGGAAAA
*
54949681 ATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
54949720 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* * * **
54949759 ACATCCAGGCTAAGTCTCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
54949798 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
54949837 ATATCCGGGCT
1 ATATCCGGGCT
54949848 TAAAGTCCTG
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:54954584 original size:39 final size:39
Alignment explanation
Indices: 54954530--54954621 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
54954520 TGCATGGTAT
* *
54954530 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
*
54954569 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
54954608 TGGAAAAATATCCG
1 TGGAAAAATATCCG
54954622 AGCTAAGTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.04
39 46 0.96
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
Found at i:54954647 original size:39 final size:39
Alignment explanation
Indices: 54954615--54954775 Score: 277
Period size: 39 Copynumber: 4.1 Consensus size: 39
54954605 TGCTGGAAAA
54954615 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
54954654 ATATCCGAGCTAAGTCCTGAAGGCATTCGTGCTGGTGCT
1 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
54954693 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
54954732 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
54954771 ATATC
1 ATATC
54954776 TGGGCTTAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (39 bp):
ATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:54954659 original size:78 final size:79
Alignment explanation
Indices: 54954566--54954766 Score: 223
Period size: 78 Copynumber: 2.6 Consensus size: 79
54954556 GCAGGCTTTA
* *
54954566 TGCTGGAAATATATCCGGA-CTTAAAGTCC-GCAGGC-TAAGTGCTGGAAAAATATCCGAGCTAA
1 TGCTGGAATTATATCCGGAGC-T-AAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGAGCTAA
54954628 GTCCCGAAGGCATTCG
64 GTCCCGAAGGCATTCG
* ** ****
54954644 TGCTGGTATTATATCC-GAGCTAAGTCCTGAAGGCATTCGTGCTGGTGCTATATCCGAGCTAAGT
1 TGCTGGAATTATATCCGGAGCTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGAGCTAAGT
54954708 CCCGAAGGCATTCG
66 CCCGAAGGCATTCG
** * **
54954722 TGCTGGCGTTATATCC-GAGCTAAGTCCCGAAGGCATTCGTGCTGG
1 TGCTGGAATTATATCCGGAGCTAAGTCCTGAAGGCATAAGTGCTGG
54954767 TATTATATCT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
76 6 0.06
77 8 0.07
78 94 0.87
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TGCTGGAATTATATCCGGAGCTAAGTCCTGAAGGCATAAGTGCTGGAAAAATATCCGAGCTAAGT
CCCGAAGGCATTCG
Found at i:54956109 original size:22 final size:24
Alignment explanation
Indices: 54956069--54956114 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
54956059 TAAGTAGATT
54956069 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAATAAAAGAAGTGAA-TAAAA
54956094 AGAAAA-AAAAG-A-TGAATAAAA
1 AGAAAATAAAAGAAGTGAATAAAA
54956115 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 1 0.05
24 5 0.24
25 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAGTGAATAAAA
Found at i:54956874 original size:13 final size:13
Alignment explanation
Indices: 54956856--54956880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54956846 TAATGGTATA
54956856 TTGAATCCATGAC
1 TTGAATCCATGAC
54956869 TTGAATCCATGA
1 TTGAATCCATGA
54956881 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:54973898 original size:40 final size:40
Alignment explanation
Indices: 54973853--54974035 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
54973843 CTTGCACAAG
*
54973853 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
54973893 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGC-CAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
54973932 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
54973972 GACTTCGGATCTTAGTCCGG-TATAGTCACCTAGCACAACA-
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAA-AT
*
54974012 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54974036 CATTCGAATA
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 39 0.32
40 77 0.64
41 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54973947 original size:79 final size:80
Alignment explanation
Indices: 54973853--54974035 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 80
54973843 CTTGCACAAG
* *
54973853 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGACTTC-GGATCTTAGCCCGG-TA
*
54973916 TAGTC-GCTAGC-CAA-A
63 TAGTCACCTAGCACAACA
* * *
54973931 TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGACTTCGGATCTTAGTCCGGTATA
1 -GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGACTTCGGATCTTAGCCCGGTATA
54973996 GTCACCTAGCACAACA
65 GTCACCTAGCACAACA
*
54974012 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54974036 CATTCGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
78 11 0.12
79 54 0.59
80 26 0.28
81 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGACTTCGGATCTTAGCCCGGTATAG
TCACCTAGCACAACA
Found at i:54981968 original size:40 final size:40
Alignment explanation
Indices: 54981912--54982096 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
54981902 CTTGCACAAG
* * * *
54981912 GCCTTCGGGTCATAGCCCGAATATAGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
54981952 GCCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54981992 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
54982032 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
54982073 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
54982097 CATTCGAATA
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 90 0.73
41 27 0.22
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54984724 original size:13 final size:13
Alignment explanation
Indices: 54984706--54984751 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
54984696 GACACGCGAG
*
54984706 CGTGTGTCTATAC
1 CGTGTGTCTATAT
54984719 CGTGTGTCTATAT
1 CGTGTGTCTATAT
54984732 CGTGTGTCTATAT
1 CGTGTGTCTATAT
54984745 CGTGTGT
1 CGTGTGT
54984752 GACACACGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.43
Consensus pattern (13 bp):
CGTGTGTCTATAT
Found at i:54993525 original size:30 final size:30
Alignment explanation
Indices: 54993491--54993551 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54993481 TCCTTAACTC
*
54993491 AAACTTTTGCAAAATTACAATTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
54993521 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
54993551 A
1 A
54993552 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:54996830 original size:22 final size:26
Alignment explanation
Indices: 54996804--54996857 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 26
54996794 AGTATGTTTA
54996804 ATAAATATTTAATT-ATA-AA-TGT-
1 ATAAATATTTAATTGATATAATTGTG
*
54996826 ATAAATGTTTAATTGATATAATTGTG
1 ATAAATATTTAATTGATATAATTGTG
54996852 ATAAAT
1 ATAAAT
54996858 GTCTTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 13 0.48
23 3 0.11
24 2 0.07
25 3 0.11
26 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.44
Consensus pattern (26 bp):
ATAAATATTTAATTGATATAATTGTG
Found at i:55000685 original size:44 final size:43
Alignment explanation
Indices: 55000606--55000715 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 43
55000596 CCGATATGGG
* * *
55000606 TTATCGTGTAAGACCACGTCGGGGACGTTGGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCATGTCTGGGACGTTGACATCGTA-TT-TGAT
*
55000651 TTATGTGTAAGACCATGTCTGGGATGTTGACATCGTATTTGAT
1 TTATGTGTAAGACCATGTCTGGGACGTTGACATCGTATTTGAT
* *
55000694 TT-CGTGTAAGACCCTGTCTGGG
1 TTATGTGTAAGACCATGTCTGGG
55000716 TCAGTGGCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 18 0.31
43 6 0.10
44 29 0.50
45 5 0.09
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (43 bp):
TTATGTGTAAGACCATGTCTGGGACGTTGACATCGTATTTGAT
Found at i:55001438 original size:10 final size:9
Alignment explanation
Indices: 55001407--55001434 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
55001397 CTAAGAGAAA
55001407 TGGTAAGTT
1 TGGTAAGTT
55001416 TGGTAAGTT
1 TGGTAAGTT
55001425 TGGTAAGTT
1 TGGTAAGTT
55001434 T
1 T
55001435 TGGTGTGTGA
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:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (9 bp):
TGGTAAGTT
Found at i:55003308 original size:40 final size:39
Alignment explanation
Indices: 55003264--55003485 Score: 345
Period size: 40 Copynumber: 5.6 Consensus size: 39
55003254 GCTACTTTCT
* **
55003264 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCA
55003304 CAAATGCCTTCGGGACTTAGCCCGGACATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCA
*
55003344 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
55003384 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
* * *
55003424 CAATTGCCTTCGGGACTTAGCCCGGAATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCA
55003463 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
55003486 CGTTATCATC
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 33 0.19
40 138 0.81
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCA
Found at i:55008906 original size:43 final size:43
Alignment explanation
Indices: 55008806--55008913 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
55008796 GATTAATGAA
* * *
55008806 ATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCATT
1 ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCACT
* * *
55008849 ATGAGATTAT-GTGTAAAACCATGTCTGGGACATTGGCATCGCT
1 ATGTGATT-TCGTGTAAGACCATGTCTGGGACATTGGCATCACT
*
55008892 ATTTGATTTCGTGTAAGACCAT
1 ATGTGATTTCGTGTAAGACCAT
55008914 AGATGGGTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCACT
Found at i:55022619 original size:29 final size:30
Alignment explanation
Indices: 55022556--55022623 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
55022546 TAATCAACCG
55022556 CGCACACTTAGTGCCATGCACTTTAAACTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
* * *
55022586 -ACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
55022614 CGCACACTTA
1 CGCACACTTA
55022624 CCTTTCCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (30 bp):
CGCACACTTAGTGCCATGCACTTTAAACTT
Found at i:55022736 original size:174 final size:174
Alignment explanation
Indices: 55022445--55022772 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
55022435 AACTCAAGGT
* * *
55022445 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
55022510 GAAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
55022575 ACTTTAAACTTACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
55022619 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
55022684 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
55022749 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
55022773 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:55022764 original size:29 final size:30
Alignment explanation
Indices: 55022725--55022803 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
55022715 CTTAATAATC
55022725 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
55022755 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
55022784 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
55022804 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:55027356 original size:27 final size:27
Alignment explanation
Indices: 55027312--55027414 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
55027302 GACCCCAATT
*
55027312 TGGTGAAATGACTATTTTGCCCTTATA
1 TGGTAAAATGACTATTTTGCCCTTATA
* * *
55027339 AGGTAAAATGACTGTTTTGCCCTTATG
1 TGGTAAAATGACTATTTTGCCCTTATA
*** * *
55027366 TGGTAAAATGACTAAAATGCCCCTACA
1 TGGTAAAATGACTATTTTGCCCTTATA
* *
55027393 TGGTAAATTGACTGTTTTGCCC
1 TGGTAAAATGACTATTTTGCCC
55027415 CTATGTGAGG
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (27 bp):
TGGTAAAATGACTATTTTGCCCTTATA
Found at i:55027787 original size:18 final size:18
Alignment explanation
Indices: 55027764--55027803 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55027754 GGACTTGCAT
* *
55027764 ACTGTTTACTATTATTGC
1 ACTGTTTACCATTACTGC
55027782 ACTGTTTACCATTACTGC
1 ACTGTTTACCATTACTGC
55027800 ACTG
1 ACTG
55027804 GGCTAGGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (18 bp):
ACTGTTTACCATTACTGC
Found at i:55043863 original size:93 final size:93
Alignment explanation
Indices: 55043754--55043924 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
55043744 GCCCCTAAGT
* ** *
55043754 GAACTCGGACTCAACTCAATGAGTTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACAAGTTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55043818 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
55043847 GAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55043912 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55043925 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55043920 original size:46 final size:47
Alignment explanation
Indices: 55043749--55043921 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 47
55043739 AACCCGCCCC
* *
55043749 TAAGTGAACTCGGACTCAACTCAATGAGTTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
* *
55043795 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* * * *
55043843 TCA-CGAACTCAGACTCAACTCAACAAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
55043888 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55043922 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 57 0.55
47 29 0.28
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:55056351 original size:22 final size:22
Alignment explanation
Indices: 55056326--55056369 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55056316 AATTATTAAC
* *
55056326 ATAATGAATTTTAATTAATTTT
1 ATAATAAAATTTAATTAATTTT
*
55056348 ATAATAAAATTTGATTAATTTT
1 ATAATAAAATTTAATTAATTTT
55056370 GATTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAAATTTAATTAATTTT
Found at i:55058675 original size:68 final size:64
Alignment explanation
Indices: 55058589--55058810 Score: 223
Period size: 67 Copynumber: 3.4 Consensus size: 64
55058579 TAATACGGGA
* *
55058589 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
55058654 ATG
62 ATG
* * * * * *
55058657 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--
55058721 TG
63 TG
* * ** * * *
55058723 AAGGACACCATGTAAACAAGAAAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
55058787 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
55058811 CAAAATTATG
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 19 0.15
64 25 0.20
65 2 0.02
66 23 0.18
67 28 0.22
68 27 0.22
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:55060291 original size:21 final size:20
Alignment explanation
Indices: 55060246--55060291 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
55060236 TTGTTGGAAT
55060246 GGTTG-ATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
55060265 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
55060286 GGTTGA
1 GGTTGA
55060292 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 8 0.36
21 10 0.45
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:55062580 original size:23 final size:24
Alignment explanation
Indices: 55062535--55062614 Score: 92
Period size: 23 Copynumber: 3.3 Consensus size: 24
55062525 AAGCTCCTCC
*
55062535 TGAGCTGATGGACAGTAAGCTCTAT
1 TGAGCTGA-GAACAGTAAGCTCTAT
* * *
55062560 TGAGCTGA-AATAGTAAACTCTAA
1 TGAGCTGAGAACAGTAAGCTCTAT
55062583 TGAGCTGAGAACAGTAAGCTCT-T
1 TGAGCTGAGAACAGTAAGCTCTAT
55062606 ATGAGCTGA
1 -TGAGCTGA
55062615 TATATCGGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 19 0.41
24 19 0.41
25 8 0.17
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (24 bp):
TGAGCTGAGAACAGTAAGCTCTAT
Found at i:55062604 original size:24 final size:24
Alignment explanation
Indices: 55062535--55062614 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
55062525 AAGCTCCTCC
* *
55062535 TGAGCTGATGGACAGTAAGCTCTAT
1 TGAGCTGA-GAACAGTAAGCTCTAA
* *
55062560 TGAGCTGA-AATAGTAAACTCTAA
1 TGAGCTGAGAACAGTAAGCTCTAA
*
55062583 TGAGCTGAGAACAGTAAGCTCTTA
1 TGAGCTGAGAACAGTAAGCTCTAA
55062607 TGAGCTGA
1 TGAGCTGA
55062615 TATATCGGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 19 0.40
24 20 0.43
25 8 0.17
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (24 bp):
TGAGCTGAGAACAGTAAGCTCTAA
Found at i:55066076 original size:39 final size:39
Alignment explanation
Indices: 55066009--55066225 Score: 330
Period size: 39 Copynumber: 5.5 Consensus size: 39
55065999 ACAAAGCATG
* * *
55066009 CGGGACTTTATGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TTA-GCCCGGATATAACACCAGCACGAATGCCTT
*
55066049 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGTCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
55066089 CGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
55066128 CGGGACTTAGCCCGGATATAACA-CAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
55066166 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
55066205 CAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
55066226 TTCTCCATTA
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
38 38 0.23
39 107 0.65
40 20 0.12
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:55066185 original size:116 final size:119
Alignment explanation
Indices: 55066009--55066225 Score: 334
Period size: 116 Copynumber: 1.8 Consensus size: 119
55065999 ACAAAGCATG
*
55066009 CGGGACTTTATGCCCGGATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
1 CGGGACTTTATGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
* * *
55066074 CAGCACGAATGTCTTCGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTT
66 CAGCACGAATGCCTTCAGGACTTAACCCGGATATAACACCAGCACGAATGCCTT
* *
55066128 CGGGAC-TTA-GCCCGGATATAACA-CAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACA
1 CGGGACTTTATGCCCGGATATAACACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACA
*
55066189 CCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAA
65 CCAGCACGAATGCCTTCAGGACTTAACCCGGATATAA
55066226 TTCTCCATTA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
116 56 0.62
117 25 0.28
118 3 0.03
119 6 0.07
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (119 bp):
CGGGACTTTATGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
CAGCACGAATGCCTTCAGGACTTAACCCGGATATAACACCAGCACGAATGCCTT
Found at i:55066187 original size:77 final size:78
Alignment explanation
Indices: 55066009--55066225 Score: 330
Period size: 77 Copynumber: 2.8 Consensus size: 78
55065999 ACAAAGCATG
* * *
55066009 CGGGACTTTATGCCCGGATATAATACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACA
1 CGGGAC-TTA-GCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACA
*
55066073 CCAGCACGAATGTCTT
63 CCAGCACGAATGCCTT
* *
55066089 CGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACA-CA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
55066153 GCACGAATGCCTT
66 GCACGAATGCCTT
*
55066166 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
55066226 TTCTCCATTA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
77 71 0.56
78 36 0.28
79 15 0.12
80 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
GCACGAATGCCTT
Found at i:55066691 original size:110 final size:110
Alignment explanation
Indices: 55066558--55066777 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
55066548 TGTGGATAGG
*
55066558 CTACTCGATTGCTTTATCCTTTCCCTTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTATCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
*
55066623 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAAAAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
*
55066668 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTATCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
55066733 TAAAAAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAAAAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
55066778 AATAGTCACA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (110 bp):
CTACTCGATTGCTTTATCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAAAAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:55074387 original size:40 final size:40
Alignment explanation
Indices: 55074287--55074544 Score: 272
Period size: 40 Copynumber: 6.5 Consensus size: 40
55074277 GCTCCTCGTT
* * * *
55074287 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
55074327 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
55074366 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
55074406 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
55074446 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
* ** * * * *
55074486 CAAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
55074527 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
55074545 GCCTGGACAG
Statistics
Matches: 191, Mismatches: 21, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
39 40 0.21
40 136 0.71
41 15 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:55081757 original size:40 final size:40
Alignment explanation
Indices: 55081659--55081921 Score: 246
Period size: 40 Copynumber: 6.6 Consensus size: 40
55081649 TCCTCGTTCA
* * * * *
55081659 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
55081698 AATGCCTTCGGGACATAACCCGTATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
55081738 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55081778 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
55081818 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
* ** * * * *
55081858 AAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55081898 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55081922 CAGCATTCAA
Statistics
Matches: 194, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55081881 original size:120 final size:119
Alignment explanation
Indices: 55081659--55081921 Score: 282
Period size: 120 Copynumber: 2.2 Consensus size: 119
55081649 TCCTCGTTCA
* * * *
55081659 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGTATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGAATT
* * * *
55081724 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
66 TAATAACTCGCACAAAAGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* * * * *
55081777 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCC-GA
* * ** *
55081842 ATTT-GTATCTCGCACAAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAAAGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
55081898 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55081922 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
119 37 0.31
120 71 0.60
121 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGAATT
TAATAACTCGCACAAAAGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:55081930 original size:41 final size:41
Alignment explanation
Indices: 55081853--55081930 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55081843 TTTGTATCTC
* * *
55081853 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55081894 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55081931 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55089392 original size:48 final size:48
Alignment explanation
Indices: 55089317--55089464 Score: 188
Period size: 48 Copynumber: 3.1 Consensus size: 48
55089307 CACATGGTAG
* * * ** *
55089317 GATGCCAATGCCATATCTCGGGTATGGTCTTACATGGGTTCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** *
55089365 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
55089413 GATGCTAACGCCATGTCCGAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
55089461 GATG
1 GATG
55089465 TCGATAGCCC
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:55090126 original size:24 final size:24
Alignment explanation
Indices: 55090038--55090138 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
55090028 AAGTCTGTCA
*
55090038 GGAGAGGATTTAGGAG-TCGATAAA
1 GGAGAGGATTTAGGAGCT-GATAAG
* *
55090062 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
55090086 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
55090110 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
55090134 GGAGA
1 GGAGA
55090139 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 70 0.99
25 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.40, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:55091593 original size:27 final size:27
Alignment explanation
Indices: 55091553--55091625 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
55091543 AGGAAGCATC
*
55091553 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
55091580 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
55091607 CTGGTGACTCTGTCACATT
1 CTGGTGGCTCTGCCACATT
55091626 ATTTGTTCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:55091633 original size:26 final size:27
Alignment explanation
Indices: 55091553--55091636 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
55091543 AGGAAGCATC
* * * *
55091553 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGACTCTGCCACAATTATCTGTT
*
55091580 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGACTCTGCCACAATTATCTGTT
* *
55091607 CTGGTGACTCTGTCAC-ATTATTTGTT
1 CTGGTGACTCTGCCACAATTATCTGTT
55091633 CTGG
1 CTGG
55091637 CAGCAATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 13 0.25
27 38 0.75
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGACTCTGCCACAATTATCTGTT
Found at i:55094069 original size:40 final size:40
Alignment explanation
Indices: 55094011--55094237 Score: 400
Period size: 40 Copynumber: 5.7 Consensus size: 40
55094001 AGCATTGGAT
55094011 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
55094051 TATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
55094091 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
55094131 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
55094171 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
55094211 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
55094238 ATGTGTTTGC
Statistics
Matches: 177, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:55098551 original size:27 final size:27
Alignment explanation
Indices: 55098521--55098698 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
55098511 ATATTGAGTC
* *
55098521 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
55098548 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55098575 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
55098603 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55098630 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
55098657 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
55098684 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55098699 GTAAAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55120309 original size:28 final size:27
Alignment explanation
Indices: 55120225--55120317 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 27
55120215 CATTAAAGCT
* * *
55120225 AATCATATTCATATGGCCATTAGGCCC
1 AATCACATTTATATGGCCATTAGGCCA
*
55120252 AATCGC---TATATGGCCATTAGGCCA
1 AATCACATTTATATGGCCATTAGGCCA
* *
55120276 AATCACATTTATATGGCTCGTTAGGCCC
1 AATCACATTTATATGGC-CATTAGGCCA
* *
55120304 AGTCACATTCATAT
1 AATCACATTTATAT
55120318 TCATGCTCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
24 21 0.40
27 12 0.23
28 20 0.38
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (27 bp):
AATCACATTTATATGGCCATTAGGCCA
Found at i:55120996 original size:19 final size:21
Alignment explanation
Indices: 55120956--55121002 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
55120946 TAAGTGAAAC
*
55120956 AAAGAAATTGTGTAGAGAAGA
1 AAAGAAATTGTGCAGAGAAGA
*
55120977 ATAGAAATTG-GCAG-GAAGA
1 AAAGAAATTGTGCAGAGAAGA
55120996 AAAGAAA
1 AAAGAAA
55121003 GAAAACAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.48
20 3 0.13
21 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.28, T:0.15
Consensus pattern (21 bp):
AAAGAAATTGTGCAGAGAAGA
Found at i:55121641 original size:16 final size:16
Alignment explanation
Indices: 55121616--55121646 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55121606 AAGTTTAGGA
*
55121616 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
55121632 TTTCGAGATTTTTGG
1 TTTCGAGATTTTTGG
55121647 AGCGTTACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.32, T:0.52
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:55122161 original size:14 final size:14
Alignment explanation
Indices: 55122138--55122173 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
55122128 CCCTGCTCTA
*
55122138 TCTGGTCCATTAAC
1 TCTGGCCCATTAAC
55122152 TCTGGCCCATTAAC
1 TCTGGCCCATTAAC
55122166 TCTGGCCC
1 TCTGGCCC
55122174 TAGCCCTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.36, G:0.17, T:0.31
Consensus pattern (14 bp):
TCTGGCCCATTAAC
Found at i:55124586 original size:28 final size:29
Alignment explanation
Indices: 55124555--55124668 Score: 103
Period size: 29 Copynumber: 4.0 Consensus size: 29
55124545 TACTTGTATC
*
55124555 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
*
55124583 TGGCCCATT-AGACCCAAATCACCTGT-ATA
1 TGGCCCATTAAG-CCCAAATCACAT-TCATA
* * *
55124612 TGTCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * *
55124641 TGG-CCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
55124668 T
1 T
55124669 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
27 14 0.19
28 23 0.32
29 33 0.46
30 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:55125344 original size:19 final size:21
Alignment explanation
Indices: 55125299--55125350 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
55125289 TCAGTTAAGT
* *
55125299 GAAGCAAAGAAATTGTGTGGA
1 GAAGAAAAGAAATTGTGTAGA
*
55125320 GAAGAATAGAAATTG-GTAG-
1 GAAGAAAAGAAATTGTGTAGA
55125339 GAAGAAAAGAAA
1 GAAGAAAAGAAA
55125351 GAAATTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.15
Consensus pattern (21 bp):
GAAGAAAAGAAATTGTGTAGA
Found at i:55127987 original size:40 final size:40
Alignment explanation
Indices: 55127891--55128070 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 40
55127881 AAACCAAGTA
* * * *
55127891 CCTTCGGGAT-TTAG-CCGGATATCGCAA-TCCCACAAATA
1 CCTTCGGG-TCTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
55127929 CCTTCCGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGTCTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55127969 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTAACTCGCACAAATG
*
55128009 CCTTCGGGTCTTAG-CCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTAACTCGCACAAATG
*
55128048 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
55128071 CATCCGAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 10 0.08
39 46 0.39
40 63 0.53
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55128031 original size:79 final size:80
Alignment explanation
Indices: 55127921--55128067 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
55127911 ATCGCAATCC
* *
55127921 CACAAATACCTTCCGGACTTAACCCGGATATAGTAACTCGCACACATGCCTTCGGGTCTTAGCCC
1 CACAAATACCTTCCGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
55127986 GGAAATAGTCACTAG
66 GGAAATAGTCACTAG
* * * * *
55128001 CACAAATGCCTTCGGGTCTT-AGCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCC
1 CACAAATACCTTCCGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
55128065 GGA
66 GGA
55128068 TATCATCCGA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 43 0.72
80 17 0.28
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CACAAATACCTTCCGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
GGAAATAGTCACTAG
Found at i:55136317 original size:40 final size:40
Alignment explanation
Indices: 55136248--55136429 Score: 258
Period size: 40 Copynumber: 4.6 Consensus size: 40
55136238 AAACCAAGTA
* * *
55136248 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55136287 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
55136327 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55136367 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55136407 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
55136430 CATCCGAATA
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.10
40 114 0.90
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55146361 original size:22 final size:26
Alignment explanation
Indices: 55146304--55146355 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
55146294 TATTTTCTGA
55146304 ATCGTATAATAAATATTTAACTTGTT
1 ATCGTATAATAAATATTTAACTTGTT
55146330 ATCGTATAATAAATATTTAACTTGTT
1 ATCGTATAATAAATATTTAACTTGTT
55146356 CTTAATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (26 bp):
ATCGTATAATAAATATTTAACTTGTT
Found at i:55147254 original size:148 final size:148
Alignment explanation
Indices: 55146986--55147291 Score: 594
Period size: 148 Copynumber: 2.1 Consensus size: 148
55146976 GTAATTATAA
**
55146986 ATATTTAAAGCCTATCACGAAATCACGCGATCAGAAACCGATTCTTTCAAAAAACAAACAAAAGG
1 ATATTTATTGCCTATCACGAAATCACGCGATCAGAAACCGATTCTTTCAAAAAACAAACAAAAGG
55147051 CAAAATGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGAGACCGTTAAACCGAGTCA
66 CAAAATGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGAGACCGTTAAACCGAGTCA
55147116 CCGAAATGTTTGAATGTG
131 CCGAAATGTTTGAATGTG
55147134 ATATTTATTGCCTATCACGAAATCACGCGATCAGAAACCGATTCTTTCAAAAAACAAACAAAAGG
1 ATATTTATTGCCTATCACGAAATCACGCGATCAGAAACCGATTCTTTCAAAAAACAAACAAAAGG
55147199 CAAAATGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGAGACCGTTAAACCGAGTCA
66 CAAAATGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGAGACCGTTAAACCGAGTCA
55147264 CCGAAATGTTTGAATGTG
131 CCGAAATGTTTGAATGTG
55147282 ATATTTATTG
1 ATATTTATTG
55147292 TCTAGAATAT
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 156 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (148 bp):
ATATTTATTGCCTATCACGAAATCACGCGATCAGAAACCGATTCTTTCAAAAAACAAACAAAAGG
CAAAATGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCGAGACCGTTAAACCGAGTCA
CCGAAATGTTTGAATGTG
Found at i:55149149 original size:27 final size:27
Alignment explanation
Indices: 55149115--55149292 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
55149105 TAAATTGTAC
55149115 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
55149142 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
55149168 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55149196 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55149224 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55149251 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55149278 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55149293 GACTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55149283 original size:82 final size:81
Alignment explanation
Indices: 55149112--55149292 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
55149102 CATTAAATTG
*
55149112 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
55149177 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55149193 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
55149256 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
55149275 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55149293 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55157341 original size:27 final size:27
Alignment explanation
Indices: 55157310--55157487 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
55157300 TAAATTGTAC
55157310 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
55157337 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
55157363 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55157391 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55157419 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55157446 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55157473 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55157488 GACTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55157478 original size:82 final size:81
Alignment explanation
Indices: 55157307--55157487 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
55157297 GATTAAATTG
*
55157307 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
55157372 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55157388 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
55157451 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
55157470 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55157488 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55162097 original size:28 final size:29
Alignment explanation
Indices: 55162061--55162159 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 29
55162051 ATAATAAGCC
* *
55162061 CGCATACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
55162089 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * * *
55162117 CACACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
55162146 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55162160 CAATCTCATG
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 4 0.07
28 33 0.57
29 16 0.28
30 5 0.09
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:55169966 original size:28 final size:29
Alignment explanation
Indices: 55169934--55170032 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
55169924 ATAATAAGCC
*
55169934 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
55169962 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
55169990 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
55170019 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55170033 CAATCTTATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:55176822 original size:49 final size:51
Alignment explanation
Indices: 55176761--55176888 Score: 179
Period size: 51 Copynumber: 2.5 Consensus size: 51
55176751 ATCTGGTACG
*
55176761 CATAGTAGCCTGCACATAGTACTACACACGTGA-C-CAATTATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGATACA
* * * * * *
55176810 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGATACA
55176861 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
55176889 TGCGACCTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 31 0.45
50 1 0.01
51 37 0.54
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGATACA
Found at i:55176879 original size:51 final size:49
Alignment explanation
Indices: 55176750--55176888 Score: 188
Period size: 49 Copynumber: 2.8 Consensus size: 49
55176740 TAGCCAAAGC
* *
55176750 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACACGTGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
55176799 TATCCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
55176850 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACA
55176889 TGCGACCTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 39 0.51
50 1 0.01
51 37 0.48
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:55183522 original size:40 final size:40
Alignment explanation
Indices: 55183424--55183686 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
55183414 TCCTCGTTCA
* * * * *
55183424 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
55183463 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55183503 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55183543 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55183583 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
55183623 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55183663 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55183687 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55185373 original size:29 final size:28
Alignment explanation
Indices: 55185333--55185402 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
55185323 AATGTGACTA
* *
55185333 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATATGA-TTG
*
55185362 GGCCTAATGGGCCATATGAATATGATTG
1 GGCCTAATGGGCCATATAAATATGATTG
*
55185390 GGCTTAATGGGCC
1 GGCCTAATGGGCC
55185403 TAATACAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAAATATGATTG
Found at i:55185399 original size:28 final size:28
Alignment explanation
Indices: 55185318--55185402 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
55185308 GTGAGCATGA
* * *
55185318 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
55185346 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
55185375 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
55185403 TAATACAGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 26 0.53
29 23 0.47
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:55186627 original size:29 final size:29
Alignment explanation
Indices: 55186577--55186638 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
55186567 TATGATATGG
*
55186577 TATCTTGGATTTCTGTACCTTGGATATCTT
1 TATCTTGGATCTCTGTA-CTTGGATATCTT
*
55186607 TATCTTGGATCCTCTGT-CTTGGATTTCTT
1 TATCTTGGAT-CTCTGTACTTGGATATCTT
55186636 TAT
1 TAT
55186639 TCTGGTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 14 0.48
30 10 0.34
31 5 0.17
ACGTcount: A:0.15, C:0.18, G:0.16, T:0.52
Consensus pattern (29 bp):
TATCTTGGATCTCTGTACTTGGATATCTT
Found at i:55190775 original size:12 final size:12
Alignment explanation
Indices: 55190758--55190782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55190748 TTTTGCAAAT
55190758 TTATTTCAAGAA
1 TTATTTCAAGAA
55190770 TTATTTCAAGAA
1 TTATTTCAAGAA
55190782 T
1 T
55190783 GAGGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTATTTCAAGAA
Found at i:55194053 original size:48 final size:43
Alignment explanation
Indices: 55193982--55194138 Score: 138
Period size: 42 Copynumber: 3.6 Consensus size: 43
55193972 CCACATATCG
* *
55193982 ATGCCATATCCCAAATATGGTCTTATACGAAGTCTCATGTCAGTGCTA
1 ATGCCATATCCCAGACATGGTCTTATACGAAGTCTCA--TCA-T--TA
** *
55194030 ATGCCATATCCCAGACATGGTCTTATACGGGGCCTCA-CATTA
1 ATGCCATATCCCAGACATGGTCTTATACGAAGTCTCATCATTA
* * * *
55194072 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAT-ATCA
1 ATGCCATATCCCAGACATGGTCTTATACGAAGTCTCATCATTA
* * **
55194114 ACGCCATATTCCAGGTATGGTCTTA
1 ATGCCATATCCCAGACATGGTCTTA
55194139 AATGAAATCA
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 56 0.62
44 1 0.01
45 2 0.02
48 32 0.35
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGCCATATCCCAGACATGGTCTTATACGAAGTCTCATCATTA
Done.