Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 32 of 213
Found at i:8696775 original size:44 final size:45
Alignment explanation
Indices: 8696710--8696800 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
8696700 ACCTCTATTC
* * *
8696710 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
8696754 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
8696799 CA
1 CA
8696801 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:8696802 original size:16 final size:16
Alignment explanation
Indices: 8696781--8696849 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
8696771 GATTAGCTAT
8696781 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8696797 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
8696814 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8696830 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8696846 TACA
1 TACA
8696850 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:8696823 original size:33 final size:32
Alignment explanation
Indices: 8696781--8696849 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
8696771 GATTAGCTAT
8696781 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
8696814 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
8696846 TACA
1 TACA
8696850 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:8699041 original size:33 final size:33
Alignment explanation
Indices: 8698999--8699071 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
8698989 ATAAGCAAAT
8698999 TATGACACCTTTTCCATTTTCAAATTTGCTATA
1 TATGACACCTTTTCCATTTTCAAATTTGCTATA
* *
8699032 TATGACACCTTTTCCGTTTTCAAATTTGCTGTA
1 TATGACACCTTTTCCATTTTCAAATTTGCTATA
8699065 TAT-ACAC
1 TATGACAC
8699072 TTATCAGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 4 0.11
33 34 0.89
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (33 bp):
TATGACACCTTTTCCATTTTCAAATTTGCTATA
Found at i:8702447 original size:32 final size:32
Alignment explanation
Indices: 8702411--8702471 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
8702401 AAATAAGCAC
8702411 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
8702443 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
8702472 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:8705463 original size:12 final size:11
Alignment explanation
Indices: 8705423--8705483 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 11
8705413 TTTAATATCT
8705423 AAAT-AAGT-A
1 AAATAAAGTAA
*
8705432 AAATAAAAT-A
1 AAATAAAGTAA
8705442 AAATAAAGTAA
1 AAATAAAGTAA
*
8705453 TAAATAGAGTAA
1 -AAATAAAGTAA
*
8705465 AAATAAAAATAA
1 AAAT-AAAGTAA
8705477 AAATAAA
1 AAATAAA
8705484 AATTGGGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 4 0.09
10 12 0.28
11 8 0.19
12 19 0.44
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (11 bp):
AAATAAAGTAA
Found at i:8705478 original size:5 final size:6
Alignment explanation
Indices: 8705431--8705486 Score: 53
Period size: 6 Copynumber: 8.8 Consensus size: 6
8705421 CTAAATAAGT
8705431 AAAAT- AAAAT- AAAATA AAGTAATA AATAGAGTA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AA--AATA AA-A-A-TA AAAATA AAAATA AAAATA
8705482 AAAAT
1 AAAAT
8705487 TGGGTTGCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
5 10 0.22
6 21 0.46
7 3 0.07
8 8 0.17
9 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:8710672 original size:18 final size:19
Alignment explanation
Indices: 8710651--8710690 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
8710641 TTGCATCAAA
8710651 GTGCCA-CTCACTTGCATC
1 GTGCCATCTCACTTGCATC
*
8710669 GTGCCATTTTCACTTGCATC
1 GTGCCA-TCTCACTTGCATC
8710689 GT
1 GT
8710691 AATGCCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.15, C:0.33, G:0.17, T:0.35
Consensus pattern (19 bp):
GTGCCATCTCACTTGCATC
Found at i:8713079 original size:21 final size:21
Alignment explanation
Indices: 8713054--8713095 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8713044 AACAAGCTAA
*
8713054 CAAATCTCCCTACGACTTAGT
1 CAAATCTCCCTAAGACTTAGT
8713075 CAAATCTCCCTAAGACTTAGT
1 CAAATCTCCCTAAGACTTAGT
8713096 TTTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.29
Consensus pattern (21 bp):
CAAATCTCCCTAAGACTTAGT
Found at i:8722054 original size:3 final size:3
Alignment explanation
Indices: 8722046--8722083 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8722036 ATCACATGTT
8722046 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8722084 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8722201 original size:72 final size:72
Alignment explanation
Indices: 8722084--8722267 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
8722074 TATTATTATT
8722084 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
8722149 TTTTAAG
66 TTTTAAG
8722156 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
8722221 TTTTAAG
66 TTTTAAG
*
8722228 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
8722268 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:8726493 original size:3 final size:3
Alignment explanation
Indices: 8726485--8726519 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8726475 ATCACATGTT
8726485 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8726520 TGGATGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8726637 original size:72 final size:72
Alignment explanation
Indices: 8726520--8726703 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
8726510 TATTATTATT
8726520 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
8726585 TTTTAAG
66 TTTTAAG
8726592 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
8726657 TTTTAAG
66 TTTTAAG
*
8726664 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
8726704 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:8738448 original size:95 final size:93
Alignment explanation
Indices: 8738242--8738503 Score: 318
Period size: 95 Copynumber: 2.8 Consensus size: 93
8738232 GATAACTAAG
* * * * *
8738242 TGGTGGCGCCATTTAGAATGGCTACACCAAATAAAATATTATTTTTTAAAA-ATT-TTAA-ATAT
1 TGGTGGAGCCATTTAGAATGGCTCCACCAAA-AAAATA-TA-TATTTAAAATATTATAAACAAAT
8738304 AA-AAAATAAATTTTAAAAAAATTAAATGAAC
63 AATAAAA-AAATTTTAAAAAAATTAAATGAAC
* * *
8738335 TGATGGCA-CTATTTAGAATGGCTCCACCAAAAAAATATACATTTAAAATATTATAAAACAAATA
1 TGGTGG-AGCCATTTAGAATGGCTCCACCAAAAAAATATATATTTAAAATATTAT-AAACAAATA
*
8738399 ATAAAAAAATTTTAAAAAAGTTTAAATGAAC
64 ATAAAAAAATTTTAAAAAA-ATTAAATGAAC
*
8738430 TGGTGGAGCCATTTAGAATGGCTCCACCAAAAATATATATATTTAAAATATTATGAAACAAATAA
1 TGGTGGAGCCATTTAGAATGGCTCCACCAAAAAAATATATATTTAAAATATTAT-AAACAAATAA
8738495 TAATAAAAA
65 TAA-AAAAA
8738504 GGACAGAAAT
Statistics
Matches: 146, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
90 7 0.05
91 5 0.03
92 7 0.05
93 28 0.19
94 19 0.13
95 75 0.51
96 5 0.03
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (93 bp):
TGGTGGAGCCATTTAGAATGGCTCCACCAAAAAAATATATATTTAAAATATTATAAACAAATAAT
AAAAAAATTTTAAAAAAATTAAATGAAC
Found at i:8748593 original size:16 final size:16
Alignment explanation
Indices: 8748569--8748599 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8748559 ACAAGTTATT
*
8748569 TATGCATACATGTATA
1 TATGAATACATGTATA
8748585 TATGAATACATGTAT
1 TATGAATACATGTAT
8748600 GTATATGCAT
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:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (16 bp):
TATGAATACATGTATA
Found at i:8749545 original size:7 final size:7
Alignment explanation
Indices: 8749533--8749570 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
8749523 GGAGCTCACA
8749533 TGAAGGC
1 TGAAGGC
8749540 TGAAGGC
1 TGAAGGC
8749547 TGAAGGC
1 TGAAGGC
8749554 TGAAGGC
1 TGAAGGC
8749561 TGAAGG-
1 TGAAGGC
8749567 TGAA
1 TGAA
8749571 AGGGTTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 27 0.87
ACGTcount: A:0.32, C:0.11, G:0.42, T:0.16
Consensus pattern (7 bp):
TGAAGGC
Found at i:8758469 original size:20 final size:20
Alignment explanation
Indices: 8758441--8758482 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
8758431 AAATAAACAC
* *
8758441 ATAATTATTCATTTAATATT
1 ATAACTATTCATATAATATT
8758461 ATAACTATTCATATAATATT
1 ATAACTATTCATATAATATT
8758481 AT
1 AT
8758483 TTGAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAACTATTCATATAATATT
Found at i:8765680 original size:21 final size:22
Alignment explanation
Indices: 8765655--8765713 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
8765645 AATACATCAA
8765655 AAATATTAAAAAAATT-AAAAT
1 AAATATTAAAAAAATTGAAAAT
*
8765676 AAATATTTCCAAACAAATTGAAAAT
1 AAATA-TT--AAAAAAATTGAAAAT
*
8765701 AAATTTTAAAAAA
1 AAATATTAAAAAA
8765714 TATGTATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 5 0.16
22 7 0.23
24 10 0.32
25 9 0.29
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATATTAAAAAAATTGAAAAT
Found at i:8765840 original size:14 final size:14
Alignment explanation
Indices: 8765821--8765850 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8765811 TCCAAACAAA
8765821 AACAACATAATAGT
1 AACAACATAATAGT
8765835 AACAACATAATAGT
1 AACAACATAATAGT
8765849 AA
1 AA
8765851 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (14 bp):
AACAACATAATAGT
Found at i:8767363 original size:28 final size:28
Alignment explanation
Indices: 8767301--8767370 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
8767291 TGACCATACG
**
8767301 AGCTGTGATATTTGAATTTGATCACATG
1 AGCTGTGATATTTGAATTTGATCACACA
* **
8767329 AGTTGTGATATTTGAATTTTCTCACACA
1 AGCTGTGATATTTGAATTTGATCACACA
*
8767357 AGCTGTGACATTTG
1 AGCTGTGATATTTG
8767371 GGATACTCAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (28 bp):
AGCTGTGATATTTGAATTTGATCACACA
Found at i:8776581 original size:41 final size:41
Alignment explanation
Indices: 8776514--8776594 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
8776504 ATATTGGGTT
* *
8776514 TTGAACCTAGCAGGTTTCGTGCCGGTGTAATGATTCAGGCC
1 TTGAACCTAGCAGCTTTCGTGCCGGTGTAATGAATCAGGCC
* * *
8776555 TTGAGCCTAGCAGACTTT-GTGTCGGTGTAGTGAATCAGGC
1 TTGAACCTAGCAG-CTTTCGTGCCGGTGTAATGAATCAGGC
8776595 ATCTGTAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 31 0.91
42 3 0.09
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (41 bp):
TTGAACCTAGCAGCTTTCGTGCCGGTGTAATGAATCAGGCC
Found at i:8779959 original size:14 final size:14
Alignment explanation
Indices: 8779940--8779974 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8779930 GCTATGCATG
*
8779940 CAAAATATAAAAGA
1 CAAAATACAAAAGA
8779954 CAAAATACAAAAGA
1 CAAAATACAAAAGA
*
8779968 CATAATA
1 CAAAATA
8779975 GTGAAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (14 bp):
CAAAATACAAAAGA
Found at i:8781628 original size:20 final size:18
Alignment explanation
Indices: 8781581--8781660 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 18
8781571 CAAGATAAAC
8781581 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
8781598 ATT-AATATAATCACTTTAAT
1 ATTAAAT-TAAT-A-TTTAAT
** *
8781618 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
8781637 ATTAAATTTA-ATTTAAT
1 ATTAAATTAATATTTAAT
8781654 ATTAAAT
1 ATTAAAT
8781661 ATATTAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
16 3 0.06
17 17 0.34
19 13 0.26
20 14 0.28
21 3 0.06
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:8781667 original size:20 final size:19
Alignment explanation
Indices: 8781590--8781667 Score: 54
Period size: 20 Copynumber: 4.1 Consensus size: 19
8781580 CATTAAATTA
*
8781590 AATTTAATATTAATATAATC
1 AATTTAATATTAATAT-ATT
* *
8781610 ACTTTAATATTAA-ATTAAT
1 AATTTAATATTAATA-TATT
** *
8781629 AAAATACTATTAA-AT-TT
1 AATTTAATATTAATATATT
8781646 AATTTAATATTAAATATATT
1 AATTTAATATT-AATATATT
8781666 AA
1 AA
8781668 AATAAAATTA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
17 9 0.21
18 3 0.07
19 14 0.33
20 17 0.40
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTAATATTAATATATT
Found at i:8786234 original size:19 final size:21
Alignment explanation
Indices: 8786207--8786248 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
8786197 TTAATTTTAA
*
8786207 TTACTTTGATT-AATTTAATT
1 TTACTTTGATTAAAATTAATT
8786227 TTAC-TTGATTAAAATTAATT
1 TTACTTTGATTAAAATTAATT
8786247 TT
1 TT
8786249 CTAAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTACTTTGATTAAAATTAATT
Found at i:8786354 original size:14 final size:14
Alignment explanation
Indices: 8786337--8786373 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8786327 ATGATTGAAA
*
8786337 ACTCTTTATTGTAT
1 ACTCTTTACTGTAT
8786351 ACTCTTTACTGTAT
1 ACTCTTTACTGTAT
8786365 ACTCTTTAC
1 ACTCTTTAC
8786374 GAAAGCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (14 bp):
ACTCTTTACTGTAT
Found at i:8786737 original size:15 final size:15
Alignment explanation
Indices: 8786717--8786751 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
8786707 GGCTCGATCG
8786717 CATGAGTTACATACA
1 CATGAGTTACATACA
8786732 CATGAGTTACATACA
1 CATGAGTTACATACA
8786747 CATGA
1 CATGA
8786752 TCAGTGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (15 bp):
CATGAGTTACATACA
Found at i:8791822 original size:19 final size:20
Alignment explanation
Indices: 8791791--8791839 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
8791781 AATAATATAG
*
8791791 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
8791811 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
8791830 ATTTTGAATT
1 ATTTTGAATT
8791840 ATTTTGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:8808159 original size:48 final size:48
Alignment explanation
Indices: 8808107--8808249 Score: 223
Period size: 48 Copynumber: 3.0 Consensus size: 48
8808097 CAACAACTAT
* *
8808107 ACATAACATATAACACATACAGAGTCATATTAACTTACTCTTTTCAAG
1 ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAAG
* * *
8808155 ACATAACATATAACACATACAAAGTTATTTTAACTTACTCTTATCAAT
1 ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAAG
* *
8808203 ACATAACATATAACACATACAGAGTTATTTTAACATACTTTTTTCAA
1 ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAA
8808250 ATCCTTCATT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (48 bp):
ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAAG
Found at i:8809744 original size:14 final size:13
Alignment explanation
Indices: 8809725--8809762 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
8809715 CCAGAAAAGT
8809725 AAATCATTTTCCAG
1 AAATCATTTTCC-G
8809739 AAATCATTTTCCG
1 AAATCATTTTCCG
8809752 AAAGTCATTTT
1 AAA-TCATTTT
8809763 TAGTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:8814326 original size:6 final size:6
Alignment explanation
Indices: 8814315--8814358 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
8814305 TTTTACTGTC
8814315 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
8814359 GATTTAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:8819465 original size:20 final size:20
Alignment explanation
Indices: 8819448--8819486 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8819438 CAAATTGATT
*
8819448 AGTGACATGGCATGTTGACC
1 AGTGACATAGCATGTTGACC
*
8819468 AGTGACATAGTATGTTGAC
1 AGTGACATAGCATGTTGAC
8819487 TAAGTTGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
AGTGACATAGCATGTTGACC
Found at i:8822101 original size:66 final size:67
Alignment explanation
Indices: 8822029--8822154 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 67
8822019 TGTAACAAAA
** *
8822029 TTTTTTCTCTCATTTTCTCTCTTGCCAAACACTACTTTT-TTCTTCAAAACACATGGTTGCTGCC
1 TTTTTTCTCTCATTAACTCTCTTGCCAAACACCACTTTTCTTCTTCAAAACACATGGTTGCTGCC
8822093 AT
66 AT
* *
8822095 TTTTTTCTCTCATTAACTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTG
1 TTTTTTCTCTCATTAACTCTCTTGCCAAACACCACTTTTCTTCTTCAAAACACATGGTTG
8822155 GCTCATTTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 35 0.65
67 19 0.35
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (67 bp):
TTTTTTCTCTCATTAACTCTCTTGCCAAACACCACTTTTCTTCTTCAAAACACATGGTTGCTGCC
AT
Found at i:8833223 original size:14 final size:15
Alignment explanation
Indices: 8833200--8833228 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8833190 CATGTCTCTT
8833200 TTTTTAAATATTTTA
1 TTTTTAAATATTTTA
8833215 TTTTT-AATATTTTA
1 TTTTTAAATATTTTA
8833229 CTATACCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTAAATATTTTA
Found at i:8833709 original size:13 final size:13
Alignment explanation
Indices: 8833691--8833715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8833681 CTCGTATTAA
8833691 ATTTTTTTATATT
1 ATTTTTTTATATT
8833704 ATTTTTTTATAT
1 ATTTTTTTATAT
8833716 AAAATAAGTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTTTATATT
Found at i:8834454 original size:34 final size:35
Alignment explanation
Indices: 8834410--8834476 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
8834400 CAATAAAATA
*
8834410 TTTTCCGTAAAATAATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* * *
8834444 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
8834477 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:8839091 original size:21 final size:22
Alignment explanation
Indices: 8839065--8839108 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
8839055 CTGCTCAACC
*
8839065 CCACCTGCTGCGGAGTAC-ACT
1 CCACCTGCTGCGAAGTACTACT
8839086 CCACCTGCTGCGAAGTACTACT
1 CCACCTGCTGCGAAGTACTACT
8839108 C
1 C
8839109 ACTCCTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.20
Consensus pattern (22 bp):
CCACCTGCTGCGAAGTACTACT
Found at i:8847427 original size:23 final size:25
Alignment explanation
Indices: 8847391--8847436 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
8847381 CAAATCCTTA
*
8847391 ATAAATTATATAAA-AATATTTTTT
1 ATAAAGTATATAAATAATATTTTTT
*
8847415 ATAAAGTA-ATAAATATTATTTT
1 ATAAAGTATATAAATAATATTTT
8847437 AAAATCTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATAAAGTATATAAATAATATTTTTT
Found at i:8856415 original size:27 final size:27
Alignment explanation
Indices: 8856377--8856431 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8856367 ATTAAAGCAT
8856377 ACTTAACAGACCTAATTTGGTTGGAAG
1 ACTTAACAGACCTAATTTGGTTGGAAG
8856404 ACTTAACAGACCTAATTTGGTTGGAAG
1 ACTTAACAGACCTAATTTGGTTGGAAG
8856431 A
1 A
8856432 TACGAAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (27 bp):
ACTTAACAGACCTAATTTGGTTGGAAG
Found at i:8857309 original size:39 final size:39
Alignment explanation
Indices: 8857223--8857311 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 39
8857213 AAAATTGAGC
* ***
8857223 ATTAGCGGCGATTTATCCAAAGCGCCGCTAAAGGTAGAG
1 ATTAGCGGCGATTTATCCAAAGCGACGCTAAAAAAAGAG
*
8857262 CTTCAGCGGCGA-TTATCCTAAAGCGACGCTAAAAAAAG-G
1 ATT-AGCGGCGATTTATCC-AAAGCGACGCTAAAAAAAGAG
8857301 AATTAGCGGCG
1 -ATTAGCGGCG
8857312 TCTTACATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
39 16 0.39
40 25 0.61
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (39 bp):
ATTAGCGGCGATTTATCCAAAGCGACGCTAAAAAAAGAG
Found at i:8857431 original size:41 final size:41
Alignment explanation
Indices: 8857374--8857675 Score: 403
Period size: 41 Copynumber: 7.4 Consensus size: 41
8857364 TTTTTTAAAC
*
8857374 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGAT
* * *
8857415 CTTTAACGGCGTTTTTGTCTAGGCGTCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGA-T
*
8857456 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGAT
* *
8857497 CTTTAGCGGCGTTTTTGTTTATGCGCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGA-T
* ** *
8857538 CTTTAGCGGCGTTTTCGTGTAGGCGCTACTAATGCTCGAAT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGAT
* *
8857579 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGAT
* ** * *
8857620 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGAT
8857661 -TTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
8857676 AAACTGAGCG
Statistics
Matches: 229, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
40 19 0.08
41 207 0.90
42 3 0.01
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTGTAGGCGCCGCTAATGCTCGGAT
Found at i:8857511 original size:82 final size:82
Alignment explanation
Indices: 8857374--8857758 Score: 447
Period size: 82 Copynumber: 4.7 Consensus size: 82
8857364 TTTTTTAAAC
* * *
8857374 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAACGGCGTTTTTGTCTAGGC
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
*
8857439 GTCGCTAATGCTCGAGT
66 GCCGCTAATGCTCGAGT
* *
8857456 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTTTATGC
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
8857521 GCCGCTAATGCTCGAGT
66 GCCGCTAATGCTCGAGT
* ** *
8857538 CTTTAGCGGCGTTTTCGTGTAGGCGCTACTAATGCTCGAATCTTTAGCGGCGTTTTTGTCTATGC
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
8857603 GCCGCTAATGCTCG-GAT
66 GCCGCTAATGCTCGAG-T
** ** * **
8857620 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGAT-TTTAGCGGCGTTTTTAAACTGA-
1 CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTT-GTCT-AT
* * **
8857683 GCGCCACTAATTCTCTTGT
64 GCGCCGCTAATGCTCGAGT
* * * * * *
8857702 CTTCAGCGGCGTTTGT-ATCTAAGCGCCGTTAATGCAT-TGACCTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTT-TCGTGTAAGCGCCGCTAATGC-TCGGATCTTTAGCGGCGTTTTT
8857759 ACCGAAGCGC
Statistics
Matches: 265, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
81 16 0.06
82 230 0.87
83 19 0.07
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTCGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTATGC
GCCGCTAATGCTCGAGT
Found at i:8857686 original size:41 final size:40
Alignment explanation
Indices: 8857374--8857775 Score: 313
Period size: 41 Copynumber: 9.8 Consensus size: 40
8857364 TTTTTTAAAC
* *
8857374 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTCTG-AGGCGCCGCTAATGCTCGGAT
* *
8857415 CTTTAACGGCGTTTTTGTCT-AGGCGTCGCTAATGCTC-GAGT
1 CTTTAGCGGCG-TTTT-TCTGAGGCGCCGCTAATGCTCGGA-T
8857456 CTTTAGCGGCG-TTTTCGTGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTC-TG-AGGCGCCGCTAATGCTCGGAT
* * *
8857497 CTTTAGCGGCGTTTTTGTTTATGCGCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTT-CTGAGGCGCCGCTAATGCTCGGA-T
** *
8857538 CTTTAGCGGCG-TTTTCGTGTAGGCGCTACTAATGCTCGAAT
1 CTTTAGCGGCGTTTTTC-TG-AGGCGCCGCTAATGCTCGGAT
*
8857579 CTTTAGCGGCGTTTTTGTCT-ATGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCG-TTTT-TCTGAGGCGCCGCTAATGCTCGGAT
* * * *
8857620 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTTCT-GAGGCGCCGCTAATGCTCGGAT
* * *
8857661 -TTTAGCGGCGTTTTTAAACTGA-GCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTT---CTGAGGCGCCGCTAATGCTC-GGAT
* * * * *
8857702 CTTCAGCGGCGTTTGTATCT-AAGCGCCGTTAATGCAT-TGAC
1 CTTTAGCGGCGTTT-T-TCTGAGGCGCCGCTAATGC-TCGGAT
* *
8857743 CTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTT-CTGAGGCGCCGCTAAT
8857776 AGTAACAAAA
Statistics
Matches: 296, Mismatches: 35, Indels: 60
0.76 0.09 0.15
Matches are distributed among these distances:
38 2 0.01
39 7 0.02
40 33 0.11
41 216 0.73
42 27 0.09
43 8 0.03
44 3 0.01
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTCTGAGGCGCCGCTAATGCTCGGAT
Found at i:8857692 original size:123 final size:122
Alignment explanation
Indices: 8857374--8857776 Score: 415
Period size: 123 Copynumber: 3.3 Consensus size: 122
8857364 TTTTTTAAAC
* ** * *
8857374 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAACGGCGTTTTTGTCT-AGG
1 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGATCTTTAGCGGCG-TTTT-TCTGAGG
* * * * *
8857438 CGTCGCTAATGCTCGAGTCTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
64 CGCCACTAATGCTCGAGTCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* ** * *
8857497 CTTTAGCGGCGTTTTTGTTTATGCGCCGCTAATGCTC-GAGTCTTTAGCGGCG-TTTTCGTGTAG
1 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGA-TCTTTAGCGGCGTTTTTC-TG-AG
* * *
8857560 GCGCTACTAATGCTCGAATCTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
63 GCGCCACTAATGCTCGAGTCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
8857620 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGAT-TTTAGCGGCGTTTTTAAACTGA-
1 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGATCTTTAGCGGCGTTTTT---CTGAG
* ** * * * * * *
8857683 GCGCCACTAATTCTCTTGTCTTCAGCGGCGTTTGTATCTAAGCGCCGTTAATGCAT-TGAC
63 GCGCCACTAATGCTCGAGTCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGC-TCGGAT
*
8857743 CTTTAGCGGCGTTTTTA-CCGAAGCGCCGCTAATA
1 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATA
8857777 GTAACAAAAA
Statistics
Matches: 241, Mismatches: 28, Indels: 22
0.83 0.10 0.08
Matches are distributed among these distances:
120 2 0.01
121 4 0.02
122 13 0.05
123 215 0.89
124 4 0.02
125 2 0.01
126 1 0.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.34
Consensus pattern (122 bp):
CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATACTCGGATCTTTAGCGGCGTTTTTCTGAGGCG
CCACTAATGCTCGAGTCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:8859681 original size:37 final size:37
Alignment explanation
Indices: 8859611--8859684 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
8859601 AAATTTGATG
8859611 TTTAGGGGTTAGTGAGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGTGAGATTTAGGG-TTAAGGGTTATGC
*
8859649 TTTAGGGGTTAG-GGGATTTATGGG-TAAGGGGTTATG
1 TTTAGGGGTTAGTGAGATTTA-GGGTTAA-GGGTTATG
8859685 GGGTTATGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 3 0.09
37 15 0.45
38 15 0.45
ACGTcount: A:0.20, C:0.01, G:0.41, T:0.38
Consensus pattern (37 bp):
TTTAGGGGTTAGTGAGATTTAGGGTTAAGGGTTATGC
Found at i:8862646 original size:23 final size:23
Alignment explanation
Indices: 8862613--8862659 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
8862603 AATATTATAC
8862613 ATAACTGACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
*
8862636 ATAACTTACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
8862659 A
1 A
8862660 ATTTTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAACTGACAACTTACATAACTT
Found at i:8862659 original size:16 final size:16
Alignment explanation
Indices: 8862610--8862645 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8862600 ATTAATATTA
8862610 TACATAACTGACAACT
1 TACATAACTGACAACT
* *
8862626 TACATAACTTATAACT
1 TACATAACTGACAACT
8862642 TACA
1 TACA
8862646 ACTTACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (16 bp):
TACATAACTGACAACT
Found at i:8862708 original size:56 final size:56
Alignment explanation
Indices: 8862648--8862961 Score: 245
Period size: 56 Copynumber: 5.2 Consensus size: 56
8862638 AACTTACAAC
8862648 TTACATAACTTAATTTTATGTTCTTATACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTAATTTTATGTTCTTATACATAACTTACATTAATATTATACATAAA
* * *
8862704 TTACATAACTTAATTAATTAATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTAT
1 TTACATAAC----TTAATT--TT-AT-GT-T-C-T-TA-TACATAACTTA---CATTAATATTAT
8862769 ACATAAA
50 ACATAAA
* *
8862776 TTACATAACTGAATTTTATGTTATTATACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTAATTTTATGTTCTTATACATAACTTACATTAATATTATACATAAA
* * * * *
8862832 TTACATAACTTAATTAATTAATATACATAACTTACATAACTTACATCAATATGATACATAAA
1 TTACATAACTTAATT--TT-ATGTTC-TTA--TACATAACTTACATTAATATTATACATAAA
** * ** * *
8862894 TTAGTTAA-TTAATATTATACATATGT-TACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTAATTTTAT-GTTCT-TATACATAACTTACATTAATATTATACATAAA
8862950 TTACATAACTTA
1 TTACATAACTTA
8862962 GTTAATTAAT
Statistics
Matches: 207, Mismatches: 26, Indels: 49
0.73 0.09 0.17
Matches are distributed among these distances:
56 76 0.37
57 3 0.01
58 5 0.02
59 16 0.08
60 9 0.04
61 6 0.03
62 36 0.17
63 3 0.01
64 2 0.01
65 3 0.01
66 3 0.01
67 1 0.00
68 6 0.03
69 11 0.05
72 27 0.13
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (56 bp):
TTACATAACTTAATTTTATGTTCTTATACATAACTTACATTAATATTATACATAAA
Found at i:8862733 original size:38 final size:37
Alignment explanation
Indices: 8862686--8863173 Score: 213
Period size: 34 Copynumber: 13.6 Consensus size: 37
8862676 CATAACTTAC
8862686 ATTAATATTATACATAAATTACATAACTTAATTAATTA
1 ATTAATATTATACATAAATTACATAAC-TAATTAATTA
*
8862724 ATTAATATTATACATAAATTACATAAC---TTAGTTA
1 ATTAATATTATACATAAATTACATAACTAATTAATTA
8862758 ATTAATATTATACATAAATTACATAACTGAATT--TT-
1 ATTAATATTATACATAAATTACATAACT-AATTAATTA
*
8862793 ATGT--TATTATACATAACTTACATTAA-T-ATT-A-TA
1 AT-TAATATTATACATAAATTACA-TAACTAATTAATTA
* *
8862826 CA-TAA-A-T-TACATAACTTA-ATTAATTAATATACA-TA
1 -ATTAATATTATACATAAATTACA-TAACTAAT-TA-ATTA
* *
8862861 ACTTACATAACT-TACATCAATATGATACAT-A--AATTAGTTA
1 A-TTA-AT-ATTATACAT-AA-AT--TACATAACTAATTAATTA
** *
8862901 ATTAATATTATACATATGTTACATAAC---TT-A--C
1 ATTAATATTATACATAAATTACATAACTAATTAATTA
* *
8862932 ATTAATATGATACATAAATTACATAAC---TTAGTTA
1 ATTAATATTATACATAAATTACATAACTAATTAATTA
*
8862966 ATTAATATTATACATAACTTAC--AACTTACA-TAACTTACA
1 ATTAATATTATACATAAATTACATAAC-TA-ATTAA-TT--A
* *
8863005 ACTTACA-ACT-TACATAACTTACATAACTTACA-TAACTTA
1 A-TTA-ATATTATACATAAATTACATAAC-TA-ATTAA-TTA
** *
8863044 CATTTTTTTAATTATTCATAAATTACATAAC---TTAATTA
1 -A--TTAAT-ATTATACATAAATTACATAACTAATTAATTA
8863082 ATT-A-A-TATACATAAATTACATAACTTAATTAATTA
1 ATTAATATTATACATAAATTACATAAC-TAATTAATTA
*
8863117 ATTAATATTATACATAAATTACATAAC---TTAGTTA
1 ATTAATATTATACATAAATTACATAACTAATTAATTA
*
8863151 ATTAATATTATACATAATTTACA
1 ATTAATATTATACATAAATTACA
8863174 ACTTACATAA
Statistics
Matches: 363, Mismatches: 28, Indels: 122
0.71 0.05 0.24
Matches are distributed among these distances:
30 5 0.01
31 56 0.15
32 12 0.03
33 2 0.01
34 108 0.30
35 21 0.06
36 9 0.02
37 8 0.02
38 58 0.16
39 22 0.06
40 17 0.05
41 22 0.06
42 3 0.01
43 16 0.04
44 3 0.01
45 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (37 bp):
ATTAATATTATACATAAATTACATAACTAATTAATTA
Found at i:8862945 original size:22 final size:22
Alignment explanation
Indices: 8862914--8862955 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8862904 AATATTATAC
* *
8862914 ATATGTTACATAACTTACATTA
1 ATATGATACATAAATTACATTA
8862936 ATATGATACATAAATTACAT
1 ATATGATACATAAATTACAT
8862956 AACTTAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (22 bp):
ATATGATACATAAATTACATTA
Found at i:8862980 original size:56 final size:56
Alignment explanation
Indices: 8862758--8863173 Score: 271
Period size: 56 Copynumber: 7.0 Consensus size: 56
8862748 AACTTAGTTA
* *
8862758 ATTAATATTATACATAAATTACATAACTGAATT--TTATGTTATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTAATTA--ATATTATACATAACTTAC
8862814 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATACATAACTTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAATAT---T-A--TACATAACTTAC
* * ** *
8862876 ATCAATATGATACATAAATTAGTTAA-TTAA-TATTATACATATGT-TACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTAAT-TA-ATAT-TATACATAACTTAC
* *
8862932 ATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC
* * *
8862988 AACTTACATAACT-TAC--AACTTAC--AACTTACA-TAACTTACATAACT-TACATAACTTAC
1 -A-TTA-AT-ATTATACATAAATTACATAACTTA-ATTAA-TTA-AT-ATTATACATAACTTAC
** *
8863045 ATTTTTTTAATTATTCATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAA
1 A--TTAAT-ATTATACATAAATTACATAACTTAATTAATTAATAT---T--A-TACATAACTT-A
*
8863110 TTA
56 --C
* *
8863113 ATTAATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAATTTAC
1 A----TTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC
8863173 A
1 A
8863174 ACTTACATAA
Statistics
Matches: 286, Mismatches: 34, Indels: 76
0.72 0.09 0.19
Matches are distributed among these distances:
55 10 0.03
56 94 0.33
57 30 0.10
58 12 0.04
59 14 0.05
60 11 0.04
61 16 0.06
62 39 0.14
63 9 0.03
64 1 0.00
65 10 0.03
66 2 0.01
68 1 0.00
69 34 0.12
70 3 0.01
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (56 bp):
ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC
Found at i:8862993 original size:7 final size:7
Alignment explanation
Indices: 8862981--8863018 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
8862971 TATTATACAT
8862981 AACTTAC
1 AACTTAC
8862988 AACTTAC
1 AACTTAC
8862995 ATAACTTAC
1 --AACTTAC
8863004 AACTTAC
1 AACTTAC
8863011 AACTTAC
1 AACTTAC
8863018 A
1 A
8863019 TAACTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 22 0.76
9 7 0.24
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (7 bp):
AACTTAC
Found at i:8862997 original size:16 final size:17
Alignment explanation
Indices: 8862976--8863046 Score: 96
Period size: 16 Copynumber: 4.3 Consensus size: 17
8862966 ATTAATATTA
8862976 TACATAACTTAC-AACT
1 TACATAACTTACAAACT
8862992 TACATAACTTAC-AACT
1 TACATAACTTACAAACT
8863008 TAC--AACTTACATAACT
1 TACATAACTTACA-AACT
8863024 TACATAACTTACATAACT
1 TACATAACTTACA-AACT
8863042 TACAT
1 TACAT
8863047 TTTTTTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.14
16 26 0.51
18 18 0.35
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
TACATAACTTACAAACT
Found at i:8863000 original size:9 final size:9
Alignment explanation
Indices: 8862919--8863361 Score: 107
Period size: 9 Copynumber: 51.4 Consensus size: 9
8862909 TATACATATG
8862919 TTACATAAC
1 TTACATAAC
*
8862928 TTACATTAATA
1 TTACA-TAA-C
*
8862939 TGATACATAAA
1 T--TACATAAC
8862950 TTACATAAC
1 TTACATAAC
**
8862959 TTAGTTAA-
1 TTACATAAC
*
8862967 TTA-AT-AT
1 TTACATAAC
8862974 TATACATAAC
1 T-TACATAAC
8862984 TTAC--AAC
1 TTACATAAC
8862991 TTACATAAC
1 TTACATAAC
8863000 TTAC--AAC
1 TTACATAAC
8863007 TTAC--AAC
1 TTACATAAC
8863014 TTACATAAC
1 TTACATAAC
8863023 TTACATAAC
1 TTACATAAC
8863032 TTACATAAC
1 TTACATAAC
***
8863041 TTACATTTTT
1 TTACA-TAAC
*
8863051 TTA-ATTA-
1 TTACATAAC
*
8863058 TT-CATAAA
1 TTACATAAC
8863066 TTACATAAC
1 TTACATAAC
8863075 TTA-ATTAA-
1 TTACA-TAAC
8863083 TTA-AT-A-
1 TTACATAAC
*
8863089 -TACATAAA
1 TTACATAAC
8863097 TTACATAAC
1 TTACATAAC
8863106 TTA-ATTAA-
1 TTACA-TAAC
*
8863114 TTA-ATTAATAT
1 TTACA-T-A-AC
*
8863125 TATACATAAA
1 T-TACATAAC
8863135 TTACATAAC
1 TTACATAAC
**
8863144 TTAGTTAA-
1 TTACATAAC
*
8863152 TTA-AT-AT
1 TTACATAAC
*
8863159 TATACATAAT
1 T-TACATAAC
8863169 TTAC--AAC
1 TTACATAAC
8863176 TTACATAAC
1 TTACATAAC
***
8863185 TTACAATTTT
1 TTAC-ATAAC
*
8863195 TTA-ATTA-
1 TTACATAAC
** *
8863202 TT-TGTAAA
1 TTACATAAC
8863210 TTACATAAC
1 TTACATAAC
* *
8863219 TTACTTAAT
1 TTACATAAC
*
8863228 TTTCATAA-
1 TTACATAAC
*
8863236 -TAAATAAC
1 TTACATAAC
8863244 TTACATAAC
1 TTACATAAC
8863253 TTAC--AAC
1 TTACATAAC
8863260 TTACATAAC
1 TTACATAAC
* **
8863269 TTATACGAC
1 TTACATAAC
*
8863278 ATACATAAC
1 TTACATAAC
*
8863287 TTACATAGC
1 TTACATAAC
* *
8863296 ATA-ATTTGAC
1 TTACA--TAAC
*
8863306 TAATACACAAC
1 T--TACATAAC
*
8863317 TTACATAAT
1 TTACATAAC
*
8863326 TTTCATAA-
1 TTACATAAC
*
8863334 -TAAATAAC
1 TTACATAAC
8863342 TTACATAA-
1 TTACATAAC
8863350 -TACATAAC
1 TTACATAAC
8863358 TTAC
1 TTAC
8863362 GTAGCTTAGT
Statistics
Matches: 328, Mismatches: 56, Indels: 100
0.68 0.12 0.21
Matches are distributed among these distances:
5 2 0.01
6 5 0.02
7 66 0.20
8 32 0.10
9 179 0.55
10 22 0.07
11 8 0.02
12 8 0.02
13 6 0.02
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAC
Found at i:8863011 original size:23 final size:23
Alignment explanation
Indices: 8862981--8863045 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
8862971 TATTATACAT
8862981 AACTTACAACTTACATAACTTAC
1 AACTTACAACTTACATAACTTAC
8863004 AACTTACAACTTACATAACTTAC
1 AACTTACAACTTACATAACTTAC
8863027 -A--T--AACTTACATAACTTAC
1 AACTTACAACTTACATAACTTAC
8863045 A
1 A
8863046 TTTTTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
18 16 0.39
20 1 0.02
22 1 0.02
23 23 0.56
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.31
Consensus pattern (23 bp):
AACTTACAACTTACATAACTTAC
Found at i:8863260 original size:16 final size:16
Alignment explanation
Indices: 8863241--8863291 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
8863231 CATAATAAAT
8863241 AACTTACATAACTTAC
1 AACTTACATAACTTAC
8863257 AACTTACATAACTTATAC
1 AACTTACATAAC-T-TAC
* *
8863275 GACATACATAACTTAC
1 AACTTACATAACTTAC
8863291 A
1 A
8863292 TAGCATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 15 0.50
17 2 0.07
18 13 0.43
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:8863340 original size:16 final size:16
Alignment explanation
Indices: 8863329--8863361 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8863319 ACATAATTTT
8863329 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
8863345 CATAATACATAACTTA
1 CATAATAAATAACTTA
8863361 C
1 C
8863362 GTAGCTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:8868875 original size:66 final size:65
Alignment explanation
Indices: 8868768--8868938 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
8868758 GAGCAAATTA
* * * *
8868768 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
8868832 G
65 G
* *
8868833 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
8868898 G
65 G
* * * *
8868899 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
8868939 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:8868935 original size:21 final size:21
Alignment explanation
Indices: 8868909--8868953 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8868899 CAGCAGCTTA
*
8868909 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
8868930 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
8868951 AAG
1 AAG
8868954 TACAGACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.42, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:8869015 original size:21 final size:20
Alignment explanation
Indices: 8868929--8869022 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 20
8868919 GGCAGCAAGA
**
8868929 GAAGCAGAGGCGGCAGCGAG
1 GAAGCAGAGGCTACAGCGAG
* * * *
8868949 AGAAGTACAGACTACAGTGAG
1 -GAAGCAGAGGCTACAGCGAG
* *
8868970 GAAAGCAGAGGCTAAAACGAGG
1 G-AAGCAGAGGCTACAGCGA-G
*
8868992 GAAGCAGAGGCTGCAGCGATG
1 GAAGCAGAGGCTACAGCGA-G
8869013 GAAGCAGAGG
1 GAAGCAGAGG
8869023 AGCGTCAAAA
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 52 0.95
22 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.40, T:0.06
Consensus pattern (20 bp):
GAAGCAGAGGCTACAGCGAG
Found at i:8869460 original size:43 final size:42
Alignment explanation
Indices: 8869350--8869574 Score: 168
Period size: 43 Copynumber: 5.3 Consensus size: 42
8869340 TGATAAGGGG
** * * * *
8869350 CTTTAGCGGCGTTTGTGGAAAAAGCACCACTAAAGATCA-TAGT
1 CTTTAGCGGCGTTTAAGG-GAAAGCGCCGCTAAAGATCAGGA-T
* ** * *
8869393 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTAAGG-GAAAGCGCCGCTAAAGATCAGGAT
* **
8869436 CTATT-GCGGCGTTTGAAGGGAAAGCGCCGCTAAAGACCCTGAT
1 CT-TTAGCGGCGTTT-AAGGGAAAGCGCCGCTAAAGATCAGGAT
* ** *
8869479 CTTTAGTGGCGTTTTTGGGAGAAGCGCCGCTAAAGATAAGGAT
1 CTTTAGCGGCGTTTAAGGGA-AAGCGCCGCTAAAGATCAGGAT
* ** *
8869522 CTTTAGCGGCGTTTCCA-CTAAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTT-AAGGGAAAGCGCCGCTAAAGATCAGGAT
8869564 CTTTAGCGGCG
1 CTTTAGCGGCG
8869575 CATTCATTAG
Statistics
Matches: 146, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
42 37 0.25
43 105 0.72
44 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGTTTAAGGGAAAGCGCCGCTAAAGATCAGGAT
Found at i:8869665 original size:22 final size:22
Alignment explanation
Indices: 8869637--8869679 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8869627 CTGCGGCGCT
*
8869637 AAAAAGCACCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
*
8869659 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCACCGCTAAAAGCCT
8869680 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:8870616 original size:33 final size:33
Alignment explanation
Indices: 8870574--8870643 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
8870564 TTATCTTACC
8870574 TTACATATTTATTTATTTGATAAAAGTGAACAA
1 TTACATATTTATTTATTTGATAAAAGTGAACAA
8870607 TTACATATTTATTTATTTGATAAAAGTGAACAA
1 TTACATATTTATTTATTTGATAAAAGTGAACAA
8870640 TTAC
1 TTAC
8870644 CTTACATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (33 bp):
TTACATATTTATTTATTTGATAAAAGTGAACAA
Found at i:8870653 original size:38 final size:37
Alignment explanation
Indices: 8870569--8870656 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 37
8870559 AATTATTATC
8870569 TTACCTTACATATTTATTTATTTGATAAAAGTGAACA
1 TTACCTTACATATTTATTTATTTGATAAAAGTGAACA
8870606 --A--TTACATATTTATTTATTTGATAAAAGTGAACAA
1 TTACCTTACATATTTATTTATTTGATAAAAGTGAAC-A
8870640 TTACCTTACATATTTAT
1 TTACCTTACATATTTAT
8870657 ACTAAAAGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
33 31 0.67
34 1 0.02
35 1 0.02
36 1 0.02
38 12 0.26
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (37 bp):
TTACCTTACATATTTATTTATTTGATAAAAGTGAACA
Found at i:8870709 original size:13 final size:13
Alignment explanation
Indices: 8870691--8870732 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
8870681 AAATTGACAA
8870691 TAATTAAAACCAT
1 TAATTAAAACCAT
8870704 TAATTAAAA--A-
1 TAATTAAAACCAT
*
8870714 TAAATAAAACCAT
1 TAATTAAAACCAT
8870727 TAATTA
1 TAATTA
8870733 TTCAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 8 0.33
11 1 0.04
12 1 0.04
13 14 0.58
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTAAAACCAT
Found at i:8870715 original size:23 final size:23
Alignment explanation
Indices: 8870689--8870732 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8870679 GGAAATTGAC
*
8870689 AATAATTAAAACCATTAATTAAA
1 AATAAATAAAACCATTAATTAAA
8870712 AATAAATAAAACCATTAATTA
1 AATAAATAAAACCATTAATTA
8870733 TTCAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAATAAAACCATTAATTAAA
Found at i:8870820 original size:23 final size:23
Alignment explanation
Indices: 8870794--8870843 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
8870784 ATACAACAAG
* *
8870794 GGAGAAGGATAAGGTGGTGTTAT
1 GGAGAACGATAAGGTAGTGTTAT
**
8870817 GGAGGCCGATAAGGTAGTGTTAT
1 GGAGAACGATAAGGTAGTGTTAT
8870840 GGAG
1 GGAG
8870844 GCCGACTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (23 bp):
GGAGAACGATAAGGTAGTGTTAT
Found at i:8870844 original size:23 final size:23
Alignment explanation
Indices: 8870801--8870848 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
8870791 AAGGGAGAAG
*
8870801 GATAAGGTGGTGTTATGGAGGCC
1 GATAAGGTAGTGTTATGGAGGCC
8870824 GATAAGGTAGTGTTATGGAGGCC
1 GATAAGGTAGTGTTATGGAGGCC
8870847 GA
1 GA
8870849 CTCACTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.42, T:0.25
Consensus pattern (23 bp):
GATAAGGTAGTGTTATGGAGGCC
Found at i:8873141 original size:31 final size:34
Alignment explanation
Indices: 8873081--8873151 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 34
8873071 CCGATGGCCC
*
8873081 GCCCGAAATATGGAAGGATTTGGGTAAAAATATAG
1 GCCCGAAATATGG-AGGATTTGGGAAAAAATATAG
*
8873116 GCCCGAAATAT-G-GG-TTTGGGAAAAAATTTAG
1 GCCCGAAATATGGAGGATTTGGGAAAAAATATAG
8873147 GCCCG
1 GCCCG
8873152 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 20 0.59
32 2 0.06
34 1 0.03
35 11 0.32
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.23
Consensus pattern (34 bp):
GCCCGAAATATGGAGGATTTGGGAAAAAATATAG
Found at i:8873407 original size:59 final size:59
Alignment explanation
Indices: 8873338--8873507 Score: 313
Period size: 59 Copynumber: 2.9 Consensus size: 59
8873328 TCAAGTTTGT
*
8873338 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
8873397 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
* *
8873456 TTTATTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
8873508 AATAATTTGA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 108 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:8873539 original size:16 final size:16
Alignment explanation
Indices: 8873518--8873559 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8873508 AATAATTTGA
*
8873518 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
8873534 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
8873550 TAGTTTTAAT
1 TAATTTTAAT
8873560 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:8874705 original size:20 final size:20
Alignment explanation
Indices: 8874662--8874713 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
8874652 AATACCCAAT
* *
8874662 GTATCGATACATAACATAAG
1 GTATCGATACTTAACATAAA
* *
8874682 GTATCGATACTTACCTTAAA
1 GTATCGATACTTAACATAAA
*
8874702 GTATTGATACTT
1 GTATCGATACTT
8874714 TTGGCTTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
GTATCGATACTTAACATAAA
Found at i:8877617 original size:19 final size:20
Alignment explanation
Indices: 8877570--8877608 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8877560 TGCTTGTTCT
8877570 AAAGTATCAATACTTTATGG
1 AAAGTATCAATACTTTATGG
*
8877590 AAAGTATCAGTACTTTATG
1 AAAGTATCAATACTTTATG
8877609 ATGGTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (20 bp):
AAAGTATCAATACTTTATGG
Found at i:8878568 original size:127 final size:125
Alignment explanation
Indices: 8878416--8878646 Score: 297
Period size: 123 Copynumber: 1.8 Consensus size: 125
8878406 AGAGTTTAAG
* * ***
8878416 GGGTTGAAGGAGTAAATTTTTGGGGGAGAATA-TTAAAAAAAATTAGGGGGGAGGGGGATGGGTT
1 GGGTTGAAGGAGTAAA-ATTTGGGGGGGAATATTTAAAAAAAA-T---GGGGAGGAAAATGGGTT
* * * *
8878480 TGGGTTAGAAGGG-GGGTGGGATGGGA-GGGAGTAAAATTTTTGGGGGAAAATAAAAAGTTTTGA
61 TGGGGTAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTGGGGGAAAATAAAAAGTTTTGA
* *
8878543 GGGTTGAATGAGTAAAATTTGGGGGGTAATATTTAAAAAAAATGGGGAGGAAAATGGGTTTGGGG
1 GGGTTGAAGGAGTAAAATTTGGGGGGGAATATTTAAAAAAAATGGGGAGGAAAATGGGTTTGGGG
8878608 TAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTG
66 TAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTG
8878647 ATAAGAAAGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
123 26 0.29
124 12 0.13
125 14 0.16
126 13 0.14
127 25 0.28
ACGTcount: A:0.33, C:0.00, G:0.42, T:0.25
Consensus pattern (125 bp):
GGGTTGAAGGAGTAAAATTTGGGGGGGAATATTTAAAAAAAATGGGGAGGAAAATGGGTTTGGGG
TAGAAGGGAGGGTGGGATGGAAGGGGAATAAAAGTTTTGGGGGAAAATAAAAAGTTTTGA
Found at i:8878672 original size:30 final size:30
Alignment explanation
Indices: 8878631--8878706 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
8878621 GGGATGGAAG
*
8878631 GGGAATAAAAGTTTTGATAAGAAAGTGGGA
1 GGGAGTAAAAGTTTTGATAAGAAAGTGGGA
**
8878661 GGGAGTAAAAGTTTTGATCGGAAAGTGGGA
1 GGGAGTAAAAGTTTTGATAAGAAAGTGGGA
8878691 GGGAGTAAAAGTTTTG
1 GGGAGTAAAAGTTTTG
8878707 GGGGAAAGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (30 bp):
GGGAGTAAAAGTTTTGATAAGAAAGTGGGA
Found at i:8884237 original size:21 final size:21
Alignment explanation
Indices: 8884213--8884254 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8884203 CTGTTAGACC
8884213 AACTTGGATATAAAGTATGTT
1 AACTTGGATATAAAGTATGTT
*
8884234 AACTTGGATCTAAAGTATGTT
1 AACTTGGATATAAAGTATGTT
8884255 CTTTTACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (21 bp):
AACTTGGATATAAAGTATGTT
Found at i:8884602 original size:15 final size:16
Alignment explanation
Indices: 8884578--8884610 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8884568 TTGATAAATT
*
8884578 AAAAATTTAATTACTG
1 AAAAATTTAAGTACTG
8884594 AAAAA-TTAAGTACTG
1 AAAAATTTAAGTACTG
8884609 AA
1 AA
8884611 TTTTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (16 bp):
AAAAATTTAAGTACTG
Found at i:8886146 original size:20 final size:22
Alignment explanation
Indices: 8886121--8886165 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8886111 ATTAAAAAAT
8886121 AATGAA-TTACAAAA-TATATA
1 AATGAAGTTACAAAACTATATA
* *
8886141 AATGAAGTTATAAAACTATTTA
1 AATGAAGTTACAAAACTATATA
8886163 AAT
1 AAT
8886166 TTATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (22 bp):
AATGAAGTTACAAAACTATATA
Found at i:8887087 original size:7 final size:7
Alignment explanation
Indices: 8887075--8887103 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
8887065 TATACTTGGG
8887075 GAAGAAA
1 GAAGAAA
8887082 GAAGAAA
1 GAAGAAA
8887089 GAAGAAA
1 GAAGAAA
8887096 GAAGAAA
1 GAAGAAA
8887103 G
1 G
8887104 GATCTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:8896279 original size:20 final size:20
Alignment explanation
Indices: 8896250--8896304 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
8896240 ACTAGGAAGG
*
8896250 GGTATTGATAATTTTTTAAA
1 GGTATTGATACTTTTTTAAA
* * *
8896270 GGTATCGATACTTTGTTAAG
1 GGTATTGATACTTTTTTAAA
8896290 GGTATTGATACTTTT
1 GGTATTGATACTTTT
8896305 GATTTTTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.47
Consensus pattern (20 bp):
GGTATTGATACTTTTTTAAA
Found at i:8896394 original size:20 final size:20
Alignment explanation
Indices: 8896371--8896417 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8896361 ATGGGTATCA
8896371 ATACTTTGA-AGAAGGTATTG
1 ATACTTTGATA-AAGGTATTG
* *
8896391 ATACTTTTATAAGGGTATTG
1 ATACTTTGATAAAGGTATTG
8896411 ATACTTT
1 ATACTTT
8896418 TGATTTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (20 bp):
ATACTTTGATAAAGGTATTG
Found at i:8896451 original size:114 final size:113
Alignment explanation
Indices: 8896268--8896528 Score: 292
Period size: 114 Copynumber: 2.3 Consensus size: 113
8896258 TAATTTTTTA
* *
8896268 AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGTTCAATTTTCCAAAACATCG
1 AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCAAAACATCA
*
8896333 AAGCTCAAATTGGTATCAATACCAGGTCATGGGTATCAATACTTTGAAG
66 AAGCTCAAATTGGTATCAATACCAAG-CATGGGTATCAATACTTTGAAG
* * * * * *
8896382 AAGGTATTGATACTTT-TATAAGGGTATTGATACTTTTGATTTTTGCTCTATTTT-TATGATCTT
1 AAGGTATCGATACTTTGT-TAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCA-AAACAT
** ** * ***
8896445 CAAAGCTCATTTTGGTATCAATACCAAGCATGGGTATGGATACTTGGTTC
64 CAAAGCTCAAATTGGTATCAATACCAAGCATGGGTATCAATACTTTGAAG
* * * *
8896495 AAGGTATCGATACCTTATTGAGGGTATCGATACT
1 AAGGTATCGATACTTTGTTAAGGGTATTGATACT
8896529 ATGGTCCTTA
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
113 46 0.37
114 77 0.63
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (113 bp):
AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCAAAACATCA
AAGCTCAAATTGGTATCAATACCAAGCATGGGTATCAATACTTTGAAG
Found at i:8900952 original size:19 final size:21
Alignment explanation
Indices: 8900928--8900969 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8900918 GTTCTAGCCA
*
8900928 TTTCTTCT-AA-AGTTCTATT
1 TTTCTTCTCAACAGCTCTATT
8900947 TTTCTTCTCAACAGCTCTATT
1 TTTCTTCTCAACAGCTCTATT
8900968 TT
1 TT
8900970 GTTGAGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
21 10 0.50
ACGTcount: A:0.19, C:0.21, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTCTTCTCAACAGCTCTATT
Found at i:8903065 original size:40 final size:40
Alignment explanation
Indices: 8902992--8903068 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
8902982 AACACATCAG
* * **
8902992 TTTGGCACCCAGTGCCTCATTGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* *
8903032 TTTGACACCCAGTGTCTCATCGGTTAAACCGAAGTAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAA
8903069 ATTGGCACCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
Found at i:8903133 original size:42 final size:42
Alignment explanation
Indices: 8903017--8903133 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 42
8903007 CTCATTGGAT
* * * *
8903017 AATTCGAAGTAATAATTTGACACCCAGTGTCTCATCG-GTTA
1 AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGAATTA
* * ** *
8903058 AA-CCG--A-AGTAAATTGGCACCCAGTACCTAATCGAATTA
1 AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGAATTA
*
8903096 AATTCGAAATAGTAAATTGACACCCAATGTCTCATCGA
1 AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGA
8903134 CTCGAAGTCG
Statistics
Matches: 56, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
37 21 0.38
38 5 0.09
39 2 0.04
40 2 0.04
41 3 0.05
42 23 0.41
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (42 bp):
AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGAATTA
Found at i:8903275 original size:13 final size:13
Alignment explanation
Indices: 8903257--8903282 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8903247 TTCATTTCAT
8903257 TTCAATATATATA
1 TTCAATATATATA
8903270 TTCAATATATATA
1 TTCAATATATATA
8903283 CCAATTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCAATATATATA
Found at i:8903289 original size:17 final size:14
Alignment explanation
Indices: 8903257--8903309 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
8903247 TTCATTTCAT
*
8903257 TTCAAT-ATATATA
1 TTCAATAATATAAA
8903270 TTCAATATATATACCAA
1 TTCAATA-ATATA--AA
8903287 TTCAATCAATATAAA
1 TTCAAT-AATATAAA
8903302 TTCAATAA
1 TTCAATAA
8903310 ATTCATCACA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 13 0.38
17 12 0.35
18 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
TTCAATAATATAAA
Found at i:8903305 original size:15 final size:16
Alignment explanation
Indices: 8903258--8903307 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
8903248 TCATTTCATT
*
8903258 TCAATATATATATTCAA
1 TCAATATACA-ATTCAA
8903275 T-ATATATACCAATTCAA
1 TCA-ATATA-CAATTCAA
8903292 TCAATATA-AATTCAA
1 TCAATATACAATTCAA
8903307 T
1 T
8903308 AAATTCATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 18 0.62
18 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (16 bp):
TCAATATACAATTCAA
Found at i:8906938 original size:15 final size:15
Alignment explanation
Indices: 8906914--8906947 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8906904 AACAATTACG
*
8906914 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
8906929 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
8906944 ATAA
1 ATAA
8906948 CAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:8907071 original size:19 final size:19
Alignment explanation
Indices: 8907042--8907097 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
8907032 AATAATGGAC
8907042 ACATAAA-TAAATAAATAA
1 ACATAAAGTAAATAAATAA
8907060 ACATAAAGTAAA-ACAATAA
1 ACATAAAGTAAATA-AATAA
*
8907079 TA-ATAAAG-AAATGAATAA
1 -ACATAAAGTAAATAAATAA
8907097 A
1 A
8907098 ATTATAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 15 0.45
20 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ACATAAAGTAAATAAATAA
Found at i:8907973 original size:15 final size:15
Alignment explanation
Indices: 8907953--8907994 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
8907943 TTCTATAAAC
8907953 AACAAAAAAAAACAA
1 AACAAAAAAAAACAA
*
8907968 AACAAAGAAAAACAA
1 AACAAAAAAAAACAA
8907983 AA-AAAACAAAAA
1 AACAAAA-AAAAA
8907995 AGTCCTCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (15 bp):
AACAAAAAAAAACAA
Found at i:8907988 original size:19 final size:19
Alignment explanation
Indices: 8907956--8907992 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8907946 TATAAACAAC
8907956 AAAAAAAAACAAAACAAAG
1 AAAAAAAAACAAAACAAAG
8907975 AAAAACAAAA-AAAACAAA
1 AAAAA-AAAACAAAACAAA
8907993 AAAGTCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAAAAAACAAAACAAAG
Found at i:8909068 original size:40 final size:40
Alignment explanation
Indices: 8909024--8909175 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
8909014 GTGTTTTTAG
*
8909024 TCTGCTCCACTACTATTTAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
*
8909064 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATGG-TTTCG-
1 TCTGCTCCACTACTACTTAGGGAGATAAGA-C--TGGATGT-GA
* * ** *
8909106 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
* *
8909146 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGA
8909176 TTGTAATCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
39 2 0.02
40 58 0.60
41 2 0.02
42 30 0.31
43 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
Found at i:8909126 original size:82 final size:82
Alignment explanation
Indices: 8909023--8909176 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 82
8909013 TGTGTTTTTA
* * * *
8909023 GTCTGCTCCACTACTATTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTACTTAGGGAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
8909088 ATAAGATCTATGGTTTC
66 ATAAGATCTATGGTTTC
* * * *
8909105 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
8909170 ATAAGAT
66 ATAAGAT
8909177 TGTAATCTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (82 bp):
GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
ATAAGATCTATGGTTTC
Found at i:8909600 original size:134 final size:136
Alignment explanation
Indices: 8909301--8909817 Score: 880
Period size: 134 Copynumber: 3.8 Consensus size: 136
8909291 TTAGGGAGAT
* * * * * *
8909301 AAGATCTGTAATCCTCAATCTATTCCACTGTCAAATACAAGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
*
8909366 TACTCCACTGTAGTCACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACA
66 TACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACA
8909431 GGAAGGC
130 GGAAGGC
*
8909438 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATA
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
8909503 TACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATC-TTTGATCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
8909566 GAAGGC
131 GAAGGC
*
8909572 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAGTG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
*
8909637 TACTCCACTGTGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
8909701 GAAGGC
131 GAAGGC
*
8909707 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
*
8909772 TACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATC-TTTGATCT
66 TACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTTTGATCT
8909818 TCAATCTATT
Statistics
Matches: 362, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
134 131 0.36
135 130 0.36
136 8 0.02
137 93 0.26
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (136 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
GAAGGC
Found at i:8909603 original size:46 final size:46
Alignment explanation
Indices: 8909419--8909750 Score: 174
Period size: 46 Copynumber: 7.4 Consensus size: 46
8909409 ATCTGCTTCG
*
8909419 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * *
8909465 CTGCCAAATACAGGGA-G-ATAGAAT-TATC-GGCTTCAATATACTCCA
1 CTGCCAAATACAGGGAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCA
* * * * * ** * *
8909510 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGGAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
*
8909553 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * * *
8909599 CTGCCAAATACAGGGA-G-ATAGAAT-TATC-GGCTTCAGTGTACTCCA
1 CTGCCAAATACAGGGAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCA
*** * * * ** * *
8909644 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTT-CG
1 CTGCCAAATACAGGGAGGCAAGATCTGCAATC-TTCAATCT-ATTCCA
*
8909688 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGCAAGATCTGCAATCTTCAATCTATTCCA
8909734 CTGCCAAATACAGGGAG
1 CTGCCAAATACAGGGAG
8909751 ATAGAGTTAT
Statistics
Matches: 200, Mismatches: 61, Indels: 50
0.64 0.20 0.16
Matches are distributed among these distances:
42 18 0.09
43 20 0.10
44 13 0.06
45 46 0.23
46 85 0.43
47 18 0.09
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGGAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:8909670 original size:269 final size:271
Alignment explanation
Indices: 8909301--8909817 Score: 894
Period size: 269 Copynumber: 1.9 Consensus size: 271
8909291 TTAGGGAGAT
* * *
8909301 AAGATCTGTAATCCTCAATCTATTCCACTGTCAAATACAAGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCCTCAATCTATTCCACTGCCAAATACAAGGAGATAGAATTATCAGCTTCAATG
*
8909366 TACTCCACTGTAGTCACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACA
66 TACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACA
8909431 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGC
130 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGC
8909496 TTCAATATACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAA
195 TTCAATATACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAA
8909560 ATACAGGAAGGC
260 ATACAGGAAGGC
* * * *
8909572 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAGTG
1 AAGATCTGCAATCCTCAATCTATTCCACTGCCAAATACAAGGAGATAGAATTATCAGCTTCAATG
*
8909637 TACTCCACTGTGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
*
8909701 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
131 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCT
* *
8909766 TCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTGATCT
196 TCAATATACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTTGATCT
8909818 TCAATCTATT
Statistics
Matches: 232, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
269 132 0.57
271 100 0.43
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (271 bp):
AAGATCTGCAATCCTCAATCTATTCCACTGCCAAATACAAGGAGATAGAATTATCAGCTTCAATG
TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCT
TCAATATACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAA
TACAGGAAGGC
Found at i:8909954 original size:95 final size:95
Alignment explanation
Indices: 8909717--8910197 Score: 863
Period size: 95 Copynumber: 5.0 Consensus size: 95
8909707 AAGATCTGCA
8909717 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
8909782 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
8909814 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
8909879 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
8909909 ATCTTCAATCTATTCCACTGCCAGATGCAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
8909974 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
8910004 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
8910069 TAGTCAGGGAGGTAAAATCTGCCATATTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
8910099 ATCTTCAATCTATTCTACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
8910164 TAGTCAGGGAGGTAAAATCTGTCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
8910194 ATCT
1 ATCT
8910198 GCTTCGCTGC
Statistics
Matches: 371, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
95 302 0.81
97 69 0.19
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:8910837 original size:108 final size:108
Alignment explanation
Indices: 8910648--8910843 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 108
8910638 GAAAAATGCT
* *
8910648 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
8910713 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
* * * **
8910756 TGAAAAAGATTATCACAATAGATAAGATGAAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
8910821 TAATCAAGATAGCAAATTTTGCT
66 CAATCAAGATAGCAAATTTTGCT
8910844 AGAATACAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:8911645 original size:11 final size:11
Alignment explanation
Indices: 8911629--8911685 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
8911619 TCCTGGTAGA
8911629 GTTTTTTTTTT
1 GTTTTTTTTTT
*
8911640 GTTTTTGCTTTT
1 GTTTTT-TTTTT
*
8911652 GTTTTTTATTT
1 GTTTTTTTTTT
* *
8911663 GGTTTTTATTT
1 GTTTTTTTTTT
8911674 GTTCTTTTTTTT
1 GTT-TTTTTTTT
8911686 TGGCCTCCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
11 21 0.55
12 17 0.45
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.81
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:8913024 original size:62 final size:62
Alignment explanation
Indices: 8912920--8913103 Score: 314
Period size: 62 Copynumber: 3.0 Consensus size: 62
8912910 CTAAACTCGA
* * *
8912920 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
8912982 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
8913044 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGATATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
8913104 GAGATACGTG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 115 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:8915187 original size:19 final size:19
Alignment explanation
Indices: 8915158--8915213 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
8915148 AATAATGGAC
8915158 ACATAAA-TAAATAAATAA
1 ACATAAAGTAAATAAATAA
8915176 ACATAAAGTAAA-ACAATAA
1 ACATAAAGTAAATA-AATAA
*
8915195 TA-ATAAAG-AAATGAATAA
1 -ACATAAAGTAAATAAATAA
8915213 A
1 A
8915214 ATTATAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 15 0.45
20 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ACATAAAGTAAATAAATAA
Found at i:8916077 original size:13 final size:12
Alignment explanation
Indices: 8916059--8916100 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 12
8916049 TAGCTTCTAT
8916059 AAACAACAAAAAA
1 AAACAA-AAAAAA
8916072 AAACAAAACAAAA
1 AAACAAAA-AAAA
8916085 AAACAAAAAAACA
1 AAACAAAAAAA-A
8916098 AAA
1 AAA
8916101 AAGTCCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACAAAAAAAA
Found at i:8916087 original size:8 final size:8
Alignment explanation
Indices: 8916063--8916102 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
8916053 TTCTATAAAC
8916063 AACAAAAA
1 AACAAAAA
*
8916071 AA-AACAA
1 AACAAAAA
8916078 AACAAAAA
1 AACAAAAA
8916086 AACAAAAA
1 AACAAAAA
8916094 AACAAAAA
1 AACAAAAA
8916102 A
1 A
8916103 GTCCTCTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AACAAAAA
Found at i:8917206 original size:41 final size:39
Alignment explanation
Indices: 8917112--8917261 Score: 146
Period size: 39 Copynumber: 3.8 Consensus size: 39
8917102 TTGTGTTTTA
8917112 GTCTGCTCCACTACTA-TTAGGGAGATAAGACTGGATGT
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGT
*
8917150 GATCTGCTCCACTACTACTTA-GGAGATAAGATCTATGG-TTT
1 G-TCTGCTCCACTACTACTTAGGGAGATAAGA-C--TGGATGT
* * ** *
8917191 CGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGC
1 -GTCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGT
* *
8917231 GATCTACTCCACTACTGCTTA-GGAGATAAGA
1 G-TCTGCTCCACTACTACTTAGGGAGATAAGA
8917262 TTGTAATCTT
Statistics
Matches: 94, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
38 1 0.01
39 37 0.39
40 22 0.23
41 20 0.21
42 14 0.15
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (39 bp):
GTCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGT
Found at i:8917222 original size:81 final size:80
Alignment explanation
Indices: 8917112--8917262 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 80
8917102 TTGTGTTTTA
* * *
8917112 GTCTGCTCCACTACTATTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTACTTAGGAGAT
1 GTCTGCTCCACTACTATTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGAGAT
8917177 AAGATCTATGGTTTC
66 AAGATCTATGGTTTC
* * * *
8917192 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCACTACTGCTTAGGAGA
1 GTCTGCTCCACTACT-ATTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGAGA
8917257 TAAGAT
65 TAAGAT
8917263 TGTAATCTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 14 0.22
81 49 0.78
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (80 bp):
GTCTGCTCCACTACTATTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGAGAT
AAGATCTATGGTTTC
Found at i:8917284 original size:42 final size:40
Alignment explanation
Indices: 8917150--8917286 Score: 134
Period size: 42 Copynumber: 3.4 Consensus size: 40
8917140 GACTGGATGT
* * **
8917150 GATCTGCTCCACTACTACTTAGGAGATAAGATCTATGGTTTC
1 GATCTACTCCACTACTGCTTAGGAGATAAGAT-T-TAATTTC
* * * *
8917192 G-TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAA-TGC
1 GATCTACTCCACTACTGCTTA-GGAGATAAGATTTAATTTC
8917231 GATCTACTCCACTACTGCTTAGGAGATAAGATTGTAATCTTC
1 GATCTACTCCACTACTGCTTAGGAGATAAGATT-TAAT-TTC
*
8917273 GATCTATTCCACTA
1 GATCTACTCCACTA
8917287 TTTCCCAAGG
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
39 14 0.18
40 21 0.27
41 18 0.23
42 26 0.33
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (40 bp):
GATCTACTCCACTACTGCTTAGGAGATAAGATTTAATTTC
Found at i:8917686 original size:134 final size:136
Alignment explanation
Indices: 8917387--8917902 Score: 871
Period size: 134 Copynumber: 3.8 Consensus size: 136
8917377 TTAGGGAGAT
* * * * * *
8917387 AAGATCTGTAATCCTCAATCTATTCCACTGTCAAATACAAGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
*
8917452 TACTCCACTGTAGTCACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACA
66 TACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACA
8917517 GGAAGGC
130 GGAAGGC
*
8917524 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATA
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
8917589 TACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATC-TTTGATCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
8917652 GAAGGC
131 GAAGGC
*
8917658 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA-GGAGATAGAATTATCGGCTTCAGTG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
*
8917722 TACTCCACTGTGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
8917786 GAAGGC
131 GAAGGC
*
8917792 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
*
8917857 TACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATC-TTTGATCT
66 TACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTTTGATCT
8917903 TCAATCTATT
Statistics
Matches: 360, Mismatches: 15, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
133 58 0.16
134 144 0.40
135 57 0.16
136 8 0.02
137 93 0.26
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (136 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATG
TACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAG
GAAGGC
Found at i:8917689 original size:46 final size:46
Alignment explanation
Indices: 8917505--8917832 Score: 159
Period size: 46 Copynumber: 7.3 Consensus size: 46
8917495 ATCTGCTTCG
8917505 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* * ** * *
8917551 CTGCCAAATACAGGGA-G-ATAGAAT-TATC-GGCTTCAATATACTCCA
1 CTGCCAAATACAGGAAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCA
* * * * * * ** * *
8917596 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
8917639 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * * *
8917685 CTGCCAAATACAGG-A-G-ATAGAAT-TATC-GGCTTCAGTGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCA
*** * * * * ** * *
8917729 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATC-TTCAATCT-ATTCCA
8917773 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
8917819 CTGCCAAATACAGG
1 CTGCCAAATACAGG
8917833 GAGATAGAGT
Statistics
Matches: 197, Mismatches: 59, Indels: 52
0.64 0.19 0.17
Matches are distributed among these distances:
41 4 0.02
42 14 0.07
43 20 0.10
44 31 0.16
45 31 0.16
46 79 0.40
47 18 0.09
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:8918039 original size:95 final size:95
Alignment explanation
Indices: 8917802--8918281 Score: 854
Period size: 95 Copynumber: 5.0 Consensus size: 95
8917792 AAGATCTGCA
8917802 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
8917867 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
8917899 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
8917964 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
8917994 ATCTTCAATCTATTCCACTGCCAGATGCAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
8918059 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
8918089 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
8918154 TAGTCAGGGAGGTAAAATCTGCCATATTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
8918184 ATCTTCAATCTATTCTACTGCCAAATACA-GGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
8918248 TAGTCAGGGAGGTAAAATCTGTCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
8918278 ATCT
1 ATCT
8918282 GCTTCGCTGC
Statistics
Matches: 370, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
94 66 0.18
95 235 0.64
97 69 0.19
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:8918921 original size:108 final size:108
Alignment explanation
Indices: 8918732--8918927 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 108
8918722 GAAAAATGCT
* *
8918732 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
8918797 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
* * * **
8918840 TGAAAAAGATTATCACAATAGATAAGATGAAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
8918905 TAATCAAGATAGCAAATTTTGCT
66 CAATCAAGATAGCAAATTTTGCT
8918928 AGAATACAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:8919726 original size:11 final size:11
Alignment explanation
Indices: 8919710--8919767 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
8919700 TCCTGGTAGA
8919710 GTTTTTTTTTT
1 GTTTTTTTTTT
*
8919721 GTTTTTGCTTTT
1 GTTTTT-TTTTT
*
8919733 GTTTTTTATTT
1 GTTTTTTTTTT
* *
8919744 GGTTTTTATTT
1 GTTTTTTTTTT
8919755 GTTCTTTTTTTT
1 GTT-TTTTTTTT
8919767 G
1 G
8919768 GCCTCCACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
11 21 0.54
12 18 0.46
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.79
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:8919768 original size:23 final size:23
Alignment explanation
Indices: 8919710--8919768 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
8919700 TCCTGGTAGA
*
8919710 GTTTTTTTTTT-GTTTTTGCTTTT
1 GTTTTTTTTTTGGTTTTT-CATTT
*
8919733 GTTTTTTATTTGGTTTTT-ATTT
1 GTTTTTTTTTTGGTTTTTCATTT
8919755 GTTCTTTTTTTTGG
1 GTT-TTTTTTTTGG
8919769 CCTCCACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.78
Consensus pattern (23 bp):
GTTTTTTTTTTGGTTTTTCATTT
Found at i:8921168 original size:62 final size:62
Alignment explanation
Indices: 8920997--8921179 Score: 305
Period size: 61 Copynumber: 3.0 Consensus size: 62
8920987 CTAAACTCGA
* * *
8920997 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
8921059 CGTATTTTTGGA-TTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
8921120 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGATATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
8921180 GAGATACGTG
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
61 58 0.51
62 55 0.49
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:8923266 original size:19 final size:19
Alignment explanation
Indices: 8923237--8923292 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
8923227 AATAATGGAC
8923237 ACATAAA-TAAATAAATAA
1 ACATAAAGTAAATAAATAA
8923255 ACATAAAGTAAA-ACAATAA
1 ACATAAAGTAAATA-AATAA
*
8923274 TA-ATAAAG-AAATGAATAA
1 -ACATAAAGTAAATAAATAA
8923292 A
1 A
8923293 ATTATAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 15 0.45
20 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ACATAAAGTAAATAAATAA
Found at i:8924163 original size:18 final size:17
Alignment explanation
Indices: 8924140--8924185 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
8924130 TAGCTTCTAT
8924140 AAACAACAAAAAAAAACA
1 AAACAACAAAAAAAAA-A
*
8924158 AAACAA-AAAAAACAAA
1 AAACAACAAAAAAAAAA
8924174 AAA-AACAAAAAA
1 AAACAACAAAAAA
8924186 GTCCTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 8 0.31
18 6 0.23
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (17 bp):
AAACAACAAAAAAAAAA
Found at i:8924167 original size:14 final size:13
Alignment explanation
Indices: 8924140--8924183 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
8924130 TAGCTTCTAT
*
8924140 AAACAACAAAAAA
1 AAACAAAAAAAAA
8924153 AAACAAAACAAAAA
1 AAACAAAA-AAAAA
8924167 AAACAAAAAAAACA
1 AAACAAAAAAAA-A
8924181 AAA
1 AAA
8924184 AAGTCCTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:8924169 original size:9 final size:9
Alignment explanation
Indices: 8924140--8924185 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
8924130 TAGCTTCTAT
8924140 AAACAACAAA
1 AAACAA-AAA
*
8924150 AAA-AAACA
1 AAACAAAAA
8924158 AAACAAAAA
1 AAACAAAAA
8924167 AAACAAAAA
1 AAACAAAAA
8924176 AAACAAAAA
1 AAACAAAAA
8924185 A
1 A
8924186 GTCCTCTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 5 0.15
9 25 0.76
10 3 0.09
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (9 bp):
AAACAAAAA
Found at i:8927796 original size:45 final size:45
Alignment explanation
Indices: 8927732--8927856 Score: 214
Period size: 45 Copynumber: 2.8 Consensus size: 45
8927722 GGTGGTGGCG
*
8927732 GAGGAGCTCCATATGAAGGATAGCCAGAAAAAGATTGGGGGGATA
1 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGGGATA
* *
8927777 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGTGATG
1 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGGGATA
*
8927822 GAGGAGCTCCATACGAAGGATAGCCAGAAAGAGAT
1 GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGAT
8927857 GGTGATGGCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.38, C:0.14, G:0.34, T:0.14
Consensus pattern (45 bp):
GAGGAGCTCCATACGAAGGATAGCCAGAAAAAGATTGGGGGGATA
Found at i:8933141 original size:13 final size:13
Alignment explanation
Indices: 8933123--8933147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8933113 TTCTTCATTG
8933123 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
8933136 CTTTTGAAAAGT
1 CTTTTGAAAAGT
8933148 GCTGTGGAGG
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Done.