Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 22 of 130
Found at i:5805618 original size:13 final size:12
Alignment explanation
Indices: 5805583--5805622 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
5805573 CCATTTTTTA
5805583 AAATTTTTAAA-
1 AAATTTTTAAAG
5805594 AAATTTTATAAAG
1 AAATTTT-TAAAG
5805607 AAATTGTTTAAAG
1 AAATT-TTTAAAG
5805620 AAA
1 AAA
5805623 AAAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.27
12 4 0.15
13 13 0.50
14 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (12 bp):
AAATTTTTAAAG
Found at i:5811454 original size:29 final size:29
Alignment explanation
Indices: 5811421--5811528 Score: 101
Period size: 30 Copynumber: 3.6 Consensus size: 29
5811411 TTTTCCTTAG
* *
5811421 ATAAGCCCTTATACTTTTA-TTACATCCAA
1 ATAAGCCCTTA-ACTTTAACTTGCATCCAA
* * *
5811450 ATAAGCCCCTGAACTTTAATTTGCACCCAA
1 ATAAG-CCCTTAACTTTAACTTGCATCCAA
* *
5811480 ATAAGTCCTTAAACTTTAACTTGTATCCAA
1 ATAAGCCCTT-AACTTTAACTTGCATCCAA
*
5811510 ATAAACCCTTAACCTTTAA
1 ATAAGCCCTTAA-CTTTAA
5811529 TTTGTACTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
29 16 0.25
30 48 0.75
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (29 bp):
ATAAGCCCTTAACTTTAACTTGCATCCAA
Found at i:5811550 original size:30 final size:30
Alignment explanation
Indices: 5811447--5811551 Score: 104
Period size: 30 Copynumber: 3.5 Consensus size: 30
5811437 TTATTACATC
* * * * *
5811447 CAAATAAGCCCCTGAACTTTAATTTGCACC
1 CAAATAAGTCCTTAAACTTTAATTTGTACT
*
5811477 CAAATAAGTCCTTAAACTTTAACTTGTA-T
1 CAAATAAGTCCTTAAACTTTAATTTGTACT
** *
5811506 CCAAATAAACCCTTAACCTTTAATTTGTACT
1 -CAAATAAGTCCTTAAACTTTAATTTGTACT
*
5811537 TAAATAAGTCCTTAA
1 CAAATAAGTCCTTAA
5811552 TGCAAATCCG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
30 59 0.98
31 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (30 bp):
CAAATAAGTCCTTAAACTTTAATTTGTACT
Found at i:5814869 original size:19 final size:18
Alignment explanation
Indices: 5814826--5814869 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5814816 TAAAAGGTCA
*
5814826 CTTAATTATATCATAAAT
1 CTTAATTAGATCATAAAT
*
5814844 CTCAATTAGATCATTAAAT
1 CTTAATTAGATCA-TAAAT
*
5814863 TTTAATT
1 CTTAATT
5814870 TATCTCAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (18 bp):
CTTAATTAGATCATAAAT
Found at i:5818047 original size:58 final size:57
Alignment explanation
Indices: 5817959--5818408 Score: 638
Period size: 57 Copynumber: 7.7 Consensus size: 57
5817949 TTGTGTAGGA
** *
5817959 AAAATTGATACTTTCAACTTTTTTTCAAAAATACTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAATTTATTTTTAAGG
* * *
5818017 AAAATTGATACTTCCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA---TTTTTTGAAAATTT-ATTTTTAAGG
*
5818078 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGAAAATTTATTTTTAAGG
* *
5818137 AAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTGAAAATTTATTTTTAAGG
*
5818194 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTGAAAATTTATTTTTAAGG
*
5818252 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGAAAA-TTT-ATTTTTAAGG
*
5818311 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
5818368 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGA
5818409 TTTTTATTTA
Statistics
Matches: 359, Mismatches: 21, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
57 114 0.32
58 91 0.25
59 82 0.23
60 33 0.09
61 38 0.11
63 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
Found at i:5818341 original size:174 final size:173
Alignment explanation
Indices: 5817959--5818408 Score: 692
Period size: 174 Copynumber: 2.6 Consensus size: 173
5817949 TTGTGTAGGA
*
5817959 AAAATTGATACTTTCAACTTTTTTTCAAAAATACTTTTTTGAAAATTTATTTTTAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTTCCAAAAATA-TTTTTTGAAAATTTATTTTTAAGAAAAATTG
* *
5818024 ATACTTCCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGGAAAATTGATAC
65 ATACTTTCAACTTTTCCTCAAAAATA---TTTTTTGAAAATTTGATTTTCAAGGAAAATTGATAC
* *
5818089 TTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGG
127 TTTCAACTTTTCCTCAAAAA-CTATTTTTTGAAAATTTATTTTCAAGG
* *
5818137 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAATTTATTTCTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAATTTATTTTTAAGAAAAATTGA
* *
5818202 TACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTT-ATTTTTAAGGAAAATTGATACTTT
66 TACTTTCAACTTTTCCTCAAAAAT-ATTTTTTGAAAATTTGATTTTCAAGGAAAATTGATACTTT
5818266 CAACTTTTCC-CTAAAAA-TATTTTTTGAAAATTTTGATTTTCAAGG
130 CAACTTTTCCTC-AAAAACTATTTTTTGAAAA-TTT-ATTTTCAAGG
*
5818311 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTATTTTTAAGAAAAATTGA
1 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAATTTATTTTTAAGAAAAATTGA
5818376 TACTTTCAACTTTTTCC-CAAAAATATTTTTTGA
66 TACTTTCAAC-TTTTCCTCAAAAATATTTTTTGA
5818409 TTTTTATTTA
Statistics
Matches: 254, Mismatches: 13, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
172 12 0.05
173 12 0.05
174 126 0.50
175 19 0.07
177 53 0.21
178 32 0.13
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (173 bp):
AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAATTTATTTTTAAGAAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTGATTTTCAAGGAAAATTGATACTTTC
AACTTTTCCTCAAAAACTATTTTTTGAAAATTTATTTTCAAGG
Found at i:5818446 original size:22 final size:22
Alignment explanation
Indices: 5818421--5818462 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5818411 TTTATTTAAA
5818421 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
5818443 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
5818463 AAAATAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:5818456 original size:15 final size:15
Alignment explanation
Indices: 5818444--5818511 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
5818434 AATAAAAGTG
*
5818444 AAAATAAATAAAGAT
1 AAAAAAAATAAAGAT
5818459 AAAAAAAATAAAGA-
1 AAAAAAAATAAAGAT
* * *
5818473 AAAGTAAAACAAAAAT
1 AAA-AAAAATAAAGAT
5818489 AAAAATAAGATAAAGAT
1 AAAAA-AA-ATAAAGAT
5818506 AAAAAA
1 AAAAAA
5818512 TATTAAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
14 3 0.07
15 22 0.52
16 6 0.14
17 11 0.26
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAAAATAAAGAT
Found at i:5818501 original size:11 final size:10
Alignment explanation
Indices: 5818447--5818502 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
5818437 AAAAGTGAAA
*
5818447 ATAAATAAAG
1 ATAAAAAAAG
5818457 ATAAAAAAA-
1 ATAAAAAAAG
5818466 ATAAAGAAAAG
1 ATAAA-AAAAG
*
5818477 -TAAAACAAAA
1 ATAAAA-AAAG
5818487 ATAAAAATAAG
1 ATAAAAA-AAG
5818498 ATAAA
1 ATAAA
5818503 GATAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.16
10 20 0.53
11 12 0.32
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (10 bp):
ATAAAAAAAG
Found at i:5818538 original size:9 final size:9
Alignment explanation
Indices: 5818444--5818545 Score: 62
Period size: 9 Copynumber: 10.6 Consensus size: 9
5818434 AATAAAAGTG
5818444 AAAATAAATA
1 AAAATAAA-A
*
5818454 AAGATAAAA
1 AAAATAAAA
5818463 AAAATAAAGA
1 AAAATAAA-A
*
5818473 AAAGTAAAA
1 AAAATAAAA
* *
5818482 CAAA-AATA
1 AAAATAAAA
5818490 AAAATAAGATA
1 AAAATAA-A-A
*
5818501 AAGATAAAA
1 AAAATAAAA
*
5818510 AATATTAAATAA
1 AA-AAT-AA-AA
5818522 ATAAATAAAA
1 A-AAATAAAA
*
5818532 CAAATAAAA
1 AAAATAAAA
5818541 AAAAT
1 AAAAT
5818546 TCCAAAAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
8 6 0.09
9 28 0.40
10 19 0.27
11 11 0.16
12 5 0.07
13 1 0.01
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (9 bp):
AAAATAAAA
Found at i:5823745 original size:1 final size:1
Alignment explanation
Indices: 5823741--5823765 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
5823731 TTCCCTTAGC
5823741 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
5823766 GAGGCTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5833151 original size:11 final size:10
Alignment explanation
Indices: 5833104--5833155 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
5833094 AGAAAATTTC
*
5833104 AAAAAAATCT
1 AAAAAATTCT
5833114 AAAAAACTTCT
1 AAAAAA-TTCT
*
5833125 AAAAAATTTTT
1 AAAAAA-TTCT
*
5833136 TAAAAATTCT
1 AAAAAATTCT
5833146 AAAAAATTCT
1 AAAAAATTCT
5833156 TCTCTCCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:5834592 original size:20 final size:20
Alignment explanation
Indices: 5834569--5834619 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5834559 TTTTTATTTT
*
5834569 TTTTGAAAATTTTTTTAGAA
1 TTTTCAAAATTTTTTTAGAA
* * *
5834589 TTTTTAAATTTTTTTTATAA
1 TTTTCAAAATTTTTTTAGAA
5834609 TCTTTCAAAAT
1 T-TTTCAAAAT
5834620 ATAATTCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTCAAAATTTTTTTAGAA
Found at i:5836541 original size:20 final size:20
Alignment explanation
Indices: 5836516--5836553 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5836506 TGTGTGTATA
5836516 ATATATATATATATGTATGC
1 ATATATATATATATGTATGC
*
5836536 ATATATGTATATATGTAT
1 ATATATATATATATGTAT
5836554 TATATATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (20 bp):
ATATATATATATATGTATGC
Found at i:5836594 original size:2 final size:2
Alignment explanation
Indices: 5836589--5836613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5836579 TATATATATA
5836589 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
5836614 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:5836604 original size:31 final size:31
Alignment explanation
Indices: 5836504--5836605 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 31
5836494 CGTTTCTGTT
*
5836504 TGTGTGTGTATAATATATATATATATGTATG
1 TGTGTGTGTATAATATATATATATATGTGTG
** * * *
5836535 CATATATGTAT-ATATGTATTATATATGTGTG
1 TGTGTGTGTATAATATATA-TATATATGTGTG
*
5836566 TGTGTGTGTATAATATATATATATGTGTGTG
1 TGTGTGTGTATAATATATATATATATGTGTG
5836597 TGTGTGTGT
1 TGTGTGTGT
5836606 GTGTGTGTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
30 6 0.11
31 45 0.79
32 6 0.11
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (31 bp):
TGTGTGTGTATAATATATATATATATGTGTG
Found at i:5843336 original size:7 final size:7
Alignment explanation
Indices: 5843326--5843353 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5843316 GTAGTTTTGG
5843326 TTTTTTA
1 TTTTTTA
5843333 TTTTTTA
1 TTTTTTA
5843340 TTTTTTA
1 TTTTTTA
5843347 TTTTTTA
1 TTTTTTA
5843354 AATTCAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:5845174 original size:125 final size:125
Alignment explanation
Indices: 5844923--5845151 Score: 280
Period size: 125 Copynumber: 1.8 Consensus size: 125
5844913 ATATCTTATC
* * * *
5844923 TTATAATTATTTATTAAATAATCTCTTAAAAATTTATTAAAATATTTTTTTCATTATATAATAAA
1 TTATAATTATTTACTAAATAATCTCTTAAAAATTTATTAAAATACTCTTTTCATTATACAATAAA
* * * ** * *
5844988 AATTGATATGTGTTCAAACAAATTATTATACTTTCATACTATAATTACAAAAATATTTTT
66 AATTAACATATGACCAAACAAACTATTATACTCTCATACTATAATTACAAAAATATTTTT
* * *
5845048 TTATATTTATTTACTAAATAATCTCTTTTAAAA-TTATTAAAATACTCTTTTCATTATACGATAA
1 TTATAATTATTTACTAAATAATCTC-TTAAAAATTTATTAAAATACTCTTTTCATTATACAAT-A
***
5845112 AAAATTAACATATGACCAAATTGACTATTATACTCTCATA
64 AAAATTAACATATGACCAAACAAACTATTATACTCTCATA
5845152 TCATAGTTGT
Statistics
Matches: 85, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
125 48 0.56
126 37 0.44
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (125 bp):
TTATAATTATTTACTAAATAATCTCTTAAAAATTTATTAAAATACTCTTTTCATTATACAATAAA
AATTAACATATGACCAAACAAACTATTATACTCTCATACTATAATTACAAAAATATTTTT
Found at i:5845408 original size:134 final size:133
Alignment explanation
Indices: 5845107--5845456 Score: 300
Period size: 134 Copynumber: 2.6 Consensus size: 133
5845097 TTCATTATAC
* * * * * * * ** ** *
5845107 GATAAAAAATTAACATATGACCAAATTGACTATTATACTCTCATATCATAGTTGTGAAAATATTT
1 GATAAGAAATTAACACATAACCAAATTGACCATTATACCCTTATACCATAACT-ACAAAATATCT
* *
5845172 TTTCTCTTATAATTA--T-TTACTATAATACCTCCTTTAAAATTTTACCAAAATATCCTTTTCAT
65 ATTCTCTTATAATTATTTATTACTATAATACCTCCTCTAAAA-TTTACCAAAATATCCTTTTCAT
5845234 CTTTT
129 CTTTT
* * * * ** * * *
5845239 GATAAGAAATTGACCCGTAACCAATTTGACCATTATGTCCTTATACTATAACTATAAAATATCTC
1 GATAAGAAATTAACACATAACCAAATTGACCATTATACCCTTATACCATAACTACAAAATATCTA
* *
5845304 TTCTCTTATAATTATTTATTACTATAATACATCTCCTCTCAAA-TTACCAAAATA-CATTTTTCA
66 TTCTCTTATAATTATTTATTACTATAATAC--CTCCTCTAAAATTTACCAAAATATC-CTTTTCA
5845367 T-TATTT
128 TCT-TTT
* * * ** *
5845373 GATAAGAAATTAATACATGATCAAATTGATTATTATACCCTTATACCATAATTACATAAATA-CT
1 GATAAGAAATTAACACATAACCAAATTGACCATTATACCCTTATACCATAACTACA-AAATATC-
5845437 TATTCTCTTATAATTATTTA
64 TATTCTCTTATAATTATTTA
5845457 CTATAATATT
Statistics
Matches: 171, Mismatches: 38, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
131 22 0.13
132 37 0.22
133 3 0.02
134 76 0.44
135 24 0.14
136 9 0.05
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (133 bp):
GATAAGAAATTAACACATAACCAAATTGACCATTATACCCTTATACCATAACTACAAAATATCTA
TTCTCTTATAATTATTTATTACTATAATACCTCCTCTAAAATTTACCAAAATATCCTTTTCATCT
TTT
Found at i:5845983 original size:60 final size:60
Alignment explanation
Indices: 5845898--5846052 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 60
5845888 TTTTCCAAAT
* *
5845898 TTACTATAATAC-CT-TTATATCATAATTACTAAAATACTTAT-CTACTTATAATT-GTTAAAA
1 TTACTATAATACTCTCTTACA--ATAATTAC-AAAATACTTATCCTA-TTATAATTAGCTAAAA
* *
5845958 TTACTATAATACTCTCTTACAATAATTACATAAATATTTCTCCTATTATAATTAGCTAAAA
1 TTACTATAATACTCTCTTACAATAATTACA-AAATACTTATCCTATTATAATTAGCTAAAA
* * *
5846019 TTATTACATTACCTCTCTTACTAA-AATTACAAAA
1 TTACTATAATA-CTCTCTTAC-AATAATTACAAAA
5846053 ATACCCCTCA
Statistics
Matches: 81, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
59 1 0.01
60 36 0.44
61 22 0.27
62 20 0.25
63 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.41
Consensus pattern (60 bp):
TTACTATAATACTCTCTTACAATAATTACAAAATACTTATCCTATTATAATTAGCTAAAA
Found at i:5846237 original size:16 final size:16
Alignment explanation
Indices: 5846189--5846248 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
5846179 ACTTCTATAA
5846189 AATTATATATTAAAATT
1 AATTATATATT-AAATT
* ** *
5846206 TAGCATAATATAAAATT
1 AATTAT-ATATTAAATT
5846223 AATTATATATTAAATT
1 AATTATATATTAAATT
5846239 -ATTAATATAT
1 AATT-ATATAT
5846249 CCTTACCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 3 0.09
16 15 0.45
17 11 0.33
18 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
AATTATATATTAAATT
Found at i:5846304 original size:130 final size:128
Alignment explanation
Indices: 5846165--5846443 Score: 308
Period size: 130 Copynumber: 2.2 Consensus size: 128
5846155 TTTTTTTTTC
** * * * *
5846165 AAAATTACTATAATACTTCTATAAAATTATATATTAAAAT-TTAGCATAATATAAAATTAATTAT
1 AAAATTACTATAATACCCCTATAAAATTACATA-TAAAATCTTAACATAATATAAAATTAACTAC
* * * * * *
5846229 ATATTAAATTATTAATATATCCTTACCATTGCTTTTATAAAAAATTTATATGTGACATTATATTT
65 ATATTAAATTATTAAAATACCCTT-CCATTGC-TTCATAAAAAATTGACATGTGAAATTATATTT
5846294 G
128 G
* * * * * * *
5846295 AAAATTACTATAACACCCCTATTAAATTACATATGAAATCTTAATATAGTATAAATTTAACTGCA
1 AAAATTACTATAATACCCCTATAAAATTACATATAAAATCTTAACATAATATAAAATTAACTACA
* * * *
5846360 TATTAAATTATTAAAATACCCTTGCATTGCTTCATAAATACTTGACATGTGAAATTTTATTTG
66 TATTAAATTATTAAAATACCCTTCCATTGCTTCATAAAAAATTGACATGTGAAATTATATTTG
*
5846423 AAAATTACTATAATATCCCTA
1 AAAATTACTATAATACCCCTA
5846444 CTATATTACT
Statistics
Matches: 123, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
128 45 0.37
129 11 0.09
130 67 0.54
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (128 bp):
AAAATTACTATAATACCCCTATAAAATTACATATAAAATCTTAACATAATATAAAATTAACTACA
TATTAAATTATTAAAATACCCTTCCATTGCTTCATAAAAAATTGACATGTGAAATTATATTTG
Found at i:5846443 original size:128 final size:130
Alignment explanation
Indices: 5846229--5846466 Score: 309
Period size: 128 Copynumber: 1.8 Consensus size: 130
5846219 AATTAATTAT
* * * * * *
5846229 ATATTAAATTATTAATATATCCTTACCATTGCTTTTATAAAAAATTTATATGTGACATTATATTT
1 ATATTAAATTATTAAAATACCCTTACCATTGCTTTCATAAAAAATTGACATGTGAAATTATATTT
*
5846294 GAAAATTACTATAACACCCCTATTAAATTACATATGAAATCTTAATATAGTATAAATTTAACTGC
66 GAAAATTACTATAACACCCCTACTAAATTACATATGAAATCTTAATATAGTATAAATTTAACTGC
* * * *
5846359 ATATTAAATTATTAAAATACCCTT-GCATTGC-TTCATAAATACTTGACATGTGAAATTTTATTT
1 ATATTAAATTATTAAAATACCCTTACCATTGCTTTCATAAAAAATTGACATGTGAAATTATATTT
* * * * * *
5846422 GAAAATTACTATAATATCCCTACTATATTACTTATTAAATGTTAA
66 GAAAATTACTATAACACCCCTACTAAATTACATATGAAATCTTAA
5846467 ACAATATATA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 63 0.69
129 6 0.07
130 22 0.24
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (130 bp):
ATATTAAATTATTAAAATACCCTTACCATTGCTTTCATAAAAAATTGACATGTGAAATTATATTT
GAAAATTACTATAACACCCCTACTAAATTACATATGAAATCTTAATATAGTATAAATTTAACTGC
Found at i:5851707 original size:88 final size:88
Alignment explanation
Indices: 5851543--5851711 Score: 216
Period size: 88 Copynumber: 1.9 Consensus size: 88
5851533 CTTAATTTAA
* * *
5851543 ATATCTCTAAAAGTTAGATTCTAGTCTACGAAACTAGAACTAAGTCAAAGAGTATAGTTATGGTT
1 ATATCTCTAAAAGGTAGATTCTAGTCTACGAAACTAGAACTAAGTCAAAGAGTACAGTTACGGTT
*
5851608 GAGAAATGTTATAGCAAACATGG
66 GAGAAAGGTTATAGCAAACATGG
* * ** *
5851631 ATATCTTTAAAAGGTAGATTTTAGTCTACGAAA-TCAGAACTAAGTCTGAGAGTACGGTTACGCG
1 ATATCTCTAAAAGGTAGATTCTAGTCTACGAAACT-AGAACTAAGTCAAAGAGTACAGTTACG-G
*
5851695 -TGAGGAAGGTTATAGCA
64 TTGAGAAAGGTTATAGCA
5851712 TCATCACAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 1 0.01
88 67 0.97
89 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (88 bp):
ATATCTCTAAAAGGTAGATTCTAGTCTACGAAACTAGAACTAAGTCAAAGAGTACAGTTACGGTT
GAGAAAGGTTATAGCAAACATGG
Found at i:5854062 original size:18 final size:18
Alignment explanation
Indices: 5854039--5854074 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5854029 TTGGTGCTCA
*
5854039 CCTGTGCCATTGCATAAC
1 CCTGTGCCATTACATAAC
5854057 CCTGTGCCATTACATAAC
1 CCTGTGCCATTACATAAC
5854075 TGATGATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (18 bp):
CCTGTGCCATTACATAAC
Found at i:5863804 original size:11 final size:11
Alignment explanation
Indices: 5863788--5863813 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5863778 ACTAGAGTAA
5863788 AAACTAATGGC
1 AAACTAATGGC
5863799 AAACTAATGGC
1 AAACTAATGGC
5863810 AAAC
1 AAAC
5863814 ATAAGCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.15
Consensus pattern (11 bp):
AAACTAATGGC
Found at i:5869383 original size:18 final size:18
Alignment explanation
Indices: 5869360--5869410 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 18
5869350 TTTTAATTTT
5869360 ATATTTATATTAAAAATA
1 ATATTTATATTAAAAATA
5869378 ATATTTTATATTTAAAAAATA
1 ATA-TTTATA-TT-AAAAATA
5869399 ATATTT-TATTAA
1 ATATTTATATTAA
5869411 TTTCGAGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 8 0.27
20 5 0.17
21 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTATATTAAAAATA
Found at i:5869387 original size:19 final size:21
Alignment explanation
Indices: 5869363--5869407 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
5869353 TAATTTTATA
5869363 TTTATA-TT-AAAAATAATAT
1 TTTATATTTAAAAAATAATAT
5869382 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
5869403 TTTAT
1 TTTAT
5869408 TAATTTCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:5873653 original size:25 final size:23
Alignment explanation
Indices: 5873616--5873710 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 23
5873606 TAATGAGTAA
*
5873616 AATAATAATTAAAGATGAAAATAAT
1 AATAA-AAATAAA-ATGAAAATAAT
*
5873641 AATAACAAGTAAAAAT-AAAA-AAT
1 AATAA-AAAT-AAAATGAAAATAAT
*
5873664 -CTAAAAATAAAATGAAAATAA-
1 AATAAAAATAAAATGAAAATAAT
*
5873685 AAT-AGAA-AAAAT-AAAATAA-
1 AATAAAAATAAAATGAAAATAAT
5873704 AATAAAA
1 AATAAAA
5873711 TCAAAACAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
19 10 0.17
20 12 0.21
21 10 0.17
22 6 0.10
23 3 0.05
24 4 0.07
25 10 0.17
26 3 0.05
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (23 bp):
AATAAAAATAAAATGAAAATAAT
Found at i:5873655 original size:19 final size:19
Alignment explanation
Indices: 5873614--5873658 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5873604 AGTAATGAGT
* *
5873614 AAAATAATAATTAAAGATG
1 AAAATAATAATAAAAGATA
5873633 AAAATAATAATAACAAG-TA
1 AAAATAATAATAA-AAGATA
5873652 AAAATAA
1 AAAATAA
5873659 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAATAATAATAAAAGATA
Found at i:5873697 original size:9 final size:10
Alignment explanation
Indices: 5873613--5873716 Score: 68
Period size: 11 Copynumber: 9.5 Consensus size: 10
5873603 AAGTAATGAG
5873613 TAAAATAATAA
1 TAAAATAA-AA
5873624 TTAAAGATGAAAA
1 -TAAA-AT-AAAA
5873637 TAATAATAACAA
1 TAA-AATAA-AA
5873649 GTAAAAATAAAA
1 -T-AAAATAAAA
**
5873661 -AATCTAAAAA
1 TAAAAT-AAAA
5873671 TAAAATGAAAA
1 TAAAAT-AAAA
*
5873682 TAAAATAGAA
1 TAAAATAAAA
5873692 -AAAATAAAA
1 TAAAATAAAA
5873701 TAAAATAAAA
1 TAAAATAAAA
5873711 TCAAAA
1 T-AAAA
5873717 CAGAAAATAG
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
9 11 0.15
10 17 0.23
11 19 0.25
12 13 0.17
13 11 0.15
14 4 0.05
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:5873703 original size:30 final size:30
Alignment explanation
Indices: 5873667--5873723 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5873657 AAAAAATCTA
*
5873667 AAAATAAAATGAAAAT-AAAATAGAAAAAAT
1 AAAATAAAAT-AAAATCAAAACAGAAAAAAT
5873697 AAAATAAAATAAAATCAAAACAGAAAA
1 AAAATAAAATAAAATCAAAACAGAAAA
5873724 TAGGATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (30 bp):
AAAATAAAATAAAATCAAAACAGAAAAAAT
Found at i:5877635 original size:2 final size:2
Alignment explanation
Indices: 5877628--5877678 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
5877618 TTTCGTCGCC
* * * *
5877628 AT AT AT AT AT AC AT AT AT AT AT GT GT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5877670 AT AT AT AT A
1 AT AT AT AT A
5877679 CGTATTTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5882260 original size:22 final size:21
Alignment explanation
Indices: 5882225--5882265 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
5882215 ATTCGATTTT
5882225 AATTAAATTAATTAATTATCA
1 AATTAAATTAATTAATTATCA
*
5882246 AATTAAATTTAATTATTTAT
1 AATTAAA-TTAATTAATTAT
5882266 AAAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAAATTAATTAATTATCA
Found at i:5886765 original size:12 final size:12
Alignment explanation
Indices: 5886748--5886777 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
5886738 TTTTATGTAT
5886748 TATTAAATTTCA
1 TATTAAATTTCA
5886760 TATTAAATTTCA
1 TATTAAATTTCA
5886772 TATTAA
1 TATTAA
5886778 TTATATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTAAATTTCA
Found at i:5887899 original size:7 final size:8
Alignment explanation
Indices: 5887884--5887908 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5887874 CTCAATTCTC
5887884 AAATAAAA
1 AAATAAAA
5887892 AAATAAAA
1 AAATAAAA
5887900 AAATAAAA
1 AAATAAAA
5887908 A
1 A
5887909 GAAAGCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:5894895 original size:47 final size:48
Alignment explanation
Indices: 5894826--5894922 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 48
5894816 AAATTACAGA
* **
5894826 AACCTATTAAAGTTACATAAAAATAATA-A-TAAAATGGTTATAGATGC
1 AACCTATTAAAGTTACACAAAAA-AATATAGTAAAATAATTATAGATGC
*
5894873 AACCTGTTAAAGTTACACAAAAAAATATAGTAAAATAATTATAGATGC
1 AACCTATTAAAGTTACACAAAAAAATATAGTAAAATAATTATAGATGC
5894921 AA
1 AA
5894923 TTAGTGTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 4 0.09
47 22 0.50
48 18 0.41
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (48 bp):
AACCTATTAAAGTTACACAAAAAAATATAGTAAAATAATTATAGATGC
Found at i:5898320 original size:19 final size:19
Alignment explanation
Indices: 5898274--5898320 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
5898264 ACCGTCTTTC
**
5898274 TTTTTTTTATCATTTTTTT
1 TTTTTTTTGCCATTTTTTT
**
5898293 TTTACTTTGCCATTTTTTT
1 TTTTTTTTGCCATTTTTTT
5898312 TTTTTTTTG
1 TTTTTTTTG
5898321 TCTTGAGAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTTTTGCCATTTTTTT
Found at i:5898671 original size:34 final size:34
Alignment explanation
Indices: 5898640--5898716 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
5898630 AAGTTAGTAG
* *
5898640 CGTTTGTATAAAAAAAATATCATTAATTTAGTGA
1 CGTTTGTATAAAAAAAACACCATTAATTTAGTGA
* *
5898674 CGTTTGTATAAGAAAAACACCATTAATATAGTGA
1 CGTTTGTATAAAAAAAACACCATTAATTTAGTGA
**
5898708 TATTTGTAT
1 CGTTTGTAT
5898717 CATAAAACGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.38
Consensus pattern (34 bp):
CGTTTGTATAAAAAAAACACCATTAATTTAGTGA
Found at i:5900798 original size:321 final size:320
Alignment explanation
Indices: 5900130--5901038 Score: 975
Period size: 321 Copynumber: 2.9 Consensus size: 320
5900120 TCAATTATGA
* * * * *
5900130 AAACCAAATTCAATCATT-TAGACAAGTTTAATATCATATATTGAAGCCATCCAAATTGTTAAAA
1 AAACCAAGTTCAATCATTCGA-AAAAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAA
* * * * *
5900194 CAAAACAATAATAGCAACTTTGTATTTTTACCTTTTAATGGCAAAAAAATCCT--A-AACAGGTA
65 TAGAACAATAATAGCAAATTTATATTTTTACC-TTTAATGGCAAAAAAGTCCTAAATAACA-GTA
* * * * * ** * *
5900256 AACAACAACTTTTTCGCATATATCAACTGTA-AAACCAAGTTCAATCATTCAAAAAAATTTAATA
128 AACAATAACTTTTTCACACATATCAACCGTAGAAACCAAGTTCAATAATTTGAATAAGTTTAATA
* * * * *
5900320 TCATGTTTTAAAGCTATCCAAACTATAAAAACAGAACAATAACAGTAAAATTTTATTTTTACCTT
193 TCATGTATTGAAGCTATCCAAATTATTAAAACAGAACAATAATAGTAAAATTTTATTTTTACCTT
* *
5900385 TTAACGGTACAAAAAATCCTAAACAAAGGTAAACAATGACTTTTTCACATATATCAATTGCGG
258 TTAACGGCACAAAAAATCCTAAACAAAGGTAAACAATGACTTTTTCACATATATCAACTGCGG
5900448 AAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAAT
1 AAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAAT
* * *
5900513 AGAATAATAGTAGCAAATTTATATTTTTTCCTTTAAATGGCAAAAATAGTCCTAAATAACAGTAA
66 AGAACAATAATAGCAAATTTATATTTTTACCTTT-AATGGCAAAAA-AGTCCTAAATAACAGTAA
* * *
5900578 ACGATAACTTTTTCACACATATAAACCGTAGAAACCAAGTTCAATTATTTGAATAAGTTTAATAT
129 ACAATAACTTTTTCACACATATCAACCGTAGAAACCAAGTTCAATAATTTGAATAAGTTTAATAT
* * * *
5900643 CATGTATTGAAGCTATCCAAATTGTTGAAACAGAACAATAATA-TCAAATTTTA-TTTTGCCTTT
194 CATGTATTGAAGCTATCCAAATTATTAAAACAGAACAATAATAGTAAAATTTTATTTTTACCTTT
* * * * * * ** * *
5900706 TAATGGCATAAAAAGTCCTAAATAGATGTAAA-TGTTAGCTTTTTTCACATATATCAACTGTGG
259 TAACGGCACAAAAAATCCTAAACAAAGGTAAACAATGA-C-TTTTTCACATATATCAACTGCGG
* ** * * * *
5900769 ATACCAAGTTCAATTGTTCTG-ATAAGTTTAATATCATGTATTAAAGCTATACAAACTGTTAAAA
1 AAACCAAGTTCAATCATTC-GAAAAAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAA
* * *
5900833 TAGAACAATAACAACAAATTTATATTTTTACCTATTAACGGCATAAAAAGTCCTAAATAGACA-T
65 TAGAACAATAATAGCAAATTTATATTTTTACCT-TTAATGGCA-AAAAAGTCCTAAATA-ACAGT
* * * * * * *
5900897 AAATAATAACGTTTTCATACATATCAACCGT-G-AA--AACTACAATAATTTGGATAAGTTAAAT
127 AAACAATAACTTTTTCACACATATCAACCGTAGAAACCAAGTTCAATAATTTGAATAAGTTTAAT
* * * * * *
5900958 ATCATGTATTGAAACTATCAAAATTATTAAAACAAAACAATAATTGT-TAATTTACATTTTTACC
192 ATCATGTATTGAAGCTATCCAAATTATTAAAACAGAACAATAATAGTAAAATTT-TATTTTTACC
*
5901022 TTTTAATGGCACAAAAA
256 TTTTAACGGCACAAAAA
5901039 GTTGTAAACA
Statistics
Matches: 497, Mismatches: 78, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
317 69 0.14
318 95 0.19
319 32 0.06
320 36 0.07
321 186 0.37
322 79 0.16
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (320 bp):
AAACCAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAAT
AGAACAATAATAGCAAATTTATATTTTTACCTTTAATGGCAAAAAAGTCCTAAATAACAGTAAAC
AATAACTTTTTCACACATATCAACCGTAGAAACCAAGTTCAATAATTTGAATAAGTTTAATATCA
TGTATTGAAGCTATCCAAATTATTAAAACAGAACAATAATAGTAAAATTTTATTTTTACCTTTTA
ACGGCACAAAAAATCCTAAACAAAGGTAAACAATGACTTTTTCACATATATCAACTGCGG
Found at i:5900805 original size:160 final size:160
Alignment explanation
Indices: 5900109--5901040 Score: 863
Period size: 161 Copynumber: 5.8 Consensus size: 160
5900099 CATTTTGGCC
* * * * * * *
5900109 TTTCACACATATCAATTATGAAAACCAAATTCAATCATT-T-AGACAAGTTTAATATCATATATT
1 TTTCACATATATCAACTGTGGAAACCAAGTTCAATCATTCTGA-AAAAGTTTAATATCATGTATT
* * * * *
5900172 GAAGCCATCCAAATTGTTAAAACAAAACAATAATAGCAACTTTGTATTTTTACCTTTTAATGGCA
65 GAAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAATGGCA
* * *
5900237 AAAAAATCCTAAACAG-GTAAACAACAACTT
130 AAAAAGTCCTAAATAGAGTAAACAATAACTT
* * * * * *
5900267 TTTCGCATATATCAACTGT-AAAACCAAGTTCAATCATTC-AAAAAAATTTAATATCATGTTTTA
1 TTTCACATATATCAACTGTGGAAACCAAGTTCAATCATTCTGAAAAAGTTTAATATCATGTATTG
* * * * *
5900330 AAGCTATCCAAACTATAAAAACAGAACAATAACAGTAAAATTT-TATTTTTACCTTTTAACGGTA
66 AAGCTATCCAAACTGTTAAAACAGAACAATAATAG-CAAATTTATATTTTTACCTTTTAATGG--
* * *
5900394 CAAAAAA-TCCTAAACAAAGGTAAACAATGACTT
128 CAAAAAAGTCCTAAATAGA-GTAAACAATAACTT
* *
5900427 TTTCACATATATCAATTGCGGAAACCAAGTTCAATCATTC-GAAAAAGTTTAATATCATGTATTG
1 TTTCACATATATCAACTGTGGAAACCAAGTTCAATCATTCTGAAAAAGTTTAATATCATGTATTG
* * * * * *
5900491 AAGCCATCCAAACTGTTAAAATAGAATAATAGTAGCAAATTTATATTTTTTCCTTTAAATGGCAA
66 AAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAATGGCAA
* *
5900556 AAATAGTCCTAAATAACAGTAAACGATAACTT
131 AAA-AGTCCTAAAT-AGAGTAAACAATAACTT
* * * * * *
5900588 TTTCACACATATAAACCGTAGAAACCAAGTTCAATTATT-TGAATAAGTTTAATATCATGTATTG
1 TTTCACATATATCAACTGTGGAAACCAAGTTCAATCATTCTGAAAAAGTTTAATATCATGTATTG
* * * *
5900652 AAGCTATCCAAATTGTTGAAACAGAACAATAATATCAAATTT-TA-TTTTGCCTTTTAATGGCAT
66 AAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAATGGCA-
*** *
5900715 AAAAAGTCCTAAATAGATGTAAATGTTAGCTTT
130 AAAAAGTCCTAAATAGA-GTAAACAATAAC-TT
* ** * *
5900748 TTTCACATATATCAACTGTGGATACCAAGTTCAATTGTTCTG-ATAAGTTTAATATCATGTATTA
1 TTTCACATATATCAACTGTGGAAACCAAGTTCAATCATTCTGAAAAAGTTTAATATCATGTATTG
* * * * * *
5900812 AAGCTATACAAACTGTTAAAATAGAACAATAACAACAAATTTATATTTTTACCTATTAACGGCAT
66 AAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAATGGCA-
* * *
5900877 AAAAAGTCCTAAATAGACATAAATAATAACGT
130 AAAAAGTCCTAAATAGA-GTAAACAATAACTT
* * * * * * * * *
5900909 TTTCATACATATCAACCGT-G-AA--AACTACAATAATT-TGGATAAGTTAAATATCATGTATTG
1 TTTCACATATATCAACTGTGGAAACCAAGTTCAATCATTCTGAAAAAGTTTAATATCATGTATTG
* * * * * * ** *
5900969 AAACTATCAAAATTATTAAAACAAAACAATAATTGTTAATTTACATTTTTACCTTTTAATGGCAC
66 AAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAATGGCA-
5901034 AAAAAGT
130 AAAAAGT
5901041 TGTAAACAGA
Statistics
Matches: 640, Mismatches: 114, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
156 2 0.00
157 167 0.26
158 32 0.05
159 49 0.08
160 134 0.21
161 213 0.33
162 43 0.07
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (160 bp):
TTTCACATATATCAACTGTGGAAACCAAGTTCAATCATTCTGAAAAAGTTTAATATCATGTATTG
AAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAATGGCAA
AAAAGTCCTAAATAGAGTAAACAATAACTT
Found at i:5904498 original size:20 final size:21
Alignment explanation
Indices: 5904455--5904510 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
5904445 ATTTTTTTCC
*
5904455 TCACC-ACTTTGAATATCAATA
1 TCACCAAC-TTGAGTATCAATA
*
5904476 TCATCAACTTGAGTATC-ATA
1 TCACCAACTTGAGTATCAATA
5904496 TCACCAACTTGAGTA
1 TCACCAACTTGAGTA
5904511 GTAGAAGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.55
21 12 0.39
22 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (21 bp):
TCACCAACTTGAGTATCAATA
Found at i:5906686 original size:17 final size:17
Alignment explanation
Indices: 5906650--5906687 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
5906640 ATAATGTTCC
*
5906650 AAATGGGTATTTGAGGA
1 AAATGGGTATTTGAGAA
5906667 AAATGGGT-TTTGGAGAA
1 AAATGGGTATTT-GAGAA
5906684 AAAT
1 AAAT
5906688 TTTAAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (17 bp):
AAATGGGTATTTGAGAA
Found at i:5907162 original size:61 final size:61
Alignment explanation
Indices: 5907085--5907239 Score: 186
Period size: 62 Copynumber: 2.5 Consensus size: 61
5907075 TTTTTTTGTC
* * ** *
5907085 AAAAACACCTTCAATAATCCCTTTCATTTTTATTAGGAGATTATTCAAGGTATTTTCTACT
1 AAAAATACCTTCAATAATCCCTTTAATTTTTACGAAGAGATTATTCAAGGTATTTTCTACT
* * * * *
5907146 AAAAATACCTTTAATAAT-CCTGTTAAATTTTGACGAAGAGATTATTGAAGGTGTTTTTTACT
1 AAAAATACCTTCAATAATCCCT-TT-AATTTTTACGAAGAGATTATTCAAGGTATTTTCTACT
5907208 AAAAATACCTTCAATAATCCCCTTTAATTTTT
1 AAAAATACCTTCAATAAT-CCCTTTAATTTTT
5907240 TTTAAAAAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
60 3 0.04
61 18 0.23
62 52 0.67
63 2 0.03
64 3 0.04
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (61 bp):
AAAAATACCTTCAATAATCCCTTTAATTTTTACGAAGAGATTATTCAAGGTATTTTCTACT
Found at i:5908312 original size:28 final size:28
Alignment explanation
Indices: 5908275--5908347 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
5908265 AAATATTATG
5908275 GTTTGCTGAATGGTATTGTATGATATTA
1 GTTTGCTGAATGGTATTGTATGATATTA
*
5908303 GTTTGTTGAATGGTATTGTATGATATTA
1 GTTTGCTGAATGGTATTGTATGATATTA
*
5908331 GTTTACTGAATGGTATT
1 GTTTGCTGAATGGTATT
5908348 ATATATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.48
Consensus pattern (28 bp):
GTTTGCTGAATGGTATTGTATGATATTA
Found at i:5908357 original size:28 final size:28
Alignment explanation
Indices: 5908275--5908370 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 28
5908265 AAATATTATG
* *
5908275 GTTTGCTGAATGGTATTGTATGATATTA
1 GTTTACTGAATGGTATTATATGATATTA
** *
5908303 GTTTGTTGAATGGTATTGTATGATATTA
1 GTTTACTGAATGGTATTATATGATATTA
*
5908331 GTTTACTGAATGGTATTATAT-ATTATTG
1 GTTTACTGAATGGTATTATATGA-TATTA
*
5908359 GTTTACTAAATG
1 GTTTACTGAATG
5908371 ATTTGCTAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (28 bp):
GTTTACTGAATGGTATTATATGATATTA
Found at i:5908395 original size:25 final size:25
Alignment explanation
Indices: 5908367--5908418 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
5908357 TGGTTTACTA
*
5908367 AATGATTTGCTAAATGATGTTTTTG
1 AATGATTTGCTAAATGATATTTTTG
* * *
5908392 AATGGTTTGCTGAATGGTATTTTTG
1 AATGATTTGCTAAATGATATTTTTG
5908417 AA
1 AA
5908419 CACATTGCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (25 bp):
AATGATTTGCTAAATGATATTTTTG
Found at i:5911626 original size:35 final size:35
Alignment explanation
Indices: 5911580--5911649 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
5911570 ATATATAAAC
*
5911580 AAAATATTTTTT-AGGCATAAACGTACAACTGACTT
1 AAAATATTTTTTGA-GCATAAACGTACAACTCACTT
* *
5911615 AAAATATTTTTTGAGTATAAACTTACAACTCACTT
1 AAAATATTTTTTGAGCATAAACGTACAACTCACTT
5911650 CACATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (35 bp):
AAAATATTTTTTGAGCATAAACGTACAACTCACTT
Found at i:5914122 original size:24 final size:24
Alignment explanation
Indices: 5914089--5914140 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
5914079 AATTTTTTCA
*
5914089 TTTTTCAATCATAATTATAATAAT
1 TTTTTCAATCATAATTATAATAAC
*
5914113 TTTTTTAATCATAATTATAATAAC
1 TTTTTCAATCATAATTATAATAAC
5914137 TTTT
1 TTTT
5914141 ATTATTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTTCAATCATAATTATAATAAC
Found at i:5916168 original size:22 final size:21
Alignment explanation
Indices: 5916143--5916185 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5916133 TATAATTTTT
5916143 ATTATAATTAAACAAA-TATAAA
1 ATTATAA-TAAA-AAATTATAAA
5916165 ATTATAATAAAAAATTATAAA
1 ATTATAATAAAAAATTATAAA
5916186 TAATATACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 10 0.50
22 7 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTATAATAAAAAATTATAAA
Found at i:5916192 original size:22 final size:22
Alignment explanation
Indices: 5916145--5916192 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
5916135 TAATTTTTAT
*
5916145 TATAATTAAACAAATATAAAAT
1 TATAATTAAACAAATATAAAAA
5916167 TATAA-TAAA-AAATTATAAATAA
1 TATAATTAAACAAA-TATAAA-AA
5916189 TATA
1 TATA
5916193 CTCCCTGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 3 0.13
21 10 0.43
22 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAATTAAACAAATATAAAAA
Found at i:5916451 original size:2 final size:2
Alignment explanation
Indices: 5916440--5916477 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
5916430 ATTTGCTATG
* *
5916440 TA TA TA -A TA TA TA TG TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5916478 TGACGCTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5922314 original size:61 final size:62
Alignment explanation
Indices: 5922249--5922753 Score: 187
Period size: 63 Copynumber: 8.1 Consensus size: 62
5922239 TCGATAAATA
**
5922249 AAAAAATTATAAAT-ATCAATTGTTATATTATAAAACAAAGTAACGTAATAATTGATT-ATTT
1 AAAAAATTA-AAATAATCAATTACTATATTATAAAACAAAGTAACGTAATAATTGATTGATTT
* * * * * * * *
5922310 AAAAAAATAAAATGATAAATCACTATGTTATAAAACAAAGTAATGTAATAATTGGTTGTTTT
1 AAAAAATTAAAATAATCAATTACTATATTATAAAACAAAGTAACGTAATAATTGATTGATTT
* ** * * ** ** *
5922372 AAAACAATTAAAATAATCAATTATTGCATTTTAAAATAAAAAAATATAATAATTGA-TCATTT
1 AAAA-AATTAAAATAATCAATTACTATATTATAAAACAAAGTAACGTAATAATTGATTGATTT
* * * * ** * * * * *
5922434 GATTAAAATTACAGTTATCAATTACTAGGTTTTAAAATAAAGCAACGTAATAATTAATTGTTTT
1 -A-AAAAATTAAAATAATCAATTACTATATTATAAAACAAAGTAACGTAATAATTGATTGATTT
* * * ** * * * * * *
5922498 AAAACAATTAAAATGATTAATTATTGCATTTTAAAATAAA-AAATCATAGTAATTGA-TCATTT
1 AAAA-AATTAAAATAATCAATTACTATATTATAAAACAAAGTAA-CGTAATAATTGATTGATTT
* * * * ** * * * * * *
5922560 GATTAAAATTACAATTATCAATTATTGCATCATAAAACAAAGCAATGCAATTATTGATTGTTTTT
1 -A-AAAAATTAAAATAATCAATTACTATATTATAAAACAAAGTAACGTAATAATTGATTG-ATTT
* * * * * * * * * * *
5922625 AAACAATTAGAATGATTAATTACTGTATTTTAAAACAAAGAAACCTAGTCATTGA-TCATTTT
1 AAAAAATTAAAATAATCAATTACTATATTATAAAACAAAGTAACGTAATAATTGATTGA-TTT
* * * * ** * * *
5922687 ATTAAAATTAAAGTTATCAATTATTGCGA-TAAAAAACAAAGGAACGTAATAATTGATTGTTTT
1 A-AAAAATTAAAATAATCAATTACT-ATATTATAAAACAAAGTAACGTAATAATTGATTGATTT
5922750 AAAA
1 AAAA
5922754 CAACATTTAT
Statistics
Matches: 322, Mismatches: 105, Indels: 33
0.70 0.23 0.07
Matches are distributed among these distances:
60 4 0.01
61 44 0.14
62 26 0.08
63 231 0.72
64 14 0.04
65 3 0.01
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (62 bp):
AAAAAATTAAAATAATCAATTACTATATTATAAAACAAAGTAACGTAATAATTGATTGATTT
Found at i:5922422 original size:63 final size:63
Alignment explanation
Indices: 5922355--5922756 Score: 220
Period size: 63 Copynumber: 6.4 Consensus size: 63
5922345 CAAAGTAATG
* *
5922355 TAATAATTGGTTGTTTTAAAACAATTAAAATAATCAATTATTGCATTTTAAAATAAAAAAATA
1 TAATAATTGATTGTTTTAAAACAATTAAAATAATCAATTATTGCATTTTAAAATAAAAAAACA
** * * * * * * * ** *
5922418 TAATAATTGATCATTTGATTAA-AATTACAGTTATCAATTACTAG-GTTTTAAAATAAAGCAACG
1 TAATAATTGATTGTTTTA-AAACAATTAAAATAATCAATTA-TTGCATTTTAAAATAAAAAAACA
* * * *
5922481 TAATAATTAATTGTTTTAAAACAATTAAAATGATTAATTATTGCATTTTAAAATAAAAAATCA
1 TAATAATTGATTGTTTTAAAACAATTAAAATAATCAATTATTGCATTTTAAAATAAAAAAACA
* ** * * * * ** * ** **
5922544 TAGTAATTGATCATTTGATTAA-AATTACAATTATCAATTATTGCATCATAAAACAAAGCAATG
1 TAATAATTGATTGTTTTA-AAACAATTAAAATAATCAATTATTGCATTTTAAAATAAAAAAACA
* * * * * * * * * * *
5922607 CAATTATTGATTGTTTTTAAACAATTAGAATGATTAATTACTGTATTTTAAAACAAAGAAACC
1 TAATAATTGATTGTTTTAAAACAATTAAAATAATCAATTATTGCATTTTAAAATAAAAAAACA
* * ** * * * ** * ** *
5922670 TAGTCATTGATCATTTTATTAA-AATTAAAGTTATCAATTATTGCGA-TAAAAAACAAAGGAACG
1 TAATAATTGATTGTTTTA-AAACAATTAAAATAATCAATTATTGC-ATTTTAAAATAAAAAAACA
5922733 TAATAATTGATTGTTTTAAAACAA
1 TAATAATTGATTGTTTTAAAACAA
5922757 CATTTATCAA
Statistics
Matches: 244, Mismatches: 86, Indels: 18
0.70 0.25 0.05
Matches are distributed among these distances:
62 8 0.03
63 227 0.93
64 9 0.04
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (63 bp):
TAATAATTGATTGTTTTAAAACAATTAAAATAATCAATTATTGCATTTTAAAATAAAAAAACA
Found at i:5922504 original size:126 final size:126
Alignment explanation
Indices: 5922336--5922756 Score: 531
Period size: 126 Copynumber: 3.3 Consensus size: 126
5922326 AAATCACTAT
* * * * *
5922336 GTTATAAAACAAAGTAATGTAATAATTGGTTGTTTTAAAACAATTAAAATAATCAATTATTGCAT
1 GTTATAAAACAAAGCAACGTAATAATTGATTGTTTTAAAACAATTAAAATGATTAATTATTGCAT
*
5922401 TTTAAAATAAAAAAATATAATAATTGATCATTTGATTAAAATTACAGTTATCAATTACTAG-
66 TTTAAAATAAAAAAATATAGTAATTGATCATTTGATTAAAATTACAGTTATCAATTA-TAGC
* * *
5922462 GTTTTAAAATAAAGCAACGTAATAATTAATTGTTTTAAAACAATTAAAATGATTAATTATTGCAT
1 GTTATAAAACAAAGCAACGTAATAATTGATTGTTTTAAAACAATTAAAATGATTAATTATTGCAT
* *
5922527 TTTAAAAT-AAAAAATCATAGTAATTGATCATTTGATTAAAATTACAATTATCAATTATTGC
66 TTTAAAATAAAAAAAT-ATAGTAATTGATCATTTGATTAAAATTACAGTTATCAATTATAGC
* * * * * * * * *
5922588 ATCATAAAACAAAGCAATGCAATTATTGATTGTTTTTAAACAATTAGAATGATTAATTACTGTAT
1 GTTATAAAACAAAGCAACGTAATAATTGATTGTTTTAAAACAATTAAAATGATTAATTATTGCAT
* * ** * * * *
5922653 TTTAAAACAAAGAAACCTAGTCATTGATCATTTTATTAAAATTAAAGTTATCAATTATTGC
66 TTTAAAATAAAAAAATATAGTAATTGATCATTTGATTAAAATTACAGTTATCAATTATAGC
* * *
5922714 GATAAAAAACAAAGGAACGTAATAATTGATTGTTTTAAAACAA
1 GTTATAAAACAAAGCAACGTAATAATTGATTGTTTTAAAACAA
5922757 CATTTATCAA
Statistics
Matches: 252, Mismatches: 40, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
125 9 0.04
126 238 0.94
127 5 0.02
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (126 bp):
GTTATAAAACAAAGCAACGTAATAATTGATTGTTTTAAAACAATTAAAATGATTAATTATTGCAT
TTTAAAATAAAAAAATATAGTAATTGATCATTTGATTAAAATTACAGTTATCAATTATAGC
Found at i:5924154 original size:18 final size:17
Alignment explanation
Indices: 5924116--5924161 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
5924106 CACAGCCTAC
*
5924116 CAAAAAT-AAAATAAAA
1 CAAAAATAAAAACAAAA
*
5924132 TAAAAATAACAAACAAAA
1 CAAAAATAA-AAACAAAA
5924150 CAAAAATAAAAA
1 CAAAAATAAAAA
5924162 AACCACATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 15 0.60
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (17 bp):
CAAAAATAAAAACAAAA
Found at i:5925322 original size:19 final size:20
Alignment explanation
Indices: 5925276--5925322 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
5925266 AAAGTTTTTA
5925276 AGAAAAAAATAAGTAAAAAT
1 AGAAAAAAATAAGTAAAAAT
* *
5925296 ATAAAAAAATTAG-AAAAAT
1 AGAAAAAAATAAGTAAAAAT
5925315 AGATAAAA
1 AGA-AAAA
5925323 GTATTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (20 bp):
AGAAAAAAATAAGTAAAAAT
Found at i:5925322 original size:20 final size:20
Alignment explanation
Indices: 5925276--5925322 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
5925266 AAAGTTTTTA
5925276 AGAAAAAAATAAGTAAAAAT
1 AGAAAAAAATAAGTAAAAAT
* *
5925296 ATAAAAAAATTAG-AAAAAT
1 AGAAAAAAATAAGTAAAAAT
*
5925315 AGATAAAA
1 AGAAAAAA
5925323 GTATTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (20 bp):
AGAAAAAAATAAGTAAAAAT
Found at i:5925338 original size:3 final size:3
Alignment explanation
Indices: 5925330--5925378 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
5925320 AAAGTATTTA
5925330 AAT AAT AAT AAT AAT AAT AATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
5925376 AAT
1 AAT
5925379 TTGAAACAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:5926226 original size:26 final size:27
Alignment explanation
Indices: 5926188--5926240 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
5926178 AATTTGAAAG
* * * *
5926188 TATTTCATTAATATAAAATTTTCATAA
1 TATTTCATAAATAAAAAACTTTAATAA
5926215 TATTTC-TAAATAAAAAACTTTAATAA
1 TATTTCATAAATAAAAAACTTTAATAA
5926241 AACTACTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (27 bp):
TATTTCATAAATAAAAAACTTTAATAA
Found at i:5931297 original size:22 final size:22
Alignment explanation
Indices: 5931244--5931298 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
5931234 TGTTAAACAA
*
5931244 AAAAGAAGAAAAACAACAAAAC
1 AAAAGAAAAAAAACAACAAAAC
* *
5931266 AAAATTAAAAAAAAC-ACAGAAAG
1 AAAA-GAAAAAAAACAACA-AAAC
5931289 AAAAGAAAAA
1 AAAAGAAAAA
5931299 TAATTATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.78, C:0.09, G:0.09, T:0.04
Consensus pattern (22 bp):
AAAAGAAAAAAAACAACAAAAC
Found at i:5932166 original size:12 final size:12
Alignment explanation
Indices: 5932146--5932194 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
5932136 ACATAATGTA
*
5932146 ATAATAAAAAAG
1 ATAAAAAAAAAG
5932158 ATAAAAAAAAAG
1 ATAAAAAAAAAG
5932170 -TAAAAAAGAAAG
1 ATAAAAAA-AAAG
*
5932182 ACAAAAAAAAAG
1 ATAAAAAAAAAG
5932194 A
1 A
5932195 AAGAAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 7 0.21
12 20 0.61
13 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (12 bp):
ATAAAAAAAAAG
Found at i:5932854 original size:32 final size:31
Alignment explanation
Indices: 5932805--5932888 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
5932795 GTTGGCACGC
*
5932805 AAGCCCAGA-TTATTTGGCACCAAT-AAAGTTTT
1 AAGCCCA-ATTTAGTTGGCACCAATGAAA--TTT
* **
5932837 AAGCCTAATTTAGTTGGCATTAATGAAATTT
1 AAGCCCAATTTAGTTGGCACCAATGAAATTT
*
5932868 AAGCCCAATTTAGTTGACACC
1 AAGCCCAATTTAGTTGGCACC
5932889 TAGGTTTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
31 21 0.50
32 18 0.43
33 3 0.07
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (31 bp):
AAGCCCAATTTAGTTGGCACCAATGAAATTT
Found at i:5936289 original size:13 final size:13
Alignment explanation
Indices: 5936271--5936295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5936261 ATTTAAGAAT
5936271 TGAAACCCTAAAG
1 TGAAACCCTAAAG
5936284 TGAAACCCTAAA
1 TGAAACCCTAAA
5936296 TCTAAAGCTA
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:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (13 bp):
TGAAACCCTAAAG
Found at i:5940333 original size:2 final size:2
Alignment explanation
Indices: 5940326--5940350 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5940316 AGTAATGATA
5940326 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5940351 ACTCCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5940449 original size:27 final size:28
Alignment explanation
Indices: 5940407--5940459 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
5940397 TAGAATTCAT
* *
5940407 AATTGTTTCATTTATACAACTATAAACA
1 AATTGTTTCATATATACAAATATAAACA
5940435 AATTG-TTCATATATACAAATATAAA
1 AATTGTTTCATATATACAAATATAAA
5940460 TTGTATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (28 bp):
AATTGTTTCATATATACAAATATAAACA
Found at i:5940460 original size:23 final size:24
Alignment explanation
Indices: 5940434--5940478 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5940424 AACTATAAAC
*
5940434 AAATTGT-TCATATATACAAATAT
1 AAATTGTATCATATACACAAATAT
*
5940457 AAATTGTATCATTTACACAAAT
1 AAATTGTATCATATACACAAAT
5940479 TCAAAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATTGTATCATATACACAAATAT
Found at i:5944813 original size:18 final size:18
Alignment explanation
Indices: 5944775--5944815 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
5944765 ATGAATTGAA
*
5944775 TTATATATTTTTATTAAT
1 TTATATATTTTTATCAAT
5944793 TTATATATTTTT-TCAAT
1 TTATATATTTTTATCAAT
5944810 TT-TATA
1 TTATATA
5944816 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 12 0.55
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATATTTTTATCAAT
Found at i:5944815 original size:16 final size:17
Alignment explanation
Indices: 5944773--5944815 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5944763 AAATGAATTG
* *
5944773 AATTATATATTTTTATT
1 AATTTTATATTTTTATC
5944790 AATTTATATATTTTT-TC
1 AATTT-TATATTTTTATC
5944807 AATTTTATA
1 AATTTTATA
5944816 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTTATATTTTTATC
Found at i:5947767 original size:16 final size:17
Alignment explanation
Indices: 5947730--5947782 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
5947720 AAATTACATT
*
5947730 AATAA-TTTAAATTATA
1 AATAATTTTAAATAATA
*
5947746 TA-AATTTTAAATAA-A
1 AATAATTTTAAATAATA
*
5947761 AATAATTTTAACTAATA
1 AATAATTTTAAATAATA
5947778 AATAA
1 AATAA
5947783 ATTATCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.13
16 20 0.67
17 6 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAATTTTAAATAATA
Found at i:5957705 original size:20 final size:19
Alignment explanation
Indices: 5957678--5957721 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
5957668 ATTTTCATTT
*
5957678 TATAAAAAT-TTAAAATATA
1 TATAAAAATAATAAAA-ATA
5957697 TATATAAAATAATAAAAATA
1 TATA-AAAATAATAAAAATA
5957717 TATAA
1 TATAA
5957722 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAAAAATAATAAAAATA
Found at i:5957982 original size:2 final size:2
Alignment explanation
Indices: 5957975--5958008 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5957965 ATGCCCTCCC
5957975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5958009 TTCATCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5963825 original size:14 final size:14
Alignment explanation
Indices: 5963806--5963833 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5963796 TCTCTTACTT
5963806 AAAATCTATTAATA
1 AAAATCTATTAATA
5963820 AAAATCTATTAATA
1 AAAATCTATTAATA
5963834 GTATTACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATCTATTAATA
Found at i:5964428 original size:29 final size:31
Alignment explanation
Indices: 5964349--5964428 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
5964339 CAATTGATAA
*
5964349 TTACA-ATTTTAATCCTAAAACTTTGCCCTT
1 TTACATATTTCAATCCTAAAACTTTGCCCTT
* * *
5964379 TTAGATATTTCAATTCTAAAACTTT-TCCTT
1 TTACATATTTCAATCCTAAAACTTTGCCCTT
5964409 TTACATA-TTCAATCCTAAAA
1 TTACATATTTCAATCCTAAAA
5964429 GTTATGGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 12 0.28
30 14 0.33
31 17 0.40
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.44
Consensus pattern (31 bp):
TTACATATTTCAATCCTAAAACTTTGCCCTT
Found at i:5965149 original size:21 final size:22
Alignment explanation
Indices: 5965104--5965149 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 22
5965094 AAGAGGAGAT
5965104 AAATTAATAAATATATTGAAGAAAA
1 AAATTAATAAATATATT--A-AAAA
5965129 AAATTAATAAATATATTAAAA
1 AAATTAATAAATATATTAAAA
5965150 GTCTATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 1 0.05
25 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATTAATAAATATATTAAAAA
Found at i:5971861 original size:333 final size:333
Alignment explanation
Indices: 5971143--5972475 Score: 1798
Period size: 333 Copynumber: 4.0 Consensus size: 333
5971133 AGAAATTTTT
* * * * * * *
5971143 TTTATAATAGAAACTGATATAGCAAATCTATAGCAGCACATCTATGAATCAAACAGCTAAGCCTA
1 TTTATAACAAAAACTAATATAGCAAAGCTACAGCAGCACATCTATGAATCAAGCAACTAAGCCTA
* * * * * *
5971208 GATATGTTGGACAACTATGATTTCTAAATTGCCATAGCTAATAATTCTTTCAATTTTGTTAGCAA
66 TATATGCTAGACAACTATGATTTCTAAACTGCCATAGCTAATAATTCTTTCAGTTTTGTTAGTAA
* * * *
5971273 AATCATTGATGATCCCTGGCTAGCAAATAACTATCTCAAGTAATTAAAAAACTTAATAGTTCTGC
131 AAACATTGATGATCCCTGGCTAGCAAATAACTCTCTCAAGTAATTAAAAAACTTAACAGTTCTAC
**
5971338 ---AAAGTTTAAATGATGTATCAAATAACTATCAAATTTAAAT-AAAATAAGTAATCATATTCTA
196 AAAAAAGTTTAAATGATGTATCAAATAACTATCAAATTTAAATAAAAATAAGTAATCCCATTCTA
* * * * *
5971399 TTTTGAACTAAAGAGGGACAAATAACATATGCCATATATTTCAGCCTTGGGTTATCCATAAAGCA
261 TTTTGAACTAAAGAGGGACAAATAACATATGCCATTTGTTTCAACCTTAGGTTATCCATAAAGCT
***
5971464 CTGTAATG
326 CCACAATG
* **
5971472 TTTATAACAGAAACTAATATAGCAAAGCTACAGCAAAACATCTATGAATCAAGCAACTAAGCCTA
1 TTTATAACAAAAACTAATATAGCAAAGCTACAGCAGCACATCTATGAATCAAGCAACTAAGCCTA
* * *
5971537 TATATGCTAGACAACTATGATTTCCAAACTGCCATAACTAATAATTCTTTTAGTTTTGTTAGTAA
66 TATATGCTAGACAACTATGATTTCTAAACTGCCATAGCTAATAATTCTTTCAGTTTTGTTAGTAA
* * * * *
5971602 AAACATTGATGATTCCTGGCAAGTAAATAACTCTCTCAAGTAATTAAAAAATTTAACAGTTCTGC
131 AAACATTGATGATCCCTGGCTAGCAAATAACTCTCTCAAGTAATTAAAAAACTTAACAGTTCTAC
**
5971667 AAAAAAGTTTAAATGATGTATCAAATAACTATTGAATTTAAATAAAAATAAGTAATCCCATTCTA
196 AAAAAAGTTTAAATGATGTATCAAATAACTATCAAATTTAAATAAAAATAAGTAATCCCATTCTA
* * * *
5971732 TTTTGAACTAAAG-GGGTATAAATAACAAATGTCATCTGTTTCAACCTTAGGTTATCCATAAAGC
261 TTTTGAACTAAAGAGGG-ACAAATAACATATGCCATTTGTTTCAACCTTAGGTTATCCATAAAGC
5971796 TCCACAATG
325 TCCACAATG
* * * ** *
5971805 TTTATAACAAAAACTAATATAGCATAGCTATAGTATTACATCTATGAATTAAGCAACTAAGCCTA
1 TTTATAACAAAAACTAATATAGCAAAGCTACAGCAGCACATCTATGAATCAAGCAACTAAGCCTA
* * * * *
5971870 TATATGCTTGATAACTATGATTTCTAAACTGTCATAGCTAATAATTCTTTTAGTTTTATTAGTAA
66 TATATGCTAGACAACTATGATTTCTAAACTGCCATAGCTAATAATTCTTTCAGTTTTGTTAGTAA
* *
5971935 AAACATTGATGATCCCTGGCTAGCAAATAACTCTCTCAGGTAATTAAAAAACTTAACATTTCTAC
131 AAACATTGATGATCCCTGGCTAGCAAATAACTCTCTCAAGTAATTAAAAAACTTAACAGTTCTAC
*
5972000 AAAAAAGTTTAAATGATGTATCAAATAACTATCAAATTTAAATAGAAATAAGTAATCCCATTCTA
196 AAAAAAGTTTAAATGATGTATCAAATAACTATCAAATTTAAATAAAAATAAGTAATCCCATTCTA
*
5972065 TTTTGAACTGAAGAGGGACAAATAACATATGCCATTTGTTTCAACCTTAGGTTATCCATAAAGCT
261 TTTTGAACTAAAGAGGGACAAATAACATATGCCATTTGTTTCAACCTTAGGTTATCCATAAAGCT
* *
5972130 CTACAATA
326 CCACAATG
* * * ** * *
5972138 TTTATAACAAAAACTGATATAGCGAAGCTACAACAGCACATCTAT-AATTCAAGCAGTTGAGCTT
1 TTTATAACAAAAACTAATATAGCAAAGCTACAGCAGCACATCTATGAA-TCAAGCAACTAAGCCT
* * * * *
5972202 ATATATGCTAGACAACTATTATTTTTAAGCTACCATAGCTAATAATTCTTACAGTTTTGTTAGTA
65 ATATATGCTAGACAACTATGATTTCTAAACTGCCATAGCTAATAATTCTTTCAGTTTTGTTAGTA
* * *
5972267 AAAATATTGATGATTCATGGCTAGCAAATAACTCTCTC-AGATAATTAAAAAACTTAACAGTTCT
130 AAAACATTGATGATCCCTGGCTAGCAAATAACTCTCTCAAG-TAATTAAAAAACTTAACAGTTCT
* * * * * *
5972331 ACAAAAAAATTTAAATGATGTGTCAAATAACTATCGAATTTAAATAGAAATAACTAATCCCATTT
194 ACAAAAAAGTTTAAATGATGTATCAAATAACTATCAAATTTAAATAAAAATAAGTAATCCCATTC
* * * *
5972396 TATTTTGAACTAAAGAGAGACAAATAACATATTCCATTTGTTTCAAACTTGGGTTATCCATAAAG
259 TATTTTGAACTAAAGAGGGACAAATAACATATGCCATTTGTTTCAACCTTAGGTTATCCATAAAG
* *
5972461 CTCCATAATT
324 CTCCACAATG
5972471 TTTAT
1 TTTAT
5972476 TCGTTGAGAA
Statistics
Matches: 886, Mismatches: 110, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
329 171 0.19
332 44 0.05
333 668 0.75
334 3 0.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (333 bp):
TTTATAACAAAAACTAATATAGCAAAGCTACAGCAGCACATCTATGAATCAAGCAACTAAGCCTA
TATATGCTAGACAACTATGATTTCTAAACTGCCATAGCTAATAATTCTTTCAGTTTTGTTAGTAA
AAACATTGATGATCCCTGGCTAGCAAATAACTCTCTCAAGTAATTAAAAAACTTAACAGTTCTAC
AAAAAAGTTTAAATGATGTATCAAATAACTATCAAATTTAAATAAAAATAAGTAATCCCATTCTA
TTTTGAACTAAAGAGGGACAAATAACATATGCCATTTGTTTCAACCTTAGGTTATCCATAAAGCT
CCACAATG
Found at i:5973386 original size:21 final size:23
Alignment explanation
Indices: 5973345--5973387 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
5973335 GATAAAAAAG
5973345 AATATTAAAATTATATTAATAAA
1 AATATTAAAATTATATTAATAAA
*
5973368 AATA-TAAAA-TATTTTAATAA
1 AATATTAAAATTATATTAATAA
5973388 TATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 5 0.26
23 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATTAAAATTATATTAATAAA
Found at i:5978293 original size:22 final size:22
Alignment explanation
Indices: 5978262--5978308 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
5978252 TAAGACAAAT
*
5978262 ATAAATCAATAAAAATAAACAA
1 ATAAACCAATAAAAATAAACAA
*
5978284 ATAAACCAATAAAAATTAACAA
1 ATAAACCAATAAAAATAAACAA
5978306 ATA
1 ATA
5978309 TCCAATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (22 bp):
ATAAACCAATAAAAATAAACAA
Found at i:6000664 original size:90 final size:90
Alignment explanation
Indices: 6000511--6000693 Score: 366
Period size: 90 Copynumber: 2.0 Consensus size: 90
6000501 AAAGATTGAC
6000511 TTGCTAATAATGTAAATTGTTGTAAGCTATTTTCATAGTAGCTAAATGGTTTGACCCAATCTAAG
1 TTGCTAATAATGTAAATTGTTGTAAGCTATTTTCATAGTAGCTAAATGGTTTGACCCAATCTAAG
6000576 CCCTCGGACCAATCCATGTCTTTCT
66 CCCTCGGACCAATCCATGTCTTTCT
6000601 TTGCTAATAATGTAAATTGTTGTAAGCTATTTTCATAGTAGCTAAATGGTTTGACCCAATCTAAG
1 TTGCTAATAATGTAAATTGTTGTAAGCTATTTTCATAGTAGCTAAATGGTTTGACCCAATCTAAG
6000666 CCCTCGGACCAATCCATGTCTTTCT
66 CCCTCGGACCAATCCATGTCTTTCT
6000691 TTG
1 TTG
6000694 TCAGCAACTT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (90 bp):
TTGCTAATAATGTAAATTGTTGTAAGCTATTTTCATAGTAGCTAAATGGTTTGACCCAATCTAAG
CCCTCGGACCAATCCATGTCTTTCT
Found at i:6001108 original size:87 final size:88
Alignment explanation
Indices: 6000997--6001164 Score: 248
Period size: 87 Copynumber: 1.9 Consensus size: 88
6000987 TAACTCAATT
* *
6000997 TCCTACATAAAAAAACACTATTATTGTTAAACACATATCAATCATAACTTATTTATGTGTATCAA
1 TCCTACATAAAAAAACACTATTATTGTTAAACACACATCAACCATAACTTATTTATGTGTATCAA
*
6001062 GCATGACGATAATGATCTTAATC
66 GCATGACAATAATGATCTTAATC
* * * *
6001085 TCCTATAT-AAAAAATATTATTATTGTTAAACACACATCGACCATAACTTATTTATGTGTATCAA
1 TCCTACATAAAAAAACACTATTATTGTTAAACACACATCAACCATAACTTATTTATGTGTATCAA
* *
6001149 GCGTGGCAATAATGAT
66 GCATGACAATAATGAT
6001165 TAGACACATG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 64 0.90
88 7 0.10
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (88 bp):
TCCTACATAAAAAAACACTATTATTGTTAAACACACATCAACCATAACTTATTTATGTGTATCAA
GCATGACAATAATGATCTTAATC
Found at i:6001694 original size:162 final size:162
Alignment explanation
Indices: 6001447--6002342 Score: 778
Period size: 162 Copynumber: 5.5 Consensus size: 162
6001437 TAATGATATC
* * * * * * *
6001447 TTTTTCACACATATCAATCATGAAAACTAA-TACAATCATT-TAGATAAGTTTAATATAATGCAT
1 TTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGA-AAAAATTTAATATCATGTAT
* ** **
6001510 TGAAGCTATCTAAACTGTTAAAATAAAATAATAAACACAAATTTGGATTTTGACCTTTTAACGGC
65 TGAAGCTATCTAAACTGTTAAAATAAAATAATAAACGCAAATTTACATTTTGACCTTTTAACAAC
* *
6001575 ACAAAAAAATGCTAAACAGACATAAACAATAAT
130 ATAAAAAAATGCTAAACAAACATAAACAATAAT
* ** *
6001608 TTTTTCACACCTATCAATTGTGAAAACCAAGTTCAATCATTCGAAAAAATTTAATATTATGTATT
1 TTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGAAAAAATTTAATATCATGTATT
* * * * * * * * * *
6001673 TAAGTTATTTAAATTGTTAAAATATAAAT-AT-AACTGTAAAATTATATTTTTACCATTTAACAG
66 GAAGCTATCTAAACTGTTAAAATA-AAATAATAAAC-GCAAATTTACATTTTGACCTTTTAACAA
* * * * *
6001736 CATAATAAAATCCTAAA-AAGACATACACGATAAC
129 CATAAAAAAATGCTAAACAA-ACATAAACAATAAT
* * * * * *
6001770 ATTTTCATACATATCAACCATGAAAATCAAGTTCAATTATTC-AAACAAGTTTAATATCATGTAT
1 TTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGAAA-AAATTTAATATCATGTAT
* * *** *
6001834 TGAAGCTATTTAAATTGTTAAAATAAAATAATAAATAAAAATTTACATTTTTACCTTTTAACAAC
65 TGAAGCTATCTAAACTGTTAAAATAAAATAATAAACGCAAATTTACATTTTGACCTTTTAACAAC
** ** *
6001899 ATAAAAATGTGCTAAACAAATGTAAACAGTAAT
130 ATAAAAAAATGCTAAACAAACATAAACAATAAT
* * * *
6001932 TTTTTCACATC-TATCAATCGTGAAAATCTAGTTCAATCATTCGAAAAAGTTTAATATCATGTAT
1 TTTTTCACA-CATATCAATCATGAAAACCAAGTTCAATCATTCGAAAAAATTTAATATCATGTAT
* * * * *
6001996 TTAAGCTATCTAAACTGTTAAAATATAAAT-AT-AACTGTAAAATTATATTTTTG-CCCTTTAAC
65 TGAAGCTATCTAAACTGTTAAAATA-AAATAATAAAC-GCAAATTTACA-TTTTGACCTTTTAAC
* * * * * *
6002058 GACCTAACAAAGT-CTTAAAAAAACATATAA-AGTAAT
127 AACATAAAAAAATGC-TAAACAAACATA-AACAATAAT
* * * * * * *
6002094 ATTTTCACACATATC-AGCTATGAAAATCAAGTTTAATCATTTGAACAAATTTAATATTATGTAT
1 TTTTTCACACATATCAATC-ATGAAAACCAAGTTCAATCATTCGAAAAAATTTAATATCATGTAT
* * * * * * *
6002158 TGAAACTATCCAAACTGTTAAAATAAAATAATAAATGCAAATTTGCATTTTGGCCTTTTAATATC
65 TGAAGCTATCTAAACTGTTAAAATAAAATAATAAACGCAAATTTACATTTTGACCTTTTAACAAC
* *
6002223 ATAAAAAAGTGTTAAACAAACATAAACAATAACT
130 ATAAAAAAATGCTAAACAAACATAAACAATAA-T
* * *
6002257 TTTTT-ACATATATCAATCATGAAAACCAAGTTTAATCATTC-AAAAAAGTTTAATATCATATAT
1 TTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGAAAAAA-TTTAATATCATGTAT
* * *
6002320 TTAAGCTATATAAACTATTAAAA
65 TGAAGCTATCTAAACTGTTAAAA
6002343 CGTAAGTCCT
Statistics
Matches: 589, Mismatches: 120, Indels: 51
0.77 0.16 0.07
Matches are distributed among these distances:
161 59 0.10
162 498 0.85
163 32 0.05
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (162 bp):
TTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTCGAAAAAATTTAATATCATGTATT
GAAGCTATCTAAACTGTTAAAATAAAATAATAAACGCAAATTTACATTTTGACCTTTTAACAACA
TAAAAAAATGCTAAACAAACATAAACAATAAT
Found at i:6001940 original size:324 final size:320
Alignment explanation
Indices: 6001191--6002342 Score: 1231
Period size: 324 Copynumber: 3.6 Consensus size: 320
6001181 CATGTAATAA
* * * * * * * **
6001191 AAGCTATCTAAACTGTTAAAACAGAACAACAATTATAAATTTGCATTTTTG-CTTTTTAACATTA
1 AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAAATTTGCA-TTTTGACCTTTTAACAACA
* * * * * * * ** * * *
6001255 T-AAAAAGTCCTAAACAGACATAAATATTAACTTATTCATAAATATTAAATCGTTAAAATCAAGT
65 TAAAAAAGTGCTAAACAAACATAAACAATAATTTTTTCACATCTA-TCAATCGTGAAAACCAAGT
* * * * * * *
6001319 TCAATCATTTGGACAAGTTTAATATCATGTATTTAAG-TCACCTAAATTGTTAAAACATAAATAT
129 TCAATCATTCGAAAAAATTTAATATCATGTATTTAAGCT-ATCTAAACTGTTAAAATATAAATAT
* ** * * *
6001383 AATTGTAAAATTATATTTTTGCCTTTAGTGGTACAATAAAGT-CTGAAAAAGACATAATGATATC
193 AACTGTAAAATTATATTTTTGCCTTTA-ACGCATAATAAAGTCCT-AAAAAGACATAA-GATAAC
* * * * * *
6001447 TTTTTCACACATATCAATCATGAAAA-CTAA-TACAATCATTTAGATAAGTTTAATATAATGCAT
255 ATTTTCACACATATCAACCATGAAAATC-AAGTTCAATCATTTAAACAAGTTTAATATAATGTAT
6001510 TG
319 TG
* * ** *
6001512 AAGCTATCTAAACTGTTAAAATAAAATAATAAACACAAATTTGGATTTTGACCTTTTAACGGCAC
1 AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAAATTTGCATTTTGACCTTTTAACAACAT
* * * *
6001577 AAAAAAATGCTAAACAGACATAAACAATAATTTTTTCACACCTATCAATTGTGAAAACCAAGTTC
66 AAAAAAGTGCTAAACAAACATAAACAATAATTTTTTCACATCTATCAATCGTGAAAACCAAGTTC
* * * *
6001642 AATCATTCGAAAAAATTTAATATTATGTATTTAAGTTATTTAAATTGTTAAAATATAAATATAAC
131 AATCATTCGAAAAAATTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAATATAAATATAAC
* *
6001707 TGTAAAATTATATTTTTACCATTTAACAGCATAATAAAATCCTAAAAAGACATACACGATAACAT
196 TGTAAAATTATATTTTTGCC-TTTAAC-GCATAATAAAGTCCTAAAAAGACATA-A-GATAACAT
* * * *
6001772 TTTCATACATATCAACCATGAAAATCAAGTTCAATTATTCAAACAAGTTTAATATCATGTATTG
257 TTTCACACATATCAACCATGAAAATCAAGTTCAATCATTTAAACAAGTTTAATATAATGTATTG
* * * * *
6001836 AAGCTATTTAAATTGTTAAAATAAAATAATAAATAAAAATTTACATTTTTACCTTTTAACAACAT
1 AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAAATTTGCATTTTGACCTTTTAACAACAT
* ** * * *
6001901 AAAAATGTGCTAAACAAATGTAAACAGTAATTTTTTCACATCTATCAATCGTGAAAATCTAGTTC
66 AAAAAAGTGCTAAACAAACATAAACAATAATTTTTTCACATCTATCAATCGTGAAAACCAAGTTC
*
6001966 AATCATTCGAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAATATAAATATAAC
131 AATCATTCGAAAAAATTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAATATAAATATAAC
* * * * * *
6002031 TGTAAAATTATATTTTTGCCCTTTAACGACCTAACAAAGTCTTAAAAAAACATATAAAGTAATAT
196 TGTAAAATTATATTTTTG-CCTTTAACG-CATAATAAAGTCCTAAAAAGACATA-AGA-TAACAT
* * * * * *
6002096 TTTCACACATATCAGCTATGAAAATCAAGTTTAATCATTTGAACAAATTTAATATTATGTATTG
257 TTTCACACATATCAACCATGAAAATCAAGTTCAATCATTTAAACAAGTTTAATATAATGTATTG
* * * * * *
6002160 AAACTATCCAAACTGTTAAAATAAAATAATAAATGCAAATTTGCATTTTGGCCTTTTAATATCAT
1 AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAAATTTGCATTTTGACCTTTTAACAACAT
* * *
6002225 AAAAAAGTGTTAAACAAACATAAACAATAACTTTTTT-ACATATATCAATCATGAAAACCAAGTT
66 AAAAAAGTGCTAAACAAACATAAACAATAA-TTTTTTCACATCTATCAATCGTGAAAACCAAGTT
* * * *
6002289 TAATCATTC-AAAAAAGTTTAATATCATATATTTAAGCTATATAAACTATTAAAA
130 CAATCATTCGAAAAAA-TTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAA
6002343 CGTAAGTCCT
Statistics
Matches: 696, Mismatches: 121, Indels: 25
0.83 0.14 0.03
Matches are distributed among these distances:
320 5 0.01
321 136 0.20
322 59 0.08
323 40 0.06
324 448 0.64
325 8 0.01
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.35
Consensus pattern (320 bp):
AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAAATTTGCATTTTGACCTTTTAACAACAT
AAAAAAGTGCTAAACAAACATAAACAATAATTTTTTCACATCTATCAATCGTGAAAACCAAGTTC
AATCATTCGAAAAAATTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAATATAAATATAAC
TGTAAAATTATATTTTTGCCTTTAACGCATAATAAAGTCCTAAAAAGACATAAGATAACATTTTC
ACACATATCAACCATGAAAATCAAGTTCAATCATTTAAACAAGTTTAATATAATGTATTG
Found at i:6003014 original size:52 final size:50
Alignment explanation
Indices: 6002923--6003025 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 50
6002913 TAGACAAGAA
* * *
6002923 GACTTGTAGAAGAAGAATCTAAAAAAAAAAGATTCTTAATAGGTAAGTTT
1 GACTTATAGAAGAAGAATCTAAAAAAAAAAGAGTCTTAATAGGTAAATTT
*
6002973 GACTTATAGAAGAATAATTCTAAGAGAAAAAAA-AGTCTTAATAGGTAAATTT
1 GACTTATAGAAGAAGAA-TCTAA-A-AAAAAAAGAGTCTTAATAGGTAAATTT
6003025 G
1 G
6003026 TATACTTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
50 15 0.33
51 5 0.11
52 19 0.41
53 7 0.15
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (50 bp):
GACTTATAGAAGAAGAATCTAAAAAAAAAAGAGTCTTAATAGGTAAATTT
Found at i:6004590 original size:23 final size:22
Alignment explanation
Indices: 6004558--6004605 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
6004548 GTGTAAGTAA
*
6004558 TTTTTTATAAATATATATTAAT
1 TTTTTTATAAAAATATATTAAT
6004580 TTTTTTAATAAAAATATATTAAT
1 TTTTTT-ATAAAAATATATTAAT
6004603 TTT
1 TTT
6004606 AATTGTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTTTATAAAAATATATTAAT
Found at i:6034990 original size:24 final size:24
Alignment explanation
Indices: 6034963--6035013 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6034953 AAACATGGGC
* *
6034963 ATGGTTACAATCAAGACCATGATT
1 ATGGTCACAACCAAGACCATGATT
*
6034987 ATGGTCACAACCATGACCATGATT
1 ATGGTCACAACCAAGACCATGATT
6035011 ATG
1 ATG
6035014 ATCATGAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (24 bp):
ATGGTCACAACCAAGACCATGATT
Found at i:6036896 original size:2 final size:2
Alignment explanation
Indices: 6036889--6036914 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6036879 ATTTCCCAAG
6036889 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6036915 TTCGCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6038031 original size:18 final size:18
Alignment explanation
Indices: 6037999--6038058 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
6037989 ATGTATATAA
*
6037999 TTAAAATTT-TAAATTAT
1 TTAATATTTATAAATTAT
6038016 TTAATATTTATAAATTTTAT
1 TTAATATTTATAAA--TTAT
* * *
6038036 TTATTATATAAAAATTA-
1 TTAATATTTATAAATTAT
6038053 TTAATA
1 TTAATA
6038059 ATAATAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 13 0.37
18 7 0.20
20 15 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATATTTATAAATTAT
Found at i:6038050 original size:20 final size:20
Alignment explanation
Indices: 6038012--6038051 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6038002 AAATTTTAAA
* *
6038012 TTATTTAATATTTATAAATT
1 TTATTTAATATATAAAAATT
*
6038032 TTATTTATTATATAAAAATT
1 TTATTTAATATATAAAAATT
6038052 ATTAATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTTAATATATAAAAATT
Found at i:6041160 original size:23 final size:23
Alignment explanation
Indices: 6041134--6041186 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
6041124 GTCCTATTTT
6041134 TCAAGCCC-TATCCTAGGTCTTTC
1 TCAA-CCCTTATCCTAGGTCTTTC
6041157 TCAACCCTTATCCTAGGTCTTTC
1 TCAACCCTTATCCTAGGTCTTTC
6041180 TCAACCC
1 TCAACCC
6041187 ATAAATGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.19, C:0.38, G:0.09, T:0.34
Consensus pattern (23 bp):
TCAACCCTTATCCTAGGTCTTTC
Found at i:6044023 original size:12 final size:12
Alignment explanation
Indices: 6044006--6044031 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6043996 AAATTTGTTC
6044006 AATAATAAAAAA
1 AATAATAAAAAA
6044018 AATAATAAAAAA
1 AATAATAAAAAA
6044030 AA
1 AA
6044032 ATGTGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:6045617 original size:26 final size:24
Alignment explanation
Indices: 6045567--6045633 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 24
6045557 TATTAATATA
6045567 ATTATTAAAATATTAAAAATTTTT
1 ATTATTAAAATATTAAAAATTTTT
*
6045591 ATTATTAAAGTATATT-GAAATTATTT
1 ATTATTAAA--ATATTAAAAATT-TTT
6045617 ATTATTAAAATTATTAA
1 ATTATTAAAA-TATTAA
6045634 TATTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 10 0.28
25 9 0.25
26 17 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
ATTATTAAAATATTAAAAATTTTT
Found at i:6045639 original size:15 final size:15
Alignment explanation
Indices: 6045602--6045681 Score: 54
Period size: 15 Copynumber: 5.0 Consensus size: 15
6045592 TTATTAAAGT
*
6045602 ATATTGAAATTATTTA
1 ATATTAAAATTA-TTA
*
6045618 TTATTAAAATTATTA
1 ATATTAAAATTATTA
**
6045633 ATATTAAAAAAATTA
1 ATATTAAAATTATTA
*
6045648 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TA-TTA
6045668 ATATTAAAA-TATTA
1 ATATTAAAATTATTA
6045682 TGTTAATATA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
14 3 0.06
15 17 0.34
16 16 0.32
17 2 0.04
18 2 0.04
19 7 0.14
20 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:6045687 original size:19 final size:18
Alignment explanation
Indices: 6045612--6045697 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 18
6045602 ATATTGAAAT
*
6045612 TATTTATTATTAAAAT--
1 TATTTAATATTAAAATAA
6045628 TA-TTAATATTAAAA-AA
1 TATTTAATATTAAAATAA
*
6045644 -A-TTATATTTTAATAATAA
1 TATTTA-ATATTAA-AATAA
*
6045662 TATTTAATATTAAAATAT
1 TATTTAATATTAAAATAA
*
6045680 TATGTTAATATAAAAATA
1 TAT-TTAATATTAAAATA
6045698 CTTAAAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
15 15 0.26
16 8 0.14
17 2 0.04
18 9 0.16
19 20 0.35
20 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
TATTTAATATTAAAATAA
Found at i:6045754 original size:23 final size:22
Alignment explanation
Indices: 6045726--6045832 Score: 98
Period size: 23 Copynumber: 4.8 Consensus size: 22
6045716 ATTATTCTTT
6045726 ATATTATTTATTAATATGTTATA
1 ATATTATTTATTAATAT-TTATA
*
6045749 ACATTATTTATT-A-A--TATA
1 ATATTATTTATTAATATTTATA
6045767 ATATT-TTTATTAATATATTATA
1 ATATTATTTATTAATAT-TTATA
*
6045789 ATATTATTTATTGATAATTTTATTAA
1 ATATTATTTATTAAT-A-TTTA-T-A
6045815 TATATTATTTATTAATAT
1 -ATATTATTTATTAATAT
6045833 AATGTTATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
17 6 0.09
18 9 0.13
19 1 0.01
21 1 0.01
22 10 0.14
23 19 0.28
24 4 0.06
25 3 0.04
26 2 0.03
27 14 0.20
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTATTTATTAATATTTATA
Found at i:6045756 original size:35 final size:36
Alignment explanation
Indices: 6045726--6045822 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 36
6045716 ATTATTCTTT
*
6045726 ATATTATTTATTAATATGTTATAACATTATTTATTA
1 ATATTATTTATTAATATATTATAACATTATTTATTA
* *
6045762 ATATAATATTTTTATTAATATATTATAATATTATTTATTG
1 ATAT--TA--TTTATTAATATATTATAACATTATTTATTA
*
6045802 ATAAT-TTTATTAATATATTAT
1 ATATTATTTATTAATATATTAT
6045823 TTATTAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
35 16 0.30
36 4 0.08
38 3 0.06
40 30 0.57
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (36 bp):
ATATTATTTATTAATATATTATAACATTATTTATTA
Found at i:6045782 original size:12 final size:12
Alignment explanation
Indices: 6045765--6045832 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
6045755 TTTATTAATA
6045765 TAATATTTTTAT
1 TAATATTTTTAT
*
6045777 TAATA-TATTA-
1 TAATATTTTTAT
6045787 TAATATTATTTAT
1 TAATATT-TTTAT
* *
6045800 TGATAATTTTAT
1 TAATATTTTTAT
6045812 TAATATATTATTTAT
1 T-A-ATATT-TTTAT
6045827 TAATAT
1 TAATAT
6045833 AATGTTATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
10 5 0.11
11 5 0.11
12 14 0.32
13 9 0.20
14 5 0.11
15 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (12 bp):
TAATATTTTTAT
Found at i:6045845 original size:27 final size:26
Alignment explanation
Indices: 6045767--6045846 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
6045757 TATTAATATA
*
6045767 ATATT-TTTATTAATAT-A-TTA-TA
1 ATATTATTTATTAATATAATTTATTT
* *
6045789 ATATTATTTATTGATA-ATTTTATTAAT
1 ATATTATTTATTAATATAATTTATT--T
6045816 ATATTATTTATTAATATAATGTTATTT
1 ATATTATTTATTAATATAAT-TTATTT
6045843 ATAT
1 ATAT
6045847 ATTAATACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
22 5 0.11
23 9 0.20
24 3 0.07
25 1 0.02
27 20 0.44
28 2 0.04
29 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (26 bp):
ATATTATTTATTAATATAATTTATTT
Found at i:6045848 original size:29 final size:27
Alignment explanation
Indices: 6045784--6045850 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
6045774 TATTAATATA
*
6045784 TTATAATATTATTTATTGATAATTTTAT
1 TTAT-ATATTATTTATTGATAATGTTAT
* *
6045812 TAATATATTATTTATTAATATAATGTTAT
1 TTATATATTATTTATT--GATAATGTTAT
6045841 TTATATATTA
1 TTATATATTA
6045851 ATACAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.36
28 3 0.09
29 18 0.55
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (27 bp):
TTATATATTATTTATTGATAATGTTAT
Found at i:6045867 original size:22 final size:22
Alignment explanation
Indices: 6045819--6045867 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6045809 TATTAATATA
* * *
6045819 TTATTTATTAATATAATGTTAT
1 TTATATATTAATACAATATTAT
6045841 TTATATATTAATACAATATTAT
1 TTATATATTAATACAATATTAT
6045863 TTATA
1 TTATA
6045868 AGTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATATATTAATACAATATTAT
Found at i:6050905 original size:12 final size:12
Alignment explanation
Indices: 6050890--6050984 Score: 102
Period size: 12 Copynumber: 7.9 Consensus size: 12
6050880 CTCTTCCTTA
6050890 TTTTCTTCTTTC
1 TTTTCTTCTTTC
*
6050902 TTTTCCTCTTTC
1 TTTTCTTCTTTC
* *
6050914 TTCTCTTCCTTC
1 TTTTCTTCTTTC
* *
6050926 TTCTCCTCTTT-
1 TTTTCTTCTTTC
*
6050937 TTTCTCTTCCTTC
1 TTT-TCTTCTTTC
*
6050950 TTTTCCTCTTTC
1 TTTTCTTCTTTC
6050962 TTTTCTTCTTTC
1 TTTTCTTCTTTC
*
6050974 TTCTCTTCTTT
1 TTTTCTTCTTT
6050985 GGCAGGTCCA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
11 2 0.03
12 63 0.93
13 3 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTCTTCTTTC
Found at i:6050911 original size:15 final size:15
Alignment explanation
Indices: 6050893--6050964 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
6050883 TTCCTTATTT
6050893 TCTTCTTTCTTTTCC
1 TCTTCTTTCTTTTCC
*
6050908 TCTT-TCTTCTCTTCC
1 TCTTCT-TTCTTTTCC
* *
6050923 TTCTTCTCCTCTTTTTTC
1 -TCTTCT-TTC-TTTTCC
*
6050941 TCTTCCTTCTTTTCC
1 TCTTCTTTCTTTTCC
6050956 TCTTTCTTT
1 TC-TTCTTT
6050965 TCTTCTTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
14 1 0.02
15 19 0.43
16 11 0.25
17 9 0.20
18 4 0.09
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCTTCTTTCTTTTCC
Found at i:6050926 original size:24 final size:24
Alignment explanation
Indices: 6050893--6050984 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
6050883 TTCCTTATTT
* *
6050893 TCTTCTTTCTTTTCCTCTTTCTTC
1 TCTTCCTTCTTCTCCTCTTTCTTC
*
6050917 TCTTCCTTCTTCTCCTCTTTTTTC
1 TCTTCCTTCTTCTCCTCTTTCTTC
* *
6050941 TCTTCCTTCTTTTCCTCTTTCTTT
1 TCTTCCTTCTTCTCCTCTTTCTTC
* *
6050965 TCTTCTTTCTTCTCTTCTTT
1 TCTTCCTTCTTCTCCTCTTT
6050985 GGCAGGTCCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (24 bp):
TCTTCCTTCTTCTCCTCTTTCTTC
Found at i:6050951 original size:48 final size:48
Alignment explanation
Indices: 6050893--6050984 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
6050883 TTCCTTATTT
*
6050893 TCTTCTTTCTTTTCCTCTTTCTTCTCTTCCTTCTTCTCCTCTTTTTTC
1 TCTTCCTTCTTTTCCTCTTTCTTCTCTTCCTTCTTCTCCTCTTTTTTC
* * *
6050941 TCTTCCTTCTTTTCCTCTTTCTTTTCTTCTTTCTTCTCTTCTTT
1 TCTTCCTTCTTTTCCTCTTTCTTCTCTTCCTTCTTCTCCTCTTT
6050985 GGCAGGTCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (48 bp):
TCTTCCTTCTTTTCCTCTTTCTTCTCTTCCTTCTTCTCCTCTTTTTTC
Found at i:6052137 original size:21 final size:19
Alignment explanation
Indices: 6052095--6052143 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
6052085 TCTAAAATTA
6052095 TTTTTATATTTAATATTGT
1 TTTTTATATTTAATATTGT
*
6052114 TTTTTATAATTTTTATATT-T
1 TTTTTAT-A-TTTAATATTGT
*
6052134 TTTTGATATT
1 TTTTTATATT
6052144 AAAAATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.08
19 8 0.31
20 8 0.31
21 8 0.31
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTTATATTTAATATTGT
Found at i:6057411 original size:18 final size:18
Alignment explanation
Indices: 6057367--6057411 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6057357 AAATTAAGTT
* * *
6057367 TAATAAATATATATTTTT
1 TAATATATATATAATTTA
*
6057385 TAATTTATATATAATTTA
1 TAATATATATATAATTTA
6057403 TAATATATA
1 TAATATATA
6057412 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATATATATAATTTA
Found at i:6057662 original size:12 final size:12
Alignment explanation
Indices: 6057647--6057681 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
6057637 TTTATGTTGA
6057647 TTTTTCG-TTTT
1 TTTTTCGTTTTT
6057658 TTTTTCGTTTTT
1 TTTTTCGTTTTT
6057670 TTTTTC-TTTTT
1 TTTTTCGTTTTT
6057681 T
1 T
6057682 AAGATCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.86
Consensus pattern (12 bp):
TTTTTCGTTTTT
Found at i:6066462 original size:2 final size:2
Alignment explanation
Indices: 6066457--6066483 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6066447 GTGTGTGTGT
6066457 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
6066484 TGGGAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6066514 original size:19 final size:19
Alignment explanation
Indices: 6066490--6066527 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6066480 AGAGTGGGAA
6066490 ACTCAGAAAACTGCACCAT
1 ACTCAGAAAACTGCACCAT
6066509 ACTCAGAAAACTGCACCAT
1 ACTCAGAAAACTGCACCAT
6066528 GCATGTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.16
Consensus pattern (19 bp):
ACTCAGAAAACTGCACCAT
Found at i:6072568 original size:15 final size:15
Alignment explanation
Indices: 6072548--6072576 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6072538 TAATATTTAT
6072548 ATTTTATATTATAAA
1 ATTTTATATTATAAA
6072563 ATTTTATATTATAA
1 ATTTTATATTATAA
6072577 TTGAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTATATTATAAA
Found at i:6073845 original size:17 final size:17
Alignment explanation
Indices: 6073825--6073857 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6073815 ATTCCATCAT
6073825 TAATTTCTTTCTTTTTC
1 TAATTTCTTTCTTTTTC
*
6073842 TAATTTTTTTCTTTTT
1 TAATTTCTTTCTTTTT
6073858 ATGTTATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TAATTTCTTTCTTTTTC
Found at i:6074967 original size:15 final size:13
Alignment explanation
Indices: 6074929--6074962 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
6074919 ACTTAAAATG
6074929 AAAACAAGAATAGC
1 AAAA-AAGAATAGC
6074943 AAAAAAGAATAGC
1 AAAAAAGAATAGC
6074956 AAAAAAG
1 AAAAAAG
6074963 GGAATGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.71, C:0.09, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAAAAGAATAGC
Found at i:6078566 original size:233 final size:233
Alignment explanation
Indices: 6077711--6078778 Score: 1224
Period size: 233 Copynumber: 4.5 Consensus size: 233
6077701 ATCTTGCAAT
* * * * * *
6077711 CAAA-TTTTACCACCTAATTTATTTGATGGAAAATATTTTTGTGATGTTTTTTTATCTTAGGTGA
1 CAAACTTTTACCATCAAATTTATTTGGT-GAAAAT-TTTTTATGACGTTTTTTTATTTTAGGTGA
* ** *
6077775 CGTTATAATTTTGTCATCAATTTAAAATTTTATTTGTGATAAATTTTTTCTGATAGATTTTAAGT
64 CGTTATAATTTTGTCATTAATTTAAAATTTTATTTGTGACGAATTTTTTCTAATAGATTTTAAGT
* * *
6077840 GACATTATTAATTTTTATCACAAATTGAACACTTTAATTAACTATTAATAACATTGCAATTTTGT
129 GACATTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTTGT
* * *
6077905 CACATT-AATGTATGGTGTTATATGATAATAATATAAATGTCA
194 --CATTAAAT-TATGATGTTATATGATGATAACATAAATGTCA
* *
6077947 CAAACTTTTACCATCAAATTTATTTGGTGAAAAAATCTTTTTTGTGATGTTTTTTTATTTTAGGT
1 CAAACTTTTACCATCAAATTTATTTGGTG--AAAA--TTTTTTATGACGTTTTTTTATTTTAGGT
*
6078012 GACGTT-TAAATTTTGTCACTAATTTAAAATTTTATTTGTGACGAA-TTTTTCTAATAGATTTTA
62 GACGTTAT-AATTTTGTCATTAATTTAAAATTTTATTTGTGACGAATTTTTTCTAATAGATTTTA
* ** * * *
6078075 GGTGATGTTATCAATTTTTGTCATAAATAT-AACACTTTAGTTAACTATTAATGACATTGCTATT
126 AGTGACATTATTAATTTTTGTCACAAAT-TGAACACTTTAGTTAACTATTAATGACATTGCAATT
* ** *
6078139 TCGTCACCTTTATTTTAT-ATTATTATATGATGATAACATAAATGTCA
190 TTGTCA---TTAAATTATGA-TGTTATATGATGATAACATAAATGTCA
* * *
6078186 CAAACTTTTACTATCAATTTTATTTGGTGAAAATTTTTT-TGTAACGTTTTTTTATTTTAAGTGA
1 CAAACTTTTACCATCAAATTTATTTGGTGAAAATTTTTTATG--ACGTTTTTTTATTTTAGGTGA
* * * * * * *
6078250 CGTTATAAATATGTCACTAATTAAAAATTTTATCTGTGACGAATATTTTCTAATAGATTTTAGGT
64 CGTTATAATTTTGTCATTAATTTAAAATTTTATTTGTGACGAATTTTTTCTAATAGATTTTAAGT
* *
6078315 GACATTATTAATTTTTGTCACAAATTGAATACTTTAGTTAACTATTAATGACATTGCAATTTTAT
129 GACATTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTTGT
6078380 CATGTAAATTATGATG-TATATGATGATAACATAAATGTCA
194 CAT-TAAATTATGATGTTATATGATGATAACATAAATGTCA
* * * * *
6078420 TAAACTTTTA-CAGTC-AATTTATTTGATAGAAAATTTTTTATGACATTTTTTTATCTTATGTGA
1 CAAACTTTTACCA-TCAAATTTATTTGGT-GAAAATTTTTTATGACGTTTTTTTATTTTAGGTGA
* * * *
6078483 TGTTATAATTTTGTCATTAATTTAAAATTTTATTTGTGACAAATTTTTTCTGATAGGTTTTAAGT
64 CGTTATAATTTTGTCATTAATTTAAAATTTTATTTGTGACGAATTTTTTCTAATAGATTTTAAGT
* * **
6078548 AACATTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGATATTATAATTTTGT
129 GACATTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTTG-
* * * *
6078613 TTCATTAATATT-TAATGTTATATGACGATAAAATAAATGTTA
193 -TCATTAA-ATTATGATGTTATATGATGATAACATAAATGTCA
* * *
6078655 CAAACTTTTACCATCAAATTTATTTGGTGACAAATTTTTTATAAC-ATTTTTTATTTTATGTGAC
1 CAAACTTTTACCATCAAATTTATTTGGTGA-AAATTTTTTATGACGTTTTTTTATTTTAGGTGAC
* * * * * * *
6078719 ATTATAATTTTATCATCAATTTAAAATTTTATCTGTAATGAATTTTTTCTAATAAATTTT
65 GTTATAATTTTGTCATTAATTTAAAATTTTATTTGTGACGAATTTTTTCTAATAGATTTT
6078779 TGTCACAAAT
Statistics
Matches: 714, Mismatches: 89, Indels: 59
0.83 0.10 0.07
Matches are distributed among these distances:
233 141 0.20
234 56 0.08
235 122 0.17
236 91 0.13
237 102 0.14
238 78 0.11
239 122 0.17
240 2 0.00
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (233 bp):
CAAACTTTTACCATCAAATTTATTTGGTGAAAATTTTTTATGACGTTTTTTTATTTTAGGTGACG
TTATAATTTTGTCATTAATTTAAAATTTTATTTGTGACGAATTTTTTCTAATAGATTTTAAGTGA
CATTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTTGTCA
TTAAATTATGATGTTATATGATGATAACATAAATGTCA
Found at i:6083365 original size:201 final size:199
Alignment explanation
Indices: 6082973--6083743 Score: 745
Period size: 201 Copynumber: 3.8 Consensus size: 199
6082963 TTAATAACAT
* *
6082973 TAATTATGTCATCAATACTGTGATGATTTATCTTTCGTCACTAATATATT-AGATTTAATCATTT
1 TAATTATGTCATCAATACTGTGATGATTTACCTTTCGTCACTAATATATTAAAATTT-ATCATTT
* * * * * *
6083037 TATTTTGTGATGATTTTAGCCTTTAATGATATTTTTTCATAAATAACTAACGAAAACTAACGTCA
65 TATTTTGTGATGATTATAACCTTCAATGACATTTTTTTATAAATAGCTAACGAAAACTAACGTCA
* * * *
6083102 TAAAAAAAAGTATAATGTGATGTTTGATTTTATTGTCATGTTTGACGTTAT-TTCACAAGCATTT
130 TAAAAAAAA-CATAAGGTGATGTTTGATTTTATTGTCAAGTTTGACGTTATCTT-ACAAGCATTC
6083166 TTGACGA
193 TTGACGA
* * * *
6083173 TAATTATGTTATCAATACTATGATGATTTACCTTTCGTCATTAATCTATTAAAATTTATCA-TTT
1 TAATTATGTCATCAATACTGTGATGATTTACCTTTCGTCACTAATATATTAAAATTTATCATTTT
* *
6083237 ATTTTGTGATGATTATAACCTTCAATGACATTCTTCTTTATAAATAGCTGACGAAAATTAACGTC
66 ATTTTGTGATGATTATAACCTTCAATGACATT-TT-TTTATAAATAGCTAACGAAAACTAACGTC
* ** * * *
6083302 ATATAAAAAAACATAAGGTGACGTTTTTTTTTATTGTCACGTTTGACATTATCTTATAAGCATTC
129 ATA-AAAAAAACATAAGGTGATGTTTGATTTTATTGTCAAGTTTGACGTTATCTTACAAGCATTC
* *
6083367 GTGATGA
193 TTGACGA
* * * * * * *
6083374 TAATTGTATCACCAATATTGTGACGATTTACCTATT-GTCAATAATATA-TAAGATTTTATCA-T
1 TAATTATGTCATCAATACTGTGATGATTTACCT-TTCGTCACTAATATATTAA-AATTTATCATT
*** * * * *
6083436 TTATTTTGTGGCAATTATAATCTTTAATGACATTTTTGTTTATAAATAGCTGATGAAAACTAACG
64 TTATTTTGTGATGATTATAACCTTCAATGACA-TTTT-TTTATAAATAGCTAACGAAAACTAACG
* * * * *
6083501 TCATAAAAATTAATGCATAAGGTGATGCTTGATTTTATTGTTAAAG-TAGACGTTATCTTACAAT
127 TCATAAAAA--AA-ACATAAGGTGATGTTTGATTTTATTG-TCAAGTTTGACGTTATCTTACAAG
* *
6083565 CATTGTTGACAA
188 CATTCTTGACGA
* * * * * *
6083577 TAATTTTGTCA-CAAATACTGTGATAATTTACCTTTCATCACTAATATATTAGATTTTCTCATTT
1 TAATTATGTCATC-AATACTGTGATGATTTACCTTTCGTCACTAATATATTAAAATTTATCA--T
* * * * *
6083641 TTTTTTTTGTGATGAATATAGCCTTCAATGACTTTTTTTTAATAAATAGCTAACGAAAACTAACA
63 TTTATTTTGTGATGATTATAACCTTCAATGACATTTTTTT-ATAAATAGCTAACGAAAACTAACG
* * *
6083706 TCACAAGAAAAAA-A-AA-GTGATGTTTTATTATATTGTCA
127 TCATAA-AAAAAACATAAGGTGATGTTTGATTTTATTGTCA
6083744 CTGTAGATTC
Statistics
Matches: 466, Mismatches: 85, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
199 33 0.07
200 74 0.16
201 186 0.40
202 19 0.04
203 87 0.19
204 10 0.02
205 30 0.06
206 27 0.06
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (199 bp):
TAATTATGTCATCAATACTGTGATGATTTACCTTTCGTCACTAATATATTAAAATTTATCATTTT
ATTTTGTGATGATTATAACCTTCAATGACATTTTTTTATAAATAGCTAACGAAAACTAACGTCAT
AAAAAAAACATAAGGTGATGTTTGATTTTATTGTCAAGTTTGACGTTATCTTACAAGCATTCTTG
ACGA
Found at i:6085483 original size:7 final size:7
Alignment explanation
Indices: 6085473--6085507 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
6085463 GTTTGAAGTT
6085473 GGTTTAG
1 GGTTTAG
6085480 GGTTTAG
1 GGTTTAG
*
6085487 GGTTT-T
1 GGTTTAG
6085493 GGTTTAG
1 GGTTTAG
6085500 GGTTTAG
1 GGTTTAG
6085507 G
1 G
6085508 ATTAACTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:6085498 original size:13 final size:13
Alignment explanation
Indices: 6085480--6085504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6085470 GTTGGTTTAG
6085480 GGTTTAGGGTTTT
1 GGTTTAGGGTTTT
6085493 GGTTTAGGGTTT
1 GGTTTAGGGTTT
6085505 AGGATTAACT
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:0.08, C:0.00, G:0.40, T:0.52
Consensus pattern (13 bp):
GGTTTAGGGTTTT
Found at i:6085563 original size:22 final size:22
Alignment explanation
Indices: 6085533--6085574 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6085523 TTAGGTTGAC
*
6085533 TTTACGGTTTAAAGTTTTGGGT
1 TTTAAGGTTTAAAGTTTTGGGT
*
6085555 TTTAAGGTTTAAGGTTTTGG
1 TTTAAGGTTTAAAGTTTTGG
6085575 TTTAATGTTT
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:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (22 bp):
TTTAAGGTTTAAAGTTTTGGGT
Found at i:6085603 original size:19 final size:18
Alignment explanation
Indices: 6085594--6085659 Score: 78
Period size: 19 Copynumber: 3.6 Consensus size: 18
6085584 TAGGGTTAGC
*
6085594 TTTAGGGTTTGATTAGGG
1 TTTAGGGTTTGTTTAGGG
* **
6085612 TTTAAGGATAAGTTTAGGG
1 TTT-AGGGTTTGTTTAGGG
6085631 TTTAGGGTTTGTTTTAGGG
1 TTTAGGGTTTG-TTTAGGG
6085650 TTTAGGGTTT
1 TTTAGGGTTT
6085660 TGGTTTTAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 8 0.21
19 31 0.79
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (18 bp):
TTTAGGGTTTGTTTAGGG
Found at i:6087870 original size:143 final size:143
Alignment explanation
Indices: 6087532--6087956 Score: 418
Period size: 143 Copynumber: 3.0 Consensus size: 143
6087522 ATTTTATCAT
* * * * * *
6087532 TTTTTAAGTGTAATCAAGGTTTTCAATGCATCAAAGTTCATGGAATAATATTAAAATATGATTTG
1 TTTTTAAGTGTAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATCAAAATATGATCTG
* * ** * * *
6087597 AAGTTTTTTACAAAAAATCAACCTCAAGAAAGTTAAATTACAAAAATA-CTTATAAAGAGCATTT
66 AAGTTTTTCACGAAAAATCAACCTTGAGAAAATTAAATTACAAAAATACCCTATAAAGAGAATTT
* *
6087661 TTGTAATTTTACC
131 TGGTAATTTAACC
* * * * * *
6087674 ATTTCTAAGGTGTAA-TCAAGATTTTTAATGTATCAAAATTTATGGAATAATATCAGAACATGAT
1 -TTTTTAA-GTGTAATTAAAG-TTTTTAATGCATCAAAATTCATGGAATAATATCAAAATATGAT
* * *
6087738 CTAAAGCTTTTCACGAAAAA-CAAACCTTGAGAAAATCAAATTACAAAAATACCCT-T-AAG-GT
63 CTGAAGTTTTTCACGAAAAATC-AACCTTGAGAAAATTAAATTACAAAAATACCCTATAAAGAG-
6087799 AATTTTGGTAATGTTAACC
126 AATTTTGGTAAT-TTAACC
*
6087818 TTTTTGAAGTGCAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATCAAAATATGA-CA
1 TTTTT-AAGTGTAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATCAAAATATGATC-
* * * * * *
6087882 TGGAGTTTTTCATGAAAAATCAACCTTGA-AAAGATTAAATTACGAAAATA-CCTCTAAAGGGCA
64 TGAAGTTTTTCACGAAAAATCAACCTTGAGAAA-ATTAAATTACAAAAATACCCTATAAAGAGAA
*
6087945 TTTTAGTAATTT
128 TTTTGGTAATTT
6087957 TATCATTATA
Statistics
Matches: 229, Mismatches: 39, Indels: 28
0.77 0.13 0.09
Matches are distributed among these distances:
142 8 0.03
143 110 0.48
144 108 0.47
145 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (143 bp):
TTTTTAAGTGTAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATCAAAATATGATCTG
AAGTTTTTCACGAAAAATCAACCTTGAGAAAATTAAATTACAAAAATACCCTATAAAGAGAATTT
TGGTAATTTAACC
Found at i:6087975 original size:143 final size:144
Alignment explanation
Indices: 6087456--6087963 Score: 474
Period size: 144 Copynumber: 3.5 Consensus size: 144
6087446 AATCTATAGC
* * * * * * * * *
6087456 TTTTCATGAAAAATTCGACCTTAAAAAAG-TTAAATTACGAAAATATCTCTAAATGGTATATTGG
1 TTTTCACGAAAAA-TCAACCTTGAGAAAGATTAAATTACAAAAATACCTCTAAAGGGCATTTTGG
* * * * * * * *
6087520 TAATTTTATCATTTTTTAAGTGTAATCAAGGTTTTCAATGCATCAAAGTTCATGGAATAATATTA
65 TAATTTTACCATTTTTAAAGTGCAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATCA
*
6087585 AAATATGATTTGAAGT
130 AAATATGA-CTGAAGT
* * ** * * * *
6087601 TTTTTACAAAAAATCAACCTCAAGAAAG-TTAAATTACAAAAATACTTATAAAGAGCATTTTTGT
1 TTTTCACGAAAAATCAACCTTGAGAAAGATTAAATTACAAAAATACCTCTAAAGGGCATTTTGGT
* * * * * *
6087665 AATTTTACCATTTCTAAGGTGTAA-TCAAGATTTTTAATGTATCAAAATTTATGGAATAATATCA
66 AATTTTACCATTTTTAAAGTGCAATTAAAG-TTTTTAATGCATCAAAATTCATGGAATAATATCA
* * * *
6087729 GAACATGATCTAAAGC
130 AAATATGA-CTGAAGT
* * **
6087745 TTTTCACGAAAAA-CAAACCTTGAGAAA-ATCAAATTACAAAAATACC-CTTAAGGTAATTTTGG
1 TTTTCACGAAAAATC-AACCTTGAGAAAGATTAAATTACAAAAATACCTCTAAAGGGCATTTTGG
* *
6087807 TAATGTTAACC-TTTTTGAAGTGCAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATC
65 TAAT-TTTACCATTTTTAAAGTGCAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATC
*
6087871 AAAATATGACATGGAGT
129 AAAATATGAC-TGAAGT
* * *
6087888 TTTTCATGAAAAATCAACCTTGA-AAAGATTAAATTACGAAAATACCTCTAAAGGGCATTTTAGT
1 TTTTCACGAAAAATCAACCTTGAGAAAGATTAAATTACAAAAATACCTCTAAAGGGCATTTTGGT
*
6087952 AATTTTATCATT
66 AATTTTACCATT
6087964 ATAAAATGCA
Statistics
Matches: 287, Mismatches: 66, Indels: 21
0.77 0.18 0.06
Matches are distributed among these distances:
142 4 0.01
143 109 0.38
144 164 0.57
145 10 0.03
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (144 bp):
TTTTCACGAAAAATCAACCTTGAGAAAGATTAAATTACAAAAATACCTCTAAAGGGCATTTTGGT
AATTTTACCATTTTTAAAGTGCAATTAAAGTTTTTAATGCATCAAAATTCATGGAATAATATCAA
AATATGACTGAAGT
Found at i:6089811 original size:45 final size:46
Alignment explanation
Indices: 6089732--6089822 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
6089722 AAAATGACAC
6089732 TCCATTGGACTCACAAACGGCCTATTTCGTTTTATTTAAGTAAACT
1 TCCATTGGACTCACAAACGGCCTATTTCGTTTTATTTAAGTAAACT
* *
6089778 TCCATTGGACTTACAAA-TGCCTATTTCGTTTTATTTAAGTAAACT
1 TCCATTGGACTCACAAACGGCCTATTTCGTTTTATTTAAGTAAACT
6089823 GTTGCCATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 27 0.63
46 16 0.37
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.40
Consensus pattern (46 bp):
TCCATTGGACTCACAAACGGCCTATTTCGTTTTATTTAAGTAAACT
Done.