Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 202 of 204
Found at i:60024380 original size:25 final size:25
Alignment explanation
Indices: 60024352--60024404 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
60024342 TCATCAAAGT
*
60024352 TTCCTGATTAAAGGCTCTTATGAGC
1 TTCCTGATTAAAGGCTCTTAGGAGC
* *
60024377 TTCCTGATTAATGGCTCTTCGGAGC
1 TTCCTGATTAAAGGCTCTTAGGAGC
60024402 TTC
1 TTC
60024405 TCGATATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (25 bp):
TTCCTGATTAAAGGCTCTTAGGAGC
Found at i:60024436 original size:24 final size:24
Alignment explanation
Indices: 60024409--60024465 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
60024399 AGCTTCTCGA
*
60024409 TATTGGCTCGCT-TGAACTTTCCGT
1 TATTGGCTCG-TATGAACTTCCCGT
* *
60024433 TATTGTCTCGTATGAGCTTCCCGT
1 TATTGGCTCGTATGAACTTCCCGT
*
60024457 TAATGGCTC
1 TATTGGCTC
60024466 TCCGGAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (24 bp):
TATTGGCTCGTATGAACTTCCCGT
Found at i:60028574 original size:25 final size:25
Alignment explanation
Indices: 60028544--60028612 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
60028534 GTTTTAATGT
60028544 TCAATTTGGTATCTGAGTTTTTTTC
1 TCAATTTGGTATCTGAGTTTTTTTC
* * *
60028569 TCAATTTGATATCTAAG-CTTTTTC
1 TCAATTTGGTATCTGAGTTTTTTTC
* *
60028593 TCAATTTGGCATTTGAGTTT
1 TCAATTTGGTATCTGAGTTT
60028613 AGCTTAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.20, C:0.13, G:0.14, T:0.52
Consensus pattern (25 bp):
TCAATTTGGTATCTGAGTTTTTTTC
Found at i:60028595 original size:24 final size:25
Alignment explanation
Indices: 60028544--60028600 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
60028534 GTTTTAATGT
* * *
60028544 TCAATTTGGTATCTGAGTTTTTTTC
1 TCAATTTGATATCTAAGTCTTTTTC
60028569 TCAATTTGATATCTAAG-CTTTTTC
1 TCAATTTGATATCTAAGTCTTTTTC
60028593 TCAATTTG
1 TCAATTTG
60028601 GCATTTGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (25 bp):
TCAATTTGATATCTAAGTCTTTTTC
Found at i:60029334 original size:27 final size:26
Alignment explanation
Indices: 60029261--60029337 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
60029251 ATATTATCCC
**
60029261 AAAAAATATAGATACTTAATTGAGAA
1 AAAAAATATAGATACCAAATTGAGAA
60029287 AAAAAATCA-A-A-ACTCAAAAATTGAGAAA
1 AAAAAAT-ATAGATAC-C--AAATTGAG-AA
60029315 AAAAAATATAGATACCAAATTGA
1 AAAAAATATAGATACCAAATTGA
60029338 ACATTAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
24 2 0.05
25 1 0.02
26 8 0.20
27 16 0.39
28 10 0.24
29 2 0.05
30 2 0.05
ACGTcount: A:0.62, C:0.08, G:0.09, T:0.21
Consensus pattern (26 bp):
AAAAAATATAGATACCAAATTGAGAA
Found at i:60043119 original size:15 final size:16
Alignment explanation
Indices: 60043101--60043141 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
60043091 TATGTGAATT
*
60043101 TAAAAATTTA-TTTAA
1 TAAAAATTAATTTTAA
60043116 TAAAATATTAATTTTAA
1 TAAAA-ATTAATTTTAA
60043133 -AAAAATTAA
1 TAAAAATTAA
60043142 AATCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAAATTAATTTTAA
Found at i:60047099 original size:45 final size:46
Alignment explanation
Indices: 60047030--60047124 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 46
60047020 AATGAACATC
*
60047030 AAATCAAATAACTTACACTAAAACGAACAT-AAAAATACAAAAGAA
1 AAATCAAATAACTCACACTAAAACGAACATAAAAAATACAAAAGAA
* * *
60047075 AAATCAAATAACTCACAGTGAAACGAATATAAAAAAATACAAAAGAA
1 AAATCAAATAACTCACACTAAAACGAACAT-AAAAAATACAAAAGAA
60047122 AAA
1 AAA
60047125 CGAATCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 26 0.59
47 18 0.41
ACGTcount: A:0.65, C:0.14, G:0.06, T:0.15
Consensus pattern (46 bp):
AAATCAAATAACTCACACTAAAACGAACATAAAAAATACAAAAGAA
Found at i:60047390 original size:7 final size:7
Alignment explanation
Indices: 60047378--60047403 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
60047368 AAAATATTTT
60047378 AAAATTA
1 AAAATTA
60047385 AAAATTA
1 AAAATTA
60047392 AAAATTA
1 AAAATTA
60047399 AAAAT
1 AAAAT
60047404 ATATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:60047608 original size:15 final size:17
Alignment explanation
Indices: 60047588--60047624 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
60047578 GACACCTATA
*
60047588 AAAATAA-TCT-ATTAT
1 AAAATAAGTCTAATCAT
60047603 AAAATAAGTCTAATCAT
1 AAAATAAGTCTAATCAT
60047620 AAAAT
1 AAAAT
60047625 TGGGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 3 0.16
17 9 0.47
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAATAAGTCTAATCAT
Found at i:60054038 original size:23 final size:23
Alignment explanation
Indices: 60054014--60054067 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
60054004 AATTTTGTAT
60054014 TTTTAA-AATTGATGAATTTTAA
1 TTTTAATAATTGATGAATTTTAA
**
60054036 TTTTAATAATTTTTGAATTTTAAAA
1 TTTTAATAATTGATGAATTTT--AA
60054061 TTTTAAT
1 TTTTAAT
60054068 CATGGGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 6 0.22
23 12 0.44
25 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (23 bp):
TTTTAATAATTGATGAATTTTAA
Found at i:60054049 original size:16 final size:16
Alignment explanation
Indices: 60054030--60054064 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60054020 AATTGATGAA
60054030 TTTT-AATTTTAATAAT
1 TTTTGAATTTTAA-AAT
60054046 TTTTGAATTTTAAAAT
1 TTTTGAATTTTAAAAT
60054062 TTT
1 TTT
60054065 AATCATGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTGAATTTTAAAAT
Found at i:60055596 original size:2 final size:2
Alignment explanation
Indices: 60055589--60055616 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60055579 AATAACCCGA
60055589 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
60055617 GATGTATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60061574 original size:21 final size:20
Alignment explanation
Indices: 60061536--60061574 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60061526 TTCTTCTTTT
* *
60061536 TTTTTCTTTTTTTTTTACAA
1 TTTTACTTTTTTTATTACAA
60061556 TTTTACTTTTCTTTATTAC
1 TTTTACTTTT-TTTATTAC
60061575 CCTTTAACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTACTTTTTTTATTACAA
Found at i:60063535 original size:83 final size:83
Alignment explanation
Indices: 60063437--60063602 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
60063427 TGAACAGATC
*
60063437 AGTGGGAGAAAAGCAACTGACTATTTGCTGCATTGAAAACAGTTATATATCTTATAAAAGGTCAA
1 AGTGGGAGAAAAGCAACTGACTATTTGCTGCATTGAAAACAATTATATATCTTATAAAAGGTCAA
60063502 AGATATACGGCTTGAATT
66 AGATATACGGCTTGAATT
*
60063520 AGTGGGAGAAAAGCAACTGGCTATTTGCTGCATTGAAAACAATTATATATCTTATAAAAGGTCAA
1 AGTGGGAGAAAAGCAACTGACTATTTGCTGCATTGAAAACAATTATATATCTTATAAAAGGTCAA
*
60063585 AGATATATGGCTTGAATT
66 AGATATACGGCTTGAATT
60063603 TATCTTTAGT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (83 bp):
AGTGGGAGAAAAGCAACTGACTATTTGCTGCATTGAAAACAATTATATATCTTATAAAAGGTCAA
AGATATACGGCTTGAATT
Found at i:60065016 original size:27 final size:27
Alignment explanation
Indices: 60065000--60065091 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
60064990 ATTAATTTGT
60065000 AATATACTGTTTTAATATAATGTTATA
1 AATATACTGTTTTAATATAATGTTATA
* * *
60065027 AATATACTGTTATAAATATACTGTT-TT
1 AATATACTGTT-TTAATATAATGTTATA
* * *
60065054 AATATAATGTTTTAATATACTGTTACA
1 AATATACTGTTTTAATATAATGTTATA
60065081 AATATACTGTT
1 AATATACTGTT
60065092 ATAAATACTG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.22
27 32 0.58
28 11 0.20
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (27 bp):
AATATACTGTTTTAATATAATGTTATA
Found at i:60065029 original size:41 final size:41
Alignment explanation
Indices: 60065000--60065091 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 41
60064990 ATTAATTTGT
*
60065000 AATATACTGTTTTAATATAATGTTATAAATATACTGTTATA
1 AATATACTGTTTTAATATAATGTTATAAATATAATGTTATA
* * *
60065041 AATATACTGTTTTAATATAATGTT-TTAATATACTGTTACA
1 AATATACTGTTTTAATATAATGTTATAAATATAATGTTATA
60065081 AATATACTGTT
1 AATATACTGTT
60065092 ATAAATACTG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 25 0.51
41 24 0.49
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (41 bp):
AATATACTGTTTTAATATAATGTTATAAATATAATGTTATA
Found at i:60065032 original size:14 final size:14
Alignment explanation
Indices: 60065000--60065098 Score: 123
Period size: 14 Copynumber: 7.3 Consensus size: 14
60064990 ATTAATTTGT
*
60065000 AATATACTGTT-TT
1 AATATACTGTTATA
*
60065013 AATATAATGTTATA
1 AATATACTGTTATA
60065027 AATATACTGTTATA
1 AATATACTGTTATA
*
60065041 AATATACTGTT-TT
1 AATATACTGTTATA
* *
60065054 AATATAATGTT-TT
1 AATATACTGTTATA
*
60065067 AATATACTGTTACA
1 AATATACTGTTATA
60065081 AATATACTGTTATA
1 AATATACTGTTATA
60065095 AATA
1 AATA
60065099 CTGCACCTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
13 33 0.44
14 42 0.56
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.45
Consensus pattern (14 bp):
AATATACTGTTATA
Found at i:60066264 original size:209 final size:207
Alignment explanation
Indices: 60066014--60066403 Score: 577
Period size: 209 Copynumber: 1.9 Consensus size: 207
60066004 TCATTTCTTT
*
60066014 TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTTTGAATTGGGAAAA-CTAGTT
1 TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCTGAATT-GGAAAAGCTAGTT
* * *
60066078 AGTTCTTTTTTACTGTTTTCAGTTCAAAGATTTCTTCTGGTCTGAGTTCTGTACCAATCAGTGCT
65 AGTGCTTTTTTACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTGTACCAATCAGTGCT
* *
60066143 ATTGAATCACTGATTACTTTGATTTTGTA-GAGTTTCCCTTTTAATGCAGGTTTCTTTAATTGCT
130 ACTGAATCACTAATTACTTTGATTTTGTATG-GTTT-CCTTTTAATGCAGGTTTCTTTAATTGCT
60066207 TGATCCAAAATTTCA
193 TGATCCAAAATTTCA
* *
60066222 TTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAATTGGAAAAGCTAGTT
1 TTTC-TTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCTGAATTGGAAAAGCTAGTT
* ** * ** * *
60066287 TGTGCTTTTTTACTGTTTTTGGTTCAATGATTTCTTCTGATCTGAATTCTGTAGGAGTGAGTGCT
65 AGTGCTTTTTTACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTGTACCAATCAGTGCT
*
60066352 ACTGAATCACTAATTTCTTTGATTTTGTATGGTTTCCTTTTAATGCAGGTTT
130 ACTGAATCACTAATTACTTTGATTTTGTATGGTTTCCTTTTAATGCAGGTTT
60066404 ATGTTGACAG
Statistics
Matches: 162, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
208 27 0.17
209 134 0.83
210 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (207 bp):
TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCTGAATTGGAAAAGCTAGTTA
GTGCTTTTTTACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTGTACCAATCAGTGCTA
CTGAATCACTAATTACTTTGATTTTGTATGGTTTCCTTTTAATGCAGGTTTCTTTAATTGCTTGA
TCCAAAATTTCA
Found at i:60066785 original size:21 final size:21
Alignment explanation
Indices: 60066758--60066824 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
60066748 GGAATGCAAA
*
60066758 CAACAACTATCAGAGGTACGC
1 CAACAACAATCAGAGGTACGC
*
60066779 CAGCAACAATCAGAGGTACGC
1 CAACAACAATCAGAGGTACGC
60066800 CAACAACAATCAGAGGTACGC
1 CAACAACAATCAGAGGTACGC
60066821 CAAC
1 CAAC
60066825 TCTTACTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.40, C:0.30, G:0.19, T:0.10
Consensus pattern (21 bp):
CAACAACAATCAGAGGTACGC
Found at i:60071132 original size:26 final size:25
Alignment explanation
Indices: 60071097--60071145 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
60071087 TCATATGGTA
60071097 TTTGGTATTTAAACTCGGTGAATGG
1 TTTGGTATTTAAACTCGGTGAATGG
*
60071122 TTTGGATATTTCAACTCGGTGAAT
1 TTTGG-TATTTAAACTCGGTGAAT
60071146 TAGTATGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (25 bp):
TTTGGTATTTAAACTCGGTGAATGG
Found at i:60072630 original size:17 final size:17
Alignment explanation
Indices: 60072601--60072633 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60072591 TAAAAAATTA
60072601 TAAAAATATAAATTATT
1 TAAAAATATAAATTATT
60072618 TAAAGAATA-AAATTAT
1 TAAA-AATATAAATTAT
60072634 ATTTTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAAAATATAAATTATT
Found at i:60072678 original size:26 final size:23
Alignment explanation
Indices: 60072625--60072678 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
60072615 ATTTAAAGAA
60072625 TAAAATTATATTTTTTCTATCAT
1 TAAAATTATATTTTTTCTATCAT
* *
60072648 AAAAATTATAATTTAATTTCTATCTT
1 TAAAATTAT-ATTT--TTTCTATCAT
60072674 TAAAA
1 TAAAA
60072679 GAATTTCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 8 0.32
24 4 0.16
26 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAAATTATATTTTTTCTATCAT
Found at i:60073067 original size:19 final size:18
Alignment explanation
Indices: 60073032--60073067 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60073022 AATAAATATA
*
60073032 TTTATTTTTAAAATTTTT
1 TTTAATTTTAAAATTTTT
60073050 TTTAATTTTAAAATTTTT
1 TTTAATTTTAAAATTTTT
60073068 AAAATTTTTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAATTTTAAAATTTTT
Found at i:60073067 original size:27 final size:27
Alignment explanation
Indices: 60073035--60073135 Score: 118
Period size: 26 Copynumber: 3.7 Consensus size: 27
60073025 AAATATATTT
60073035 ATTTTTAAAATTTTTTTTAATTTTAAA
1 ATTTTTAAAATTTTTTTTAATTTTAAA
60073062 ATTTTTAAAA-TTTTTTTAATTTTAAA
1 ATTTTTAAAATTTTTTTTAATTTTAAA
* *
60073088 ATTTTT-TAATTATATATTTAATTTTTAAA
1 ATTTTTAAAATT-T-TTTTTAA-TTTTAAA
*
60073117 A-TTTTAAAATAATTTTTTA
1 ATTTTTAAAAT-TTTTTTTA
60073136 GTATTTTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
25 2 0.03
26 23 0.37
27 11 0.17
28 15 0.24
29 12 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTTTTAAAATTTTTTTTAATTTTAAA
Found at i:60073094 original size:16 final size:17
Alignment explanation
Indices: 60073064--60073098 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
60073054 ATTTTAAAAT
60073064 TTTTAAAATTTTTTTAA
1 TTTTAAAATTTTTTTAA
60073081 TTTTAAAA-TTTTTTAA
1 TTTTAAAATTTTTTTAA
60073097 TT
1 TT
60073099 ATATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAAAATTTTTTTAA
Found at i:60074326 original size:58 final size:59
Alignment explanation
Indices: 60074264--60074376 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
60074254 TACACTAATA
* * * *
60074264 GTTATCCAACTATTAGT-GGTTTTTTTTTTGTCAGACAACTATAAAAAGTTACAATATT
1 GTTATCCAACTATTAGTAAGTTTCTTTTTTATCACACAACTATAAAAAGTTACAATATT
** * * *
60074322 GTTATCTGACTATTAGTAAGTTTCTTTTTTATCACATAATTATAAAAATTTACAA
1 GTTATCCAACTATTAGTAAGTTTCTTTTTTATCACACAACTATAAAAAGTTACAA
60074377 AATGGTCATT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
58 15 0.33
59 30 0.67
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (59 bp):
GTTATCCAACTATTAGTAAGTTTCTTTTTTATCACACAACTATAAAAAGTTACAATATT
Found at i:60077884 original size:25 final size:27
Alignment explanation
Indices: 60077855--60077908 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
60077845 AATTATACAA
*
60077855 ATTCAC-GAGTTGAAATACCCAAT-CC
1 ATTCACTGAGTTGAAATACCAAATACC
*
60077880 ATTCACTGAGTTTAAATACCAAATACC
1 ATTCACTGAGTTGAAATACCAAATACC
60077907 AT
1 AT
60077909 ATGAGCATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 15 0.60
27 4 0.16
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (27 bp):
ATTCACTGAGTTGAAATACCAAATACC
Found at i:60079500 original size:42 final size:42
Alignment explanation
Indices: 60079453--60079536 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
60079443 CTATCCATGC
60079453 ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
*
60079495 ATGTGTGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
60079537 TTCAAGTCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (42 bp):
ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
Found at i:60079540 original size:23 final size:23
Alignment explanation
Indices: 60079466--60079556 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
60079456 TGTGTAACTT
60079466 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
60079489 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
*
60079508 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
60079531 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
60079554 TTC
1 TTC
60079557 TAACTTTTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.17
20 4 0.08
22 4 0.08
23 35 0.67
ACGTcount: A:0.21, C:0.27, G:0.07, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:60084043 original size:41 final size:42
Alignment explanation
Indices: 60083965--60084047 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
60083955 CTATCCATGC
*
60083965 ATGTGTGTAACTTTTCAAATTCAAGTCTCTTCACTCTTCATA
1 ATGTGTATAACTTTTCAAATTCAAGTCTCTTCACTCTTCATA
**
60084007 ATGTGTATAACTTTTCATCTT-AAGTCTCTTCACTCTTCATA
1 ATGTGTATAACTTTTCAAATTCAAGTCTCTTCACTCTTCATA
60084048 TTCAAGTCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 20 0.53
42 18 0.47
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (42 bp):
ATGTGTATAACTTTTCAAATTCAAGTCTCTTCACTCTTCATA
Found at i:60085415 original size:28 final size:28
Alignment explanation
Indices: 60085375--60085433 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
60085365 TGTTGTTAAG
60085375 TCTTCAGTGATGTAATTTGGATTACTTA
1 TCTTCAGTGATGTAATTTGGATTACTTA
60085403 TCTTCAGTGATGTAATTTGGATTACTTA
1 TCTTCAGTGATGTAATTTGGATTACTTA
60085431 TCT
1 TCT
60085434 AAATAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47
Consensus pattern (28 bp):
TCTTCAGTGATGTAATTTGGATTACTTA
Found at i:60090960 original size:2 final size:2
Alignment explanation
Indices: 60090955--60090979 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60090945 TTGTTAAATA
60090955 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
60090980 GACTGAAATG
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:60093477 original size:8 final size:8
Alignment explanation
Indices: 60093464--60093511 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
60093454 AATTTTACCT
60093464 AAAATAAC
1 AAAATAAC
60093472 AAAATAAC
1 AAAATAAC
*
60093480 AAAAATTTACC
1 -AAAA--TAAC
60093491 TAAAATAAC
1 -AAAATAAC
60093500 AAAATAAC
1 AAAATAAC
60093508 AAAA
1 AAAA
60093512 ATTTACCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 20 0.59
9 7 0.21
11 7 0.21
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAATAAC
Found at i:60093491 original size:28 final size:28
Alignment explanation
Indices: 60093452--60093532 Score: 153
Period size: 28 Copynumber: 2.9 Consensus size: 28
60093442 TTCCATAAAT
*
60093452 AAAATTTTACCTAAAATAACAAAATAAC
1 AAAAATTTACCTAAAATAACAAAATAAC
60093480 AAAAATTTACCTAAAATAACAAAATAAC
1 AAAAATTTACCTAAAATAACAAAATAAC
60093508 AAAAATTTACCTAAAATAACAAAAT
1 AAAAATTTACCTAAAATAACAAAAT
60093533 TTTTAACTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (28 bp):
AAAAATTTACCTAAAATAACAAAATAAC
Found at i:60093545 original size:21 final size:20
Alignment explanation
Indices: 60093496--60093546 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
60093486 TTACCTAAAA
60093496 TAAC-AAAATAACAAAAATT
1 TAACTAAAATAACAAAAATT
* *
60093515 TACCTAAAATAACAAAATTTT
1 TAACTAAAATAACAAAA-ATT
*
60093536 TAACTTAAATA
1 TAACTAAAATA
60093547 GCATTAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (20 bp):
TAACTAAAATAACAAAAATT
Found at i:60093660 original size:23 final size:23
Alignment explanation
Indices: 60093645--60093701 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
60093635 CAATATGTGG
60093645 TAAATAAGGTAATCAAATATGCC
1 TAAATAAGGTAATCAAATATGCC
*
60093668 TTAATAAGGTAATCAAATATGCC
1 TAAATAAGGTAATCAAATATGCC
**
60093691 TTCATAAGGTA
1 TAAATAAGGTA
60093702 TTGTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (23 bp):
TAAATAAGGTAATCAAATATGCC
Found at i:60093755 original size:10 final size:11
Alignment explanation
Indices: 60093731--60093771 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
60093721 AAATTTATAA
60093731 TTTTATAATGT
1 TTTTATAATGT
60093742 TTTTATAATGT
1 TTTTATAATGT
60093753 TTTTATAAT-T
1 TTTTATAATGT
*
60093763 TTTAATAAT
1 TTTTATAAT
60093772 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (11 bp):
TTTTATAATGT
Found at i:60093759 original size:22 final size:21
Alignment explanation
Indices: 60093731--60093771 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
60093721 AAATTTATAA
*
60093731 TTTTATAATGTTTTTATAATGT
1 TTTTATAAT-TTTTAATAATGT
60093753 TTTTATAATTTTTAATAAT
1 TTTTATAATTTTTAATAAT
60093772 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTATAATTTTTAATAATGT
Found at i:60097302 original size:3 final size:3
Alignment explanation
Indices: 60097296--60097326 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60097286 TTATTATCAA
60097296 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60097327 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60097331 original size:3 final size:3
Alignment explanation
Indices: 60097325--60097355 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60097315 ATAATAATAA
60097325 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
60097356 TTGCGGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:60097443 original size:13 final size:13
Alignment explanation
Indices: 60097425--60097449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60097415 AATTTTATAA
60097425 TTTTATAATTTTT
1 TTTTATAATTTTT
60097438 TTTTATAATTTT
1 TTTTATAATTTT
60097450 ATTATGAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATAATTTTT
Found at i:60097449 original size:9 final size:8
Alignment explanation
Indices: 60097415--60097451 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
60097405 TTTTAATAAA
60097415 AATTTTAT
1 AATTTTAT
60097423 AATTTTAT
1 AATTTTAT
60097431 AATTTT-T
1 AATTTTAT
60097438 --TTTTAT
1 AATTTTAT
60097444 AATTTTAT
1 AATTTTAT
60097452 TATGAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 4 0.15
6 1 0.04
7 1 0.04
8 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
AATTTTAT
Found at i:60097461 original size:21 final size:21
Alignment explanation
Indices: 60097417--60097461 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60097407 TTAATAAAAA
***
60097417 TTTTATAATTTTATAATTTTT
1 TTTTATAATTTTATAATGAGT
*
60097438 TTTTATAATTTTATTATGAGT
1 TTTTATAATTTTATAATGAGT
60097459 TTT
1 TTT
60097462 ATGAGTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTATAATTTTATAATGAGT
Found at i:60100382 original size:31 final size:29
Alignment explanation
Indices: 60100320--60100386 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 29
60100310 AAGTTGCTGC
* *
60100320 TTTAGTTTTTATATTTTAATTTAATTAAA
1 TTTAGTCTTTATATTTTAAATTAATTAAA
*
60100349 TTTAGTCTTTATACTTTTAAAATTAGTTAAA
1 TTTAGTCTTTATA-TTTT-AAATTAATTAAA
60100380 TTTAGTC
1 TTTAGTC
60100387 CCTGTACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 12 0.36
30 4 0.12
31 17 0.52
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (29 bp):
TTTAGTCTTTATATTTTAAATTAATTAAA
Found at i:60106773 original size:20 final size:20
Alignment explanation
Indices: 60106722--60106773 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
60106712 AAATCATTGC
60106722 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
60106742 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
60106760 AATATATGTAAAAA
1 AATATATGTAAAAA
60106774 CAACTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:60106887 original size:20 final size:20
Alignment explanation
Indices: 60106862--60106901 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60106852 AAATATTTCC
*
60106862 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
60106882 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
60106902 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:60108598 original size:5 final size:5
Alignment explanation
Indices: 60108590--60108619 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
60108580 TAAAACATAT
60108590 GATGA GATGA GATGA GATGA GATGA GATGA
1 GATGA GATGA GATGA GATGA GATGA GATGA
60108620 AATGTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
GATGA
Found at i:60113754 original size:29 final size:31
Alignment explanation
Indices: 60113707--60113766 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
60113697 TTTAGTTATC
60113707 TTTAAAATTAATAAAAATT-TAATTTAATTT
1 TTTAAAATTAATAAAAATTATAATTTAATTT
*
60113737 TTTAAAA-TAGTAAAAATTATAATTTAATTT
1 TTTAAAATTAATAAAAATTATAATTTAATTT
60113767 CGACTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
TTTAAAATTAATAAAAATTATAATTTAATTT
Found at i:60114390 original size:29 final size:29
Alignment explanation
Indices: 60114348--60114416 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
60114338 AATTTCGTGT
60114348 AATCGTGTTTTCTAAACATACATTATATA
1 AATCGTGTTTTCTAAACATACATTATATA
60114377 AATCGTGTTTTCTAAACATACATTATATA
1 AATCGTGTTTTCTAAACATACATTATATA
60114406 AATCGTGTTTT
1 AATCGTGTTTT
60114417 TTATTTTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (29 bp):
AATCGTGTTTTCTAAACATACATTATATA
Found at i:60117679 original size:2 final size:2
Alignment explanation
Indices: 60117672--60117696 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60117662 GAGGTATGGC
60117672 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
60117697 AATGAAATTG
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:60119465 original size:654 final size:650
Alignment explanation
Indices: 60118191--60119491 Score: 2269
Period size: 654 Copynumber: 2.0 Consensus size: 650
60118181 GTCCCCATGG
* *
60118191 CATACCACTGGGGAACACTATTACCAGGGAATGCTTGAACAGGGTGGGAGTGAGGCGTCTGAAGC
1 CATACCACTGGGGAACACTATTACCAGGGAATGCTTCAAAAGGGTGGGAGTGAGGCGTCTGAAGC
60118256 ACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGTG
66 ACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGTG
* * *
60118321 GGAGCAACAAAAGAGATGGGGTTTCAGAAGCTGGAGTACAAGTTACTGAAATGAATGATGTTACT
131 GAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGTACAAGGTACTGAAATGAATGATGTTACT
* *
60118386 ATTCCTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATGTTGAAGCGTAATTATAGTTC
196 ATTACTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATATTGAAGCGTAATTATAGTTC
* *
60118451 CTGGCTATCCGGACTTTTTAACAAGGACAACAACAGTGTGGAAGTTGCACACTTCCATGGTTTAC
261 CTGGCTATCCGGACTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGCTTAC
* *
60118516 AAGAAGCATTGGACGAAACTCGTTATGGGGAAACACCAGACTACCTCAAACGTATCGCAACCCTA
326 AAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAACGTATCGCAACCCTA
*
60118581 ATCGAAGTGGATCGTGGAAAAGTTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTTGTGC
391 ATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTTGTGC
* *
60118646 CGCATTCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTGTAACCAGTTGAAAAAGT
456 CGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAAAAGT
*
60118711 GGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAATTTGCTGATGACACGTTG
521 GGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAACTTGCTGATGACACGTTG
* *
60118776 AATAATATTTGTCTTGCCTGTTATGCTTCCTTAATGATCTATGGAGGGGATGGTTCAATTCAGTT
586 AATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATCTATGGAGAGGATGGTTCAATTCAGTT
* * *
60118841 CATACCATTGGGGAACACTATTACTAGTGGAATGCTTCAAAAGGGTGGGCGTGAGGCGTCTGAAG
1 CATACCACTGGGGAACACTATTACCAG-GGAATGCTTCAAAAGGGTGGGAGTGAGGCGTCTGAAG
*
60118906 CACAATACAATACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGT
65 CACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGT
60118971 GGAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGTACAACAAGGTACTGAAATGAATGATGT
130 GGAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGT---ACAAGGTACTGAAATGAATGATGT
*
60119036 TACTATTACTGTTGATCAAGACCACGGAAGTTTGCTGGCTAGGGAGATATTGAAGCGTAATTATA
192 TACTATTACTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATATTGAAGCGTAATTATA
*
60119101 GTTCCTGGCTATCCGGCCTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGC
257 GTTCCTGGCTATCCGGACTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGC
* **
60119166 TTACAAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAAGGTATCGCGGC
322 TTACAAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAACGTATCGCAAC
* **
60119231 TCTAATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTTTTGGTTT
387 CCTAATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTT
60119296 GTGCCGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAA
452 GTGCCGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAA
* *
60119361 AAGTGGGCCGCGACGCTCAATATGGGTAAGGAACAAGATTTTGAAGTGAAACTTGCTGATGACAT
517 AAGTGGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAACTTGCTGATGACAC
* *
60119426 GTTGAATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATTTATGGAGAGGATGGTTCAGTTC
582 GTTGAATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATCTATGGAGAGGATGGTTCAATTC
60119491 A
647 A
60119492 TAAGGTTGCG
Statistics
Matches: 614, Mismatches: 33, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
650 25 0.04
651 134 0.22
654 455 0.74
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (650 bp):
CATACCACTGGGGAACACTATTACCAGGGAATGCTTCAAAAGGGTGGGAGTGAGGCGTCTGAAGC
ACAATACAACACAAACACACCACCATTGTCGCACAGTGATAATCAGATGAACTTAATGCTCAGTG
GAAGCAACAAAAGAGACGGGGTTTCAGAAGCTGGAGTACAAGGTACTGAAATGAATGATGTTACT
ATTACTGTTGATCAAGACCACGAAAGTTTGCTGGCTAGGGAGATATTGAAGCGTAATTATAGTTC
CTGGCTATCCGGACTTTTTAACAAAGACAACAACAGTGTGGAAGTTGCACACTTCCATGGCTTAC
AAGAAGCATTGGACAAAACTCGCTATGGGGAAACACCAGACTACCTCAAACGTATCGCAACCCTA
ATCGAAGTGGATCGTGGAAAAGCTACTAAGTTTGGCCATAAAAATATTGAAGTGCTGGTTTGTGC
CGCAATCAAAGAGATGGAAGACTGGCGTACACCTAAGGATTCCGGCTATAACCAGTTGAAAAAGT
GGGCCGCGACGCTCAATATGGGTAAGGAACAAGACTTTGAAGTGAAACTTGCTGATGACACGTTG
AATAATATTTGTCTTGCCTGTTATGCTTACTTAATGATCTATGGAGAGGATGGTTCAATTCAGTT
Found at i:60122164 original size:22 final size:22
Alignment explanation
Indices: 60122136--60122204 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
60122126 ATGTGACACT
*
60122136 TCCCTGGTGTTCTTTCTCTTGA
1 TCCCTGGTGTTCTTTCTCTCGA
60122158 TCCCTGGTGTTCTTTCTCTCGA
1 TCCCTGGTGTTCTTTCTCTCGA
60122180 TCCCTGGTGTTCTTTCTCTCGA
1 TCCCTGGTGTTCTTTCTCTCGA
60122202 TCC
1 TCC
60122205 AACTTTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.04, C:0.32, G:0.17, T:0.46
Consensus pattern (22 bp):
TCCCTGGTGTTCTTTCTCTCGA
Found at i:60125979 original size:13 final size:13
Alignment explanation
Indices: 60125961--60125989 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
60125951 TAAAATTCGA
60125961 TAAATTTTATTTG
1 TAAATTTTATTTG
60125974 TAAATTTTATTTG
1 TAAATTTTATTTG
60125987 TAA
1 TAA
60125990 GAAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
TAAATTTTATTTG
Found at i:60139406 original size:26 final size:26
Alignment explanation
Indices: 60139323--60139398 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
60139313 TCCTTGCTTT
*
60139323 TGAAAAA-TATCTTTGAAAAGTGTTG
1 TGAAAAATTATTTTTGAAAAGTGTTG
*
60139348 TGAAAAATTACTTTTGAAAAGTGTTG
1 TGAAAAATTATTTTTGAAAAGTGTTG
* *
60139374 TGCAAAATTATTTTTGAGAAGTGTT
1 TGAAAAATTATTTTTGAAAAGTGTT
60139399 TTTGAAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 7 0.16
26 38 0.84
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (26 bp):
TGAAAAATTATTTTTGAAAAGTGTTG
Found at i:60139765 original size:13 final size:13
Alignment explanation
Indices: 60139747--60139772 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60139737 TCTCAGAAGA
60139747 ATTTTTGAAAAGT
1 ATTTTTGAAAAGT
60139760 ATTTTTGAAAAGT
1 ATTTTTGAAAAGT
60139773 TAAAAATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTTTTGAAAAGT
Found at i:60140437 original size:27 final size:27
Alignment explanation
Indices: 60140407--60140460 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
60140397 GGAATTTAAT
*
60140407 TAAACTAGTCCTTTTATTATTCAATGG
1 TAAACTAGTCCCTTTATTATTCAATGG
*
60140434 TAAATTAGTCCCTTTATTATTCAATGG
1 TAAACTAGTCCCTTTATTATTCAATGG
60140461 ATCAAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (27 bp):
TAAACTAGTCCCTTTATTATTCAATGG
Found at i:60142252 original size:16 final size:16
Alignment explanation
Indices: 60142231--60142262 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60142221 TAAAATACTT
60142231 TTTAAAAATTTTTAAA
1 TTTAAAAATTTTTAAA
*
60142247 TTTAAAATTTTTTAAA
1 TTTAAAAATTTTTAAA
60142263 ATACTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAAAATTTTTAAA
Found at i:60142270 original size:27 final size:27
Alignment explanation
Indices: 60142220--60142298 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 27
60142210 TAAAATACTA
60142220 TTAAAATACTTTTTAAAA-ATTTTTAAAT
1 TTAAAAT--TTTTTAAAATATTTTTAAAT
60142248 TTAAAATTTTTTAAAATACTTTTT-AAT
1 TTAAAATTTTTTAAAATA-TTTTTAAAT
**
60142275 TTTTAA--TTTTAAAATATTTTTAAA
1 TTAAAATTTTTTAAAATATTTTTAAA
60142299 ATACTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
24 5 0.11
25 12 0.26
26 9 0.20
27 8 0.17
28 12 0.26
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAAAATTTTTTAAAATATTTTTAAAT
Found at i:60142297 original size:11 final size:11
Alignment explanation
Indices: 60142207--60142307 Score: 63
Period size: 11 Copynumber: 9.4 Consensus size: 11
60142197 TTATTTTTAA
*
60142207 TTTTAAAATAC
1 TTTTAAAATAT
*
60142218 TATTAAAATACT
1 TTTTAAAATA-T
60142230 TTTTAAAA-AT
1 TTTTAAAATAT
60142240 TTTT--AA-A-
1 TTTTAAAATAT
60142247 -TTTAAAAT-T
1 TTTTAAAATAT
60142256 TTTTAAAATACT
1 TTTTAAAATA-T
** *
60142268 TTTTAATTTTTAA
1 TTTTAA--AATAT
60142281 TTTTAAAATAT
1 TTTTAAAATAT
60142292 TTTTAAAATACT
1 TTTTAAAATA-T
60142304 TTTT
1 TTTT
60142308 TAATTTTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
6 3 0.04
8 5 0.07
10 13 0.19
11 22 0.31
12 19 0.27
13 6 0.09
14 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:60142322 original size:36 final size:37
Alignment explanation
Indices: 60142194--60142315 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 37
60142184 ATTTTTATTA
* *
60142194 TTTTT-ATTTTTAATTTTAAAATACTATTAAAATACT
1 TTTTTAATTTTTAATTTTAAAATATTTTTAAAATACT
* *
60142230 TTTTAAAAATTTTTAAATTTAAAAT-TTTTTAAAATAC-
1 TTTT--TAATTTTTAATTTTAAAATATTTTTAAAATACT
60142267 TTTTTAATTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAATTTTTAATTTTAAAATATTTTTAAAATACT
60142304 TTTTTAATTTTT
1 TTTTTAATTTTT
60142316 GTTTTAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
35 17 0.23
36 16 0.21
37 16 0.21
38 10 0.13
39 16 0.21
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (37 bp):
TTTTTAATTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:60144214 original size:84 final size:84
Alignment explanation
Indices: 60144103--60144257 Score: 247
Period size: 84 Copynumber: 1.8 Consensus size: 84
60144093 ACTAACGCGG
* *
60144103 ACGGACTGCTGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACGCCT
1 ACGGACTGCCGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACACCT
*
60144168 GAAGTACAAGGTGGGACGA
66 CAAGTACAAGGTGGGACGA
* * * *
60144187 ACGGACTGCCGTTGTCCAGCCTTGAATCTACAGGAAACCTTCTACAGCTTGGGAGGGCGACACCT
1 ACGGACTGCCGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACACCT
60144252 CAAGTA
66 CAAGTA
60144258 AAAGATGGCG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (84 bp):
ACGGACTGCCGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACACCT
CAAGTACAAGGTGGGACGA
Found at i:60144277 original size:84 final size:84
Alignment explanation
Indices: 60144103--60144279 Score: 239
Period size: 84 Copynumber: 2.1 Consensus size: 84
60144093 ACTAACGCGG
* *
60144103 ACGGACTGCTGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACGCCT
1 ACGGACTGCCGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACACCT
* * * *
60144168 GAAGTACAAGGTGGGACGA
66 CAAGTAAAAGATGGGACCA
* * * *
60144187 ACGGACTGCCGTTGTCCAGCCTTGAATCTACAGGAAACCTTCTACAGCTTGGGAGGGCGACACCT
1 ACGGACTGCCGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACACCT
60144252 CAAGTAAAAGATGGCG-CCA
66 CAAGTAAAAGATGG-GACCA
*
60144271 ATGGACTGC
1 ACGGACTGC
60144280 TGTTTTCGGT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 80 0.99
85 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.29, T:0.18
Consensus pattern (84 bp):
ACGGACTGCCGTTGTCCAGCCTGGAATCTACAAGAAACCTTCGACAGCCTGGGAGGGCGACACCT
CAAGTAAAAGATGGGACCA
Found at i:60148621 original size:23 final size:24
Alignment explanation
Indices: 60148595--60148644 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
60148585 TATGTTAGAT
60148595 AAAA-AAATCGATTTTTA-TATTAA
1 AAAATAAATC-ATTTTTATTATTAA
* *
60148618 AAAATCATTCATTTTTATTATTAA
1 AAAATAAATCATTTTTATTATTAA
60148642 AAA
1 AAA
60148645 CTAACGAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAATAAATCATTTTTATTATTAA
Found at i:60148972 original size:12 final size:12
Alignment explanation
Indices: 60148957--60149019 Score: 72
Period size: 12 Copynumber: 5.1 Consensus size: 12
60148947 ATAATCAATT
*
60148957 TTTTTAAAAATA
1 TTTTTAAACATA
*
60148969 TTTTATAAACATT
1 TTTT-TAAACATA
*
60148982 TTTTTAAAAATA
1 TTTTTAAACATA
*
60148994 TTTTTTAAACATT
1 -TTTTTAAACATA
60149007 TTTTTAAACATA
1 TTTTTAAACATA
60149019 T
1 T
60149020 AAACTCTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 22 0.52
13 20 0.48
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTTTAAACATA
Found at i:60148982 original size:25 final size:25
Alignment explanation
Indices: 60148939--60149019 Score: 119
Period size: 25 Copynumber: 3.2 Consensus size: 25
60148929 TAAAACATAT
*
60148939 AAAT-TTTTATAATCAATTTTTTTAA
1 AAATATTTTATAAAC-ATTTTTTTAA
60148964 AAATATTTTATAAACATTTTTTTAA
1 AAATATTTTATAAACATTTTTTTAA
*
60148989 AAATATTTTTTAAACATTTTTTTAA
1 AAATATTTTATAAACATTTTTTTAA
*
60149014 ACATAT
1 AAATAT
60149020 AAACTCTTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
25 43 0.83
26 9 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
AAATATTTTATAAACATTTTTTTAA
Found at i:60150834 original size:19 final size:19
Alignment explanation
Indices: 60150745--60150834 Score: 53
Period size: 19 Copynumber: 4.7 Consensus size: 19
60150735 AAAATTAAAT
*
60150745 TTTATAATTTTTATAT-TCC
1 TTTATAATTTTTATATAT-A
*
60150764 TTTCTGAATTTTTATATAT-
1 TTTAT-AATTTTTATATATA
* * *
60150783 TTAATTATTTCATATATATA
1 TTTATAATTT-TTATATATA
*
60150803 TATTA-AGA-GTTTATATATA
1 T-TTATA-ATTTTTATATATA
60150822 TTTATAATTTTTA
1 TTTATAATTTTTA
60150835 ATAAATTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
18 8 0.15
19 28 0.53
20 13 0.25
21 4 0.08
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTATAATTTTTATATATA
Found at i:60151663 original size:96 final size:96
Alignment explanation
Indices: 60151358--60151737 Score: 559
Period size: 96 Copynumber: 4.0 Consensus size: 96
60151348 ATAACGTTTC
* * * * * * *
60151358 GGTGTCGTTGATTTACTTGCTCTTTATGTTTTTGATTTGATTATTTTTTAGTCACCATCTGATCT
1 GGTGTCGTTGATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCT
* *
60151423 GAGTTAAAATTCCCAGATCTGTACGAGATGT
66 GAGTTAAATTTCCCAGATCTGTACAAGATGT
*
60151454 GGTGTC--TGATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTTATTCAT-ATCTGATCT
1 GGTGTCGTTGATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCT
* * *
60151516 AAGTTAAATTTCCCAGATCTGTTCAAGACGT
66 GAGTTAAATTTCCCAGATCTGTACAAGATGT
* *
60151547 GGTGTCGATGATTTACTTGTTCTTTATGTTTTCGATTCAATTGTTTTTGATTCATCATCTGATCT
1 GGTGTCGTTGATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCT
* *
60151612 GAGTTTAATTTCCCAGATCTGTACAGGATGT
66 GAGTTAAATTTCCCAGATCTGTACAAGATGT
* *
60151643 GGTGTCGTTAATTTACTTGTTCTTTATGTTTTCGATTGGATTGTTTTTGATTCATCATCTGATCT
1 GGTGTCGTTGATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCT
*
60151708 GTGTTAAATTTCCCAGATCTGTACAAGATG
66 GAGTTAAATTTCCCAGATCTGTACAAGATG
60151738 ATCAACAGAA
Statistics
Matches: 256, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
93 41 0.16
94 41 0.16
95 45 0.18
96 129 0.50
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (96 bp):
GGTGTCGTTGATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCT
GAGTTAAATTTCCCAGATCTGTACAAGATGT
Found at i:60154032 original size:18 final size:18
Alignment explanation
Indices: 60154011--60154053 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
60154001 AATTTATGTT
*
60154011 TTATTAAAATTTTAAAAA
1 TTATCAAAATTTTAAAAA
* *
60154029 TTATCATAATTTTTAAAA
1 TTATCAAAATTTTAAAAA
*
60154047 TTTTCAA
1 TTATCAA
60154054 TATTCTTATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATCAAAATTTTAAAAA
Found at i:60154045 original size:27 final size:27
Alignment explanation
Indices: 60154014--60154077 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
60154004 TTATGTTTTA
60154014 TTAAAATTTTAAAAATTATCATAATTT
1 TTAAAATTTTAAAAATTATCATAATTT
* * * *
60154041 TTAAAATTTTCAATATTCTTATAATTT
1 TTAAAATTTTAAAAATTATCATAATTT
*
60154068 TTATAATTTT
1 TTAAAATTTT
60154078 TAATCATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
TTAAAATTTTAAAAATTATCATAATTT
Found at i:60155809 original size:29 final size:31
Alignment explanation
Indices: 60155752--60155812 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
60155742 ATTTTAAAAT
*
60155752 TATATATAAATTTTAATTTAATGTGTAATTA
1 TATATATAAATTTTAATTTAATGTATAATTA
60155783 TATATATAAATTTTAATTT-A-GTATAATTA
1 TATATATAAATTTTAATTTAATGTATAATTA
60155812 T
1 T
60155813 GTAAGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.31
30 1 0.03
31 19 0.66
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (31 bp):
TATATATAAATTTTAATTTAATGTATAATTA
Found at i:60155857 original size:6 final size:6
Alignment explanation
Indices: 60155846--60155870 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60155836 TCAAATGTAT
60155846 AATTTA AATTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA A
60155871 TCTTAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:60155876 original size:12 final size:11
Alignment explanation
Indices: 60155845--60155878 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
60155835 TTCAAATGTA
60155845 TAATTTAAATT
1 TAATTTAAATT
60155856 TAAATTTAAATT
1 T-AATTTAAATT
60155868 TAATCTTAAAT
1 TAAT-TTAAAT
60155879 AAATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTAAATT
Found at i:60155883 original size:4 final size:4
Alignment explanation
Indices: 60155874--60155951 Score: 59
Period size: 4 Copynumber: 18.8 Consensus size: 4
60155864 AATTTAATCT
** *
60155874 TAAA TAAA TAAA TAAA TAAA TTTATT TAAA TAAA TAAA TAAA TATAA T-TA
1 TAAA TAAA TAAA TAAA TAAA --TAAA TAAA TAAA TAAA TAAA TA-AA TAAA
** *
60155924 TTTA TAAA TACAA TATA TAAA TAAA TAA
1 TAAA TAAA TA-AA TAAA TAAA TAAA TAA
60155952 TTTTTTTATC
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
3 2 0.03
4 49 0.82
5 7 0.12
6 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (4 bp):
TAAA
Found at i:60155902 original size:26 final size:26
Alignment explanation
Indices: 60155862--60155949 Score: 106
Period size: 26 Copynumber: 3.2 Consensus size: 26
60155852 AATTTAAATT
60155862 TAAATTTAATCTTAAATAAATAAATAAA
1 TAAATTT-AT-TTAAATAAATAAATAAA
60155890 TAAATTTATTTAAATAAATAAATAAA
1 TAAATTTATTTAAATAAATAAATAAA
*
60155916 TATAA-TTATTTATAAATACAATATATAAA
1 TA-AATTTA-TT-TAAATA-AATAAATAAA
60155945 TAAAT
1 TAAAT
60155950 AATTTTTTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
26 22 0.41
27 6 0.11
28 15 0.28
29 11 0.20
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TAAATTTATTTAAATAAATAAATAAA
Found at i:60155983 original size:55 final size:59
Alignment explanation
Indices: 60155876--60155985 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
60155866 TTTAATCTTA
*
60155876 AATAAATAAATAAATAAATTTATTTAAATAAATAAATAAATATAATTATTTATAAATAC
1 AATAAATAAATAAATAAATTTATTTAAATAAATAAATAAATATAATAATTTATAAATAC
* * * * *
60155935 AATATATAAATAAAT-AATTT-TTT-TATCAATAATTATAT-TAATAATTTATAA
1 AATAAATAAATAAATAAATTTATTTAAATAAATAAATAAATATAATAATTTATAA
60155986 GAATATACTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 12 0.27
56 11 0.24
57 3 0.07
58 5 0.11
59 14 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (59 bp):
AATAAATAAATAAATAAATTTATTTAAATAAATAAATAAATATAATAATTTATAAATAC
Found at i:60157014 original size:18 final size:18
Alignment explanation
Indices: 60156993--60157035 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
60156983 ATTTATGTTT
*
60156993 TTATTAAAATTTTAAAAA
1 TTATCAAAATTTTAAAAA
* *
60157011 TTATCATAATTTTTAAAA
1 TTATCAAAATTTTAAAAA
*
60157029 TTTTCAA
1 TTATCAA
60157036 TATTCCTATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATCAAAATTTTAAAAA
Found at i:60157026 original size:27 final size:27
Alignment explanation
Indices: 60156996--60157059 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
60156986 TATGTTTTTA
*
60156996 TTAAAATTTTAAAAATT-ATCATAATTT
1 TTAAAATTTTAAAAATTCCT-ATAATTT
* *
60157023 TTAAAATTTTCAATATTCCTATAATTT
1 TTAAAATTTTAAAAATTCCTATAATTT
*
60157050 TTATAATTTT
1 TTAAAATTTT
60157060 TAATCATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAAAATTTTAAAAATTCCTATAATTT
Found at i:60157093 original size:20 final size:20
Alignment explanation
Indices: 60157070--60157111 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60157060 TAATCATTTA
60157070 AAAAAATTAATAATTTTCAC
1 AAAAAATTAATAATTTTCAC
** *
60157090 AAAATTTTAATAATTTTTAC
1 AAAAAATTAATAATTTTCAC
60157110 AA
1 AA
60157112 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAAATTAATAATTTTCAC
Found at i:60157888 original size:19 final size:20
Alignment explanation
Indices: 60157845--60157888 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
60157835 AACATAAAAA
60157845 TATATCAATGTCTCAAAATC
1 TATATCAATGTCTCAAAATC
* * *
60157865 CATAT-AATGTTTCAAAGTC
1 TATATCAATGTCTCAAAATC
60157884 TATAT
1 TATAT
60157889 TAGTATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (20 bp):
TATATCAATGTCTCAAAATC
Found at i:60159122 original size:40 final size:40
Alignment explanation
Indices: 60159078--60159157 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
60159068 GAGTCATATC
60159078 ACAAAATATGAAAGATGAGGAAGGACAAAATGGTAATCAT
1 ACAAAATATGAAAGATGAGGAAGGACAAAATGGTAATCAT
60159118 ACAAAATATGAAAGATGAGGAAGGACAAAATGGTAATCAT
1 ACAAAATATGAAAGATGAGGAAGGACAAAATGGTAATCAT
60159158 TCAAGTGGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.53, C:0.07, G:0.23, T:0.17
Consensus pattern (40 bp):
ACAAAATATGAAAGATGAGGAAGGACAAAATGGTAATCAT
Found at i:60160624 original size:29 final size:28
Alignment explanation
Indices: 60160571--60160625 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
60160561 CTTTAATTTC
60160571 AATTTAATTTTAAATAAATAAATATATT
1 AATTTAATTTTAAATAAATAAATATATT
* *
60160599 AATTTATTTTTATATTAAATAAATATA
1 AATTTAATTTTA-AATAAATAAATATA
60160626 ATTCTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AATTTAATTTTAAATAAATAAATATATT
Found at i:60160666 original size:14 final size:14
Alignment explanation
Indices: 60160647--60160673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60160637 ATACAATATA
60160647 TAAATAAATAATTT
1 TAAATAAATAATTT
60160661 TAAATAAATAATT
1 TAAATAAATAATT
60160674 ATATTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATAAATAATTT
Found at i:60164132 original size:14 final size:14
Alignment explanation
Indices: 60164113--60164143 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60164103 GAGAAAATCA
*
60164113 TGTTCGTCCTTTAG
1 TGTTCGCCCTTTAG
60164127 TGTTCGCCCTTTAG
1 TGTTCGCCCTTTAG
60164141 TGT
1 TGT
60164144 CACCCGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.23, G:0.23, T:0.48
Consensus pattern (14 bp):
TGTTCGCCCTTTAG
Found at i:60167283 original size:23 final size:23
Alignment explanation
Indices: 60167257--60167300 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
60167247 GGTTGTTTCA
*
60167257 AGTTTAGATC-GTCTTGAGTTTTG
1 AGTTCAGATCAGT-TTGAGTTTTG
*
60167280 AGTTCAGGTCAGTTTGAGTTT
1 AGTTCAGATCAGTTTGAGTTT
60167301 GCTTCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.18, C:0.09, G:0.27, T:0.45
Consensus pattern (23 bp):
AGTTCAGATCAGTTTGAGTTTTG
Found at i:60174147 original size:102 final size:102
Alignment explanation
Indices: 60173971--60174379 Score: 737
Period size: 102 Copynumber: 4.0 Consensus size: 102
60173961 CAATGATTAC
* *
60173971 AAATTTAATTACTAAGTTTGCTCTTATGTTCTATATCTCCAAAGCTTGCTTTCATGATCTAAATC
1 AAATTTAATTACTAAGTTTGCTCTCATGTTCAATATCTCCAAAGCTTGCTTTCATGATCTAAATC
60174036 TCCAATTTAACTTTCTAAATTGATTTTTCAGGAACAA
66 TCCAATTTAACTTTCTAAATTGATTTTTCAGGAACAA
*
60174073 AAATTTAATTACTAAGTTTGCTGTCATGTTCAATATCTCCAAAGCTTGCTTTCATGATCTAAATC
1 AAATTTAATTACTAAGTTTGCTCTCATGTTCAATATCTCCAAAGCTTGCTTTCATGATCTAAATC
*
60174138 TCCAATTTAACTTTCTAAATTGATTTTTCAGTAACAA
66 TCCAATTTAACTTTCTAAATTGATTTTTCAGGAACAA
* *
60174175 AAATTTAATTACTAAGTTTGCTGTCATGTTCAATATCTCAAAAGCTTGCTTTCATGATCTAAATC
1 AAATTTAATTACTAAGTTTGCTCTCATGTTCAATATCTCCAAAGCTTGCTTTCATGATCTAAATC
60174240 TCCAATTTAACTTTCTAAATTGATTTTTCAGGAACAA
66 TCCAATTTAACTTTCTAAATTGATTTTTCAGGAACAA
*
60174277 AAATTTAATTACTAAGTTTGCTCTCATGTTCTATATCTCCAAAGCTTGCTTTCATGATCTAAATC
1 AAATTTAATTACTAAGTTTGCTCTCATGTTCAATATCTCCAAAGCTTGCTTTCATGATCTAAATC
* *
60174342 TCCAATTTGACTTTCTAAATTAATTTTTCAGGAACAA
66 TCCAATTTAACTTTCTAAATTGATTTTTCAGGAACAA
60174379 A
1 A
60174380 CAAGGGACCC
Statistics
Matches: 296, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 296 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (102 bp):
AAATTTAATTACTAAGTTTGCTCTCATGTTCAATATCTCCAAAGCTTGCTTTCATGATCTAAATC
TCCAATTTAACTTTCTAAATTGATTTTTCAGGAACAA
Found at i:60179506 original size:18 final size:19
Alignment explanation
Indices: 60179469--60179507 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
60179459 TGCTTCTTAG
* *
60179469 AAACACTTTTTGGGACAAA
1 AAACACTTTTTGAGAAAAA
60179488 AAACAC-TTTTGAGAAAAA
1 AAACACTTTTTGAGAAAAA
60179506 AA
1 AA
60179508 CCATTGCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (19 bp):
AAACACTTTTTGAGAAAAA
Found at i:60179899 original size:79 final size:79
Alignment explanation
Indices: 60179798--60179943 Score: 215
Period size: 79 Copynumber: 1.8 Consensus size: 79
60179788 ATACATACTG
* *
60179798 CATTGAACATCAGCTGGCCTAACTAGCATTTGAGAACATGGATGGTATAAGG-TATCTGATAGAA
1 CATTGAACATCAGCTGGCCTAACTAGCATTTGAGAACATGGAGGGTAT-AGGCTATATGATAGAA
60179862 CACACACATACACTA
65 CACACACATACACTA
* * *
60179877 CATTGAACATCA-CTGGGTCTAACTAGCGTTTGAGAGCATGGAGGGTATAGGCTATATGATAGAA
1 CATTGAACATCAGCT-GGCCTAACTAGCATTTGAGAACATGGAGGGTATAGGCTATATGATAGAA
60179941 CAC
65 CAC
60179944 TTATAAATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 5 0.08
79 55 0.92
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (79 bp):
CATTGAACATCAGCTGGCCTAACTAGCATTTGAGAACATGGAGGGTATAGGCTATATGATAGAAC
ACACACATACACTA
Found at i:60180692 original size:37 final size:37
Alignment explanation
Indices: 60180651--60180726 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
60180641 TCAAGTATGT
*
60180651 TTATGGTTTTCAATGTCTAAAATAGTGAGTTGTTGTA
1 TTATGGTTTTCAATGTCTAAAATAGTGAGTTATTGTA
60180688 TTATGGTTTTCAATGTCTAAAATAGTGAGTTATTGTA
1 TTATGGTTTTCAATGTCTAAAATAGTGAGTTATTGTA
60180725 TT
1 TT
60180727 GGGTATGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (37 bp):
TTATGGTTTTCAATGTCTAAAATAGTGAGTTATTGTA
Found at i:60180814 original size:24 final size:24
Alignment explanation
Indices: 60180787--60180850 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
60180777 ACCCCCAAAA
* *
60180787 AAATTAAAATAAATATTTTTCAAT
1 AAATTAAAATAAATATATTTAAAT
* * *
60180811 AAATAAAAATATATGTATTTAAAT
1 AAATTAAAATAAATATATTTAAAT
*
60180835 AACACTAAAATAAATA
1 AA-ATTAAAATAAATA
60180851 CAGGCTGAAC
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 21 0.70
25 9 0.30
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATTAAAATAAATATATTTAAAT
Found at i:60184785 original size:3 final size:3
Alignment explanation
Indices: 60184777--60184829 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
60184767 TACCGAAATA
60184777 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60184825 AAT AA
1 AAT AA
60184830 AATCCTATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60185199 original size:24 final size:23
Alignment explanation
Indices: 60185155--60185200 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
60185145 ACATTAAGGA
*
60185155 TTAAAATTATTATTATGTTAATT
1 TTAAAATTATTATAATGTTAATT
60185178 TTAAAATTAATTAATAAT-TTAAT
1 TTAAAATT-ATT-ATAATGTTAAT
60185201 CACCAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAAATTATTATAATGTTAATT
Found at i:60190429 original size:18 final size:18
Alignment explanation
Indices: 60190406--60190440 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60190396 GTTACTTGAG
*
60190406 CAAGATTAGATTGAACGA
1 CAAGATCAGATTGAACGA
60190424 CAAGATCAGATTGAACG
1 CAAGATCAGATTGAACG
60190441 GATTGAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (18 bp):
CAAGATCAGATTGAACGA
Found at i:60200762 original size:42 final size:42
Alignment explanation
Indices: 60200575--60201017 Score: 343
Period size: 42 Copynumber: 10.4 Consensus size: 42
60200565 TAGCAGCGCT
* * * * * *
60200575 TACACAAAACGCCACTATAGGTGGGAGTCTTTCGCAGCGCTTA
1 TACAAAAAACGCCACTATAGATTGG-GTCTATAGCGGCGCTTA
* * * * * * *
60200618 TGCAAAAAACGCCACTACAGATCGGGTTTCTTTACCGGCGTTTG
1 TACAAAAAACGCCACTATAGATTGGG--TCTATAGCGGCGCTTA
* * * ** * *
60200662 TACAGAAAATGCCACAATAGATATCTG-CTCTACCGGCGCTTA
1 TACAAAAAACGCCACTATAGAT-TGGGTCTATAGCGGCGCTTA
* * * *
60200704 TACAAAAAACGGCACTATAGCTCGGGTCTATAGCGGCACTTA
1 TACAAAAAACGCCACTATAGATTGGGTCTATAGCGGCGCTTA
* * *
60200746 TACAAAAAACGCCACTATAGCTCGGTTCTATAGCGGCGCTTA
1 TACAAAAAACGCCACTATAGATTGGGTCTATAGCGGCGCTTA
* * * *
60200788 TACAAAAAACGCCACGATAGCTCGGTTCTATAGCGGCGCTTA
1 TACAAAAAACGCCACTATAGATTGGGTCTATAGCGGCGCTTA
** *
60200830 TACAAAAAACGCCACTATAGATATGTTTCTTTA-CTGGCGCTTA
1 TACAAAAAACGCCACTATAGAT-TGGGTCTATAGC-GGCGCTTA
* * * * *
60200873 TA-AAGAAACGCCACTACAGATATGGCTCTGTATCGGCGCTTA
1 TACAAAAAACGCCACTATAGAT-TGGGTCTATAGCGGCGCTTA
* * * *
60200915 TGCAAAAAACGCCACTATAGATTGGAGTTTTTTGCGGCGCTTA
1 TACAAAAAACGCCACTATAGATTGG-GTCTATAGCGGCGCTTA
* * * *
60200958 TACATAAAACGCCACTAGAGATTGGTGGCTTTAGCGGCGCTTA
1 TACAAAAAACGCCACTATAGATTGG-GTCTATAGCGGCGCTTA
* *
60201001 TGCATAAAACGCCACTA
1 TACAAAAAACGCCACTA
60201018 GAGGCGGGTT
Statistics
Matches: 329, Mismatches: 62, Indels: 18
0.80 0.15 0.04
Matches are distributed among these distances:
41 1 0.00
42 180 0.55
43 119 0.36
44 28 0.09
45 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (42 bp):
TACAAAAAACGCCACTATAGATTGGGTCTATAGCGGCGCTTA
Found at i:60201401 original size:21 final size:21
Alignment explanation
Indices: 60201377--60201418 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
60201367 TCCCTCATTT
60201377 TAGCCTCTGATTCCCTCGCTG
1 TAGCCTCTGATTCCCTCGCTG
* *
60201398 TAGCCTCTGCTTCTCTCGCTG
1 TAGCCTCTGATTCCCTCGCTG
60201419 CTGCTGGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.38, G:0.19, T:0.36
Consensus pattern (21 bp):
TAGCCTCTGATTCCCTCGCTG
Found at i:60201495 original size:21 final size:21
Alignment explanation
Indices: 60201453--60201498 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
60201443 TTGAACCTCA
* *
60201453 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
*
60201474 GCTTCTCTCGTTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
60201495 GCTT
1 GCTT
60201499 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:60208352 original size:25 final size:26
Alignment explanation
Indices: 60208300--60208356 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
60208290 AATCCTGGAA
*
60208300 AAAAAAAACAGAAATACATTAGTACC
1 AAAAAAAACAGAAATACATTAGAACC
*
60208326 AAAAAAAACAGAAGTA-ATTA-AAGCC
1 AAAAAAAACAGAAATACATTAGAA-CC
60208351 AAAAAA
1 AAAAAA
60208357 CTTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.04
25 12 0.43
26 15 0.54
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (26 bp):
AAAAAAAACAGAAATACATTAGAACC
Found at i:60208978 original size:2 final size:2
Alignment explanation
Indices: 60208973--60209020 Score: 78
Period size: 2 Copynumber: 23.5 Consensus size: 2
60208963 AACATCACCA
*
60208973 AT AT AT AT AT AT AT AT AT AT AT TT 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 AT AT AT AT
60209015 AGT AT A
1 A-T AT A
60209021 CCATATACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60212765 original size:41 final size:41
Alignment explanation
Indices: 60212700--60212779 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
60212690 TTCTTACACA
60212700 AACGCCGCTATAGACCCAAGATTTACCGGC-ACTTCTCCAGG
1 AACGCCGCTATAGACCCAAGATTTACCGGCGA-TTCTCCAGG
* *
60212741 AACGCCGCTATAGACCGGAA-ATTTAGCGGCGATTCTCCA
1 AACGCCGCTATAGACC-CAAGATTTACCGGCGATTCTCCA
60212780 TAAACGTCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 32 0.91
42 3 0.09
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (41 bp):
AACGCCGCTATAGACCCAAGATTTACCGGCGATTCTCCAGG
Found at i:60213099 original size:114 final size:112
Alignment explanation
Indices: 60212904--60213251 Score: 473
Period size: 113 Copynumber: 3.1 Consensus size: 112
60212894 CGCTTAACGC
* * * * *
60212904 AAAACGCCACTGTAGAACGGATTATTAGCGGCGTTTGGGAAAATACCGCCACTAGTGTTCCAAAA
1 AAAACGCCGCTGTAGAACGGAGTATTAGCGGCGCTTGGGAAAA-ACCGCCACTAATGTTCCCAAA
* * *
60212969 TATACGAAAACGGCGTCGTTCTGTGTTACTGTATTTGCGACGCATTTTGT
65 TATATGAAAACGGCGTCGTTCTGTGTTACTCTA-TTGCGGCGC-TTTTGT
* * *
60213019 AAAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAAT
1 AAAACGCCGCTGTAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAAT
* * * *
60213084 ATATGAAAACGGCGTCGTTCTGTATTACTCCATTGCGGCTCTTTGTAT
66 ATATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTT-TGT
*
60213132 AAAACGCCGCTGTAGAACGGAGTTTTAGCGGCGCTT-GGAAATAACCGCCACTAATGTTCCCAAA
1 AAAACGCCGCTGTAGAACGGAGTATTAGCGGCGCTTGGGAAA-AACCGCCACTAATGTTCCCAAA
* *
60213196 TATATGAAAACAGCGTCGTTCTGTGTGACTCTATTGCGGCGCTTTTTGT
65 TATATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGC-TTTTGT
60213245 AAAACGC
1 AAAACGC
60213252 TGTTAATGCT
Statistics
Matches: 205, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
112 7 0.03
113 110 0.54
114 51 0.25
115 37 0.18
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (112 bp):
AAAACGCCGCTGTAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAAT
ATATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTGT
Found at i:60213484 original size:5 final size:5
Alignment explanation
Indices: 60213474--60213498 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
60213464 TTCATACACA
60213474 GATTT GATTT GATTT GATTT GATTT
1 GATTT GATTT GATTT GATTT GATTT
60213499 TAGACCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
GATTT
Found at i:60219778 original size:2 final size:2
Alignment explanation
Indices: 60219773--60219807 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
60219763 ACATACACAC
60219773 AT AT AT AT AT 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 AT AT AT AT AT A
60219808 AAATGCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60225205 original size:42 final size:42
Alignment explanation
Indices: 60225146--60225227 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
60225136 ATGCACAAAA
* * *
60225146 AAGTGCCCTTGTTGCCTCGTTCCAGCCATGAAAATGATTTCG
1 AAGTGCCATTGATGCCTCGTTCCAGCCATGAAAAGGATTTCG
60225188 AAGTGCCATTGATGCCTCGTTCCAGCCATGAAAAGGATTT
1 AAGTGCCATTGATGCCTCGTTCCAGCCATGAAAAGGATTT
60225228 TTAACTCACT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (42 bp):
AAGTGCCATTGATGCCTCGTTCCAGCCATGAAAAGGATTTCG
Found at i:60228597 original size:4 final size:4
Alignment explanation
Indices: 60228588--60228621 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
60228578 AGGTATGATT
60228588 TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
60228622 TATATGTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:60232957 original size:35 final size:35
Alignment explanation
Indices: 60232909--60232981 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
60232899 TTTGCCCTAA
*
60232909 CAAAATTTCTGGCTTCGGATAATTTATTTATGACT
1 CAAAATTTCTGGCTTCAGATAATTTATTTATGACT
* *
60232944 CAAAATATT-TGGCTTCATATAATTTATTTATGGCT
1 CAAAAT-TTCTGGCTTCAGATAATTTATTTATGACT
60232979 CAA
1 CAA
60232982 TTAAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (35 bp):
CAAAATTTCTGGCTTCAGATAATTTATTTATGACT
Found at i:60238011 original size:19 final size:20
Alignment explanation
Indices: 60237976--60238080 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
60237966 ATATAAATAA
* *
60237976 TATTTAAAATTCATAAAAAT
1 TATTAAAAATTGATAAAAAT
* *
60237996 TGTTAAAAATTG-TAAATAT
1 TATTAAAAATTGATAAAAAT
* *
60238015 CATT-AAAATTGTTAAATAAT
1 TATTAAAAATTGATAAA-AAT
* * *
60238035 GATTAGAAATTG-CAAAAAT
1 TATTAAAAATTGATAAAAAT
* *
60238054 TATTCAAAATTGATAAGAAT
1 TATTAAAAATTGATAAAAAT
*
60238074 TTTTAAA
1 TATTAAA
60238081 TTTTTAAAAA
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
18 7 0.11
19 24 0.38
20 27 0.42
21 6 0.09
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (20 bp):
TATTAAAAATTGATAAAAAT
Found at i:60241607 original size:33 final size:33
Alignment explanation
Indices: 60241565--60241654 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 33
60241555 CATGTCGAGA
*
60241565 TCCTTGATGCCGAGTGCAGGCATAGGTGAGAAC
1 TCCTTGATGCCGAGTGCAGGCATAGGTGAAAAC
60241598 TCCTTGATGCCGATGCCAAGTGCAGGCATAGGTGAAAAC
1 TCCTTGATGCC---G---AGTGCAGGCATAGGTGAAAAC
*
60241637 TCCTTGATGCTGAGTGCA
1 TCCTTGATGCCGAGTGCA
60241655 TGTATGAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
33 17 0.35
36 2 0.04
39 30 0.61
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (33 bp):
TCCTTGATGCCGAGTGCAGGCATAGGTGAAAAC
Found at i:60241624 original size:39 final size:39
Alignment explanation
Indices: 60241570--60241646 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
60241560 CGAGATCCTT
* *
60241570 GATGCCGAGTGCAGGCATAGGTGAGAACTCCTTGATGCC
1 GATGCCAAGTGCAGGCATAGGTGAAAACTCCTTGATGCC
60241609 GATGCCAAGTGCAGGCATAGGTGAAAACTCCTTGATGC
1 GATGCCAAGTGCAGGCATAGGTGAAAACTCCTTGATGC
60241647 TGAGTGCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (39 bp):
GATGCCAAGTGCAGGCATAGGTGAAAACTCCTTGATGCC
Found at i:60249550 original size:17 final size:17
Alignment explanation
Indices: 60249528--60249563 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60249518 TTAATTCCCT
60249528 ATAAATCATTTCATTTC
1 ATAAATCATTTCATTTC
* *
60249545 ATAAATGATTTGATTTC
1 ATAAATCATTTCATTTC
60249562 AT
1 AT
60249564 TCATTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (17 bp):
ATAAATCATTTCATTTC
Found at i:60250084 original size:84 final size:84
Alignment explanation
Indices: 60249927--60250084 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 84
60249917 AAACTAGCGC
* * *
60249927 GGACGGACTGCTGTTGTCCAGCCTGGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACGC
1 GGACGGACTGCCGTTGTCCAGCCTCGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACAC
**
60249992 CTGTAGTACCGTATGGCGT
66 CTCAAGTACCGTATGGCGT
* * ** *
60250011 GGACGGACTGCCGTTGTCCAGCCTCGAATCTACAGGAAACCTTCTACAGTTTGGTAGGGCGACAC
1 GGACGGACTGCCGTTGTCCAGCCTCGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACAC
60250076 CTCAAGTAC
66 CTCAAGTAC
60250085 AAGATGGCGG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (84 bp):
GGACGGACTGCCGTTGTCCAGCCTCGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACAC
CTCAAGTACCGTATGGCGT
Found at i:60250102 original size:84 final size:84
Alignment explanation
Indices: 60249929--60250104 Score: 212
Period size: 84 Copynumber: 2.1 Consensus size: 84
60249919 ACTAGCGCGG
* * *
60249929 ACGGACTGCTGTTGTCCAGCCTGGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACGCCT
1 ACGGACTGCCGTTGTCCAGCCTCGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACACCT
** * *
60249994 GTAGTACCGTATGGCGTGG
66 CAAGTACAGTATGGCGTGC
* * ** *
60250013 ACGGACTGCCGTTGTCCAGCCTCGAATCTACAGGAAACCTTCTACAGTTTGGTAGGGCGACACCT
1 ACGGACTGCCGTTGTCCAGCCTCGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACACCT
60250078 CAAGTACAAG-ATGGCG-GC
66 CAAGTAC-AGTATGGCGTGC
60250096 AGCGGACTG
1 A-CGGACTG
60250105 TTGTTTTCGG
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
83 2 0.03
84 75 0.96
85 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.31, T:0.19
Consensus pattern (84 bp):
ACGGACTGCCGTTGTCCAGCCTCGAACCTACAGGAAACCTTCGACAGCCTGGGAGGGCGACACCT
CAAGTACAGTATGGCGTGC
Found at i:60250961 original size:6 final size:6
Alignment explanation
Indices: 60250950--60250987 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
60250940 CTAATATAGT
60250950 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA AT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA AT
60250988 GCATGTCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:60251582 original size:2 final size:2
Alignment explanation
Indices: 60251575--60251604 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60251565 AGGTATGGTG
60251575 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60251605 AATTTGGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60252080 original size:75 final size:75
Alignment explanation
Indices: 60251955--60252104 Score: 212
Period size: 75 Copynumber: 2.0 Consensus size: 75
60251945 AACTCATGAA
* * * *
60251955 GAATTACAGTCTAAATATAATGAGTTGGCAAACGAAATTTATGCCAAAGACAATAGCAAAGGGGA
1 GAATTAAAGTCTAAATATAATGAGTTGGAAAACGAAATTTATGCCAAAGACAACAACAAAGGGGA
60252020 TGTTCAAGAC
66 TGTTCAAGAC
* * *
60252030 GAATTAAAGTCTAAA-ATTAATGAGTTGGAAAAGGAAATTTATGCCGAAGACAACAACAAAGTGG
1 GAATTAAAGTCTAAATA-TAATGAGTTGGAAAACGAAATTTATGCCAAAGACAACAACAAAGGGG
*
60252094 ATTTTCAAGAC
65 ATGTTCAAGAC
60252105 TTCCCTGCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 1 0.02
75 65 0.98
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (75 bp):
GAATTAAAGTCTAAATATAATGAGTTGGAAAACGAAATTTATGCCAAAGACAACAACAAAGGGGA
TGTTCAAGAC
Found at i:60254049 original size:21 final size:21
Alignment explanation
Indices: 60254025--60254064 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
60254015 AAAAAATGGC
60254025 AAAAAAG-GAAAAAAGAAAACT
1 AAAAAAGTGAAAAAA-AAAACT
60254046 AAAAAAGTGAAAAAAAAAA
1 AAAAAAGTGAAAAAAAAAA
60254065 TGTTGACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.80, C:0.03, G:0.12, T:0.05
Consensus pattern (21 bp):
AAAAAAGTGAAAAAAAAAACT
Found at i:60257510 original size:33 final size:33
Alignment explanation
Indices: 60257465--60257588 Score: 149
Period size: 33 Copynumber: 3.6 Consensus size: 33
60257455 GAGAGTGATC
*
60257465 GAGAACTACTTGATGCCGAGTGCAGGCATAGGT
1 GAGAACTCCTTGATGCCGAGTGCAGGCATAGGT
* * *
60257498 GAGAACTCCTTGATGCCGTGTGTAGGTATAGGT
1 GAGAACTCCTTGATGCCGAGTGCAGGCATAGGT
*
60257531 GTGAACTCCTTGATGCCGATGCCGAGTGCAGGCATAGGT
1 GAGAACTCC-T--T---GATGCCGAGTGCAGGCATAGGT
60257570 GAGAACTCCTTGATGCCGA
1 GAGAACTCCTTGATGCCGA
60257589 TACCGAGTGC
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
33 45 0.59
34 1 0.01
36 2 0.03
38 1 0.01
39 27 0.36
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (33 bp):
GAGAACTCCTTGATGCCGAGTGCAGGCATAGGT
Found at i:60257568 original size:39 final size:39
Alignment explanation
Indices: 60257476--60257610 Score: 192
Period size: 39 Copynumber: 3.6 Consensus size: 39
60257466 AGAACTACTT
60257476 GATGCCGAGTGCAGGCATAGGTGAGAACTCCTTGATGCC
1 GATGCCGAGTGCAGGCATAGGTGAGAACTCCTTGATGCC
* * *
60257515 G-T-----GTGTAGGTATAGGTGTGAACTCCTTGATGCC
1 GATGCCGAGTGCAGGCATAGGTGAGAACTCCTTGATGCC
60257548 GATGCCGAGTGCAGGCATAGGTGAGAACTCCTTGATGCC
1 GATGCCGAGTGCAGGCATAGGTGAGAACTCCTTGATGCC
*
60257587 GATACCGAGTGCAGGCATAGGTGA
1 GATGCCGAGTGCAGGCATAGGTGA
60257611 TTTGGTTTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
33 29 0.35
34 1 0.01
38 1 0.01
39 52 0.63
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (39 bp):
GATGCCGAGTGCAGGCATAGGTGAGAACTCCTTGATGCC
Found at i:60259334 original size:13 final size:13
Alignment explanation
Indices: 60259316--60259341 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60259306 TTTAACATTA
60259316 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
60259329 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
60259342 TTATGGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:60259610 original size:75 final size:75
Alignment explanation
Indices: 60259522--60259666 Score: 236
Period size: 75 Copynumber: 1.9 Consensus size: 75
60259512 AAAAGTGTTT
* * * *
60259522 TTTTTCTTTCAAGTCCTGGAAAATAAAGTTAAAAAAAATTTAAATTAAAGATTTAGATCATGAAA
1 TTTTTCATACAAGTCCTGAAAAATAAAGTTAAAAAAAAATTAAATTAAAGATTTAGATCATGAAA
60259587 TTAAACCTGC
66 TTAAACCTGC
* *
60259597 TTTTTCATACAAGTCCTGAAAAATCAAGTTAAAAAAAAATTAAATTAGAGATTTAGATCATGAAA
1 TTTTTCATACAAGTCCTGAAAAATAAAGTTAAAAAAAAATTAAATTAAAGATTTAGATCATGAAA
60259662 TTAAA
66 TTAAA
60259667 GTTAGTGAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (75 bp):
TTTTTCATACAAGTCCTGAAAAATAAAGTTAAAAAAAAATTAAATTAAAGATTTAGATCATGAAA
TTAAACCTGC
Found at i:60259812 original size:94 final size:95
Alignment explanation
Indices: 60259619--60259815 Score: 308
Period size: 95 Copynumber: 2.1 Consensus size: 95
60259609 GTCCTGAAAA
60259619 ATCAAGTTAAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAAGTTAGTGAAAAAATTCC
1 ATCAAGTTAAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAAGTTAGTGAAAAAATTCC
* *
60259684 TAATAATTTAGGTACCTCTAATAGTTGTGG
66 TAATAATTTACGTACCTCTAATAGTTGTCG
** *
60259714 ATCAAGTTCTAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAATTTAGT-AAATAAATT-
1 ATCAAGTTAAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAAGTTAGTGAAA-AAATTC
* *
60259777 CTAATAATTTACGTACCTCTGATCGTTGTCG
65 CTAATAATTTACGTACCTCTAATAGTTGTCG
60259808 ATCAAGTT
1 ATCAAGTT
60259816 TTTCAATCGT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
94 38 0.40
95 56 0.60
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (95 bp):
ATCAAGTTAAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAAGTTAGTGAAAAAATTCC
TAATAATTTACGTACCTCTAATAGTTGTCG
Found at i:60265650 original size:874 final size:867
Alignment explanation
Indices: 60264516--60266714 Score: 3986
Period size: 874 Copynumber: 2.5 Consensus size: 867
60264506 GCGGATACCT
60264516 GTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTGAGCCAA
1 GTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTGAGCCAA
60264581 TATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGATCTAATC
66 TATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGATCTAATC
60264646 TAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGGAGTGAC
131 TAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGGAGTGAC
*
60264711 ACCAGCAACCAATTCAATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGTCTCCTA
196 ACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGTCTCCTA
*
60264776 TGATGGTATGTATACTTTTTTGTTTAATTTAATTATATGTGTCATGTTATTATTTACTGATAATG
261 TGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTGATAATG
60264841 CTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTCTAATGC
326 CTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTCTAATGC
60264906 ACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCTATTCTT
391 ACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCTATTCTT
* *
60264971 TTCCTTTTAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCATCGAT-AAC
456 TTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCATCGATAAAC
* *
60265035 AGATCAATCCTTAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGTCTCCAATCTTACTTT
521 AGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTAAGTCTCCAA---T--TTT
*
60265100 TAACTTTTTAATTTGGATTTTCAAACCTCAACCAGAGCTGTGAACCACGATACTTTGGTATGCAT
581 TAACTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTGGTATGCAT
60265165 TATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGATAATCAT
646 TATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGATAATCAT
60265230 ATAAATACCATTCTCATAATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGTTGATCA
711 ATAAATACCATTCTCATAATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGTTGATCA
*
60265295 AAATCTTGCATTTACTAATTCAATATTATATCTTGCTTAATACATTGTTGCATTACATGCTCTCT
776 AAATCTTGCAGTTACTAATTCAATATTATATCTTGCTTAATACA---TTGCATTACATGCTCTCT
60265360 CTTTTCTTCACTGCAATGGAAGAATGTACA
838 CTTTTCTTCACTGCAATGGAAGAATGTACA
*
60265390 GTTGACTTTACTAATTCAATATCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTGAGCCAA
1 GTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTGAGCCAA
* *
60265455 TATGGTTTTGTTTTGCTGATTACCCATTGATCTGCAAACCGTTTGTGTTTTTTTGTGATCTAATC
66 TATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGATCTAATC
* *
60265520 TAAATTTCACAGACACATGCCTCGATAATGAACACTCCTAGCATGCTAACACCACATGGAGTGAC
131 TAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGGAGTGAC
60265585 ACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGTCTCCTA
196 ACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGTCTCCTA
60265650 TGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTGATAATG
261 TGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTGATAATG
60265715 CTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTCTAATGC
326 CTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTCTAATGC
* * **
60265780 ACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAGGATTTTGATGGAACTGTGTTTTTCTATTCTT
391 ACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCTATTCTT
60265845 TTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCATCGATAACA
456 TTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCATCGAT-A-A
60265910 ACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTAAGTCTCCAATTTTTAA
519 ACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTAAGTCTCCAATTTTTAA
60265975 CTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTGGTATGCATTAT
584 CTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTGGTATGCATTAT
60266040 TTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGATAATCATATA
649 TTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGATAATCATATA
* *
60266105 AATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGTTGATCAAAA
714 AATACCATTCTCATAATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGTTGATCAAAA
60266170 TCTTGCAGTTACTAATTCAATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTC
779 TCTTGCAGTTACTAATTCAATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTC
60266235 TTCACTGCAATGGAAGAATGTACA
844 TTCACTGCAATGGAAGAATGTACA
60266259 GTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTGAGCCAA
1 GTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTGAGCCAA
*
60266324 TATGGTTTTGTTTGGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGATCTAATC
66 TATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGATCTAATC
**
60266389 TAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGGAGTGGG
131 TAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGGAGTGAC
* *
60266454 ACCAACAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGTCTCGTA
196 ACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGTCTCCTA
* *
60266519 TGATGGTATGCATACTTTTTTGTTTAATTTAATGATACGTGTCATGTTATTATTTACTGATAATG
261 TGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTGATAATG
* * *** * *
60266584 CATGAAATTTATATATCAATGATACGTAAAAGAATATTACTTACAATAATTCTCTTTTCTGATGC
326 CTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTCTAATGC
* *
60266649 ACTAGAATTTTTTTGTTTTGCTGATTGGAAAGAAGATTTTGATGCAGTTGTGTTTTTCTGTTCTT
391 ACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCTATTCTT
60266714 T
456 T
60266715 CCGTCTCATG
Statistics
Matches: 1278, Mismatches: 44, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
869 479 0.37
872 238 0.19
874 504 0.39
877 57 0.04
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (867 bp):
GTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTGAGCCAA
TATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGATCTAATC
TAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGGAGTGAC
ACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGTCTCCTA
TGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTGATAATG
CTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTCTAATGC
ACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCTATTCTT
TTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCATCGATAAAC
AGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTAAGTCTCCAATTTTTAACT
TTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTGGTATGCATTATTT
TTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGATAATCATATAAA
TACCATTCTCATAATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGTTGATCAAAATC
TTGCAGTTACTAATTCAATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTCTT
CACTGCAATGGAAGAATGTACA
Done.