Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 57 of 64
Found at i:9306544 original size:62 final size:62
Alignment explanation
Indices: 9306473--9306597 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
9306463 GCTAAGATAG
* * *
9306473 TCATCTTCATTACCCAGTAGCTGCTCAAGTTTATCAAGACTTGGAAGGCGTTTGTCAGGGAT
1 TCATCTTCATTACCCAATAGCTGCTCAAGTTTATCAAAACATGGAAGGCGTTTGTCAGGGAT
*
9306535 TCATCTTCATTACCCAATAGCTGCTCAAGTTTATCAAAACATGGATGGCGTTTGTCAGGGAT
1 TCATCTTCATTACCCAATAGCTGCTCAAGTTTATCAAAACATGGAAGGCGTTTGTCAGGGAT
9306597 T
1 T
9306598 ACAGGTTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (62 bp):
TCATCTTCATTACCCAATAGCTGCTCAAGTTTATCAAAACATGGAAGGCGTTTGTCAGGGAT
Found at i:9308390 original size:15 final size:16
Alignment explanation
Indices: 9308356--9308396 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
9308346 TGCCTACTGC
9308356 ATAAAATTATAATAAA
1 ATAAAATTATAATAAA
* *
9308372 ATAAAATTA-GATTAA
1 ATAAAATTATAATAAA
9308387 ATAAAATTAT
1 ATAAAATTAT
9308397 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
ATAAAATTATAATAAA
Found at i:9308464 original size:45 final size:50
Alignment explanation
Indices: 9308360--9308459 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
9308350 TACTGCATAA
*
9308360 AATTATAATAAAATAAAATTAGATTAAATAAAATTATTTTATTTTATATT
1 AATTATAATAAAATAAAATTAAATTAAATAAAATTATTTTATTTTATATT
* * *
9308410 AATTATAATAAAATTAAATTAAATTAAGTAATATTATTTTATTTTATATT
1 AATTATAATAAAATAAAATTAAATTAAATAAAATTATTTTATTTTATATT
9308460 TAATATGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (50 bp):
AATTATAATAAAATAAAATTAAATTAAATAAAATTATTTTATTTTATATT
Found at i:9308849 original size:16 final size:17
Alignment explanation
Indices: 9308823--9308857 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9308813 TGTATTTTGA
9308823 AATTAAAAATAATAAAT
1 AATTAAAAATAATAAAT
*
9308840 AATT-AAAATAATATAT
1 AATTAAAAATAATAAAT
9308856 AA
1 AA
9308858 CATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTAAAAATAATAAAT
Found at i:9317388 original size:18 final size:18
Alignment explanation
Indices: 9317360--9317394 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
9317350 TATTTATTAT
9317360 TTTTAAATTTTTTTGAAAA
1 TTTTAAA-TTTTTTGAAAA
9317379 TTTT-AATTTTTTGAAA
1 TTTTAAATTTTTTGAAA
9317395 GCATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 2 0.12
19 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTAAATTTTTTGAAAA
Found at i:9318918 original size:25 final size:26
Alignment explanation
Indices: 9318868--9318922 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
9318858 AACTTTGACA
* *
9318868 AATTATGTTAAAAAATATATTTTAAT
1 AATTATGGTAAAAAATATATTATAAT
9318894 AATTATGGTAAAATAATA-A-TATAAT
1 AATTATGGTAAAA-AATATATTATAAT
9318919 AATT
1 AATT
9318923 TTAGTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 13 0.50
27 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (26 bp):
AATTATGGTAAAAAATATATTATAAT
Found at i:9320867 original size:19 final size:19
Alignment explanation
Indices: 9320843--9320879 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9320833 TTATTTTATA
* *
9320843 AAAATTTAAAATATATATT
1 AAAATTAAAAAAATATATT
9320862 AAAATTAAAAAAATATAT
1 AAAATTAAAAAAATATAT
9320880 AATTTAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTAAAAAAATATATT
Found at i:9321053 original size:16 final size:16
Alignment explanation
Indices: 9321029--9321060 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9321019 TACCTTCACC
*
9321029 GACTTTGGGAAGCTTT
1 GACTGTGGGAAGCTTT
9321045 GACTGTGGGAAGCTTT
1 GACTGTGGGAAGCTTT
9321061 TGAACATGGA
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:0.19, C:0.12, G:0.34, T:0.34
Consensus pattern (16 bp):
GACTGTGGGAAGCTTT
Found at i:9327711 original size:138 final size:138
Alignment explanation
Indices: 9327502--9327843 Score: 494
Period size: 138 Copynumber: 2.5 Consensus size: 138
9327492 GAGTTCCTAA
* * * * **
9327502 ATACTATTGCTAATTGTCCGTTTTAGTAATTAAGTTATTAGCTCAATATGGCTTTCCTGAACACA
1 ATACTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACTCAATATCACTTTCCTGAACACA
* ** *
9327567 CAAGTATATTTATAAACCCACTCATCGAGTTTCTAAATTTAAACTACA-ATATGGGACGGGATA-
66 CAAGTATATTTATAAACCCACTCATCGAGTTTCTAAATTTAAACTA-ATATATAGGACAAGAAAC
9327630 CGGACAATTT
130 CGG-CAATTT
*
9327640 ATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACTCAATATCACTTTCCTGAACACA
1 ATACTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACTCAATATCACTTTCCTGAACACA
* * *
9327705 CGAGTATATTTATAAACCCACTCATTGAGTTTCTAAATTTAAACTAATATATAGGATAAGAAACC
66 CAAGTATATTTATAAACCCACTCATCGAGTTTCTAAATTTAAACTAATATATAGGACAAGAAACC
9327770 GGCAATTT
131 GGCAATTT
* *
9327778 ATACTTTTGCTACTTATCCGTTTTAGTAATCAAGTTAATAACTC--TATCACTTTCCTGAACACA
1 ATACTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACTCAATATCACTTTCCTGAACACA
9327841 CAA
66 CAA
9327844 TGATTCTATA
Statistics
Matches: 184, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
136 21 0.11
137 1 0.01
138 159 0.86
139 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (138 bp):
ATACTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACTCAATATCACTTTCCTGAACACA
CAAGTATATTTATAAACCCACTCATCGAGTTTCTAAATTTAAACTAATATATAGGACAAGAAACC
GGCAATTT
Found at i:9327964 original size:164 final size:165
Alignment explanation
Indices: 9327690--9328009 Score: 516
Period size: 164 Copynumber: 1.9 Consensus size: 165
9327680 ACTCAATATC
* * *
9327690 ACTTTCCTGAACACACGAGTATATTTATAAACCCACTCATTGAGTTTCTAAATTTAAACTAATAT
1 ACTTTCCTGAACACACAAATATATCTATAAACCCACTCATTGAGTTTCTAAATTTAAACTAATAT
*
9327755 ATAGGATAAGAAACCGGCAATTTATACTTTTGCTACTTATCCGTTTTAGTAATCAAGTTAATAAC
66 ATAGGATAAGAAACCGGCAATTTATACTATTGCTACTTATCCGTTTTAGTAATCAAGTTAATAAC
*
9327820 T-CTATCACTTTCCTGAACACACAATGATTCTATA
131 TAATATCACTTTCCTGAACACACAATGATTCTATA
* *
9327854 ACTTTCCTGAGCACACAAATATATCTATAAACCCACTCATTGAGTTTCTAAATTTAAACTACTAT
1 ACTTTCCTGAACACACAAATATATCTATAAACCCACTCATTGAGTTTCTAAATTTAAACTAATAT
* * * * *
9327919 ATGGGATAGGATACCGGCAATTTATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAAC
66 ATAGGATAAGAAACCGGCAATTTATACTATTGCTACTTATCCGTTTTAGTAATCAAGTTAATAAC
9327984 TAAATATCACTTTCCTGAACACACAA
131 T-AATATCACTTTCCTGAACACACAA
9328010 GTATATTTAT
Statistics
Matches: 142, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
164 120 0.85
166 22 0.15
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (165 bp):
ACTTTCCTGAACACACAAATATATCTATAAACCCACTCATTGAGTTTCTAAATTTAAACTAATAT
ATAGGATAAGAAACCGGCAATTTATACTATTGCTACTTATCCGTTTTAGTAATCAAGTTAATAAC
TAATATCACTTTCCTGAACACACAATGATTCTATA
Found at i:9328102 original size:138 final size:136
Alignment explanation
Indices: 9327854--9328145 Score: 426
Period size: 138 Copynumber: 2.1 Consensus size: 136
9327844 TGATTCTATA
* *
9327854 ACTTTCCTGAGCACACAAATATATCTATAAACCCACTCATTGAGTTTCTAAATTTAAACTACTAT
1 ACTTTCCTGAACACACAAATATATCTATAAACCCACTCATTGACTTTCTAAATTTAAACTACTAT
* * * * *
9327919 ATGGGATAGGATACCGGCAATTTATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAAC
66 ATAGGATAAGAAACCGGCAATTTATCATATTGCTACTCGTCCGTTTTAGTAATCAAGTTAATAAC
9327984 TAAATATC
131 T--ATATC
* *
9327992 ACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGACTTTCTAAATTTAAACTACTAT
1 ACTTTCCTGAACACACAAATATATCTATAAACCCACTCATTGACTTTCTAAATTTAAACTACTAT
9328057 ATAGGATAAGAAACCGGCAATTTAT-AT-TTCCGCTACTCGTCCGTTTTAGTAATCAAGTTAATA
66 ATAGGATAAGAAACCGGCAATTTATCATATT--GCTACTCGTCCGTTTTAGTAATCAAGTTAATA
*
9328120 ACTCTATC
129 ACTATATC
* *
9328128 ACTCTACTGAACACACAA
1 ACTTTCCTGAACACACAA
9328146 TAACTCTATA
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
136 22 0.16
137 1 0.01
138 117 0.84
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (136 bp):
ACTTTCCTGAACACACAAATATATCTATAAACCCACTCATTGACTTTCTAAATTTAAACTACTAT
ATAGGATAAGAAACCGGCAATTTATCATATTGCTACTCGTCCGTTTTAGTAATCAAGTTAATAAC
TATATC
Found at i:9328102 original size:302 final size:302
Alignment explanation
Indices: 9327553--9328188 Score: 1078
Period size: 302 Copynumber: 2.1 Consensus size: 302
9327543 CTCAATATGG
* *
9327553 CTTTCCTGAACACACAAGTATATTTATAAACCCACTCATCGAGTTTCTAAATTTAAACTACAATA
1 CTTTCCTGAACACACAAATATATCTATAAACCCACTCATCGAGTTTCTAAATTTAAACTACAATA
*
9327618 TGGGACGGGATACGGACAATTTATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACT
66 TGGGACAGGATACGGACAATTTATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACT
* * *
9327683 CAATATCACTTTCCTGAACACACGAGTATATTTATAAACCCACTCATTGAGTTTCTAAATTTAAA
131 AAATATCACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGACTTTCTAAATTTAAA
* *
9327748 CTAATATATAGGATAAGAAACCGGCAATTTATACTTTTGCTACTTATCCGTTTTAGTAATCAAGT
196 CTAATATATAGGATAAGAAACCGGCAATTTATACTTTCGCTACTCATCCGTTTTAGTAATCAAGT
* * * *
9327813 TAATAACTCTATCACTTTCCTGAACACACAATGATTCTATAA
261 TAATAACTCTATCACTCTACTGAACACACAATAACTCTATAA
* * *
9327855 CTTTCCTGAGCACACAAATATATCTATAAACCCACTCATTGAGTTTCTAAATTTAAACTACTATA
1 CTTTCCTGAACACACAAATATATCTATAAACCCACTCATCGAGTTTCTAAATTTAAACTACAATA
*
9327920 TGGGATAGGATACCGG-CAATTTATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAAC
66 TGGGACAGGATA-CGGACAATTTATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAAC
9327984 TAAATATCACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGACTTTCTAAATTTAA
130 TAAATATCACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGACTTTCTAAATTTAA
* *
9328049 ACTACTATATAGGATAAGAAACCGGCAATTTATA-TTTCCGCTACTCGTCCGTTTTAGTAATCAA
195 ACTAATATATAGGATAAGAAACCGGCAATTTATACTTT-CGCTACTCATCCGTTTTAGTAATCAA
9328113 GTTAATAACTCTATCACTCTACTGAACACACAATAACTCTATAA
259 GTTAATAACTCTATCACTCTACTGAACACACAATAACTCTATAA
9328157 CTTTCCTGAACACACAAATATATCTATAAACC
1 CTTTCCTGAACACACAAATATATCTATAAACC
9328189 TAGTAATCAA
Statistics
Matches: 313, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
301 3 0.01
302 307 0.98
303 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (302 bp):
CTTTCCTGAACACACAAATATATCTATAAACCCACTCATCGAGTTTCTAAATTTAAACTACAATA
TGGGACAGGATACGGACAATTTATCCTATTGCTACTTGTCCGTTTTAGTAATCAAGTTAATAACT
AAATATCACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGACTTTCTAAATTTAAA
CTAATATATAGGATAAGAAACCGGCAATTTATACTTTCGCTACTCATCCGTTTTAGTAATCAAGT
TAATAACTCTATCACTCTACTGAACACACAATAACTCTATAA
Found at i:9328148 original size:28 final size:28
Alignment explanation
Indices: 9328116--9328259 Score: 116
Period size: 28 Copynumber: 5.1 Consensus size: 28
9328106 TAATCAAGTT
* *
9328116 AATAACTCTATCACTCTACTGAACACAC
1 AATAACTCTATAACTCTCCTGAACACAC
*
9328144 AATAACTCTATAACTTTCCTGAACACAC
1 AATAACTCTATAACTCTCCTGAACACAC
** *
9328172 AAATATA-TCTATAAAC-CTAGT-AATCA-AGTT
1 -AATA-ACTCTAT-AACTCTCCTGAA-CACA--C
* *
9328202 AATAACTCTATCACTCTCCTGAACACAT
1 AATAACTCTATAACTCTCCTGAACACAC
* *
9328230 AATAACTCTATAACTTTCCTGCACACAC
1 AATAACTCTATAACTCTCCTGAACACAC
9328258 AA
1 AA
9328260 ATATATCTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
28 58 0.63
29 27 0.29
30 7 0.08
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.28
Consensus pattern (28 bp):
AATAACTCTATAACTCTCCTGAACACAC
Found at i:9328248 original size:86 final size:86
Alignment explanation
Indices: 9328103--9328274 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
9328093 TCGTCCGTTT
9328103 TAGTAATCAAGTTAATAACTCTATCACTCTACTGAACACACAATAACTCTATAACTTTCCTGAAC
1 TAGTAATCAAGTTAATAACTCTATCACTCTACTGAACACACAATAACTCTATAACTTTCCTGAAC
9328168 ACACAAATATATCTATAAACC
66 ACACAAATATATCTATAAACC
* * *
9328189 TAGTAATCAAGTTAATAACTCTATCACTCTCCTGAACACATAATAACTCTATAACTTTCCTGCAC
1 TAGTAATCAAGTTAATAACTCTATCACTCTACTGAACACACAATAACTCTATAACTTTCCTGAAC
9328254 ACACAAATATATCTATAAACC
66 ACACAAATATATCTATAAACC
9328275 CACTCATTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (86 bp):
TAGTAATCAAGTTAATAACTCTATCACTCTACTGAACACACAATAACTCTATAACTTTCCTGAAC
ACACAAATATATCTATAAACC
Found at i:9328492 original size:138 final size:138
Alignment explanation
Indices: 9328229--9328568 Score: 418
Period size: 138 Copynumber: 2.5 Consensus size: 138
9328219 CCTGAACACA
* * * *
9328229 TAATAACTC--TATAACTTTCCTGCACACACAAATATATCTATAAACCCACTCATTGAGTTTCTA
1 TAATAACTCAATATCACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGAGTTTCTA
* * *
9328292 AATTTAAACTACTATATAGGATATGATACCGGTAATTTATACTTTTGCTACTCGTCCATTTTAGT
66 AATTTAAACTACTATATAGGATAGGATACCGGAAATTTATACTATTGCTACTCGTCCATTTTAGT
9328357 AATCAAGT
131 AATCAAGT
* * * *
9328365 TAATGACTCAGTATCCCTTTCCTGAACACACAAGTATGTTTATAAACCCACTCATTGAGTTTCTA
1 TAATAACTCAATATCACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGAGTTTCTA
* * ** * * *
9328430 AATTTAAACTACTATATGGGGTAGGATATTGGAAATTTATCCTATTGCTAGTTC-TCCGTTTTAG
66 AATTTAAACTACTATATAGGATAGGATACCGGAAATTTATACTATTGCTA-CTCGTCCATTTTAG
9328494 TAATCAAGT
130 TAATCAAGT
* * * *
9328503 TAATAACTCAATATCAATTTCCTTAACACACAACAAGGATATTTATATA-CCACTCATTGAGTTT
1 TAATAACTCAATATCACTTTCC-TGA-ACAC-ACAAGTATATTTATAAACCCACTCATTGAGTTT
9328567 CT
63 CT
9328569 GTGACACACA
Statistics
Matches: 173, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
136 8 0.05
138 126 0.73
139 4 0.02
140 21 0.12
141 14 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (138 bp):
TAATAACTCAATATCACTTTCCTGAACACACAAGTATATTTATAAACCCACTCATTGAGTTTCTA
AATTTAAACTACTATATAGGATAGGATACCGGAAATTTATACTATTGCTACTCGTCCATTTTAGT
AATCAAGT
Found at i:9329997 original size:5 final size:5
Alignment explanation
Indices: 9329981--9330024 Score: 63
Period size: 5 Copynumber: 8.6 Consensus size: 5
9329971 ACACAAAATT
9329981 ATAAA A-AAA ATAAA ATAAA ATAAA ATTATAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA A-TA-AA ATAAA ATAAA ATA
9330025 TTATTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.11
5 25 0.69
6 4 0.11
7 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:9330023 original size:17 final size:16
Alignment explanation
Indices: 9329981--9330023 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
9329971 ACACAAAATT
9329981 ATAAAA-AAAA-TAAA
1 ATAAAATAAAATTAAA
9329995 ATAAAATAAAATTATAA
1 ATAAAATAAAATTA-AA
9330012 ATAAAATAAAAT
1 ATAAAATAAAAT
9330024 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.23
15 4 0.15
16 2 0.08
17 14 0.54
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAATAAAATTAAA
Found at i:9330425 original size:19 final size:20
Alignment explanation
Indices: 9330401--9330444 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
9330391 CTTGAAATTA
*
9330401 ATAAAATAATATTTT-TAAT
1 ATAAAATAATATTTTAAAAT
*
9330420 ATAAAATATTATTTTAAAAT
1 ATAAAATAATATTTTAAAAT
9330440 ATAAA
1 ATAAA
9330445 TATATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAAAATAATATTTTAAAAT
Found at i:9331360 original size:31 final size:32
Alignment explanation
Indices: 9331325--9331390 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
9331315 CATTATACAT
*
9331325 AATTTTTATATAAAATATAATA-AAATATATA
1 AATTTTAATATAAAATATAATACAAATATATA
*** *
9331356 AATTTTAATATTTTATATGATACAAATATATA
1 AATTTTAATATAAAATATAATACAAATATATA
9331388 AAT
1 AAT
9331391 AATCAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
AATTTTAATATAAAATATAATACAAATATATA
Found at i:9335102 original size:2 final size:2
Alignment explanation
Indices: 9335095--9335129 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9335085 AGCTATCTTT
9335095 TA TA TA TA TA TA TA 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 T
9335130 TCATTGCAAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9336578 original size:15 final size:15
Alignment explanation
Indices: 9336558--9336590 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
9336548 CTCTCTCATA
9336558 TCTGAAGAATGCTGG
1 TCTGAAGAATGCTGG
9336573 TCTGAAGAATGCTGG
1 TCTGAAGAATGCTGG
9336588 TCT
1 TCT
9336591 CGGAAAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (15 bp):
TCTGAAGAATGCTGG
Found at i:9337545 original size:15 final size:15
Alignment explanation
Indices: 9337505--9337553 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
9337495 CATGAATAAT
* **
9337505 AAATAAATTATAATT
1 AAATAAATTTTAAAC
9337520 AAATAAA-TTTAAAC
1 AAATAAATTTTAAAC
9337534 AAATAAATTTTAAAC
1 AAATAAATTTTAAAC
9337549 AAATA
1 AAATA
9337554 TAAATGAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAATTTTAAAC
Found at i:9343853 original size:2 final size:2
Alignment explanation
Indices: 9343848--9343872 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9343838 TGTGTGTGTT
9343848 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
9343873 CTACACAGTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9346592 original size:30 final size:32
Alignment explanation
Indices: 9346556--9346649 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 32
9346546 TATATTTTAT
9346556 ATTTTTATATCAATATAAAT-TAT-AA-TAATA
1 ATTTTTATAT-AATATAAATATATAAATTAATA
*
9346586 ATTTTTATATAAAATATAAATATATAAATTATTA
1 ATTTTTATAT--AATATAAATATATAAATTAATA
* * *
9346620 ATATTTTACATAATATAAATACATGAATTA
1 AT-TTTTATATAATATAAATATATAAATTA
9346650 TCATATATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
30 10 0.19
31 9 0.17
32 3 0.06
33 19 0.35
34 6 0.11
35 7 0.13
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (32 bp):
ATTTTTATATAATATAAATATATAAATTAATA
Found at i:9346608 original size:37 final size:36
Alignment explanation
Indices: 9346512--9346609 Score: 85
Period size: 37 Copynumber: 2.7 Consensus size: 36
9346502 TTCCATTTAA
*
9346512 AATTTTAATA-AAAATTATAAATA-AAATTAAAATAT
1 AATTTTTATATAAAA-TATAAATATAAATTAAAATAT
*** * *
9346547 -ATATTTTATATTTTTATATCAATATAAATTATAATAAT
1 AAT-TTTTATA-TAAAATATAAATATAAATTAAAAT-AT
9346585 AATTTTTATATAAAATATAAATATA
1 AATTTTTATATAAAATATAAATATA
9346610 TAAATTATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
34 2 0.04
35 6 0.13
36 7 0.15
37 21 0.45
38 9 0.19
39 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (36 bp):
AATTTTTATATAAAATATAAATATAAATTAAAATAT
Found at i:9346617 original size:39 final size:36
Alignment explanation
Indices: 9346568--9346662 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 36
9346558 TTTTATATCA
*
9346568 ATATAAATTATAATAATAATTTTTATATAAAATATAAAT
1 ATATAAATTAT-ATAATAATTTTTACAT--AATATAAAT
9346607 ATATAAATTAT-TAAT-A-TTTTACATAATATAAAT
1 ATATAAATTATATAATAATTTTTACATAATATAAAT
* *
9346640 ACATGAATTATCATATATAATTT
1 ATATAAATTAT-ATA-ATAATTT
9346663 GTAACAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
33 18 0.38
35 9 0.19
36 3 0.06
37 5 0.10
38 2 0.04
39 11 0.23
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (36 bp):
ATATAAATTATATAATAATTTTTACATAATATAAAT
Found at i:9352180 original size:17 final size:16
Alignment explanation
Indices: 9352158--9352192 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
9352148 TTAGTTTGTT
*
9352158 TTATTTTATTTTATATA
1 TTATTTTATATTA-ATA
9352175 TTATTTTATATTAATA
1 TTATTTTATATTAATA
9352191 TT
1 TT
9352193 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTATATTAATA
Found at i:9353844 original size:15 final size:15
Alignment explanation
Indices: 9353824--9353883 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
9353814 TGTAAATTAG
9353824 ATGTAAATTACTTAT
1 ATGTAAATTACTTAT
9353839 ATGTAAATTACTTAT
1 ATGTAAATTACTTAT
** *
9353854 AT-TAGAGATTTTTTTT
1 ATGTA-A-ATTACTTAT
9353870 ATGTAAATTACTTA
1 ATGTAAATTACTTA
9353884 CAATTAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
14 2 0.06
15 23 0.64
16 9 0.25
17 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (15 bp):
ATGTAAATTACTTAT
Found at i:9355034 original size:2 final size:2
Alignment explanation
Indices: 9354987--9355016 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9354977 GTTGATAAGC
9354987 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9355017 TTATTCTAAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9358475 original size:18 final size:18
Alignment explanation
Indices: 9358452--9358578 Score: 74
Period size: 18 Copynumber: 7.4 Consensus size: 18
9358442 CTCTTCTCAC
*
9358452 AATTTTTTAAAATCTTAT
1 AATTTTTTAAAATCATAT
*
9358470 AATTTTTCAAAA--ATA-
1 AATTTTTTAAAATCATAT
*
9358485 AATTTTTTGAAAGTCATAT
1 AATTTTTT-AAAATCATAT
* *
9358504 AATTTCTTAAAA--ATAA
1 AATTTTTTAAAATCATAT
** * *
9358520 AATTTTGAAAAATTATAA
1 AATTTTTTAAAATCATAT
*
9358538 AATTTTTTGAAA--ATA-
1 AATTTTTTAAAATCATAT
*
9358553 AATTTTTAAAAAATCATA-
1 AATTTTT-TAAAATCATAT
9358571 AATTTTTT
1 AATTTTTT
9358579 TTATAATTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
15 14 0.17
16 23 0.27
18 40 0.48
19 7 0.08
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (18 bp):
AATTTTTTAAAATCATAT
Found at i:9358578 original size:33 final size:33
Alignment explanation
Indices: 9358452--9358578 Score: 130
Period size: 34 Copynumber: 3.8 Consensus size: 33
9358442 CTCTTCTCAC
* * *
9358452 AATTTTTTAAAATCTTATAATTTTTCAAAAATA
1 AATTTTTAAAAATCATATAATTTTTTAAAAATA
* * *
9358485 AATTTTTTGAAAGTCATATAATTTCTTAAAAATAA
1 AA-TTTTTAAAAATCATATAATTTTTTAAAAAT-A
* * * *
9358520 AATTTTGAAAAATTATAAAATTTTTTGAAAATA
1 AATTTTTAAAAATCATATAATTTTTTAAAAATA
9358553 AATTTTTAAAAAATCATA-AATTTTTT
1 AATTTTT-AAAAATCATATAATTTTTT
9358579 TTATAATTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
33 17 0.22
34 57 0.74
35 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (33 bp):
AATTTTTAAAAATCATATAATTTTTTAAAAATA
Found at i:9358662 original size:33 final size:33
Alignment explanation
Indices: 9358606--9358703 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 33
9358596 GAAAATTCAT
* * **
9358606 TTTTTAAAAAGTTTATAACTTTTTAAAAATCTA
1 TTTTCAAAAAGTTTATAATTTTTTAAAAATAAA
*
9358639 TTTTCAAAAAGTTATATGATTTTTTAAAAATAAA
1 TTTTCAAAAAGTT-TATAATTTTTTAAAAATAAA
*
9358673 TTTTCGAAAAGATTTATAATTTTTTAAAAAT
1 TTTTCAAAAAG-TTTATAATTTTTTAAAAAT
9358704 TTATAAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
33 12 0.21
34 42 0.75
35 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (33 bp):
TTTTCAAAAAGTTTATAATTTTTTAAAAATAAA
Found at i:9366454 original size:41 final size:41
Alignment explanation
Indices: 9366397--9366479 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
9366387 CATATTTATT
9366397 TAGCATCCCATTAAATTGTGCAATTAAAAATATAAAAAGTG
1 TAGCATCCCATTAAATTGTGCAATTAAAAATATAAAAAGTG
*
9366438 TAGCATCCCATTAAATTGTGCAATTAAAAATGTAAAAAGTG
1 TAGCATCCCATTAAATTGTGCAATTAAAAATATAAAAAGTG
9366479 T
1 T
9366480 TATAGTTTAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (41 bp):
TAGCATCCCATTAAATTGTGCAATTAAAAATATAAAAAGTG
Found at i:9369336 original size:21 final size:20
Alignment explanation
Indices: 9369294--9369337 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9369284 TTTTTGAGTG
* *
9369294 AAATTAAATTTTTTATTTAT
1 AAATTAAATTTTTTACTAAT
*
9369314 AAATTAGATTTTTTTACTAAT
1 AAATTA-AATTTTTTACTAAT
9369335 AAA
1 AAA
9369338 ATATTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATTAAATTTTTTACTAAT
Found at i:9371193 original size:15 final size:16
Alignment explanation
Indices: 9371163--9371197 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9371153 ACTATTATAG
9371163 TTAAATATTAAAATAT
1 TTAAATATTAAAATAT
*
9371179 TTAAAT-TTAACATAT
1 TTAAATATTAAAATAT
9371194 TTAA
1 TTAA
9371198 TAAATCGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATTAAAATAT
Found at i:9371258 original size:22 final size:22
Alignment explanation
Indices: 9371228--9371276 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9371218 CGACTCAACA
* * *
9371228 ATTACTTAAATTAAATTTAAAT
1 ATTATTTAAATCAAATCTAAAT
*
9371250 TTTATTTAAATCAAATCTAAAT
1 ATTATTTAAATCAAATCTAAAT
9371272 ATTAT
1 ATTAT
9371277 AATTATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTATTTAAATCAAATCTAAAT
Found at i:9372789 original size:21 final size:20
Alignment explanation
Indices: 9372757--9372795 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9372747 ATAATATACA
*
9372757 AAAATTAAAAATTAAATTTT
1 AAAATTAAAAATGAAATTTT
*
9372777 AAAATTGATAAATGAAATT
1 AAAATT-AAAAATGAAATT
9372796 GAATTGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAATTAAAAATGAAATTTT
Found at i:9373415 original size:62 final size:62
Alignment explanation
Indices: 9373312--9373430 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
9373302 TAAGAAACAG
*
9373312 AAAAATAAAATAAAATAAAATGATACTCAATGCCACGTTGAAAATTTTACCACTTAAATAATA
1 AAAAATAAAATAAAATAAAA-GATACTCAATGCCACATTGAAAATTTTACCACTTAAATAATA
* * * *
9373375 AAAAATAAAATAAAATAAACA-ATACTCAATGCCATATTGAAAGTTTTGCCCCTTAA
1 AAAAATAAAATAAAATAAA-AGATACTCAATGCCACATTGAAAATTTTACCACTTAA
9373431 GCGATATGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 30 0.60
63 19 0.38
64 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (62 bp):
AAAAATAAAATAAAATAAAAGATACTCAATGCCACATTGAAAATTTTACCACTTAAATAATA
Found at i:9374628 original size:22 final size:24
Alignment explanation
Indices: 9374588--9374642 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
9374578 AATTACTATC
* *
9374588 TATAAAAAT-TTATTTAAAT-ATA
1 TATAAAAATATAATTAAAATAATA
9374610 T-TAAAAATATAATTAAAATAATA
1 TATAAAAATATAATTAAAATAATA
9374633 TATAAAAATA
1 TATAAAAATA
9374643 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 9 0.32
23 4 0.14
24 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TATAAAAATATAATTAAAATAATA
Found at i:9378842 original size:118 final size:117
Alignment explanation
Indices: 9378685--9378924 Score: 394
Period size: 119 Copynumber: 2.1 Consensus size: 117
9378675 TTCTTTTACT
* *
9378685 ATAA-AAAAATTTTGAATTTTTTATTTTAATAAATATGTTAAATTTTAAAAATATTTTAGTTT-C
1 ATAATAAAAATTTTGAATTTTTTAGTTTAATAAAAATGTTAAATTTTAAAAATATTTTAGTTTAC
*
9378748 TTAATATATTAGTTGTTATTATATGTAATTAATTATTAATAATATCACATTA
66 TTAATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCACATTA
*
9378800 ATAATAAAATATTTTGAATTTTTTTAGTTTAGTAAAAATGTTAAATTTTAAAAATATTTTAGTTT
1 ATAATAAAA-ATTTTGAA-TTTTTTAGTTTAATAAAAATGTTAAATTTTAAAAATATTTTAGTTT
* *
9378865 ATTTAATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCATATTA
64 ACTTAATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCACATTA
9378919 ATAATA
1 ATAATA
9378925 TTATTATTAT
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
115 4 0.03
116 4 0.03
117 8 0.07
118 43 0.37
119 56 0.49
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (117 bp):
ATAATAAAAATTTTGAATTTTTTAGTTTAATAAAAATGTTAAATTTTAAAAATATTTTAGTTTAC
TTAATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCACATTA
Found at i:9378908 original size:14 final size:15
Alignment explanation
Indices: 9378891--9378933 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
9378881 GTTATTATAT
9378891 ATAAT-TAATTATTA
1 ATAATATAATTATTA
*
9378905 ATAATATCA-TATTA
1 ATAATATAATTATTA
*
9378919 ATAATATTATTATTA
1 ATAATATAATTATTA
9378934 TCATTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATATAATTATTA
Found at i:9378931 original size:43 final size:43
Alignment explanation
Indices: 9378882--9378966 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
9378872 ATATTAGTTG
*
9378882 TTATTATATATAATTAATTATTAAT-AA-TATCATATTAATAATA
1 TTATTAT-TATAATTAA-TATTAATCAATTATAATATTAATAATA
* * *
9378925 TTATTATTATCATTTATGTTAATCAATTATAATATTAATAAT
1 TTATTATTATAATTAATATTAATCAATTATAATATTAATAAT
9378967 TTAAATTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 6 0.17
42 9 0.25
43 21 0.58
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.51
Consensus pattern (43 bp):
TTATTATTATAATTAATATTAATCAATTATAATATTAATAATA
Found at i:9379822 original size:13 final size:13
Alignment explanation
Indices: 9379804--9379835 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9379794 TAGATTTTTC
9379804 AATATTATGATAG
1 AATATTATGATAG
*
9379817 AATATTATGATAT
1 AATATTATGATAG
9379830 AATATT
1 AATATT
9379836 GTAACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (13 bp):
AATATTATGATAG
Found at i:9384567 original size:1 final size:1
Alignment explanation
Indices: 9384561--9384585 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9384551 GCTTATGAGG
9384561 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
9384586 GAGGATGTTA
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:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9386849 original size:504 final size:509
Alignment explanation
Indices: 9384072--9387159 Score: 3642
Period size: 518 Copynumber: 6.1 Consensus size: 509
9384062 TTATCACGTA
* *
9384072 GCCTATGAGGTTTTAGGTATATAATTTATGTTAAATTAGTGATG-ATTGCTATCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
* * *
9384136 AGAAAGTTCCTTTAAATATTTT-TAGCACCAAAATGATTTAG-AGGATTTCATGAAGTGGTGTCA
66 AAAAAGTTCCTTTAAAT-TTTTATAGCACCAAAATGATTT-GTAGGATTTCATGAAGCGGTTTCA
* *
9384199 TTGTCTTTTGATACTC-TTCTCACTTATCAGTTTTTCACCCTCGTACATGAACATTCATTCCTTA
129 TTGTCTTTTGATACTCTTTCTCACTTATCA----TT--CCCTTGGACATGAACATTCATTCCTTA
* *
9384263 ATGCTG-T-TC--TC-ATT---TCAACATTTTCCCTTTATAATTT-CCTGAACTTAGTAACCAAA
188 ATGCTGTTCTCATTCAATTCCATCAACATCTTCCCTTTATAATTTACCTTAACTTAGTAACCAAA
* * * *
9384319 AGTACATCCTTTTCATTTACTTTATGGATATCGAAATACCTGATTTAATCAACTTCAAACCAAAA
253 AGTACATCTTTTTTATTTACTTTATGGATACCGAAATACCTGATTTAACCAACTTCAAACCAAAA
* * * * * * * *
9384384 CCAAAAAAATCGACTCAATTTTGCTGAAAAAGGTCTATTTCGTTCGGTTATTGCGGTTATAAAAG
318 CCAAAAAACT-GACTCAATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAG
* * * *
9384449 TTGAATGCTCTCCCCAAAGTGTACTGGTGGTACATCCTGTCCCCTCAACCTGAAAATAAGCAAGA
382 TCGAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGA
* * ** * *
9384514 ATCTAGTAGACAAAGTATATTTTCCAATTATCATGTAGCTTATGAGGTTTTTTTTT-----TT
447 ATCTAGTAGACGAAGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGATT
*** * * * ** * *
9384572 ---T-T----TTTTTTTTTTTTGA-GGATGTTAAATTAGCGGTGCATTGCTGTCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
*
9384628 AGAAAA-TTCCTTTAAATTTTTACAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
66 A-AAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
* * *
9384692 TGTCTTTTGATACTTTTTCTCACTTATCAAATTTTCACCCTTGGACTTAAACATTCATTCCTTAA
130 TGTCTTTTGATACTCTTTCTCACTTATC--A--TT--CCCTTGGACATGAACATTCATTCCTTAA
* *
9384757 TGCTGTTCTCATTCAATTCCATCAACATCTT-CCTTTTTAATTTACCTTAACTTAGAAACCAAAA
189 TGCTGTTCTCATTCAATTCCATCAACATCTTCCCTTTATAATTTACCTTAACTTAGTAACCAAAA
* ** *
9384821 GTACATCTTTTTTATTTACTTTATGGATACTGAAATATGTAATTTAACCAACTTCAAACCAAAAC
254 GTACATCTTTTTTATTTACTTTATGGATACCGAAATACCTGATTTAACCAACTTCAAACCAAAAC
* *
9384886 CAAAAAACTGACTCAATTTTACTGAAAAGGGTTGATTTCGATT-GGTTATTTCGGGTATAACAGT
319 CAAAAAACTGACTCAATTTTACTGAAAAGGGTCGATTTCG-TTCAGTTATTTCGGGTATAACAGT
** * * *
9384950 CGAATGCTCTCCCCTAAGCATATTAGTGGTATATCCTGCCCCCTCAACCCGAAAATAAGCAAGAA
383 CGAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGAA
* * * *
9385015 TCTAGTAGACGAAGTATATTTTCCAATTATCAAATAGCCTATGAGGCTTTTTCTTTTTTTGAGTA
448 TCTAGTAGACGAAGTATATTTTCCAATTACCACATAGCCTATGA-G---ATT-TTTTTTTGAGGA
9385080 TT
508 TT
* * *
9385082 GCCTGTGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGGTGCATTGCTATCCCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
9385147 AGAAAA-TTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGA-TTCATGAAGCGGTTTCAT
66 A-AAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
* * * *
9385210 TGTCTCTTGATACTC-TTCTCACTTATCAGTTTTTCACCCTTGTACGTGAACATTCATTCCTAAA
130 TGTCTTTTGATACTCTTTCTCACTTATCA----TT--CCCTTGGACATGAACATTCATTCCTTAA
* * * * *
9385274 CGCTGTTCTCATTCAATTCCATCAACATTTTCCCTTTATAATTTACCTGAACTTAGAAACGAAAA
189 TGCTGTTCTCATTCAATTCCATCAACATCTTCCCTTTATAATTTACCTTAACTTAGTAACCAAAA
* * *
9385339 TTACATCTTTTTTATTTACTTTATGGATACTGAAATACCTAATTTAACCAACTTCAAACCAAAAC
254 GTACATCTTTTTTATTTACTTTATGGATACCGAAATACCTGATTTAACCAACTTCAAACCAAAAC
* * * * * *
9385404 AAAAAAACTGACTCAATTTTACTTAAAAGGGTTGATTGCATTCGGTTATTTCGGGTATAACAGTC
319 CAAAAAACTGACTCAATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGTC
* * * *
9385469 GAATGATCTCCCTTAAGTGTACTAGTGGT--ATCTTGCCCCCTCAACCCGAAAATAAGCAAGAAT
384 GAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGAAT
* * * * * *
9385532 CTAGTAGACGAAGCATATTTTCCAATTATCACAAAGCCTGTGAGGGTTTTTCTTTTTTTGAGTAT
449 CTAGTAGACGAAGTATATTTTCCAATTACCACATAGCCTATGA--G--ATT-TTTTTTTGAGGAT
9385597 T
509 T
9385598 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGC-AGTGCATTGCTATCTCTATCATTT
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGA-TGCATTGCTATCTCTATCATTT
** *
9385662 AAGGAAGTTCCTTTAAATTTTTATAGCACCTAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
65 AAAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
* *
9385727 TGTCTTTTGATACTC-TTCTTACTTATCAGTTTTTCACCCCTTGTACATGAACATTCATTCCTTA
130 TGTCTTTTGATACTCTTTCTCACTTATCA----TT---CCCTTGGACATGAACATTCATTCCTTA
* * *
9385791 ATGCTGTTCTCATTCAATTCCATCAACATTTTACCTTTATAATTTACCTAAACTTAGTAA-C---
188 ATGCTGTTCTCATTCAATTCCATCAACATCTTCCCTTTATAATTTACCTTAACTTAGTAACCAAA
**
9385852 ----CATC-TTTTTATTTACTTTATGGATATTGAAATACCTGATTTAACCAACTTCAAACCAAAA
253 AGTACATCTTTTTTATTTACTTTATGGATACCGAAATACCTGATTTAACCAACTTCAAACCAAAA
* * ** * * * *
9385912 CAGAAAAAACCGACTTGATTTTACTGAAAGGGGTCAATTTTGTTCAGTTATTTGGGGTATAACAG
318 C-CAAAAAACTGACTCAATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAG
* ** *
9385977 TTGAATGCTCTCCCCTAAGCATACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAGGCAAGA
382 TCGAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGA
* * * *
9386042 ATCTAGTAGATGAAGTATATTTTCCAATTGCCACGTAGCCTGTGAGA-TTTTTTTTGAGGATT
447 ATCTAGTAGACGAAGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGATT
**
9386104 GCC----------TA--TATA-AATTT-TGTTAAATTAAAGATGCATTGCTATCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
* * *
9386155 AGAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGCTTTCATGAAGTGGTTTCATT
66 AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCATT
*
9386220 GTCTTTTGATAATCTTTCTCAC-T-T-A-T-CCTTGGACATGAACATTCATTCCTTAATGCTGTT
131 GTCTTTTGATACTCTTTCTCACTTATCATTCCCTTGGACATGAACATTCATTCCTTAATGCTGTT
* *
9386280 CTCATTCAATTCCATCAACATCTTTCCTTTTTAATTTACCTTAACTTAGTAACCAAAAGTACAT-
196 CTCATTCAATTCCATCAACATCTTCCCTTTATAATTTACCTTAACTTAGTAACCAAAAGTACATC
*
9386344 TTTTTTATTTACTTTATGGATACCAAAATACCTGATTTAACCAACTTCAAACCAAAACCGAAAAA
261 TTTTTTATTTACTTTATGGATACCGAAATACCTGATTTAACCAACTTCAAACCAAAACC-AAAAA
** * * * *
9386409 ACTGACTTGATTTTACTGAAAAGGCTCGATTTTGTTCAGTTATTTCTGGTATAACAGTTGAATGC
325 ACTGACTCAATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGTCGAATGC
*
9386474 TCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGAATCTAGGA
390 TCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGAATCTAGTA
* *
9386539 GACCAAGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGGGGATT
455 GACGAAGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGATT
* **
9386594 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAACGATGCATTTTTATCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
* * *
9386659 AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTAGTAGGATTTCATGAAGTGGTTTTATT
66 AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCATT
* *
9386724 ATCTTCTGATACTCTTTCTCAC-T-T-A-T-CCTTGGACATGAACATTCATTCCTTAATGCTGTT
131 GTCTTTTGATACTCTTTCTCACTTATCATTCCCTTGGACATGAACATTCATTCCTTAATGCTGTT
* * *
9386784 CTCATTCAATTCCATCAACATCTTCCCTTTTTAATTTACCTTAACTCAGTAACCAACAGTACAT-
196 CTCATTCAATTCCATCAACATCTTCCCTTTATAATTTACCTTAACTTAGTAACCAAAAGTACATC
* * *
9386848 TTTTTAAATTTACTTTATGGATACCGAAATACCTGATTTAATCAATTTCAAACCAAAACCAAAAA
261 TTTTT-TATTTACTTTATGGATACCGAAATACCTGATTTAACCAACTTCAAACCAAAACC-AAAA
* * * * *
9386913 AACCGACTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTTGGTTATTACAGTCGAATG
324 AACTGACTCAATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGTCGAATG
* * * *
9386978 CTCTCCCCTAAGTGTACTAGTGGTACATTCTGCTCCCTCAACCAGAAAATAAGCAAGAATCTATT
389 CTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGAATCTAGT
* * * *
9387043 AGATGAAGTATATTTTCCACTTACCA-GTAGCCTATGAGGTTTTTTTTTTTTTTTTTTTTTTTGA
454 AGACGAAGTATATTTTCCAATTACCACATAGCCTATGA-G-------------ATTTTTTTTTGA
9387107 GGATT
505 GGATT
9387112 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATT
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATT
9387160 TAAATTTTTA
Statistics
Matches: 2285, Mismatches: 213, Indels: 162
0.86 0.08 0.06
Matches are distributed among these distances:
481 81 0.04
482 1 0.00
485 1 0.00
489 216 0.09
490 18 0.01
491 21 0.01
492 198 0.09
493 62 0.03
494 5 0.00
495 3 0.00
496 3 0.00
497 3 0.00
498 3 0.00
500 154 0.07
501 95 0.04
502 4 0.00
503 5 0.00
504 230 0.10
505 201 0.09
506 16 0.01
507 1 0.00
509 55 0.02
510 83 0.04
512 68 0.03
513 1 0.00
514 1 0.00
515 3 0.00
516 192 0.08
517 125 0.05
518 356 0.16
519 80 0.04
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (509 bp):
GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCATT
GTCTTTTGATACTCTTTCTCACTTATCATTCCCTTGGACATGAACATTCATTCCTTAATGCTGTT
CTCATTCAATTCCATCAACATCTTCCCTTTATAATTTACCTTAACTTAGTAACCAAAAGTACATC
TTTTTTATTTACTTTATGGATACCGAAATACCTGATTTAACCAACTTCAAACCAAAACCAAAAAA
CTGACTCAATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGTCGAATGCT
CTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGAATCTAGTAG
ACGAAGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGATT
Found at i:9389457 original size:26 final size:25
Alignment explanation
Indices: 9389409--9389458 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
9389399 CGAAGAAAAT
* *
9389409 TCGAATTCGGTTCGATTATTTCGAG
1 TCGAATTCGGTTCGAGTAGTTCGAG
9389434 TCGAATTCGAGTTCGAGTAGTTCGA
1 TCGAATTCG-GTTCGAGTAGTTCGA
9389459 CTTATCGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (25 bp):
TCGAATTCGGTTCGAGTAGTTCGAG
Found at i:9391011 original size:14 final size:15
Alignment explanation
Indices: 9390983--9391021 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9390973 TGATTTATCG
** *
9390983 ATTTTTAATTTTTTA
1 ATTTTTAAAATTTAA
9390998 ATTTTTAAAATTTAA
1 ATTTTTAAAATTTAA
9391013 ATTTTTAAA
1 ATTTTTAAA
9391022 TATTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTTAAAATTTAA
Found at i:9391119 original size:18 final size:19
Alignment explanation
Indices: 9391088--9391128 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
9391078 AATTTTATTT
*
9391088 TATAAAAATTTAAAAAATA
1 TATAAAAATCTAAAAAATA
9391107 TATAAAAA-CTAAAAAATA
1 TATAAAAATCTAAAAAATA
9391125 TATA
1 TATA
9391129 TAATTCGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TATAAAAATCTAAAAAATA
Found at i:9397150 original size:15 final size:15
Alignment explanation
Indices: 9397130--9397187 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
9397120 TGTAAATTAA
9397130 ATGTAAATTACTTAT
1 ATGTAAATTACTTAT
9397145 ATGTAAATTACTTAT
1 ATGTAAATTACTTAT
*
9397160 AT-TAGAGATT--TTTT
1 ATGTA-A-ATTACTTAT
9397174 ATGTAAATTACTTA
1 ATGTAAATTACTTA
9397188 CAATTAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 3 0.08
14 8 0.22
15 22 0.61
16 3 0.08
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (15 bp):
ATGTAAATTACTTAT
Found at i:9397418 original size:24 final size:24
Alignment explanation
Indices: 9397371--9397418 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9397361 TCATTTAATT
* *
9397371 CATTGATAGTATATATAATTTATA
1 CATTGATAATATATATAATATATA
9397395 CATTGATAATATATCA-AATATATA
1 CATTGATAATATAT-ATAATATATA
9397419 TTTTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (24 bp):
CATTGATAATATATATAATATATA
Found at i:9401774 original size:18 final size:18
Alignment explanation
Indices: 9401751--9401877 Score: 74
Period size: 18 Copynumber: 7.4 Consensus size: 18
9401741 CTCTTCTCAC
*
9401751 AATTTTTTAAAATCTTAT
1 AATTTTTTAAAATCATAT
*
9401769 AATTTTTCAAAA--ATA-
1 AATTTTTTAAAATCATAT
* *
9401784 AATTATTTGAAAGTCATAT
1 AATT-TTTTAAAATCATAT
*
9401803 AATTTTTTAAAA--ATAA
1 AATTTTTTAAAATCATAT
** * *
9401819 AATTTTGAAAAATTATAA
1 AATTTTTTAAAATCATAT
*
9401837 AATTTTTTGAAA--ATA-
1 AATTTTTTAAAATCATAT
*
9401852 AATTTTTAAAAAATCATA-
1 AATTTTT-TAAAATCATAT
9401870 AATTTTTT
1 AATTTTTT
9401878 TTATAATTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
15 11 0.13
16 27 0.32
18 43 0.51
19 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AATTTTTTAAAATCATAT
Found at i:9401804 original size:34 final size:33
Alignment explanation
Indices: 9401751--9401877 Score: 139
Period size: 34 Copynumber: 3.8 Consensus size: 33
9401741 CTCTTCTCAC
* * *
9401751 AATTTTTTAAAATCTTATAATTTTTCAAAAATA
1 AATTTTTGAAAATCATATAATTTTTTAAAAATA
*
9401784 AATTATTTGAAAGTCATATAATTTTTTAAAAATA
1 AATT-TTTGAAAATCATATAATTTTTTAAAAATA
* * * *
9401818 AAATTTTGAAAAATTATAAAATTTTTTGAAAATA
1 AATTTTTG-AAAATCATATAATTTTTTAAAAATA
*
9401852 AATTTTTAAAAAATCATA-AATTTTTT
1 AATTTTT-GAAAATCATATAATTTTTT
9401878 TTATAATTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
33 16 0.20
34 63 0.80
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (33 bp):
AATTTTTGAAAATCATATAATTTTTTAAAAATA
Found at i:9401941 original size:34 final size:34
Alignment explanation
Indices: 9401905--9402002 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 34
9401895 GAAAATTCAT
*
9401905 TTTTTAAAAAGTT-TATAACTTCTTAAAAATCTA
1 TTTTCAAAAAGTTATATAACTTCTTAAAAATCTA
* * * **
9401938 TTTTCAAAAAGTTATATGATTTTTTAAAAATAAA
1 TTTTCAAAAAGTTATATAACTTCTTAAAAATCTA
* * *
9401972 TTTTCGAAAAGATT-TATAATTTTTTAAAAAT
1 TTTTCAAAAAG-TTATATAACTTCTTAAAAAT
9402003 TTATAAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 12 0.22
34 41 0.75
35 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (34 bp):
TTTTCAAAAAGTTATATAACTTCTTAAAAATCTA
Found at i:9412637 original size:21 final size:20
Alignment explanation
Indices: 9412595--9412638 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9412585 TTTTTTGGTG
* *
9412595 AAATTAAATTTTTTATTTAT
1 AAATTAAATTTTTTACTAAT
*
9412615 AAATTAGATTTTTTTACTAAT
1 AAATTA-AATTTTTTACTAAT
9412636 AAA
1 AAA
9412639 ATATTAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATTAAATTTTTTACTAAT
Found at i:9416700 original size:63 final size:63
Alignment explanation
Indices: 9416633--9416753 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
9416623 TAAGAAAGAG
* *
9416633 AAAAATAAAATAAAATAAAATGATACTCAATGCCACGTTGAAAATTTTACCACTTAAATAATA
1 AAAAATAAAATAAAATAAAATAATACTCAATGCCACATTGAAAATTTTACCACTTAAATAATA
* * *
9416696 AAAAATAAAATAAAATAAAATAATACTCAATGCCACATTGAAAGTTTTGCCCCTTAAA
1 AAAAATAAAATAAAATAAAATAATACTCAATGCCACATTGAAAATTTTACCACTTAAA
9416754 CGATATGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (63 bp):
AAAAATAAAATAAAATAAAATAATACTCAATGCCACATTGAAAATTTTACCACTTAAATAATA
Found at i:9421870 original size:31 final size:31
Alignment explanation
Indices: 9421835--9421909 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
9421825 ATACTCATAC
*
9421835 GAAATTTAAAATTTTA-TCTCTTTATTTTA-AT
1 GAAATTTAAAATTTAATTC-CTTTA-TTTACAT
9421866 GAAATTTAAAATTTAATTCCTTTATTTACAT
1 GAAATTTAAAATTTAATTCCTTTATTTACAT
*
9421897 GAATTTTGAAAAT
1 GAAATTT-AAAAT
9421910 AGTTCTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 4 0.10
31 28 0.72
32 7 0.18
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (31 bp):
GAAATTTAAAATTTAATTCCTTTATTTACAT
Found at i:9422081 original size:118 final size:120
Alignment explanation
Indices: 9421926--9422161 Score: 406
Period size: 118 Copynumber: 2.0 Consensus size: 120
9421916 TTTACTATAC
*
9421926 AAATATTTTGAATTTTTTTTTATTTTAATAAATATGTTAAAATTTAAAAATATTTTAGTTTAC-T
1 AAATATTTTGAA-TTTTTTTTATTTTAATAAAAATGTTAAAATTTAAAAATATTTTAGTTT-CTT
9421990 TAATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCATATTAATAGTA
64 TAATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCATATTAATAGTA
* *
9422047 AAATA-TTTGAA-TTTTTTTATTTTAGTAAAAATGTTAAATTTTAAAAATATTTTAGTTTCTTTA
1 AAATATTTTGAATTTTTTTTATTTTAATAAAAATGTTAAAATTTAAAAATATTTTAGTTTCTTTA
9422110 ATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCATATTAATA
66 ATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCATATTAATA
9422162 ATATTATTAT
Statistics
Matches: 111, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
117 1 0.01
118 99 0.89
120 6 0.05
121 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (120 bp):
AAATATTTTGAATTTTTTTTATTTTAATAAAAATGTTAAAATTTAAAAATATTTTAGTTTCTTTA
ATATATTAGTTGTTATTATATATAATTAATTATTAATAATATCATATTAATAGTA
Found at i:9422148 original size:14 final size:15
Alignment explanation
Indices: 9422131--9422173 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
9422121 GTTATTATAT
9422131 ATAAT-TAATTATTA
1 ATAATATAATTATTA
*
9422145 ATAATATCA-TATTA
1 ATAATATAATTATTA
*
9422159 ATAATATTATTATTA
1 ATAATATAATTATTA
9422174 TCATTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATATAATTATTA
Found at i:9422171 original size:43 final size:43
Alignment explanation
Indices: 9422122--9422206 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
9422112 ATATTAGTTG
*
9422122 TTATTATATATAATTAATTATTAAT-AA-TATCATATTAATAATA
1 TTATTAT-TATAATTAA-TATTAATAAATTATAATATTAATAATA
* * *
9422165 TTATTATTATCATTTATGTTAATAAATTATAATATTAATAAT
1 TTATTATTATAATTAATATTAATAAATTATAATATTAATAAT
9422207 TTAAATTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 6 0.17
42 9 0.25
43 21 0.58
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (43 bp):
TTATTATTATAATTAATATTAATAAATTATAATATTAATAATA
Found at i:9422215 original size:29 final size:28
Alignment explanation
Indices: 9422138--9422215 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
9422128 TATATAATTA
*
9422138 ATTATTAATAATATCATATTAATAATATT
1 ATTATTAATAAT-TTATATTAATAATATT
* *
9422167 ATTATT-ATCATTTATGTTAATAA-ATT
1 ATTATTAATAATTTATATTAATAATATT
*
9422193 ATAATATTAATAATTTAAATTAA
1 AT--TATTAATAATTTATATTAA
9422216 CATATCAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
26 5 0.12
27 10 0.25
28 8 0.20
29 17 0.43
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTATTAATAATTTATATTAATAATATT
Found at i:9423517 original size:13 final size:13
Alignment explanation
Indices: 9423499--9423524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9423489 TTTATTGAAT
9423499 TAATTTTAAAATA
1 TAATTTTAAAATA
9423512 TAATTTTAAAATA
1 TAATTTTAAAATA
9423525 AAGTATATTA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTAAAATA
Found at i:9429997 original size:503 final size:505
Alignment explanation
Indices: 9427286--9430365 Score: 3508
Period size: 512 Copynumber: 6.1 Consensus size: 505
9427276 TAATCACGTA
* *
9427286 GCCTATGAGGTTTTAGGTATATAATTTATGTTAAATTAGTGATG-ATTGCTATCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
* * *
9427350 AGAAAGTTCCTTTAAATATTTT-TAGCACCAAAATGATTTAG-AGGATTTCATGAAGTGGTGTCA
66 AAAAAGTTCCTTTAAAT-TTTTATAGCACCAAAATGATTT-GTAGGATTTCATGAAGCGGTTTCA
* *
9427413 TTGTCTTTTGATACTC-TTCTCACTTATCAGTTTTTCACCCTCGTACATGAACATTCATTCCTTA
129 TTGTCTTTTGATACTCTTTCTCAC-T-TCA----TT---CCTTGGACATGAACATTCATTCCTTA
* *
9427477 ATGCTG-T-TC--TC-ATT---TCAACAT-TTTCCCTTTATAATTT-CCTGAACTTAGTAACCAA
185 ATGCTGTTCTCATTCAATTCCATCAACATCTTT-CCTTTTTAATTTACCTTAACTTAGTAACCAA
* * *
9427532 AAGTACATCCTTTTCATTGACTTTATGGATA-TCGAAATACCTGATTTAACCAACTTCAAACCAA
249 AAGTACAT-TTTTTTATTTACTTTATGGATACT-GAAATACCTGATTTAACCAACTTCAAACCAA
* * * * * * * *
9427596 AACCAAAAAAATCGACTCAATTTTGCTGAAAAAGGTCTATTTCGTTCAGTTATTGCGGTTATAAA
312 AACCAAAAAACT-GACTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAAC
* * * *
9427661 AGTTGAATGCTCTCCCCAAAGTGTACTAGTGGTACATCCTGTCCCCTCAACCTGAAAATAAGCAA
376 AGTCGAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCCGAAAATAAGCAA
* * ** * *
9427726 GAATCTAGTAGACAAAGTATATTTTGCCAATTATCATGTAGCTTATGAGGTTTTTTTTT-----T
441 GAATCTAGTAGACGAAGTATATTTT-CCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGAT
9427786 T
505 T
* * * * ** * *
9427787 ---T-T----TTTT--TTTTTTGA-GGATGTTAAATTAGCGGTGCATTGCTGTCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
*
9427841 AGAAAA-TTCCTTTAAATTTTTACAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
66 A-AAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
* * *
9427905 TGTCTTTTGATACTTTTTCTCACTTATCAAATTTTCACCCTTGGACTTAAACATTCATTCCTTAA
130 TGTCTTTTGATACTCTTTCTCAC-T-TC--A--TT---CCTTGGACATGAACATTCATTCCTTAA
*
9427970 TGCTGTTCTCATTCAATTCCATCAACATC-TTCCTTTTTAATTTACCTTAACTTAGAAACCAAAA
186 TGCTGTTCTCATTCAATTCCATCAACATCTTTCCTTTTTAATTTACCTTAACTTAGTAACCAAAA
** *
9428034 GTACATCTTTTTTATTTACTTTATGGATACTGAAATATGTAATTTAACCAACTTCAAACCAAAAC
251 GTACAT-TTTTTTATTTACTTTATGGATACTGAAATACCTGATTTAACCAACTTCAAACCAAAAC
* * *
9428099 CAAAAAACTGACTCAATTTTACTGAAAAGGGTTGATTTCGATT-GGTTATTTCGGGTATAACAGT
315 CAAAAAACTGACTCGATTTTACTGAAAAGGGTCGATTTCG-TTCAGTTATTTCGGGTATAACAGT
** * *
9428163 CGAATGCTCTCCCCTAAGCATATTAGTGGTATATCCTGCCCCCTCAACCCGAAAATAAGCAAGAA
379 CGAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCCGAAAATAAGCAAGAA
* * * *
9428228 TCTAGTAGACGAAGTATATTTTCCAATTATCAAATAGCCTATGAGGCTTTTTCTTTTTTTGAGTA
444 TCTAGTAGACGAAGTATATTTTCCAATTACCACATAGCCTATGA-G---ATT-TTTTTTTGAGGA
9428293 TT
504 TT
* * *
9428295 GCCTGTGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGGTGCATTGCTATCCCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
9428360 AGAAAA-TTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGA-TTCATGAAGCGGTTTCAT
66 A-AAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
* * * *
9428423 TGTCTCTTGATACTC-TTCTCACTTATCAGTTTTTCACCCTTGTACGTGAACATTCATTCCTAAA
130 TGTCTTTTGATACTCTTTCTCAC-T-TCA----TT---CCTTGGACATGAACATTCATTCCTTAA
* * * * *
9428487 CGCTGTTCTCATTCAATTCCATCAACAT-TTTCCCTTTATAATTTACCTGAACTTAGAAACGAAA
186 TGCTGTTCTCATTCAATTCCATCAACATCTTT-CCTTTTTAATTTACCTTAACTTAGTAACCAAA
* *
9428551 ATTACATCTTTTTTATTTACTTTATGGATACTGAAATACCTAATTTAACCAACTT-----C-AAA
250 AGTACAT-TTTTTTATTTACTTTATGGATACTGAAATACCTGATTTAACCAACTTCAAACCAAAA
* * * * *
9428610 CCAAAAAACTGACTCAATTTTACTTAAAAGGGTTGATTGCATTCAGTTATTTCGGGTATAACAGT
314 CCAAAAAACTGACTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGT
* * * *
9428675 CGAATGATCTCCCTTAAGTGTACTAGTGGTATATCTTGCCCCCTCAACCCGAAAATAAGCAAGAA
379 CGAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCCGAAAATAAGCAAGAA
* * * * * *
9428740 TCTAGTAGACGAAGCATATTTTCCAATTATCACAAAGCCTGTGAGGGTTTTTCTTTTTTTGAGTA
444 TCTAGTAGACGAAGTATATTTTCCAATTACCACATAGCCTATGA--G--ATT-TTTTTTTGAGGA
9428805 TT
504 TT
9428807 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGC-AGTGCATTGCTATCTCTATCATTT
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGA-TGCATTGCTATCTCTATCATTT
** *
9428871 AAGGAAGTTCCTTTAAATTTTTATAGCACCTAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
65 AAAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCAT
* *
9428936 TGTCTTTTGATACTC-TTCTTACTTATCAGTTTTTCACCCCTTGTACATGAACATTCATTCCTTA
130 TGTCTTTTGATACTCTTTCTCAC-T-TCA----TT----CCTTGGACATGAACATTCATTCCTTA
* *
9429000 ATGCTGTTCTCATTCAATTCCATCAACAT-TTTACCTTTATAATTTACCTAAACTTAGTAACC--
185 ATGCTGTTCTCATTCAATTCCATCAACATCTTT-CCTTTTTAATTTACCTTAACTTAGTAACCAA
* *
9429062 -A-T-C---TTTTTATTTACTTTGTGGATATTGAAATACCTGATTTAACCAACTTCAAACCAAAA
249 AAGTACATTTTTTTATTTACTTTATGGATACTGAAATACCTGATTTAACCAACTTCAAACCAAAA
* * * * * *
9429121 CAGAAAAAACCGACTTGATTTTACTGAAAGGGGTCAATTTTGTTCAGTTATTT-GGGTATAACAG
314 C-CAAAAAACTGACTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAG
* ** * *
9429185 TTGAATGCTCTCCCCTAAGCATACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAGGCAAGA
378 TCGAATGCTCTCCCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCCGAAAATAAGCAAGA
* * * *
9429250 ATCTAGTAGATGAAGTATATTTTCCAATTGCCACGTAGCCTGTGAGA-TTTTTTTTGAGGATT
443 ATCTAGTAGACGAAGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGATT
**
9429312 GCC----------TA--TATA-AATTT-TGTTAAATTAAAGATGCATTGCTATCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
* * *
9429363 AGAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGCTTTCATGAAGTGGTTTCATT
66 AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCATT
*
9429428 GTCTTTTGATAATCTTTCTCACTT-A-TCCTTGGACATGAACATTCATTCCTTAATGCTGTTCTC
131 GTCTTTTGATACTCTTTCTCACTTCATTCCTTGGACATGAACATTCATTCCTTAATGCTGTTCTC
9429491 ATTCAATTCCATCAACATCTTTCCTTTTTAATTTACCTTAACTTAGTAACCAAAAGTACATTTTT
196 ATTCAATTCCATCAACATCTTTCCTTTTTAATTTACCTTAACTTAGTAACCAAAAGTACATTTTT
**
9429556 TTATTTACTTTATGGATACCAAAATACCTGATTTAACCAACTTCAAACCAAAACCGAAAAAACTG
261 TTATTTACTTTATGGATACTGAAATACCTGATTTAACCAACTTCAAACCAAAACC-AAAAAACTG
* * * * *
9429621 ACTTGATTTTACTGAAAAGGCTCGATTTTGTTCAGTTATTTCTGGTATAACAGTTGAATGCTCTC
325 ACTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGTCGAATGCTCTC
* * *
9429686 CCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCTGAAAATAAGCAAGAATCTAGGAGACC
390 CCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCCGAAAATAAGCAAGAATCTAGTAGACG
*
9429751 AAGTATA-TTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGGGGATT
455 AAGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGATT
* **
9429801 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAACGATGCATTTTTATCTCTATCATTTA
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
* * *
9429866 AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTAGTAGGATTTCATGAAGTGGTTTTATT
66 AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCATT
* *
9429931 ATCTTCTGATACTCTTTCTCACTT-A-TCCTTGGACATGAACATTCATTCCTTAATGCTGTTCTC
131 GTCTTTTGATACTCTTTCTCACTTCATTCCTTGGACATGAACATTCATTCCTTAATGCTGTTCTC
* * *
9429994 ATTCAATTCCATCAACATCTTCCCTTTTTAATTTACCTTAACTCAGTAACCAACAGTACATTTTT
196 ATTCAATTCCATCAACATCTTTCCTTTTTAATTTACCTTAACTTAGTAACCAAAAGTACATTTTT
* * * * * *
9430059 TAAATTTACTTTATGGATACCGAAATACCTGATTTAATCAATTTCAAACCAAAACAAAAAAACCG
261 T-TATTTACTTTATGGATACTGAAATACCTGATTTAACCAACTTCAAACCAAAACCAAAAAACTG
* *
9430124 ACTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTT-GGTTATTACAGTCGAATGCTCTC
325 ACTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGTCGAATGCTCTC
* * * * *
9430188 CCCTAAGTGTACTAGTGGTACATTCTGCTCCCTCAACCAGAAAATAAGCAAGAATCTATTAGATG
390 CCCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCCGAAAATAAGCAAGAATCTAGTAGACG
* * *
9430253 AAGTATATTTTCCACTTACCA-GTAGCCTATGAGGTTTTTTTTTTTTTTTTTTTTTTTTGAGGAT
455 AAGTATATTTTCCAATTACCACATAGCCTATGA-G--------------ATTTTTTTTTGAGGAT
9430317 T
505 T
9430318 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATT
1 GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATT
9430366 TAAATTTTTA
Statistics
Matches: 2275, Mismatches: 202, Indels: 188
0.85 0.08 0.07
Matches are distributed among these distances:
480 81 0.04
481 3 0.00
483 1 0.00
484 2 0.00
485 1 0.00
488 123 0.05
489 106 0.05
490 21 0.01
491 194 0.09
492 62 0.03
493 9 0.00
494 3 0.00
495 2 0.00
496 2 0.00
497 4 0.00
498 20 0.01
499 136 0.06
500 94 0.04
501 5 0.00
502 101 0.04
503 284 0.12
504 49 0.02
505 59 0.03
506 1 0.00
508 2 0.00
509 2 0.00
510 2 0.00
511 116 0.05
512 321 0.14
513 53 0.02
514 82 0.04
515 1 0.00
516 4 0.00
517 133 0.06
518 116 0.05
519 80 0.04
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (505 bp):
GCCTATGAAGTTTTAGGTATATAATTTATGTTAAATTAGCGATGCATTGCTATCTCTATCATTTA
AAAAAGTTCCTTTAAATTTTTATAGCACCAAAATGATTTGTAGGATTTCATGAAGCGGTTTCATT
GTCTTTTGATACTCTTTCTCACTTCATTCCTTGGACATGAACATTCATTCCTTAATGCTGTTCTC
ATTCAATTCCATCAACATCTTTCCTTTTTAATTTACCTTAACTTAGTAACCAAAAGTACATTTTT
TTATTTACTTTATGGATACTGAAATACCTGATTTAACCAACTTCAAACCAAAACCAAAAAACTGA
CTCGATTTTACTGAAAAGGGTCGATTTCGTTCAGTTATTTCGGGTATAACAGTCGAATGCTCTCC
CCTAAGTGTACTAGTGGTACATCCTGCCCCCTCAACCCGAAAATAAGCAAGAATCTAGTAGACGA
AGTATATTTTCCAATTACCACATAGCCTATGAGATTTTTTTTTGAGGATT
Found at i:9433004 original size:12 final size:11
Alignment explanation
Indices: 9432988--9433027 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
9432978 ATATATTTTT
9432988 ATTTTTATTAA
1 ATTTTTATTAA
9432999 ATTTTTA-TATA
1 ATTTTTATTA-A
9433010 ATTTTTATTAA
1 ATTTTTATTAA
*
9433021 AATTTTA
1 ATTTTTA
9433028 AATCGTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTTATTAA
Found at i:9433284 original size:18 final size:19
Alignment explanation
Indices: 9433247--9433286 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
9433237 TAAATTAAAT
9433247 TAATATATAATAAAATTTA
1 TAATATATAATAAAATTTA
* *
9433266 TAATATAT-TTAATATTTA
1 TAATATATAATAAAATTTA
9433284 TAA
1 TAA
9433287 AATTAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATATATAATAAAATTTA
Found at i:9433658 original size:28 final size:27
Alignment explanation
Indices: 9433627--9433680 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
9433617 AAATCGAATC
9433627 TTCATTGGATTTGAATTCGAACCAAATT
1 TTCATTGGATTTGAA-TCGAACCAAATT
* * *
9433655 TTCATTTGATTTTAATCTAACCAAAT
1 TTCATTGGATTTGAATCGAACCAAAT
9433681 CAAATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (27 bp):
TTCATTGGATTTGAATCGAACCAAATT
Found at i:9433733 original size:14 final size:15
Alignment explanation
Indices: 9433705--9433743 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9433695 TGATTTATCG
** *
9433705 ATTTTTAATTTTTTA
1 ATTTTTAAAATTTAA
9433720 ATTTTTAAAATTTAA
1 ATTTTTAAAATTTAA
9433735 ATTTTTAAA
1 ATTTTTAAA
9433744 TATTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTTAAAATTTAA
Found at i:9433841 original size:18 final size:19
Alignment explanation
Indices: 9433810--9433850 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
9433800 AATTTTATTT
*
9433810 TATAAAAATTTAAAAAATA
1 TATAAAAATCTAAAAAATA
9433829 TATAAAAA-CTAAAAAATA
1 TATAAAAATCTAAAAAATA
9433847 TATA
1 TATA
9433851 TAATTCGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TATAAAAATCTAAAAAATA
Found at i:9437038 original size:25 final size:26
Alignment explanation
Indices: 9436970--9437038 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 26
9436960 AAATAATTAT
* *
9436970 TTTTTATTTATATTTG-AATTGTTTA
1 TTTTTATTTATAATTGTTATTGTTTA
* *
9436995 -TTTT-GTTATATATTTTTATT-TTTA
1 TTTTTATTTATA-ATTGTTATTGTTTA
9437019 TTTTTATTTATAATTGTTAT
1 TTTTTATTTATAATTGTTAT
9437039 AAGTATTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
23 5 0.15
24 10 0.29
25 14 0.41
26 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (26 bp):
TTTTTATTTATAATTGTTATTGTTTA
Found at i:9437871 original size:17 final size:17
Alignment explanation
Indices: 9437845--9437878 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9437835 ATCAATATTA
* *
9437845 AATTTTATTATTATTTT
1 AATTTAATTAATATTTT
9437862 AATTTAATTAATATTTT
1 AATTTAATTAATATTTT
9437879 TGACTTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTAATTAATATTTT
Found at i:9447749 original size:15 final size:14
Alignment explanation
Indices: 9447729--9447776 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
9447719 TTAAAAAACA
*
9447729 ATAACTGAATAAGAT
1 ATAACTGAA-AAAAT
9447744 ATAACTTGAAAAAAT
1 ATAAC-TGAAAAAAT
* *
9447759 ATAATTGAAAAATT
1 ATAACTGAAAAAAT
9447773 ATAA
1 ATAA
9447777 ATTATTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 12 0.41
15 13 0.45
16 4 0.14
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (14 bp):
ATAACTGAAAAAAT
Found at i:9447768 original size:14 final size:15
Alignment explanation
Indices: 9447729--9447776 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
9447719 TTAAAAAACA
*
9447729 ATAAC-TGAATAAGAT
1 ATAACTTGAA-AAAAT
9447744 ATAACTTGAAAAAAT
1 ATAACTTGAAAAAAT
*
9447759 ATAA-TTGAAAAATT
1 ATAACTTGAAAAAAT
9447773 ATAA
1 ATAA
9447777 ATTATTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 13 0.43
15 13 0.43
16 4 0.13
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (15 bp):
ATAACTTGAAAAAAT
Found at i:9448170 original size:14 final size:14
Alignment explanation
Indices: 9448153--9448184 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9448143 TTGTTTTTTT
9448153 AAAAATAATTTTAA
1 AAAAATAATTTTAA
*
9448167 AAAAATGATTTTAA
1 AAAAATAATTTTAA
9448181 AAAA
1 AAAA
9448185 TTATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
AAAAATAATTTTAA
Found at i:9448191 original size:12 final size:13
Alignment explanation
Indices: 9448148--9448190 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9448138 TCCTTTTGTT
* *
9448148 TTTTTAAAAATAA
1 TTTTAAAAAATGA
9448161 TTTTAAAAAAATGA
1 TTTT-AAAAAATGA
*
9448175 TTTTAAAAAATTA
1 TTTTAAAAAATGA
9448188 TTT
1 TTT
9448191 ATATTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
TTTTAAAAAATGA
Found at i:9448314 original size:25 final size:25
Alignment explanation
Indices: 9448284--9448353 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 25
9448274 TATTAATATA
9448284 ATTATTAAAATATTAAAAATTATTT
1 ATTATTAAAATATTAAAAATTATTT
*
9448309 ATTATTAAAATATATTAAAATTATTT
1 ATTATTAAAATAT-TAAAAATTATTT
*
9448335 GTTATTAAAATTATTAAAA
1 ATTATTAAAA-TATTAAAA
9448354 TTAAAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 13 0.32
26 24 0.60
27 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTATTT
Found at i:9448324 original size:10 final size:9
Alignment explanation
Indices: 9448283--9448356 Score: 68
Period size: 9 Copynumber: 8.6 Consensus size: 9
9448273 ATATTAATAT
9448283 AATTATTAA
1 AATTATTAA
9448292 AA-TATTAAA
1 AATTATT-AA
9448301 AATTATT--
1 AATTATTAA
*
9448308 TATTATTAA
1 AATTATTAA
9448317 AATATATTAA
1 AAT-TATTAA
9448327 AATTATT--
1 AATTATTAA
**
9448334 TGTTATTAA
1 AATTATTAA
9448343 AATTATTAA
1 AATTATTAA
9448352 AATTA
1 AATTA
9448357 AAAATAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
7 11 0.21
8 4 0.08
9 24 0.46
10 13 0.25
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (9 bp):
AATTATTAA
Found at i:9448339 original size:26 final size:26
Alignment explanation
Indices: 9448284--9448356 Score: 114
Period size: 25 Copynumber: 2.9 Consensus size: 26
9448274 TATTAATATA
*
9448284 ATTATTAAAATAT-TAAAAATTATTT
1 ATTATTAAAATATATTAAAATTATTT
9448309 ATTATTAAAATATATTAAAATTATTT
1 ATTATTAAAATATATTAAAATTATTT
*
9448335 GTTATTAAAAT-TATTAAAATTA
1 ATTATTAAAATATATTAAAATTA
9448357 AAAATAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 24 0.53
26 21 0.47
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
ATTATTAAAATATATTAAAATTATTT
Found at i:9448366 original size:35 final size:35
Alignment explanation
Indices: 9448309--9448394 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 35
9448299 AAAATTATTT
** *
9448309 ATTATTAAAATATATTAAAATTAT-TTGTTATTAA-A
1 ATTATTAAAAT-TAAAAAAATTATATT-TTAATAATA
9448344 ATTATTAAAATTAAAAATAATTATATTTTAATAATA
1 ATTATTAAAATTAAAAA-AATTATATTTTAATAATA
* *
9448380 ATAATTAATATTAAA
1 ATTATTAAAATTAAA
9448395 CTATTATGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 4 0.09
35 23 0.53
36 16 0.37
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (35 bp):
ATTATTAAAATTAAAAAAATTATATTTTAATAATA
Found at i:9448413 original size:69 final size:66
Alignment explanation
Indices: 9448320--9448446 Score: 152
Period size: 67 Copynumber: 1.9 Consensus size: 66
9448310 TTATTAAAAT
* *
9448320 ATATTAAAATTATTTGTTATTAAAATTA-TTAAAATTAAAAATAATTATATTTTA-ATAATAATA
1 ATATTAAAACTATTTGTTATTAAAAATACTTAAAA-T-AAAATAATT-TATTTTATATAATAATA
9448383 ATTA
63 ATTA
*
9448387 ATATT-AAACTATTATGTTAATATAAAAATACTTAAAATAAAATTATTTATTTTATATAAT
1 ATATTAAAACTATT-TGTT-AT-TAAAAATACTTAAAATAAAATAATTTATTTTATATAAT
9448447 TTATTAATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
66 7 0.13
67 16 0.31
68 15 0.29
69 8 0.15
70 6 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (66 bp):
ATATTAAAACTATTTGTTATTAAAAATACTTAAAATAAAATAATTTATTTTATATAATAATAATT
A
Found at i:9448444 original size:34 final size:32
Alignment explanation
Indices: 9448324--9448445 Score: 79
Period size: 34 Copynumber: 3.7 Consensus size: 32
9448314 TAAAATATAT
* *
9448324 TAAAATTATT-TGTTAT-TAAAATTATTAAAA
1 TAAAATTATTATTTTATATAAAAATATTAAAA
* * *
9448354 TTAAAAATAATTATATTT-TAATAATAATAATTAATA
1 -T-AAAATTATTAT-TTTAT-ATAAAAAT-ATTAAAA
* * *
9448390 TTAAACTATTATGTTAATATAAAAATACTTAAAA
1 TAAAATTATTAT-TTTATATAAAAATA-TTAAAA
9448424 TAAAATTATTTATTTTATATAA
1 TAAAATTA-TTATTTTATATAA
9448446 TTTATTAATA
Statistics
Matches: 67, Mismatches: 15, Indels: 15
0.69 0.15 0.15
Matches are distributed among these distances:
31 1 0.01
32 8 0.12
33 3 0.04
34 38 0.57
35 11 0.16
36 6 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (32 bp):
TAAAATTATTATTTTATATAAAAATATTAAAA
Found at i:9448462 original size:18 final size:18
Alignment explanation
Indices: 9448441--9448594 Score: 62
Period size: 18 Copynumber: 9.0 Consensus size: 18
9448431 ATTTATTTTA
9448441 TATAATTTATTAATAAAT
1 TATAATTTATTAATAAAT
** *
9448459 TATAATATTATTTGTTAAT
1 TATAAT-TTATTAATAAAT
* *
9448478 AAT-ATTTATTAATATAT
1 TATAATTTATTAATAAAT
* *
9448495 TAT-A-TTAATAGT--A-
1 TATAATTTATTAATAAAT
*
9448508 TATTATTTATTAAT--A-
1 TATAATTTATTAATAAAT
9448523 TATAATTTATTAATATAAT
1 TATAATTTATTAATA-AAT
* * *
9448542 T-TTATTTATTTATTAA-
1 TATAATTTATTAATAAAT
*
9448558 TATAATATTATTTATAAA-
1 TATAAT-TTATTAATAAAT
* *
9448576 TAAAATTATATTAAAAAAT
1 TATAATT-TATTAATAAAT
9448595 ATTAATAAAT
Statistics
Matches: 103, Mismatches: 22, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
13 3 0.03
14 2 0.02
15 20 0.19
16 7 0.07
17 17 0.17
18 42 0.41
19 12 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (18 bp):
TATAATTTATTAATAAAT
Found at i:9448534 original size:33 final size:33
Alignment explanation
Indices: 9448459--9448598 Score: 80
Period size: 31 Copynumber: 4.3 Consensus size: 33
9448449 ATTAATAAAT
*
9448459 TATAATATTATTTGTTAATA-AT-ATTTATTAA
1 TATAATATTATTTATTAATATATAATTTATTAA
* * * *
9448490 TATATTA-TA-TTAATAGTATATTATTTATTAA
1 TATAATATTATTTATTAATATATAATTTATTAA
* * *
9448521 TAT-ATAATTTATTAATATAATTTTATTTATTTATTAA
1 TATAAT-A-TTATTTAT-TAA-TATA-TAATTTATTAA
*
9448558 TATAATATTATTTA-TAA-ATAAAATTATATTAA
1 TATAATATTATTTATTAATATATAATT-TATTAA
*
9448590 -AAAATATTA
1 TATAATATTA
9448599 ATAAATAGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
29 6 0.07
30 5 0.06
31 30 0.36
32 8 0.10
33 2 0.02
34 5 0.06
35 2 0.02
36 9 0.11
37 15 0.18
38 2 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (33 bp):
TATAATATTATTTATTAATATATAATTTATTAA
Found at i:9448538 original size:13 final size:13
Alignment explanation
Indices: 9448440--9448569 Score: 80
Period size: 13 Copynumber: 9.9 Consensus size: 13
9448430 TATTTATTTT
9448440 ATATAATTTATTA
1 ATATAATTTATTA
9448453 ATA-AA-TTA-TA
1 ATATAATTTATTA
* *
9448463 ATATTATTTGTTA
1 ATATAATTTATTA
9448476 ATA-ATATTTATTA
1 ATATA-ATTTATTA
9448489 ATAT-ATTATATTAA
1 ATATAATT-TATT-A
9448503 TAGTATATTATTTATTAA
1 -A-TATA--ATTTATT-A
9448521 TATATAATTTATTA
1 -ATATAATTTATTA
9448535 ATATAA-TT-TT-
1 ATATAATTTATTA
*
9448545 AT-TTATTTATTA
1 ATATAATTTATTA
9448557 ATATAATATTATT
1 ATATAAT-TTATT
9448570 TATAAATAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 33
0.71 0.05 0.25
Matches are distributed among these distances:
9 2 0.02
10 9 0.10
11 8 0.09
12 11 0.12
13 31 0.33
14 7 0.07
15 8 0.09
16 3 0.03
17 4 0.04
18 8 0.09
19 3 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATATAATTTATTA
Found at i:9448552 original size:22 final size:22
Alignment explanation
Indices: 9448480--9448572 Score: 84
Period size: 22 Copynumber: 4.1 Consensus size: 22
9448470 TTGTTAATAA
*
9448480 TATTTATTAATATATTATATTAATAG
1 TATTTATTAATATA--ATATT-AT-T
*
9448506 TATATTATTTAT-TAATA-TA-T
1 TAT-TTATTAATATAATATTATT
* *
9448526 AATTTATTAATATAATTTTATT
1 TATTTATTAATATAATATTATT
9448548 TATTTATTAATATAATATTATT
1 TATTTATTAATATAATATTATT
9448570 TAT
1 TAT
9448573 AAATAAAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
19 7 0.12
20 6 0.11
21 2 0.04
22 25 0.45
23 1 0.02
24 3 0.05
26 5 0.09
27 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (22 bp):
TATTTATTAATATAATATTATT
Found at i:9448556 original size:44 final size:44
Alignment explanation
Indices: 9448428--9448556 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 44
9448418 TTAAAATAAA
*
9448428 ATTATTTATT-TTATATAATTTATTAATA-AA--TTA--TA-AT
1 ATTATTTATTAATATATAATTTATTAATATAATTTTATTTATAT
* *
9448465 ATTATTTGTTAATA-AT-ATTTATTAATAT-ATTATATTAATAGTAT
1 ATTATTTATTAATATATAATTTATTAATATAATTTTATT--TA-TAT
*
9448509 ATTATTTATTAATATATAATTTATTAATATAATTTTATTTATTT
1 ATTATTTATTAATATATAATTTATTAATATAATTTTATTTATAT
9448553 ATTA
1 ATTA
9448557 ATATAATATT
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
36 12 0.16
37 11 0.15
38 4 0.05
42 2 0.03
44 21 0.29
45 4 0.05
46 12 0.16
47 7 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (44 bp):
ATTATTTATTAATATATAATTTATTAATATAATTTTATTTATAT
Found at i:9448632 original size:15 final size:15
Alignment explanation
Indices: 9448612--9448645 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9448602 AATAGTTCTA
9448612 TTTATAAACA-ATTTT
1 TTTATAAA-ATATTTT
9448627 TTTATAAAATATTTT
1 TTTATAAAATATTTT
9448642 TTTA
1 TTTA
9448646 ACTCTGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATAAAATATTTT
Found at i:9449676 original size:23 final size:21
Alignment explanation
Indices: 9449634--9449701 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
9449624 TTGTATAAAT
*
9449634 TTATTT-TTTTATAATA-TTA
1 TTATTTATATTATAATATTTA
*
9449653 TTATTTGTGATTAATAATATTTA
1 TTATTTAT-ATT-ATAATATTTA
* *
9449676 TT-TTTATCTTATAATTTTTA
1 TTATTTATATTATAATATTTA
9449696 TTATTT
1 TTATTT
9449702 TTAATTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.15
20 12 0.30
21 7 0.17
22 10 0.25
23 5 0.12
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (21 bp):
TTATTTATATTATAATATTTA
Found at i:9454028 original size:21 final size:21
Alignment explanation
Indices: 9454004--9454045 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9453994 CCAAGAAGAA
9454004 AACTCATTTGTCAAGTCTGTT
1 AACTCATTTGTCAAGTCTGTT
9454025 AACTCATTTGTCAAGTCTGTT
1 AACTCATTTGTCAAGTCTGTT
9454046 GCTCTCTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (21 bp):
AACTCATTTGTCAAGTCTGTT
Found at i:9457363 original size:33 final size:32
Alignment explanation
Indices: 9457326--9457398 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
9457316 TGCAAATGGA
* *
9457326 GATAAATATGTGTTTGATTTTAAATTTTTATTT
1 GATAAA-ATGTGTATAATTTTAAATTTTTATTT
9457359 GATAAGAATGTGTATAATTTTAAATTTTTATTT
1 GATAA-AATGTGTATAATTTTAAATTTTTATTT
9457392 GATAAAA
1 GATAAAA
9457399 AGATGTGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 2 0.05
33 34 0.92
34 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (32 bp):
GATAAAATGTGTATAATTTTAAATTTTTATTT
Found at i:9457547 original size:26 final size:25
Alignment explanation
Indices: 9457518--9457566 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
9457508 ATTAATTAGA
*
9457518 ATTAATATATTTTTATTAAAAAATAT
1 ATTAATATATATTTA-TAAAAAATAT
9457544 ATTAATATATATTTATAAAAAAT
1 ATTAATATATATTTATAAAAAAT
9457567 CTAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTAATATATATTTATAAAAAATAT
Found at i:9457573 original size:23 final size:25
Alignment explanation
Indices: 9457520--9457577 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
9457510 TAATTAGAAT
*
9457520 TAATATATTTTTATTAAAAAATATA
1 TAATATATATTTATTAAAAAATATA
*
9457545 TTAATATATATTTA-TAAAAAATCTA
1 -TAATATATATTTATTAAAAAATATA
9457570 -AATATATA
1 TAATATATA
9457578 AGATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 8 0.27
25 10 0.33
26 12 0.40
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATATATATTTATTAAAAAATATA
Found at i:9457599 original size:21 final size:22
Alignment explanation
Indices: 9457558--9457599 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9457548 ATATATATTT
* *
9457558 ATAAAAAATCTAAATATATAAG
1 ATAAAAAATCTAAAAAAATAAG
9457580 ATAAAAAAT-TAAAAAAATAA
1 ATAAAAAATCTAAAAAAATAA
9457600 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAAAAATCTAAAAAAATAAG
Found at i:9457849 original size:23 final size:25
Alignment explanation
Indices: 9457796--9457853 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
9457786 TAATTAGAAT
*
9457796 TAATATATTTTTATTAAAAAACATA
1 TAATATATATTTATTAAAAAACATA
9457821 TTAATATATATTTA-TAAAAAATC-TA
1 -TAATATATATTTATTAAAAAA-CATA
9457846 -AATATATA
1 TAATATATA
9457854 AGATAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.27
25 9 0.30
26 13 0.43
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (25 bp):
TAATATATATTTATTAAAAAACATA
Found at i:9457875 original size:21 final size:22
Alignment explanation
Indices: 9457834--9457875 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9457824 ATATATATTT
* *
9457834 ATAAAAAATCTAAATATATAAG
1 ATAAAAAATCTAAAAAAATAAG
9457856 ATAAAAAAT-TAAAAAAATAA
1 ATAAAAAATCTAAAAAAATAA
9457876 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAAAAATCTAAAAAAATAAG
Found at i:9458101 original size:277 final size:277
Alignment explanation
Indices: 9457366--9458165 Score: 1505
Period size: 276 Copynumber: 2.9 Consensus size: 277
9457356 TTTGATAAGA
*
9457366 ATGTGTATAATTTTAAATTTTTATTTGATAAAAAGATGTGAATAAGTAATATAACATCTATCTTA
1 ATGTGTATGATTTTAAATTTTTATTTGATAAAAAGATGTGAATAAGTAATATAACATCTATCTTA
9457431 TACCCATATCTTATTTGTATATTTTTATATATTTAGTAAATAAATTTTTTATTAAATAATATAAA
66 TACCCATATCTTATTTGTATATTTTTATATATTTAGTAAATAAATTTTTTATTAAATAATATAAA
9457496 TTATTATTTTAGATTAATTAGAATTAATATATTTTTATTAAAAAATATATTAATATATATTTATA
131 TTATTATTTTAGATTAATTAGAATTAATATATTTTTATTAAAAAATATATTAATATATATTTATA
9457561 AAAAATCTAAATATATAAGATAAAAAATTAAAAAAAT-AATTTTATTTTTTATTTTTTATTAGAA
196 AAAAATCTAAATATATAAGATAAAAAATTAAAAAAATAAATTTTATTTTTTATTTTTTATTAGAA
9457625 TGCAAATGGAAATAAAT
261 TGCAAATGGAAATAAAT
9457642 ATGTGTATGATTTTAAATTTTTATTTGATAAAAAGATGTGAATAAGTAATATAACATCTATCTTA
1 ATGTGTATGATTTTAAATTTTTATTTGATAAAAAGATGTGAATAAGTAATATAACATCTATCTTA
9457707 TACCCATATCTTATTTGTATATTTTTATATATTTAGTAAATAAATTTTTTATTAAATAATATAAA
66 TACCCATATCTTATTTGTATATTTTTATATATTTAGTAAATAAATTTTTTATTAAATAATATAAA
*
9457772 TTATTATTTTAGATTAATTAGAATTAATATATTTTTATTAAAAAACATATTAATATATATTTATA
131 TTATTATTTTAGATTAATTAGAATTAATATATTTTTATTAAAAAATATATTAATATATATTTATA
9457837 AAAAATCTAAATATATAAGATAAAAAATTAAAAAAATAAATTTTATTTTTTATTTTTTATTAGAA
196 AAAAATCTAAATATATAAGATAAAAAATTAAAAAAATAAATTTTATTTTTTATTTTTTATTAGAA
9457902 TGCAAATGGAAATAAAT
261 TGCAAATGGAAATAAAT
* *
9457919 ATGTGTATGATTTTAATTTTTTATTTGATAAAAAGATGTGAATAAGTAATATAGCATCTATCTTA
1 ATGTGTATGATTTTAAATTTTTATTTGATAAAAAGATGTGAATAAGTAATATAACATCTATCTTA
*
9457984 TACCCATATCTTATATGTATATTTTTATATATTTAGTAAAT-AATTTTTTATTAAATAATATAAA
66 TACCCATATCTTATTTGTATATTTTTATATATTTAGTAAATAAATTTTTTATTAAATAATATAAA
*
9458048 TTATTATTTTAGATTAATTAAAATTAATATATTTTTATTGAAAAAATATATTAATATATATTTAT
131 TTATTATTTTAGATTAATTAGAATTAATATATTTTTATT-AAAAAATATATTAATATATATTTAT
* *
9458113 AAAAAATCTAAATATATAAGATAAAAAATTTAAAAAATAATTTTTATTTTTTA
195 AAAAAATCTAAATATATAAGATAAAAAATTAAAAAAATAAATTTTATTTTTTA
9458166 AAAAAGTTAT
Statistics
Matches: 513, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
276 291 0.57
277 222 0.43
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (277 bp):
ATGTGTATGATTTTAAATTTTTATTTGATAAAAAGATGTGAATAAGTAATATAACATCTATCTTA
TACCCATATCTTATTTGTATATTTTTATATATTTAGTAAATAAATTTTTTATTAAATAATATAAA
TTATTATTTTAGATTAATTAGAATTAATATATTTTTATTAAAAAATATATTAATATATATTTATA
AAAAATCTAAATATATAAGATAAAAAATTAAAAAAATAAATTTTATTTTTTATTTTTTATTAGAA
TGCAAATGGAAATAAAT
Found at i:9458116 original size:25 final size:27
Alignment explanation
Indices: 9458070--9458119 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9458060 ATTAATTAAA
*
9458070 ATTAATATATTTTTATTGAAAAAATAT
1 ATTAATATATATTTATTGAAAAAATAT
9458097 ATTAATATATATTTA-T-AAAAAAT
1 ATTAATATATATTTATTGAAAAAAT
9458120 CTAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 1 0.05
27 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTAATATATATTTATTGAAAAAATAT
Found at i:9459239 original size:14 final size:15
Alignment explanation
Indices: 9459220--9459253 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9459210 CGCCTCTTAC
*
9459220 GCTCGAAAGCTC-AA
1 GCTCGAAAACTCGAA
9459234 GCTCGAAAACTCGAA
1 GCTCGAAAACTCGAA
9459249 GCTCG
1 GCTCG
9459254 CTAGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (15 bp):
GCTCGAAAACTCGAA
Found at i:9471588 original size:22 final size:22
Alignment explanation
Indices: 9471563--9471605 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9471553 TATATTTTTT
*
9471563 TTTACATAAAAAAAATAAAATC
1 TTTACATAAAAAAAAAAAAATC
*
9471585 TTTATATAAAAAAAAAAAAAT
1 TTTACATAAAAAAAAAAAAAT
9471606 TTAGACTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
TTTACATAAAAAAAAAAAAATC
Found at i:9471718 original size:19 final size:19
Alignment explanation
Indices: 9471678--9471719 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
9471668 TTCCCTTCAT
*
9471678 TTCATTTTTCACTCTCTTA
1 TTCATTTTTCACTCTCTAA
*
9471697 TTCATTTTTTCATTCTC-AA
1 TTCA-TTTTTCACTCTCTAA
9471716 TTCA
1 TTCA
9471720 AAACTTATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (19 bp):
TTCATTTTTCACTCTCTAA
Found at i:9480506 original size:18 final size:19
Alignment explanation
Indices: 9480483--9480523 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
9480473 AATCAAATTA
9480483 TATATATTTATT-AATTTT
1 TATATATTTATTAAATTTT
*
9480501 TATATATTTTTTAAATTTT
1 TATATATTTATTAAATTTT
9480520 TATA
1 TATA
9480524 AAATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATATATTTATTAAATTTT
Found at i:9484776 original size:6 final size:6
Alignment explanation
Indices: 9484766--9484795 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9484756 AAAAATTGGC
*
9484766 TCCTCC TCCTCT TCCTCT TCCTCT TCCTCT
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT
9484796 CCCTGTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (6 bp):
TCCTCT
Found at i:9485239 original size:3 final size:3
Alignment explanation
Indices: 9485233--9485262 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9485223 ATGGTGGTGG
*
9485233 TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
9485263 ACTGGATAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:9485815 original size:30 final size:30
Alignment explanation
Indices: 9485781--9485868 Score: 103
Period size: 29 Copynumber: 3.0 Consensus size: 30
9485771 GCTATTGACT
9485781 TTTAATTTTCAT-C-TAAATAAATCC-TTAACA
1 TTTAATTTT-ATACATAAATAAA-CCTTTAA-A
9485811 TTTAATTTTATACATAAATAAACCTTTAAA
1 TTTAATTTTATACATAAATAAACCTTTAAA
* *
9485841 TTT-ACTTTATACATAAATAAACATTTAA
1 TTTAATTTTATACATAAATAAACCTTTAA
9485869 CATAAATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
29 25 0.47
30 16 0.30
31 12 0.23
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTAATTTTATACATAAATAAACCTTTAAA
Found at i:9485853 original size:29 final size:31
Alignment explanation
Indices: 9485794--9485871 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 31
9485784 AATTTTCATC
*
9485794 TAAATAAATCC-TTAACATTTAATTTTATACA
1 TAAATAAA-CCTTTAACATTTAACTTTATACA
9485825 TAAATAAACCTTTAA-ATTT-ACTTTATACA
1 TAAATAAACCTTTAACATTTAACTTTATACA
*
9485854 TAAATAAACATTTAACAT
1 TAAATAAACCTTTAACAT
9485872 AAATTAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 23 0.53
30 8 0.19
31 12 0.28
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (31 bp):
TAAATAAACCTTTAACATTTAACTTTATACA
Found at i:9485903 original size:28 final size:29
Alignment explanation
Indices: 9485872--9485936 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
9485862 CATTTAACAT
9485872 AAATTAAAAAA-T-TTTAAACACAAATAAA
1 AAATTAAAAAATTATTTAAACAC-AATAAA
**
9485900 AAA-TAAAAAATTATTTAATTACAATAAA
1 AAATTAAAAAATTATTTAAACACAATAAA
9485928 AAATTAAAA
1 AAATTAAAA
9485937 CTTATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 7 0.22
28 13 0.41
29 12 0.38
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (29 bp):
AAATTAAAAAATTATTTAAACACAATAAA
Found at i:9486605 original size:22 final size:22
Alignment explanation
Indices: 9486571--9486612 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9486561 TACCAAAAGG
9486571 TAAAGAAAAAAATAATTTTAAT
1 TAAAGAAAAAAATAATTTTAAT
* * *
9486593 TAAATAAATAAATTATTTTA
1 TAAAGAAAAAAATAATTTTA
9486613 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAGAAAAAAATAATTTTAAT
Found at i:9486670 original size:15 final size:16
Alignment explanation
Indices: 9486641--9486687 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
9486631 TTAAATAAAA
* *
9486641 ATAAAATAATATTATT
1 ATAATATAATTTTATT
9486657 -TAATATAATTTTATTT
1 ATAATATAATTTTA-TT
*
9486673 ATAATATTATTTTAT
1 ATAATATAATTTTAT
9486688 CATATCATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.42
16 3 0.12
17 12 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATATAATTTTATT
Found at i:9488478 original size:19 final size:19
Alignment explanation
Indices: 9488456--9488492 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9488446 TAATTATGTT
9488456 TAATTATATTATTCATATA
1 TAATTATATTATTCATATA
*
9488475 TAATTATATTATTTATAT
1 TAATTATATTATTCATAT
9488493 TATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTATATTATTCATATA
Found at i:9488490 original size:9 final size:9
Alignment explanation
Indices: 9488459--9488497 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
9488449 TTATGTTTAA
9488459 TTATATTAT
1 TTATATTAT
* *
9488468 TCATATATAA
1 TTATAT-TAT
9488478 TTATATTAT
1 TTATATTAT
9488487 TTATATTAT
1 TTATATTAT
9488496 TT
1 TT
9488498 TAATATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
TTATATTAT
Found at i:9488524 original size:15 final size:16
Alignment explanation
Indices: 9488488--9488527 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
9488478 TTATATTATT
9488488 TATATT-ATTTTAATA
1 TATATTAATTTTAATA
*
9488503 TAAATTAATTTTAA-A
1 TATATTAATTTTAATA
9488518 TATATTAATT
1 TATATTAATT
9488528 ATATCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATTAATTTTAATA
Found at i:9488618 original size:28 final size:28
Alignment explanation
Indices: 9488581--9488635 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
9488571 ATATTTAAAT
* *
9488581 TATTCATATCTTTTA-AATAATTATATTA
1 TATTCATATCATATATAA-AATTATATTA
*
9488609 TATTTATATCATATATAAAATTATATT
1 TATTCATATCATATATAAAATTATATT
9488636 TGATATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (28 bp):
TATTCATATCATATATAAAATTATATTA
Found at i:9488656 original size:17 final size:17
Alignment explanation
Indices: 9488612--9488657 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
9488602 TATATTATAT
9488612 TTATATCAT-ATATAAAA
1 TTATAT-ATGATATAAAA
*
9488629 TTATATTTGATATAAAA
1 TTATATATGATATAAAA
9488646 -TATAATATGATA
1 TTAT-ATATGATA
9488658 ATACGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
TTATATATGATATAAAA
Found at i:9488984 original size:23 final size:25
Alignment explanation
Indices: 9488949--9489004 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
9488939 TAGAGATACG
9488949 ATATAAATAAAAA-T-ATAAAAATA
1 ATATAAATAAAAATTAATAAAAATA
* * *
9488972 ATATAATTTAAAATTTAATAAAAATT
1 ATATAA-ATAAAAATTAATAAAAATA
9488998 ATATAAA
1 ATATAAA
9489005 AATTAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.23
24 5 0.19
25 1 0.04
26 14 0.54
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATAAATAAAAATTAATAAAAATA
Found at i:9488991 original size:28 final size:28
Alignment explanation
Indices: 9488959--9489026 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
9488949 ATATAAATAA
* *
9488959 AAATATAAAAATA-ATATAATTTAAAATT
1 AAATATAAAAATATATAAAAATT-AAATT
* *
9488987 TAATA-AAAATTATATAAAAATTAAATT
1 AAATATAAAAATATATAAAAATTAAATT
9489014 AAAT-TAAAAATAT
1 AAATATAAAAATAT
9489027 TTTTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATATAAAAATATATAAAAATTAAATT
Found at i:9489005 original size:10 final size:11
Alignment explanation
Indices: 9488952--9489021 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
9488942 AGATACGATA
9488952 TAAATAAAAAT
1 TAAATAAAAAT
*
9488963 ATAAA-AATAAT
1 -TAAATAAAAAT
* *
9488974 ATAATTTAAAAT
1 -TAAATAAAAAT
*
9488986 TTAATAAAAAT
1 TAAATAAAAAT
*
9488997 TATATAAAAAT
1 TAAATAAAAAT
*
9489008 TAAAT-TAAAT
1 TAAATAAAAAT
9489018 TAAA
1 TAAA
9489022 AATATTTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 8 0.17
11 30 0.65
12 8 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAATAAAAAT
Found at i:9492169 original size:2 final size:2
Alignment explanation
Indices: 9492162--9492187 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9492152 ATTTCTCCAA
9492162 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
9492188 GTATGTGTGT
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:9495898 original size:2 final size:2
Alignment explanation
Indices: 9495891--9495916 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9495881 GATTGAGATG
9495891 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
9495917 TGATTAATGG
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:9499526 original size:21 final size:22
Alignment explanation
Indices: 9499501--9499546 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
9499491 TAAAAATATA
* *
9499501 AAATATATTTTTTA-TTTTATT
1 AAATATATTTATAATTTTTATT
9499522 AAATATATTTATAATTTTTATT
1 AAATATATTTATAATTTTTATT
9499544 AAA
1 AAA
9499547 ATTTTAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATATATTTATAATTTTTATT
Found at i:9500037 original size:21 final size:22
Alignment explanation
Indices: 9500013--9500062 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
9500003 TGTTTATATT
9500013 AAAATTTAAT-AATTAAAA-ATA
1 AAAATTTAATAAATTAAAATA-A
*
9500034 AAAA-TTAATAAATTTAAATAA
1 AAAATTTAATAAATTAAAATAA
9500055 AAAATTTA
1 AAAATTTA
9500063 TTATTCGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 16 0.64
22 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATTTAATAAATTAAAATAA
Found at i:9500041 original size:20 final size:20
Alignment explanation
Indices: 9500012--9500057 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
9500002 TTGTTTATAT
*
9500012 TAAAATTTAAT-AATTAAAAA
1 TAAAAATTAATAAATT-AAAA
*
9500032 TAAAAATTAATAAATTTAAA
1 TAAAAATTAATAAATTAAAA
9500052 TAAAAA
1 TAAAAA
9500058 ATTTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATTAATAAATTAAAA
Found at i:9509714 original size:16 final size:16
Alignment explanation
Indices: 9509693--9509726 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9509683 CCCGCATAAG
9509693 ATTGTTTTAAAATTTC
1 ATTGTTTTAAAATTTC
*
9509709 ATTGTTTTAATATTTC
1 ATTGTTTTAAAATTTC
9509725 AT
1 AT
9509727 GCTTAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTGTTTTAAAATTTC
Done.