Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 21 of 91
Found at i:3649166 original size:132 final size:130
Alignment explanation
Indices: 3648950--3649334 Score: 442
Period size: 132 Copynumber: 3.0 Consensus size: 130
3648940 TATGACATGA
** * * * *
3648950 AGGTATTATTTTATATAATTATAAAAGAAGAGATATTTTCATAATTATGACATG-AGAGTATAAT
1 AGGTATTATAGTAAATAATTATAAAAAAAGAAATATTTTCATAATTATGATATGAAGAGTATAAT
* * *
3649014 AGTCAATTTGTTCATGTGTCAATTTCTTATCAAACAATGAAAAAGATATTTTAGTAATTCTTCAA
66 AATTAATTTGTTCATGTGTCAATTTCTTATCAAATAATGAAAAAGATATTTTAGTAATT-TT--A
3649079 AGG
128 AGG
* * *
3649082 AGGTATTATAGTAAATAATTATAAAAAAAGAAATATTTTTATAATTATGATATGAAGA-CATGAT
1 AGGTATTATAGTAAATAATTATAAAAAAAGAAATATTTTCATAATTATGATATGAAGAGTATAAT
* ** * * * * *
3649146 AATTAATTTATTCACATGTCAA-TTCTCATCAAATAATGTAAAAGGTATTTTAGTAATTTTTATG
66 AATTAATTTGTTCATGTGTCAATTTCTTATCAAATAATGAAAAAGATATTTTAGTAATTTTAAGG
* * *
3649210 AGACTATT-TAGTAAATAATTATAAAAAAAGTAATATTTTCATAATTA-CAGTAT-AAGAGTATA
1 AG-GTATTATAGTAAATAATTATAAAAAAAGAAATATTTTCATAATTATGA-TATGAAGAGTATA
* *
3649272 ATAATTAATTTGGTT-ATGTGTCACTTTCTTATCAAATAATGAAAAAAATATTTTAGTAATTTT
64 ATAATTAATTT-GTTCATGTGTCAATTTCTTATCAAATAATGAAAAAGATATTTTAGTAATTTT
3649335 TCGAGGGATT
Statistics
Matches: 213, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
127 5 0.02
128 63 0.30
129 40 0.19
130 2 0.01
131 32 0.15
132 68 0.32
133 3 0.01
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (130 bp):
AGGTATTATAGTAAATAATTATAAAAAAAGAAATATTTTCATAATTATGATATGAAGAGTATAAT
AATTAATTTGTTCATGTGTCAATTTCTTATCAAATAATGAAAAAGATATTTTAGTAATTTTAAGG
Found at i:3649248 original size:128 final size:130
Alignment explanation
Indices: 3648964--3649335 Score: 427
Period size: 128 Copynumber: 2.9 Consensus size: 130
3648954 ATTATTTTAT
* * * *
3648964 ATAATTATAAAAGAAGAGATATTTTCATAATTATGACATG-AGAGTATAATAGTCAATTTGTTCA
1 ATAATTATAAAAAAAGA-ATATTTTCATAATTATGATATGAAGAGTATAATAATTAATTTGTTCA
* * *
3649028 TGTGTCAATTTCTTATCAAACAATGAAAAAGATATTTTAGTAATTCTTCAAAGGAGGTATTATAG
65 TGTGTCAA-TTCTTATCAAATAATGAAAAAGATATTTTAGTAATT-TTTAAAGGAGCTATTATAG
3649093 TAA
128 TAA
* * * *
3649096 ATAATTATAAAAAAAGAAATATTTTTATAATTATGATATGAAGA-CATGATAATTAATTTATTCA
1 ATAATTATAAAAAAAG-AATATTTTCATAATTATGATATGAAGAGTATAATAATTAATTTGTTCA
** * * * *
3649160 CATGTCAATTCTCATCAAATAATGTAAAAGGTATTTTAGTAATTTTT--ATGAGACTATT-TAGT
65 TGTGTCAATTCTTATCAAATAATGAAAAAGATATTTTAGTAATTTTTAAAGGAG-CTATTATAGT
3649222 AA
129 AA
*
3649224 ATAATTATAAAAAAAGTAATATTTTCATAATTA-CAGTAT-AAGAGTATAATAATTAATTTGGTT
1 ATAATTATAAAAAAAG-AATATTTTCATAATTATGA-TATGAAGAGTATAATAATTAATTT-GTT
* *
3649287 -ATGTGTCACTTTCTTATCAAATAATGAAAAAAATATTTTAGTAATTTTT
63 CATGTGTCA-ATTCTTATCAAATAATGAAAAAGATATTTTAGTAATTTTT
3649336 CGAGGGATTA
Statistics
Matches: 203, Mismatches: 30, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
127 5 0.02
128 63 0.31
129 41 0.20
130 2 0.01
131 32 0.16
132 56 0.28
133 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.39
Consensus pattern (130 bp):
ATAATTATAAAAAAAGAATATTTTCATAATTATGATATGAAGAGTATAATAATTAATTTGTTCAT
GTGTCAATTCTTATCAAATAATGAAAAAGATATTTTAGTAATTTTTAAAGGAGCTATTATAGTAA
Found at i:3651260 original size:31 final size:31
Alignment explanation
Indices: 3651222--3651290 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
3651212 TATATTTATC
3651222 TAAAAATTATATATCATAATTTTTATTAATA
1 TAAAAATTATATATCATAATTTTTATTAATA
*
3651253 TAAAAATTATGTATCATAATTTTTATTAATA
1 TAAAAATTATATATCATAATTTTTATTAATA
3651284 TAAAAAT
1 TAAAAAT
3651291 ATAAAATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
TAAAAATTATATATCATAATTTTTATTAATA
Found at i:3651372 original size:13 final size:13
Alignment explanation
Indices: 3651354--3651400 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
3651344 TTACATCATA
3651354 TTTATATTTTATT
1 TTTATATTTTATT
*
3651367 TTTATATTATATT
1 TTTATATTTTATT
* *
3651380 TTTGTTATATTA-T
1 TTT-ATATTTTATT
3651393 TTTATATT
1 TTTATATT
3651401 ATAGAATCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 3 0.11
13 19 0.70
14 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTATATTTTATT
Found at i:3658707 original size:133 final size:129
Alignment explanation
Indices: 3658527--3658872 Score: 328
Period size: 133 Copynumber: 2.6 Consensus size: 129
3658517 GGTATTTTCA
* * * * * * * *
3658527 TAATTATGGTATAAGGACATAATAATCAATTT-AGTCACGTGTCAATTTTTTATTAAACAATGAA
1 TAATTATGATATGAGAACATAATAATCAATTTGA-TCA-ATAT-AATTTCTTATCAAATAATGAA
* *
3658591 AATAATATTTTGATAATTTTTTAGAAGTG-GTATTATAGT-AAATAATTATAAAA-A-AAATGAG
63 AATAATATTTTGATAATTTTTAAG-AG-GAGTATT-TAGTAAAATAATCATAAAAGAGAAAT-A-
3658652 TATTTTTG
123 -ATTTTTG
* * * *
3658660 TAATTATGATATGA-AAGCATTATAGTTAATTTGGTCACATACTAATTTCTTATCAAATAATGAA
1 TAATTATGATATGAGAA-CATAATAATCAATTTGATCA-ATA-TAATTTCTTATCAAATAATGAA
* ** * *
3658724 AATGATATTTTCTTAATTTTTAAGAGGATTATTTAGTAAAATAATCATAAAAGAGGAATAATTTT
63 AATAATATTTTGATAATTTTTAAGAGGAGTATTTAGTAAAATAATCATAAAAGAGAAATAATTTT
3658789 TG
128 TG
*
3658791 TAATTATGATATGAGAACATAATAATCAATTTGATCAATATCATTCTCTTATCAAATAATGAAAA
1 TAATTATGATATGAGAACATAATAATCAATTTGATCAATATAATT-TCTTATCAAATAATGAAAA
* *
3658856 GAACATTTTGAT-ATTTT
65 TAATATTTTGATAATTTT
3658873 CAAGGCATTA
Statistics
Matches: 175, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
129 9 0.05
130 29 0.17
131 42 0.24
132 22 0.13
133 69 0.39
134 4 0.02
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (129 bp):
TAATTATGATATGAGAACATAATAATCAATTTGATCAATATAATTTCTTATCAAATAATGAAAAT
AATATTTTGATAATTTTTAAGAGGAGTATTTAGTAAAATAATCATAAAAGAGAAATAATTTTTG
Found at i:3661099 original size:19 final size:19
Alignment explanation
Indices: 3661075--3661113 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3661065 TTATGTATTT
3661075 ATATATTTATATCTAATAA
1 ATATATTTATATCTAATAA
* *
3661094 ATATATTTTTATGTAATAA
1 ATATATTTATATCTAATAA
3661113 A
1 A
3661114 ATTTTAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATATATTTATATCTAATAA
Found at i:3663400 original size:2 final size:2
Alignment explanation
Indices: 3663393--3663423 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3663383 CTTAGCAATA
3663393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3663424 GCTATTGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3664799 original size:6 final size:6
Alignment explanation
Indices: 3664788--3664815 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3664778 ATTTATGATT
3664788 TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATT
3664816 ATAAGTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:3666043 original size:15 final size:16
Alignment explanation
Indices: 3666023--3666052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3666013 ATAAAAAAAT
3666023 TTTATA-TTTAATTAG
1 TTTATATTTTAATTAG
3666038 TTTATATTTTAATTA
1 TTTATATTTTAATTA
3666053 AAGCTTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTATATTTTAATTAG
Found at i:3668282 original size:17 final size:17
Alignment explanation
Indices: 3668254--3668286 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
3668244 CGAAATATAA
3668254 TAAAACATATATTAAAAC
1 TAAAACATATA-TAAAAC
3668272 TAAAA-ATATATAAAA
1 TAAAACATATATAAAA
3668287 TTGCCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAACATATATAAAAC
Found at i:3669226 original size:15 final size:16
Alignment explanation
Indices: 3669206--3669235 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3669196 TAATTTTGAC
3669206 TAATTATG-TAAAAAG
1 TAATTATGATAAAAAG
3669221 TAATTATGATAAAAA
1 TAATTATGATAAAAA
3669236 AAGTATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (16 bp):
TAATTATGATAAAAAG
Found at i:3669243 original size:17 final size:18
Alignment explanation
Indices: 3669215--3669250 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
3669205 CTAATTATGT
*
3669215 AAAAAGTAATTATGATAA
1 AAAAAGTAATTATAATAA
3669233 AAAAAGT-ATTATAATAA
1 AAAAAGTAATTATAATAA
3669250 A
1 A
3669251 TTTGGATACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (18 bp):
AAAAAGTAATTATAATAA
Found at i:3669496 original size:129 final size:127
Alignment explanation
Indices: 3669329--3669614 Score: 328
Period size: 129 Copynumber: 2.2 Consensus size: 127
3669319 TTAATATATG
* * *
3669329 TTAT-TTAACATTTAATAATTAATTTAATAAGGGTATTATAGTAAATTTTAAACAAAAT-TCCAA
1 TTATATTAA-ATTTAATAAATAATTTAAT-AGGGAATTATAATAAATTTTAAACAAAATAT-CAA
* * *
3669392 ATGTCAAATATTTATAAAGCAATAG-CAAGGGTATTTTAGTAATTTAAAATGCT-GTTAATTTTA
63 ATGTCAAATATTTATAAAGCAA-AGACAAGGATATATTAATAATTTAAAATG-TAGTTAATTTTA
3669455 TA
126 TA
* ** * * * *
3669457 TTATATTAAAATTTCATATGTAATTTAATAGGAGAATTATAATCATTTTTAAATAAAATATCACA
1 TTATATT-AAATTTAATAAATAATTTAATAGG-GAATTATAATAAATTTTAAACAAAATATCAAA
* **
3669522 TGTCAAATTTTTATAAAGCAAAGACAAGGATATATTAATAATTTAATGTGTAGTTAATTTTATA
64 TGTCAAATATTTATAAAGCAAAGACAAGGATATATTAATAATTTAAAATGTAGTTAATTTTATA
*
3669586 TTATGTTAAATTTAATAAATAATTTAATA
1 TTATATTAAATTTAATAAATAATTTAATA
3669615 AATGTATTGC
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
128 29 0.22
129 101 0.76
130 3 0.02
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (127 bp):
TTATATTAAATTTAATAAATAATTTAATAGGGAATTATAATAAATTTTAAACAAAATATCAAATG
TCAAATATTTATAAAGCAAAGACAAGGATATATTAATAATTTAAAATGTAGTTAATTTTATA
Found at i:3669871 original size:61 final size:60
Alignment explanation
Indices: 3669763--3669896 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 60
3669753 TAGTAAGAGG
* * * * * *
3669763 GTATTATAGTAATTTTAGCTAATTATAATAAGAGAGATATTTCTGTAATTATTGTAGGAGA
1 GTATTATAATAATTTTAGCTAATTATAAAAAGAGAAATACTTCTGTAATTATGGTA-GAAA
* *
3669824 GTATTATAATAATTTTAGCTAATTATAAAAAGAGAAATGCTTGTGTAATTATGGTAGAAA
1 GTATTATAATAATTTTAGCTAATTATAAAAAGAGAAATACTTCTGTAATTATGGTAGAAA
3669884 GATATTATAATAA
1 G-TATTATAATAA
3669897 GTTTGGATAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 4 0.06
61 60 0.94
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (60 bp):
GTATTATAATAATTTTAGCTAATTATAAAAAGAGAAATACTTCTGTAATTATGGTAGAAA
Found at i:3670619 original size:128 final size:130
Alignment explanation
Indices: 3670332--3670710 Score: 420
Period size: 128 Copynumber: 2.9 Consensus size: 130
3670322 GACATGAAGG
* * * *
3670332 TATTATAGTATATAATTATAAAAGAAA-AGATATTTTCATAATTATGACATG-AGA-GT-AT-GT
1 TATTATAGTAAATAATTATAAAA-AAATA-ATATTTTCATAATTATGATATGAAGACATAATAAT
* *
3670392 CAATTTGTTCATGTGTCAATTTCTTATCAAACAATGAAAAAGATATTTT-GTAATTTTTCAAAGG
64 CAATTTGTTCATGTGTCAA-TTCTTATCAAATAATGAAAAAAATATTTTAGTAATTTTTCAAAGG
*
3670456 AGG
128 AGC
*
3670459 TATTATAGTAAATAATTATAAAAAAATAAATATTTTTATAATTATGATATGAAGACATAATAATC
1 TATTATAGTAAATAATTATAAAAAAAT-AATATTTTCATAATTATGATATGAAGACATAATAATC
* ** * * ** *
3670524 AATTTATTCACATGTCAATTCTCATCAAATAATGTAAAATTTATTTTAGTAATTTTT---ATGAG
65 AATTTGTTCATGTGTCAATTCTTATCAAATAATGAAAAAAATATTTTAGTAATTTTTCAAAGGAG
3670586 AC
130 -C
* *
3670588 TATT-TAGTAAATAATTATAAAAAAAGTAATATTTTCATAATTACGGTAT-AAGAGCATAATAAT
1 TATTATAGTAAATAATTATAAAAAAA-TAATATTTTCATAATTATGATATGAAGA-CATAATAAT
* * *
3670651 TAATTTGGTCATGTGTCACTTTCTTATCAAATAATGAAAAAAATATTTTAGTAATTTTTC
64 CAATTTGTTCATGTGTCA-ATTCTTATCAAATAATGAAAAAAATATTTTAGTAATTTTTC
3670711 GAGGGATTAT
Statistics
Matches: 212, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
126 3 0.01
127 46 0.22
128 70 0.33
129 41 0.19
130 26 0.12
131 26 0.12
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (130 bp):
TATTATAGTAAATAATTATAAAAAAATAATATTTTCATAATTATGATATGAAGACATAATAATCA
ATTTGTTCATGTGTCAATTCTTATCAAATAATGAAAAAAATATTTTAGTAATTTTTCAAAGGAGC
Found at i:3672633 original size:18 final size:18
Alignment explanation
Indices: 3672605--3672664 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
3672595 TTATATAAAA
3672605 ATTATATATAATAATTTTT
1 ATTA-ATATAATAATTTTT
*
3672624 ATTAATATAA-AA--ATT
1 ATTAATATAATAATTTTT
*
3672639 A-T-GTATAATAATTTTT
1 ATTAATATAATAATTTTT
3672655 ATTAATATAA
1 ATTAATATAA
3672665 AATATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
13 5 0.16
14 3 0.09
15 3 0.09
16 3 0.09
17 3 0.09
18 11 0.34
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAATATAATAATTTTT
Found at i:3672635 original size:31 final size:31
Alignment explanation
Indices: 3672592--3672717 Score: 132
Period size: 31 Copynumber: 4.0 Consensus size: 31
3672582 ATTTATATTA
* *
3672592 TATTTATATAAAAATTATATATAATAATTTT
1 TATTAATATAAAAATAATATATAATAATTTT
* *
3672623 TATTAATATAAAAATTATGTATAATAATTTT
1 TATTAATATAAAAATAATATATAATAATTTT
*
3672654 TATTAATATAAAATATAAAATAT-A-AATGTTT
1 TATTAATATAAAA-ATAATATATAATAAT-TTT
*
3672685 TATTAAATTATATAAAATAAT-TATTATAATTTT
1 TATT-AA-TATA-AAAATAATATATAATAATTTT
3672718 AAATTACATC
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.04
31 50 0.61
32 11 0.13
33 12 0.15
34 6 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
TATTAATATAAAAATAATATATAATAATTTT
Found at i:3672747 original size:13 final size:13
Alignment explanation
Indices: 3672729--3672776 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
3672719 AATTACATCA
3672729 TTTTATATTTTAT
1 TTTTATATTTTAT
*
3672742 TTTTATATTATAT
1 TTTTATATTTTAT
* *
3672755 TTTTGTTATATTA-
1 TTTT-ATATTTTAT
3672768 TTTTATATT
1 TTTTATATT
3672777 ATAGAATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 3 0.11
13 20 0.71
14 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTATATTTTAT
Found at i:3672758 original size:26 final size:26
Alignment explanation
Indices: 3672729--3672779 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
3672719 AATTACATCA
*
3672729 TTTT-ATATTTTATTTTTATATTATAT
1 TTTTGATATATTA-TTTTATATTATAT
*
3672755 TTTTGTTATATTATTTTATATTATA
1 TTTTGATATATTATTTTATATTATA
3672780 GAATCTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTGATATATTATTTTATATTATAT
Found at i:3674868 original size:61 final size:61
Alignment explanation
Indices: 3674786--3674990 Score: 197
Period size: 61 Copynumber: 3.4 Consensus size: 61
3674776 TATAAGGGAC
* * * *
3674786 ATTATAGTAATTTTAAG-TAATTAT--TATGGAAGGGCATTTTTGTAAGTATGGTATGATGGAT
1 ATTATAGTAATTTT-GGCTAATTATAGTA-GGAAGGGCATTTTTATAATTATGGTAAGAT-GAT
* * * *
3674847 ATTATAGTAATTTTGGCTAATTATAGTAGG-AGGG-ATATTTCATAATTAT-GCAACAAGAT
1 ATTATAGTAATTTTGGCTAATTATAGTAGGAAGGGCAT-TTTTATAATTATGGTAAGATGAT
* * * * *
3674906 ATTATAGTAATTTTGGCTAATTATAGTAGGACGAGCATTTTTATAATTATGATAGGATGAC
1 ATTATAGTAATTTTGGCTAATTATAGTAGGAAGGGCATTTTTATAATTATGGTAAGATGAT
**
3674967 ATTATAGTAATTTTGATTAATTAT
1 ATTATAGTAATTTTGGCTAATTAT
3674991 GAAAAGAGTA
Statistics
Matches: 118, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
59 33 0.28
60 19 0.16
61 62 0.53
62 2 0.02
63 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.41
Consensus pattern (61 bp):
ATTATAGTAATTTTGGCTAATTATAGTAGGAAGGGCATTTTTATAATTATGGTAAGATGAT
Found at i:3675272 original size:128 final size:129
Alignment explanation
Indices: 3675125--3675375 Score: 335
Period size: 128 Copynumber: 2.0 Consensus size: 129
3675115 ATTTAATAAG
* * * * * *
3675125 TAATTTAATAGGGGTATTATAGTAAATTTTAAACAAAATTCCACATGTCAAATATTTATGAAATA
1 TAATTTAATAGGAGAATTATAATAAATTTTAAACAAAATGCCACATGTCAAATATTTATAAAACA
* * * * *
3675190 ATGACAAGGGTATTTTAGTAA-TTAATAAGTTA-TTAATTTTATATTATATTAAAATTTCATATA
66 ATGACAAGGATATATTAATAATTTAATAAG-CAGTCAATTTTATATTATATTAAAATTTCATATA
* * *
3675253 TAATTTAATAGGAGAATTATAATAACTTTTAAATAAAATGCCACATGTCAAATTTTTATAAAACA
1 TAATTTAATAGGAGAATTATAATAAATTTTAAACAAAATGCCACATGTCAAATATTTATAAAACA
* *
3675318 ATGACAAGGATATATTAATAATTTAATATGCAGTCAATTTTATATTATGTTAAAATTT
66 ATGACAAGGATATATTAATAATTTAATAAGCAGTCAATTTTATATTATATTAAAATTT
3675376 AATAAAGGTG
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
128 75 0.71
129 30 0.29
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (129 bp):
TAATTTAATAGGAGAATTATAATAAATTTTAAACAAAATGCCACATGTCAAATATTTATAAAACA
ATGACAAGGATATATTAATAATTTAATAAGCAGTCAATTTTATATTATATTAAAATTTCATATA
Found at i:3675581 original size:61 final size:60
Alignment explanation
Indices: 3675495--3675655 Score: 175
Period size: 61 Copynumber: 2.6 Consensus size: 60
3675485 TGGTTAATTA
* * *
3675495 TTTCGTAATTTTGATAAGAAAAGTATTATAGTAATTTTAGCTAATTAT-AGTTAGAGAGATAT
1 TTTCGTAATTTTGGT-A-AAAAGTATTATAGTAATTTTAGCTAATTATAAG-AAGAGAAATAT
* * * *
3675557 TTAT-GTAATTATT-GTAGGATAGTATTATACTAATTTTAGTTAATTATAAGAAGAGAAATAT
1 TT-TCGTAATT-TTGGTA-AAAAGTATTATAGTAATTTTAGCTAATTATAAGAAGAGAAATAT
*
3675618 TTTCGTAATTTTGGTAAAAAATATTATAGTAATTTTAG
1 TTTCGTAATTTTGGTAAAAAGTATTATAGTAATTTTAG
3675656 ATACATGTCG
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
60 21 0.25
61 48 0.58
62 11 0.13
63 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.43
Consensus pattern (60 bp):
TTTCGTAATTTTGGTAAAAAGTATTATAGTAATTTTAGCTAATTATAAGAAGAGAAATAT
Found at i:3678089 original size:16 final size:16
Alignment explanation
Indices: 3678065--3678099 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3678055 ATACAAGATC
*
3678065 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
*
3678081 ATACTAATTGTTAAAG
1 ATACCAATTGTTAAAG
3678097 ATA
1 ATA
3678100 TGTTATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:3684869 original size:130 final size:130
Alignment explanation
Indices: 3684548--3684883 Score: 335
Period size: 130 Copynumber: 2.6 Consensus size: 130
3684538 AGAAAATAGG
* * * * * * *
3684548 TATTTTCA-TAATTATGGTATAAGGACATAATAATCAATTT-AGTCACGTGTCAATTTTTTATTA
1 TATTTT-AGTAATTATGATATGAGAACATAATAATCAATTTGA-TCACATATC-ATTTCTTATCA
* * * * *
3684611 AACAATGAAAATGATATTTTGATAATTTTTTAGAAGTGGTGTTATAGTAAATAATTATAAAAAAA
63 AATAATGAAAATGATATTTTCATAATTTTTAAGAAGT-GTATTATAGTAAATAATCATAAAAAAA
*
3684676 TGAG
127 TGAA
* * * * *
3684680 TATTTTAGTAATTATGATATGA-AAGCATTATAGTTAATTTGGTCACATACTAATTTCTTATCAA
1 TATTTTAGTAATTATGATATGAGAA-CATAATAATCAATTTGATCACATA-TCATTTCTTATCAA
* * *
3684744 ATAATGAAAATGATATTTTCTTAATTTTTAAG-AGAT-TATT-TAGTAAAATAATCATAAAAGAG
64 ATAATGAAAATGATATTTTCATAATTTTTAAGAAG-TGTATTATAGT-AAATAATCATAAAAAAA
3684806 TGAA
127 TGAA
*
3684810 TAATTTT-GTAATTATGATATGAGAACATAATAATCAATTTGATCATATATCATTCTCTTATCAA
1 T-ATTTTAGTAATTATGATATGAGAACATAATAATCAATTTGATCACATATCATT-TCTTATCAA
3684874 ATAATGAAAA
64 ATAATGAAAA
3684884 GAACATTTTG
Statistics
Matches: 168, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
129 8 0.05
130 74 0.44
131 11 0.07
132 74 0.44
133 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (130 bp):
TATTTTAGTAATTATGATATGAGAACATAATAATCAATTTGATCACATATCATTTCTTATCAAAT
AATGAAAATGATATTTTCATAATTTTTAAGAAGTGTATTATAGTAAATAATCATAAAAAAATGAA
Found at i:3687135 original size:19 final size:19
Alignment explanation
Indices: 3687111--3687149 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3687101 TTATGTATTT
3687111 ATATATTTATATCTAATAA
1 ATATATTTATATCTAATAA
* *
3687130 ATATATTTTTATGTAATAA
1 ATATATTTATATCTAATAA
3687149 A
1 A
3687150 ATTTTAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATATATTTATATCTAATAA
Found at i:3700035 original size:357 final size:356
Alignment explanation
Indices: 3699273--3701982 Score: 3185
Period size: 357 Copynumber: 7.6 Consensus size: 356
3699263 TAAAACAATT
* * * * * ** * *
3699273 TATTGAAGGTGGTTTATAATAAAATATGCCTTTAATAATCCACAAAAATTTTTTTAGGAAAATTA
1 TATTGAAGGCGATTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAAAAATTA
* * * * *
3699338 TTAAAGGCGTTA-TTTTCGTAACCGCCTTCAGTTATTATCTACAAACTGTGTTAGAAATTATTAA
66 TTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATTAA
* * *
3699402 AAGCATCTTTCTTGGATGTACGCCTTCAATAACAGTATTAGAATTTGTGTGACGGTATATTA-AA
131 AGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAGTATA-TAGAA
* * * * **** *
3699466 GGCATTTTATAGTAGAAAATGCCTTTAATAATTCTCAAAATATTTGTGAAAAAATTTTGAAGGTG
195 GGTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAAAAAAAATTTTGAAGGCG
* * * *
3699531 TCTGTTATTAACAAATACCTTCAATAATGGATTAATAAGTTTAAAGGTATATTGAAGGCACTTTT
260 TCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTT
* * *
3699596 TTTAATAAACACCTTCCAGTACCATTGTGGTA
325 TCTAATAAACGCCTTCCATTACCATTGTGGTA
*** * * * * *
3699628 TATTGAATATGGTTTATAATAAAATACGCCTTTAATAATCTGTGAAAATTTTTTGAGAAAAATTA
1 TATTGAAGGCGATTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAAAAATTA
** *
3699693 TTGAAGGCATTATTTTTTATAACCGCCTTCAGTTATTATCTACAAATTGTGATAGAAATTATTAA
66 TTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATTAA
* * *
3699758 AGGCATCTTTCTTGGATATACGCCTTCAATAACAGTGTTAGAATTTGTGTAATAGTATATAGAAG
131 AGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAGTATATAGAAG
* * * * * *
3699823 ATATTTTGTATTAGAAGACGCCTTTAATAATTCTTAAAATATTAAAAAAATAAATTTTGAAGGTG
196 GTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAAAAA-AAATTTTGAAGGCG
*
3699888 TTTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTT
260 TCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTT
* * *
3699953 TCTAATAAACGCCTTCTATTACCATCGTGATA
325 TCTAATAAACGCCTTCCATTACCATTGTGGTA
*
3699985 TATTGAAGGCGATTTATAATAAAAGACGCCTTTAATAATCCGTAAAAATTTTTTGAGAAAAATTA
1 TATTGAAGGCGATTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAAAAATTA
* * * * * *
3700050 TTGAAAGCGTTGTTTTCTGCAACCGCCTTCAGTTATTATCTACAAATTGTGATAGGAATTATTAA
66 TTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATTAA
* * * * * * *
3700115 AGGCATTTTTGTTAGATGTACACCTTCAATAACAATGTTAGAATTTGTGTGGCAATATATAGAAG
131 AGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAGTATATAGAAG
* * *
3700180 GTATTTTATAGTAGAAGACGCATTTAATAATTCCCAAAATATTAAAAGAATAAATTTTGAAGGCA
196 GTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAA-AAAAAATTTTGAAGGCG
*
3700245 TCTATTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTT
260 TCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACC-TT
* *
3700310 TTCTAATAAATGCCTTCCATTACCATCGTGGTA
324 TTCTAATAAACGCCTTCCATTACCATTGTGGTA
* * * *
3700343 TATTGAAGGTGGTTTATAATAAAAGACGCCTTTAAAAATCCATGAAAATTTTTTGA-AAGAAATT
1 TATTGAAGGCGATTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAA-AAATT
**** * *
3700407 ATTGAAAATGTTATTTTTTTCAACCACCTTCAGTTATTATCTACAAACTGTGATA-AGAATTATT
65 ATTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGA-AATTATT
* * * * * *
3700471 AAAGGCGTCTTCCTTAGATGTACGCCTTCAATAACAGTATTAAAATTTGTGTGAC-GATATATAA
129 AAAGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAG-TATATAG
* * * * * ** *
3700535 AAGGCATTTTACAATAGAAAATGTGTTTAATAATTCTTAAAATATTAAAAGAAAAAATTTTGAAG
193 AAGGTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAA-AAAAAATTTTGAAG
* * * * *
3700600 GCATTTGTTATTAACAAACGTCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTAAAGGGCAC
257 GCGTCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-GGCAC
* * *
3700665 CTTTTCTAATAAACGCCTTCCATTACCATTATTGTC
321 CTTTTCTAATAAACGCCTTCCATTACCATTGTGGTA
* * * * * *
3700701 TATTAAAGGCAATTTATAATAAAAGACACCTTTAAAAATACGTAAAAAATTTTTGAGAGAAATTA
1 TATTGAAGGCGATTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAAAAATTA
* * * *
3700766 TTGAAGGTATTATTTTTTGTAATCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAA
66 TTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATTAA
* * * * * *
3700831 AAG-ATTCTTTCTTGGATGTACACCTTTAATAACAATGTTAGAATTTGTGTGGCGGTATATAGAA
131 AGGCA-TCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAGTATATAGAA
* * * ***
3700895 GGCATTTTATACTAGAAGACGCATTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTAAAATT
195 GGTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAA-AAAAAATTTTGAAGGC
* **
3700960 GTCTGTTATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTT
259 GTCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTT
* * * *
3701025 TTTTAATAAACGCATTCAATTACCATTGTTGTA
324 TTCTAATAAACGCCTTCCATTACCATTGTGGTA
* * * * * *
3701058 TATTGAAAGTGATTTATTATAAAAAATG-CTTTCAAAAATACGTAAAAATTTTTTGAGAAAAATT
1 TATTGAAGGCGATTTATAATAAAAGACGCCTTT-AAAAATCCGTAAAAATTTTTTGAGAAAAATT
* * * * *
3701122 ATTGAAGGCATTGTTTTCTACAACCGCCTTCAGTTATTATCTACAAAGTATGATAGAAATTATTA
65 ATTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATTA
* * * * * *
3701187 AAGGCATCTTTCTTGGATTTAAGCCTTCAATAATAGTGTTAGAATTTGTGTAACGGTATATCGAA
130 AAGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAGTATATAGAA
* * * * * * *
3701252 GGTATTTTACAGTAGAAGACACTTTTAATAATTTTTAAAATATTAAAAGAAAAATTTTAAAGGCG
195 GGTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAAAAAAAATTTTGAAGGCG
* * *
3701317 TATATTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACATTT
260 TCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTT
* * *
3701382 TCTAATAAATGCCTTCTATTACCATTATGGTA
325 TCTAATAAACGCCTTCCATTACCATTGTGGTA
* * * * *
3701414 TATTAAAAGC-AGTTTATAATAAAAGATGCCTTTAATAATCCGTAAAAATCTTTTGA-AAGAAAT
1 TATTGAAGGCGA-TTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAA-AAAT
* * * ** ** * * * *
3701477 TATTTAAGGCGTTGTTTCATGCAACTACCTTCAATTATTATCTATAAACTATGATAGGAATTATT
64 TATTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATT
* * * ** * * *
3701542 AAAGGCGTATTTGTTGGATGTGTGCCTTCAATAACAGTATTAGAATTTGTGTGGCAATATATAGA
129 AAAGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAGTATATAGA
* * * * *
3701607 AGATATTTTACAGTAGAAGATGCTTTTAATAATTCTCAAAATATTAAAAGAATAAATTTTGAAGG
194 AGGTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAA-AAAAAATTTTGAAGG
* * * * *
3701672 CATCTGTTATTAACAAACGCCTTTAGTAATGGATTACTAAGTTT-AAGGTATATTGAATGTC-CT
258 CGTCTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-GGCACC
3701735 TTTTCTAATAAACGCCTTCCATTACCATTGTGGTA
322 TTTTCTAATAAACGCCTTCCATTACCATTGTGGTA
* * *** * *
3701770 TATTAAAGGCGATTTATAATAAAAGACGTCTTTAAAAATCCACGAAAATTTTTTAAGAGAAATTA
1 TATTGAAGGCGATTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAAAAATTA
* * * * * *
3701835 TTAAAGGTATTATTTTATGCAACCACCTTCAGTTATTATCTACAAACTGTGATTGGAATTATTAA
66 TTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATTAA
** * * * *
3701900 AGGTGTCTTTTTTGGATATACGCCTTCAATAATAGTGTTAGAATTTATGTGAC-GATATATAGAA
131 AGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAG-TATATAGAA
*
3701964 GGTATTTTACAGTAGAAGA
195 GGTATTTTATAGTAGAAGA
3701983 TAATAATTTT
Statistics
Matches: 2021, Mismatches: 311, Indels: 45
0.85 0.13 0.02
Matches are distributed among these distances:
355 71 0.04
356 663 0.33
357 678 0.34
358 601 0.30
359 8 0.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (356 bp):
TATTGAAGGCGATTTATAATAAAAGACGCCTTTAAAAATCCGTAAAAATTTTTTGAGAAAAATTA
TTGAAGGCATTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGAAATTATTAA
AGGCATCTTTCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACAGTATATAGAAG
GTATTTTATAGTAGAAGACGCATTTAATAATTCTCAAAATATTAAAAAAAAAATTTTGAAGGCGT
CTGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTTT
CTAATAAACGCCTTCCATTACCATTGTGGTA
Found at i:3701983 original size:356 final size:357
Alignment explanation
Indices: 3699285--3701982 Score: 3151
Period size: 356 Copynumber: 7.6 Consensus size: 357
3699275 TTGAAGGTGG
* * * * * *
3699285 TTTATAATAAAATATGCCTTTAATAATCCACAAAAATTTTTTTAG-GAAAATTATTAAAGGCGTT
1 TTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATTTTTTGAGAG-AAATTATTAAAGGCATT
* * * * *
3699349 A-TTTTCGTAACCGCCTTCAGTTATTATCTACAAACTGTGTTAGAAATTATTAAAAGCATCTTTC
65 ATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTTTC
* * * *
3699413 TTGGATGTACGCCTTCAATAACAGTATTAGAATTTGTGTGACGGTATATTA-AAGGCATTTTATA
130 TTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATA-TAGAAGGTATTTTACA
* * * *** *
3699477 GTAGAAAATGCCTTTAATAATTCTCAAAATATT-TGTGAAAAAATTTTGAAGGTGTCTGTTATTA
194 GTAGAAGACGCTTTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTGAAGGCGTCTGTTATTA
* * * *
3699541 ACAAATACCTTCAATAATGGATTAATAAGTTTAAAGGTATATTGAAGGCACTTTTTTTAATAAAC
259 ACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACTTTTTCTAATAAAC
* * *
3699606 ACCTTCCAGTACCATTGTGGTATATTGAATATG-G-
324 GCCTTCCATTACCATTGTGGTATATT-AA-AGGCGA
* * *** * *
3699640 TTTATAATAAAATACGCCTTTAATAATCTGTGAAAATTTTTTGAGAAAAATTATTGAAGGCATTA
1 TTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATTTTTTGAGAGAAATTATTAAAGGCATTA
** * *
3699705 TTTTTTATAACCGCCTTCAGTTATTATCTACAAATTGTGATAGAAATTATTAAAGGCATCTTTCT
66 TTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTTTCT
* ** * ** *
3699770 TGGATATACGCCTTCAATAACAGTGTTAGAATTTGTGT-AATAGTATATAGAAGATATTTTGTAT
131 TGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGA-TATATAGAAGGTATTTTACAG
* * * *
3699834 TAGAAGACGCCTTTAATAATTCTTAAAATATTAAAA-AAATAAATTTTGAAGGTGTTTGTTATTA
195 TAGAAGACGCTTTTAATAATTCTCAAAATATTAAAAGAAA-AAATTTTGAAGGCGTCTGTTATTA
*
3699898 ACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTTTCTAATAAAC
259 ACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACTTTTTCTAATAAAC
* * * *
3699963 GCCTTCTATTACCATCGTGATATATTGAAGGCGA
324 GCCTTCCATTACCATTGTGGTATATTAAAGGCGA
* *** * *
3699997 TTTATAATAAAAGACGCCTTTAATAATCCGTAAAAATTTTTTGAGAAAAATTATTGAAA-GCGTT
1 TTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATTTTTTGAGAGAAATTATT-AAAGGCATT
* * * * *
3700061 GTTTTCTGCAACCGCCTTCAGTTATTATCTACAAATTGTGATAGGAATTATTAAAGGCATTTTTG
65 ATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTTTC
* * * * * *
3700126 TTAGATGTACACCTTCAATAACAATGTTAGAATTTGTGTGGCAATATATAGAAGGTATTTTATAG
130 TTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATATAGAAGGTATTTTACAG
* * * * *
3700191 TAGAAGACGCATTTAATAATTCCCAAAATATTAAAAGAATAAATTTTGAAGGCATCTATTATTAA
195 TAGAAGACGCTTTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTGAAGGCGTCTGTTATTAA
*
3700256 CAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACCTTTTTCTAATAAAT
260 CAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCA-CTTTTTCTAATAAAC
* * * *
3700321 GCCTTCCATTACCATCGTGGTATATTGAAGGTGG
324 GCCTTCCATTACCATTGTGGTATATTAAAGGCGA
* * *
3700355 TTTATAATAAAAGACGCCTTTAAAAATCCATGAAAATTTTTTGAAAGAAATTATTGAAAATG--T
1 TTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATTTTTTGAGAGAAATTATT--AAAGGCAT
* * * * *
3700418 TATTTTTTTCAACCACCTTCAGTTATTATCTACAAACTGTGATAAGAATTATTAAAGGCGTCTTC
64 TATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTTT
* * * * *
3700483 CTTAGATGTACGCCTTCAATAACAGTATTAAAATTTGTGTGACGATATATAAAAGGCATTTTACA
129 CTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATATAGAAGGTATTTTACA
* * * * * *
3700548 ATAGAAAATG-TGTTTAATAATTCTTAAAATATTAAAAGAAAAAATTTTGAAGGCATTTGTTATT
194 GTAGAAGACGCT-TTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTGAAGGCGTCTGTTATT
* * * *
3700612 AACAAACGTCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTAAAGGGCACCTTTTCTAATAA
258 AACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-GGCACTTTTTCTAATAA
* * * *
3700677 ACGCCTTCCATTACCATTATTGTCTATTAAAGGCAA
322 ACGCCTTCCATTACCATTGTGGTATATTAAAGGCGA
* * * *
3700713 TTTATAATAAAAGACACCTTTAAAAAT--ACGTAAAAAATTTTTGAGAGAAATTATTGAAGGTAT
1 TTTATAATAAAAGACGCCTTTAAAAATCCACG--AAAATTTTTTGAGAGAAATTATTAAAGGCAT
* * *
3700776 TATTTTTTGTAATCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAAG-ATTCTT
64 TATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCA-TCTT
* * * * * * *
3700840 TCTTGGATGTACACCTTTAATAACAATGTTAGAATTTGTGTGGCGGTATATAGAAGGCATTTTAT
128 TCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATATAGAAGGTATTTTAC
* * * ***
3700905 ACTAGAAGACGCATTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTAAAATTGTCTGTTATT
193 AGTAGAAGACGCTTTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTGAAGGCGTCTGTTATT
*
3700970 AACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGC-CTTTTT-TAATA
258 AACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-G-GCACTTTTTCTAATA
* * * *
3701033 AACGCATTCAATTACCATTGTTGTATATTGAAA-GTGA
321 AACGCCTTCCATTACCATTGTGGTATATT-AAAGGCGA
* * * * *
3701070 TTTATTATAAAAAATG-CTTTCAAAAAT--ACGTAAAAATTTTTTGAGAAAAATTATTGAAGGCA
1 TTTATAATAAAAGACGCCTTT-AAAAATCCACG--AAAATTTTTTGAGAGAAATTATTAAAGGCA
* * * * * *
3701132 TTGTTTTCTACAACCGCCTTCAGTTATTATCTACAAAGTATGATAGAAATTATTAAAGGCATCTT
63 TTATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTT
* * * * * *
3701197 TCTTGGATTTAAGCCTTCAATAATAGTGTTAGAATTTGTGTAACGGTATATCGAAGGTATTTTAC
128 TCTTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATATAGAAGGTATTTTAC
* * * * * *
3701262 AGTAGAAGACACTTTTAATAATTTTTAAAATATTAAAAG-AAAAATTTTAAAGGCGTATATTATT
193 AGTAGAAGACGCTTTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTGAAGGCGTCTGTTATT
*
3701326 AACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACATTTTCTAATAAA
258 AACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACTTTTTCTAATAAA
* * * *
3701391 TGCCTTCTATTACCATTATGGTATATTAAAAGC-A
323 CGCCTTCCATTACCATTGTGGTATATTAAAGGCGA
* * *** * * * *
3701425 GTTTATAATAAAAGATGCCTTTAATAATCCGTAAAAATCTTTTGAAAGAAATTATTTAAGGCGTT
1 -TTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATTTTTTGAGAGAAATTATTAAAGGCATT
* ** ** * * * * * *
3701490 GTTTCATGCAACTACCTTCAATTATTATCTATAAACTATGATAGGAATTATTAAAGGCGTATTTG
65 ATTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTTTC
** * * * *
3701555 TTGGATGTGTGCCTTCAATAACAGTATTAGAATTTGTGTGGCAATATATAGAAGATATTTTACAG
130 TTGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATATAGAAGGTATTTTACAG
* * *
3701620 TAGAAGATGCTTTTAATAATTCTCAAAATATTAAAAGAATAAATTTTGAAGGCATCTGTTATTAA
195 TAGAAGACGCTTTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTGAAGGCGTCTGTTATTAA
* * *
3701685 CAAACGCCTTTAGTAATGGATTACTAAGTTT-AAGGTATATTGAATGTC-CTTTTTCTAATAAAC
260 CAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA-GGCACTTTTTCTAATAAAC
3701748 GCCTTCCATTACCATTGTGGTATATTAAAGGCGA
324 GCCTTCCATTACCATTGTGGTATATTAAAGGCGA
* * *
3701782 TTTATAATAAAAGACGTCTTTAAAAATCCACGAAAATTTTTTAAGAGAAATTATTAAAGGTATTA
1 TTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATTTTTTGAGAGAAATTATTAAAGGCATTA
* * * ** *
3701847 TTTTATGCAACCACCTTCAGTTATTATCTACAAACTGTGATTGGAATTATTAAAGGTGTCTTTTT
66 TTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTTTCT
* * *
3701912 TGGATATACGCCTTCAATAATAGTGTTAGAATTTATGTGACGATATATAGAAGGTATTTTACAGT
131 TGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATATAGAAGGTATTTTACAGT
3701977 AGAAGA
196 AGAAGA
3701983 TAATAATTTT
Statistics
Matches: 2009, Mismatches: 298, Indels: 71
0.84 0.13 0.03
Matches are distributed among these distances:
354 2 0.00
355 70 0.03
356 659 0.33
357 656 0.33
358 612 0.30
359 9 0.00
360 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (357 bp):
TTTATAATAAAAGACGCCTTTAAAAATCCACGAAAATTTTTTGAGAGAAATTATTAAAGGCATTA
TTTTTTGCAACCGCCTTCAGTTATTATCTACAAACTGTGATAGGAATTATTAAAGGCATCTTTCT
TGGATGTACGCCTTCAATAACAGTGTTAGAATTTGTGTGACGATATATAGAAGGTATTTTACAGT
AGAAGACGCTTTTAATAATTCTCAAAATATTAAAAGAAAAAATTTTGAAGGCGTCTGTTATTAAC
AAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACTTTTTCTAATAAACGC
CTTCCATTACCATTGTGGTATATTAAAGGCGA
Found at i:3703466 original size:16 final size:17
Alignment explanation
Indices: 3703445--3703485 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
3703435 CGTGTCCTTG
*
3703445 GGATTTTTAG-GATTTT
1 GGATTTTAAGAGATTTT
*
3703461 GGATTTTAAGAGTTTTT
1 GGATTTTAAGAGATTTT
3703478 GGATTTTA
1 GGATTTTA
3703486 TGGGGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (17 bp):
GGATTTTAAGAGATTTT
Found at i:3703762 original size:3 final size:3
Alignment explanation
Indices: 3703756--3703781 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3703746 AAAAAAAAAA
3703756 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
3703782 ATTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3703908 original size:15 final size:15
Alignment explanation
Indices: 3703888--3703942 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
3703878 ATGCAAGAAT
3703888 AAATAAAAAAATTCA
1 AAATAAAAAAATTCA
3703903 AAATAACAAAAATAAT-A
1 AAATAA-AAAAAT--TCA
*
3703920 ATATAAAAAAATTCA
1 AAATAAAAAAATTCA
3703935 AAA-AAAAA
1 AAATAAAAA
3703943 TTTGTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.18
15 9 0.26
16 12 0.35
17 6 0.18
18 1 0.03
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATAAAAAAATTCA
Found at i:3704953 original size:14 final size:14
Alignment explanation
Indices: 3704923--3704964 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
3704913 TTTCTGTCAT
*
3704923 TTTTTGTTTCTTT-
1 TTTTTGTTTTTTTA
*
3704936 TTTTTATTTTTTTA
1 TTTTTGTTTTTTTA
3704950 TTTTTGTTTTTTTA
1 TTTTTGTTTTTTTA
3704964 T
1 T
3704965 AAAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.07, C:0.02, G:0.05, T:0.86
Consensus pattern (14 bp):
TTTTTGTTTTTTTA
Found at i:3715108 original size:18 final size:18
Alignment explanation
Indices: 3715085--3715121 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3715075 TTCTTATAAT
3715085 AATATCATTAAGTTAAGA
1 AATATCATTAAGTTAAGA
*
3715103 AATATCATTAAGTTTAGA
1 AATATCATTAAGTTAAGA
3715121 A
1 A
3715122 TTACCATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (18 bp):
AATATCATTAAGTTAAGA
Found at i:3716366 original size:73 final size:73
Alignment explanation
Indices: 3716247--3716418 Score: 238
Period size: 73 Copynumber: 2.4 Consensus size: 73
3716237 AGAATCTAAG
* **
3716247 TATTTAAATCATAAAAGACAAATAAGTTAGTCATTTACCCATTTGTGTTTATAAGCTTTATCTTG
1 TATTTAAATCATAAAAGATAAATAAGTTAGTCATTTACCCATTTGTGCCTATAAGCTTTATCTTG
* *
3716312 TTTCTTTC
66 TTTCCTTA
** * *
3716320 TATTTAAATCATAACAA-ATAAATAAGTTAGTCATTTAGTCATTTGTGCCTATGAGTTTTATCTT
1 TATTTAAATCATAA-AAGATAAATAAGTTAGTCATTTACCCATTTGTGCCTATAAGCTTTATCTT
*
3716384 TTTTCCTTA
65 GTTTCCTTA
3716393 TATTTAAATCATAAAAGATAAATAAG
1 TATTTAAATCATAAAAGATAAATAAG
3716419 GAGAGATGTT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
72 2 0.02
73 83 0.95
74 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (73 bp):
TATTTAAATCATAAAAGATAAATAAGTTAGTCATTTACCCATTTGTGCCTATAAGCTTTATCTTG
TTTCCTTA
Found at i:3717144 original size:120 final size:120
Alignment explanation
Indices: 3716926--3717164 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
3716916 GATGCCAAAG
*
3716926 TAATATGACAATAGAGGTTTTTCTACTAATAAGAGCAACAGTCAGTGCATCATATTCAATATTGG
1 TAATATGACAATAGAGGTTTTTCTACTAACAAGAGCAACAGTCAGTGCATCATATTCAATATTGG
*
3716991 CATGTGGAGAAGGCTTGGGAAATTGAAAAAGCATTCTATCAGTTGCATTAGCATA
66 CATGTGAAGAAGGCTTGGGAAATTGAAAAAGCATTCTATCAGTTGCATTAGCATA
*
3717046 TAATCTGACAATAGAGGTTTTTCTACTAACAAGAGCAACAGTCAGTGCATCATATTCAATATTGG
1 TAATATGACAATAGAGGTTTTTCTACTAACAAGAGCAACAGTCAGTGCATCATATTCAATATTGG
3717111 CATGTGAAGAAGGCTT-GGAAGATTGAAAAAGCATTCTATCAGTTGCATTAGCAT
66 CATGTGAAGAAGGCTTGGGAA-ATTGAAAAAGCATTCTATCAGTTGCATTAGCAT
3717165 CTACTCCATA
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
119 4 0.03
120 111 0.97
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (120 bp):
TAATATGACAATAGAGGTTTTTCTACTAACAAGAGCAACAGTCAGTGCATCATATTCAATATTGG
CATGTGAAGAAGGCTTGGGAAATTGAAAAAGCATTCTATCAGTTGCATTAGCATA
Found at i:3718241 original size:61 final size:62
Alignment explanation
Indices: 3718136--3718251 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 62
3718126 AACGAAGAGG
* *
3718136 AAATGAGAGAGTAAGGGAAAGAAATGAAAATAAAAAGTTATTCTCACCTACCCATATGGGCT
1 AAATGAGAGAGCAAGGAAAAGAAATGAAAATAAAAAGTTATTCTCACCTACCCATATGGGCT
*
3718198 AAATGAGAGAGCAAGGAAAAGAAAT-AAAATAAAAAGTTGTTCTCACCTACCCAT
1 AAATGAGAGAGCAAGGAAAAGAAATGAAAATAAAAAGTTATTCTCACCTACCCAT
3718252 CTATGTAGCC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
61 28 0.55
62 23 0.45
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (62 bp):
AAATGAGAGAGCAAGGAAAAGAAATGAAAATAAAAAGTTATTCTCACCTACCCATATGGGCT
Found at i:3719277 original size:18 final size:18
Alignment explanation
Indices: 3719254--3719289 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3719244 ATAGTAAGTC
3719254 AATGAAAAGTCATATTCT
1 AATGAAAAGTCATATTCT
3719272 AATGAAAAGTCATATTCT
1 AATGAAAAGTCATATTCT
3719290 TCGTAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
AATGAAAAGTCATATTCT
Found at i:3720776 original size:23 final size:24
Alignment explanation
Indices: 3720750--3720794 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
3720740 GTGTTTATTA
3720750 ATAAAAAAATA-AAAATAAAAATT
1 ATAAAAAAATATAAAATAAAAATT
*
3720773 ATAAGAAAATATAAAATAAAAA
1 ATAAAAAAATATAAAATAAAAA
3720795 GATTGATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (24 bp):
ATAAAAAAATATAAAATAAAAATT
Found at i:3721466 original size:181 final size:181
Alignment explanation
Indices: 3721162--3721524 Score: 708
Period size: 181 Copynumber: 2.0 Consensus size: 181
3721152 CATGAAAAGG
*
3721162 ACGTCACAAGGTTGGATGCGAGAGAATGTCACGGACCTAAAAAAGAGTCTTGAATCTCACATCGA
1 ACGTCACAAGGTTGGATGCGAGAGAATGTCACGGACCTAAAAAAGAGTCATGAATCTCACATCGA
3721227 ACATAATATGAGGGTCACTGAGGTATATAAGGGTTCACACCACCTCTGTCTTATGAGACATCTTT
66 ACATAATATGAGGGTCACTGAGGTATATAAGGGTTCACACCACCTCTGTCTTATGAGACATCTTT
3721292 TGTAAGATAAAACCGTGAGGTCAAGGAGGTCAGAGCGGACAATACCTCATA
131 TGTAAGATAAAACCGTGAGGTCAAGGAGGTCAGAGCGGACAATACCTCATA
3721343 ACGTCACAAGGTTGGATGCGAGAGAATGTCACGGACCTAAAAAAGAGTCATGAATCTCACATCGA
1 ACGTCACAAGGTTGGATGCGAGAGAATGTCACGGACCTAAAAAAGAGTCATGAATCTCACATCGA
*
3721408 ACATAATATGAGGGTCACTGAGGTATATAAGGGTTCACACCACCTTTGTCTTATGAGACATCTTT
66 ACATAATATGAGGGTCACTGAGGTATATAAGGGTTCACACCACCTCTGTCTTATGAGACATCTTT
3721473 TGTAAGATAAAACCGTGAGGTCAAGGAGGTCAGAGCGGACAATACCTCATA
131 TGTAAGATAAAACCGTGAGGTCAAGGAGGTCAGAGCGGACAATACCTCATA
3721524 A
1 A
3721525 AGGTGTGAAT
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 180 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (181 bp):
ACGTCACAAGGTTGGATGCGAGAGAATGTCACGGACCTAAAAAAGAGTCATGAATCTCACATCGA
ACATAATATGAGGGTCACTGAGGTATATAAGGGTTCACACCACCTCTGTCTTATGAGACATCTTT
TGTAAGATAAAACCGTGAGGTCAAGGAGGTCAGAGCGGACAATACCTCATA
Found at i:3722273 original size:24 final size:25
Alignment explanation
Indices: 3722246--3722302 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
3722236 AGTTTAATAT
3722246 ATATTTTTATTTATGGTAT-AAAAA
1 ATATTTTTATTTATGGTATCAAAAA
* *
3722270 ATATTAATT-TTTATGTTATCAAAAA
1 ATATT-TTTATTTATGGTATCAAAAA
3722295 A-ATTTTTA
1 ATATTTTTA
3722303 ACAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
23 2 0.07
24 17 0.63
25 8 0.30
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (25 bp):
ATATTTTTATTTATGGTATCAAAAA
Found at i:3724859 original size:19 final size:19
Alignment explanation
Indices: 3724835--3724877 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
3724825 AAAAGAAAAA
3724835 TTTTTATTTTTATTGAAAT
1 TTTTTATTTTTATTGAAAT
3724854 TTTTTATTTTTATTGAAAT
1 TTTTTATTTTTATTGAAAT
3724873 TTTTT
1 TTTTT
3724878 TTATAAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTTATTTTTATTGAAAT
Found at i:3726491 original size:20 final size:20
Alignment explanation
Indices: 3726466--3726513 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
3726456 TTCGGTGAGA
**
3726466 CTTTTTTTTTGTATTCTAA-C
1 CTTTTTTTTT-TAAACTAACC
3726486 CTTTTTTTTTTAAACTAACC
1 CTTTTTTTTTTAAACTAACC
3726506 CTTTTTTT
1 CTTTTTTT
3726514 CTTCATGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.65
Consensus pattern (20 bp):
CTTTTTTTTTTAAACTAACC
Found at i:3726492 original size:19 final size:20
Alignment explanation
Indices: 3726468--3726513 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
3726458 CGGTGAGACT
**
3726468 TTTTTTTTGTATTCTAA-CC
1 TTTTTTTTGTAAACTAACCC
*
3726487 TTTTTTTTTTAAACTAACCC
1 TTTTTTTTGTAAACTAACCC
3726507 TTTTTTT
1 TTTTTTT
3726514 CTTCATGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.17, C:0.15, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTTTGTAAACTAACCC
Found at i:3726916 original size:12 final size:11
Alignment explanation
Indices: 3726880--3726926 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
3726870 TATTCTGTGT
*
3726880 TTTTTTTTATA
1 TTTTTTATATA
*
3726891 TTTTTT-TGTA
1 TTTTTTATATA
*
3726901 TTTTGTAT-TA
1 TTTTTTATATA
3726911 TTTTTTATATA
1 TTTTTTATATA
3726922 TTTTT
1 TTTTT
3726927 ATTGTATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 17 0.55
11 14 0.45
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:3726940 original size:20 final size:20
Alignment explanation
Indices: 3726899--3726969 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
3726889 TATTTTTTTG
* *
3726899 TATTTTGTA-TTATTTTTTA
1 TATTTTGTATTTATATTTCA
* *
3726918 TATATTTTTA-TTGTATTTCA
1 TAT-TTTGTATTTATATTTCA
3726938 TATTTTGTATTTATATTTCA
1 TATTTTGTATTTATATTTCA
*
3726958 TATTTTATATTT
1 TATTTTGTATTT
3726970 TTGGACAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 8 0.19
20 35 0.81
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTGTATTTATATTTCA
Found at i:3726947 original size:14 final size:13
Alignment explanation
Indices: 3726899--3726970 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
3726889 TATTTTTTTG
3726899 TATTTTGTA-TTA
1 TATTTTGTATTTA
*
3726911 T-TTTT-TATATA
1 TATTTTGTATTTA
*
3726922 TTTTTATTGTATTTCA
1 -TATT-TTGTATTT-A
3726938 TATTTTGTATTTA
1 TATTTTGTATTTA
**
3726951 TATTTCATATTTTA
1 TATTTTGTA-TTTA
3726965 TATTTT
1 TATTTT
3726971 TGGACAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
10 2 0.04
11 6 0.13
12 2 0.04
13 10 0.21
14 19 0.40
15 7 0.15
16 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (13 bp):
TATTTTGTATTTA
Found at i:3727241 original size:56 final size:56
Alignment explanation
Indices: 3727165--3727271 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
3727155 CAACAACTTT
*
3727165 AAAAATTTCATCTTAAAAAAAAGTTCCTCTCAGCAAAAGCTTAACAATTTTTTAAA
1 AAAAATTTCATCTTAAAAAAAAGCTCCTCTCAGCAAAAGCTTAACAATTTTTTAAA
* *
3727221 AAAAATTCTCAT-TTTAAAAAAAGCTCCTCTCAGCAAAGGCTTAACAATTTT
1 AAAAATT-TCATCTTAAAAAAAAGCTCCTCTCAGCAAAAGCTTAACAATTTT
3727272 AAAATCTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
56 43 0.91
57 4 0.09
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (56 bp):
AAAAATTTCATCTTAAAAAAAAGCTCCTCTCAGCAAAAGCTTAACAATTTTTTAAA
Found at i:3727354 original size:49 final size:50
Alignment explanation
Indices: 3727128--3728304 Score: 1002
Period size: 49 Copynumber: 24.0 Consensus size: 50
3727118 ATTTAAAATC
* * *
3727128 TGAAAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * * * *
3727178 TAAAAAAAAGTTCCTCTCAGCAAAAGCTTAACAATTTTTTAAAAAAAATTCTCATTT
1 T-GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA--CTTT---AAAAA-TCTCATCT
* * * *
3727235 TAAAAAAAGCTCCTCTCAGCAAAGGCTTAACAA-TTT-TAAA----ATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* *
3727279 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTT-AAAATCTCATTT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * *
3727328 TGGAAATAA-CTCCTTTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCT
1 T-GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * * * *
3727378 TAAAAAAAGCTCATCTTAGCAGATGCTTAACAATTTTTAAAAATTTTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-CTTTAAAAA-TCTCATCT
* * *
3727430 TGAAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATTTCAT-T
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* *
3727479 TG-AAAAAGCTCATCTCAACAGAGGCTCAACAACTTT--AAA----ATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * *
3727522 TGAAAAAAGCTCCTATCAGCAAAGGCTCAACGACTTT-AAAATCTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * *
3727571 TGGAAATAA-CTCATTTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCT
1 T-GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * *
3727621 TAAAAAAAGCTCCTCGCAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-CTTTAAAAA-TCTCATCT
* * * *
3727673 TGAAAAAAGCTCCTTTCAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-CTTTAAAAA-TCTCATCT
* * *
3727725 TGAAAAAAGCTCCTCTCAGCAAAGGCTCAACAATTTTAAAAATTTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
** *
3727775 TGGAAAAAA-CTCCTCTCAATAAAGGCTCAACAACTTTAAAAATCTCAT-T
1 T-GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * *
3727824 TG-AAAAAGTTCCTTTCAGCAGATGCTCAACAACTTT--AAA----ATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * *
3727867 TGAAAAATGTTCATCTCAGCAGAGGCTTAACGACTTT-AAAATCTCATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* ** * * * * *
3727916 TGGAAATGGCTCCTCTCAGTAAAGGCTTAACAACTTTAAAAATTTTATC-
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* *
3727965 TGAAAAAA-CTTCTCTCAACAGAGGCTCAACAACTTT-AAAATC-CATCT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * *
3728012 TGAAAAGAGCTCCTCTCAACAGAAGCTCAATAACTTT-AAAATCTCAT-T
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
3728060 TGAAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAT-TCATCT
1 TG-AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * *
3728109 TG--AAAAGCTCATCTCAGCAGAAGTTCAACAACTTTAAAAAT-T-TTTT
1 TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
** * ** *
3728155 TAGAAAATGGCTCCTTTCAATAGAGGCTCAACGACTTT-AAAAT-TCATCT
1 T-GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * *
3728204 TG-AAAAGGACTCCTTTCAACAAAGGCTTAACAACTTTAAAAATCTCATCT
1 TGAAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * *
3728254 TGGAAAAGAGCTCATCTCAGTAGAGGCTCAACAACTTT-AAAATCTCATCT
1 T-GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
3728304 T
1 T
3728305 TTCTCAAAAC
Statistics
Matches: 929, Mismatches: 144, Indels: 108
0.79 0.12 0.09
Matches are distributed among these distances:
42 4 0.00
43 6 0.01
44 89 0.10
45 12 0.01
46 42 0.05
47 29 0.03
48 147 0.16
49 187 0.20
50 152 0.16
51 88 0.09
52 125 0.13
53 6 0.01
56 35 0.04
57 7 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (50 bp):
TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
Found at i:3727550 original size:243 final size:240
Alignment explanation
Indices: 3727125--3728301 Score: 1113
Period size: 243 Copynumber: 4.8 Consensus size: 240
3727115 AAAATTTAAA
* * *
3727125 ATCTGAAAAAAA-CTCATCTCAGCAGAGGCTCAACAACTTTAAAAA-TTTCATCTTAAAAAAAAG
1 ATCTTAAAAAAAGCTCATCTCAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTT-GAAAAAAG
* * * *
3727188 TTCCTCTCAGCAAAAGCTTAACAATTTTTTAAAAAAAATTCTCATTTTAAAAAAAGCTCCTCTCA
65 CTCCTCTCAGCAAAGGCTTAACAA--CTTT---AAAAATT-TCA-TTT-GAAAAAGCTCCTCTCA
* * * * * *
3727253 GCAAAGGCTTAACAATTTTAAAATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTTAA
122 ACAAAGGCTCAACAACTTTAAAATCTTGAAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAA
3727318 AATCTCATTTTGGAAATAA-CTCCTTTCAGCAAAGGCTCAACAACTTTAAAAATTTC
187 AATCTCA-TTTGGAAATAAGCTCCTTTCAGCAAAGGCTCAACAACTTT-AAAA-TTC
* * *
3727374 ATCTTAAAAAAAGCTCATCTTAGCAGATGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAG
1 ATCTTAAAAAAAGCTCATCTCAGCAGAGGCTTAACAA-CTTTAAAAATTTTCATCTTGAAAAAAG
* * * *
3727439 CTCCTCTCAACAAAGGCTCAACAACTTTAAAAATTTCATTTGAAAAAGCTCATCTCAACAGAGGC
65 CTCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTTCATTTGAAAAAGCTCCTCTCAACAAAGGC
* * *
3727504 TCAACAACTTTAAAATCTTGAAAAAAGCTCCTATCAGCAAAGGCTCAACGACTTTAAAATCTCAT
130 TCAACAACTTTAAAATCTTGAAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATCTCAT
*
3727569 CTTGGAAATAA-CTCATTTCAGCAGAA-GCTCAACAACTTTAAAAATTTC
195 -TTGGAAATAAGCTCCTTTCAGCA-AAGGCTCAACAACTTT-AAAA-TTC
* * *
3727617 ATCTTAAAAAAAGCTCCTCGCAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAG
1 ATCTTAAAAAAAGCTCATCTCAGCAGAGGCTTAACAA-CTTTAAAAATTTTCATCTTGAAAAAAG
* * * *
3727682 CTCCTTTCAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAGCTCCTCTCAGCAA
65 CTCCTCTCAGCAAAGGCTTAACAA-CTTTAAAAA-TTTCAT-TTG-AAAAAGCTCCTCTCAACAA
* *
3727747 AGGCTCAACAATTTTAAAAATTTCATCTTGGAAAAAA-CTCCTCTCAATAAAGGCTCAACAACTT
126 AGGCTCAACAACTTT--AAA----ATCTT-GAAAAAAGCTCCTCTCAACAAAGGCTCAACAACTT
* * *
3727811 TAAAAATCTCATTT-GAAA-AAGTTCCTTTCAGCAGATGCTCAACAACTTT-AAA---
184 T-AAAATCTCATTTGGAAATAAGCTCCTTTCAGCAAAGGCTCAACAACTTTAAAATTC
* * * * * * **
3727863 ATCTTGAAAAATGTTCATCTCAGCAGAGGCTTAACGACTTT-AAAA-TCTCATCTTGGAAATGGC
1 ATCTTAAAAAAAGCTCATCTCAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGAAAAAAGC
* * * * * *
3727926 TCCTCTCAGTAAAGGCTTAACAACTTTAAAAATTTTATCTGAAAAAACTTCTCTCAACAGAGGCT
66 TCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTTCATTTGAAAAAGCTCCTCTCAACAAAGGCT
* *
3727991 CAACAACTTTAAAATCCATCTTGAAAAGAGCTCCTCTCAACAGAA-GCTCAATAACTTTAAAATC
131 CAACAACTTT-AAA---ATCTTGAAAAAAGCTCCTCTCAACA-AAGGCTCAACAACTTTAAAATC
* * * *
3728055 TCATTTGAAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTC
191 TCATTTGGAAATAAGCTCCTTTCAGCAAAGGCTCAACAACTTTAAAATTC
* * **
3728105 ATCTT--GAAAAGCTCATCTCAGCAGAAG-TTCAACAACTTTAAAAATTTT--T-TTAGAAAATG
1 ATCTTAAAAAAAGCTCATCTCAGCAGAGGCTT-AACAACTTTAAAAATTTTCATCTT-GAAAAAA
* ** * * * * *
3728164 GCTCCTTTCAATAGAGGCTCAACGACTTT-AAAA-TTCATCTTGAAAAGGACTCCTTTCAACAAA
64 GCTCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTTCAT-TTGAAAAAG-CTCCTCTCAACAAA
* * * ** *
3728227 GGCTTAACAACTTTAAAAATCTCATCTTGGAAAAGAGCTCATCTCAGTAGAGGCTCAACAACTTT
127 GGCTCAACAACTTT--AAA----ATCTT-GAAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTT
3728292 AAAATCTCAT
185 AAAATCTCAT
3728302 CTTTTCTCAA
Statistics
Matches: 794, Mismatches: 97, Indels: 80
0.82 0.10 0.08
Matches are distributed among these distances:
236 18 0.02
237 33 0.04
238 38 0.05
239 46 0.06
240 83 0.10
241 13 0.02
242 23 0.03
243 277 0.35
244 17 0.02
245 12 0.02
246 41 0.05
247 30 0.04
249 17 0.02
250 24 0.03
251 38 0.05
252 36 0.05
253 31 0.04
254 17 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (240 bp):
ATCTTAAAAAAAGCTCATCTCAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGAAAAAAGC
TCCTCTCAGCAAAGGCTTAACAACTTTAAAAATTTCATTTGAAAAAGCTCCTCTCAACAAAGGCT
CAACAACTTTAAAATCTTGAAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATCTCATT
TGGAAATAAGCTCCTTTCAGCAAAGGCTCAACAACTTTAAAATTC
Found at i:3727605 original size:141 final size:142
Alignment explanation
Indices: 3727131--3728304 Score: 712
Period size: 141 Copynumber: 8.0 Consensus size: 142
3727121 TAAAATCTGA
* * ** *
3727131 AAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTAAAAAAAAGTTCCTCTC
1 AAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTT-GGAAAAAGCTCCTCTC
* * * * * * *
3727196 AGCAAAAGCTTAACAATTTTTTAAAAAAAATTCTCATTTTAAAAAAAGCTCCTCTCAGCAAAGGC
65 AGCAGAGGCTCAACAA--CTTT---AAAAA---TC---TTGAAAAAAGCTCCTTTCAGCAGAGGC
* *
3727261 TTAACAA-TTTTAAA---ATCTTG
119 TCAACAACTTTAAAATCCATCTTG
* * * * * *
3727281 AAAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTT-AAAATCTCATTTTGGAAATAA-CTCCTTT
1 -AAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTTGGAAA-AAGCTCCTCT
* * * * *
3727344 CAGCAAAGGCTCAACAACTTTAAAAATTTCATCTTAAAAAAAGCTCATCTT-AGCAGATGCTTAA
64 CAGCAGAGGCTCAACAACTTT-AAAA----ATCTTGAAAAAAGCTCCT-TTCAGCAGAGGCTCAA
* *
3727408 CAATTTTTAAAAATTTTCATCTTG
123 CAA-CTTT-AAAA--TCCATCTTG
* * *
3727432 AAAAAAGCTCCTCTCAACA-AAGGCTCAACAACTTTAAAAATTTCAT-TT-GAAAAAGCTCATCT
1 -AAAAAGCTCATCTCAGCAGAA-GCTCAACAACTTTAAAAATTTCATCTTGGAAAAAGCTCCTCT
* * * *
3727494 CAACAGAGGCTCAACAACTTT-AAAATCTTGAAAAAAGCTCCTATCAGCAAAGGCTCAACGACTT
64 CAGCAGAGGCTCAACAACTTTAAAAATCTTGAAAAAAGCTCCTTTCAGCAGAGGCTCAACAACTT
3727558 TAAAATCTCATCTTGG
129 TAAAATC-CATCTT-G
* ** *
3727574 AAATAA-CTCATTTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTTAAAAAAAGCTCCTCGC
1 AAA-AAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTTGGAAAAAGCTCCTCTC
* * *
3727638 AGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAGCTCCTTTCAGCAGAGGCTTAA
65 AGCAGAGGCTCAACAA-CTTT-AAAA-----ATCTTGAAAAAAGCTCCTTTCAGCAGAGGCTCAA
* *
3727703 CAATTTTTAAAAATTTTCATCTTG
123 CAA-CTTT-AAAA--TCCATCTTG
* * *
3727727 AAAAAAGCTCCTCTCAGCA-AAGGCTCAACAATTTTAAAAATTTCATCTTGGAAAAAACTCCTCT
1 -AAAAAGCTCATCTCAGCAGAA-GCTCAACAACTTTAAAAATTTCATCTTGGAAAAAGCTCCTCT
** * * *
3727791 CAATAAAGGCTCAACAACTTTAAAAATCTCATTTG-AAAAAGTTCCTTTCAGCAGATGCTCAACA
64 CAGCAGAGGCTCAACAACTTTAAAAA--TC--TTGAAAAAAGCTCCTTTCAGCAGAGGCTCAACA
3727855 ACTTT-AAA---ATCTTG
125 ACTTTAAAATCCATCTTG
* * * * * **
3727869 AAAAATGTTCATCTCAGCAGAGGCTTAACGACTTT-AAAATCTCATCTTGGAAATGGCTCCTCTC
1 AAAAA-GCTCATCTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTTGGAAAAAGCTCCTCTC
* * * * * * *
3727933 AGTAAAGGCTTAACAACTTTAAAAATTTTATCTGAAAAAA-CTTCTCTCAACAGAGGCTCAACAA
65 AGCAGAGGCTCAACAACTTTAAAAA---TCT-TGAAAAAAGCTCCTTTCAGCAGAGGCTCAACAA
3727997 CTTTAAAATCCATCTTG
126 CTTTAAAATCCATCTTG
* * * * *
3728014 AAAAGAGCTCCTCTCAACAGAAGCTCAATAACTTT-AAAATCTCAT-TTGAAAAAAAGCTCCTCT
1 AAAA-AGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTTG-GAAAAAGCTCCTCT
* * * *
3728077 CAGCAGAGGCTCAACAACTTTAAAATTCATCTTG--AAAAGCTCATCTCAGCAGAAGTTCAACAA
64 CAGCAGAGGCTCAACAACTTTAAAA---ATCTTGAAAAAAGCTCCTTTCAGCAGAGGCTCAACAA
** *
3728140 CTTTAAAAAT-TTTTTTAG
126 CTTT-AAAATCCATCTT-G
* * * ** * * * *
3728158 AAAATGGCTCCTTTCAATAGAGGCTCAACGACTTT-AAAA-TTCATCTT-GAAAAGGACTCCTTT
1 AAAA-AGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTTGGAAAAAG-CTCCTCT
* * * * * * *
3728220 CAACAAAGGCTTAACAACTTTAAAAATCTCATCTTGGAAAAGAGCTCATCTCAGTAGAGGCTCAA
64 CAGCAGAGGCTCAACAACTTT-AAAA----ATCTT-GAAAAAAGCTCCTTTCAGCAGAGGCTCAA
3728285 CAACTTTAAAATCTCATCTT
123 CAACTTTAAAATC-CATCTT
3728305 TTCTCAAAAC
Statistics
Matches: 826, Mismatches: 128, Indels: 140
0.76 0.12 0.13
Matches are distributed among these distances:
140 2 0.00
141 120 0.15
142 57 0.07
143 113 0.14
144 81 0.10
145 92 0.11
146 10 0.01
147 12 0.01
148 33 0.04
149 34 0.04
150 69 0.08
151 105 0.13
152 16 0.02
153 12 0.01
154 69 0.08
155 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (142 bp):
AAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAATTTCATCTTGGAAAAAGCTCCTCTCA
GCAGAGGCTCAACAACTTTAAAAATCTTGAAAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTTA
AAATCCATCTTG
Found at i:3727790 original size:345 final size:339
Alignment explanation
Indices: 3727275--3728304 Score: 1199
Period size: 345 Copynumber: 3.0 Consensus size: 339
3727265 CAATTTTAAA
* * * *
3727275 ATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTCATTTTGGAAATAA-CT
1 ATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTT-GAAAAAAGCT
* * * * *
3727339 CCTTTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCTTAAAAAAAGCTCATCTTAGCAGATGC
65 CCTTTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGC
*
3727404 TTAACAATTTTTAAAAATTTTCATCTTGAAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAA
130 TCAACAA-TTTTAAAAA-TTTCATCTTGAAAAAA-CTCCTCTCAACAAAGGCTCAACAACTTTAA
* *
3727469 AAATTTCATTTGAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTTGAAAAAAGCTC
192 AAATTTCATTTGAAAAAGCTCCTTTCAACAGAGGCTCAACAACTTTAAAATCTTGAAAAAAGCTC
* * *
3727534 CTATCAGCAAAGGCTCAACGACTTTAAAATCTCATCTTGGAAATAACTCATTTCAGCAGAAGCTC
257 CTATCAGCAAAGGCTTAACGACTTTAAAATCTCATCTTGGAAATAACTCATCTCAGTAGAAGCTC
3727599 AACAACTTTAAAAATTTC
322 AACAACTTTAAAAATTTC
* * * *
3727617 ATCTTAAAAAAAGCTCCTCGCAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAG
1 ATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-CTTT-AAAA-TTTCATCTTGAAAAAAG
* * *
3727682 CTCCTTTCAGCAGAGGCTTAACAATTTTTAAAAATTTTCATCTTGAAAAAAGCTCCTCTCAGCAA
63 CTCCTTTCAGCAGAGGCTCAACAA-CTTTAAAAA-TTTCATCTTGAAAAAAGCTCCTCTCAGCAG
*
3727747 AGGCTCAACAATTTTAAAAATTTCATCTTGGAAAAAACTCCTCTCAATAAAGGCTCAACAACTTT
126 AGGCTCAACAATTTTAAAAATTTCATCTT-GAAAAAACTCCTCTCAACAAAGGCTCAACAACTTT
* * * * * *
3727812 AAAAATCTCATTTGAAAAAGTTCCTTTCAGCAGATGCTCAACAACTTTAAAATCTTGAAAAATGT
190 AAAAATTTCATTTGAAAAAGCTCCTTTCAACAGAGGCTCAACAACTTTAAAATCTTGAAAAAAGC
* * * ** *
3727877 TCATCTCAGCAGAGGCTTAACGACTTTAAAATCTCATCTTGGAAATGGCTCCTCTCAGTA-AAGG
255 TCCTATCAGCAAAGGCTTAACGACTTTAAAATCTCATCTTGGAAATAACTCATCTCAGTAGAA-G
* *
3727941 CTTAACAACTTTAAAAATTTT
319 CTCAACAACTTTAAAAATTTC
* * * *
3727962 ATC-TGAAAAAA-CTTCTCTCAACAGAGGCTCAACAACTTTAAAA-TCCATCTTGAAAAGAGCTC
1 ATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTC
* * * * *
3728024 CTCTCAACAGAAGCTCAATAACTTT-AAAATCTCAT-TTGAAAAAAAGCTCCTCTCAGCAGAGGC
66 CTTTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTG-AAAAAAGCTCCTCTCAGCAGAGGC
* * * * *
3728087 TCAACAACTTT-AAAA-TTCATCTTG-AAAAGCTCATCTCAGCAGAA-GTTCAACAACTTTAAAA
130 TCAACAATTTTAAAAATTTCATCTTGAAAAAACTCCTCTCAACA-AAGGCTCAACAACTTTAAAA
* * * * *
3728148 ATTT-TTTTAGAAAATGGCTCCTTTCAATAGAGGCTCAACGACTTTAAAATTCATCTTG-AAAAG
194 ATTTCATTT-GAAAA-AGCTCCTTTCAACAGAGGCTCAACAACTTT-AAA---ATCTTGAAAAAA
* * *
3728211 GACTCCTTTCAACAAAGGCTTAACAACTTTAAAAATCTCATCTTGGAAA-AGAGCTCATCTCAGT
253 G-CTCCTATCAGCAAAGGCTTAACGACTTT-AAAATCTCATCTTGGAAATA-A-CTCATCTCAGT
* *
3728275 AGAGGCTCAACAACTTT-AAAATCTC
314 AGAAGCTCAACAACTTTAAAAATTTC
3728300 ATCTT
1 ATCTT
3728305 TTCTCAAAAC
Statistics
Matches: 585, Mismatches: 81, Indels: 47
0.82 0.11 0.07
Matches are distributed among these distances:
331 3 0.01
332 37 0.06
333 27 0.05
334 11 0.02
335 7 0.01
336 43 0.07
337 32 0.05
338 30 0.05
339 57 0.10
340 1 0.00
341 4 0.01
342 36 0.06
343 23 0.04
344 19 0.03
345 196 0.34
346 24 0.04
347 35 0.06
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.29
Consensus pattern (339 bp):
ATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTC
CTTTCAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCT
CAACAATTTTAAAAATTTCATCTTGAAAAAACTCCTCTCAACAAAGGCTCAACAACTTTAAAAAT
TTCATTTGAAAAAGCTCCTTTCAACAGAGGCTCAACAACTTTAAAATCTTGAAAAAAGCTCCTAT
CAGCAAAGGCTTAACGACTTTAAAATCTCATCTTGGAAATAACTCATCTCAGTAGAAGCTCAACA
ACTTTAAAAATTTC
Found at i:3730069 original size:23 final size:18
Alignment explanation
Indices: 3730017--3730058 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
3730007 ACTCTCCATT
3730017 ATCATAATTTGTCTAGCC
1 ATCATAATTTGTCTAGCC
3730035 ATCATAATTTGTCTAGCC
1 ATCATAATTTGTCTAGCC
3730053 ATCATA
1 ATCATA
3730059 TGGTCATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (18 bp):
ATCATAATTTGTCTAGCC
Found at i:3741312 original size:20 final size:21
Alignment explanation
Indices: 3741287--3741335 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
3741277 TGAAACCATT
**
3741287 TTTTTTTTGTATTCTGA-CCC
1 TTTTTTTTGTAAACTGACCCC
*
3741307 TTTTTTTTTTAAACTGACCCC
1 TTTTTTTTGTAAACTGACCCC
3741328 TTTTTTTT
1 TTTTTTTT
3741336 TCTTCGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.12, C:0.18, G:0.06, T:0.63
Consensus pattern (21 bp):
TTTTTTTTGTAAACTGACCCC
Found at i:3741312 original size:21 final size:21
Alignment explanation
Indices: 3741286--3741336 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
3741276 ATGAAACCAT
**
3741286 TTTTTTTTTGTATTCTGA-CCC
1 TTTTTTTTT-TAAACTGACCCC
3741307 TTTTTTTTTTAAACTGACCCC
1 TTTTTTTTTTAAACTGACCCC
3741328 TTTTTTTTT
1 TTTTTTTTT
3741337 CTTCGTACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.12, C:0.18, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTTTTTTAAACTGACCCC
Found at i:3741791 original size:20 final size:20
Alignment explanation
Indices: 3741725--3741796 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
3741715 TTTTCTTTTT
* * *
3741725 GTATTTTATA-TTATTTTTG
1 GTATTTTGTATTTATATTTC
*
3741744 GTATTTT-TTTATTATATTTC
1 GTATTTTGTAT-TTATATTTC
3741764 GTATTTTGTATTTATATTTC
1 GTATTTTGTATTTATATTTC
3741784 GTATTTTGTATTT
1 GTATTTTGTATTT
3741797 CTGGACAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
18 1 0.02
19 7 0.15
20 36 0.78
21 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.10, T:0.68
Consensus pattern (20 bp):
GTATTTTGTATTTATATTTC
Found at i:3743858 original size:1 final size:1
Alignment explanation
Indices: 3743852--3743880 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
3743842 GACATAATAG
3743852 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3743881 CCATAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3744935 original size:18 final size:17
Alignment explanation
Indices: 3744911--3744949 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
3744901 TTTATATATA
*
3744911 ATTAAAATATAAT-TTAT
1 ATTAAAA-ATAATATTTT
3744928 ATTAAAAATAATATTTT
1 ATTAAAAATAATATTTT
3744945 ATTAA
1 ATTAA
3744950 TATCATACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAAAAATAATATTTT
Found at i:3745162 original size:8 final size:8
Alignment explanation
Indices: 3745149--3745183 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
3745139 ATGGCCTTCA
3745149 TTTTTTAT
1 TTTTTTAT
3745157 TTTTTTAT
1 TTTTTTAT
3745165 TTTTTTAT
1 TTTTTTAT
3745173 TTTTTTAT
1 TTTTTTAT
3745181 TTT
1 TTT
3745184 CATTTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:3745236 original size:6 final size:6
Alignment explanation
Indices: 3745225--3745249 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3745215 ATAATTCAAC
3745225 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
3745250 AAAAATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:3745350 original size:21 final size:21
Alignment explanation
Indices: 3745312--3745351 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3745302 TAATAAATAA
*
3745312 TAAATAATTAAATTTTATTAT
1 TAAATAATTAAATCTTATTAT
3745333 TAAATAA-TAAACTCTTATT
1 TAAATAATTAAA-TCTTATT
3745352 TTATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATAATTAAATCTTATTAT
Found at i:3755003 original size:19 final size:18
Alignment explanation
Indices: 3754981--3755022 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
3754971 ATTTAAATAA
*
3754981 TTTATCATTTTTTATTTT
1 TTTATCATTTATTATTTT
*
3754999 GTTTATTATTTATTATTTT
1 -TTTATCATTTATTATTTT
3755018 TTTAT
1 TTTAT
3755023 TTTTTTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTATCATTTATTATTTT
Found at i:3755016 original size:26 final size:26
Alignment explanation
Indices: 3754980--3755029 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
3754970 TATTTAAATA
3754980 ATTTATCA-TTTTTTATTTTGTTTATT
1 ATTTATCATTTTTTTATTTT-TTTATT
*
3755006 ATTTATTATTTTTTTATTTTTTTA
1 ATTTATCATTTTTTTATTTTTTTA
3755030 GCAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (26 bp):
ATTTATCATTTTTTTATTTTTTTATT
Found at i:3755289 original size:11 final size:11
Alignment explanation
Indices: 3755252--3755291 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
3755242 AATAAACATA
3755252 AAAATCAACA-C
1 AAAATCAA-ATC
3755263 AAAAT-AAATC
1 AAAATCAAATC
3755273 -AAATCAAATC
1 AAAATCAAATC
3755283 AAAATCAAA
1 AAAATCAAA
3755292 ATAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.19
10 8 0.31
11 13 0.50
ACGTcount: A:0.68, C:0.17, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATCAAATC
Found at i:3755680 original size:10 final size:10
Alignment explanation
Indices: 3755656--3755689 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3755646 CGATGACTCA
3755656 AAAAATTTTC
1 AAAAATTTTC
3755666 TAAAAATTTTC
1 -AAAAATTTTC
*
3755677 AAAAAGTTTC
1 AAAAATTTTC
3755687 AAA
1 AAA
3755690 TTGATCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (10 bp):
AAAAATTTTC
Found at i:3757663 original size:160 final size:156
Alignment explanation
Indices: 3757119--3757720 Score: 1069
Period size: 156 Copynumber: 3.8 Consensus size: 156
3757109 GTTAGTTGTT
*
3757119 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
3757184 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
3757249 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
3757275 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
3757340 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCATCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
3757405 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
*
3757431 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAAAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
3757496 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG----AA
* * *
3757561 AAATCAAAATCAGCCAAGTAATTAATTATC
127 AAATCAAGATCAACCAATTAATTAATTATC
*
3757591 GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* *
3757656 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
3757721 AGAAAAAAAA
Statistics
Matches: 429, Mismatches: 12, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
156 275 0.64
157 5 0.01
160 113 0.26
161 36 0.08
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:3757768 original size:16 final size:15
Alignment explanation
Indices: 3757749--3757778 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
3757739 AAAATCAAAG
3757749 TCAAATAAAAAAAAAT
1 TCAAA-AAAAAAAAAT
3757765 TCAAAAAAAAAAAA
1 TCAAAAAAAAAAAA
3757779 AAAAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (15 bp):
TCAAAAAAAAAAAAT
Found at i:3757779 original size:16 final size:16
Alignment explanation
Indices: 3757749--3757779 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3757739 AAAATCAAAG
*
3757749 TCAAATAAAAAAAAAT
1 TCAAAAAAAAAAAAAT
3757765 TCAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAA
3757780 AAAAAAAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (16 bp):
TCAAAAAAAAAAAAAT
Found at i:3758088 original size:19 final size:19
Alignment explanation
Indices: 3758060--3758103 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3758050 AACGCCGGTG
*
3758060 CCGGATTCTGGAAAATTCA
1 CCGGAATCTGGAAAATTCA
* * *
3758079 CCGGAATCTGGGAATTTCG
1 CCGGAATCTGGAAAATTCA
3758098 CCGGAA
1 CCGGAA
3758104 ATTGGCCGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (19 bp):
CCGGAATCTGGAAAATTCA
Found at i:3758203 original size:31 final size:31
Alignment explanation
Indices: 3758165--3758237 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
3758155 AAACTGGGTC
*
3758165 TGTCGCCGGAAACTTC-AAAGTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
3758196 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
3758227 TTTCGCCGGAA
1 TGTCGCCGGAA
3758238 TCTGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:3758570 original size:12 final size:12
Alignment explanation
Indices: 3758553--3758585 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
3758543 CTAGCCCTCC
3758553 AAAATAAAAATT
1 AAAATAAAAATT
3758565 AAAAT-AAAATT
1 AAAATAAAAATT
3758576 AAAA-AAAAAT
1 AAAATAAAAAT
3758586 CTAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:3758795 original size:44 final size:44
Alignment explanation
Indices: 3758685--3758796 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 44
3758675 AAAGATAAGA
3758685 ATAATAATATAATAATAATAAATATATAACTATATACATATAAATCT
1 ATAATAATA-AATAAT-A-AAATATATAACTATATACATATAAATCT
** *
3758732 ATTCTAATGAAA-AAAAAAATATAT-A-TATATACATATATTAATAC-
1 ATAATAAT-AAATAATAAAATATATAACTATATACATATA--AAT-CT
3758776 ATAATAATAAATAATAAAATA
1 ATAATAATAAATAATAAAATA
3758797 CACAAGAGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
42 12 0.22
43 4 0.07
44 25 0.46
45 2 0.04
46 2 0.04
47 8 0.15
48 1 0.02
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (44 bp):
ATAATAATAAATAATAAAATATATAACTATATACATATAAATCT
Found at i:3758835 original size:13 final size:12
Alignment explanation
Indices: 3758812--3758845 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
3758802 GAGAGAAGAA
3758812 AAAAAATAAAAAT
1 AAAAAA-AAAAAT
3758825 AAAATAAAAAAAT
1 AAAA-AAAAAAAT
3758838 AAAAAAAA
1 AAAAAAAA
3758846 TACGGGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 14 0.70
14 2 0.10
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:3758954 original size:21 final size:20
Alignment explanation
Indices: 3758880--3758956 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
3758870 TTGCCCATTT
* *
3758880 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
3758900 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
3758920 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
3758940 GGGCCCGGACCCAATTG
1 GGGCCAGG-CCCAATTG
3758957 GGTGTCTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 43 0.84
21 8 0.16
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.17
Consensus pattern (20 bp):
GGGCCAGGCCCAATTGATCC
Found at i:3759062 original size:1 final size:1
Alignment explanation
Indices: 3759058--3759143 Score: 91
Period size: 1 Copynumber: 86.0 Consensus size: 1
3759048 TTATTTTTGA
* * * * ** * *
3759058 TTTTTTTTTTTTGTTTTTATTTTTTTATTTTTTTTATTTTTTGATTTTTTGTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
3759123 TTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
3759144 GGCCGAAGCT
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.05, C:0.00, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:3759105 original size:44 final size:44
Alignment explanation
Indices: 3759045--3759144 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
3759035 CAACTCAACA
*
3759045 TTTTTA-TTTTTGATTTTTTTTTTTTGTTTTTATTTTTTTATTT
1 TTTTTATTTTTTGATTTTTTGTTTTTGTTTTTATTTTTTTATTT
* *
3759088 TTTTTATTTTTTGATTTTTTGTTTTTGTTTTTTTTTTTTTGTTT
1 TTTTTATTTTTTGATTTTTTGTTTTTGTTTTTATTTTTTTATTT
*
3759132 TTTTTTTTTTTTG
1 TTTTTATTTTTTG
3759145 GCCGAAGCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 6 0.12
44 46 0.88
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.87
Consensus pattern (44 bp):
TTTTTATTTTTTGATTTTTTGTTTTTGTTTTTATTTTTTTATTT
Found at i:3759141 original size:14 final size:14
Alignment explanation
Indices: 3759045--3759141 Score: 124
Period size: 14 Copynumber: 6.8 Consensus size: 14
3759035 CAACTCAACA
* *
3759045 TTTTTATTTTTGAT
1 TTTTTTTTTTTGTT
3759059 TTTTTTTTTTTGTT
1 TTTTTTTTTTTGTT
3759073 TTTATTTTTTTAT-TT
1 TTT-TTTTTTT-TGTT
*
3759088 TTTTTATTTTTTGAT
1 TTTTT-TTTTTTGTT
*
3759103 TTTTTGTTTTTGTT
1 TTTTTTTTTTTGTT
3759117 TTTTTTTTTTTGTT
1 TTTTTTTTTTTGTT
3759131 TTTTTTTTTTT
1 TTTTTTTTTTT
3759142 TTGGCCGAAG
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
14 49 0.67
15 23 0.32
16 1 0.01
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTTGTT
Found at i:3759229 original size:40 final size:40
Alignment explanation
Indices: 3759151--3759554 Score: 584
Period size: 40 Copynumber: 10.0 Consensus size: 40
3759141 TTTGGCCGAA
* *
3759151 GCTCCTCTAAACAGAGACTCAACG-ACTTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAG--GCAACGAACTTTGGAAAGTAAATT
*
3759192 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
* * *
3759232 GCTCCTCTCAACAGAGGCACCACG-ACTTTGGAAAAATAAACT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGG-AAAGTAAATT
3759274 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAGTAAATT
* *
3759314 GCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
*
3759354 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
*
3759394 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGG-AAAGTAAATT
3759436 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAGTAAATT
*
3759476 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
3759516 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAAT
3759555 ACTCCTAGAC
Statistics
Matches: 336, Mismatches: 16, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
39 5 0.01
40 232 0.69
41 39 0.12
42 60 0.18
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATT
Found at i:3759425 original size:122 final size:120
Alignment explanation
Indices: 3759151--3759554 Score: 609
Period size: 122 Copynumber: 3.3 Consensus size: 120
3759141 TTTGGCCGAA
* * *
3759151 GCTCCTCTAAACAGAGACTCAACG-ACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAG--GCAACGAACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
* * * *
3759215 ACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACG-ACTTTGGAAAAATAAACT
64 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
*
3759274 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
3759338 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
*
3759394 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACG
*
3759458 AACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
63 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
3759516 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAAT
3759555 ACTCCTAGAC
Statistics
Matches: 262, Mismatches: 12, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
120 43 0.16
121 22 0.08
122 181 0.69
123 16 0.06
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (120 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:3759449 original size:162 final size:162
Alignment explanation
Indices: 3759151--3759554 Score: 713
Period size: 162 Copynumber: 2.5 Consensus size: 162
3759141 TTTGGCCGAA
*
3759151 GCTCCTCTAAACAGAGACTCAACG-ACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAG--GCAACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
* *
3759214 GACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCC
63 AACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCC
3759279 TCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
128 TCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
*
3759314 GCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
* *
3759379 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCT
66 TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCCTCT
3759444 AAACAGAGGCAACGAACTTGGAAAAGTAAATT
131 AAACAGAGGCAACGAACTTGGAAAAGTAAATT
3759476 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
3759541 TTTGGAAAGTAAAT
66 TTTGGAAAGTAAAT
3759555 ACTCCTAGAC
Statistics
Matches: 231, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
161 9 0.04
162 207 0.90
163 15 0.06
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (162 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAC
TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCCTCT
AAACAGAGGCAACGAACTTGGAAAAGTAAATT
Found at i:3760759 original size:8 final size:8
Alignment explanation
Indices: 3760746--3760784 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
3760736 TTCGGATCTC
3760746 TTTTTTCA
1 TTTTTTCA
3760754 TTTTTTCA
1 TTTTTTCA
3760762 TTTTTTCA
1 TTTTTTCA
*
3760770 TTTTCTCA
1 TTTTTTCA
3760778 TTTTTTC
1 TTTTTTC
3760785 TTCTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:3764838 original size:156 final size:156
Alignment explanation
Indices: 3764466--3765063 Score: 1072
Period size: 156 Copynumber: 3.8 Consensus size: 156
3764456 GTTAGTTGTT
*
3764466 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
3764531 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAG-AAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
3764595 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
3764621 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
3764686 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
3764751 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
3764777 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
3764842 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG----AA
* * *
3764907 AAATCAAAATCAGCCAAGTAATTAATTATC
127 AAATCAAGATCAACCAATTAATTAATTATC
*
3764937 GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* *
3765002 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAA
3765064 TAAAGAAAAA
Statistics
Matches: 429, Mismatches: 8, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
155 122 0.28
156 155 0.36
157 2 0.00
160 114 0.27
161 36 0.08
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:3765116 original size:17 final size:16
Alignment explanation
Indices: 3765069--3765139 Score: 60
Period size: 16 Copynumber: 4.5 Consensus size: 16
3765059 AAGAATAAAG
3765069 AAAAAAAAATCAAGATCA
1 AAAAAAAAATCAA-AT-A
** *
3765087 AAATCAAAGTCAAATA
1 AAAAAAAAATCAAATA
3765103 AAAAAAAAATTCAAA-A
1 AAAAAAAAA-TCAAATA
3765119 AAAAAAAAA--AAA-A
1 AAAAAAAAATCAAATA
3765132 AAAAAAAA
1 AAAAAAAA
3765140 CCTGGAGCGG
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
13 12 0.26
16 17 0.37
17 7 0.15
18 10 0.22
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAAAAATCAAATA
Found at i:3765119 original size:1 final size:1
Alignment explanation
Indices: 3765115--3765139 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3765105 AAAAAAATTC
3765115 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
3765140 CCTGGAGCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3765435 original size:19 final size:19
Alignment explanation
Indices: 3765411--3765455 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
3765401 GAACGCCGGT
*
3765411 GCCGGATTCTGGAAAATTC
1 GCCGGAATCTGGAAAATTC
* *
3765430 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAAATTC
3765449 GCCGGAA
1 GCCGGAA
3765456 ATTGGCCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (19 bp):
GCCGGAATCTGGAAAATTC
Found at i:3765555 original size:31 final size:31
Alignment explanation
Indices: 3765517--3765589 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
3765507 AAACTGGGTC
*
3765517 TGTCGCCGGAAACTTC-AAAGTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
3765548 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
3765579 TTTCGCCGGAA
1 TGTCGCCGGAA
3765590 TCTGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:3765922 original size:12 final size:12
Alignment explanation
Indices: 3765905--3765938 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
3765895 CTAGCCCTCC
3765905 AAAATAAAAATT
1 AAAATAAAAATT
3765917 AAAAT-AAAATT
1 AAAATAAAAATT
*
3765928 AAAAAAAAAAT
1 AAAATAAAAAT
3765939 CTAGATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:3766179 original size:6 final size:6
Alignment explanation
Indices: 3766164--3766205 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
3766154 AGAGAGAAAG
3766164 AAAA-A AAAATA AAAAT- -AAA-A AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
3766206 ATACGGGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
4 3 0.09
5 7 0.21
6 23 0.70
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:3766185 original size:15 final size:15
Alignment explanation
Indices: 3766165--3766199 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
3766155 GAGAGAAAGA
3766165 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
3766180 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
3766195 AAAAA
1 AAAAA
3766200 TAAAAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:3766194 original size:21 final size:20
Alignment explanation
Indices: 3766164--3766206 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
3766154 AGAGAGAAAG
3766164 AAAAAAAAATAAAAATAAAA
1 AAAAAAAAATAAAAATAAAA
3766184 AAAATAAAAATAAAAATAAAA
1 AAAA-AAAAATAAAAATAAAA
3766205 AA
1 AA
3766207 TACGGGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (20 bp):
AAAAAAAAATAAAAATAAAA
Found at i:3766317 original size:21 final size:20
Alignment explanation
Indices: 3766241--3766305 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
3766231 TTGCCCATTT
* *
3766241 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
3766261 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
3766281 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
3766301 GGGCC
1 GGGCC
3766306 CGGATCCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (20 bp):
GGGCCAGGCCCAATTGATCC
Found at i:3766334 original size:2 final size:2
Alignment explanation
Indices: 3766327--3766363 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3766317 GGGTGTCTAC
3766327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3766364 AAGAAACCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3778633 original size:48 final size:48
Alignment explanation
Indices: 3778540--3778635 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
3778530 TAGACCTTAC
* * * *
3778540 TTTTTGTAATGAATTGGTGCTGACGTGGTCACATGGGTTTGTATTGAT
1 TTTTTATAATGAATTGATGCTGACGTGGTCACATGGATTTATATTGAT
*
3778588 TTTTTATAATGAATTGATGCTGACGTGGTCA-ATTTGATTTATATTGAT
1 TTTTTATAATGAATTGATGCTGACGTGGTCACA-TGGATTTATATTGAT
3778636 ATGATAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (48 bp):
TTTTTATAATGAATTGATGCTGACGTGGTCACATGGATTTATATTGAT
Found at i:3780709 original size:2 final size:2
Alignment explanation
Indices: 3780702--3780746 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
3780692 CTCCTTCCTT
*
3780702 TC TC TC TC TC TC TC TC TC TC TC TC TC GC TC TC TC T- TC T- TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3780742 TC TC T
1 TC TC T
3780747 TTGACGTCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.00, C:0.47, G:0.02, T:0.51
Consensus pattern (2 bp):
TC
Found at i:3785860 original size:3 final size:3
Alignment explanation
Indices: 3785854--3785895 Score: 66
Period size: 3 Copynumber: 13.3 Consensus size: 3
3785844 TCTTTTGCAA
3785854 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AGAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT A
3785896 GCATATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3786454 original size:6 final size:6
Alignment explanation
Indices: 3786443--3786472 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3786433 ATTATTCATG
*
3786443 CTCGAA CTCGAA CTCGAA CTCGGA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
3786473 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:3787201 original size:24 final size:26
Alignment explanation
Indices: 3787171--3787222 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
3787161 TCATTCGCTT
*
3787171 TTAAAATTTTATA-TATA-ATTTTTA
1 TTAAAATTTTAAATTATATATTTTTA
3787195 TTAAAATTTTAAATTATATATTTTTA
1 TTAAAATTTTAAATTATATATTTTTA
3787221 TT
1 TT
3787223 TTGTATCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.48
25 4 0.16
26 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTAAAATTTTAAATTATATATTTTTA
Found at i:3788995 original size:27 final size:27
Alignment explanation
Indices: 3788953--3789015 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
3788943 TTTGATATAC
3788953 AATATTA-TAATAAAATAAAATAAAAT
1 AATATTATTAATAAAATAAAATAAAAT
* *
3788979 AATATTATTAATAAAATTAAATTAAAT
1 AATATTATTAATAAAATAAAATAAAAT
3789006 AATATTATTA
1 AATATTATTA
3789016 TATTTTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AATATTATTAATAAAATAAAATAAAAT
Found at i:3791518 original size:159 final size:158
Alignment explanation
Indices: 3791230--3791545 Score: 578
Period size: 159 Copynumber: 2.0 Consensus size: 158
3791220 TAGGGAAGAA
*
3791230 AGCAAACTGAACTTGTCAGGAACTAGTTGGGAAAAAAAGCTGTATATATGGTTTGAAATATACCA
1 AGCAAACTGAACTTGTCAGGAAATAGTTGGGAAAAAAAGCTGTATATATGGTTTGAAATATACCA
*
3791295 CATGAAATTAGTTGTGGGATTGATGTGGAAGACCTGATAATTATTTGAGCAAATTTGTTTGATAC
66 CATGAAATTAGTTGTGGGATTGATGTGGAAGACCTGAGAATTATTTGAGCAAATTTGTTTGATAC
3791360 TCATGGTTAAGGCCAAAAGAATTTGGAG
131 TCATGGTTAAGGCCAAAAGAATTTGGAG
*
3791388 AGCAAATTGAACTTGTCAGGAAATAGTTGGGAAAAAAATGCTGTATATATGGTTTGAAATATACC
1 AGCAAACTGAACTTGTCAGGAAATAGTTGGGAAAAAAA-GCTGTATATATGGTTTGAAATATACC
* *
3791453 ACATGAAATTAGTTGTGGGATTGGTGTGGAAGACCTGAGAATTGTTTGAGCAAATTTGTTTGATA
65 ACATGAAATTAGTTGTGGGATTGATGTGGAAGACCTGAGAATTATTTGAGCAAATTTGTTTGATA
3791518 CTCATGGTTAAGGCCAAAAGAATTTGGA
130 CTCATGGTTAAGGCCAAAAGAATTTGGA
3791546 ATGTTGTGGC
Statistics
Matches: 152, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
158 36 0.24
159 116 0.76
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (158 bp):
AGCAAACTGAACTTGTCAGGAAATAGTTGGGAAAAAAAGCTGTATATATGGTTTGAAATATACCA
CATGAAATTAGTTGTGGGATTGATGTGGAAGACCTGAGAATTATTTGAGCAAATTTGTTTGATAC
TCATGGTTAAGGCCAAAAGAATTTGGAG
Found at i:3807069 original size:30 final size:31
Alignment explanation
Indices: 3806992--3807069 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
3806982 ATTAATATAT
* *
3806992 AAATTTTATAAATTATAAATAAATTAAATAATA
1 AAATTTTA-AAAATA-AAATAAATAAAATAATA
** **
3807025 TTATTTTATTAATAAAATAAATAAAATAA-A
1 AAATTTTAAAAATAAAATAAATAAAATAATA
3807055 AAATTTTAAAAATAA
1 AAATTTTAAAAATAA
3807070 GTAAATTTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
30 12 0.34
31 14 0.40
32 3 0.09
33 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATTTTAAAAATAAAATAAATAAAATAATA
Found at i:3807107 original size:24 final size:23
Alignment explanation
Indices: 3807074--3807144 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 23
3807064 AAATAAGTAA
*
3807074 ATTTTTTTAAAATATTAATTTTT
1 ATTTTTTTAAAATATTAATATTT
3807097 ATATTTTTT-AAA-ATTAATATTT
1 AT-TTTTTTAAAATATTAATATTT
*
3807119 ATTTATTTATAAAATATTATTATTT
1 ATTT-TTT-TAAAATATTAATATTT
3807144 A
1 A
3807145 ATTTACTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 2 0.05
22 14 0.34
23 6 0.15
24 9 0.22
25 10 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTTTAAAATATTAATATTT
Found at i:3807139 original size:22 final size:22
Alignment explanation
Indices: 3807074--3807158 Score: 61
Period size: 24 Copynumber: 3.7 Consensus size: 22
3807064 AAATAAGTAA
3807074 ATTT-TTT-TAAAATATTAATTT
1 ATTTATTTATAAAATATT-ATTT
* *
3807095 -TTATATTTTTTAAAATTAATATTT
1 ATT-TA-TTTATAAAA-TATTATTT
3807119 ATTTATTTATAAAATATTA-TT
1 ATTTATTTATAAAATATTATTT
3807140 ATTTAATTTACTAATAATA
1 ATTT-ATTTA-TAA-AATA
3807159 AATAAAATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
20 2 0.04
21 7 0.13
22 9 0.17
23 14 0.27
24 15 0.29
25 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTATTTATAAAATATTATTT
Found at i:3808157 original size:14 final size:15
Alignment explanation
Indices: 3808133--3808161 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3808123 ATTATAATAA
3808133 AATATTATAAATATT
1 AATATTATAAATATT
3808148 AATATT-TAAATATT
1 AATATTATAAATATT
3808162 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTATAAATATT
Found at i:3816946 original size:18 final size:18
Alignment explanation
Indices: 3816923--3816958 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3816913 TAGACAAGAT
3816923 GACTAACATACATATTTA
1 GACTAACATACATATTTA
3816941 GACTAACATACATATTTA
1 GACTAACATACATATTTA
3816959 AACTTACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
GACTAACATACATATTTA
Found at i:3825803 original size:13 final size:13
Alignment explanation
Indices: 3825787--3825822 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
3825777 TCTTTTTAAA
3825787 TAAATATTTTTAT
1 TAAATATTTTTAT
3825800 TAAAT-TTTTTA-
1 TAAATATTTTTAT
3825811 TAAA-ATTTTTAT
1 TAAATATTTTTAT
3825823 CGTTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.48
12 6 0.29
13 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:3825810 original size:12 final size:12
Alignment explanation
Indices: 3825787--3825820 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3825777 TCTTTTTAAA
3825787 TAAATATTTTTAT
1 TAAAT-TTTTTAT
3825800 TAAATTTTTTAT
1 TAAATTTTTTAT
*
3825812 AAAATTTTT
1 TAAATTTTT
3825821 ATCGTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TAAATTTTTTAT
Found at i:3826126 original size:30 final size:30
Alignment explanation
Indices: 3826077--3826135 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
3826067 TTTTATGATA
*
3826077 TTTTATTTTAATTAATTAAA-TCTTAAATT
1 TTTTATTTTAATCAATTAAATTCTTAAATT
3826106 TTTTATTTTAGATCAATTAAATTCTTAAAT
1 TTTTATTTTA-ATCAATTAAATTCTTAAAT
3826136 ATATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
30 9 0.33
31 8 0.30
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTTATTTTAATCAATTAAATTCTTAAATT
Found at i:3826143 original size:30 final size:29
Alignment explanation
Indices: 3826080--3826144 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
3826070 TATGATATTT
* * *
3826080 TATTTTAATTAATTAAATCTTAAATTTTT
1 TATTTTAATCAATTAAATCTTAAATTATA
3826109 TATTTTAGATCAATTAAATTCTTAAA-TATA
1 TATTTTA-ATCAATTAAA-TCTTAAATTATA
3826139 TATTTT
1 TATTTT
3826145 TATTTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 17 0.55
31 7 0.23
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (29 bp):
TATTTTAATCAATTAAATCTTAAATTATA
Found at i:3826154 original size:30 final size:30
Alignment explanation
Indices: 3826120--3826179 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
3826110 ATTTTAGATC
3826120 AATTAAAT-TCTTAAATATATATTTTTATTT
1 AATTAAATAT-TTAAATATATATTTTTATTT
* *
3826150 AATTAAATATTTTAATATTTATTTTTATTT
1 AATTAAATATTTAAATATATATTTTTATTT
3826180 CAAATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
AATTAAATATTTAAATATATATTTTTATTT
Found at i:3828120 original size:13 final size:13
Alignment explanation
Indices: 3828104--3828150 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
3828094 TATATCATTT
3828104 TTATATTATATTA
1 TTATATTATATTA
3828117 TTATATTATATT-
1 TTATATTATATTA
* *
3828129 TAAAATTAATATTA
1 TTATATT-ATATTA
*
3828143 ATATATTA
1 TTATATTA
3828151 AATTTGTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 5 0.19
13 18 0.67
14 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:3828373 original size:25 final size:26
Alignment explanation
Indices: 3828345--3828401 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
3828335 AAGTAAAATT
3828345 ATTTTATTATTTTAAT-ATTATTAAA-
1 ATTTTATTA-TTTAATGATTATTAAAC
*
3828370 ATTTTATTATTTAATGATTTTTAAAC
1 ATTTTATTATTTAATGATTATTAAAC
3828396 ATTTTA
1 ATTTTA
3828402 ATTTATCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 6 0.21
25 17 0.59
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTATTATTTAATGATTATTAAAC
Found at i:3828962 original size:39 final size:36
Alignment explanation
Indices: 3828909--3828988 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 36
3828899 TGATGATTTA
3828909 TATATTTATGTTATATAAAACATTA-AAATTTATATATT
1 TATATTTATGTTATATAAAA-ATTATAAA-TTATA-ATT
* *
3828947 TATATTATATTTTATATAAAAATTATGAATTATAATT
1 TATATT-TATGTTATATAAAAATTATAAATTATAATT
3828984 TATAT
1 TATAT
3828989 CTAATGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
37 8 0.21
38 15 0.39
39 15 0.39
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (36 bp):
TATATTTATGTTATATAAAAATTATAAATTATAATT
Found at i:3832832 original size:12 final size:12
Alignment explanation
Indices: 3832815--3832849 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3832805 GTCTATCCCC
3832815 TTCTTCTTCTTG
1 TTCTTCTTCTTG
3832827 TTCTTCTTCTCTG
1 TTCTTCTTCT-TG
3832840 TT-TTCTTCTT
1 TTCTTCTTCTT
3832850 TTTCATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 17 0.77
13 4 0.18
ACGTcount: A:0.00, C:0.26, G:0.06, T:0.69
Consensus pattern (12 bp):
TTCTTCTTCTTG
Found at i:3835287 original size:1 final size:1
Alignment explanation
Indices: 3835283--3835310 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
3835273 AAGCCTATTT
3835283 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
3835311 CTATTGCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3837012 original size:19 final size:19
Alignment explanation
Indices: 3836988--3837032 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
3836978 ATTGGAATTG
3836988 GTCAAAGAATACCCAAGTA
1 GTCAAAGAATACCCAAGTA
3837007 GTCAAAGAATACCCAAGTA
1 GTCAAAGAATACCCAAGTA
3837026 GTCAAAG
1 GTCAAAG
3837033 GTTTTGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.16
Consensus pattern (19 bp):
GTCAAAGAATACCCAAGTA
Found at i:3837413 original size:29 final size:29
Alignment explanation
Indices: 3837370--3837433 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
3837360 TCAAGAATGC
3837370 AGAATGAAGCTGAGTTGGTGAAATACGCT
1 AGAATGAAGCTGAGTTGGTGAAATACGCT
* *
3837399 GGAATGAAGCTGAGTTGGTGAAATGCGCT
1 AGAATGAAGCTGAGTTGGTGAAATACGCT
3837428 AGAATG
1 AGAATG
3837434 CAGAAGGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.09, G:0.34, T:0.23
Consensus pattern (29 bp):
AGAATGAAGCTGAGTTGGTGAAATACGCT
Found at i:3851720 original size:17 final size:17
Alignment explanation
Indices: 3851698--3851731 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3851688 ACCAATAATT
3851698 CCAATTGTTAAATTATA
1 CCAATTGTTAAATTATA
*
3851715 CCAATTGTTAGATTATA
1 CCAATTGTTAAATTATA
3851732 ATTTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (17 bp):
CCAATTGTTAAATTATA
Found at i:3854909 original size:13 final size:13
Alignment explanation
Indices: 3854891--3854916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3854881 AATAGGCAAC
3854891 CAAAAAAATATTT
1 CAAAAAAATATTT
3854904 CAAAAAAATATTT
1 CAAAAAAATATTT
3854917 GTCTTAAAGG
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAAAAATATTT
Found at i:3859720 original size:3 final size:3
Alignment explanation
Indices: 3859712--3859779 Score: 64
Period size: 3 Copynumber: 22.7 Consensus size: 3
3859702 AAAACCAAAG
* * * * * *
3859712 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTG TTA TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
3859760 TTG TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
3859780 TTTTTAATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3859726 original size:9 final size:9
Alignment explanation
Indices: 3859711--3859779 Score: 75
Period size: 9 Copynumber: 7.7 Consensus size: 9
3859701 CAAAACCAAA
3859711 GTTATTATT
1 GTTATTATT
*
3859720 ATTATTATT
1 GTTATTATT
*
3859729 ATTATTATT
1 GTTATTATT
*
3859738 GTTATTGTT
1 GTTATTATT
*
3859747 GTTATTGTT
1 GTTATTATT
* *
3859756 GTTGTTGTT
1 GTTATTATT
3859765 GTTATTATT
1 GTTATTATT
*
3859774 ATTATT
1 GTTATT
3859780 TTTTTAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (9 bp):
GTTATTATT
Found at i:3861890 original size:24 final size:24
Alignment explanation
Indices: 3861862--3861910 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
3861852 ATAAAAAAAT
3861862 TAATTAATTAATTTTATATTTATA
1 TAATTAATTAATTTTATATTTATA
*
3861886 TAATTATTTAATTTTATATTTATA
1 TAATTAATTAATTTTATATTTATA
3861910 T
1 T
3861911 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TAATTAATTAATTTTATATTTATA
Found at i:3861939 original size:19 final size:21
Alignment explanation
Indices: 3861904--3861950 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
3861894 TAATTTTATA
*
3861904 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAATATAATAT
3861925 TTTATATTTAAAATATAATAT
1 TTTATATTTAAAATATAATAT
3861946 TTTAT
1 TTTAT
3861951 TAATTTTGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATATTTAAAATATAATAT
Done.