Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 27 of 117
Found at i:3695833 original size:217 final size:216
Alignment explanation
Indices: 3695317--3695890 Score: 526
Period size: 217 Copynumber: 2.6 Consensus size: 216
3695307 CTTCTTATCT
* * * * * * *
3695317 TTAAAAGAGATGGAAAACCATAAATTACAAGAAAATGAAAAGTAAAAAAATATAAATGTTACAAA
1 TTAAAAGAGATAGAAAATCATAAATCACAA-AAAATTAAAAATAAAAAAATATAAATATCACAAA
** * * * ** * *
3695382 CCAAAAGATATGGTAAT-AA-A-ATTTTAACAAAAAAT-GATTTTTAAAAATTG-AT-TAAGAAA
65 ATAAAAGGT-T--TAATCAATACATTTTAA-AAATAATAG-GTTAAAAAAAATGAATATAAAAAA
* * * * *
3695441 ATAAAAAATCAATAATTCAAGTAATATAATAAATAAGAATTTGGAGAAAAAAGTGTAAAAGAGAC
125 ATCAAAAATCAATAATTAAAGTAATATAACAAACAAGAATTTGAAGAAAAAAGTGTAAAAGAGAC
* * *
3695506 ATGAAAAAACTCATATAACTCTTATTT
190 ATGAAAAAACTAATATAACTCTCATTC
* *
3695533 TTAAAAGAGATAGAAAATCATAAATCACAAAAAATTAAAAATAAAAAAAATATAAATGTTACAAA
1 TTAAAAGAGATAGAAAATCATAAATCACAAAAAATTAAAAAT-AAAAAAATATAAATATCACAAA
* * *
3695598 ATGAAAGGTTTGATCAATA-ACTTTTAACAAATAAT-GGTTAAATAAAATGAATATAAAAAAATC
65 ATAAAAGGTTTAATCAATACA-TTTTAA-AAATAATAGGTTAAAAAAAATGAATATAAAAAAATC
* * *
3695661 AAAAATCAATAATTAAAGTAATATGACAAACAATAA-TTGAAAGAAAAAAGTGTTATAA-AGACA
128 AAAAATCAATAATTAAAGTAATATAACAAACAAGAATTTG-AAGAAAAAAGTG-TAAAAGAGACA
3695724 T-AAAAGACACTAATATAACTCTCATTC
191 TGAAAA-A-ACTAATATAACTCTCATTC
* * * * * * *
3695751 TTAAAAGAGATAGAATATTATATATCACAAGAAATTCAAAAAT-CAAAAGTATGAATATCACAAA
1 TTAAAAGAGATAGAAAATCATAAATCACAAAAAATT-AAAAATAAAAAAATATAAATATCACAAA
* * *
3695815 ACTAAAAGG-TTAATCAATACATTTTAAAAATAATAGTTTAAAAAAAATGAATATGAGAAAATCA
65 A-TAAAAGGTTTAATCAATACATTTTAAAAATAATAGGTTAAAAAAAATGAATATAAAAAAATCA
* *
3695879 AAAGTTAATAAT
129 AAAATCAATAAT
3695891 ACAATAAATA
Statistics
Matches: 299, Mismatches: 45, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
213 3 0.01
214 2 0.01
215 21 0.07
216 84 0.28
217 124 0.41
218 59 0.20
219 6 0.02
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.26
Consensus pattern (216 bp):
TTAAAAGAGATAGAAAATCATAAATCACAAAAAATTAAAAATAAAAAAATATAAATATCACAAAA
TAAAAGGTTTAATCAATACATTTTAAAAATAATAGGTTAAAAAAAATGAATATAAAAAAATCAAA
AATCAATAATTAAAGTAATATAACAAACAAGAATTTGAAGAAAAAAGTGTAAAAGAGACATGAAA
AAACTAATATAACTCTCATTC
Found at i:3696764 original size:68 final size:67
Alignment explanation
Indices: 3696682--3696807 Score: 189
Period size: 67 Copynumber: 1.9 Consensus size: 67
3696672 CATACATCAG
* **
3696682 ATAATACATTCATGAAAAAAAATTAACAAAACAAAATGAATAAAATTAACATAAAATTATATTAA
1 ATAATACATCCATG-AAAAAAATTAACAAAACAAAACAAATAAAATTAACATAAAATTATATTAA
3696747 AAT
65 AAT
* * *
3696750 ATAATACATCCATGAAAGAAATTAATAAAACAAACCAAATAAAATTAACATAAAATTA
1 ATAATACATCCATGAAAAAAATTAACAAAACAAAACAAATAAAATTAACATAAAATTA
3696808 GATTCAATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
67 39 0.75
68 13 0.25
ACGTcount: A:0.63, C:0.10, G:0.03, T:0.25
Consensus pattern (67 bp):
ATAATACATCCATGAAAAAAATTAACAAAACAAAACAAATAAAATTAACATAAAATTATATTAAA
AT
Found at i:3700388 original size:144 final size:144
Alignment explanation
Indices: 3700128--3700420 Score: 568
Period size: 144 Copynumber: 2.0 Consensus size: 144
3700118 CAATGGTGCG
3700128 ATATTGTGATGAGCTTGAAAGTAAAGTTCCATCATATAGAGAAAGCTTATTACCAGTAGTTACTA
1 ATATTGTGATGAGCTTGAAAGTAAAGTTCCATCATATAGAGAAAGCTTATTACCAGTAGTTACTA
3700193 AAGTAAAAGTAGGTTTGTAGTTTTCCATATCCAAACGTGAAAGTAGAAACAACACATATTTTGTT
66 AAGTAAAAGTAGGTTTGTAGTTTTCCATATCCAAACGTGAAAGTAGAAACAACACATATTTTGTT
3700258 CATATTAACAACAA
131 CATATTAACAACAA
*
3700272 ATATTGTGATGAGTTTGAAAGTAAAGTTCCATCATATAGAGAAAGCTTATTACCAGTAGTTACTA
1 ATATTGTGATGAGCTTGAAAGTAAAGTTCCATCATATAGAGAAAGCTTATTACCAGTAGTTACTA
*
3700337 AAGTAAAATTAGGTTTGTAGTTTTCCATATCCAAACGTGAAAGTAGAAACAACACATATTTTGTT
66 AAGTAAAAGTAGGTTTGTAGTTTTCCATATCCAAACGTGAAAGTAGAAACAACACATATTTTGTT
3700402 CATATTAACAACAA
131 CATATTAACAACAA
3700416 ATATT
1 ATATT
3700421 TGGGTGTATG
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 147 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (144 bp):
ATATTGTGATGAGCTTGAAAGTAAAGTTCCATCATATAGAGAAAGCTTATTACCAGTAGTTACTA
AAGTAAAAGTAGGTTTGTAGTTTTCCATATCCAAACGTGAAAGTAGAAACAACACATATTTTGTT
CATATTAACAACAA
Found at i:3703016 original size:21 final size:22
Alignment explanation
Indices: 3702980--3703020 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3702970 TCGAAAACTT
*
3702980 GAAGAAAATGTGAATGATCTCA
1 GAAGAAAATCTGAATGATCTCA
3703002 GAAGAAAA-CTGAATGATCT
1 GAAGAAAATCTGAATGATCT
3703021 AAACATCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (22 bp):
GAAGAAAATCTGAATGATCTCA
Found at i:3706990 original size:20 final size:21
Alignment explanation
Indices: 3706965--3707009 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
3706955 CATGAAATTA
3706965 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
3706985 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
3707006 ATAA
1 ATAA
3707010 TTATATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:3717063 original size:17 final size:17
Alignment explanation
Indices: 3717041--3717076 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3717031 GCTTTGATTA
3717041 CATTTCAATTTCATTTG
1 CATTTCAATTTCATTTG
* *
3717058 CATTTCAGTTTTATTTG
1 CATTTCAATTTCATTTG
3717075 CA
1 CA
3717077 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (17 bp):
CATTTCAATTTCATTTG
Found at i:3719224 original size:31 final size:30
Alignment explanation
Indices: 3719188--3719258 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
3719178 GCGGTATATT
3719188 TATATTATATAAAATATTA-AAAATTAAATTA
1 TATATTATATAAAATATTATAAAA--AAATTA
* * *
3719219 TATATTTATATAATATTTTATATAAAAATTA
1 TATA-TTATATAAAATATTATAAAAAAATTA
3719250 TATATTATA
1 TATATTATA
3719259 ATTTATATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 5 0.14
31 14 0.40
32 13 0.37
33 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TATATTATATAAAATATTATAAAAAAATTA
Found at i:3721028 original size:20 final size:21
Alignment explanation
Indices: 3720991--3721029 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3720981 GAGATTGTTA
* *
3720991 AAATTTAAATTTTAATTATTG
1 AAATTAAAAATTTAATTATTG
3721012 AAATTAAAAATTT-ATTAT
1 AAATTAAAAATTTAATTAT
3721030 ATCAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
AAATTAAAAATTTAATTATTG
Found at i:3721039 original size:16 final size:17
Alignment explanation
Indices: 3721020--3721055 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3721010 TGAAATTAAA
3721020 AATTTATTAT-ATCAAT
1 AATTTATTATGATCAAT
*
3721036 AATTTATTATGATCGAT
1 AATTTATTATGATCAAT
3721053 AAT
1 AAT
3721056 GTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
AATTTATTATGATCAAT
Found at i:3733714 original size:2 final size:2
Alignment explanation
Indices: 3733707--3733751 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3733697 ACAACTTGTA
3733707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3733749 AT A
1 AT A
3733752 ACATCATTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3734261 original size:22 final size:23
Alignment explanation
Indices: 3734228--3734276 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
3734218 ATATATTAAT
*
3734228 TTTA-ATTAATTTAA-AATAATAA
1 TTTATATTAATTTAATAA-AAAAA
3734250 TTTATATT-ATTTAATAAAAAAA
1 TTTATATTAATTTAATAAAAAAA
3734272 TTTAT
1 TTTAT
3734277 CTACTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTATATTAATTTAATAAAAAAA
Found at i:3737519 original size:22 final size:23
Alignment explanation
Indices: 3737493--3737542 Score: 93
Period size: 22 Copynumber: 2.2 Consensus size: 23
3737483 TCCAAAATTA
3737493 ATAAAATATTATTTTTTAAA-AT
1 ATAAAATATTATTTTTTAAATAT
3737515 ATAAAATATTATTTTTTAAATAT
1 ATAAAATATTATTTTTTAAATAT
3737538 ATAAA
1 ATAAA
3737543 TAATTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAAATATTATTTTTTAAATAT
Found at i:3737548 original size:23 final size:22
Alignment explanation
Indices: 3737492--3737548 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
3737482 ATCCAAAATT
3737492 AATA-AAAT-ATTATTTTTTAA
1 AATATAAATAATTATTTTTTAA
3737512 AATATAAA-ATATTATTTTTTAA
1 AATATAAATA-ATTATTTTTTAA
3737534 ATATATAAATAATTA
1 A-ATATAAATAATTA
3737549 AAAAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 13 0.41
23 11 0.34
24 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATAAATAATTATTTTTTAA
Found at i:3739705 original size:22 final size:21
Alignment explanation
Indices: 3739666--3739709 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
3739656 GTTATTTGGG
3739666 TTCGATTCGAAAAAAATTTGAA
1 TTCGATTCGAAAAAAA-TTGAA
* *
3739688 TTCGATTCGATAATAATTGAA
1 TTCGATTCGAAAAAAATTGAA
3739709 T
1 T
3739710 CGAGCTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (21 bp):
TTCGATTCGAAAAAAATTGAA
Found at i:3746618 original size:2 final size:2
Alignment explanation
Indices: 3746611--3746636 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3746601 TAGCAATCTA
3746611 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3746637 GTTAGATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3750387 original size:21 final size:21
Alignment explanation
Indices: 3750361--3750403 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3750351 ATCGTTTCTA
3750361 ACTATGATATCCTTTGTTATC
1 ACTATGATATCCTTTGTTATC
3750382 ACTATGATATCCTTTGTTATC
1 ACTATGATATCCTTTGTTATC
3750403 A
1 A
3750404 AATGCGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (21 bp):
ACTATGATATCCTTTGTTATC
Found at i:3754158 original size:29 final size:29
Alignment explanation
Indices: 3754106--3754181 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
3754096 AATGAGTATT
* *
3754106 ATATTA-ATT-AATAAATTTATAATTTAA
1 ATATTATATTAAATATATTTAAAATTTAA
3754133 ATATTATATTAAATATATTTAAAATTTAA
1 ATATTATATTAAATATATTTAAAATTTAA
*
3754162 ATATCATATTAAATAT-TTTA
1 ATATTATATTAAATATATTTA
3754182 CTAAGATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.14
28 7 0.16
29 31 0.70
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
ATATTATATTAAATATATTTAAAATTTAA
Found at i:3754179 original size:20 final size:17
Alignment explanation
Indices: 3754141--3754179 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 17
3754131 AAATATTATA
3754141 TTAAATATATTTAAAAT
1 TTAAATATATTTAAAAT
3754158 TTAAATATCATATTAAATAT
1 TTAAATAT-AT-TTAAA-AT
3754178 TT
1 TT
3754180 TACTAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 5 0.26
20 4 0.21
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATATATTTAAAAT
Found at i:3755877 original size:27 final size:27
Alignment explanation
Indices: 3755847--3755905 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3755837 GAGATTGAAA
* *
3755847 ATAATAATAAAAGTAAAATTAATTATT
1 ATAATAATAAAAGTAAAATAAATGATT
* * *
3755874 ATAATGATGAAATTAAAATAAATGATT
1 ATAATAATAAAAGTAAAATAAATGATT
3755901 A-AATA
1 ATAATA
3755906 TGTATTTAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (27 bp):
ATAATAATAAAAGTAAAATAAATGATT
Found at i:3757327 original size:18 final size:17
Alignment explanation
Indices: 3757294--3757347 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
3757284 TTATATATAA
**
3757294 TAATAATTTTAAATTAT
1 TAATAATTAAAAATTAT
*
3757311 TAATATTTATAAAATTAAT
1 TAATAATTA-AAAATT-AT
*
3757330 AAATAATTAAAAATTAT
1 TAATAATTAAAAATTAT
3757347 T
1 T
3757348 GTAAACACCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 9 0.31
18 11 0.38
19 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATTAAAAATTAT
Found at i:3757427 original size:17 final size:17
Alignment explanation
Indices: 3757400--3757434 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3757390 TTAGGCTTTG
3757400 ATTTTTTTATTG-ATTT
1 ATTTTTTTATTGTATTT
3757416 ATTTTTTATATTGTATTT
1 ATTTTTT-TATTGTATTT
3757434 A
1 A
3757435 GTTTAGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTTTATTGTATTT
Found at i:3762091 original size:19 final size:20
Alignment explanation
Indices: 3762054--3762097 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
3762044 TCGAACCGAA
* *
3762054 TTATATATTTTTTTTAATTT
1 TTATATATTATTTTAAATTT
3762074 TTATATA-TATTTTAAATTT
1 TTATATATTATTTTAAATTT
3762093 TTATA
1 TTATA
3762098 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATATATTATTTTAAATTT
Found at i:3763169 original size:21 final size:22
Alignment explanation
Indices: 3763127--3763178 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
3763117 TCTGAAATTA
3763127 ATAAAATATTAGTTTTAAAAAT
1 ATAAAATATTAGTTTTAAAAAT
**
3763149 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTAGTTTTAAAAAT
3763170 AT-AAATATT
1 ATAAAATATT
3763179 TAAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.25
21 10 0.36
22 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATAAAATATTAGTTTTAAAAAT
Found at i:3763177 original size:20 final size:21
Alignment explanation
Indices: 3763126--3763178 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3763116 ATCTGAAATT
3763126 AATA-AAATATTAGTTTTAAA
1 AATATAAATATTAGTTTTAAA
**
3763146 AATATAAAATATTA-TTTTTTA
1 AATAT-AAATATTAGTTTTAAA
3763167 AATATAAATATT
1 AATATAAATATT
3763179 TAAAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.38
21 10 0.34
22 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AATATAAATATTAGTTTTAAA
Found at i:3763180 original size:14 final size:14
Alignment explanation
Indices: 3763163--3763212 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
3763153 AATATTATTT
3763163 TTTAAATATAAATA
1 TTTAAATATAAATA
* *
3763177 TTTAAAAATATTATTA
1 TTT--AAATATAAATA
*
3763193 TATAAATATAAATA
1 TTTAAATATAAATA
3763207 TTTAAA
1 TTTAAA
3763213 AATATCATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 17 0.61
16 11 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:3763187 original size:16 final size:16
Alignment explanation
Indices: 3763166--3763240 Score: 66
Period size: 16 Copynumber: 4.7 Consensus size: 16
3763156 ATTATTTTTT
3763166 AAATATAAATATTTAA
1 AAATATAAATATTTAA
*
3763182 AAATAT---TATTATAT
1 AAATATAAATATT-TAA
3763196 AAATATAAATATTTAA
1 AAATATAAATATTTAA
* * *
3763212 AAATATCATTATATAA
1 AAATATAAATATTTAA
3763228 ATATATATAAATA
1 A-A-ATATAAATA
3763241 AAAAATTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 8 0.17
16 22 0.48
17 5 0.11
18 7 0.15
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAAATATTTAA
Found at i:3763187 original size:30 final size:30
Alignment explanation
Indices: 3763151--3763232 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
3763141 TTAAAAATAT
* *
3763151 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATATTTA
3763181 AAAATATTATTATATAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATATTTA
*
3763211 AAAATATCATTATATAAATATA
1 AAAATATTATTATATAAATATA
3763233 TATAAATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATATTTA
Found at i:3763243 original size:30 final size:30
Alignment explanation
Indices: 3763145--3763248 Score: 120
Period size: 30 Copynumber: 3.5 Consensus size: 30
3763135 TTAGTTTTAA
* *
3763145 AAATATAAAATATTATTTTTTAAATATAAAT
1 AAATA-AAAATATTATTATATAAATATAAAT
**
3763176 ATTTAAAAATATTATTATATAAATATAAAT
1 AAATAAAAATATTATTATATAAATATAAAT
** * *
3763206 ATTTAAAAATATCATTATATAAATATATAT
1 AAATAAAAATATTATTATATAAATATAAAT
3763236 AAATAAAAA-ATTA
1 AAATAAAAATATTA
3763249 AAAAATTAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 3 0.05
30 58 0.91
31 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AAATAAAAATATTATTATATAAATATAAAT
Found at i:3763746 original size:18 final size:17
Alignment explanation
Indices: 3763723--3763777 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
3763713 AAAATTAATC
3763723 ATATTAAACATAAATATT
1 ATATTAAA-ATAAATATT
3763741 ATATTAATTAATAAAT-TT
1 ATATTAA--AATAAATATT
*
3763759 ATAATTCAAATAAATATT
1 AT-ATTAAAATAAATATT
3763777 A
1 A
3763778 AATATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 7 0.22
18 14 0.44
19 10 0.31
20 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATTAAAATAAATATT
Found at i:3765152 original size:19 final size:18
Alignment explanation
Indices: 3765123--3765174 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
3765113 TAATTATTTT
*
3765123 TATAA-AAATAATAATTA
1 TATAATAAATAATAATAA
*
3765140 TGTCAATAAATAATAATAA
1 TAT-AATAAATAATAATAA
3765159 TATAATAAATTAATAA
1 TATAATAAA-TAATAA
3765175 AATCATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 2 0.07
18 8 0.28
19 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
TATAATAAATAATAATAA
Found at i:3765519 original size:18 final size:17
Alignment explanation
Indices: 3765496--3765543 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
3765486 TAATAATTTT
* *
3765496 AAATTATTAATATTTATA
1 AAATTATAAATAATTA-A
3765514 AAATTAATAAATAATTAA
1 AAATT-ATAAATAATTAA
3765532 AAATTATCAAAT
1 AAATTAT-AAAT
3765544 CATTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
19 9 0.35
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTATAAATAATTAA
Found at i:3766263 original size:7 final size:7
Alignment explanation
Indices: 3766250--3766281 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3766240 AAAACCTAAA
3766250 CAATGAC
1 CAATGAC
*
3766257 TAATGAC
1 CAATGAC
3766264 CAATGAC
1 CAATGAC
3766271 CAATGAC
1 CAATGAC
3766278 CAAT
1 CAAT
3766282 TTAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (7 bp):
CAATGAC
Found at i:3766810 original size:18 final size:17
Alignment explanation
Indices: 3766777--3766830 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
3766767 TTATATATAA
**
3766777 TAATAATTTTAAATTAT
1 TAATAATTAAAAATTAT
*
3766794 TAATATTTATAAAATTAAT
1 TAATAATTA-AAAATT-AT
*
3766813 AAATAATTAAAAATTAT
1 TAATAATTAAAAATTAT
3766830 T
1 T
3766831 GTAAACACCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 9 0.31
18 11 0.38
19 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATTAAAAATTAT
Found at i:3766910 original size:17 final size:17
Alignment explanation
Indices: 3766883--3766917 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3766873 TTAGGCTTTG
3766883 ATTTTTTTATTG-ATTT
1 ATTTTTTTATTGTATTT
3766899 ATTTTTTATATTGTATTT
1 ATTTTTT-TATTGTATTT
3766917 A
1 A
3766918 GTTTAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTTTATTGTATTT
Found at i:3770957 original size:7 final size:7
Alignment explanation
Indices: 3770944--3770975 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3770934 AAAACCTAAA
3770944 CAATGAC
1 CAATGAC
*
3770951 TAATGAC
1 CAATGAC
3770958 CAATGAC
1 CAATGAC
3770965 CAATGAC
1 CAATGAC
3770972 CAAT
1 CAAT
3770976 TTAGTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (7 bp):
CAATGAC
Found at i:3774231 original size:16 final size:16
Alignment explanation
Indices: 3774210--3774246 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
3774200 ATTTTGAATG
3774210 ATTTTAAATTTAAATA
1 ATTTTAAATTTAAATA
* *
3774226 ATTTTAGATTTAAATC
1 ATTTTAAATTTAAATA
3774242 ATTTT
1 ATTTT
3774247 GAACATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTTAAATTTAAATA
Found at i:3774737 original size:16 final size:16
Alignment explanation
Indices: 3774716--3774759 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
3774706 CTTTATTAAT
3774716 TTTAATAAATTAATTA
1 TTTAATAAATTAATTA
3774732 TTTAAT-AATATAATTA
1 TTTAATAAAT-TAATTA
*
3774748 TATAATATAATT
1 TTTAATA-AATT
3774760 TAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 3 0.12
16 17 0.71
17 1 0.04
18 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAATAAATTAATTA
Found at i:3780240 original size:22 final size:22
Alignment explanation
Indices: 3780215--3780257 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3780205 TTTACTTATT
*
3780215 TATTTTGTTTATTTAT-TTTAAA
1 TATTTTG-TGATTTATCTTTAAA
3780237 TATTTTGTGATTTATCTTTAA
1 TATTTTGTGATTTATCTTTAA
3780258 TTTAATTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (22 bp):
TATTTTGTGATTTATCTTTAAA
Found at i:3781188 original size:4 final size:4
Alignment explanation
Indices: 3781174--3781230 Score: 51
Period size: 4 Copynumber: 13.2 Consensus size: 4
3781164 TTTTGGTATT
* * *
3781174 TTTA TTTTA TTTA TTTA TTTA TTTTGG TTTG TTTA TTTA TTTA TTCA TTTA
1 TTTA -TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA TTTA TTTA TTTA
3781225 TGTTA T
1 T-TTA T
3781231 CATTGATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 31 0.69
5 14 0.31
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:3781210 original size:18 final size:17
Alignment explanation
Indices: 3781174--3781230 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
3781164 TTTTGGTATT
3781174 TTTATTTTATTTATTTA
1 TTTATTTTATTTATTTA
* *
3781191 TTTATTTTGGTTTGTTTA
1 TTTATTTT-ATTTATTTA
*
3781209 TTTA-TTTATTCATTTA
1 TTTATTTTATTTATTTA
3781225 TGTTAT
1 T-TTAT
3781231 CATTGATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.22
17 14 0.44
18 11 0.34
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTATTTA
Found at i:3781215 original size:30 final size:31
Alignment explanation
Indices: 3781164--3781225 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 31
3781154 TAGCTGACCT
*
3781164 TTTTGGTATTTTTATTTTATTTATTTATTTA
1 TTTTGGTATTTTTATTTTATTTATTCATTTA
3781195 TTTTGGT-TTGTTTA-TTTATTTATTCATTTA
1 TTTTGGTATT-TTTATTTTATTTATTCATTTA
3781225 T
1 T
3781226 GTTATCATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.73
Consensus pattern (31 bp):
TTTTGGTATTTTTATTTTATTTATTCATTTA
Found at i:3787673 original size:14 final size:14
Alignment explanation
Indices: 3787654--3787684 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3787644 ATCTTATTTT
3787654 TTAAAAAATATATA
1 TTAAAAAATATATA
*
3787668 TTAAAAAATATGTA
1 TTAAAAAATATATA
3787682 TTA
1 TTA
3787685 TTATCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TTAAAAAATATATA
Found at i:3793712 original size:21 final size:21
Alignment explanation
Indices: 3793674--3793713 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3793664 AACATAAAAA
* **
3793674 ATTTAAAAATTATTTTAATTT
1 ATTTAAAAAATAAATTAATTT
3793695 ATTTAAAAAATAAATTAAT
1 ATTTAAAAAATAAATTAAT
3793714 AATTATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTAAAAAATAAATTAATTT
Found at i:3794387 original size:12 final size:12
Alignment explanation
Indices: 3794350--3794406 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
3794340 CGACTCGATA
*
3794350 TATATATATAAAT
1 TATATAT-TTAAT
*
3794363 TAT-TTTTTAAAT
1 TATATATTT-AAT
3794375 TATATATTTAAT
1 TATATATTTAAT
3794387 TATATA--TAAT
1 TATATATTTAAT
3794397 TATATATTTA
1 TATATATTTA
3794407 TATTTAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 10 0.27
11 1 0.03
12 19 0.51
13 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATATTTAAT
Found at i:3794423 original size:22 final size:23
Alignment explanation
Indices: 3794371--3794428 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
3794361 ATTATTTTTT
*
3794371 AAATTATATATTTA-ATTATATA
1 AAATTATATATTTATATTATAAA
*
3794393 TAATTATATATTTATATT-TAAA
1 AAATTATATATTTATATTATAAA
*
3794415 AAATAATAT-TTTAT
1 AAATTATATATTTAT
3794429 TAATTTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 5 0.16
22 23 0.74
23 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAATTATATATTTATATTATAAA
Found at i:3795557 original size:12 final size:12
Alignment explanation
Indices: 3795542--3795577 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
3795532 TTAATATAAG
3795542 TATAAAATTAAA
1 TATAAAATTAAA
3795554 TATAAAATTAAA
1 TATAAAATTAAA
3795566 TA-AATAATTAAA
1 TATAA-AATTAAA
3795578 AAAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.09
12 21 0.91
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TATAAAATTAAA
Found at i:3796367 original size:20 final size:21
Alignment explanation
Indices: 3796329--3796367 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3796319 AATACGATAT
*
3796329 AATTAAATTTATTATATTATC
1 AATTAAATTTATAATATTATC
3796350 AATTAAATTTA-AATATTA
1 AATTAAATTTATAATATTA
3796368 ATTTAAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAAATTTATAATATTATC
Found at i:3803092 original size:23 final size:22
Alignment explanation
Indices: 3803046--3803108 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
3803036 ATTACTATGT
*
3803046 TATTATTTAAATATAAAATATATA
1 TATTATTTTAAT-T-AAATATATA
* * *
3803070 TTTTAATTTTTATTAAATTTATA
1 TATT-ATTTTAATTAAATATATA
3803093 TATTATTTTAATTAAA
1 TATTATTTTAATTAAA
3803109 ATTTTTAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 11 0.34
23 11 0.34
24 4 0.12
25 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTTTAATTAAATATATA
Found at i:3803110 original size:23 final size:23
Alignment explanation
Indices: 3803046--3803112 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
3803036 ATTACTATGT
* *
3803046 TATTATTTAAATATAAAATATATA
1 TATTATTTTAAT-TAAAATTTATA
* *
3803070 TTTTAATTTTTATT-AAATTTATA
1 TATT-ATTTTAATTAAAATTTATA
3803093 TATTATTTTAATTAAAATTT
1 TATTATTTTAATTAAAATTT
3803113 TTAAATAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 8 0.23
23 17 0.49
24 4 0.11
25 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATTTTAATTAAAATTTATA
Found at i:3804193 original size:17 final size:18
Alignment explanation
Indices: 3804153--3804193 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
3804143 TAAAATATTA
3804153 ATAAT-TTTTATATTTAT
1 ATAATATTTTATATTTAT
*
3804170 ATCATATTTTATA-TTAT
1 ATAATATTTTATATTTAT
*
3804187 GTAATAT
1 ATAATAT
3804194 AATTTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
ATAATATTTTATATTTAT
Found at i:3804297 original size:15 final size:16
Alignment explanation
Indices: 3804266--3804299 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3804256 TTTAATAAAG
3804266 TTTTAAATTATATTAT
1 TTTTAAATTATATTAT
3804282 TTTTAAATTATA-TAT
1 TTTTAAATTATATTAT
3804297 TTT
1 TTT
3804300 ATTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAATTATATTAT
Found at i:3806357 original size:28 final size:28
Alignment explanation
Indices: 3806301--3806359 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
3806291 TCGTATGATA
**
3806301 AAAATATTATTAATATAATTTATTTTTT
1 AAAATATTATTAATATAATTTATAATTT
3806329 AAAATATTATATAAT-T-ATATTATAATTT
1 AAAATATTAT-TAATATAAT-TTATAATTT
3806357 AAA
1 AAA
3806360 TCATATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.07
28 21 0.78
29 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAAATATTATTAATATAATTTATAATTT
Found at i:3806753 original size:16 final size:16
Alignment explanation
Indices: 3806734--3806773 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
3806724 AGATCATTGG
* *
3806734 AATTTTAATCATTTTA
1 AATTTAAATCAATTTA
*
3806750 AATTTAAATTAATTTA
1 AATTTAAATCAATTTA
3806766 AATTTAAA
1 AATTTAAA
3806774 AAGTTTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTAAATCAATTTA
Found at i:3807210 original size:36 final size:36
Alignment explanation
Indices: 3807145--3807216 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
3807135 ATTAAATTTA
* *
3807145 ATAATTTAAAATATAATATGATAATATAATATAATT
1 ATAATTTAAAATAAAATATGATAAAATAATATAATT
3807181 ATAATTATAAAAATAAAATAT-A-AAAATAATATAATT
1 ATAATT-T-AAAATAAAATATGATAAAATAATATAATT
3807217 TAAAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 19 0.59
37 2 0.06
38 11 0.34
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (36 bp):
ATAATTTAAAATAAAATATGATAAAATAATATAATT
Found at i:3807299 original size:23 final size:23
Alignment explanation
Indices: 3807261--3807315 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 23
3807251 AAAATTAAAC
*
3807261 AATATATTATATATTTTTATATCAA
1 AATATAAT-TATATTTTTATAT-AA
3807286 AAT-TAATTATATTTTTATATAA
1 AATATAATTATATTTTTATATAA
3807308 AATATAAT
1 AATATAAT
3807316 ATAAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 5 0.18
23 17 0.61
24 3 0.11
25 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATAATTATATTTTTATATAA
Found at i:3812231 original size:2 final size:2
Alignment explanation
Indices: 3812224--3812252 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3812214 TGCGGAAATT
3812224 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3812253 CTGTCTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3822937 original size:3 final size:3
Alignment explanation
Indices: 3822931--3822963 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3822921 ATGCAAGTTG
3822931 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3822964 TGTACAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3827258 original size:33 final size:33
Alignment explanation
Indices: 3827207--3827284 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
3827197 AGGCGACTGC
*
3827207 ATTCTGGAAACAAATTCTTTTTCCTATCATCGG
1 ATTCTGTAAACAAATTCTTTTTCCTATCATCGG
* * *
3827240 ATTCTGTAAGCAAGTTCTTTTTTCTATCATCGG
1 ATTCTGTAAACAAATTCTTTTTCCTATCATCGG
*
3827273 ATTTTGTAAACA
1 ATTCTGTAAACA
3827285 GGCTCTTACT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (33 bp):
ATTCTGTAAACAAATTCTTTTTCCTATCATCGG
Found at i:3830444 original size:19 final size:18
Alignment explanation
Indices: 3830420--3830462 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
3830410 ATTAAAATAT
3830420 AAATATGATATAAATTATA
1 AAATAT-ATATAAATTATA
* *
3830439 AAATATATTTAAATT-TT
1 AAATATATATAAATTATA
3830456 AAATATA
1 AAATATA
3830463 AATATGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AAATATATATAAATTATA
Found at i:3830451 original size:18 final size:17
Alignment explanation
Indices: 3830403--3830462 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
3830393 ATATAATAAC
*
3830403 ATAAAT-TA-TTAAAAT
1 ATAAATATATTTAAATT
*
3830418 ATAAATATGATATAAATT
1 ATAAATAT-ATTTAAATT
3830436 ATAAAATATATTTAAATT
1 AT-AAATATATTTAAATT
*
3830454 TTAAATATA
1 ATAAATATA
3830463 AATATGATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 6 0.16
16 1 0.03
17 8 0.22
18 16 0.43
19 6 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATAAATATATTTAAATT
Found at i:3830556 original size:19 final size:19
Alignment explanation
Indices: 3830546--3830631 Score: 63
Period size: 19 Copynumber: 4.5 Consensus size: 19
3830536 TATGATATGA
3830546 ATACATAAATAATATGAAT
1 ATACATAAATAATATGAAT
3830565 ATACATAAATAAATAT-AAT
1 ATACATAAAT-AATATGAAT
* *
3830584 -TAACATGAATATATACGAAT
1 AT-ACATAAATA-ATATGAAT
*
3830604 A-A-ATAAGACTAATACGAAT
1 ATACATAA-A-TAATATGAAT
*
3830623 ATATATAAA
1 ATACATAAA
3830632 ATATAATTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
18 5 0.09
19 34 0.62
20 12 0.22
21 4 0.07
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (19 bp):
ATACATAAATAATATGAAT
Found at i:3830576 original size:23 final size:22
Alignment explanation
Indices: 3830534--3830579 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
3830524 AATTCGTTTA
*
3830534 AATATGATATGAATACATAAAT
1 AATATGATATGAATAAATAAAT
3830556 AATATGAATAT-ACATAAATAAAT
1 AATATG-ATATGA-ATAAATAAAT
3830579 A
1 A
3830580 TAATTAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
AATATGATATGAATAAATAAAT
Found at i:3830582 original size:29 final size:29
Alignment explanation
Indices: 3830550--3830648 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 29
3830540 ATATGAATAC
*
3830550 ATAAATAATATGAATATACATAAATAAAT
1 ATAAATAATATGAATATATATAAATAAAT
* * **
3830579 ATAATTAACATGAATATATACGAATAAAT
1 ATAAATAATATGAATATATATAAATAAAT
* *
3830608 A-AGACTAATACGAATATATATAAAATATAAT
1 ATA-AATAATATGAATATATAT-AAATA-AAT
3830639 -TAAAATAATA
1 AT-AAATAATA
3830649 AATAACTGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
28 1 0.02
29 39 0.72
30 4 0.07
31 9 0.17
32 1 0.02
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (29 bp):
ATAAATAATATGAATATATATAAATAAAT
Found at i:3831429 original size:23 final size:23
Alignment explanation
Indices: 3831374--3831418 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3831364 ATAATGCAAC
3831374 AAATAATTAATTATTATATTATT
1 AAATAATTAATTATTATATTATT
3831397 AAATAATTAATTGA-TATATTAT
1 AAATAATTAATT-ATTATATTAT
3831419 AATTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATAATTAATTATTATATTATT
Found at i:3834352 original size:159 final size:157
Alignment explanation
Indices: 3834146--3834700 Score: 459
Period size: 159 Copynumber: 3.5 Consensus size: 157
3834136 GGATTACTAC
* * * * *
3834146 TTTTTTGGTAAACAAAAGCAA-ATATAT-TGTGCATCTTAATGGTAATAAACTATTTTGCTTAGT
1 TTTTTTGGTAAACGAAAGCAACA-ATATCT-TGTATCCTAATGG-AATAATCTATTTTGCTTGGT
* * **
3834209 ATTTTAAGAAAATAACTTATACTTTTACGATGGAAG-AAGTTTGAAAGCGTTAAAGAACCAA-TT
63 A-TTTATGAAAATAACTTATACTTTTACGATGGAAGAAAGTTTGAATGAATTAAAG-ACCAACTT
* *
3834272 CTAAAACCAAACAAAATGAAATGGAGAAATAGT
126 -TAAAACCAAAAAAAATGAAATGGAGAAATACT
* * *
3834305 TTTTTTGGTAAACGAAAGCAACAATATCTTGTATCCTAACGTGAATAATTTATTTTGCTTGGTAC
1 TTTTTTGGTAAACGAAAGCAACAATATCTTGTATCCTAATG-GAATAATCTATTTTGCTTGGTAT
* * * * * * *
3834370 TTAGTGAAAA-AACATAGATTTTTATGATGG-AGTAA-TTTTAATTGAATGAAAGGACCAACTTT
65 TTA-TGAAAATAACTTATACTTTTACGATGGAAGAAAGTTTGAA-TGAATTAAA-GACCAACTTT
* * *
3834432 GAAACAAAAAAAAATG-AATGGGAGAAATATTT
127 AAAACCAAAAAAAATGAAAT-GGAGAAATA-CT
* * * **
3834464 TTTTTTGGTAAACGAAAGCAACAATATTTTTTATCCTAATGAGAACT-GTCTATTTAACTTGGTA
1 TTTTTTGGTAAACGAAAGCAACAATATCTTGTATCCTAATG-GAA-TAATCTATTTTGCTTGGTA
* * * *
3834528 CTTTGTTAAATTAACTTATACTTTTACGAT-GAAGAAAGTTTGAATGAATTGAAAGACTAACTTT
64 -TTTATGAAAATAACTTATACTTTTACGATGGAAGAAAGTTTGAATGAATT-AAAGACCAACTTT
* *
3834592 AAAATCAAATAAAATGAAATGGAGAAAT-CT
127 AAAACCAAAAAAAATGAAATGGAGAAATACT
* * * * * **
3834622 TTCTTTAGTAAACGAAAGCAATAATATCATGTATCCCAATAACAACT-ATCTATTTTGCTTGGTA
1 TTTTTTGGTAAACGAAAGCAACAATATCTTGTATCCTAAT-GGAA-TAATCTATTTTGCTTGGTA
* *
3834686 GTTTGTAAAAATAAC
64 -TTTATGAAAATAAC
3834701 ATAGATTTTT
Statistics
Matches: 316, Mismatches: 62, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
157 10 0.03
158 118 0.37
159 119 0.38
160 58 0.18
161 11 0.03
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (157 bp):
TTTTTTGGTAAACGAAAGCAACAATATCTTGTATCCTAATGGAATAATCTATTTTGCTTGGTATT
TATGAAAATAACTTATACTTTTACGATGGAAGAAAGTTTGAATGAATTAAAGACCAACTTTAAAA
CCAAAAAAAATGAAATGGAGAAATACT
Found at i:3834466 original size:158 final size:156
Alignment explanation
Indices: 3834260--3834712 Score: 420
Period size: 158 Copynumber: 2.8 Consensus size: 156
3834250 TGAAAGCGTT
* *
3834260 AAAGAACCAA-TTCTAAAACCAAACAAAATGAAATGGAGAAATAGTTTTTTTGGTAAACGAAAGC
1 AAAG-ACCAACTT-TAAAA-CAAAAAAAATGAAATGGAGAAATACTTTTTTTGGTAAACGAAAGC
* *
3834324 AACAATATCTTGTATCCTAACGTGAATAATTTATTTTGCTTGGTACTTAGTGAAAAAACATAGAT
63 AACAATATCTTGTATCCTAA-GTGAATAATTTATTTTGCTTGGTACTTTGTAAAAAAACATAGAT
* * *
3834389 TTTTATGATGGAGTAA-TTTTAATTGAA-TG
127 TTTTATGATGAAGAAAGTTTGAA-TGAATTG
* *
3834418 AAAGGACCAACTTTGAAACAAAAAAAAATG-AATGGGAGAAATATTTTTTTTTGGTAAACGAAAG
1 AAA-GACCAACTTTAAAAC-AAAAAAAATGAAAT-GGAGAAATA-CTTTTTTTGGTAAACGAAAG
* * * ** ** *
3834482 CAACAATATTTTTTATCCTAA-TGAGA-ACTGTCTATTTAACTTGGTACTTTGTTAAATTAACTT
62 CAACAATATCTTGTATCCTAAGTGA-ATAAT-T-TATTTTGCTTGGTACTTTG-TAAAAAAACAT
* * *
3834545 ATACTTTTACGATGAAGAAAGTTTGAATGAATTG
123 AGATTTTTATGATGAAGAAAGTTTGAATGAATTG
* * * *
3834579 AAAGACTAACTTTAAAATCAAATAAAATGAAATGGAGAAAT-CTTTCTTTAGTAAACGAAAGCAA
1 AAAGACCAACTTTAAAA-CAAAAAAAATGAAATGGAGAAATACTTTTTTTGGTAAACGAAAGCAA
* * * * *
3834643 TAATATCATGTATCCCAA-T-AACAACTATCTATTTTGCTTGGTAGTTTGTAAAAATAACATAGA
65 CAATATCTTGTATCCTAAGTGAATAA-T-T-TATTTTGCTTGGTACTTTGTAAAAA-AACATAGA
3834706 TTTTTAT
126 TTTTTAT
3834713 CAGTAAAGCC
Statistics
Matches: 238, Mismatches: 41, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
156 1 0.00
157 15 0.06
158 96 0.40
159 57 0.24
160 55 0.23
161 14 0.06
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (156 bp):
AAAGACCAACTTTAAAACAAAAAAAATGAAATGGAGAAATACTTTTTTTGGTAAACGAAAGCAAC
AATATCTTGTATCCTAAGTGAATAATTTATTTTGCTTGGTACTTTGTAAAAAAACATAGATTTTT
ATGATGAAGAAAGTTTGAATGAATTG
Found at i:3850961 original size:16 final size:16
Alignment explanation
Indices: 3850940--3850972 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3850930 ATTCATAATA
3850940 TCATACAGTATATGAC
1 TCATACAGTATATGAC
*
3850956 TCATACAGTGTATGAC
1 TCATACAGTATATGAC
3850972 T
1 T
3850973 TAGCTCTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (16 bp):
TCATACAGTATATGAC
Found at i:3851655 original size:15 final size:15
Alignment explanation
Indices: 3851625--3851653 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3851615 TATATGTTTG
3851625 TTAATTAAATTTAAA
1 TTAATTAAATTTAAA
3851640 TTAA-TAAATTTAAA
1 TTAATTAAATTTAAA
3851654 ATGTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATTAAATTTAAA
Found at i:3855968 original size:22 final size:22
Alignment explanation
Indices: 3855943--3855991 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3855933 TTAATGATGA
3855943 TATTAAAAATAATAA-TAAAAAT
1 TATTAAAAAT-ATAATTAAAAAT
* *
3855965 TATTATAACTATAATTAAAAAT
1 TATTAAAAATATAATTAAAAAT
3855987 T-TTAA
1 TATTAA
3855992 TAAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTAAAAATATAATTAAAAAT
Found at i:3857342 original size:19 final size:18
Alignment explanation
Indices: 3857301--3857344 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3857291 TCTTTCAACA
*
3857301 AAAAAATCAAAATCTTTT
1 AAAAAATCAAAATATTTT
3857319 AAAAAAT-AAATATATTTT
1 AAAAAATCAAA-ATATTTT
3857337 ACAAAAAT
1 A-AAAAAT
3857345 TATTTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 14 0.61
19 6 0.26
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAATCAAAATATTTT
Found at i:3857356 original size:13 final size:15
Alignment explanation
Indices: 3857326--3857364 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
3857316 TTTAAAAAAT
3857326 AAATATATTTTAC-AA
1 AAAT-TATTTTACAAA
3857341 AAATTATTTT-CAAA
1 AAATTATTTTACAAA
3857355 AAATTATTTT
1 AAATTATTTT
3857365 TAATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 18 0.78
15 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATTATTTTACAAA
Found at i:3858356 original size:9 final size:9
Alignment explanation
Indices: 3858344--3858373 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
3858334 AATATTTTAT
3858344 TAATTAAAA
1 TAATTAAAA
3858353 TAATTAAAA
1 TAATTAAAA
3858362 TATATTAAAA
1 TA-ATTAAAA
3858372 TA
1 TA
3858374 TAAAACTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:3858370 original size:10 final size:10
Alignment explanation
Indices: 3858346--3858375 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3858336 TATTTTATTA
3858346 ATTAAAATA-
1 ATTAAAATAT
3858355 ATTAAAATAT
1 ATTAAAATAT
3858365 ATTAAAATAT
1 ATTAAAATAT
3858375 A
1 A
3858376 AAACTCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:3858510 original size:22 final size:22
Alignment explanation
Indices: 3858482--3858535 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
3858472 TCGATAATAA
*
3858482 TCGAGTCGAATTTGAGTTTTAT
1 TCGAGTCGAATTCGAGTTTTAT
3858504 TCGAGTCGAATTCGAGTTTTAT
1 TCGAGTCGAATTCGAGTTTTAT
**
3858526 TTAAGTCGAA
1 TCGAGTCGAA
3858536 CTCAAATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (22 bp):
TCGAGTCGAATTCGAGTTTTAT
Found at i:3858732 original size:14 final size:14
Alignment explanation
Indices: 3858676--3858735 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
3858666 TATTGATTAG
* *
3858676 AATTTTGTTTTTAGT
1 AATTTTATTTTT-GA
*
3858691 AATTTTATTTTT-T
1 AATTTTATTTTTGA
** *
3858704 AATTTGGTTTATGA
1 AATTTTATTTTTGA
3858718 AATTTTATTTTTGA
1 AATTTTATTTTTGA
3858732 AATT
1 AATT
3858736 CTTTAAGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
13 10 0.28
14 15 0.42
15 11 0.31
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (14 bp):
AATTTTATTTTTGA
Found at i:3862177 original size:1 final size:1
Alignment explanation
Indices: 3862134--3862159 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
3862124 CCCCCCTCTC
3862134 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
3862160 CCATTTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3864142 original size:45 final size:46
Alignment explanation
Indices: 3864073--3864165 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 46
3864063 TCTTTTGTGA
* * *
3864073 CTCAATAGAAGTATAATAATAAAAAAAG-TTTAAATTACAATTTAT
1 CTCAATACAAGTATAATAACAAAAAAAGTTTTAAATTAAAATTTAT
* *
3864118 CTCAATACAAGTCTAATAACAAAAATAGTTATTTAAATTAAAATTTAT
1 CTCAATACAAGTATAATAACAAAAAAAG-T-TTTAAATTAAAATTTAT
3864166 TAAAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
45 24 0.60
48 16 0.40
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (46 bp):
CTCAATACAAGTATAATAACAAAAAAAGTTTTAAATTAAAATTTAT
Found at i:3864802 original size:109 final size:109
Alignment explanation
Indices: 3864679--3864900 Score: 293
Period size: 109 Copynumber: 2.0 Consensus size: 109
3864669 ATAACTCTTA
* * * *
3864679 TTTTTTTATTTATTTAACTTGATGGCTTTTGATTTAATAAGTATTTATTATGATTATAGCAATTA
1 TTTTTTTATCTATTTAACTTGATGACTTTTGATTTAATAAGTATTTATTATGAGTATAACAATTA
* *
3864744 CTACATTTCTTTGAACAGAAACATAATATTT-GATATTTAATTTT
66 CTACATGTCTTTGAACAGAAACATAATATTTAG-CATTTAATTTT
* * *
3864788 TTTTTTTATCTATTTGACTTGATGACTTTTGATTTAATGAGTATTTATTATGGGTATAACAATTA
1 TTTTTTTATCTATTTAACTTGATGACTTTTGATTTAATAAGTATTTATTATGAGTATAACAATTA
* * * * **
3864853 CTGCGTGTCTTTGTACATAAATGTAATATTTAGCATTTAATTTT
66 CTACATGTCTTTGAACAGAAACATAATATTTAGCATTTAATTTT
3864897 TTTT
1 TTTT
3864901 CATCTTATTT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 96 0.99
110 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (109 bp):
TTTTTTTATCTATTTAACTTGATGACTTTTGATTTAATAAGTATTTATTATGAGTATAACAATTA
CTACATGTCTTTGAACAGAAACATAATATTTAGCATTTAATTTT
Found at i:3866246 original size:32 final size:31
Alignment explanation
Indices: 3866186--3866251 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
3866176 TGATAATTCG
* *
3866186 TATATTTATATTATATAAAATATTAAAATTTA
1 TATATTTATATCATATAAAATA-TAAAAATTA
***
3866218 TATATTTATATCATATTTTATATAAAAATTA
1 TATATTTATATCATATAAAATATAAAAATTA
3866249 TAT
1 TAT
3866252 GTGATAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TATATTTATATCATATAAAATATAAAAATTA
Found at i:3870257 original size:771 final size:772
Alignment explanation
Indices: 3868768--3870311 Score: 2880
Period size: 771 Copynumber: 2.0 Consensus size: 772
3868758 CTCAACAGTT
* *
3868768 AAAAGTTTAGCTTTTTGTTTTATTGTTTAACACGTTACTTGCCTTTTTTATCATTTGGGTAAACC
1 AAAAGTTTAGCTTTTTGTTTTATTGTTTAACACGTTACTTGCCTTTTCTATCATTTGGGTAAACA
3868833 TATTCATCATCTGGAGCTTAACTCGTCCTCGTAATGTTGATGCATTTTCCGGCACCTTTTATTGT
66 TATTCATCATCTGGAGCTTAACTCGTCCTCGTAATGTTGATGCATTTTCCGGCACCTTTTATTGT
3868898 TTGTCCAAGTAAGTGTCTGATGCTATTCTTCTTTCTTACTTCACATTCAAACCATTCATTTGTCT
131 TTGTCC-A--AAGTGTCTGATGCTATTCTTCTTTCTTACTTCACATTCAAACCATTCATTTGTCT
3868963 GCTTCATTGATCAGGAAAACAAACCCAAATTAATAATTTTGTATATAATTTCATCTCTCATAAAA
193 GCTTCATTGATCAGGAAAACAAACCCAAATTAATAATTTTGTATATAATTTCATCTCTCATAAAA
*
3869028 GTACAAATAGAGGAGAATAGGTACATATCTATGAACTTAGCATGTAACTGATACTATTTCAATAG
258 GTACAAATAGAGGAGAATAGGTACATATCTATGAACTTAGCATGTAACTGATACTATTTCAATAA
3869093 CCAAAAGGTTGGGTTTAGGGGTTTCTTGTATGTCTTCCTGAATTAACAATATGCTTTATATTTCA
323 CCAAAAGGTTGGGTTTAGGGGTTTCTTGTATGTCTTCCTGAATTAACAATATGCTTTATATTTCA
3869158 CATGCATACACAATTAAGACGTTAAAAACTATTATGTACTTTTATCTTCTCTAGTGTTTGGTTGA
388 CATGCATACACAATTAAGACGTTAAAAACTATTATGTACTTTTATCTTCTCTAGTGTTTGGTTGA
3869223 ATCATTATCTGAGAAGCAAAAGTAAGAAACAGTTGAAACTCGAAACACCGATTCTCTATGACTCT
453 ATCATTATCTGAGAAGCAAAAGTAAGAAACAGTTGAAACTCGAAACACCGATTCTCTATGACTCT
3869288 TCAACACAAATCAGGAAGAGTAGCAATGGATATTGTATTAAGAAATAAAGGTCAAGAAAAGTTAT
518 TCAACACAAATCAGGAAGAGTAGCAATGGATATTGTATTAAGAAATAAAGGTCAAGAAAAGTTAT
3869353 AATTCGCTGGGATTTTCAAAAGAAAAGGGTTGATATGTTGTCAAATATATATAACCAATTGTTTC
583 AATTCGCTGGGATTTTCAAAAGAAAAGGGTTGATATGTTGTCAAATATATATAACCAATTGTTTC
* * *
3869418 CAGAAGTACAATTACTAATCTCTCTAAATATTTGTACATTATGTCCATGCAATTAAGAGTAGAGA
648 CAGAAGTACAATTACTAATCGCTCTAAATATTTGTACATTATGCCCATGCAATTAAGAGTAAAGA
3869483 AGAAAACAAGCATTTATGAGTAGGAAAATCCTTTTCACGAAAAAGCCAAAGCATCACTGC
713 AGAAAACAAGCATTTATGAGTAGGAAAATCCTTTTCACGAAAAAGCCAAAGCATCACTGC
*
3869543 AAAAGTTTAGCTTTTTGTTTTATTGTTTAACATGTTACTTGCCTTTTCTATC-TTTCGGGTAAAC
1 AAAAGTTTAGCTTTTTGTTTTATTGTTTAACACGTTACTTGCCTTTTCTATCATTT-GGGTAAAC
*
3869607 ATATTCTTCATCTGGAGCTTAACTCGTCCTCGTAATGTTGATGCATTTTCCGGCACCATTTT-TT
65 ATATTCATCATCTGGAGCTTAACTCGTCCTCGTAATGTTGATGCATTTTCCGGCACC-TTTTATT
* * * *
3869671 GTTTGTCC-AAGTGTCTGATGCTATTCTTCTTTTTTACTTTACCTTCAACCCATTCATCTT-TCT
129 GTTTGTCCAAAGTGTCTGATGCTATTCTTCTTTCTTACTTCACATTCAAACCATTCAT-TTGTCT
3869734 GCTTCATTGATCAGGAAAACAAACCCAAATTAATAATTTTGTATATAATTTCATCTCTCATAAAA
193 GCTTCATTGATCAGGAAAACAAACCCAAATTAATAATTTTGTATATAATTTCATCTCTCATAAAA
3869799 GTACAAATAGAGGAGAATAGGTACATATCTATGAACTTAGCATGTAACTGATACTATTTCAATAA
258 GTACAAATAGAGGAGAATAGGTACATATCTATGAACTTAGCATGTAACTGATACTATTTCAATAA
3869864 CCAAAAGGTTGGGTTTAGGGGTTTCTTGTATGTCTTCCTGAATTAACAATATGCTTTATATTTCA
323 CCAAAAGGTTGGGTTTAGGGGTTTCTTGTATGTCTTCCTGAATTAACAATATGCTTTATATTTCA
3869929 CATGCATACACAATTAAGACGTTAAAAACTATTATGTACTTTTATCTTCTCTAGTGTTTGGTTGA
388 CATGCATACACAATTAAGACGTTAAAAACTATTATGTACTTTTATCTTCTCTAGTGTTTGGTTGA
3869994 ATCATTATCTGAGAAGCAAAAGTAAGAAACAGTTGAAACTCGAAACACCGATTCTCTATGACTCT
453 ATCATTATCTGAGAAGCAAAAGTAAGAAACAGTTGAAACTCGAAACACCGATTCTCTATGACTCT
3870059 TCAACACAAATCAGGAAGAGTAGCAATGGATATTGTATTAAGAAATAAAGGTCAAGAAAAGTTAT
518 TCAACACAAATCAGGAAGAGTAGCAATGGATATTGTATTAAGAAATAAAGGTCAAGAAAAGTTAT
*
3870124 AATTCGCTGGGATTTTCAAAAGAAAAGGGTTGATTTGTTGTCAAATATATATAACCAATTGTTTC
583 AATTCGCTGGGATTTTCAAAAGAAAAGGGTTGATATGTTGTCAAATATATATAACCAATTGTTTC
*
3870189 CAGAAGTGCAATTACTAATCGCTCTAAATATTTGTACATTATGCCCATGCAATTAAGAGTAAAGA
648 CAGAAGTACAATTACTAATCGCTCTAAATATTTGTACATTATGCCCATGCAATTAAGAGTAAAGA
3870254 AGAAAACAAGCATTTATGAGTAGGAAAATCCTTTTCACGAAAAAGCCAAAGCATCACT
713 AGAAAACAAGCATTTATGAGTAGGAAAATCCTTTTCACGAAAAAGCCAAAGCATCACT
3870312 ACATTTTTCT
Statistics
Matches: 752, Mismatches: 14, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
771 620 0.82
772 2 0.00
774 3 0.00
775 123 0.16
776 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (772 bp):
AAAAGTTTAGCTTTTTGTTTTATTGTTTAACACGTTACTTGCCTTTTCTATCATTTGGGTAAACA
TATTCATCATCTGGAGCTTAACTCGTCCTCGTAATGTTGATGCATTTTCCGGCACCTTTTATTGT
TTGTCCAAAGTGTCTGATGCTATTCTTCTTTCTTACTTCACATTCAAACCATTCATTTGTCTGCT
TCATTGATCAGGAAAACAAACCCAAATTAATAATTTTGTATATAATTTCATCTCTCATAAAAGTA
CAAATAGAGGAGAATAGGTACATATCTATGAACTTAGCATGTAACTGATACTATTTCAATAACCA
AAAGGTTGGGTTTAGGGGTTTCTTGTATGTCTTCCTGAATTAACAATATGCTTTATATTTCACAT
GCATACACAATTAAGACGTTAAAAACTATTATGTACTTTTATCTTCTCTAGTGTTTGGTTGAATC
ATTATCTGAGAAGCAAAAGTAAGAAACAGTTGAAACTCGAAACACCGATTCTCTATGACTCTTCA
ACACAAATCAGGAAGAGTAGCAATGGATATTGTATTAAGAAATAAAGGTCAAGAAAAGTTATAAT
TCGCTGGGATTTTCAAAAGAAAAGGGTTGATATGTTGTCAAATATATATAACCAATTGTTTCCAG
AAGTACAATTACTAATCGCTCTAAATATTTGTACATTATGCCCATGCAATTAAGAGTAAAGAAGA
AAACAAGCATTTATGAGTAGGAAAATCCTTTTCACGAAAAAGCCAAAGCATCACTGC
Found at i:3874207 original size:760 final size:760
Alignment explanation
Indices: 3871986--3875032 Score: 5760
Period size: 760 Copynumber: 4.0 Consensus size: 760
3871976 ATGCAGGCCG
3871986 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
1 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
3872051 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
66 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
3872116 TACATTGCTGAACTCACATGAAAAACAAAAGTCATTTAAGAAAGTGGTCATTGCGGCTCTCTCCC
131 TACATTGCTGAACTCACATGAAAAACAAAAGTCATTTAAGAAAGTGGTCATTGCGGCTCTCTCCC
*
3872181 TAAGGGACACTATTTTGGGATGATGAAACTTAACAAACATTCAAGCTTTTAAAGACTACAAACGG
196 TAAGGGACACTATTTTGAGATGATGAAACTTAACAAACATTCAAGCTTTTAAAGACTACAAACGG
*
3872246 C-AAATAGCAAATGCTAGAAAAAAACTTATTAAGGTAGAAAAAAAAGTATATGAGAAGTAGGTAT
261 CAAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAAGTATATGAGAAGTAGGTAT
3872310 GCTTTCTGCTGAATGAAATATGATAATTGTGGGATTAATGCAAGTTTTAAGTATCCAAAAAATGA
326 GCTTTCTGCTGAATGAAATATGATAATTGTGGGATTAATGCAAGTTTTAAGTATCCAAAAAATGA
3872375 TATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGCAAAGAAGAACTTGT
391 TATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGCAAAGAAGAACTTGT
** *
3872440 AGATCTGCTCAAAGAAGCTTTTCAACCCAAATTCATCTGAAAAATAAAATCCTGAGCAGAGAAAT
456 AGATCTGCTCAAAGAAGCTTTTCAACCCAAATTCATCCAAAAAATAAAATCTTGAGCAGAGAAAT
3872505 CCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCATTTTCTGC
521 CCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCATTTTCTGC
*
3872570 CATTGCAGTGATCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGACATTGGG
586 CATTGCAGTGACCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGACATTGGG
* * *
3872635 ATTTGCAAATAAGTTCTTCCTGCAAAAAATGTCCAGCAGATTTGCCTTTCCATCCTTCCCATTAA
651 ATTTGCAAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCTTTCCATCCTTCCTATTAA
*
3872700 TTTAGATAAGTGAAACAGTTACAAGAATAAACTAATCAGAAGCCA
716 TTTAGATAAGTGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
3872745 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
1 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
3872810 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
66 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
3872875 TACATTGCTGAACTCACATGAAAAACCAAAAGTCATTTTAAGAAAGTGGTCATTGCGGCTCTCTC
131 TACATTGCTGAACTCACATGAAAAA-CAAAAGTCA-TTTAAGAAAGTGGTCATTGCGGCTCTCTC
3872940 CCTAAGGGACACTATTTTGAGATGATGAAACTTAACAAAACATTCAAGC-TTTAAAGACTACAAA
194 CCTAAGGGACACTATTTTGAGATGATGAAACTTAAC-AAACATTCAAGCTTTTAAAGACTACAAA
3873004 CGGCAAAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAAGTA-ATGAGAAGTAG
258 CGGC-AAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAAGTATATGAGAAGTAG
*
3873068 GTATACTTTCTGCTGAATGAAATATGATAATTGTGGGAATTAATGCAAGTTTTAAGTATCCAAAA
322 GTATGCTTTCTGCTGAATGAAATATGATAATTGTGGG-ATTAATGCAAGTTTTAAGTATCCAAAA
3873133 AATGATATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGGCAAAGAAGA
386 AATGATATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATT-GGCAAAGAAGA
3873198 ACTTGTAGATCTGCTCAAAGAAAGCTTTTCAACCCAAATTCATCCAAAAAATAAAATCTTGAGCA
450 ACTTGTAGATCTGCTCAAAG-AAGCTTTTCAACCCAAATTCATCCAAAAAATAAAATCTTGAGCA
3873263 GAGAAATCCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCAT
514 GAGAAATCCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCAT
*
3873328 TTTCTGCCATTGCAGTGATCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGA
579 TTTCTGCCATTGCAGTGACCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGA
3873393 CATTGGGATTTGCAAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCTTTCCATCCTTC
644 CATTGGGATTTGCAAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCTTTCCATCCTTC
*
3873458 CTATTAATTTAGATAAGGGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
709 CTATTAATTTAGATAAGTGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
*
3873510 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATATTGAATGTGTATTTGTAATGGCAT
1 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
3873575 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
66 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
*
3873640 TACATTGCCGAACTCACATGAAAAACAAAAGTCATTTAAGAAAGTGGTCATTGCGGCTCTCTCCC
131 TACATTGCTGAACTCACATGAAAAACAAAAGTCATTTAAGAAAGTGGTCATTGCGGCTCTCTCCC
*
3873705 TAAGGGACACTATTTTGAGATGATGAAACTTAACAAACATTCAAGCTTTTAAAGACTACAAATGG
196 TAAGGGACACTATTTTGAGATGATGAAACTTAACAAACATTCAAGCTTTTAAAGACTACAAACGG
3873770 CAAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAAGTATATGAGAAGTAGGTAT
261 CAAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAAGTATATGAGAAGTAGGTAT
* *
3873835 GGTTTCTGCTGAATGAAATATGATAATTGTGGGATTAATGCAAGTTTTAAGTATCCAAAAAATGT
326 GCTTTCTGCTGAATGAAATATGATAATTGTGGGATTAATGCAAGTTTTAAGTATCCAAAAAATGA
3873900 TATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGCAAAGAAGAACTTGT
391 TATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGCAAAGAAGAACTTGT
3873965 AGATCTGCTCAAAGAAGCTTTTCAACCCAAATTCATCCAAAAAATAAAATCTTGAGCAGAGAAAT
456 AGATCTGCTCAAAGAAGCTTTTCAACCCAAATTCATCCAAAAAATAAAATCTTGAGCAGAGAAAT
3874030 CCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCATTTTCTGC
521 CCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCATTTTCTGC
3874095 CATTGCAGTGACCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGACATTGGG
586 CATTGCAGTGACCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGACATTGGG
3874160 ATTTGCAAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCTTTCCATCCTTCCTATTAA
651 ATTTGCAAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCTTTCCATCCTTCCTATTAA
*
3874225 TTTAGACAAGTGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
716 TTTAGATAAGTGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
3874270 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
1 ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
3874335 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
66 AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
*
3874400 TACATTGCTGAACTCACATGAAAAACAAAAGTCATTTAAGAAAGTGGTCATTGTGGCTCTCTCCC
131 TACATTGCTGAACTCACATGAAAAACAAAAGTCATTTAAGAAAGTGGTCATTGCGGCTCTCTCCC
*
3874465 TAAGGGACACTATTTTGGGATGATGAAACTTAACAAACATTCAAGCTTTTAAAGACTACAAACGG
196 TAAGGGACACTATTTTGAGATGATGAAACTTAACAAACATTCAAGCTTTTAAAGACTACAAACGG
3874530 CAAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAAGGTATATGAGAAGTAGGTA
261 CAAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAA-GTATATGAGAAGTAGGTA
* *
3874595 TGGTTTCTGCTGAATGAAATATGATAATTGTGGGATTAATGCAAGTTTTAAGTGTCCAAAAAATG
325 TGCTTTCTGCTGAATGAAATATGATAATTGTGGGATTAATGCAAGTTTTAAGTATCCAAAAAATG
3874660 ATATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGCAAAGAAGAACTTG
390 ATATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGCAAAGAAGAACTTG
3874725 TAGATCTGCTCAAAGAAGCTTTTCAACCCAAATTCATCC-AAAAATAAAATCTTGAGCAGAGAAA
455 TAGATCTGCTCAAAGAAGCTTTTCAACCCAAATTCATCCAAAAAATAAAATCTTGAGCAGAGAAA
3874789 TCCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCATTTTCTG
520 TCCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCATTTTCTG
3874854 CCATTGCAGTGACCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGACATTGG
585 CCATTGCAGTGACCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGACATTGG
* * *
3874919 GAGTTGCCAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCGTTCCATCCTTCCTATTA
650 GATTTGCAAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCTTTCCATCCTTCCTATTA
3874984 ATTTAGATAAGTGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
715 ATTTAGATAAGTGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
3875030 ACA
1 ACA
3875033 ACAACAGAGC
Statistics
Matches: 2246, Mismatches: 31, Indels: 21
0.98 0.01 0.01
Matches are distributed among these distances:
759 155 0.07
760 863 0.38
761 299 0.13
762 198 0.09
763 255 0.11
764 40 0.02
765 436 0.19
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (760 bp):
ACATGCACTAAAATTGAAATTACACAGAAATTCTCATAATGTTGAATGTGTATTTGTAATGGCAT
AAATTCTCTATGCCATGATTATGCATGTGATAAAACCTCAATTGTCATTGCTATTGTAAAATCAT
TACATTGCTGAACTCACATGAAAAACAAAAGTCATTTAAGAAAGTGGTCATTGCGGCTCTCTCCC
TAAGGGACACTATTTTGAGATGATGAAACTTAACAAACATTCAAGCTTTTAAAGACTACAAACGG
CAAAATAGCAAATGCTAGAAAAAAACATATTAAGGTAGAAAAAAAAGTATATGAGAAGTAGGTAT
GCTTTCTGCTGAATGAAATATGATAATTGTGGGATTAATGCAAGTTTTAAGTATCCAAAAAATGA
TATAAATATGCAGTAATGATGAAAGGGATTAGAGGTCTGCTTTTCATTGGCAAAGAAGAACTTGT
AGATCTGCTCAAAGAAGCTTTTCAACCCAAATTCATCCAAAAAATAAAATCTTGAGCAGAGAAAT
CCAACCTGAGTAAAAGACCCAATAACTTCCTCTGCTGATTTGCATTTTTCAGCTTCATTTTCTGC
CATTGCAGTGACCTCCTTTGGTATTTGCCTTGATGATTTCACTTGTTCAGCTTCAAGACATTGGG
ATTTGCAAATAAGATCTTCCTGCAAAAAATGTCCAGCAGATTTACCTTTCCATCCTTCCTATTAA
TTTAGATAAGTGAAACAGTTAAAAGAATAAACTAATCAGAAGCCA
Found at i:3878507 original size:60 final size:58
Alignment explanation
Indices: 3878358--3878619 Score: 260
Period size: 60 Copynumber: 4.4 Consensus size: 58
3878348 TAATCCCTAC
* * * *
3878358 AAAAATTAAAAAGGATTATTTAA-AGCGTTTTCTAGCAAAAACACATTGAATAATTTAAA
1 AAAAATTAAAGA-GATTATTCAAGA-TGTTTTCTAGCAAAAACACCTTGAATAATTTAAA
* * * *
3878417 AAAAATTAAAAGAGATTATTCAAGGTGTTTTCTAGTAAAAATACCTTGAATAATTTTTAA
1 AAAAATT-AAAGAGATTATTCAAGATGTTTTCTAGCAAAAACACCTTGAATAA-TTTAAA
* * *
3878477 AAAAATTAAACGAGATTATTCAAGATGTTTT-TCGACAAAAACATCTTGAATAATCT-AA
1 AAAAATTAAA-GAGATTATTCAAGATGTTTTCTAG-CAAAAACACCTTGAATAATTTAAA
* * * * ** *
3878535 AAAAATTGAAGAGAATTATTCAAGATATTTTTTAGTAAAAATGCCTTGAATAATCTAAAA
1 AAAAATTAAAGAG-ATTATTCAAGATGTTTTCTAGCAAAAACACCTTGAATAAT-TTAAA
3878595 AAAAATTAAATGAGATTATTCAAGA
1 AAAAATTAAA-GAGATTATTCAAGA
3878620 CTTTTTACTA
Statistics
Matches: 169, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
57 3 0.02
58 42 0.25
59 49 0.29
60 72 0.43
61 3 0.02
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (58 bp):
AAAAATTAAAGAGATTATTCAAGATGTTTTCTAGCAAAAACACCTTGAATAATTTAAA
Found at i:3878597 original size:118 final size:119
Alignment explanation
Indices: 3878393--3878619 Score: 325
Period size: 118 Copynumber: 1.9 Consensus size: 119
3878383 CGTTTTCTAG
* * *
3878393 CAAAAACACATTGAATAATTTAAAAAAAATTAAAAGAGATTATTCAAGGTGTTTTCTAGTAAAAA
1 CAAAAACACATTGAATAATCTAAAAAAAATTAAAAGAGATTATTCAAGATATTTTCTAGTAAAAA
* **
3878458 TACCTTGAATAATTTTTAAAAAAATTAAACGAGATTATTCAAGATGTTTTTCGA
66 TACCTTGAATAATCTAAAAAAAAATTAAACGAGATTATTCAAGATGTTTTTCGA
* *
3878512 CAAAAACATC-TTGAATAATCT-AAAAAAATT-GAAGAGAATTATTCAAGATATTTTTTAGTAAA
1 CAAAAACA-CATTGAATAATCTAAAAAAAATTAAAAGAG-ATTATTCAAGATATTTTCTAGTAAA
* *
3878574 AATGCCTTGAATAATCTAAAAAAAAATTAAATGAGATTATTCAAGA
64 AATACCTTGAATAATCTAAAAAAAAATTAAACGAGATTATTCAAGA
3878620 CTTTTTACTA
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
117 5 0.05
118 72 0.75
119 18 0.19
120 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (119 bp):
CAAAAACACATTGAATAATCTAAAAAAAATTAAAAGAGATTATTCAAGATATTTTCTAGTAAAAA
TACCTTGAATAATCTAAAAAAAAATTAAACGAGATTATTCAAGATGTTTTTCGA
Found at i:3879094 original size:12 final size:10
Alignment explanation
Indices: 3879071--3879104 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3879061 AGTAAATCTG
3879071 TTTTTTTTAT
1 TTTTTTTTAT
*
3879081 TTTTTTTGTAA
1 TTTTTTT-TAT
3879092 TTTTTTTTAT
1 TTTTTTTTAT
3879102 TTT
1 TTT
3879105 GATTTTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:3879124 original size:28 final size:25
Alignment explanation
Indices: 3879071--3879126 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
3879061 AGTAAATCTG
* *
3879071 TTTTTTTTATTTTTTTTGTAATTTT
1 TTTTTTTTATTTTTTTTATAAATTT
3879096 TTTTATTTTGATTTTTGTTTATAAATTT
1 TTTT-TTTT-ATTTTT-TTTATAAATTT
3879124 TTT
1 TTT
3879127 GTTAGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 4 0.15
27 6 0.23
28 12 0.46
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (25 bp):
TTTTTTTTATTTTTTTTATAAATTT
Found at i:3881335 original size:92 final size:92
Alignment explanation
Indices: 3881178--3881363 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 92
3881168 CTTAGAAAAT
*
3881178 GGTTTTTGATTTATTAGTATATTGAAATCATATAATCCCACTTTAGATTCATGATAATTTTTGAA
1 GGTTTTTGATTTATTAGTATATTGAAATCATATAATCCCACTTTAGATTCATGATAATCTTTGAA
*
3881243 TTGTTTATTATACTTTCATTCCTGATA
66 TTGTTTATTATACTTTCATACCTGATA
3881270 GGTTTTTGATTTATTAGTATATTGAAATCATATAATCCCACTTTAGATTCATGATAATCTTTGAA
1 GGTTTTTGATTTATTAGTATATTGAAATCATATAATCCCACTTTAGATTCATGATAATCTTTGAA
3881335 TTGTTTATTATACTTTCATACCTGATA
66 TTGTTTATTATACTTTCATACCTGATA
3881362 GG
1 GG
3881364 CTTTCATTCT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (92 bp):
GGTTTTTGATTTATTAGTATATTGAAATCATATAATCCCACTTTAGATTCATGATAATCTTTGAA
TTGTTTATTATACTTTCATACCTGATA
Found at i:3881657 original size:26 final size:27
Alignment explanation
Indices: 3881621--3881676 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
3881611 CAAAGAGGAA
* *
3881621 ATGGACA-TTTTGGTATCCTAAAATTT
1 ATGGACATTTTTGGTATCCCAAAATCT
*
3881647 ATGGACATTTTTGGTGTCCCAAAATCT
1 ATGGACATTTTTGGTATCCCAAAATCT
3881674 ATG
1 ATG
3881677 TTTTTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (27 bp):
ATGGACATTTTTGGTATCCCAAAATCT
Found at i:3886639 original size:31 final size:32
Alignment explanation
Indices: 3886595--3886654 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
3886585 GTCATTTTTT
3886595 AGACAATTGTAATGATTAAAACTTAAGTACTA
1 AGACAATTGTAATGATTAAAACTTAAGTACTA
3886627 AGACAA-TGTAATGATTAAAACTTAAGTA
1 AGACAATTGTAATGATTAAAACTTAAGTA
3886655 TTATGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.30
Consensus pattern (32 bp):
AGACAATTGTAATGATTAAAACTTAAGTACTA
Found at i:3888873 original size:19 final size:17
Alignment explanation
Indices: 3888851--3888886 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
3888841 GTTATTCTTC
3888851 ATTGTAATTGTAGAGTTTT
1 ATTGTAA-TGTAG-GTTTT
3888870 ATTGTAATGTAGGTTTT
1 ATTGTAATGTAGGTTTT
3888887 GAACATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (17 bp):
ATTGTAATGTAGGTTTT
Found at i:3891062 original size:23 final size:25
Alignment explanation
Indices: 3891029--3891087 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
3891019 TTAATCAAAT
3891029 TAATAAAAAAACT-AAAA-ATAAAA
1 TAATAAAAAAACTCAAAATATAAAA
* *
3891052 TAGTAAAAAAATTCAAAATATAAAA
1 TAATAAAAAAACTCAAAATATAAAA
3891077 TAATAAAAAAA
1 TAATAAAAAAA
3891088 AAACTTGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 11 0.35
24 4 0.13
25 16 0.52
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (25 bp):
TAATAAAAAAACTCAAAATATAAAA
Found at i:3891887 original size:6 final size:6
Alignment explanation
Indices: 3891870--3891911 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
3891860 AAAAGGAAAG
3891870 AAAAAT AGAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
3891912 CAACAACAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:3891928 original size:3 final size:3
Alignment explanation
Indices: 3891880--3892027 Score: 80
Period size: 3 Copynumber: 51.7 Consensus size: 3
3891870 AAAAATAGAA
* * * * * * * * *
3891880 AAT AAA AAT AAA AAT AAA AAT AAA AAT AAA AAC AAC AAC AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
3891928 AAC AA- GAT AAT -AT AAT -AT AAT AAT -AT AAA AACT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * *
3891968 AAT AAT -AT AAT GAT AAT AAT AAT ATAT GAT AAT -AT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
3892012 AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AA
3892028 AAAATAAAAA
Statistics
Matches: 112, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
2 16 0.14
3 94 0.84
4 2 0.02
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:3891966 original size:14 final size:13
Alignment explanation
Indices: 3891934--3892033 Score: 53
Period size: 14 Copynumber: 7.1 Consensus size: 13
3891924 TAATAACAAG
*
3891934 ATAATAT-AATAT
1 ATAATATAAAAAT
3891946 AATAATATAAAAACT
1 -ATAATATAAAAA-T
*
3891961 ATAATATAATAAT
1 ATAATATAAAAAT
*
3891974 ATAATGATAATAAT
1 ATAAT-ATAAAAAT
3891988 AATATATGATAATATAAT
1 -ATA-AT-ATAA-A-AAT
3892006 ACTAATAATAATAAA-
1 A-TAAT-ATAA-AAAT
3892021 ATAATA-AAAAAT
1 ATAATATAAAAAT
3892033 A
1 A
3892034 AAAAATGACC
Statistics
Matches: 74, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
11 3 0.04
12 3 0.04
13 14 0.19
14 26 0.35
15 5 0.07
16 9 0.12
17 9 0.12
18 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATATAAAAAT
Found at i:3891975 original size:30 final size:32
Alignment explanation
Indices: 3891933--3892021 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 32
3891923 ATAATAACAA
3891933 GATAATATAATATAATAAT-ATAAAAACTATA-
1 GATAATATAATATAATAATAATAAAAA-TATAT
* *
3891964 -AT-ATAATAATATAATGATAATAATAATATAT
1 GATAAT-ATAATATAATAATAATAAAAATATAT
3891995 GATAATATAATACTAATAATAATAAAA
1 GATAATATAATA-TAATAATAATAAAA
3892022 TAATAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
29 2 0.04
30 18 0.38
31 6 0.12
32 8 0.17
33 14 0.29
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (32 bp):
GATAATATAATATAATAATAATAAAAATATAT
Found at i:3892280 original size:55 final size:53
Alignment explanation
Indices: 3892209--3892668 Score: 200
Period size: 55 Copynumber: 8.4 Consensus size: 53
3892199 GACTAAACTG
* * * *
3892209 TAAGTCAAGAAAATGATTTGACTAAGTCAAGATCAAATGATCGAGATTGAACCA
1 TAAGTTAAGAAAATGATTTGACTGAGCCAAGAT-GAATGATCGAGATTGAACCA
* * * * * * *
3892263 TAAGTTTAAGAAAATGATCTGGACTGAGCCAATATTGAACGATCGGGACTGAATCG
1 TAAG-TTAAGAAAATGAT-TTGACTGAGCCAAGA-TGAATGATCGAGATTGAACCA
* * *
3892319 TGAGTTAAAAAAATGATTTGGACTGTGCCAAGAATGAATGATCGAGATTGAACCA
1 TAAGTTAAGAAAATGATTT-GACTGAGCCAAG-ATGAATGATCGAGATTGAACCA
* * * * * * *
3892374 CAAGTTAAGAAAATAATTTGGACTGAGCTAAAATCAAGCGA-CTAGGATTGAACCA
1 TAAGTTAAGAAAATGATTT-GACTGAGCCAAGATGAA-TGATCGA-GATTGAACCA
* * * * * * *
3892429 CAAGTT-TGAAAAATGATCTGGACTGAGCCATGATCGAATGATTGAGACT-AAGCTA
1 TAAGTTAAG-AAAATGAT-TTGACTGAGCCAAGAT-GAATGATCGAGATTGAA-CCA
* * * * *
3892484 CAAGTCTAA-AAAATGATCTGGACTGAGCCAAGATCG-A-GCAACTTAGATTAAACCA
1 TAAGT-TAAGAAAATGAT-TTGACTGAGCCAAGAT-GAATG-ATC-GAGATTGAACCA
* * * * *
3892539 TAAGTCTAA-AAAATGATTTAGACTGAACCAATATTGAATGA-CCAGGACTGAGCCA
1 TAAGT-TAAGAAAATGATTT-GACTGAGCCAAGA-TGAATGATCGA-GATTGAACCA
* * * * * * *
3892594 AAAGTCTAAAAAAATGATCTGGACTGAGCTAAGATTGAATGA-CCAGAACTGAATCA
1 TAAGT-TAAGAAAATGAT-TTGACTGAGCCAAGA-TGAATGATCGAG-ATTGAACCA
* *
3892650 CAAGTTAAAAAAATGATTT
1 TAAGTTAAGAAAATGATTT
3892669 AGATTAAGTC
Statistics
Matches: 314, Mismatches: 67, Indels: 50
0.73 0.16 0.12
Matches are distributed among these distances:
53 1 0.00
54 19 0.06
55 212 0.68
56 79 0.25
57 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (53 bp):
TAAGTTAAGAAAATGATTTGACTGAGCCAAGATGAATGATCGAGATTGAACCA
Found at i:3892441 original size:110 final size:110
Alignment explanation
Indices: 3892326--3892625 Score: 304
Period size: 110 Copynumber: 2.7 Consensus size: 110
3892316 TCGTGAGTTA
* * *
3892326 AAAAAATGATTTGGACTGTGCCAAGAATGAATGATCGAGATTGAACCACAAGT-TAAGAAAATAA
1 AAAAAATGATTTGGACTGAGCCAAGAATGAATGATCGAGACTGAACCACAAGTCTAA-AAAATGA
* * * *
3892390 TTTGGACTGAGCTAAAATCAAGCGAC-TAGGATTGAACCACAAGTTT
65 TCTGGACTGAGCTAAAATCAAGCAACTTA-GATTAAACCACAAGTCT
* * * * *
3892436 GAAAAATGATCTGGACTGAGCCATG-ATCGAATGATTGAGACT-AAGCTACAAGTCTAAAAAATG
1 AAAAAATGATTTGGACTGAGCCAAGAAT-GAATGATCGAGACTGAA-CCACAAGTCTAAAAAATG
* * * *
3892499 ATCTGGACTGAGCCAAGATCGAGCAACTTAGATTAAACCATAAGTCT
64 ATCTGGACTGAGCTAAAATCAAGCAACTTAGATTAAACCACAAGTCT
* * * * * * *
3892546 AAAAAATGATTTAGACTGAACCAATATTGAATGA-CCAGGACTGAGCCAAAAGTCTAAAAAAATG
1 AAAAAATGATTTGGACTGAGCCAAGAATGAATGATCGA-GACTGAACCACAAGTCT-AAAAAATG
3892610 ATCTGGACTGAGCTAA
64 ATCTGGACTGAGCTAA
3892626 GATTGAATGA
Statistics
Matches: 153, Mismatches: 29, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
109 5 0.03
110 118 0.77
111 30 0.20
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (110 bp):
AAAAAATGATTTGGACTGAGCCAAGAATGAATGATCGAGACTGAACCACAAGTCTAAAAAATGAT
CTGGACTGAGCTAAAATCAAGCAACTTAGATTAAACCACAAGTCT
Found at i:3892684 original size:55 final size:55
Alignment explanation
Indices: 3892534--3892684 Score: 153
Period size: 56 Copynumber: 2.7 Consensus size: 55
3892524 ACTTAGATTA
* * * * *
3892534 AACCATAAGTCT-AAAAAATGATTTAGACTGAACCAATATTGAATGACCAGGACTG
1 AACCAAAAGTCTAAAAAAATGATTTAGA-TTAAGCAAGATTGAATGACCAGAACTG
* * * * *
3892589 AGCCAAAAGTCTAAAAAAATGATCTGGACTGAGCTAAGATTGAATGACCAGAACTG
1 AACCAAAAGTCTAAAAAAATGATTTAGATTAAGC-AAGATTGAATGACCAGAACTG
* *
3892645 AATCACAAGT-TAAAAAAATGATTTAGATTAAGTCAAGATT
1 AACCAAAAGTCTAAAAAAATGATTTAGATTAAG-CAAGATT
3892685 AAGCACCAAG
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
55 36 0.47
56 40 0.53
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (55 bp):
AACCAAAAGTCTAAAAAAATGATTTAGATTAAGCAAGATTGAATGACCAGAACTG
Found at i:3897673 original size:27 final size:28
Alignment explanation
Indices: 3897615--3897673 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
3897605 AATATTTAAC
3897615 AAATAATAAATTACTTAGTAAAAATAAAT
1 AAATAATAAA-TACTTAGTAAAAATAAAT
* * *
3897644 AAATAATAAA-AGTTAGTAAAATTAATT
1 AAATAATAAATACTTAGTAAAAATAAAT
3897671 AAA
1 AAA
3897674 AAATTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 17 0.63
29 10 0.37
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (28 bp):
AAATAATAAATACTTAGTAAAAATAAAT
Found at i:3897695 original size:59 final size:57
Alignment explanation
Indices: 3897583--3897697 Score: 133
Period size: 59 Copynumber: 2.0 Consensus size: 57
3897573 ATTTTTTAAA
* * * * **
3897583 AAATAAAAATAAAATTTTATAAAATATTTAACAAATAATAAATTACTTAGTAAAAAT
1 AAATAAAAATAAAATGTTATAAAATAATTAAAAAATAATAAATAAAATAGTAAAAAT
*
3897640 AAATAAATAATAAAA-GTTAGTAAAATTAATTAAAAAATTATAAATAAAATAGTAAAAA
1 AAATAAA-AATAAAATGTTA-TAAAA-TAATTAAAAAATAATAAATAAAATAGTAAAAA
3897698 ATTTCAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 10 0.21
58 12 0.25
59 26 0.54
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (57 bp):
AAATAAAAATAAAATGTTATAAAATAATTAAAAAATAATAAATAAAATAGTAAAAAT
Found at i:3898554 original size:3 final size:3
Alignment explanation
Indices: 3898548--3898674 Score: 75
Period size: 3 Copynumber: 46.7 Consensus size: 3
3898538 ATTAAAAAAA
*
3898548 AAT AAT -AT AAT AAT AAT AA- GAT AAT -AT AAT -AT AAT AAT -AT ACA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
3898591 AAC CAT AAT -AT AAT AAT -AT AAT AAT -AT AAT GAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
3898635 -AT ACT -AT AAT -AT AAT ATT AAT AGT AAT AA- AAT GAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3898675 ATAAAAAAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 30
0.68 0.11 0.22
Matches are distributed among these distances:
2 25 0.27
3 68 0.72
4 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:3898557 original size:5 final size:5
Alignment explanation
Indices: 3898549--3898677 Score: 74
Period size: 5 Copynumber: 25.2 Consensus size: 5
3898539 TTAAAAAAAA
* * *
3898549 ATAAT AT-A- ATAAT AATAAG ATAAT ATAAT ATAAT A-ATAT ACAAACC
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATA-AT A-TAA-T
*
3898595 ATAAT ATAAT A-ATAT AATAAT ATAAT GAT-A- ATAAT ATAAT ATACT
1 ATAAT ATAAT ATA-AT -ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT
*
3898640 ATAAT ATAAT ATTAAT AGTAAT AAAAT GATAAT A-AAT A
1 ATAAT ATAAT A-TAAT A-TAAT ATAAT -ATAAT ATAAT A
3898678 AAAAAAATAA
Statistics
Matches: 99, Mismatches: 10, Indels: 31
0.71 0.07 0.22
Matches are distributed among these distances:
3 4 0.04
4 9 0.09
5 57 0.58
6 26 0.26
7 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:3898559 original size:8 final size:8
Alignment explanation
Indices: 3898548--3898678 Score: 80
Period size: 8 Copynumber: 16.6 Consensus size: 8
3898538 ATTAAAAAAA
3898548 AATAATAT
1 AATAATAT
3898556 AAT-A-AT
1 AATAATAT
*
3898562 AATAAGAT
1 AATAATAT
3898570 AATATAATAT
1 -A-ATAATAT
3898580 AATAATAT
1 AATAATAT
* *
3898588 -ACAA-AC
1 AATAATAT
*
3898594 CATAATAT
1 AATAATAT
3898602 AATAATAT
1 AATAATAT
3898610 AATAATAT
1 AATAATAT
*
3898618 AAT--GAT
1 AATAATAT
3898624 AATAATAT
1 AATAATAT
3898632 AATATACTAT
1 AATA-A-TAT
3898642 AAT-ATAAT
1 AATAAT-AT
*
3898650 ATTAATAGT
1 AATAATA-T
*
3898659 AATAAAAT
1 AATAATAT
*
3898667 GATAATA-
1 AATAATAT
3898674 AATAA
1 AATAA
3898679 AAAAAATAAC
Statistics
Matches: 96, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
6 11 0.11
7 13 0.14
8 49 0.51
9 11 0.11
10 12 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:3898601 original size:22 final size:22
Alignment explanation
Indices: 3898549--3898650 Score: 120
Period size: 22 Copynumber: 4.5 Consensus size: 22
3898539 TTAAAAAAAA
3898549 ATAATATAATAATAATAAGATAA-T
1 ATAATATAATAAT-AT-A-ATAACT
*
3898573 ATAATATAATAATATACA-AACC
1 ATAATATAATAATATA-ATAACT
3898595 ATAATATAATAATATAATAA-T
1 ATAATATAATAATATAATAACT
3898616 ATAATGATAATAATATAATATACT
1 ATAAT-ATAATAATATAATA-ACT
3898640 ATAATATAATA
1 ATAATATAATA
3898651 TTAATAGTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.11
22 34 0.49
23 9 0.13
24 19 0.27
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAATATAATAATATAATAACT
Found at i:3900030 original size:16 final size:15
Alignment explanation
Indices: 3900011--3900045 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3900001 AAAATATTCA
*
3900011 AAAATTATTTATTATT
1 AAAATT-TTTAATATT
3900027 AAAATTTTTAATATT
1 AAAATTTTTAATATT
3900042 AAAA
1 AAAA
3900046 ATAATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATTTTTAATATT
Found at i:3900036 original size:15 final size:16
Alignment explanation
Indices: 3900011--3900108 Score: 58
Period size: 16 Copynumber: 6.0 Consensus size: 16
3900001 AAAATATTCA
*
3900011 AAAATTATTTATTATT
1 AAAATTATTTAATATT
3900027 AAAATT-TTTAATATT
1 AAAATTATTTAATATT
* * *
3900042 AAAAATAATTATATTTT
1 AAAATTATTTA-ATATT
3900059 AATAATAATATTTAATA-T
1 AA-AAT--TATTTAATATT
* *
3900077 AAAATATATGTAAGA-T
1 AAAAT-TATTTAATATT
* *
3900093 AAAACTATTTATTATT
1 AAAATTATTTAATATT
3900109 CTTTATATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
15 19 0.30
16 23 0.37
17 9 0.14
18 5 0.08
19 2 0.03
20 5 0.08
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (16 bp):
AAAATTATTTAATATT
Found at i:3900130 original size:15 final size:15
Alignment explanation
Indices: 3900129--3900275 Score: 109
Period size: 13 Copynumber: 10.0 Consensus size: 15
3900119 TTTATTAATA
3900129 TATTAATATATTATT
1 TATTAATATATTATT
3900144 TATT-A-ATATTATT
1 TATTAATATATTATT
*
3900157 TATTAATATATTA-A
1 TATTAATATATTATT
3900171 TA-TAATAGTATTTATT
1 TATTAATA-TA-TTATT
*
3900187 AATATAAATATATTA-T
1 --TATTAATATATTATT
3900203 TA-TAATAT-TTATT
1 TATTAATATATTATT
*
3900216 TA-TAATA-A-TATG
1 TATTAATATATTATT
3900228 TATTACA-ATATTATT
1 TATTA-ATATATTATT
3900243 TATTATTATAATATTATT
1 TATTA--AT-ATATTATT
*
3900261 TATTAATATAATATT
1 TATTAATATATTATT
3900276 ATTTATAAGT
Statistics
Matches: 107, Mismatches: 8, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
12 8 0.07
13 33 0.31
14 10 0.09
15 28 0.26
16 4 0.04
17 3 0.03
18 17 0.16
19 4 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:3900134 original size:8 final size:8
Alignment explanation
Indices: 3900112--3900206 Score: 69
Period size: 8 Copynumber: 12.5 Consensus size: 8
3900102 TATTATTCTT
3900112 TATATT-A
1 TATATTAA
*
3900119 TTTATTAA
1 TATATTAA
3900127 TATATTAA
1 TATATTAA
3900135 TATATT-A
1 TATATTAA
*
3900142 TTTATT-A
1 TATATTAA
3900149 -ATATT-A
1 TATATTAA
*
3900155 TTTATTAA
1 TATATTAA
3900163 TATATTAA
1 TATATTAA
*
3900171 TATAATAGTA
1 TATATTA--A
*
3900181 TTTATTAA
1 TATATTAA
3900189 TATA--AA
1 TATATTAA
*
3900195 TATATTAT
1 TATATTAA
3900203 TATA
1 TATA
3900207 ATATTTATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
6 11 0.16
7 16 0.23
8 37 0.53
10 6 0.09
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (8 bp):
TATATTAA
Found at i:3900188 original size:18 final size:17
Alignment explanation
Indices: 3900129--3900281 Score: 96
Period size: 18 Copynumber: 9.2 Consensus size: 17
3900119 TTTATTAATA
3900129 TATTAATAT-AT-TATT
1 TATTAATATAATATATT
* *
3900144 TATTAATATTATTTATTAATA
1 TATTAATA-TA-ATA-T-ATT
3900165 TATTAATATAATAGTATT
1 TATTAATATAATA-TATT
3900183 TATTAATATAA-ATA--
1 TATTAATATAATATATT
*
3900197 TATTATTAT-A-ATATT
1 TATTAATATAATATATT
*
3900212 TATT--TATAATAATATG
1 TATTAATATAAT-ATATT
3900228 TATTACA-AT-AT-TATT
1 TATTA-ATATAATATATT
*
3900243 TATTATTATAATATTATT
1 TATTAATATAATA-TATT
3900261 TATTAATATAATATTATT
1 TATTAATATAATA-TATT
3900279 TAT
1 TAT
3900282 AAGTAAAATT
Statistics
Matches: 110, Mismatches: 10, Indels: 33
0.72 0.07 0.22
Matches are distributed among these distances:
13 7 0.06
14 9 0.08
15 22 0.20
16 13 0.12
17 3 0.03
18 40 0.36
19 3 0.03
20 3 0.03
21 10 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (17 bp):
TATTAATATAATATATT
Found at i:3900274 original size:36 final size:36
Alignment explanation
Indices: 3900098--3900281 Score: 109
Period size: 36 Copynumber: 5.2 Consensus size: 36
3900088 AAGATAAAAC
* *
3900098 TATTTATTATTCTTTATATTATTTATTAATAT-AT-T
1 TATTTATTATT-ATAATATTATTTATTAATATAATAT
* * * *
3900133 AATATATTATTTATTAATATTATTTATTAATATATTAA
1 TATTTATTA-TTA-TAATATTATTTATTAATATAATAT
* * * * *
3900171 TATAATAGTATTTATTAATATAAATATATT-AT-T-ATAA
1 TAT-TTATTA-TTA-TAATAT-TATTTATTAATATAATAT
* * *
3900208 TATTTA-T-TTATAATAATATGTA-T--TACAATAT
1 TATTTATTATTATAATATTATTTATTAATATAATAT
3900239 TATTTATTATTATAATATTATTTATTAATATAATAT
1 TATTTATTATTATAATATTATTTATTAATATAATAT
3900275 TATTTAT
1 TATTTAT
3900282 AAGTAAAATT
Statistics
Matches: 116, Mismatches: 20, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 13 0.11
32 6 0.05
33 16 0.14
34 1 0.01
35 8 0.07
36 36 0.31
37 7 0.06
38 3 0.03
39 18 0.16
40 6 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
TATTTATTATTATAATATTATTTATTAATATAATAT
Found at i:3901449 original size:350 final size:351
Alignment explanation
Indices: 3900808--3901505 Score: 1087
Period size: 350 Copynumber: 2.0 Consensus size: 351
3900798 GGTCTAAAAC
* * * *
3900808 TTTCTTGTATGGAAGCTAACCCATTTGGCTATCATAAAATATTATATAACAAATGTATATCCCTA
1 TTTCTTGTATGGAAGCTAACCCACTTGGCTATCAAAAAATACTATATAACAAATGTATATCCCCA
* * * * *
3900873 GATGTGATAAATTAAAATGACTAACTATTTATGTATTTACTATGTTATCAAAAACATCCAAGAAC
66 GATATAATAAATTAAAATGACTAACTATTTACGCATTTACAATGTTATCAAAAACATCCAAGAAC
* * *
3900938 TTATCACTCATGACAAACATTAACTTATGCTGATATATTTTTCCCAGCATATTGAAATTGAGTAC
131 TTATCACTCATGACAAACATTAACTTATGATGACATATTTTTCCCAACATATTGAAATTGAGTAC
* *
3901003 AAAGGGCAATCAATGATCTAAGTAGATAAGACTCTTATCAAGTTAATATCTTTACTAGTCTTATC
196 AAAGGGCAATCAATGATCTAAGCAGATAAGACTCTTATCAAGCTAATATCTTTACTAGTCTTATC
*
3901068 AAAACAATCAAGGTGCCATATCATAAATTTAATCTTGAACATTCTTTTAAA-AAAATATTATCTC
261 AAAACAATCAAAGTGCCATATCATAAATTTAATCTTGAACATTCTTTTAAAGAAAATATTATCTC
*
3901132 TTTGTGTGATCACACTTCAAAATTAG
326 TTTGTATGATCACACTTCAAAATTAG
* *
3901158 TTTCTTGTGTGGAAGCTAACCCACTTGGCTATCAAAAAATACTATATAGCAAATGTATATCCCCA
1 TTTCTTGTATGGAAGCTAACCCACTTGGCTATCAAAAAATACTATATAACAAATGTATATCCCCA
* * * **
3901223 GATATAATAAATTAAAGTGACTAACTATTTACGCATTTACAATGTTGTCCAAAACATGTAAGAAC
66 GATATAATAAATTAAAATGACTAACTATTTACGCATTTACAATGTTATCAAAAACATCCAAGAAC
* * *
3901288 TTATCACTCATGGCAAACATTGACTTATGATGACATTTTTTTCCCAACATATTGAAATTGAGTAC
131 TTATCACTCATGACAAACATTAACTTATGATGACATATTTTTCCCAACATATTGAAATTGAGTAC
* *
3901353 AAA-TGCTAATCAATGATCTAAGCAGATAAGACT-TTAATTAAGCTAATATCTTTACTAGTCTTA
196 AAAGGGC-AATCAATGATCTAAGCAGATAAGACTCTT-ATCAAGCTAATATCTTTACTAGTCTTA
*
3901416 TCAAAACAATCAAAGTGCCATATCATAAATTTAATCTTGGACATTCTTTTAAAGAAAATATTATC
259 TCAAAACAATCAAAGTGCCATATCATAAATTTAATCTTGAACATTCTTTTAAAGAAAATATTATC
*
3901481 TCTTTGTATGATCACACTTTAAAAT
324 TCTTTGTATGATCACACTTCAAAAT
3901506 AATGAAAAAT
Statistics
Matches: 315, Mismatches: 30, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
349 4 0.01
350 277 0.88
351 34 0.11
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (351 bp):
TTTCTTGTATGGAAGCTAACCCACTTGGCTATCAAAAAATACTATATAACAAATGTATATCCCCA
GATATAATAAATTAAAATGACTAACTATTTACGCATTTACAATGTTATCAAAAACATCCAAGAAC
TTATCACTCATGACAAACATTAACTTATGATGACATATTTTTCCCAACATATTGAAATTGAGTAC
AAAGGGCAATCAATGATCTAAGCAGATAAGACTCTTATCAAGCTAATATCTTTACTAGTCTTATC
AAAACAATCAAAGTGCCATATCATAAATTTAATCTTGAACATTCTTTTAAAGAAAATATTATCTC
TTTGTATGATCACACTTCAAAATTAG
Found at i:3902960 original size:152 final size:152
Alignment explanation
Indices: 3902684--3903279 Score: 1068
Period size: 152 Copynumber: 3.9 Consensus size: 152
3902674 TTTACCAAGT
* *
3902684 AATTAGTTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* *
3902749 CTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
3902814 TAAAGAAAAA-ACAAAATCATCC
131 TAAA-AAAAATACAAAATCATCC
*
3902836 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
3902901 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
3902966 TAAAAAAAATACAAAATCATCC
131 TAAAAAAAATACAAAATCATCC
3902988 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* *
3903053 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGTAGAGGCTCTGTCGTCGGATTTAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
*
3903118 TAAAAAAAATACAAAATCGTCC
131 TAAAAAAAATACAAAATCATCC
3903140 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
* * *
3903205 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGTAGAGGCTCTGTCGTCGGATTAAT
66 CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
3903270 TAAAGAAAAA
131 TAAA-AAAAA
3903280 AGAAAAAAAA
Statistics
Matches: 432, Mismatches: 10, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
151 5 0.01
152 422 0.98
153 5 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (152 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCC
CTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTTAT
TAAAAAAAATACAAAATCATCC
Found at i:3903763 original size:20 final size:20
Alignment explanation
Indices: 3903738--3903781 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
3903728 CGGAAATTCA
*
3903738 CCGGTTTCTGGGATTCTTTG
1 CCGGTTTCTGGGATTCTTCG
3903758 CCGGTTTCTGGGATTCTTCG
1 CCGGTTTCTGGGATTCTTCG
3903778 CCGG
1 CCGG
3903782 AAACTGGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.05, C:0.25, G:0.32, T:0.39
Consensus pattern (20 bp):
CCGGTTTCTGGGATTCTTCG
Found at i:3903768 original size:61 final size:63
Alignment explanation
Indices: 3903667--3903783 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 63
3903657 GAACTCCGGT
* *
3903667 GGAAGATTCACCGGATTCTGGAAATTTTCGCCGGAATCTGGG-TTTTTTGCCGGAAGTTGGCC
1 GGAAGATTCACCGGATTCTGGAAATTTTCGCCGGAATCTGGGATTCTTCGCCGGAAGTTGGCC
* * * **
3903729 GGAA-ATTCACCGGTTTCTGG-GATTCTTTGCCGGTTTCTGGGATTCTTCGCCGGAA
1 GGAAGATTCACCGGATTCTGGAAATT-TTCGCCGGAATCTGGGATTCTTCGCCGGAA
3903784 ACTGGGCAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 3 0.07
61 28 0.61
62 15 0.33
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (63 bp):
GGAAGATTCACCGGATTCTGGAAATTTTCGCCGGAATCTGGGATTCTTCGCCGGAAGTTGGCC
Found at i:3903788 original size:20 final size:20
Alignment explanation
Indices: 3903745--3903789 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3903735 TCACCGGTTT
* ***
3903745 CTGGGATTCTTTGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
3903765 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
3903785 CTGGG
1 CTGGG
3903790 CAGTTCGCCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:3904373 original size:3 final size:3
Alignment explanation
Indices: 3904365--3904393 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3904355 ATCTTACAAA
3904365 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3904394 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3904572 original size:20 final size:20
Alignment explanation
Indices: 3904550--3904614 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
3904540 TTACCCATTT
* *
3904550 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
3904570 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
3904590 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
3904610 GGGCC
1 GGGCC
3904615 TGGACCTGAT
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:3906245 original size:40 final size:40
Alignment explanation
Indices: 3906124--3906247 Score: 103
Period size: 38 Copynumber: 3.1 Consensus size: 40
3906114 ACACTTAAAC
* *
3906124 CAAATGTGCCTCACTAGATTAATGAGTAATTTATTGCATT
1 CAAATGTGTCTCACTAGATTAATAAGTAATTTATTGCATT
** * * * * *
3906164 CAAAACTAAGTGTCA-TAAATTTTATATA-TAATCTAAT--ATT
1 C-AAA-TGTGTCTCACTAGA-TTAATA-AGTAATTTATTGCATT
3906204 CAAATGTGTCTCACTAGATTAATAAGTAATTTATTGCATT
1 CAAATGTGTCTCACTAGATTAATAAGTAATTTATTGCATT
3906244 CAAA
1 CAAA
3906248 ACTAAGTATC
Statistics
Matches: 60, Mismatches: 16, Indels: 16
0.65 0.17 0.17
Matches are distributed among these distances:
37 1 0.02
38 18 0.30
39 6 0.10
40 12 0.20
41 6 0.10
42 16 0.27
43 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (40 bp):
CAAATGTGTCTCACTAGATTAATAAGTAATTTATTGCATT
Found at i:3906260 original size:80 final size:80
Alignment explanation
Indices: 3906124--3906283 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
3906114 ACACTTAAAC
* *
3906124 CAAATGTGCCTCACTAGATTAATGAGTAATTTATTGCATTCAAAACTAAGTGTCATAAATTTTAT
1 CAAATGTGCCTCACTAGATTAATAAGTAATTTATTGCATTCAAAACTAAGTATCATAAATTTTAT
3906189 ATATAATCTAATATT
66 ATATAATCTAATATT
*
3906204 CAAATGTGTCTCACTAGATTAATAAGTAATTTATTGCATTCAAAACTAAGTATCATAAATTTTAT
1 CAAATGTGCCTCACTAGATTAATAAGTAATTTATTGCATTCAAAACTAAGTATCATAAATTTTAT
3906269 ATATAATCTAATATT
66 ATATAATCTAATATT
3906284 TCCATTCAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (80 bp):
CAAATGTGCCTCACTAGATTAATAAGTAATTTATTGCATTCAAAACTAAGTATCATAAATTTTAT
ATATAATCTAATATT
Found at i:3908164 original size:18 final size:18
Alignment explanation
Indices: 3908141--3908181 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
3908131 GGTGAAGATA
*
3908141 GAGAATGAAGAGATTGAT
1 GAGAATGAAGAGAGTGAT
*
3908159 GAGAATGAGGAGAGTGAT
1 GAGAATGAAGAGAGTGAT
3908177 GAGAA
1 GAGAA
3908182 GGCTGCCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (18 bp):
GAGAATGAAGAGAGTGAT
Found at i:3914486 original size:10 final size:10
Alignment explanation
Indices: 3914471--3914499 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
3914461 CTTACTAATG
3914471 GTTTCATCTA
1 GTTTCATCTA
3914481 GTTTCATCTA
1 GTTTCATCTA
3914491 GTTTCATCT
1 GTTTCATCT
3914500 TGAATAGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.10, T:0.52
Consensus pattern (10 bp):
GTTTCATCTA
Done.