Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 88 of 130
Found at i:17278571 original size:14 final size:14
Alignment explanation
Indices: 17278543--17278585 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
17278533 TATTAGCATA
17278543 ATATTA-GTATAAT
1 ATATTAGGTATAAT
*
17278556 ATATTAGGTGTAAT
1 ATATTAGGTATAAT
17278570 ATATTAGG-ATAAT
1 ATATTAGGTATAAT
17278583 ATA
1 ATA
17278586 ACTATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (14 bp):
ATATTAGGTATAAT
Found at i:17282520 original size:16 final size:17
Alignment explanation
Indices: 17282495--17282530 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
17282485 GAACCAAAGG
*
17282495 AAAAGAAAAATAGCAAA
1 AAAAGAAAAAGAGCAAA
17282512 AAAAG-AAAAGAGCAAA
1 AAAAGAAAAAGAGCAAA
17282528 AAA
1 AAA
17282531 CATAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGAGCAAA
Found at i:17284826 original size:11 final size:11
Alignment explanation
Indices: 17284810--17284838 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17284800 CCTTACTCAT
17284810 TTTTCCAAAAA
1 TTTTCCAAAAA
17284821 TTTTCCAAAAA
1 TTTTCCAAAAA
17284832 TTTTCCA
1 TTTTCCA
17284839 TCAGGAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (11 bp):
TTTTCCAAAAA
Found at i:17289170 original size:28 final size:28
Alignment explanation
Indices: 17289139--17289195 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
17289129 TCTACATTCA
*
17289139 AGAGACATATGAATTAATTAATGCCTAG
1 AGAGACATATGAACTAATTAATGCCTAG
*
17289167 AGAGACATATGCACTAATTAATGCCTAG
1 AGAGACATATGAACTAATTAATGCCTAG
17289195 A
1 A
17289196 TTGCACACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (28 bp):
AGAGACATATGAACTAATTAATGCCTAG
Found at i:17290488 original size:2 final size:2
Alignment explanation
Indices: 17290481--17290533 Score: 65
Period size: 2 Copynumber: 26.5 Consensus size: 2
17290471 TACATGCAAG
*
17290481 AT AT AT AT AT AT AT AT AT AT GA- AC AT A- AT CAT 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
17290523 AT AT AT AT AT A
1 AT AT AT AT AT A
17290534 CAAGCATCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
1 2 0.04
2 41 0.89
3 3 0.07
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:17295758 original size:13 final size:13
Alignment explanation
Indices: 17295740--17295796 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
17295730 TACAAATCAA
17295740 ATACAAAACA-ATT
1 ATAC-AAACATATT
17295753 ATACAAACATATT
1 ATACAAACATATT
17295766 ATACAAACATATT
1 ATACAAACATATT
*
17295779 ATACAAAAATATT
1 ATACAAACATATT
17295792 -TACAA
1 ATACAA
17295797 TTTAAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
12 10 0.24
13 32 0.76
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (13 bp):
ATACAAACATATT
Found at i:17296248 original size:18 final size:18
Alignment explanation
Indices: 17296210--17296248 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17296200 CGAATACACG
* *
17296210 TTTAACATATTTAATACA
1 TTTAACATATTTAACAAA
*
17296228 TTTAACATGTTTAACAAA
1 TTTAACATATTTAACAAA
17296246 TTT
1 TTT
17296249 TTATATTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTAACATATTTAACAAA
Found at i:17296929 original size:26 final size:27
Alignment explanation
Indices: 17296900--17296952 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
17296890 TTCAAATACG
* *
17296900 TTTTATAATTTTTATTA-TATTTATAT
1 TTTTATAATTTATATTATTATATATAT
17296926 TTTTATAATTTATATTATTATATATAT
1 TTTTATAATTTATATTATTATATATAT
17296953 CAAATACGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTATAATTTATATTATTATATATAT
Found at i:17296938 original size:15 final size:16
Alignment explanation
Indices: 17296901--17296950 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 16
17296891 TCAAATACGT
17296901 TTTATAATTTTTATTATA
1 TTTAT-ATTTTTA-TATA
17296919 TTTATATTTTTATA-A
1 TTTATATTTTTATATA
*
17296934 TTTATATTATTATATA
1 TTTATATTTTTATATA
17296950 T
1 T
17296951 ATCAAATACG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 14 0.47
16 4 0.13
17 7 0.23
18 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATATTTTTATATA
Found at i:17297112 original size:15 final size:15
Alignment explanation
Indices: 17297092--17297129 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17297082 GTCATTCCCT
17297092 TTCTCTCTCTGT-ATC
1 TTCTCTCT-TGTGATC
*
17297107 TTCTCTCTTGTGTTC
1 TTCTCTCTTGTGATC
17297122 TTCTCTCT
1 TTCTCTCT
17297130 ATCCGAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.03, C:0.32, G:0.08, T:0.58
Consensus pattern (15 bp):
TTCTCTCTTGTGATC
Found at i:17298483 original size:25 final size:25
Alignment explanation
Indices: 17298449--17298504 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
17298439 TTTAGCTTAA
* *
17298449 AAAATGACTTTTAAAATTTAATATT
1 AAAATAACTTTTAAAATCTAATATT
17298474 AAAATAACTTTTAAAATCTAATATT
1 AAAATAACTTTTAAAATCTAATATT
17298499 AAAATA
1 AAAATA
17298505 TAATTTGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (25 bp):
AAAATAACTTTTAAAATCTAATATT
Found at i:17298690 original size:13 final size:13
Alignment explanation
Indices: 17298672--17298696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17298662 GATTAGGAAA
17298672 ATTTGAAAATCTC
1 ATTTGAAAATCTC
17298685 ATTTGAAAATCT
1 ATTTGAAAATCT
17298697 TTCATTGCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
ATTTGAAAATCTC
Found at i:17299026 original size:23 final size:23
Alignment explanation
Indices: 17298970--17299030 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
17298960 TAATTGAAAG
* *
17298970 TTTTAAAGATGATACCCGAAGGT
1 TTTTAAAGATGATACCCAAAGAT
* **
17298993 TTTTAGA-ATGATATTCAAAGAT
1 TTTTAAAGATGATACCCAAAGAT
17299015 TTTTAAAGATGATACC
1 TTTTAAAGATGATACC
17299031 TAGAGACTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (23 bp):
TTTTAAAGATGATACCCAAAGAT
Found at i:17300513 original size:83 final size:83
Alignment explanation
Indices: 17300409--17300574 Score: 251
Period size: 83 Copynumber: 2.0 Consensus size: 83
17300399 AACAAAATCC
* * * * * * *
17300409 ACTTTTGCATTCTTTTAATTTCTTGATATGATATTTTAACAAATGTCAAGATTGACTGTAATTGA
1 ACTTTTACACTCTCTTAATTTCTTGATATAACATTTTAACAAATGTCAAGACTGACTGTAATAGA
17300474 CTCAAAATTTCTTAGAAA
66 CTCAAAATTTCTTAGAAA
* *
17300492 ACTTTTACACTCTCTTAATTTCTTGATATAACATTTTAACAAATGTCAAGACTGATTGTGATAGA
1 ACTTTTACACTCTCTTAATTTCTTGATATAACATTTTAACAAATGTCAAGACTGACTGTAATAGA
17300557 CTCAAAATTTCTTAGAAA
66 CTCAAAATTTCTTAGAAA
17300575 GAAATAAAGG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (83 bp):
ACTTTTACACTCTCTTAATTTCTTGATATAACATTTTAACAAATGTCAAGACTGACTGTAATAGA
CTCAAAATTTCTTAGAAA
Found at i:17301060 original size:4 final size:4
Alignment explanation
Indices: 17301051--17301117 Score: 73
Period size: 4 Copynumber: 15.8 Consensus size: 4
17301041 TTTTCATCTT
*
17301051 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTTA TTTA TTTTA TTTT TTTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTT-A
17301102 TTT- TTTCA TTTTA TTT
1 TTTA TTT-A -TTTA TTT
17301118 TCTCTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.05
4 37 0.67
5 12 0.22
6 3 0.05
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:17301118 original size:22 final size:22
Alignment explanation
Indices: 17301067--17301142 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
17301057 TATTTATTTA
* *
17301067 TTTATTTATTT-ATTTTATTTAT
1 TTTATTTTTTTCATTTT-TTCAT
17301089 TTTATTTTTTTCATTTTTTCAT
1 TTTATTTTTTTCATTTTTTCAT
*
17301111 TTTA-TTTTCTC-TTTTTTC-T
1 TTTATTTTTTTCATTTTTTCAT
*
17301130 TATATTCTTTTTC
1 TTTATT-TTTTTC
17301143 TTACATGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.09
20 8 0.17
21 11 0.24
22 18 0.39
23 5 0.11
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTTTTTCATTTTTTCAT
Found at i:17301140 original size:27 final size:27
Alignment explanation
Indices: 17301051--17301141 Score: 66
Period size: 27 Copynumber: 3.4 Consensus size: 27
17301041 TTTTCATCTT
* *
17301051 TTTATTTA-TTTA-TTTATTTATTT-A
1 TTTATTCATTTTATTTTATTTTTTTCA
*
17301075 TTTATTTTA-TTTATTTTATTTTTTTCA
1 TTTA-TTCATTTTATTTTATTTTTTTCA
* *
17301102 TTTTTTCATTTTATTTTCTCTTTTTTC-
1 TTTATTCATTTTATTTTAT-TTTTTTCA
*
17301129 TTATATTCTTTTT
1 TT-TATTCATTTT
17301142 CTTACATGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
24 4 0.07
25 8 0.15
26 13 0.24
27 15 0.27
28 15 0.27
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTATTCATTTTATTTTATTTTTTTCA
Found at i:17302107 original size:24 final size:25
Alignment explanation
Indices: 17302078--17302130 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
17302068 GTAAAAAGTC
*
17302078 AAAATT-TTGAAAT-CTTCCCATAAA
1 AAAATTGTT-AAATACTTCACATAAA
*
17302102 AAAATTGTTTAATACTTCACATAAA
1 AAAATTGTTAAATACTTCACATAAA
17302127 AAAA
1 AAAA
17302131 AAAAAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAATTGTTAAATACTTCACATAAA
Found at i:17305149 original size:26 final size:23
Alignment explanation
Indices: 17305104--17305180 Score: 63
Period size: 26 Copynumber: 3.4 Consensus size: 23
17305094 TTGTTATTTC
* *
17305104 TAATAAAAAATTAAATCATATAA
1 TAATAAAAAATTAAAACATAAAA
17305127 TAATAAAAAAATATAAAAACATAAAA
1 TAAT-AAAAAAT-T-AAAACATAAAA
*
17305153 T-AT-CAAAATTAAAA-ATAAAA
1 TAATAAAAAATTAAAACATAAAA
*
17305173 -AGTAAAAA
1 TAATAAAAA
17305181 GTAAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 7 0.16
21 7 0.16
22 1 0.02
23 9 0.20
24 7 0.16
25 3 0.07
26 10 0.23
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.23
Consensus pattern (23 bp):
TAATAAAAAATTAAAACATAAAA
Found at i:17305152 original size:15 final size:14
Alignment explanation
Indices: 17305106--17305188 Score: 53
Period size: 15 Copynumber: 5.6 Consensus size: 14
17305096 GTTATTTCTA
17305106 ATAAAAAATTAAATCAT
1 ATAAAAAA-TAAA--AT
*
17305123 ATAATAATAAAAAAAT
1 ATAA-AA-AATAAAAT
17305139 ATAAAAACATAAAAT
1 ATAAAAA-ATAAAAT
* *
17305154 ATCAAAATTAAAA-
1 ATAAAAAATAAAAT
*
17305167 ATAAAAAGTAAAA-
1 ATAAAAAATAAAAT
17305180 AGTAAAAAA
1 A-TAAAAAA
17305189 AAAGGTTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
13 12 0.22
14 12 0.22
15 14 0.25
16 6 0.11
17 4 0.07
18 5 0.09
19 2 0.04
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (14 bp):
ATAAAAAATAAAAT
Found at i:17306101 original size:23 final size:24
Alignment explanation
Indices: 17306066--17306115 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
17306056 ATAAAGTAAT
17306066 CATGCAATCATAT-TAAATCATAC
1 CATGCAATCATATATAAATCATAC
*
17306089 CATGCAAAT-ATATCATAAGTCATAC
1 CATGC-AATCATAT-ATAAATCATAC
17306114 CA
1 CA
17306116 AATATCATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 9 0.39
24 3 0.13
25 11 0.48
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (24 bp):
CATGCAATCATATATAAATCATAC
Found at i:17306254 original size:18 final size:16
Alignment explanation
Indices: 17306218--17306274 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
17306208 TCATTTAAAT
17306218 ATATAATATCATGCAA
1 ATATAATATCATGCAA
*
17306234 ATATATTATCATGCAAGA
1 ATATAATATCATGC-A-A
*
17306252 ATATAAAATACCATGCAA
1 ATAT--AATATCATGCAA
17306270 ATATA
1 ATATA
17306275 TTAATAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 14 0.41
17 1 0.03
18 10 0.29
19 1 0.03
20 8 0.24
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (16 bp):
ATATAATATCATGCAA
Found at i:17306285 original size:20 final size:19
Alignment explanation
Indices: 17306175--17306281 Score: 77
Period size: 18 Copynumber: 5.8 Consensus size: 19
17306165 AAAATGTCAA
*
17306175 GCAAATATATTAATTATCAT
1 GCAAATATA-TAATAATCAT
*
17306195 GC-AATA-ATAACAATCAT
1 GCAAATATATAATAATCAT
**
17306212 TTAAATATATAAT-ATCAT
1 GCAAATATATAATAATCAT
17306230 GCAAATATAT--T-ATCAT
1 GCAAATATATAATAATCAT
17306246 GCAAGA-ATATAA-AATACCAT
1 GCAA-ATATATAATAAT--CAT
17306266 GCAAATATATTAATAA
1 GCAAATATA-TAATAA
17306282 CCATTCATGC
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
16 14 0.20
17 9 0.13
18 20 0.29
19 9 0.13
20 12 0.17
21 3 0.04
22 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (19 bp):
GCAAATATATAATAATCAT
Found at i:17306592 original size:20 final size:20
Alignment explanation
Indices: 17306567--17306630 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 20
17306557 TAAATCATGC
17306567 AAATAAACATGCAATTAAAT
1 AAATAAACATGCAATTAAAT
* * *
17306587 AAATAATCACGCAAATAAAAAT
1 AAATAAACATGC-AAT-TAAAT
* *
17306609 ATATAAACCATGCAAATAAAT
1 AAATAAA-CATGCAATTAAAT
17306630 A
1 A
17306631 TTCAATTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
20 10 0.30
21 8 0.24
22 11 0.33
23 4 0.12
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (20 bp):
AAATAAACATGCAATTAAAT
Found at i:17306614 original size:22 final size:23
Alignment explanation
Indices: 17306583--17306628 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
17306573 ACATGCAATT
*
17306583 AAATAAAT-AATCACGCAAATAA
1 AAATAAATAAACCACGCAAATAA
* *
17306605 AAATATATAAACCATGCAAATAA
1 AAATAAATAAACCACGCAAATAA
17306628 A
1 A
17306629 TATTCAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.63, C:0.13, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATAAATAAACCACGCAAATAA
Found at i:17306624 original size:55 final size:55
Alignment explanation
Indices: 17306557--17306733 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
17306547 ACTAACAATG
* * ** *
17306557 TAAATCATGCAAATAAACATGCAATTAAATAAATAATCACGCAAATAAAAATATA
1 TAAACCATGCAAATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
* * **
17306612 TAAACCATGCAAATAAATATTCAATTAAATATATAATCATACAAATGGTAATATA
1 TAAACCATGCAAATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
*
17306667 TAAACCATGCAAATAAACATGCAATTAAATATATAATCATACAAATAATAATACA
1 TAAACCATGCAAATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
*
17306722 TAAATCATGCAA
1 TAAACCATGCAA
17306734 TCATGTGAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 107 1.00
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (55 bp):
TAAACCATGCAAATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
Found at i:17306839 original size:32 final size:32
Alignment explanation
Indices: 17306791--17306853 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
17306781 GTAATCATGA
*
17306791 AAATAACAATACATAAATCATGCAATATATGT
1 AAATAACAATACATAAATCATGCAAAATATGT
* * *
17306823 AAATAATAATATATAAATTATGCAAAATATG
1 AAATAACAATACATAAATCATGCAAAATATG
17306854 CAATTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (32 bp):
AAATAACAATACATAAATCATGCAAAATATGT
Found at i:17306848 original size:83 final size:83
Alignment explanation
Indices: 17306660--17306880 Score: 302
Period size: 83 Copynumber: 2.6 Consensus size: 83
17306650 ATACAAATGG
* *
17306660 TAATATATAAACCATGCAAATAAACATGCAATTAAATATATAATCATACAAATAATAATACATAA
1 TAATATATAAACCATGC--A-AAATATGCAATTAAATATATAATCATACAAATAACAATACATAA
*
17306725 ATCATGCAATCATGTGAATAA
63 ATCATGCAATCATGTAAATAA
* *
17306746 TAATATATAAACCATGCAAAATATGCAA-TACATATGTAATCATGA-AAATAACAATACATAAAT
1 TAATATATAAACCATGCAAAATATGCAATTAAATATATAATCAT-ACAAATAACAATACATAAAT
*
17306809 CATGCAATATATGTAAATAA
65 CATGCAAT-CATGTAAATAA
** *
17306829 TAATATATAAATTATGCAAAATATGCAATTAAATATATAATCACACAAATAA
1 TAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATACAAATAA
17306881 ACATGCAAAT
Statistics
Matches: 120, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
82 38 0.32
83 46 0.38
84 19 0.16
86 17 0.14
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.29
Consensus pattern (83 bp):
TAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATACAAATAACAATACATAAATC
ATGCAATCATGTAAATAA
Found at i:17306867 original size:32 final size:32
Alignment explanation
Indices: 17306791--17306868 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
17306781 GTAATCATGA
* * * *
17306791 AAATAACAATACATAAATCATGCAATATATGT
1 AAATAATAATATATAAATCATGCAAAATATGC
*
17306823 AAATAATAATATATAAATTATGCAAAATATGC
1 AAATAATAATATATAAATCATGCAAAATATGC
*
17306855 -AATTA-AATATATAA
1 AAATAATAATATATAA
17306869 TCACACAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 9 0.22
31 4 0.10
32 27 0.68
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (32 bp):
AAATAATAATATATAAATCATGCAAAATATGC
Found at i:17306942 original size:24 final size:24
Alignment explanation
Indices: 17306876--17306995 Score: 95
Period size: 24 Copynumber: 5.0 Consensus size: 24
17306866 TAATCACACA
* * *
17306876 AATAAACATGCAAATAAATATATA
1 AATAATCATACAAATAAATATATT
* **
17306900 AAAAATCA-AGCAGTTAAATATATT
1 AATAATCATA-CAAATAAATATATT
*
17306924 AATAATCATAC-AATCAAAT-TA-A
1 AATAATCATACAAAT-AAATATATT
*
17306946 ATATAATCATACAAATAAAAATATT
1 A-ATAATCATACAAATAAATATATT
* *
17306971 AAAAATCATGCAAATAAATATATT
1 AATAATCATACAAATAAATATATT
17306995 A
1 A
17306996 GACAAATAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
22 1 0.01
23 16 0.22
24 55 0.74
25 2 0.03
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (24 bp):
AATAATCATACAAATAAATATATT
Found at i:17307605 original size:22 final size:23
Alignment explanation
Indices: 17307580--17307624 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17307570 TCCATGCAAA
*
17307580 ATTTT-ACATTTTTTTCTTTTTT
1 ATTTTAACATTTTTTTATTTTTT
*
17307602 ATTTTAACCTTTTTTTATTTTTT
1 ATTTTAACATTTTTTTATTTTTT
17307625 TACCAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (23 bp):
ATTTTAACATTTTTTTATTTTTT
Found at i:17308027 original size:44 final size:43
Alignment explanation
Indices: 17307948--17308188 Score: 240
Period size: 43 Copynumber: 5.6 Consensus size: 43
17307938 TTAGTATAGG
*
17307948 TTTGAAACTTTTGAAAAAAATAAAATGC-CCACCCACAATTGAGGC
1 TTTGAAACTTTTG--AAAAATAAAATGCTCC-CCCACAACTGAGGC
* *
17307993 CTTGAAACTTTTTGAAAAATAAAATGCTCCCCCACAACCT-AGGT
1 TTTGAAAC-TTTTGAAAAATAAAATGCTCCCCCACAA-CTGAGGC
* *
17308037 TTTGAAACTTTTGAAAGATAAAATACT-CCCCACAA-TCGAGGC
1 TTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACT-GAGGC
* * * * *
17308079 TTTAAAATTTTTGGAAAATAAAATGCTCCCTCACAACTAAGGC
1 TTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAGGC
* ** * **
17308122 TTTGAAACTTTGGATTAATAAAATGCTCTCATACAACTGAGGC
1 TTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAGGC
*
17308165 TTTGAAACTTTTGAGAAA-AAAATG
1 TTTGAAACTTTTGAAAAATAAAATG
17308189 GTACCAAAGT
Statistics
Matches: 162, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
42 39 0.24
43 76 0.47
44 31 0.19
45 10 0.06
46 5 0.03
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (43 bp):
TTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAGGC
Found at i:17308104 original size:85 final size:86
Alignment explanation
Indices: 17307944--17308132 Score: 240
Period size: 85 Copynumber: 2.2 Consensus size: 86
17307934 CTCATTAGTA
* * *
17307944 TAGGTTTGAAACTTTTGAAAAAAATAAAATGCCCACCCACAATTGAGGCCTTGAAACTTTTTGAA
1 TAGGTTTGAAACTTTTG-AAAAAATAAAATACCCACCCACAATCGAGGCCTTGAAAATTTTTGAA
17308009 AAATAAAATGCTCCCCCACAACC
65 AAATAAAATGCTCCCCCACAA-C
* * * *
17308032 TAGGTTTTGAAACTTTTG-AAAGATAAAATACTC-CCCACAATCGAGG-CTTTAAAATTTTTGGA
1 TAGG-TTTGAAACTTTTGAAAAAATAAAATACCCACCCACAATCGAGGCCTTGAAAATTTTTGAA
*
17308094 AAATAAAATGCTCCCTCACAAC
65 AAATAAAATGCTCCCCCACAAC
17308116 TAAGGCTTTGAAACTTT
1 T-AGG-TTTGAAACTTT
17308133 GGATTAATAA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
84 2 0.02
85 47 0.52
86 12 0.13
87 12 0.13
88 4 0.04
89 13 0.14
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (86 bp):
TAGGTTTGAAACTTTTGAAAAAATAAAATACCCACCCACAATCGAGGCCTTGAAAATTTTTGAAA
AATAAAATGCTCCCCCACAAC
Found at i:17308187 original size:85 final size:84
Alignment explanation
Indices: 17307981--17308188 Score: 217
Period size: 85 Copynumber: 2.4 Consensus size: 84
17307971 AATGCCCACC
* * *
17307981 CACAATTGAGGCCTTGAAACTTTTTGAAAAATAAAATGCTCCCCCACAACCTAGGTTTTGAAACT
1 CACAA-TGAGGCTTTGAAAC-TTTTGAGAAATAAAATGCTCCCCCACAACCTAGGCTTTGAAACT
* *
17308046 TTTGAAAGATAAAATACTCCC
64 TTGGAAAGATAAAATACTCCA
* * *
17308067 CACAATCGAGGCTTTAAAATTTTTG-GAAAATAAAATGCTCCCTCACAA-CTAAGGCTTTGAAAC
1 CACAAT-GAGGCTTTGAAACTTTTGAG-AAATAAAATGCTCCCCCACAACCT-AGGCTTTGAAAC
* *
17308130 TTTGGATTA-ATAAAATGCTCTCA
63 TTTGGA-AAGATAAAATACTC-CA
*
17308153 TACAACTGAGGCTTTGAAACTTTTGAGAAA-AAAATG
1 CACAA-TGAGGCTTTGAAACTTTTGAGAAATAAAATG
17308189 GTACCAAAGT
Statistics
Matches: 102, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
84 2 0.02
85 58 0.57
86 40 0.39
87 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (84 bp):
CACAATGAGGCTTTGAAACTTTTGAGAAATAAAATGCTCCCCCACAACCTAGGCTTTGAAACTTT
GGAAAGATAAAATACTCCA
Found at i:17308355 original size:44 final size:44
Alignment explanation
Indices: 17308281--17308365 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
17308271 ATCATACTTG
* * * *
17308281 AAGGTCTTACAAATCATGTTCAGAGGTCTTACAGAATATGCCCA
1 AAGGTCTTAAAAATCATGCTCAGAGCTCTTAAAGAATATGCCCA
*
17308325 AAGGTCTTAAAAATCATGCTC-GAAGCTCTTAAAGATTATGC
1 AAGGTCTTAAAAATCATGCTCAG-AGCTCTTAAAGAATATGC
17308366 TTGGAGGTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (44 bp):
AAGGTCTTAAAAATCATGCTCAGAGCTCTTAAAGAATATGCCCA
Found at i:17308373 original size:66 final size:66
Alignment explanation
Indices: 17308303--17308431 Score: 168
Period size: 66 Copynumber: 2.0 Consensus size: 66
17308293 ATCATGTTCA
* *
17308303 GAGGTCTTACAGAATATGCCCAAAGGTCTTAAAAATCATGCTCGAAGCTCTTAAAGATTATGCTT
1 GAGGTCTTACAGAATATGCCCAAAGATCTTAAAAATCATGCCCGAAGCTCTTAAAGATTATGCTT
17308368 G
66 G
** ** * * * *
17308369 GAGGTCTTGGAGTTTATGCTCAAAGATCTTACAAATCATGCCCGAAGGTCTTGAAGATTATGC
1 GAGGTCTTACAGAATATGCCCAAAGATCTTAAAAATCATGCCCGAAGCTCTTAAAGATTATGC
17308432 CCAAAAGTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (66 bp):
GAGGTCTTACAGAATATGCCCAAAGATCTTAAAAATCATGCCCGAAGCTCTTAAAGATTATGCTT
G
Found at i:17308376 original size:22 final size:22
Alignment explanation
Indices: 17308269--17308420 Score: 83
Period size: 22 Copynumber: 6.9 Consensus size: 22
17308259 TAAGTCTCAC
* * *
17308269 AAATCATACTTGAAGGTCTTAC
1 AAATCATGCTCGAAGGTCTTAA
*
17308291 AAATCATGTTC-AGAGGTCTTACA
1 AAATCATGCTCGA-AGGTCTTA-A
* * *
17308314 GAAT-ATGCCCAAAGGTCTTAA
1 AAATCATGCTCGAAGGTCTTAA
*
17308335 AAATCATGCTCGAAGCTCTTAA
1 AAATCATGCTCGAAGGTCTTAA
* * * * **
17308357 AGATTATGCTTGGAGGTCTTGG
1 AAATCATGCTCGAAGGTCTTAA
** * * * *
17308379 AGTTTATGCTCAAAGATCTTAC
1 AAATCATGCTCGAAGGTCTTAA
*
17308401 AAATCATGCCCGAAGGTCTT
1 AAATCATGCTCGAAGGTCTT
17308421 GAAGATTATG
Statistics
Matches: 95, Mismatches: 31, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
21 5 0.05
22 86 0.91
23 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (22 bp):
AAATCATGCTCGAAGGTCTTAA
Found at i:17308431 original size:22 final size:21
Alignment explanation
Indices: 17308304--17308475 Score: 74
Period size: 22 Copynumber: 7.8 Consensus size: 21
17308294 TCATGTTCAG
* *
17308304 AGGTCTTACAGAATATGCCCAA
1 AGGTCTTA-AGATTATGCCCGA
* * *
17308326 AGGTCTTAAAAATCATGCTCGA
1 AGGTCTT-AAGATTATGCCCGA
* ** *
17308348 AGCTCTTAAAGATTATGCTTGG
1 AGGTCTT-AAGATTATGCCCGA
* * * *
17308370 AGGTCTTGGAGTTTATGCTCAA
1 AGGTCTT-AAGATTATGCCCGA
* * *
17308392 AGATCTTACAAATCATGCCCGA
1 AGGTCTTA-AGATTATGCCCGA
*
17308414 AGGTCTTGAAGATTATGCCCAA
1 AGGTCTT-AAGATTATGCCCGA
* * *
17308436 AAGTTTTAGAGATTATACCCGA
1 AGGTCTTA-AGATTATGCCCGA
* *
17308458 AGGTTTTACAAATTATGC
1 AGGTCTTA-AGATTATGC
17308476 TCGGAGGTTT
Statistics
Matches: 110, Mismatches: 36, Indels: 8
0.71 0.23 0.05
Matches are distributed among these distances:
21 1 0.01
22 107 0.97
23 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
AGGTCTTAAGATTATGCCCGA
Found at i:17308922 original size:18 final size:18
Alignment explanation
Indices: 17308869--17308922 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
17308859 TAGTGAACGT
*
17308869 AATGGATGCAGTGAATGC
1 AATGGATGCAATGAATGC
**
17308887 -A---ATGCAATGAATTT
1 AATGGATGCAATGAATGC
17308901 AATGGATGCAATGAATGC
1 AATGGATGCAATGAATGC
17308919 AATG
1 AATG
17308923 CAAAAGATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
14 10 0.37
15 1 0.04
17 1 0.04
18 15 0.56
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.26
Consensus pattern (18 bp):
AATGGATGCAATGAATGC
Found at i:17308933 original size:32 final size:32
Alignment explanation
Indices: 17308868--17308934 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
17308858 GTAGTGAACG
* *
17308868 TAATGGATGCAGTGAATGCAATGCAATGAATT
1 TAATGGATGCAATGAATGCAATGCAAAGAATT
17308900 TAATGGATGCAATGAATGCAATGCAAA-AGATT
1 TAATGGATGCAATGAATGCAATGCAAAGA-ATT
17308932 TAA
1 TAA
17308935 GATTTGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (32 bp):
TAATGGATGCAATGAATGCAATGCAAAGAATT
Found at i:17309041 original size:18 final size:18
Alignment explanation
Indices: 17309007--17309045 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17308997 AAGTTCAAAA
*
17309007 ATTCGTAAAAGTCCCAAG
1 ATTCGTAAAAGGCCCAAG
17309025 ATTCGT-AAAGGCACCAAG
1 ATTCGTAAAAGGC-CCAAG
17309043 ATT
1 ATT
17309046 GGTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (18 bp):
ATTCGTAAAAGGCCCAAG
Found at i:17313555 original size:23 final size:24
Alignment explanation
Indices: 17313529--17313578 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
17313519 ATAAAGTAAT
17313529 CATGC-AATCATAT-TAAATCATAC
1 CATGCAAAT-ATATATAAATCATAC
17313552 CATGCAAATATATCATAAATCATAC
1 CATGCAAATATAT-ATAAATCATAC
17313577 CA
1 CA
17313579 AATATCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 9 0.38
24 3 0.12
25 12 0.50
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (24 bp):
CATGCAAATATATATAAATCATAC
Found at i:17313691 original size:18 final size:18
Alignment explanation
Indices: 17313639--17313743 Score: 92
Period size: 18 Copynumber: 5.7 Consensus size: 18
17313629 AAATGTCAAA
17313639 CAAATATATTAATTATCATG
1 CAAATATA-TAA-TATCATG
*
17313659 C-AATA-ATAACAATCATG
1 CAAATATATAA-TATCATG
*
17313676 TAAATATATAATATCATG
1 CAAATATATAATATCATG
17313694 CAAATATAT--TATCATG
1 CAAATATATAATATCATG
* *
17313710 CAGGAATATACAATACCATG
1 CA--AATATATAATATCATG
17313730 CAAATATATTAATA
1 CAAATATA-TAATA
17313744 ACTATTCATG
Statistics
Matches: 70, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.13
17 9 0.13
18 31 0.44
19 12 0.17
20 9 0.13
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (18 bp):
CAAATATATAATATCATG
Found at i:17314041 original size:33 final size:32
Alignment explanation
Indices: 17313998--17314068 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
17313988 TAAATAAATT
* *
17313998 AATAATCATGCAATTAACTATGAA-AATCATGCA
1 AATAAACATGCAATTAA--ATAAATAATCATGCA
17314031 AATAAACATGCAATTAAATAAATAATCATGCA
1 AATAAACATGCAATTAAATAAATAATCATGCA
17314063 AATAAA
1 AATAAA
17314069 AATATATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 4 0.11
32 15 0.43
33 16 0.46
ACGTcount: A:0.55, C:0.13, G:0.07, T:0.25
Consensus pattern (32 bp):
AATAAACATGCAATTAAATAAATAATCATGCA
Found at i:17314055 original size:20 final size:20
Alignment explanation
Indices: 17314030--17314093 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
17314020 AAAATCATGC
17314030 AAATAAACATGCAATTAAAT
1 AAATAAACATGCAATTAAAT
* *
17314050 AAATAATCATGCAAATAAAAAT
1 AAATAAACATGC-AAT-TAAAT
* *
17314072 ATATAAACCATGCAAATAAAT
1 AAATAAA-CATGCAATTAAAT
17314093 A
1 A
17314094 TTCAATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 11 0.31
21 8 0.23
22 11 0.31
23 5 0.14
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (20 bp):
AAATAAACATGCAATTAAAT
Found at i:17314077 original size:22 final size:23
Alignment explanation
Indices: 17314030--17314091 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
17314020 AAAATCATGC
*
17314030 AAATAAA-CATGC-AAT-TAAAT
1 AAATAAACCATGCAAATAAAAAT
*
17314050 AAAT-AATCATGCAAATAAAAAT
1 AAATAAACCATGCAAATAAAAAT
*
17314072 ATATAAACCATGCAAATAAA
1 AAATAAACCATGCAAATAAA
17314092 TATTCAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 3 0.09
22 7 0.20
23 14 0.40
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (23 bp):
AAATAAACCATGCAAATAAAAAT
Found at i:17314101 original size:55 final size:55
Alignment explanation
Indices: 17313992--17314194 Score: 241
Period size: 55 Copynumber: 3.7 Consensus size: 55
17313982 CATAAATAAA
* * * *
17313992 TAAATTAATAATCATGC-AAT-TAACTATGA-AAATCATGCAAATAAACATGCAAT
1 TAAATAAATAATCATGCAAATAAAAATAT-ATAAACCATGCAAATAAACATGCAAT
* *
17314045 TAAATAAATAATCATGCAAATAAAAATATATAAACCATGCAAATAAATATTCAAT
1 TAAATAAATAATCATGCAAATAAAAATATATAAACCATGCAAATAAACATGCAAT
* * ** *
17314100 TAAATATATAATCATACAAATAGTAATATGTAAACCATGCAAATAAACATGCAAT
1 TAAATAAATAATCATGCAAATAAAAATATATAAACCATGCAAATAAACATGCAAT
* * * *
17314155 TAAATATATAATCATGCAAATAATAATACATAAATCATGC
1 TAAATAAATAATCATGCAAATAAAAATATATAAACCATGC
17314195 TATCATGTGA
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 16 0.12
54 4 0.03
55 109 0.84
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (55 bp):
TAAATAAATAATCATGCAAATAAAAATATATAAACCATGCAAATAAACATGCAAT
Found at i:17314251 original size:83 final size:82
Alignment explanation
Indices: 17314117--17314335 Score: 287
Period size: 83 Copynumber: 2.6 Consensus size: 82
17314107 ATAATCATAC
* *
17314117 AAATAGTAATATGTAAACCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAAT
1 AAATAATAATATGTAAACCATGCAAAT----ATGCAATTAAATATATAATCATGCAAACAATAAT
17314182 ACATAAATCATGC-TATCATGT
62 ACATAAATCATGCATAT-ATGT
* * *
17314203 GAATAATAATATGTAAACCATGCAAACTATGCAATTACATATGTAATCATGCAAACAATAATACA
1 AAATAATAATATGTAAACCATGCAAA-TATGCAATTAAATATATAATCATGCAAACAATAATACA
17314268 TAAATCATGCAATATATGT
65 TAAATCATGC-ATATATGT
* **
17314287 AAATAATAATATATAAATTATGCAAAATATGCAATTAAATATATAATCA
1 AAATAATAATATGTAAACCATGC-AAATATGCAATTAAATATATAATCA
17314336 CACAATTAAA
Statistics
Matches: 118, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
83 44 0.37
84 43 0.36
85 6 0.05
86 24 0.20
87 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.30
Consensus pattern (82 bp):
AAATAATAATATGTAAACCATGCAAATATGCAATTAAATATATAATCATGCAAACAATAATACAT
AAATCATGCATATATGT
Found at i:17314331 original size:32 final size:32
Alignment explanation
Indices: 17314251--17314332 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
17314241 ATATGTAATC
* * *
17314251 ATGCAAACAATAATACATAAATCATGCAATAT
1 ATGCAAATAATAATATATAAATCATGCAAAAT
* *
17314283 ATGTAAATAATAATATATAAATTATGCAAAAT
1 ATGCAAATAATAATATATAAATCATGCAAAAT
*
17314315 ATGC-AATTA-AATATATAA
1 ATGCAAATAATAATATATAA
17314333 TCACACAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 9 0.21
31 4 0.09
32 30 0.70
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (32 bp):
ATGCAAATAATAATATATAAATCATGCAAAAT
Found at i:17314334 original size:84 final size:83
Alignment explanation
Indices: 17314117--17314335 Score: 287
Period size: 84 Copynumber: 2.6 Consensus size: 83
17314107 ATAATCATAC
* * * *
17314117 AAATAGTAATATGTAAACCATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAATAAT
1 AAATAATAATATATAAACCATGC--A-AAATATGCAATTAAATATATAATCATGCAAACAATAAT
17314182 ACATAAATCATGCTATCATGT
63 ACATAAATCATGCTATCATGT
* * * * *
17314203 GAATAATAATATGTAAACCATGCAAACTATGCAATTACATATGTAATCATGCAAACAATAATACA
1 AAATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATGCAAACAATAATACA
17314268 TAAATCATGCAATAT-ATGT
66 TAAATCATGC--TATCATGT
**
17314287 AAATAATAATATATAAATTATGCAAAATATGCAATTAAATATATAATCA
1 AAATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATCA
17314336 CACAATTAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
83 46 0.39
84 47 0.40
85 3 0.03
86 21 0.18
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.30
Consensus pattern (83 bp):
AAATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATGCAAACAATAATACA
TAAATCATGCTATCATGT
Found at i:17314371 original size:20 final size:20
Alignment explanation
Indices: 17314346--17314383 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17314336 CACAATTAAA
*
17314346 CATGCAATTAAATATATAAT
1 CATGCAAATAAATATATAAT
*
17314366 CATGCAAATATATATATA
1 CATGCAAATAAATATATA
17314384 TATATCAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (20 bp):
CATGCAAATAAATATATAAT
Found at i:17314427 original size:24 final size:24
Alignment explanation
Indices: 17314404--17314506 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
17314394 ATCAAGCAAT
17314404 TAAATATATTAATAATCATAC-AA
1 TAAATATATTAATAATCATACAAA
* *
17314427 TCAAAT-TA-AATATAATCATGCAAA
1 T-AAATATATTA-ATAATCATACAAA
*
17314451 TAAAAATATTAATAATCATAC---
1 TAAATATATTAATAATCATACAAA
*
17314472 -AAATATATTAATAAATCACACAAA
1 TAAATATATTAAT-AATCATACAAA
17314496 TAAATATATTA
1 TAAATATATTA
17314507 GACAAATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
20 11 0.17
21 7 0.11
22 1 0.02
23 15 0.24
24 18 0.29
25 11 0.17
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (24 bp):
TAAATATATTAATAATCATACAAA
Found at i:17314462 original size:47 final size:46
Alignment explanation
Indices: 17314392--17314506 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 46
17314382 TATATATCAG
*
17314392 TAATCAAGCAATTAAATATATTAATAATCATAC-AATCAAATTAAATA
1 TAATCAAGCAAATAAATATATTAATAATCATACAAAT-AAATT-AATA
* * *
17314439 TAATCATGCAAATAAAAATATTAATAATCATACAAATATATTAATA
1 TAATCAAGCAAATAAATATATTAATAATCATACAAATAAATTAATA
17314485 -AATCACA-CAAATAAATATATTA
1 TAATCA-AGCAAATAAATATATTA
17314507 GACAAATAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
45 19 0.32
46 4 0.07
47 34 0.57
48 3 0.05
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (46 bp):
TAATCAAGCAAATAAATATATTAATAATCATACAAATAAATTAATA
Found at i:17314494 original size:21 final size:20
Alignment explanation
Indices: 17314456--17314497 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
17314446 GCAAATAAAA
*
17314456 ATATTAATAATCATACAAAT
1 ATATTAATAATCACACAAAT
17314476 ATATTAATAAATCACACAAAT
1 ATATTAAT-AATCACACAAAT
17314497 A
1 A
17314498 AATATATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATTAATAATCACACAAAT
Found at i:17315627 original size:43 final size:42
Alignment explanation
Indices: 17315478--17315656 Score: 175
Period size: 43 Copynumber: 4.2 Consensus size: 42
17315468 GCCTTGAACT
* *
17315478 TTTTGAAAAATAAAATGCTCCCCCACAACCTTAGT-TTTGAAAC
1 TTTTG-AAAATAAAATGCTCCCTCACAA-CTGAGTCTTTGAAAC
* ** *
17315521 TTTTGAAAAATAAAATACTCCC-CACAACCAAG-CTTTAAAAC
1 TTTTG-AAAATAAAATGCTCCCTCACAACTGAGTCTTTGAAAC
*
17315562 TTTTGAAAACTAAAATGTTCCCTCACAACTGAGTCTTTGAAAC
1 TTTTGAAAA-TAAAATGCTCCCTCACAACTGAGTCTTTGAAAC
* * * * *
17315605 TTTGGATAAATAAACTGCTCCCTTACAACTGAGGCTTTCAAAC
1 TTTTGA-AAATAAAATGCTCCCTCACAACTGAGTCTTTGAAAC
*
17315648 TTTTAAAAA
1 TTTTGAAAA
17315657 ATGAAATGGT
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 4 0.04
41 25 0.22
42 16 0.14
43 66 0.58
44 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (42 bp):
TTTTGAAAATAAAATGCTCCCTCACAACTGAGTCTTTGAAAC
Found at i:17315763 original size:22 final size:22
Alignment explanation
Indices: 17315738--17315785 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
17315728 ATGCACATAA
*
17315738 GTCTCACAAATCATGCTTGAAG
1 GTCTCACAAATCATGCTCGAAG
* * *
17315760 GTCTTACCAATCATGCTCGGAG
1 GTCTCACAAATCATGCTCGAAG
17315782 GTCT
1 GTCT
17315786 GAGAGATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (22 bp):
GTCTCACAAATCATGCTCGAAG
Found at i:17315804 original size:22 final size:22
Alignment explanation
Indices: 17315779--17316012 Score: 143
Period size: 22 Copynumber: 10.6 Consensus size: 22
17315769 ATCATGCTCG
*
17315779 GAGGTCTGAGAGATTATGCCTA
1 GAGGTCTTAGAGATTATGCCTA
* * *
17315801 GAGGTCTTAGAAATCATGCTTA
1 GAGGTCTTAGAGATTATGCCTA
* * *
17315823 AAGCTCTT-GAAGATTATGGCTA
1 GAGGTCTTAG-AGATTATGCCTA
* * *
17315845 GAGGTCTTGGAGTTTATGCCCA
1 GAGGTCTTAGAGATTATGCCTA
* * * * *
17315867 GAGATCTTATAAATCATGTCCGA
1 GAGGTCTTAGAGATTATG-CCTA
*
17315890 -AGGTCTTAAAGATTATGCCT-
1 GAGGTCTTAGAGATTATGCCTA
* **
17315910 GAAAGTCTTAGAGATTATGCCCG
1 G-AGGTCTTAGAGATTATGCCTA
* *
17315933 GAGGTCTTAAAGATTACG-CTCA
1 GAGGTCTTAGAGATTATGCCT-A
* * * *
17315955 TAGGTCTTAGAGATTACGCTTG
1 GAGGTCTTAGAGATTATGCCTA
*
17315977 GAGGTCTTGGAGATTATGCCTA
1 GAGGTCTTAGAGATTATGCCTA
* * *
17315999 AAAGTCTTATAGAT
1 GAGGTCTTAGAGAT
17316013 CATTATTATC
Statistics
Matches: 156, Mismatches: 48, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
21 4 0.03
22 146 0.94
23 6 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (22 bp):
GAGGTCTTAGAGATTATGCCTA
Found at i:17315806 original size:44 final size:44
Alignment explanation
Indices: 17315758--17315852 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
17315748 TCATGCTTGA
* ** *
17315758 AGGTCTTACCAATCATGCTCGGAGGTC-TGAGAGATTATGCCTAG
1 AGGTCTTACAAATCATGCTCAAAGCTCTTGA-AGATTATGCCTAG
* * *
17315802 AGGTCTTAGAAATCATGCTTAAAGCTCTTGAAGATTATGGCTAG
1 AGGTCTTACAAATCATGCTCAAAGCTCTTGAAGATTATGCCTAG
17315846 AGGTCTT
1 AGGTCTT
17315853 GGAGTTTATG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 40 0.93
45 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
AGGTCTTACAAATCATGCTCAAAGCTCTTGAAGATTATGCCTAG
Found at i:17315849 original size:66 final size:65
Alignment explanation
Indices: 17315779--17315941 Score: 168
Period size: 66 Copynumber: 2.5 Consensus size: 65
17315769 ATCATGCTCG
* * * *
17315779 GAGGTCTGAGAGATTATGCCTAGAGGTCTTAGAAATCATG-CTTAAAGCTCTTGAAGATTATGGC
1 GAGGTCTGAGAGATTATGCCCAGAGGTCTTAGAAATCATGTC-CAAAGCTCTTAAAGATTATGCC
17315843 T
65 T
* * * * *
17315844 AGAGGTCTTG-GAGTTTATGCCCAGAGATCTTATAAATCATGTCCGAAGGTCTTAAAGATTATGC
1 -GAGGTC-TGAGAGATTATGCCCAGAGGTCTTAGAAATCATGTCCAAAGCTCTTAAAGATTATGC
17315908 CT
64 CT
* * *
17315910 GAAAGTCTTAGAGATTATGCCCGGAGGTCTTA
1 G-AGGTCTGAGAGATTATGCCCAGAGGTCTTA
17315942 AAGATTACGC
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
65 2 0.03
66 74 0.94
67 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (65 bp):
GAGGTCTGAGAGATTATGCCCAGAGGTCTTAGAAATCATGTCCAAAGCTCTTAAAGATTATGCCT
Found at i:17316291 original size:18 final size:19
Alignment explanation
Indices: 17316268--17316303 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17316258 TCTAATATAT
17316268 AGTGAACGCAAT-TAATGC
1 AGTGAACGCAATGTAATGC
*
17316286 AGTGAATGCAATGTAATG
1 AGTGAACGCAATGTAATG
17316304 AATTTAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
AGTGAACGCAATGTAATGC
Found at i:17316402 original size:18 final size:18
Alignment explanation
Indices: 17316351--17316408 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
17316341 AAGATTTGTA
*
17316351 AAAGATT-CAAGATTCAC
1 AAAGATTCCAAGATTCGC
* * *
17316368 AAAGTTTCTAAGCTTCGC
1 AAAGATTCCAAGATTCGC
17316386 AAAGATTCCAAGATTCGCC
1 AAAGATTCCAAGATTCG-C
17316405 AAAG
1 AAAG
17316409 TTCAAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 6 0.19
18 21 0.66
19 5 0.16
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (18 bp):
AAAGATTCCAAGATTCGC
Found at i:17316426 original size:18 final size:18
Alignment explanation
Indices: 17316405--17316480 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 18
17316395 AAGATTCGCC
17316405 AAAGTTCAAAAATTCGTA
1 AAAGTTCAAAAATTCGTA
* * * *
17316423 AAAGTCCCAAGATTCATA
1 AAAGTTCAAAAATTCGTA
* ** *
17316441 AAGGCACCAAAATTCGTA
1 AAAGTTCAAAAATTCGTA
17316459 AAAGTCTCAAATAATTC-TA
1 AAAGT-TCAAA-AATTCGTA
17316478 AAA
1 AAA
17316481 ATCCATAAGT
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
18 30 0.70
19 8 0.19
20 5 0.12
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAGTTCAAAAATTCGTA
Found at i:17316584 original size:36 final size:36
Alignment explanation
Indices: 17316544--17316624 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
17316534 TTCAATTTTG
* *
17316544 AAAATCTTGGAAG-CTAATATTCAAGATTCACATTCA
1 AAAATCTT-AAAGACTAATATTCAAGATTCACATTAA
* *
17316580 AAAATCTTAAAGATTCATATTCAAGATTCACATTAA
1 AAAATCTTAAAGACTAATATTCAAGATTCACATTAA
17316616 AAAATCTTA
1 AAAATCTTA
17316625 GAGATTCGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 3 0.08
36 37 0.93
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (36 bp):
AAAATCTTAAAGACTAATATTCAAGATTCACATTAA
Found at i:17316630 original size:36 final size:36
Alignment explanation
Indices: 17316560--17316648 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 36
17316550 TTGGAAGCTA
*
17316560 ATATTCAAGATTCACATTCAAAAATCTTAAAGATTC
1 ATATTCAAGATTCACATTAAAAAATCTTAAAGATTC
*
17316596 ATATTCAAGATTCACATTAAAAAATCTTAGAGATTC
1 ATATTCAAGATTCACATTAAAAAATCTTAAAGATTC
** *
17316632 GCATCCAAGA-TCACATT
1 ATATTCAAGATTCACATT
17316649 TGAAAAGTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 7 0.15
36 41 0.85
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (36 bp):
ATATTCAAGATTCACATTAAAAAATCTTAAAGATTC
Found at i:17318201 original size:7 final size:7
Alignment explanation
Indices: 17318189--17318253 Score: 82
Period size: 7 Copynumber: 9.7 Consensus size: 7
17318179 CATATTTCTC
17318189 TTTTTCA
1 TTTTTCA
17318196 TTTTTC-
1 TTTTTCA
17318202 -TTTTC-
1 TTTTTCA
**
17318207 TTTTTTT
1 TTTTTCA
17318214 TTTTTCA
1 TTTTTCA
*
17318221 TTTTTCC
1 TTTTTCA
17318228 TTTTTCA
1 TTTTTCA
17318235 TTTTTCA
1 TTTTTCA
17318242 TTTTTCA
1 TTTTTCA
17318249 TTTTT
1 TTTTT
17318254 TTTCTTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
5 5 0.10
6 4 0.08
7 42 0.82
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:17318224 original size:14 final size:14
Alignment explanation
Indices: 17318196--17318261 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
17318186 CTCTTTTTCA
*
17318196 TTTTTCTTTTC-TT
1 TTTTTTTTTTCATT
17318209 TTTTTTTTTTCATT
1 TTTTTTTTTTCATT
**
17318223 TTTCCTTTTTCATT
1 TTTTTTTTTTCATT
**
17318237 TTTCATTTTTCATT
1 TTTTTTTTTTCATT
17318251 TTTTTTCTTTT
1 TTTTTT-TTTT
17318262 TTTTTTGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
13 10 0.22
14 31 0.69
15 4 0.09
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTTCATT
Found at i:17318230 original size:21 final size:21
Alignment explanation
Indices: 17318202--17318261 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
17318192 TTCATTTTTC
17318202 TTTT-CTTTTTTTTTTTTCAT
1 TTTTCCTTTTTTTTTTTTCAT
**
17318222 TTTTCCTTTTTCATTTTTCAT
1 TTTTCCTTTTTTTTTTTTCAT
*
17318243 TTTTCATTTTTTTTCTTTT
1 TTTTCCTTTTTTTT-TTTT
17318262 TTTTTTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCCTTTTTTTTTTTTCAT
Found at i:17318261 original size:7 final size:7
Alignment explanation
Indices: 17318183--17318267 Score: 63
Period size: 7 Copynumber: 12.4 Consensus size: 7
17318173 ATTTCCCATA
17318183 TTTCTCTT
1 TTTCT-TT
*
17318191 TTTCATT
1 TTTCTTT
17318198 TTTC--T
1 TTTCTTT
17318203 TTTCTTT
1 TTTCTTT
17318210 TTT-TTT
1 TTTCTTT
*
17318216 TTTCATT
1 TTTCTTT
*
17318223 TTTCCTT
1 TTTCTTT
*
17318230 TTTCATT
1 TTTCTTT
*
17318237 TTTCATT
1 TTTCTTT
17318244 TTTCATTT
1 TTTC-TTT
17318252 TTT-TTCT
1 TTTCTT-T
17318259 TTT-TTT
1 TTTCTTT
17318265 TTT
1 TTT
17318268 GCAATTTTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
5 5 0.07
6 12 0.18
7 41 0.61
8 9 0.13
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:17319580 original size:123 final size:122
Alignment explanation
Indices: 17319441--17319826 Score: 418
Period size: 123 Copynumber: 3.1 Consensus size: 122
17319431 AAACAATTTG
* * *
17319441 CATACAAAAGTTTTTACATGGATAAAAATGTCTATCCAAATAAATATCTGCAATGCATTCATATT
1 CATACAAAA-TGTTTACATGGATAAAAATGTCTATCCAAATAAATATATGCAAAGCATTCATATT
*
17319506 CACAACTATTTACAAAATTGAAAAGCCAAAGATTGCCCCAAACAAAAAATATAATATA
65 CACAACTATTTACAAAATTGAAAAGCCAAAGATTACCCCAAACAAAAAATATAATATA
* * * * *
17319564 TATACACAAATGTTTACATGGATAAAAATGTGTATGCAAATACATGTATGCAAAGCATTCATATT
1 CATACA-AAATGTTTACATGGATAAAAATGTCTATCCAAATAAATATATGCAAAGCATTCATATT
* * * *
17319629 CACAACTATTTATAAAATTGAAAAGGCAAAGATTACCCTAAACAAATAATATAATATA
65 CACAACTATTTACAAAATTGAAAAGCCAAAGATTACCCCAAACAAAAAATATAATATA
* * * * *
17319687 CATATAAAATGTTTACATGGATAAAAATGTATATACAAGTATAAAATGCATAATAACAACAAGAA
1 CATACAAAATGTTTACATGGATAAAAATGTCTATCCAA--AT-AAAT--AT-AT-GC-A-AAGCA
* * * *
17319752 TTCATATTCACAACTATGTACAAAACTGAAAATG-CAAAGATT-CTCCCAAGCCAATAAA-ATAA
57 TTCATATTCACAACTATTTACAAAATTGAAAA-GCCAAAGATTAC-CCCAA-ACAAAAAATATAA
*
17319814 TGTA
119 TATA
17319818 CATACAAAA
1 CATACAAAA
17319827 ATGGATAAAA
Statistics
Matches: 220, Mismatches: 30, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
122 30 0.14
123 110 0.50
124 5 0.02
125 3 0.01
127 1 0.00
128 2 0.01
129 1 0.00
130 2 0.01
131 60 0.27
132 6 0.03
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (122 bp):
CATACAAAATGTTTACATGGATAAAAATGTCTATCCAAATAAATATATGCAAAGCATTCATATTC
ACAACTATTTACAAAATTGAAAAGCCAAAGATTACCCCAAACAAAAAATATAATATA
Found at i:17319882 original size:131 final size:135
Alignment explanation
Indices: 17319744--17320055 Score: 382
Period size: 139 Copynumber: 2.3 Consensus size: 135
17319734 GCATAATAAC
* * * * *
17319744 AACAAGAATTCATATTCACAACTATGTACAAAACTGAAAATGCAAAG-ATTCTCCCAAGCCAATA
1 AACAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAGGCAAAGAATTCTCCCAA-CAAATA
* * *
17319808 AAATAATGTACATA-C-AAA-A-ATGGATAAAATTTTATATGCAAATACATTTATGCAATACATA
65 AAATAATGTACATACCAAAATACATGGAAAAAAATTTATATGCAAATACATGTATGCAATACATA
17319869 GTGAAA
130 GTGAAA
* * * * * *
17319875 AATAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAGGTAAAGAATTTTTCGAACAAATGA
1 AACAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAGGCAAAGAATTCTCCCAACAAATAA
*
17319940 AATAATGTACATACCAAAATGTTTACATGGAAAAAAATTTATATGCAAATACATGTATGTAATAC
66 AATAATGTACATACCAAAA----TACATGGAAAAAAATTTATATGCAAATACATGTATGCAATAC
17320005 ATAGTGAAA
127 ATAGTGAAA
* * *
17320014 AACAAGAGTTTATATCCATAACTATGTACAAAATTGAAAAGG
1 AACAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAGG
17320056 AAAATGAAAT
Statistics
Matches: 153, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
131 59 0.39
132 8 0.05
133 3 0.02
138 1 0.01
139 82 0.54
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (135 bp):
AACAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAGGCAAAGAATTCTCCCAACAAATAA
AATAATGTACATACCAAAATACATGGAAAAAAATTTATATGCAAATACATGTATGCAATACATAG
TGAAA
Found at i:17321446 original size:20 final size:18
Alignment explanation
Indices: 17321421--17321551 Score: 72
Period size: 18 Copynumber: 6.9 Consensus size: 18
17321411 GGAAGACTGC
17321421 CATGCAAATATATTAATTAT
1 CATGCAAATATA-TAA-TAT
*
17321441 CATGC-AATA-ATAACAAT
1 CATGCAAATATATAA-TAT
*
17321458 CATGTAAATATATAATAT
1 CATGCAAATATATAATAT
* *
17321476 CATACGAATATAT--TAT
1 CATGCAAATATATAATAT
* *
17321492 CATGCAATAATATAAAATAC
1 CATGC-A-AATATATAATAT
*
17321512 CATACAAATATGTTAATAATCATT
1 CATGCAAATA---T-ATAAT-A-T
17321536 CATGCAAATATATAAT
1 CATGCAAATATATAAT
17321552 CATGAAATCA
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
16 7 0.08
17 9 0.11
18 27 0.32
19 9 0.11
20 16 0.19
21 2 0.02
22 4 0.05
23 1 0.01
24 9 0.11
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (18 bp):
CATGCAAATATATAATAT
Found at i:17321679 original size:24 final size:24
Alignment explanation
Indices: 17321649--17321710 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
17321639 AGTATCATTC
*
17321649 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATTATATCATACAAT
*
17321672 AACATATAATATCATATCATACAAT
1 AA-ATATAATATTATATCATACAAT
*
17321697 AAATATAAAATTAT
1 AAATATAATATTAT
17321711 GCAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.06
24 20 0.61
25 11 0.33
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATATAATATTATATCATACAAT
Found at i:17321914 original size:22 final size:23
Alignment explanation
Indices: 17321871--17321928 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
17321861 AACCGTGCAA
*
17321871 ATAAAT-ATGCAATTA--AATAT
1 ATAAATCATGCAAATAGTAATAT
*
17321891 AT-AATCATGCGAATAGTAATAT
1 ATAAATCATGCAAATAGTAATAT
17321913 ATAAATCATGCAAATA
1 ATAAATCATGCAAATA
17321929 AACATGAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 9 0.29
22 7 0.23
23 12 0.39
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.31
Consensus pattern (23 bp):
ATAAATCATGCAAATAGTAATAT
Found at i:17321973 original size:55 final size:55
Alignment explanation
Indices: 17321804--17321976 Score: 204
Period size: 55 Copynumber: 3.1 Consensus size: 55
17321794 ATTAACAATG
* * * *
17321804 TAAATCTTACAAATAAACATGCAATTAAATTCATAATCATGTAAATAAAAATATA
1 TAAATCATGCAAATAAACATGCAATTAAATACATAATCATGTAAATAATAATATA
* * * * ** *
17321859 TAAACCGTGCAAATAAATATGCAATTAAATATATAATCATGCGAATAGTAATATA
1 TAAATCATGCAAATAAACATGCAATTAAATACATAATCATGTAAATAATAATATA
* * *
17321914 TAAATCATGCAAATAAACATG-AAGTTAAATACATATTCATATAAATAATAATACA
1 TAAATCATGCAAATAAACATGCAA-TTAAATACATAATCATGTAAATAATAATATA
17321969 TAAATCAT
1 TAAATCAT
17321977 AAATCATGTG
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
54 2 0.02
55 95 0.98
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (55 bp):
TAAATCATGCAAATAAACATGCAATTAAATACATAATCATGTAAATAATAATATA
Found at i:17321994 original size:23 final size:24
Alignment explanation
Indices: 17321963--17322007 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
17321953 TATAAATAAT
*
17321963 AATACATAA-ATCATAAATCATGTG
1 AATACATAATAT-ATAAACCATGTG
17321987 AATA-ATAATATATAAACCATG
1 AATACATAATATATAAACCATG
17322008 CAAAATATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (24 bp):
AATACATAATATATAAACCATGTG
Found at i:17322091 original size:31 final size:31
Alignment explanation
Indices: 17322032--17322092 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17322022 AAATATATAA
*
17322032 TCATGCAAATAATAATACACAAATCATGCAG
1 TCATGCAAATAATAATACACAAACCATGCAG
* * *
17322063 TCATGTAAATAATAATATATAAACCATGCA
1 TCATGCAAATAATAATACACAAACCATGCA
17322093 AAATATGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (31 bp):
TCATGCAAATAATAATACACAAACCATGCAG
Found at i:17322121 original size:20 final size:20
Alignment explanation
Indices: 17322096--17322137 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17322086 CCATGCAAAA
* * *
17322096 TATGCAATTAAATATATAAT
1 TATGCAAATAAACATACAAT
17322116 TATGCAAATAAACATACAAT
1 TATGCAAATAAACATACAAT
17322136 TA
1 TA
17322138 GTATATAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (20 bp):
TATGCAAATAAACATACAAT
Found at i:17322133 original size:83 final size:83
Alignment explanation
Indices: 17321902--17322126 Score: 292
Period size: 83 Copynumber: 2.7 Consensus size: 83
17321892 TAATCATGCG
* * * * * **
17321902 AATAGTAATATATAAATCATGCAAATAAACATG-AAGTTAAATACATATTCATATAAATAATAAT
1 AATAATAATATATAAACCATGC--A-AAATATGCAA-TTAAATATATAATCATGCAAATAATAAT
* * * *
17321966 ACATAAATCAT-AAATCATGTG
62 ACACAAATCATGCAGTCATGTA
17321987 AATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATGCAAATAATAATACAC
1 AATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATGCAAATAATAATACAC
17322052 AAATCATGCAGTCATGTA
66 AAATCATGCAGTCATGTA
*
17322070 AATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATTATGCAAATAA
1 AATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATGCAAATAA
17322127 ACATACAATT
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
82 40 0.32
83 66 0.52
85 20 0.16
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (83 bp):
AATAATAATATATAAACCATGCAAAATATGCAATTAAATATATAATCATGCAAATAATAATACAC
AAATCATGCAGTCATGTA
Found at i:17322150 original size:83 final size:84
Alignment explanation
Indices: 17321866--17322157 Score: 280
Period size: 83 Copynumber: 3.5 Consensus size: 84
17321856 ATATAAACCG
* * * *
17321866 TGCAAATAA-ATATGCAATTAAAT-ATATAATCATGCGAATAGTAATATATAAATCATGCAAATA
1 TGCAAATAATA-ATACAATT-AATCATATAATCATGCAAATAATAATATATAAACCATGC--A-A
* *
17321929 AACATG-AAGTTAAATACAT-ATTCA
61 AATATGCAA-TTAAATATATAATT-A
** * **
17321953 TATAAATAATAATAC-ATAAATCATA-AATCATGTGAATAATAATATATAAACCATGCAAAATAT
1 TGCAAATAATAATACAATTAATCATATAATCATGCAAATAATAATATATAAACCATGCAAAATAT
*
17322016 GCAATTAAATATATAATCA
66 GCAATTAAATATATAATTA
** * *
17322035 TGCAAATAATAATACACA--AATCATGCAGTCATGTAAATAATAATATATAAACCATGCAAAATA
1 TGCAAATAATAATACA-ATTAATCATATAATCATGCAAATAATAATATATAAACCATGCAAAATA
17322098 TGCAATTAAATATATAATTA
65 TGCAATTAAATATATAATTA
*
17322118 TGCAAATAA-ACATACAATTAGT-ATATAATCATGCAAATAA
1 TGCAAATAATA-ATACAATTAATCATATAATCATGCAAATAA
17322158 ATATATTAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
82 37 0.21
83 87 0.50
84 3 0.02
85 31 0.18
86 5 0.03
87 10 0.06
88 1 0.01
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.29
Consensus pattern (84 bp):
TGCAAATAATAATACAATTAATCATATAATCATGCAAATAATAATATATAAACCATGCAAAATAT
GCAATTAAATATATAATTA
Found at i:17322172 original size:24 final size:23
Alignment explanation
Indices: 17322142--17322279 Score: 122
Period size: 24 Copynumber: 6.0 Consensus size: 23
17322132 CAATTAGTAT
17322142 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATA-TA
* * *
17322166 ATAATCAAGCAATTAAACATATTA
1 ATAATCATGCAAATAAATATA-TA
*
17322190 ATAATCATGC-AATCAAAT-TAAA
1 ATAATCATGCAAAT-AAATATATA
**
17322212 TATAATCACACAAATAAATATATA
1 -ATAATCATGCAAATAAATATATA
* **
17322236 ACAAATCACACAAATAAATATAT-
1 A-TAATCATGCAAATAAATATATA
17322259 -TAATCATGCAAATAAATATAT
1 ATAATCATGCAAATAAATATAT
17322280 TAGGAAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
21 18 0.19
22 1 0.01
23 17 0.18
24 59 0.62
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (23 bp):
ATAATCATGCAAATAAATATATA
Found at i:17326626 original size:100 final size:100
Alignment explanation
Indices: 17326453--17326648 Score: 284
Period size: 100 Copynumber: 2.0 Consensus size: 100
17326443 GCTTTTTAGG
* * * * * *
17326453 TTGCACACCATTATTGTATTTGTGGAAAAATAGCCATTTTAAATGTAAAAAATGTGCTTTCTCTA
1 TTGCACACCATTATTATATTTATGGAAAAAGAGCAATTTTAAATGTAAAAAATGTGCTTTATCCA
*
17326518 AACTCTATCTTCACAATCGAAATCTAGCTAAAGAA
66 AACTCTATCTTCACAATCGAAATCCAGCTAAAGAA
* * * *
17326553 TTGCATACCATTATTATATTTATGGAAGAAGAGTAATTTTAAATGTAAAAAGTGTGCTTTATCCA
1 TTGCACACCATTATTATATTTATGGAAAAAGAGCAATTTTAAATGTAAAAAATGTGCTTTATCCA
*
17326618 AACTCTATCTTCACAATTGAAATCCAGCTAA
66 AACTCTATCTTCACAATCGAAATCCAGCTAA
17326649 GGAGTTCTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (100 bp):
TTGCACACCATTATTATATTTATGGAAAAAGAGCAATTTTAAATGTAAAAAATGTGCTTTATCCA
AACTCTATCTTCACAATCGAAATCCAGCTAAAGAA
Found at i:17336311 original size:65 final size:62
Alignment explanation
Indices: 17336237--17336407 Score: 164
Period size: 64 Copynumber: 2.7 Consensus size: 62
17336227 ATCCAAGTTA
*
17336237 ATTTATTTTTTGACTTGTGATTCAATCTCAGTCAATCATTTTCAACATTAGCTTGGTTTAGATC
1 ATTTATTTTTTGACTTGTGATTCAATCTC-GTCAATCATTTTCAAC-TTAGCTTAGTTTAGATC
* * * * *** * *
17336301 ATTTATTTTTTGACTTG-CAGTTCAATCTTGGTTATTCATTTTTTGTCTTGGCTTAGTTTAGGTC
1 ATTTATTTTTTGACTTGTGA-TTCAATC-TCGTCAATCA-TTTTCAACTTAGCTTAGTTTAGATC
* *
17336365 ATTTATTTTTTTGACTTGTGGTTCAATCTCGATCACTCATTTT
1 ATTTA-TTTTTTGACTTGTGATTCAATCTCG-TCAATCATTTT
17336408 TTATCTCGAG
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
63 1 0.01
64 55 0.64
65 30 0.35
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (62 bp):
ATTTATTTTTTGACTTGTGATTCAATCTCGTCAATCATTTTCAACTTAGCTTAGTTTAGATC
Found at i:17336408 original size:65 final size:64
Alignment explanation
Indices: 17336237--17336472 Score: 219
Period size: 65 Copynumber: 3.7 Consensus size: 64
17336227 ATCCAAGTTA
* * * * *
17336237 ATTTATTTTTTGACTTGT-GATTCAATCTC-AGTCAATCA-TTTTCAACATTAGCTTGGTTTAGA
1 ATTTATTTTTTGACTTGTAG-TTCAATCTCGA-TCACTCATTTTTTATC-TTGGCTTAGTTTAGA
17336299 TC
63 TC
* * * * * * *
17336301 ATTTATTTTTTGACTTGCAGTTCAATCTTGGTTATTCATTTTTTGTCTTGGCTTAGTTTAGGTC
1 ATTTATTTTTTGACTTGTAGTTCAATCTCGATCACTCATTTTTTATCTTGGCTTAGTTTAGATC
* * * *
17336365 ATTTATTTTTTTGACTTGTGGTTCAATCTCGATCACTCATTTTTTATCTCGAG-TCAGTCTAGAT
1 ATTTA-TTTTTTGACTTGTAGTTCAATCTCGATCACTCATTTTTTATCTTG-GCTTAGTTTAGAT
17336429 C
64 C
* * *
17336430 ATTTCATTTTTTGACTAGTAGCTCAATCCCGATCACTCATTTT
1 ATTT-ATTTTTTGACTTGTAGTTCAATCTCGATCACTCATTTT
17336473 CAATCTAGAC
Statistics
Matches: 140, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
64 49 0.35
65 89 0.64
66 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (64 bp):
ATTTATTTTTTGACTTGTAGTTCAATCTCGATCACTCATTTTTTATCTTGGCTTAGTTTAGATC
Found at i:17337854 original size:19 final size:18
Alignment explanation
Indices: 17337817--17337864 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
17337807 AGGTAATGGC
17337817 TTTTCTTTTTATGTTTCA
1 TTTTCTTTTTATGTTTCA
17337835 TTTTCTTATTTGAT-TTTCA
1 TTTTCTT-TTT-ATGTTTCA
17337854 TTTTCATTTTT
1 TTTTC-TTTTT
17337865 TTATTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.26
19 16 0.59
20 4 0.15
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTTATGTTTCA
Found at i:17337875 original size:19 final size:19
Alignment explanation
Indices: 17337853--17337903 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
17337843 TTTGATTTTC
17337853 ATTTTCATTTTTTTATTTA
1 ATTTTCATTTTTTTATTTA
** *
17337872 ATTTAGA-TTTTTTATTTT
1 ATTTTCATTTTTTTATTTA
17337890 ATTATTC-TTTTTTT
1 ATT-TTCATTTTTTT
17337904 GAATTGTTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (19 bp):
ATTTTCATTTTTTTATTTA
Found at i:17337881 original size:25 final size:25
Alignment explanation
Indices: 17337830--17337882 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
17337820 TCTTTTTATG
* *
17337830 TTTCATTTTCTTATTTGATTTTCAT
1 TTTCATTTTCTTATTTAATTTACAT
* *
17337855 TTTCATTTTTTTATTTAATTTAGAT
1 TTTCATTTTCTTATTTAATTTACAT
17337880 TTT
1 TTT
17337883 TTATTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTCATTTTCTTATTTAATTTACAT
Found at i:17344506 original size:8 final size:7
Alignment explanation
Indices: 17344495--17344562 Score: 64
Period size: 8 Copynumber: 8.9 Consensus size: 7
17344485 TTTTTTGTAT
17344495 TTTTTGTA
1 TTTTT-TA
17344503 TTTTTTA
1 TTTTTTA
17344510 TTATTTTA
1 TT-TTTTA
17344518 TTTATTTA
1 TTT-TTTA
*
17344526 TTTTATCA
1 TTTT-TTA
17344534 TTTGTTTA
1 TTT-TTTA
17344542 TTTATTTA
1 TTT-TTTA
*
17344550 TTATTTA
1 TTTTTTA
17344557 TTTTTT
1 TTTTTT
17344563 TGAAATATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
7 15 0.29
8 35 0.69
9 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:17344511 original size:16 final size:15
Alignment explanation
Indices: 17344486--17344563 Score: 75
Period size: 16 Copynumber: 4.9 Consensus size: 15
17344476 AGCCAATTCT
17344486 TTTTTGTATTTTTTGTA
1 TTTTT-TATTTTTT-TA
*
17344503 TTTTTTATTATTTTA
1 TTTTTTATTTTTTTA
* *
17344518 TTTATTTATTTTATCA
1 TTT-TTTATTTTTTTA
*
17344534 TTTGTTTATTTATTTA
1 TTT-TTTATTTTTTTA
*
17344550 TTATTTATTTTTTT
1 TTTTTTATTTTTTT
17344564 GAAATATTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
15 15 0.30
16 30 0.60
17 5 0.10
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:17344523 original size:4 final size:4
Alignment explanation
Indices: 17344501--17344559 Score: 54
Period size: 4 Copynumber: 15.2 Consensus size: 4
17344491 GTATTTTTTG
* *
17344501 TATT T-TT TA-T TATTT TATT TATT TATT T-TAT CATT TGTT TATT TATT
1 TATT TATT TATT TA-TT TATT TATT TATT TAT-T TATT TATT TATT TATT
17344548 TA-T TATT TATT T
1 TATT TATT TATT T
17344560 TTTTGAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
3 10 0.22
4 31 0.69
5 4 0.09
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:17345478 original size:16 final size:16
Alignment explanation
Indices: 17345451--17345484 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
17345441 AATTAGATAT
17345451 ATTTTCAATAAAACAAA
1 ATTTTCAATAAAA-AAA
17345468 ATTTT-AATAAAAAAA
1 ATTTTCAATAAAAAAA
17345483 AT
1 AT
17345485 GATTCAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTTTCAATAAAAAAA
Found at i:17347356 original size:165 final size:164
Alignment explanation
Indices: 17347073--17347404 Score: 393
Period size: 165 Copynumber: 2.0 Consensus size: 164
17347063 GGCCCAGTAA
* ** * *
17347073 TGAATAATCCTTACCAACCTATCCAGCAATCAAATTTTTTAATGAACCCTCGGCCCTATATGCCT
1 TGAATAATCCTTACCAACCTATCCAACAATCAAATTTTCCAATGAACCCTCAGCCCTATATACCT
* * *
17347138 AATTTTACTCCAAAACCTACACCAATAAGTCCACCCATAGCTTAACTTAAGAAATCATTGAATAA
66 AATTTTACTCCAAAACCTACACCAATAAGTCCACCCATAGCTCAACCTAAGAAAACATTGAATAA
*
17347203 AAAGAAAGAGAA-AACCATCATTGATCCAACCCCTG
131 AAA-AAA-AAAAGAACCATCATTGATCCAACCCCTG
* * * *
17347238 TGAATAATGCTTATCAGCCTATCCAACAATCAAATTTTCCAATGAACCCTTAGCCCTATATACC-
1 TGAATAATCCTTACCAACCTATCCAACAATCAAATTTTCCAATGAACCCTCAGCCCTATATACCT
* * * * * *
17347302 CATTTCTATTCCAAAACCTGA-ACCTATAAGTCTACCTAT-GACTCAACCTAAGAAAACATTGAG
66 AATTT-TACTCCAAAACCT-ACACCAATAAGTCCACCCATAG-CTCAACCTAAGAAAACATTGAA
* * *
17347365 TAAAAAAAAAAAAGAACCATTATTGATCCAATCTCTG
128 TAAAAAAAAAAAAGAACCATCATTGATCCAACCCCTG
17347402 TGA
1 TGA
17347405 CCTATAGTGA
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
163 3 0.02
164 31 0.22
165 106 0.75
166 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (164 bp):
TGAATAATCCTTACCAACCTATCCAACAATCAAATTTTCCAATGAACCCTCAGCCCTATATACCT
AATTTTACTCCAAAACCTACACCAATAAGTCCACCCATAGCTCAACCTAAGAAAACATTGAATAA
AAAAAAAAAAGAACCATCATTGATCCAACCCCTG
Found at i:17349985 original size:11 final size:11
Alignment explanation
Indices: 17349971--17350000 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17349961 TAAAAATGAG
17349971 AAAAAAGAAAA
1 AAAAAAGAAAA
*
17349982 AAAAAGGAAAA
1 AAAAAAGAAAA
17349993 AAAAAAGA
1 AAAAAAGA
17350001 TGATTGTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:17351939 original size:69 final size:68
Alignment explanation
Indices: 17351790--17352022 Score: 247
Period size: 69 Copynumber: 3.4 Consensus size: 68
17351780 TCCTATGAGT
* * * * *
17351790 AAGATTCATAAGTCTT-TCATACTGAATCTATTATAAGACCTCAGGCATAATCACTAAGTCTTTC
1 AAGATTCATAAGTCTTCTCA-ACTGAATCTATTATAAAACCTCAGGCATAATCACCAAATCCTCC
17351854 AGGC
65 AGGC
* * *
17351858 AA-AGTTCGTAAGTTTTCTCAACTTAATCTATTATAAAACCTCCAGGCATAATCACCAAATCCTC
1 AAGA-TTCATAAGTCTTCTCAACTGAATCTATTATAAAACCT-CAGGCATAATCACCAAATCCTC
*
17351922 CGGGC
64 CAGGC
* * ** * *
17351927 AAGATTCATAAGTCTTCCCAACTGAATCTTTTATAAAACCTTTGGGCATAATCATCAAATCCTCT
1 AAGATTCATAAGTCTTCTCAACTGAATCTATTATAAAACC-TCAGGCATAATCACCAAATCCTCC
*
17351992 AAGC
65 AGGC
*
17351996 AAGATTCGTAAGTCTTCT-AAGCTGAAT
1 AAGATTCATAAGTCTTCTCAA-CTGAAT
17352023 TTGTTTTAGA
Statistics
Matches: 137, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
67 1 0.01
68 33 0.24
69 101 0.74
70 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (68 bp):
AAGATTCATAAGTCTTCTCAACTGAATCTATTATAAAACCTCAGGCATAATCACCAAATCCTCCA
GGC
Found at i:17353628 original size:4 final size:4
Alignment explanation
Indices: 17353619--17353673 Score: 85
Period size: 4 Copynumber: 14.0 Consensus size: 4
17353609 TTTCTATTGT
*
17353619 TTTA TTTA TTTA TTTA TTTA TTTA TTTG TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
17353666 TTTT TTTA
1 TTTA TTTA
17353674 GCAAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 3 0.07
4 43 0.93
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:17353894 original size:24 final size:25
Alignment explanation
Indices: 17353841--17353895 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
17353831 TTTTTACTAA
* *
17353841 TTTTTTATTATTTTTAGTAATTACT
1 TTTTTTACTATTTTTAGTAATTAAT
* *
17353866 ATTTTTACT-TTTTTATTAATTAAT
1 TTTTTTACTATTTTTAGTAATTAAT
17353890 TTTTTT
1 TTTTTT
17353896 GGTTATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTTTACTATTTTTAGTAATTAAT
Found at i:17353910 original size:17 final size:16
Alignment explanation
Indices: 17353868--17353915 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
17353858 TAATTACTAT
17353868 TTTTACTTTTTTATTA
1 TTTTACTTTTTTATTA
* * * *
17353884 ATTAATTTTTTTGGTTA
1 TTTTACTTTTTT-ATTA
17353901 TTTTACTTTTTTATT
1 TTTTACTTTTTTATT
17353916 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (16 bp):
TTTTACTTTTTTATTA
Found at i:17354761 original size:8 final size:8
Alignment explanation
Indices: 17354748--17354785 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
17354738 AGCAACTCAT
17354748 TTTTTTTG
1 TTTTTTTG
*
17354756 TTTTTTATA
1 TTTTTT-TG
17354765 TTTTTTTG
1 TTTTTTTG
17354773 TTTTTTTG
1 TTTTTTTG
17354781 TTTTT
1 TTTTT
17354786 CTAGGGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:17355038 original size:3 final size:3
Alignment explanation
Indices: 17355032--17355075 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
17355022 GATGATGATG
17355032 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
17355076 TTAGGTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17359037 original size:21 final size:21
Alignment explanation
Indices: 17359013--17359078 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
17359003 GTAACAAATC
* *
17359013 TTGGGCTGATTGTGGAATTGG
1 TTGGGTTGAATGTGGAATTGG
* * *
17359034 TTGGATTGAATGCGAAATTGG
1 TTGGGTTGAATGTGGAATTGG
17359055 TTGGGTTGAATGTGGAATTGG
1 TTGGGTTGAATGTGGAATTGG
17359076 TTG
1 TTG
17359079 TTGTTTTTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.20, C:0.03, G:0.39, T:0.38
Consensus pattern (21 bp):
TTGGGTTGAATGTGGAATTGG
Found at i:17359659 original size:19 final size:18
Alignment explanation
Indices: 17359623--17359689 Score: 91
Period size: 18 Copynumber: 3.6 Consensus size: 18
17359613 AACAATAATA
*
17359623 AAAGATAAATGTATAAAAT
1 AAAGATAAATATA-AAAAT
17359642 AAAGAATAAATATAAAAAT
1 AAAG-ATAAATATAAAAAT
17359661 AAAGATAAATATAAAATAT
1 AAAGATAAATATAAAA-AT
17359680 AAA-ATAAATA
1 AAAGATAAATA
17359690 CACAAAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
18 19 0.42
19 18 0.40
20 8 0.18
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAGATAAATATAAAAAT
Found at i:17359661 original size:12 final size:11
Alignment explanation
Indices: 17359635--17359687 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 11
17359625 AGATAAATGT
17359635 ATAAAATAAAGA
1 ATAAAATAAA-A
17359647 ATAAATATAAAA
1 ATAAA-ATAAAA
*
17359659 ATAAAGATAAAT
1 ATAAA-ATAAAA
17359671 ATAAAATATAAA
1 ATAAAATA-AAA
17359683 ATAAA
1 ATAAA
17359688 TACACAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 3 0.08
12 28 0.78
13 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:17359662 original size:6 final size:6
Alignment explanation
Indices: 17359637--17359687 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
17359627 ATAAATGTAT
* * *
17359637 AAAATA AAGAATA AATATA AAAATA AAGATA AATAT- AAAATA TAAAATA
1 AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA
17359686 AA
1 AA
17359688 TACACAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
5 4 0.11
6 21 0.57
7 12 0.32
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:17359697 original size:38 final size:38
Alignment explanation
Indices: 17359613--17359699 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
17359603 TTTTTTAATA
*
17359613 AACAATAATAAAAGATAAATGTATAAAATAAAGAATAAAT
1 AACAAAAAT-AAAGATAAA-GTATAAAATAAAGAATAAAT
*
17359653 -ATAAAAATAAAGATAAA-TATAAAATATAA-AATAAAT
1 AACAAAAATAAAGATAAAGTATAAAATA-AAGAATAAAT
17359689 ACACAAAAATA
1 A-ACAAAAATA
17359700 TAAAATTTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
36 16 0.39
37 2 0.05
38 17 0.41
39 6 0.15
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (38 bp):
AACAAAAATAAAGATAAAGTATAAAATAAAGAATAAAT
Found at i:17359904 original size:10 final size:9
Alignment explanation
Indices: 17359868--17359901 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
17359858 AAATCAAAAC
*
17359868 TTTTTTTCA
1 TTTTTTTAA
*
17359877 TTTTTCTAA
1 TTTTTTTAA
17359886 TTTTTTTAA
1 TTTTTTTAA
17359895 TTTTTTT
1 TTTTTTT
17359902 TAAATTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:17360331 original size:24 final size:24
Alignment explanation
Indices: 17360299--17360344 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
17360289 ATTACACGTA
*
17360299 GAGAATGATTAGCACTCTTATAAC
1 GAGAATGATGAGCACTCTTATAAC
17360323 GAGAATGATGAGCACTCTTATA
1 GAGAATGATGAGCACTCTTATA
17360345 TGCCTGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (24 bp):
GAGAATGATGAGCACTCTTATAAC
Found at i:17360859 original size:20 final size:19
Alignment explanation
Indices: 17360810--17360862 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
17360800 AAAACAATTA
17360810 GTTTTGGAGTTTAAGGTTTG
1 GTTTTGG-GTTTAAGGTTTG
* *
17360830 G-TTGGTGGTTTAGGGTTTAG
1 GTTTTG-GGTTTAAGGTTT-G
17360850 GTTTTGGGTTTAA
1 GTTTTGGGTTTAA
17360863 AATTTAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
19 13 0.50
20 10 0.38
21 3 0.12
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (19 bp):
GTTTTGGGTTTAAGGTTTG
Found at i:17361348 original size:13 final size:14
Alignment explanation
Indices: 17361316--17361357 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
17361306 CACTGAAAAC
17361316 AAGAAAAAAATGAG
1 AAGAAAAAAATGAG
* *
17361330 AGGAAAAAAATTA-
1 AAGAAAAAAATGAG
17361343 AAGAAAAAAA-GAG
1 AAGAAAAAAATGAG
17361356 AA
1 AA
17361358 TATATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 1 0.04
13 11 0.48
14 11 0.48
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (14 bp):
AAGAAAAAAATGAG
Found at i:17363634 original size:142 final size:143
Alignment explanation
Indices: 17363301--17363662 Score: 314
Period size: 142 Copynumber: 2.5 Consensus size: 143
17363291 TTAAAGCACC
* * * * * * * *
17363301 AAAAATCATGAAATATTATAAGATTAAAATCT-AAAA-TTTTCGTAAAAATTCGATCTCGAAAAG
1 AAAAATCATAAAATATTATAAAATCATAATTTGAAAAGTTTAC--AAAAATTCGACCTTGAAAAG
* * *
17363364 GTCAAATTATAAAATTACCCATAAAGAGTATTTTGGTAATTTCACATCCTTCGAGGTATTGCTAT
64 ATCAAATTATAAAATTACCCATAAAGAGTATTTTGGTAATTTCACATCCTTCAAGGTATTGCTAG
* *
17363429 GATTTCGAATGTATC
129 GATTTCGAATGCATA
* *
17363444 AAAAATCATCAAATATTATAAAATCATAATTTGAAAAGTTTACTAAAA-TCGACCTTGAAAAGAT
1 AAAAATCATAAAATATTATAAAATCATAATTTGAAAAGTTTACAAAAATTCGACCTTGAAAAGAT
*
17363508 CAAATTATGAAAA-TACCCATAAAG-GTATTTTTGTAATTTCACA-CCTGTCAAAGTGTGA-T-C
66 CAAATTAT-AAAATTACCCATAAAGAGTATTTTGGTAATTTCACATCCT-TC-AAG-GT-ATTGC
* *
17363568 TGGGTTTTC-AATGCATA
126 TAGGATTTCGAATGCATA
** * * * * *
17363585 AAAAATCATTAAAATA-TATTCAATTATGATTTG-AAAGTTTTCACAAAAATTTGGCTTTGAAAA
1 AAAAATCA-TAAAATATTATAAAATCATAATTTGAAAAG-TTT-ACAAAAATTCGACCTTGAAAA
* *
17363648 AATCAAATTACAAAA
63 GATCAAATTATAAAA
17363663 ATAATCCTAA
Statistics
Matches: 180, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
140 7 0.04
141 50 0.28
142 57 0.32
143 57 0.32
144 5 0.03
145 4 0.02
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (143 bp):
AAAAATCATAAAATATTATAAAATCATAATTTGAAAAGTTTACAAAAATTCGACCTTGAAAAGAT
CAAATTATAAAATTACCCATAAAGAGTATTTTGGTAATTTCACATCCTTCAAGGTATTGCTAGGA
TTTCGAATGCATA
Found at i:17366065 original size:79 final size:80
Alignment explanation
Indices: 17365965--17366140 Score: 273
Period size: 79 Copynumber: 2.2 Consensus size: 80
17365955 AAATGTTTCA
**
17365965 AAAGGATAACTTGTGAAAATAAATAAAATTAAGGGAATTACATTAAATATTAAAATTAAGACCA-
1 AAAGGATAACTTGTGAAAATAAATAAAATTAAAAGAATTACATTAAATATTAAAATTAAGACCAT
* *
17366029 TTTTTTATCAGTGTT
66 TTTTTTATCAATGTC
* * *
17366044 AAAGAATAACTTGTGAAAATAAATAAAATTAAAAGAATTATATTAAATATTAAAATTAAGACTAT
1 AAAGGATAACTTGTGAAAATAAATAAAATTAAAAGAATTACATTAAATATTAAAATTAAGACCA-
17366109 TTTTTTTATCAATGTC
65 TTTTTTTATCAATGTC
17366125 AAAGGATAACTTGTGA
1 AAAGGATAACTTGTGA
17366141 TTAACTGGTA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 59 0.68
81 28 0.32
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (80 bp):
AAAGGATAACTTGTGAAAATAAATAAAATTAAAAGAATTACATTAAATATTAAAATTAAGACCAT
TTTTTTATCAATGTC
Found at i:17372175 original size:20 final size:20
Alignment explanation
Indices: 17372150--17372190 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17372140 GGCTCAAACA
*
17372150 GATAAGAAAGCTATTTGATT
1 GATAAGAAAGCTAATTGATT
* *
17372170 GATAAGCAAGTTAATTGATT
1 GATAAGAAAGCTAATTGATT
17372190 G
1 G
17372191 GTGTTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (20 bp):
GATAAGAAAGCTAATTGATT
Found at i:17377579 original size:20 final size:20
Alignment explanation
Indices: 17377556--17377593 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17377546 TGTCATATAA
17377556 AATATTAAAAT-TTATATATT
1 AATA-TAAAATCTTATATATT
*
17377576 AATATAATATCTTATATA
1 AATATAAAATCTTATATA
17377594 AAAATTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATAAAATCTTATATATT
Found at i:17380339 original size:18 final size:18
Alignment explanation
Indices: 17380316--17380350 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17380306 ATACAGAAGA
17380316 TAGTAAGAATTCAAAAGG
1 TAGTAAGAATTCAAAAGG
17380334 TAGTAAGAATTCAAAAG
1 TAGTAAGAATTCAAAAG
17380351 AATATATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.23
Consensus pattern (18 bp):
TAGTAAGAATTCAAAAGG
Found at i:17381939 original size:14 final size:14
Alignment explanation
Indices: 17381920--17381946 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17381910 AAGATCTCAT
17381920 TCTATATATTTTCA
1 TCTATATATTTTCA
17381934 TCTATATATTTTC
1 TCTATATATTTTC
17381947 TTCCTGCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (14 bp):
TCTATATATTTTCA
Found at i:17383927 original size:30 final size:30
Alignment explanation
Indices: 17383855--17383934 Score: 119
Period size: 29 Copynumber: 2.7 Consensus size: 30
17383845 TACCCCAAAG
* * *
17383855 AAATACTTTAAAACTTTTTTTCTCCAATTA
1 AAATACTTTTAATCTTTTATTCTCCAATTA
17383885 AAATAC-TTTAATCTTTTATTCTCCAATTA
1 AAATACTTTTAATCTTTTATTCTCCAATTA
17383914 AAATACTTTTAATC-TTTATTC
1 AAATACTTTTAATCTTTTATTC
17383935 CTTAAATAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 33 0.72
30 13 0.28
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (30 bp):
AAATACTTTTAATCTTTTATTCTCCAATTA
Found at i:17387389 original size:9 final size:9
Alignment explanation
Indices: 17387370--17387428 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
17387360 CTAGATTAGA
17387370 TTTTCTATTT
1 TTTTC-ATTT
*
17387380 TTTTCCTTT
1 TTTTCATTT
*
17387389 TTTTTATTT
1 TTTTCATTT
17387398 TTTT-ATTTT
1 TTTTCA-TTT
*
17387407 TTTTTATTT
1 TTTTCATTT
17387416 TTTT-ATTT
1 TTTTCATTT
17387424 TTTTC
1 TTTTC
17387429 CCTTTTCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 9 0.21
9 28 0.65
10 6 0.14
ACGTcount: A:0.08, C:0.07, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTCATTT
Found at i:17387398 original size:8 final size:8
Alignment explanation
Indices: 17387387--17387427 Score: 64
Period size: 8 Copynumber: 4.9 Consensus size: 8
17387377 TTTTTTTCCT
17387387 TTTTTTTA
1 TTTTTTTA
17387395 TTTTTTTA
1 TTTTTTTA
17387403 TTTTTTTTTA
1 --TTTTTTTA
17387413 TTTTTTTA
1 TTTTTTTA
17387421 TTTTTTT
1 TTTTTTT
17387428 CCCTTTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 23 0.74
10 8 0.26
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:17387426 original size:26 final size:26
Alignment explanation
Indices: 17387370--17387427 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
17387360 CTAGATTAGA
*
17387370 TTTTCTATTTTTTTCCTTTTTTTTAT
1 TTTTTTATTTTTTTCCTTTTTTTTAT
*
17387396 TTTTTTATTTTTTT-TTATTTTTTTAT
1 TTTTTTATTTTTTTCCT-TTTTTTTAT
17387422 TTTTTT
1 TTTTTT
17387428 CCCTTTTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (26 bp):
TTTTTTATTTTTTTCCTTTTTTTTAT
Found at i:17387434 original size:18 final size:18
Alignment explanation
Indices: 17387370--17387427 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
17387360 CTAGATTAGA
* *
17387370 TTTTCTATTTTTTTCCTT
1 TTTTTTATTTTTTTACTT
*
17387388 TTTTTTATTTTTTTATTT
1 TTTTTTATTTTTTTACTT
17387406 TTTTTTATTTTTTTA-TT
1 TTTTTTATTTTTTTACTT
17387423 TTTTT
1 TTTTT
17387428 CCCTTTTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
17 7 0.19
18 30 0.81
ACGTcount: A:0.09, C:0.05, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTATTTTTTTACTT
Found at i:17387577 original size:17 final size:17
Alignment explanation
Indices: 17387551--17387599 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
17387541 TTTTTCCTTC
*
17387551 ATTCTTTTCTCTTTCTT
1 ATTCTCTTCTCTTTCTT
*
17387568 ATTCTCTTCTCCTTCTT
1 ATTCTCTTCTCTTTCTT
*
17387585 CTTCTTCTTCTCTTT
1 ATTC-TCTTCTCTTT
17387600 GTTAAACATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTCTCTTCTCTTTCTT
Found at i:17387677 original size:14 final size:13
Alignment explanation
Indices: 17387645--17387694 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
17387635 ATTTACCCTC
17387645 TCTTTTTCTCTCTTT
1 TCTTTTT-T-TCTTT
17387660 T-TTTTTTT-TTT
1 TCTTTTTTTCTTT
17387671 TACTTTTTTTCTTT
1 T-CTTTTTTTCTTT
17387685 TCTTTTTTTC
1 TCTTTTTTTC
17387695 CTTCCTCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.12
12 1 0.03
13 17 0.53
14 9 0.28
15 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
TCTTTTTTTCTTT
Done.