Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 45 of 160
Found at i:10053421 original size:18 final size:18
Alignment explanation
Indices: 10053389--10053522 Score: 105
Period size: 18 Copynumber: 7.4 Consensus size: 18
10053379 CAATGATTTA
10053389 AAGATTCGC--AAGATTC
1 AAGATTCGCAAAAGATTC
*
10053405 AAGATTAGCAAAAGATTC
1 AAGATTCGCAAAAGATTC
* * *
10053423 AAAGGTTCACAAAAAATTTC
1 -AAGATTCGCAAAAGA-TTC
*
10053443 AAGATTCGTAAAAGATTCC
1 AAGATTCGCAAAAGATT-C
* *
10053462 AAGATTTGC-AAAGGTTCC
1 AAGATTCGCAAAAGATT-C
10053480 AAGATTCGC-AAAGATTAC
1 AAGATTCGCAAAAGATT-C
* *
10053498 AAGTTTCGCAAAAGTTTC
1 AAGATTCGCAAAAGATTC
*
10053516 AAAATTC
1 AAGATTC
10053523 ATAAAAAATT
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
16 8 0.09
18 46 0.49
19 36 0.39
20 3 0.03
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (18 bp):
AAGATTCGCAAAAGATTC
Found at i:10053774 original size:16 final size:17
Alignment explanation
Indices: 10053741--10053776 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10053731 GGAATTAAAG
10053741 ATTCGCAAGAATTTTAA
1 ATTCGCAAGAATTTTAA
*
10053758 ATTCGTAAGAA-TTTAA
1 ATTCGCAAGAATTTTAA
10053774 ATT
1 ATT
10053777 TTCAAGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (17 bp):
ATTCGCAAGAATTTTAA
Found at i:10054273 original size:109 final size:107
Alignment explanation
Indices: 10054120--10054456 Score: 374
Period size: 109 Copynumber: 3.1 Consensus size: 107
10054110 CATTCGAAAT
* * * * *
10054120 TTCTCATTTTAAAACTTTAGA-ATT-TCATCC-AAATTTCAAAGCTTCTCATTCGAGTTCAAAGA
1 TTCTCATTTAAAAAATTTAGAGGTTCACATCCAAAATTTCAAAGCTTCTCATTTGAGTTCAAAGA
* * *
10054182 TTCATGTTTGATATATTTTAAAGTTTCACATATAAATTCAAAGG
66 TTCA--TTCGATAAATTTTAGAGTTTCACATATAAATTCAAAGG
* * *
10054226 TTCTCATTTAAAAAATTTAGGGGTTCACATCCAAAATTTTAAAGCTTCTTATTTGAGTTCAAAAG
1 TTCTCATTTAAAAAATTTAGAGGTTCACATCCAAAATTTCAAAGCTTCTCATTTGAGTTC-AAAG
* * * * * *
10054291 TTTACATTCAATAAATTTTAGAGTTTTACATCTAAATTAAAAGA
65 ATT-CATTCGATAAATTTTAGAGTTTCACATATAAATTCAAAGG
* * * * * *
10054335 TTCCCATTCAAAAAATTTAGAGGTTCATATCCAAAATTCCAAAGCTTTTCATTTGACTTCAAAGA
1 TTCTCATTTAAAAAATTTAGAGGTTCACATCCAAAATTTCAAAGCTTCTCATTTGAGTTCAAAGA
*
10054400 TTCACATTCGATAAATTTTAGAGTTTCACATTTAAATTCAAAGG
66 TT--CATTCGATAAATTTTAGAGTTTCACATATAAATTCAAAGG
*
10054444 TTCTCACTTAAAA
1 TTCTCATTTAAAA
10054457 CTCAAAGACA
Statistics
Matches: 190, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
106 18 0.09
107 2 0.01
108 11 0.06
109 151 0.79
110 6 0.03
111 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (107 bp):
TTCTCATTTAAAAAATTTAGAGGTTCACATCCAAAATTTCAAAGCTTCTCATTTGAGTTCAAAGA
TTCATTCGATAAATTTTAGAGTTTCACATATAAATTCAAAGG
Found at i:10054505 original size:14 final size:14
Alignment explanation
Indices: 10054466--10054510 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
10054456 ACTCAAAGAC
*
10054466 AAAGATTTTCATTA
1 AAAGATTTTCATTT
* *
10054480 AAAAATTCTCATTT
1 AAAGATTTTCATTT
10054494 AAAGATTTTCATTT
1 AAAGATTTTCATTT
10054508 AAA
1 AAA
10054511 ACTTCTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (14 bp):
AAAGATTTTCATTT
Found at i:10055751 original size:8 final size:8
Alignment explanation
Indices: 10055738--10055786 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
10055728 TCTTTTTCTC
10055738 TCATTTTT
1 TCATTTTT
10055746 TCATTTTT
1 TCATTTTT
10055754 T-ACTTTTT
1 TCA-TTTTT
10055762 T-ATTTTT
1 TCATTTTT
10055769 TCACTTTTT
1 TCA-TTTTT
*
10055778 TAATTTTT
1 TCATTTTT
10055786 T
1 T
10055787 TTAAATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
7 7 0.19
8 23 0.62
9 7 0.19
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (8 bp):
TCATTTTT
Found at i:10055762 original size:16 final size:16
Alignment explanation
Indices: 10055741--10055786 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
10055731 TTTTCTCTCA
10055741 TTTTTTCATTTTTT-AC
1 TTTTTT-ATTTTTTCAC
10055757 TTTTTTATTTTTTCAC
1 TTTTTTATTTTTTCAC
10055773 TTTTTTAATTTTTT
1 TTTTTT-ATTTTTT
10055787 TTAAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.25
16 14 0.50
17 7 0.25
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTTTCAC
Found at i:10055770 original size:23 final size:24
Alignment explanation
Indices: 10055740--10055786 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10055730 TTTTTCTCTC
*
10055740 ATTTTTTCA-TTTTTTACTTTTTT
1 ATTTTTTCACTTTTTTAATTTTTT
10055763 ATTTTTTCACTTTTTTAATTTTTT
1 ATTTTTTCACTTTTTTAATTTTTT
10055787 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (24 bp):
ATTTTTTCACTTTTTTAATTTTTT
Found at i:10055803 original size:8 final size:8
Alignment explanation
Indices: 10055740--10055805 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
10055730 TTTTTCTCTC
*
10055740 ATTTTTTC
1 ATTTTTTT
10055748 A-TTTTTT
1 ATTTTTTT
*
10055755 ACTTTTTT
1 ATTTTTTT
*
10055763 ATTTTTTC
1 ATTTTTTT
*
10055771 ACTTTTTTA
1 A-TTTTTTT
10055780 ATTTTTTTT
1 A-TTTTTTT
*
10055789 AAATTTTTT
1 -ATTTTTTT
10055798 ATTTTTTT
1 ATTTTTTT
10055806 CTTCATCCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 6 0.13
8 21 0.45
9 19 0.40
10 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (8 bp):
ATTTTTTT
Found at i:10060524 original size:19 final size:17
Alignment explanation
Indices: 10060492--10060527 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
10060482 TCCCTCTTAA
10060492 TTTTTTTTTCAATTGAT
1 TTTTTTTTTCAATTGAT
10060509 TTTTTTTTCTCTAATTGAT
1 TTTTTTTT-TC-AATTGAT
10060528 CCTAATGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTTTTTTCAATTGAT
Found at i:10061670 original size:37 final size:37
Alignment explanation
Indices: 10061620--10061692 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
10061610 CCCAAAACAA
*
10061620 ATTTTATATGTAATAATATTAAGAAAATGTATTTTAG
1 ATTTTATATGTAATAATATTAAGAAAATATATTTTAG
**
10061657 ATTTTATATGTAATAATATTAATTAAATATATTTTA
1 ATTTTATATGTAATAATATTAAGAAAATATATTTTA
10061693 TTTCTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (37 bp):
ATTTTATATGTAATAATATTAAGAAAATATATTTTAG
Found at i:10063885 original size:10 final size:10
Alignment explanation
Indices: 10063870--10063896 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10063860 ATATTTACTC
10063870 TAAAATATAT
1 TAAAATATAT
10063880 TAAAATATAT
1 TAAAATATAT
10063890 TAAAATA
1 TAAAATA
10063897 AAAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAAATATAT
Found at i:10064494 original size:178 final size:178
Alignment explanation
Indices: 10064186--10064545 Score: 589
Period size: 178 Copynumber: 2.0 Consensus size: 178
10064176 TCTACCCATA
10064186 AAATCAGTCTCTTTTTTTTTCCCTATTTCAATTCTTCTTCCTCAAAGTTCTATGTTGCGTTATAA
1 AAATCAGTCTCTTTTTTTTTCCCTATTTCAATTCTTCTTCCTCAAAGTTCTATGTTGCGTTATAA
* * **
10064251 TTTTGATTCTGTTGCTTCTTGATTATTTAATTATTGGTGATTTTTTATTGACAATTGGGCTCTTT
66 TTCTGATTCTATTGCTTCTTGATTATTTAATTATTGGTGATTTTTTATTGACAATTGAACTCTTT
*
10064316 ATATAGAGATTTAATCCCTTTTCAATTTAAAAAATTTTAATATCAACT
131 ATATAGAGATTTAATCCCTTTTCAATTTAAAAAAATTTAATATCAACT
* * *
10064364 AAATCAGTC-CTTTTTTTTTCTCTATTTTGAATTCTTCTTTCTCAAAGTTCTATGTTGC-TTGAT
1 AAATCAGTCTCTTTTTTTTTCCCTA-TTTCAATTCTTCTTCCTCAAAGTTCTATGTTGCGTT-AT
* *
10064427 AATTCTGATTCTATTGCTTCTTGATTCTTTAATTATTGGTGATTTTTTATTGAGAATTGAACTCT
64 AATTCTGATTCTATTGCTTCTTGATTATTTAATTATTGGTGATTTTTTATTGACAATTGAACTCT
*
10064492 TTATATAGGGATTTAATCCCTTTTCAATTTAAAAAAATTTAATATCAACT
129 TTATATAGAGATTTAATCCCTTTTCAATTTAAAAAAATTTAATATCAACT
10064542 AAAT
1 AAAT
10064546 TTATTAAGAT
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
177 16 0.09
178 153 0.91
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (178 bp):
AAATCAGTCTCTTTTTTTTTCCCTATTTCAATTCTTCTTCCTCAAAGTTCTATGTTGCGTTATAA
TTCTGATTCTATTGCTTCTTGATTATTTAATTATTGGTGATTTTTTATTGACAATTGAACTCTTT
ATATAGAGATTTAATCCCTTTTCAATTTAAAAAAATTTAATATCAACT
Found at i:10065026 original size:22 final size:21
Alignment explanation
Indices: 10064982--10065044 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
10064972 AGTTCTCAAC
*
10064982 TTGAAATTCAAAGATTCATAA
1 TTGAAATTCAAAGATTCACAA
* *
10065003 TTTGAAATTCAATGATTCGCAA
1 -TTGAAATTCAAAGATTCACAA
10065025 TT-AAATTCAAA-AGTTCACAA
1 TTGAAATTCAAAGA-TTCACAA
10065045 GATTTCAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 14 0.40
21 2 0.06
22 18 0.51
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (21 bp):
TTGAAATTCAAAGATTCACAA
Found at i:10065235 original size:226 final size:226
Alignment explanation
Indices: 10064841--10065294 Score: 811
Period size: 226 Copynumber: 2.0 Consensus size: 226
10064831 CACATGTCTT
10064841 TCTTTGCGCATTTTCTATGAAATAAAAATTGTGTAAAAACATACACACCCATTACAATCGAATCT
1 TCTTTGCGCATTTTCTATGAAATAAAAATTGTGTAAAAACATACACACCCATTACAATCGAATCT
* *
10064906 GACTTAAAATAAAAATTCAAAAATCTTTATATGAAATAAAGATTCCTAATTTGCATACTTTTTAA
66 GACTCAAAATAAAAATTCAAAAATCCTTATATGAAATAAAGATTCCTAATTTGCATACTTTTTAA
*
10064971 AAGTTCTCAACTTGAAATTCAAAGATTCATAATTTGAAATTCAATGATTCGCAATTAAATTCAAA
131 AAGTTCTCAACTTGAAATTCAAAAATTCATAATTTGAAATTCAATGATTCGCAATTAAATTCAAA
*
10065036 AGTTCACAAGATTTCAAAGATTCGCATGGTC
196 AGTTCACAAAATTTCAAAGATTCGCATGGTC
* * * **
10065067 TCTTTGCGTATTTTTTGTGAAATAGGAATTGTGTAAAAACATACACACCCATTACAATC-AGATC
1 TCTTTGCGCATTTTCTATGAAATAAAAATTGTGTAAAAACATACACACCCATTACAATCGA-ATC
10065131 TGACTCAAAATAAAAATTCAAAAATCCTTATATGAAATAAAGATTCCTAATTTGCATACTTTTTA
65 TGACTCAAAATAAAAATTCAAAAATCCTTATATGAAATAAAGATTCCTAATTTGCATACTTTTTA
10065196 AAAGTTCTCAACTTGAAATTCAAAAATTCATAATTTGAAATTCAATGATTCGCAATTAAATTCAA
130 AAAGTTCTCAACTTGAAATTCAAAAATTCATAATTTGAAATTCAATGATTCGCAATTAAATTCAA
10065261 AAGTTCACAAAATTTCAAAGATTCGCATGGTC
195 AAGTTCACAAAATTTCAAAGATTCGCATGGTC
10065293 TC
1 TC
10065295 AAAGCAAGAA
Statistics
Matches: 218, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
225 1 0.00
226 217 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.34
Consensus pattern (226 bp):
TCTTTGCGCATTTTCTATGAAATAAAAATTGTGTAAAAACATACACACCCATTACAATCGAATCT
GACTCAAAATAAAAATTCAAAAATCCTTATATGAAATAAAGATTCCTAATTTGCATACTTTTTAA
AAGTTCTCAACTTGAAATTCAAAAATTCATAATTTGAAATTCAATGATTCGCAATTAAATTCAAA
AGTTCACAAAATTTCAAAGATTCGCATGGTC
Found at i:10065252 original size:22 final size:21
Alignment explanation
Indices: 10065208--10065270 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
10065198 AGTTCTCAAC
*
10065208 TTGAAATTCAAAAATTCATAA
1 TTGAAATTCAAAAATTCACAA
** *
10065229 TTTGAAATTCAATGATTCGCAA
1 -TTGAAATTCAAAAATTCACAA
*
10065251 TT-AAATTCAAAAGTTCACAA
1 TTGAAATTCAAAAATTCACAA
10065271 AATTTCAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
20 14 0.42
21 2 0.06
22 17 0.52
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (21 bp):
TTGAAATTCAAAAATTCACAA
Found at i:10065351 original size:18 final size:18
Alignment explanation
Indices: 10065299--10065341 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
10065289 GGTCTCAAAG
*
10065299 CAAGAATTGAAAGATTCT
1 CAAGAATTGAAAGATTCA
10065317 CAAGAATTGAAAGATTCA
1 CAAGAATTGAAAGATTCA
10065335 CAAGAAT
1 CAAGAAT
10065342 CTGAGGATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (18 bp):
CAAGAATTGAAAGATTCA
Found at i:10065444 original size:19 final size:20
Alignment explanation
Indices: 10065417--10065476 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
10065407 GTACAAATTT
10065417 AAAGATTCACAAAAAATTCA
1 AAAGATTCACAAAAAATTCA
* *
10065437 AAAG-TTCACAAAAGATTCT
1 AAAGATTCACAAAAAATTCA
* *
10065456 AAGGTTTGCA-AAAAAATTCA
1 AAAGATT-CACAAAAAATTCA
10065476 A
1 A
10065477 GGATTTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 16 0.48
20 15 0.45
21 2 0.06
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (20 bp):
AAAGATTCACAAAAAATTCA
Found at i:10065478 original size:19 final size:21
Alignment explanation
Indices: 10065446--10065487 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10065436 AAAAGTTCAC
*
10065446 AAAAGATTCTAAGG-TTTGCA
1 AAAAAATTCTAAGGATTTGCA
10065466 AAAAAATTC-AAGGATTTGCA
1 AAAAAATTCTAAGGATTTGCA
10065486 AA
1 AA
10065488 TATTCATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAAATTCTAAGGATTTGCA
Found at i:10065638 original size:99 final size:98
Alignment explanation
Indices: 10065551--10065729 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 98
10065541 GACGATTTAT
* * * * * * *
10065551 AAATGAAGCTTCTAAAATTTAAAAATTCATATATTGAAAAAAAAATTTGAGATTCACATCCAAGA
1 AAATAAAGCTTCTAAAATTCAAAAATTCACAT-TAGAAAAAAAAATTTAAGATTAACATCCAAAA
*
10065616 TTTTAAAAATTCACATAAAATTTTGAAGAGCCAC
65 TTTCAAAAATTCACATAAAATTTTGAAGAGCCAC
* **
10065650 AAATAAAGCTTCTAAAATTCAAAGATTCACATTAGAAAAAAACTTTTAAGATTAACATCCAAAAT
1 AAATAAAGCTTCTAAAATTCAAAAATTCACATTAGAAAAAAAAATTTAAGATTAACATCCAAAAT
*
10065715 TTCAAAGATTCACAT
66 TTCAAAAATTCACAT
10065730 TCGAAAATCT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
98 40 0.59
99 28 0.41
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (98 bp):
AAATAAAGCTTCTAAAATTCAAAAATTCACATTAGAAAAAAAAATTTAAGATTAACATCCAAAAT
TTCAAAAATTCACATAAAATTTTGAAGAGCCAC
Found at i:10065689 original size:23 final size:23
Alignment explanation
Indices: 10065663--10065754 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 23
10065653 TAAAGCTTCT
10065663 AAAATTCAAAGATTCACATTAGAAA
1 AAAATTCAAAGATTCACATTAG--A
** * **
10065688 AAAACTTTTAAGATTAACA-TCCA
1 AAAA-TTCAAAGATTCACATTAGA
* *
10065711 AAATTTCAAAGATTCACATTCG-
1 AAAATTCAAAGATTCACATTAGA
*
10065733 AAAATCTTAAAGATTCACATTA
1 AAAAT-TCAAAGATTCACATTA
10065755 AAGATTTAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
22 15 0.29
23 20 0.39
25 5 0.10
26 11 0.22
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (23 bp):
AAAATTCAAAGATTCACATTAGA
Found at i:10065796 original size:23 final size:22
Alignment explanation
Indices: 10065710--10066159 Score: 125
Period size: 22 Copynumber: 20.3 Consensus size: 22
10065700 ATTAACATCC
* *
10065710 AAAATTTCAAAGATTCACATTCG
1 AAAATTT-AGAGATTCACATTTG
*
10065733 AAAATCTTAAAGATTCACA-TT-
1 AAAAT-TTAGAGATTCACATTTG
* *
10065754 AAAGATTTAGAGGTTTACATTTG
1 AAA-ATTTAGAGATTCACATTTG
* *
10065777 AAAATATTAGATATTCACA-TTC
1 AAAAT-TTAGAGATTCACATTTG
* * **
10065799 AAAATTCAAAGGCTCACATTTG
1 AAAATTTAGAGATTCACATTTG
* ***
10065821 GAAATCTTAGAGATTCACATCCA
1 AAAAT-TTAGAGATTCACATTTG
* * ** **
10065844 AAAATTCAAAGATTCTTATTCAA
1 AAAATTTAGAGATTCACATT-TG
****
10065867 AAAATTTTAG-GAATTCA-AAACC
1 AAAA-TTTAGAG-ATTCACATTTG
* * *
10065889 AAAACTTCAAAGATTCACATTTAA
1 AAAA-TTTAGAGATTCACATTT-G
* *
10065913 AAAATTTTAGAGATTCATATCT-
1 AAAA-TTTAGAGATTCACATTTG
* * * *
10065935 AAAATTCAAAGATTCTCATTTA
1 AAAATTTAGAGATTCACATTTG
**
10065957 AAAATTTTAG-GAATTCACA-TCC
1 AAAA-TTTAGAG-ATTCACATTTG
* **
10065979 AAAATTTTAAAGATTTTCATTTG
1 AAAA-TTTAGAGATTCACATTTG
*
10066002 -AAATTCTAGAGATTCACATCT-
1 AAAATT-TAGAGATTCACATTTG
** * **
10066023 AACGTTTAAAGATTTGCATTTG
1 AAAATTTAGAGATTCACATTTG
* * * **
10066045 -AAACTCAAAGATTCTTATTTG
1 AAAATTTAGAGATTCACATTTG
*
10066066 AAAATTTTAGAGATTCACATCT-
1 AAAA-TTTAGAGATTCACATTTG
* * *
10066088 AAAATTCAAACATTCACATTTTG
1 AAAATTTAGAGATTCACA-TTTG
**
10066111 AAAATTTAGAGATTCACA-TCC
1 AAAATTTAGAGATTCACATTTG
* * *
10066132 AAAATTCAAAGATTCACATTTC
1 AAAATTTAGAGATTCACATTTG
10066154 AAAATT
1 AAAATT
10066160 CAAAAATTTG
Statistics
Matches: 303, Mismatches: 98, Indels: 53
0.67 0.22 0.12
Matches are distributed among these distances:
21 88 0.29
22 100 0.33
23 89 0.29
24 26 0.09
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
AAAATTTAGAGATTCACATTTG
Found at i:10065892 original size:46 final size:45
Alignment explanation
Indices: 10065841--10065999 Score: 169
Period size: 45 Copynumber: 3.5 Consensus size: 45
10065831 AGATTCACAT
*
10065841 CCAAAAATTCAAAGATTCTTATTCAAAAAATTTTAGGAATTCAAAA
1 CCAAAAATTCAAAGATTCTCATT-AAAAAATTTTAGGAATTCAAAA
* * *
10065887 CCAAAACTTCAAAGATTCACATTTAAAAAATTTTA-GAGATTC-ATA
1 CCAAAAATTCAAAGATTCTCA-TTAAAAAATTTTAGGA-ATTCAAAA
* * * * *
10065932 TCTAAAATTCAAAGATTCTCATTTAAAAATTTTAGGAATTCACAT
1 CCAAAAATTCAAAGATTCTCATTAAAAAATTTTAGGAATTCAAAA
* * *
10065977 CCAAAATTTTAAAGATTTTCATT
1 CCAAAAATTCAAAGATTCTCATT
10066000 TGAAATTCTA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
44 16 0.17
45 41 0.45
46 33 0.36
47 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (45 bp):
CCAAAAATTCAAAGATTCTCATTAAAAAATTTTAGGAATTCAAAA
Found at i:10065945 original size:45 final size:44
Alignment explanation
Indices: 10065660--10066024 Score: 256
Period size: 44 Copynumber: 8.1 Consensus size: 44
10065650 AAATAAAGCT
* *
10065660 TCTAAAATTCAAAGATTCACATTAGAAAAAAACTTTTA-AGATTAACA
1 TCTAAAATTCAAAGATTCACATT---TAAAAA-TTTTAGAGATTCACA
* ** * *
10065707 TCCAAAATTTCAAAGATTCACATTCGAAAATCTTAAAGATTCACA
1 TCTAAAA-TTCAAAGATTCACATTTAAAAATTTTAGAGATTCACA
* * * * * * *
10065752 T-TAAAGATTTAGAGGTTTACATTTGAAAATATTAGATATTCACA
1 TCTAAA-ATTCAAAGATTCACATTTAAAAATTTTAGAGATTCACA
** ** *
10065796 T-TCAAAATTCAAAGGCTCACATTTGGAAATCTTAGAGATTCACA
1 TCT-AAAATTCAAAGATTCACATTTAAAAATTTTAGAGATTCACA
* ** * *
10065840 TCCAAAAATTCAAAGATTCTTATTCAAAAAATTTTAG-GAATTCAAA
1 T-CTAAAATTCAAAGATTCACATT-TAAAAATTTTAGAG-ATTCACA
* * *
10065886 ACCAAAACTTCAAAGATTCACATTTAAAAAATTTTAGAGATTCATA
1 TCTAAAA-TTCAAAGATTCACATTT-AAAAATTTTAGAGATTCACA
*
10065932 TCTAAAATTCAAAGATTCTCATTTAAAAATTTTAG-GAATTCACA
1 TCTAAAATTCAAAGATTCACATTTAAAAATTTTAGAG-ATTCACA
* * ** * *
10065976 TCCAAAATTTTAAAGATTTTCATTT-GAAATTCTAGAGATTCACA
1 TCTAAAA-TTCAAAGATTCACATTTAAAAATTTTAGAGATTCACA
10066020 TCTAA
1 TCTAA
10066025 CGTTTAAAGA
Statistics
Matches: 257, Mismatches: 47, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.00
44 112 0.44
45 71 0.28
46 50 0.19
47 7 0.03
48 16 0.06
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.33
Consensus pattern (44 bp):
TCTAAAATTCAAAGATTCACATTTAAAAATTTTAGAGATTCACA
Found at i:10066097 original size:44 final size:43
Alignment explanation
Indices: 10066049--10066246 Score: 180
Period size: 44 Copynumber: 4.5 Consensus size: 43
10066039 CATTTGAAAC
*
10066049 TCAAAGATTCTTATTTGAAAATTTTAGAGATTCACATCTAAAAT
1 TCAAAGATTCATATTTGAAAA-TTTAGAGATTCACATCTAAAAT
* * *
10066093 TCAAACATTCACATTTTGAAAATTTAGAGATTCACATCCAAAAT
1 TCAAAGATTCATA-TTTGAAAATTTAGAGATTCACATCTAAAAT
* * * * * ** *
10066137 TCAAAGATTCACATTTCAAAATTCAAAAATTTGCATTTGAAAAGT
1 TCAAAGATTCATATTTGAAAATTTAGAGATTCACATCT-AAAA-T
* * * * *
10066182 TCAAAAAGTCTTATTTGCAAATTTTAGAGATTTACATCTAAAAT
1 TCAAAGATTCATATTTG-AAAATTTAGAGATTCACATCTAAAAT
* *
10066226 TCAAATATTCCTATTTGAAAA
1 TCAAAGATTCATATTTGAAAA
10066247 AAATTCAAAA
Statistics
Matches: 122, Mismatches: 28, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
43 20 0.16
44 62 0.51
45 25 0.20
46 15 0.12
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (43 bp):
TCAAAGATTCATATTTGAAAATTTAGAGATTCACATCTAAAAT
Found at i:10066143 original size:109 final size:109
Alignment explanation
Indices: 10065940--10066145 Score: 265
Period size: 109 Copynumber: 1.9 Consensus size: 109
10065930 TATCTAAAAT
* * **
10065940 TCAAAGATTCTCATTTAAAAATTTTAGGAATTCACATCCAAAATTTTAAAGATTTTCATTTGAAA
1 TCAAAGATTCTCATTTAAAAATTTTAGGAATTCACATCCAAAATTTCAAACATTCACATTTGAAA
* ** *
10066005 TTCTAGAGATTCACATCTAACGTTTAAAGATTTGCATTTGAAAC
66 TTCTAGAGATTCACATCCAAAATTCAAAGATTTGCATTTGAAAC
* * *
10066049 TCAAAGATTCTTATTTGAAAATTTTA-GAGATTCACATCTAAAA-TTCAAACATTCACATTTTGA
1 TCAAAGATTCTCATTTAAAAATTTTAGGA-ATTCACATCCAAAATTTCAAACATTCACA-TTTG-
10066112 AAATT-TAGAGATTCACATCCAAAATTCAAAGATT
63 AAATTCTAGAGATTCACATCCAAAATTCAAAGATT
10066146 CACATTTCAA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
108 12 0.14
109 66 0.80
110 5 0.06
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.36
Consensus pattern (109 bp):
TCAAAGATTCTCATTTAAAAATTTTAGGAATTCACATCCAAAATTTCAAACATTCACATTTGAAA
TTCTAGAGATTCACATCCAAAATTCAAAGATTTGCATTTGAAAC
Found at i:10066225 original size:89 final size:89
Alignment explanation
Indices: 10066107--10066271 Score: 219
Period size: 89 Copynumber: 1.8 Consensus size: 89
10066097 ACATTCACAT
*
10066107 TTTGAAAATTTAGAGATTCACATCCAAAATTCAAAGATTCAC-ATTT-CAAAATTCAAAAATT-T
1 TTTGAAAATTTAGAGATTCACATCCAAAATTCAAAGATTC-CTATTTAAAAAATTCAAAAATTCT
10066169 GCATTTGAAAAGTTCAAAAAGTCTTA
65 -CATTTGAAAAGTTCAAAAAGTCTTA
* * * *
10066195 TTTGCAAATTTTAGAGATTTACATCTAAAATTCAAATATTCCTATTTGAAAAAAATTCAAAAATT
1 TTTG-AAAATTTAGAGATTCACATCCAAAATTCAAAGATTCCTATTT--AAAAAATTCAAAAATT
10066260 CTCATTTGAAAA
63 CTCATTTGAAAA
10066272 TTTTAGAGAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
88 5 0.08
89 36 0.55
92 24 0.36
93 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (89 bp):
TTTGAAAATTTAGAGATTCACATCCAAAATTCAAAGATTCCTATTTAAAAAATTCAAAAATTCTC
ATTTGAAAAGTTCAAAAAGTCTTA
Found at i:10066250 original size:25 final size:25
Alignment explanation
Indices: 10066221--10066271 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
10066211 ATTTACATCT
*
10066221 AAAATTCAAATATTC-CTATTTGAAA
1 AAAATTCAAAAATTCTC-ATTTGAAA
10066246 AAAATTCAAAAATTCTCATTTGAAA
1 AAAATTCAAAAATTCTCATTTGAAA
10066271 A
1 A
10066272 TTTTAGAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAATTCAAAAATTCTCATTTGAAA
Found at i:10066674 original size:59 final size:59
Alignment explanation
Indices: 10066602--10066718 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
10066592 ATCCAGAATC
* *
10066602 AAAGTTTCTTATCCATCTATCAACTATCATCAATGCAATGCATGTAATGCAAATGTCAT
1 AAAGTTTCTTATCCATCAATCAACTATCATCAATACAATGCATGTAATGCAAATGTCAT
10066661 AAAGTTTCTTATCCATCAATCAACTATCATCAATACAATGCATGTAATGCAAATGTCA
1 AAAGTTTCTTATCCATCAATCAACTATCATCAATACAATGCATGTAATGCAAATGTCA
10066719 ATCAACGTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (59 bp):
AAAGTTTCTTATCCATCAATCAACTATCATCAATACAATGCATGTAATGCAAATGTCAT
Found at i:10067777 original size:31 final size:31
Alignment explanation
Indices: 10067742--10067801 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
10067732 TCAAAGAATC
*
10067742 TTTCTTTTTTC-ATTTATTTCATTTCTTTTCT
1 TTTCTTTTATCGATTT-TTTCATTTCTTTTCT
*
10067773 TTTCTTTTATCGCTTTTTTCATTTCTTTT
1 TTTCTTTTATCGATTTTTTCATTTCTTTT
10067802 TTCTTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (31 bp):
TTTCTTTTATCGATTTTTTCATTTCTTTTCT
Found at i:10072248 original size:37 final size:37
Alignment explanation
Indices: 10072168--10072279 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
10072158 ATAATGAGTG
*
10072168 TAAGAGAACAAGTAATGAAAATATTTTCCT-AAAAAA
1 TAAGAGAACAAGTAATGAAAATATTTTTCTAAAAAAA
* *
10072204 -AGGAGAACAAGTAATGAAAGTATTTTTCTAAAAAAA
1 TAAGAGAACAAGTAATGAAAATATTTTTCTAAAAAAA
10072240 TAAGAGAACAAGTAAT-AAGAATATTTCTT-TAAAAAAA
1 TAAGAGAACAAGTAATGAA-AATATTT-TTCTAAAAAAA
10072277 TAA
1 TAA
10072280 AAATTAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
35 26 0.39
36 8 0.12
37 31 0.46
38 2 0.03
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.26
Consensus pattern (37 bp):
TAAGAGAACAAGTAATGAAAATATTTTTCTAAAAAAA
Found at i:10082176 original size:16 final size:16
Alignment explanation
Indices: 10082139--10082176 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10082129 TATTCTGTAC
10082139 AAAAT-ATTGTTTCAT
1 AAAATAATTGTTTCAT
*
10082154 -GAATAATTGTTTCAT
1 AAAATAATTGTTTCAT
10082169 AAAATAAT
1 AAAATAAT
10082177 ATTCATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 3 0.16
15 10 0.53
16 6 0.32
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (16 bp):
AAAATAATTGTTTCAT
Found at i:10083947 original size:23 final size:23
Alignment explanation
Indices: 10083921--10083965 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10083911 ACATTTTTTT
10083921 ATTAAATAAAA-TTGACTTAATAC
1 ATTAAATAAAAGTT-ACTTAATAC
**
10083944 ATTAGTTAAAAGTTACTTAATA
1 ATTAAATAAAAGTTACTTAATA
10083966 TTTTCAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (23 bp):
ATTAAATAAAAGTTACTTAATAC
Found at i:10089175 original size:14 final size:14
Alignment explanation
Indices: 10089156--10089204 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
10089146 AATAGATATG
10089156 ATATTTAAATTTTA
1 ATATTTAAATTTTA
*
10089170 ATATTTAAATTTTTT
1 ATATTTAAA-TTTTA
* *
10089185 ATTTTTAAATTATA
1 ATATTTAAATTTTA
10089199 AT-TTTA
1 ATATTTA
10089205 TTTTATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 14 0.47
15 12 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTTAAATTTTA
Found at i:10089191 original size:15 final size:15
Alignment explanation
Indices: 10089156--10089195 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10089146 AATAGATATG
10089156 ATATTTAAA-TTTTA
1 ATATTTAAATTTTTA
*
10089170 ATATTTAAATTTTTT
1 ATATTTAAATTTTTA
*
10089185 ATTTTTAAATT
1 ATATTTAAATT
10089196 ATAATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTAAATTTTTA
Found at i:10093179 original size:23 final size:23
Alignment explanation
Indices: 10093153--10093201 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
10093143 TATTTTATTC
*
10093153 TTTAAAAATTTTTC-ATGAAAAAT
1 TTTAAAAA-TGTTCAATGAAAAAT
* *
10093176 TTTAGAAATGTTCAATGAAAAGT
1 TTTAAAAATGTTCAATGAAAAAT
10093199 TTT
1 TTT
10093202 TCTTTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (23 bp):
TTTAAAAATGTTCAATGAAAAAT
Found at i:10093713 original size:35 final size:35
Alignment explanation
Indices: 10093655--10093723 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 35
10093645 TATTAGGTTA
10093655 AATATTGATAATTAATATATTTATATCATAAAAATTTG
1 AATATTGATAATT-ATATATTTATAT-A-AAAAATTTG
10093693 AATATT-ATAATT-TATATTTATATAAAAAATT
1 AATATTGATAATTATATATTTATATAAAAAATT
10093724 AAATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 7 0.23
34 1 0.03
35 11 0.35
37 6 0.19
38 6 0.19
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (35 bp):
AATATTGATAATTATATATTTATATAAAAAATTTG
Found at i:10093740 original size:33 final size:33
Alignment explanation
Indices: 10093652--10093742 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 33
10093642 TTATATTAGG
10093652 TTAAATATTGATAATTAATATATTTATATCATAAAAAT
1 TTAAATATT-ATAATT--TATATTTATAT-A-AAAAAT
*
10093690 TTGAATATTATAATTTATATTTATATAAAAAA-
1 TTAAATATTATAATTTATATTTATATAAAAAAT
* *
10093722 TTAAATA-TATATTTTTTATTT
1 TTAAATATTATAATTTATATTT
10093743 TATTAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
31 12 0.24
32 6 0.12
33 5 0.10
34 1 0.02
35 11 0.22
37 6 0.12
38 8 0.16
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (33 bp):
TTAAATATTATAATTTATATTTATATAAAAAAT
Found at i:10093745 original size:32 final size:31
Alignment explanation
Indices: 10093652--10093749 Score: 81
Period size: 33 Copynumber: 2.9 Consensus size: 31
10093642 TTATATTAGG
10093652 TTAAATATTGATAATTAATATATTTATATCATAAAAA
1 TTAAATATT-ATAATT--TAT-TTTATAT-A-AAAAA
*
10093689 TTTGAATATTATAATTTATATTTATATAAAAAA
1 -TTAAATATTATAATTTAT-TTTATATAAAAAA
**
10093722 TTAAATATATATTTTTTATTTTAT-TAAA
1 TTAAATAT-TATAATTTATTTTATATAAA
10093750 TTTATATATA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
31 4 0.07
32 12 0.22
33 13 0.24
34 1 0.02
35 11 0.20
37 6 0.11
38 8 0.15
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (31 bp):
TTAAATATTATAATTTATTTTATATAAAAAA
Found at i:10094413 original size:18 final size:18
Alignment explanation
Indices: 10094390--10094424 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10094380 TAATTTATCA
10094390 TAAAAA-TAAATAATATTT
1 TAAAAATTAAA-AATATTT
10094408 TAAAAATTAAAAATATT
1 TAAAAATTAAAAATATT
10094425 ATTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAAATTAAAAATATTT
Found at i:10094766 original size:34 final size:33
Alignment explanation
Indices: 10094666--10094766 Score: 87
Period size: 34 Copynumber: 3.0 Consensus size: 33
10094656 GATTTGTGCA
10094666 ATGCACGGATAAAAATTTTAATTTATACTAATT
1 ATGCACGGATAAAAATTTTAATTTATACTAATT
* ** *** * * *
10094699 TTTAAATAAAATAAAATTTTAA-ATACTAATAATT
1 ATGCACGGATA-AAAATTTTAATTTA-TACTAATT
10094733 GATGCACGGATAAAAATTTTAATTTATACTAATT
1 -ATGCACGGATAAAAATTTTAATTTATACTAATT
10094767 TTAAAATTTT
Statistics
Matches: 46, Mismatches: 18, Indels: 7
0.65 0.25 0.10
Matches are distributed among these distances:
33 6 0.13
34 34 0.74
35 6 0.13
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (33 bp):
ATGCACGGATAAAAATTTTAATTTATACTAATT
Found at i:10095967 original size:2 final size:2
Alignment explanation
Indices: 10095960--10095995 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10095950 ACATTTATGA
* *
10095960 AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10095996 TATCTATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10099081 original size:14 final size:13
Alignment explanation
Indices: 10099062--10099099 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
10099052 TGGATAGTGG
*
10099062 GCTCTCTCTCTATT
1 GCTCTCTCTCT-CT
10099076 GCTCTCTCTCTCT
1 GCTCTCTCTCTCT
10099089 -CTCTCTCTCTC
1 GCTCTCTCTCTC
10099100 GGGCGCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 1 0.04
14 11 0.48
ACGTcount: A:0.03, C:0.45, G:0.05, T:0.47
Consensus pattern (13 bp):
GCTCTCTCTCTCT
Found at i:10104625 original size:11 final size:11
Alignment explanation
Indices: 10104605--10104636 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
10104595 AATATCTCGC
10104605 AAAA-AAAAAA
1 AAAAGAAAAAA
10104615 AAAAGAAAAAA
1 AAAAGAAAAAA
10104626 AAAAGAAAAAA
1 AAAAGAAAAAA
10104637 TTCTCTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:10104668 original size:2 final size:2
Alignment explanation
Indices: 10104661--10104685 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10104651 CACATTCAAC
10104661 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10104686 AAGATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10106292 original size:18 final size:16
Alignment explanation
Indices: 10106271--10106321 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
10106261 TGTCTTATTT
10106271 TTTATTACTTATTCTTAA
1 TTTATTA-TTATT-TTAA
*
10106289 TTTATTAATTACTTTTTA
1 TTTATT-ATTA-TTTTAA
10106307 TTTATTATTATTTTA
1 TTTATTATTATTTTA
10106322 TAACAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 18 0.62
19 3 0.10
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTATTATTTTAA
Found at i:10106528 original size:21 final size:22
Alignment explanation
Indices: 10106502--10106544 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
10106492 ATTAGTTTAG
10106502 TATTAT-TATTAAA-TTTATTTT
1 TATTATCT-TTAAAGTTTATTTT
10106523 TATTATCTTTAAAGTTTATTTT
1 TATTATCTTTAAAGTTTATTTT
10106545 AAAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATCTTTAAAGTTTATTTT
Found at i:10106655 original size:21 final size:20
Alignment explanation
Indices: 10106631--10106671 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10106621 GCATAAATAT
10106631 TAAGAAAATAATAT-AAAAAAA
1 TAAGAAAA-AAT-TCAAAAAAA
10106652 TAAGAAAAAATTCAAAAAAA
1 TAAGAAAAAATTCAAAAAAA
10106672 ATTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 10 0.53
21 8 0.42
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (20 bp):
TAAGAAAAAATTCAAAAAAA
Found at i:10107272 original size:20 final size:19
Alignment explanation
Indices: 10107247--10107292 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
10107237 AGTGAAACTA
**
10107247 TTTTTTTTGTATTCTGACT
1 TTTTTTTTGTAAACTGACT
*
10107266 CTTTTTTTTTTAAACTGACT
1 -TTTTTTTTGTAAACTGACT
10107286 TTTTTTT
1 TTTTTTT
10107293 CTTCTTAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTTTTGTAAACTGACT
Found at i:10107675 original size:9 final size:9
Alignment explanation
Indices: 10107661--10107695 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
10107651 GCCATCCCCG
10107661 ATTTTTTTT
1 ATTTTTTTT
10107670 ATTTTTTTT
1 ATTTTTTTT
* *
10107679 ATATTTTAT
1 ATTTTTTTT
10107688 ATTTTTTT
1 ATTTTTTT
10107696 GGTATTTCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:10107701 original size:18 final size:18
Alignment explanation
Indices: 10107664--10107702 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10107654 ATCCCCGATT
* *
10107664 TTTTTTATTTTTTTTATA
1 TTTTATATTTTTTTGATA
*
10107682 TTTTATATTTTTTTGGTA
1 TTTTATATTTTTTTGATA
10107700 TTT
1 TTT
10107703 CGTATTTCAT
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:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTATATTTTTTTGATA
Found at i:10107752 original size:11 final size:12
Alignment explanation
Indices: 10107665--10107755 Score: 50
Period size: 11 Copynumber: 7.7 Consensus size: 12
10107655 TCCCCGATTT
10107665 TTTTTATTT-T-
1 TTTTTATTTATA
10107675 TTTTATATTTTATA
1 TTTT-TA-TTTATA
**
10107689 TTTTT-TTGGTA
1 TTTTTATTTATA
*
10107700 TTTCGTATTTCATA
1 TTT-TTATTT-ATA
*
10107714 TTTTGATTT-T-
1 TTTTTATTTATA
*
10107724 TTTGTATTTTATA
1 TTTTTA-TTTATA
10107737 TTTTTATTTA-A
1 TTTTTATTTATA
10107748 TTTTTATT
1 TTTTTATT
10107756 ATTGTATTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
10 8 0.13
11 22 0.36
12 9 0.15
13 13 0.21
14 9 0.15
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (12 bp):
TTTTTATTTATA
Found at i:10109655 original size:2 final size:2
Alignment explanation
Indices: 10109642--10109690 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
10109632 CACCAGTAAG
* *
10109642 AT AT AA AT AT AT AT AT AT AT AC 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
10109684 AT AT AT A
1 AT AT AT A
10109691 CAGTTTTGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10114524 original size:28 final size:30
Alignment explanation
Indices: 10114470--10114525 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
10114460 TGTGTTTGAA
* *
10114470 AAATAATTTTCTTGATTTTTTATTTATTAG
1 AAATAATTTTCTTGATTTGTTAATTATTAG
*
10114500 AAATTATTTT-TT-ATTTGTTAATTATT
1 AAATAATTTTCTTGATTTGTTAATTATT
10114526 GTTTCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.52
29 2 0.09
30 9 0.39
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (30 bp):
AAATAATTTTCTTGATTTGTTAATTATTAG
Found at i:10115129 original size:11 final size:11
Alignment explanation
Indices: 10115113--10115138 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10115103 GGATAAAAAT
10115113 TTTTTTTCTTA
1 TTTTTTTCTTA
10115124 TTTTTTTCTTA
1 TTTTTTTCTTA
10115135 TTTT
1 TTTT
10115139 ATAAGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTTA
Found at i:10115318 original size:21 final size:21
Alignment explanation
Indices: 10115272--10115330 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
10115262 TATTAAGAAT
* * * *
10115272 AATAATTAAAATAATATAAAT
1 AATATTTAAAAAAATCTAAAA
10115293 AATATTTAAAAAAATCTAAAA
1 AATATTTAAAAAAATCTAAAA
*
10115314 AATATTTTAAAAAATCT
1 AATATTTAAAAAAATCT
10115331 TTTTTTTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATTTAAAAAAATCTAAAA
Found at i:10116289 original size:11 final size:11
Alignment explanation
Indices: 10116273--10116327 Score: 55
Period size: 10 Copynumber: 5.4 Consensus size: 11
10116263 TGCCACCCTT
10116273 TTTTTTGTATA
1 TTTTTTGTATA
10116284 TTTTTTGTATA
1 TTTTTTGTATA
* *
10116295 -TTATTAT-TA
1 TTTTTTGTATA
10116304 TTTTTT-TATA
1 TTTTTTGTATA
*
10116314 TATTTTGTAT-
1 TTTTTTGTATA
10116324 TTTT
1 TTTT
10116328 GTTTAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
9 3 0.08
10 19 0.53
11 14 0.39
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (11 bp):
TTTTTTGTATA
Found at i:10116313 original size:19 final size:20
Alignment explanation
Indices: 10116282--10116327 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10116272 TTTTTTTGTA
10116282 TATTTTTTGTATATTATTAT-
1 TATTTTTTGTATA-TATTATG
*
10116302 TATTTTTT-TATATATTTTG
1 TATTTTTTGTATATATTATG
10116321 TATTTTT
1 TATTTTT
10116328 GTTTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 8 0.33
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (20 bp):
TATTTTTTGTATATATTATG
Found at i:10116477 original size:28 final size:28
Alignment explanation
Indices: 10116420--10116488 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
10116410 ATCTCTTTTG
* * *
10116420 GCCCAGTTAAATTAAAATCGGACTTGAA
1 GCCCAGTTGAATTAAAATCGGACCTAAA
10116448 GCCCAGTTGAATTAAAATC-GAGCCTAAA
1 GCCCAGTTGAATTAAAATCGGA-CCTAAA
*
10116476 GCCCAATTGAATT
1 GCCCAGTTGAATT
10116489 GCAATCGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (28 bp):
GCCCAGTTGAATTAAAATCGGACCTAAA
Found at i:10127091 original size:28 final size:28
Alignment explanation
Indices: 10127031--10127092 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
10127021 GACTGAGACC
* * *
10127031 TGATTTCAATTCAACTGGGCTTCAGGCT
1 TGATTTCAATTCAACTGGGCCTAAAGCT
* * *
10127059 CGATTTCAATTCGACTGGGCCTAAAGTT
1 TGATTTCAATTCAACTGGGCCTAAAGCT
10127087 TGATTT
1 TGATTT
10127093 TGATCGGGCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (28 bp):
TGATTTCAATTCAACTGGGCCTAAAGCT
Found at i:10129995 original size:10 final size:10
Alignment explanation
Indices: 10129980--10130052 Score: 69
Period size: 10 Copynumber: 7.2 Consensus size: 10
10129970 ACAAAAATAC
10129980 AAAATACAAA
1 AAAATACAAA
10129990 AAAATACAAA
1 AAAATACAAA
*
10130000 AATATA-AAA
1 AAAATACAAA
*
10130009 TAAAATAAAAAA
1 -AAAAT-ACAAA
*
10130021 ATAAAAACAAA
1 A-AAATACAAA
*
10130032 AAAATAGAAA
1 AAAATACAAA
10130042 AAAA-ACAAA
1 AAAATACAAA
10130051 AA
1 AA
10130053 GGGGTTGGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
9 9 0.17
10 30 0.58
11 7 0.13
12 6 0.12
ACGTcount: A:0.82, C:0.05, G:0.01, T:0.11
Consensus pattern (10 bp):
AAAATACAAA
Found at i:10129995 original size:25 final size:25
Alignment explanation
Indices: 10129967--10130052 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
10129957 AAAAATATAG
* *
10129967 AATACAAAAATACAAAATACAAAAA
1 AATACAAAAATAAAAAATAAAAAAA
*
10129992 AATACAAAAATATAAAATAAAATAAA
1 AATACAAAAATAAAAAATAAAA-AAA
* * * *
10130018 AAAATAAAAACAAAAAAATAGAAAAA
1 AATACAAAAA-TAAAAAATAAAAAAA
10130044 AA-ACAAAAA
1 AATACAAAAA
10130053 GGGGTTGGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 26 0.51
26 16 0.31
27 9 0.18
ACGTcount: A:0.80, C:0.07, G:0.01, T:0.12
Consensus pattern (25 bp):
AATACAAAAATAAAAAATAAAAAAA
Found at i:10130001 original size:18 final size:18
Alignment explanation
Indices: 10129972--10130032 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 18
10129962 TATAGAATAC
*
10129972 AAAAATAC-AAAATACAA
1 AAAAATACAAAAATAAAA
10129989 AAAAATACAAAAATATAAA
1 AAAAATACAAAAATA-AAA
*
10130008 ATAAAATAAAAAAATAAAA
1 A-AAAATACAAAAATAAAA
10130027 ACAAAA
1 A-AAAA
10130033 AAATAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 8 0.21
18 6 0.16
19 11 0.29
20 13 0.34
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAATACAAAAATAAAA
Found at i:10130021 original size:8 final size:8
Alignment explanation
Indices: 10129967--10130044 Score: 52
Period size: 8 Copynumber: 9.2 Consensus size: 8
10129957 AAAAATATAG
*
10129967 AATACAAA
1 AATAAAAA
10129975 AATACAAAA
1 AATA-AAAA
* *
10129984 TACAAAAA
1 AATAAAAA
10129992 AATACAAAA
1 AATA-AAAA
10130001 ATATAAAATAA
1 A-AT-AAA-AA
10130012 AATAAAAA
1 AATAAAAA
10130020 AAT--AAA
1 AATAAAAA
*
10130026 AACAAAAA
1 AATAAAAA
10130034 AATAGAAAA
1 AATA-AAAA
10130043 AA
1 AA
10130045 AACAAAAAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
6 5 0.09
8 21 0.38
9 19 0.35
10 6 0.11
11 4 0.07
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.13
Consensus pattern (8 bp):
AATAAAAA
Found at i:10130027 original size:7 final size:7
Alignment explanation
Indices: 10129901--10130043 Score: 58
Period size: 7 Copynumber: 18.9 Consensus size: 7
10129891 CCGGTCATAA
10129901 AAAAAAT
1 AAAAAAT
*
10129908 AATAAAT
1 AAAAAAT
10129915 AAAAAAT
1 AAAAAAT
*
10129922 AATAATATT
1 AA-AA-AAT
**
10129931 ATTAAAT
1 AAAAAAT
*
10129938 ATAATAAT
1 A-AAAAAT
*
10129946 AAAAATT
1 AAAAAAT
10129953 AAACAAA-
1 AAA-AAAT
10129960 AATATAGAAT
1 AA-A-A-AAT
10129970 ACAAAAAT
1 A-AAAAAT
*
10129978 ACAAAATACA
1 A-AAAA-A-T
10129988 AAAAAAT
1 AAAAAAT
10129995 ACAAAAAT
1 A-AAAAAT
*
10130003 ATAAAAT
1 AAAAAAT
*
10130010 AAAATA-
1 AAAAAAT
10130016 AAAAAAT
1 AAAAAAT
10130023 AAAAACA-
1 AAAAA-AT
10130030 AAAAAAT
1 AAAAAAT
10130037 AGAAAAA
1 A-AAAAA
10130044 AAACAAAAAG
Statistics
Matches: 102, Mismatches: 19, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
6 6 0.06
7 47 0.46
8 34 0.33
9 11 0.11
10 3 0.03
11 1 0.01
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:10130042 original size:15 final size:14
Alignment explanation
Indices: 10129953--10130046 Score: 68
Period size: 15 Copynumber: 6.6 Consensus size: 14
10129943 AATAAAAATT
*
10129953 AAACAAAAATATAGA
1 AAACAAAAAAATA-A
* * *
10129968 ATACAAAAATACAA
1 AAACAAAAAAATAA
10129982 AATACAAAAAAATACA
1 AA-ACAAAAAAATA-A
*
10129998 AAA-ATATAAAAT-A
1 AAACA-AAAAAATAA
*
10130011 AAATAAAAAAATAA
1 AAACAAAAAAATAA
10130025 AAACAAAAAAATAGA
1 AAACAAAAAAATA-A
10130040 AAA-AAAA
1 AAACAAAA
10130047 CAAAAAGGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
13 10 0.15
14 21 0.32
15 31 0.48
16 3 0.05
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.13
Consensus pattern (14 bp):
AAACAAAAAAATAA
Found at i:10143346 original size:49 final size:49
Alignment explanation
Indices: 10143289--10143544 Score: 247
Period size: 49 Copynumber: 5.3 Consensus size: 49
10143279 AACTCGATTT
*
10143289 GGAGCTTTTTTCAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGA
1 GGAGCTTTTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
* * *
10143338 GGAGC--TTTTCAAATGAGA-TTTTAAAGTTGTTGAGCCTCTGTTAAGA
1 GGAGCTTTTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
* * * *
10143384 GGAGC-ATTTTCA-A-GAGAATTTTTAAAATTGTTGAGCCTCTGTTGAAA
1 GGAGCTTTTTTCAGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
* * ** *
10143431 GGAGCTTTTTCCAAAATGA-AAATTTAAAGTTGTTGAGCTTCTGCTGAGA
1 GGAGCTTTTTTC-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
* * * ** * * *
10143480 GAAGCTTTTTTAAGATAAGATTTCAAAAATTGTTAAGCCTTTGCTGAGA
1 GGAGCTTTTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
*
10143529 GGAGCCTTTTTCAGAT
1 GGAGCTTTTTTCAGAT
10143545 TTTAAATTTT
Statistics
Matches: 168, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
45 3 0.02
46 32 0.19
47 48 0.29
48 8 0.05
49 74 0.44
50 1 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (49 bp):
GGAGCTTTTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
Found at i:10143394 original size:47 final size:47
Alignment explanation
Indices: 10143296--10143488 Score: 198
Period size: 47 Copynumber: 4.1 Consensus size: 47
10143286 TTTGGAGCTT
* * * *
10143296 TTTTCAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
1 TTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGC
10143343 TTTTCAAATGAGA-TTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGC
1 TTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGC
*
10143389 ATTTTC-AA-GAGAATTTTTAAAATTGTTGAGCCTCTGTTGAA-AGGAGC
1 -TTTTCAAATGAG-ATTTTTAAAGTTGTTGAGCCTCTGTT-AAGAGGAGC
** * * * *
10143436 TTTTTCCAAAATGA-AAATTTAAAGTTGTTGAGCTTCTGCTGAGAGAAGC
1 -TTTT-C-AAATGAGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGC
10143485 TTTT
1 TTTT
10143489 TTAAGATAAG
Statistics
Matches: 124, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
45 3 0.02
46 33 0.27
47 50 0.40
48 8 0.06
49 26 0.21
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (47 bp):
TTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGTTAAGAGGAGC
Found at i:10143553 original size:98 final size:96
Alignment explanation
Indices: 10143324--10143540 Score: 242
Period size: 96 Copynumber: 2.3 Consensus size: 96
10143314 AAAGTTATTG
* * * * *
10143324 AGCCTCTGCTGAGAGGAGC-TTTT-C-AAATGAGATTTTAAAGTTGTTGAGCCTCTGTTAAGAGG
1 AGCCTCTGCTGAAAGGAGCTTTTTCCAAAATGAAAATTTAAAGTTGTTGAGCCTCTGCTAAGAGA
* ** *
10143386 AGCATTTTCAAGAGAATTTTTAAAATTGTTG
66 AGCATTTTCAAGAAAATTTCAAAAATTGTTA
* * *
10143417 AGCCTCTGTTGAAAGGAGCTTTTTCCAAAATGAAAATTTAAAGTTGTTGAGCTTCTGCTGAGAGA
1 AGCCTCTGCTGAAAGGAGCTTTTTCCAAAATGAAAATTTAAAGTTGTTGAGCCTCTGCTAAGAGA
* *
10143482 AGCTTTTTTAAGATAAGATTTCAAAAATTGTTA
66 AGCATTTTCAAGA-AA-ATTTCAAAAATTGTTA
* *
10143515 AGCCTTTGCTGAGAGGAGCCTTTTTC
1 AGCCTCTGCTGAAAGGAG-CTTTTTC
10143541 AGATTTTAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
93 17 0.17
94 4 0.04
95 1 0.01
96 43 0.43
97 1 0.01
98 28 0.28
99 7 0.07
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (96 bp):
AGCCTCTGCTGAAAGGAGCTTTTTCCAAAATGAAAATTTAAAGTTGTTGAGCCTCTGCTAAGAGA
AGCATTTTCAAGAAAATTTCAAAAATTGTTA
Found at i:10143838 original size:15 final size:15
Alignment explanation
Indices: 10143818--10143905 Score: 58
Period size: 13 Copynumber: 5.9 Consensus size: 15
10143808 CAAAAATTAA
*
10143818 ACAAAAATACAGAAT
1 ACAAAAATACAAAAT
10143833 ACAAAAATACAAAATT
1 ACAAAAATACAAAA-T
* *
10143849 CAAAAAAATATAAAAAT
1 -ACAAAAATA-CAAAAT
*
10143866 AAAAAAATAC--AAT
1 ACAAAAATACAAAAT
* *
10143879 AAAAAAATA-AAAAC
1 ACAAAAATACAAAAT
*
10143893 A-AAAAAAACAAAA
1 ACAAAAATACAAAA
10143906 CAAAGAAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
13 18 0.30
14 7 0.11
15 13 0.21
16 10 0.16
17 9 0.15
18 4 0.07
ACGTcount: A:0.77, C:0.09, G:0.01, T:0.12
Consensus pattern (15 bp):
ACAAAAATACAAAAT
Found at i:10143843 original size:8 final size:8
Alignment explanation
Indices: 10143818--10143877 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
10143808 CAAAAATTAA
10143818 ACAAAAAT
1 ACAAAAAT
*
10143826 AC-AGAAT
1 ACAAAAAT
10143833 ACAAAAAT
1 ACAAAAAT
*
10143841 ACAAAATT
1 ACAAAAAT
*
10143849 CAAAAAAAT
1 -ACAAAAAT
*
10143858 ATAAAAAT
1 ACAAAAAT
*
10143866 AAAAAAAT
1 ACAAAAAT
10143874 ACAA
1 ACAA
10143878 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
7 6 0.14
8 30 0.71
9 6 0.14
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (8 bp):
ACAAAAAT
Found at i:10143887 original size:8 final size:8
Alignment explanation
Indices: 10143830--10143905 Score: 52
Period size: 8 Copynumber: 9.9 Consensus size: 8
10143820 AAAAATACAG
*
10143830 AATACAAA
1 AATAAAAA
*
10143838 AATACAAA
1 AATAAAAA
*
10143846 ATTCAAAAA
1 AAT-AAAAA
*
10143855 AATATAAA
1 AATAAAAA
10143863 AATAAAAA
1 AATAAAAA
*
10143871 AAT---AC
1 AATAAAAA
10143876 AATAAAAA
1 AATAAAAA
10143884 AATAAAAA
1 AATAAAAA
*
10143892 CA-AAAAA
1 AATAAAAA
*
10143899 AACAAAA
1 AATAAAA
10143906 CAAAGAAAGG
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
5 4 0.07
7 6 0.11
8 38 0.70
9 6 0.11
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (8 bp):
AATAAAAA
Found at i:10143896 original size:26 final size:26
Alignment explanation
Indices: 10143835--10143905 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 26
10143825 TACAGAATAC
* * *
10143835 AAAAAT-ACAAAATTCAAAAAAATAT
1 AAAAATAAAAAAATACAAAAAAAAAT
10143860 AAAAATAAAAAAATACAATAAAAAAAT
1 AAAAATAAAAAAATACAA-AAAAAAAT
*
10143887 AAAAACAAAAAAA-ACAAAA
1 AAAAATAAAAAAATACAAAA
10143906 CAAAGAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 8 0.20
26 13 0.32
27 19 0.47
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (26 bp):
AAAAATAAAAAAATACAAAAAAAAAT
Found at i:10143898 original size:14 final size:14
Alignment explanation
Indices: 10143851--10143909 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
10143841 ACAAAATTCA
*
10143851 AAAAAATATAAAAAT
1 AAAAAA-ATAAAAAC
* *
10143866 AAAAAAAT-ACAAT
1 AAAAAAATAAAAAC
10143879 AAAAAAATAAAAAC
1 AAAAAAATAAAAAC
10143893 AAAAAAA-ACAAAAC
1 AAAAAAATA-AAAAC
10143907 AAA
1 AAA
10143910 GAAAGGGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
13 13 0.33
14 20 0.51
15 6 0.15
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAAAAATAAAAAC
Found at i:10144901 original size:21 final size:21
Alignment explanation
Indices: 10144862--10144901 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10144852 GTAAAAAGAA
*
10144862 TATTTTTAAAAATTTTTTTCT
1 TATTTTTAAAAATTATTTTCT
* *
10144883 TATTTTTATATATTATTTT
1 TATTTTTAAAAATTATTTT
10144902 ATTGATATTT
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:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTTTAAAAATTATTTTCT
Found at i:10154381 original size:17 final size:17
Alignment explanation
Indices: 10154359--10154396 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10154349 TTTTAGAAAT
10154359 TTTATTAATT-TTTATTA
1 TTTATT-ATTATTTATTA
*
10154376 TTTATTATTATTTTTTA
1 TTTATTATTATTTATTA
10154393 TTTA
1 TTTA
10154397 AAGAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTATTATTTATTA
Found at i:10155976 original size:8 final size:8
Alignment explanation
Indices: 10155965--10156115 Score: 158
Period size: 7 Copynumber: 19.6 Consensus size: 8
10155955 CTTTTTATTT
10155965 TTTTTGTA
1 TTTTTGTA
10155973 -TTTTGTA
1 TTTTTGTA
10155980 -TTTTGTA
1 TTTTTGTA
10155987 -TTTTGTA
1 TTTTTGTA
10155994 TTTTTGTAA
1 TTTTTGT-A
10156003 TTTTTGGTA
1 TTTTT-GTA
10156012 -TTTTGTA
1 TTTTTGTA
10156019 -TTTTGTA
1 TTTTTGTA
*
10156026 TTTTGGTA
1 TTTTTGTA
10156034 -TTTTGTA
1 TTTTTGTA
*
10156041 TTTTGGTA
1 TTTTTGTA
10156049 -TTTTGTA
1 TTTTTGTA
*
10156056 -TTTTATA
1 TTTTTGTA
*
10156063 -TTTTATA
1 TTTTTGTA
10156070 TTTTTGTA
1 TTTTTGTA
*
10156078 TTTTTGCA
1 TTTTTGTA
10156086 TTTTTGTA
1 TTTTTGTA
*
10156094 TTTTTTTA
1 TTTTTGTA
10156102 TATTTTGTA
1 T-TTTTGTA
10156111 TTTTT
1 TTTTT
10156116 AATTTAATAA
Statistics
Matches: 126, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
7 56 0.44
8 54 0.43
9 14 0.11
10 2 0.02
ACGTcount: A:0.15, C:0.01, G:0.13, T:0.72
Consensus pattern (8 bp):
TTTTTGTA
Found at i:10155998 original size:15 final size:15
Alignment explanation
Indices: 10155965--10156114 Score: 171
Period size: 15 Copynumber: 9.8 Consensus size: 15
10155955 CTTTTTATTT
10155965 TTTTTGTATTTTGTA
1 TTTTTGTATTTTGTA
10155980 -TTTTGTATTTTGTA
1 TTTTTGTATTTTGTA
10155994 TTTTTGTAATTTTTGGTA
1 TTTTTGT-A-TTTT-GTA
10156012 -TTTTGTATTTTGTA
1 TTTTTGTATTTTGTA
*
10156026 TTTTGGTATTTTGTA
1 TTTTTGTATTTTGTA
*
10156041 TTTTGGTATTTTGTA
1 TTTTTGTATTTTGTA
* *
10156056 -TTTTATATTTTATA
1 TTTTTGTATTTTGTA
*
10156070 TTTTTGTATTTTTGCA
1 TTTTTGTA-TTTTGTA
*
10156086 TTTTTGTATTTTTTTA
1 TTTTTGTA-TTTTGTA
10156102 TATTTTGTATTTT
1 T-TTTTGTATTTT
10156115 TAATTTAATA
Statistics
Matches: 118, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
14 28 0.24
15 44 0.37
16 26 0.22
17 17 0.14
18 3 0.03
ACGTcount: A:0.15, C:0.01, G:0.13, T:0.71
Consensus pattern (15 bp):
TTTTTGTATTTTGTA
Found at i:10156257 original size:28 final size:28
Alignment explanation
Indices: 10156181--10156274 Score: 107
Period size: 28 Copynumber: 3.4 Consensus size: 28
10156171 CTTTGGGCCC
* * * *
10156181 AATTGAAATCGGACCTGAAGCACAGTCA
1 AATTGAAATCGGGCCTGAAGCCCAATTA
*
10156209 AATTGAAATCGGGCCTAAAGCCCAATTA
1 AATTGAAATCGGGCCTGAAGCCCAATTA
* * * *
10156237 AATTGAAATTGGGCATGAAGCCCATTTG
1 AATTGAAATCGGGCCTGAAGCCCAATTA
10156265 AATTGAAATC
1 AATTGAAATC
10156275 AGGTATCGGC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (28 bp):
AATTGAAATCGGGCCTGAAGCCCAATTA
Found at i:10156743 original size:95 final size:95
Alignment explanation
Indices: 10156593--10156948 Score: 376
Period size: 95 Copynumber: 3.7 Consensus size: 95
10156583 TCTTTTCAAT
* * ** *
10156593 AGAGGCTCAACAACTTTAAGAATCTCATCTTGAAAAGGTTTTCTTAGCAGAGGCTCAACAACTTT
1 AGAGGCTCAACAACTTTAAAAATC-CATCTTGAAAAGCTCCTCTTAGCAAAGGCTCAACAACTTT
**
10156658 AAAATTTTAACTTGAAAAGGCTTTTCTTAGC
65 AAAATTTTAACTTGAAAAGGCTCCTCTTAGC
* * *
10156689 AGAGGTTCAACAACATTAAAAATCCATCTTGAAAAGCTCCTCTTAGCAAAGGCTCAATAACTTTA
1 AGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAGCTCCTCTTAGCAAAGGCTCAACAACTTTA
* * **
10156754 AAATTTTATCTTAAAAAGGCTCCTCTTATT
66 AAATTTTAACTTGAAAAGGCTCCTCTTAGC
** * * *
10156784 AGAAACTTAACAACTTTAAAAATCTATCTTGAAAAGCTCCTCTCAGCAGAA-GCTCAACAACTTT
1 AGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAGCTCCTCTTAGCA-AAGGCTCAACAACTTT
* * * * *
10156848 AGAATTTTCATTTAGAAAAAGCTCCTCTCAGC
65 AAAATTTTAACTT-GAAAAGGCTCCTCTTAGC
* * * **
10156880 AGAGGCTCAACAACTTAAAAAAATTCAT-TTGGAAAAGCTCCT-TTAAGCAGAGGCTGGACAACT
1 AGAGGCTCAACAACTT-TAAAAATCCATCTT-GAAAAGCTCCTCTT-AGCAAAGGCTCAACAACT
10156943 TTAAAA
63 TTAAAA
10156949 ATTTGATCTG
Statistics
Matches: 212, Mismatches: 42, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
95 122 0.58
96 53 0.25
97 37 0.17
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (95 bp):
AGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAGCTCCTCTTAGCAAAGGCTCAACAACTTTA
AAATTTTAACTTGAAAAGGCTCCTCTTAGC
Found at i:10156755 original size:47 final size:47
Alignment explanation
Indices: 10156544--10156951 Score: 340
Period size: 48 Copynumber: 8.5 Consensus size: 47
10156534 TCCTCTCAAT
* * * * **
10156544 AGAGGCACAACAACTTTAAAAATCTCAT-TTGAAAAAGGTTCTTTTCAAT
1 AGAGGCTCAACAACTTTAAAAAT-TCATCTTG-AAAAGCTCCTCTT-AGC
* * **
10156593 AGAGGCTCAACAACTTTAAGAATCTCATCTTGAAAAGGTTTTCTTAGC
1 AGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAGCTCCTCTTAGC
* * * **
10156641 AGAGGCTCAACAACTTTAAAATTTTAACTTGAAAAGGCTTTTCTTAGC
1 AGAGGCTCAACAACTTTAAAAATTCATCTTGAAAA-GCTCCTCTTAGC
* * *
10156689 AGAGGTTCAACAACATTAAAAATCCATCTTGAAAAGCTCCTCTTAGC
1 AGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGCTCCTCTTAGC
* * * * * **
10156736 AAAGGCTCAATAACTTTAAAATTTTATCTTAAAAAGGCTCCTCTTATT
1 AGAGGCTCAACAACTTTAAAAATTCATCTTGAAAA-GCTCCTCTTAGC
** * *
10156784 AGAAACTTAACAACTTTAAAAA-TCTATCTTGAAAAGCTCCTCTCAGC
1 AGAGGCTCAACAACTTTAAAAATTC-ATCTTGAAAAGCTCCTCTTAGC
* ** *
10156831 AGAAGCTCAACAACTTTAGAATTTTCAT-TTAGAAAAAGCTCCTCTCAGC
1 AGAGGCTCAACAACTTTA-AAAATTCATCTT-G-AAAAGCTCCTCTTAGC
*
10156880 AGAGGCTCAACAACTTAAAAAAATTCAT-TTGGAAAAGCTCCT-TTAAGC
1 AGAGGCTCAACAACTT-TAAAAATTCATCTT-GAAAAGCTCCTCTT-AGC
**
10156928 AGAGGCTGGACAACTTTAAAAATT
1 AGAGGCTCAACAACTTTAAAAATT
10156952 TGATCTGTTC
Statistics
Matches: 296, Mismatches: 53, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
47 83 0.28
48 129 0.44
49 80 0.27
50 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (47 bp):
AGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGCTCCTCTTAGC
Found at i:10156947 original size:49 final size:50
Alignment explanation
Indices: 10156814--10156949 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 50
10156804 AATCTATCTT
* * **
10156814 GAAAAGCTCCTCTCAGCAGAAGCTCAACAACTTT-AGAATTTTCATTTAG
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAAATTCATTTAG
*
10156863 AAAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTAAAAAAATTCATTT-G
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAAATTCATTTAG
* * **
10156911 GAAAAGCTCCTTTAAGCAGAGGCTGGACAACTTTAAAAA
1 GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA
10156950 TTTGATCTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 29 0.39
49 46 0.61
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (50 bp):
GAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAAATTCATTTAG
Found at i:10157774 original size:9 final size:8
Alignment explanation
Indices: 10157756--10157785 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10157746 TCTTTTTCAC
*
10157756 TTTTTGTT
1 TTTTTATT
10157764 TTTTTATT
1 TTTTTATT
10157772 TTTTTATT
1 TTTTTATT
10157780 TTTTTA
1 TTTTTA
10157786 AGTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:10169538 original size:19 final size:19
Alignment explanation
Indices: 10169499--10169538 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10169489 GTTTAGTGCT
*
10169499 TCAACGCGATCTAGTTTGA
1 TCAACGCGATCTAGTTCGA
* *
10169518 TCAACGCGGTCTGGTTCGA
1 TCAACGCGATCTAGTTCGA
10169537 TC
1 TC
10169539 TAGTCCTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (19 bp):
TCAACGCGATCTAGTTCGA
Found at i:10170405 original size:8 final size:8
Alignment explanation
Indices: 10170394--10170439 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
10170384 TTTTGAATTT
10170394 TTTTTGTA
1 TTTTTGTA
*
10170402 TTTTTATA
1 TTTTTGTA
10170410 TTTTTTGGTA
1 -TTTTT-GTA
10170420 -TTTTGTA
1 TTTTTGTA
10170427 TTTTTGTA
1 TTTTTGTA
10170435 TTTTT
1 TTTTT
10170440 TTTGGTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 3 0.09
8 23 0.70
9 5 0.15
10 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (8 bp):
TTTTTGTA
Found at i:10170429 original size:25 final size:25
Alignment explanation
Indices: 10170395--10170463 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 25
10170385 TTTGAATTTT
10170395 TTTTGTATTTTTATATTTTTTGGTA
1 TTTTGTATTTTTATATTTTTTGGTA
*
10170420 TTTTGTATTTTTGTATTTTTTTTGGTA
1 TTTTGTA-TTTT-TATATTTTTTGGTA
*
10170447 TTTTATATTTTTA-ATTT
1 TTTTGTATTTTTATATTT
10170464 AATAAAACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
24 3 0.08
25 9 0.23
26 8 0.21
27 19 0.49
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.74
Consensus pattern (25 bp):
TTTTGTATTTTTATATTTTTTGGTA
Found at i:10170440 original size:17 final size:17
Alignment explanation
Indices: 10170393--10170439 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
10170383 TTTTTGAATT
10170393 TTTTTTGTATTTTTATA
1 TTTTTTGTATTTTTATA
*
10170410 TTTTTTGGTA-TTTTGTA
1 TTTTTT-GTATTTTTATA
10170427 -TTTTTGTATTTTT
1 TTTTTTGTATTTTT
10170440 TTTGGTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 9 0.33
17 12 0.44
18 3 0.11
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.77
Consensus pattern (17 bp):
TTTTTTGTATTTTTATA
Found at i:10172762 original size:15 final size:15
Alignment explanation
Indices: 10172728--10172756 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10172718 TATTTTACTT
10172728 AAAAATAAACAAAAC
1 AAAAATAAACAAAAC
10172743 AAAAATAAACAAAA
1 AAAAATAAACAAAA
10172757 ATAAAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAAATAAACAAAAC
Found at i:10173795 original size:99 final size:99
Alignment explanation
Indices: 10173544--10173865 Score: 393
Period size: 99 Copynumber: 3.3 Consensus size: 99
10173534 ACATATGAGA
* * * *
10173544 TTTTTAAAGTTGTTAAGCCTCTACTTAGAGGAGCTTTTCTAGATGA-AATTTTAAAGTTGTTGAG
1 TTTTTAAAGTTGTTAAGCCTCTGCTTAGAGGATCTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
* * * *
10173608 CCTATGCTTA-AAGGAGC-TTTTCAATATGAGGA-
66 CCTCTGCTGAGAA-GAGCTTTTTCAAGATGAGAAT
*
10173640 TTTTTAAAGTTGTTAAGCCTCAGCTTAGAGGAGT-TTTTCTAAGATGAGATTTTTAAAGTTGTTG
1 TTTTTAAAGTTGTTAAGCCTCTGCTTAGAGGA-TCTTTTC-AAGATGAGATTTTTAAAGTTGTTG
*
10173704 AGCCTCTGCTGAGAAGAGCTTTTTCAAGAGGAGAAT
64 AGCCTCTGCTGAGAAGAGCTTTTTCAAGATGAGAAT
* * * * * *
10173740 TTTTTAAAGTTGTTGAGCTTCTGCTGAGATGATCTTTTCCATATGAGATTTTTAAAGTTGTTGAG
1 TTTTTAAAGTTGTTAAGCCTCTGCTTAGAGGATCTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
*
10173805 CCTCTGCTGAGAAGAGCTTTTTCAAGATGACAATTT
66 CCTCTGCTGAGAAGAGCTTTTTCAAGATGAGAA--T
* *
10173841 TTTTTTAAGTTGTTAAGCCTTTGCT
1 TTTTTAAAGTTGTTAAGCCTCTGCT
10173866 AAAAAAAACC
Statistics
Matches: 194, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
96 35 0.18
97 6 0.03
98 29 0.15
99 70 0.36
100 32 0.16
101 22 0.11
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (99 bp):
TTTTTAAAGTTGTTAAGCCTCTGCTTAGAGGATCTTTTCAAGATGAGATTTTTAAAGTTGTTGAG
CCTCTGCTGAGAAGAGCTTTTTCAAGATGAGAAT
Found at i:10173811 original size:48 final size:48
Alignment explanation
Indices: 10173538--10173834 Score: 344
Period size: 49 Copynumber: 6.1 Consensus size: 48
10173528 TGGAAAACAT
* * * *
10173538 ATGAGATTTTTAAAGTTGTTAAGCCTCTACTTAGAGGAGCTTTTCTAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
* * * * *
10173586 ATGA-AATTTTAAAGTTGTTGAGCCTATGCTTAAAGGAGCTTTTCAAT
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
* * * *
10173633 ATGAGGATTTTTAAAGTTGTTAAGCCTCAGCTTAGAGGAGTTTTTCTAAG
1 ATGA-GATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC-AAG
*
10173683 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAG
* * * * * *
10173732 AGGAGAATTTTTTAAAGTTGTTGAGCTTCTGCTGAGATGATCTTTTCCAT
1 ATGAG-A-TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
*
10173782 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAG
1 ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCAAG
10173831 ATGA
1 ATGA
10173835 CAATTTTTTT
Statistics
Matches: 211, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
47 40 0.19
48 35 0.17
49 83 0.39
50 22 0.10
51 31 0.15
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (48 bp):
ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAG
Found at i:10174262 original size:8 final size:8
Alignment explanation
Indices: 10174242--10174294 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
10174232 TAAATTAAAC
10174242 AAAAATAT
1 AAAAATAT
10174250 AAAAAATAT
1 -AAAAATAT
*
10174259 AAAAATAC
1 AAAAATAT
10174267 AAAAATA-
1 AAAAATAT
**
10174274 CGAAATAT
1 AAAAATAT
10174282 AAAAATAT
1 AAAAATAT
10174290 AAAAA
1 AAAAA
10174295 GGGGGGCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
7 5 0.13
8 25 0.66
9 8 0.21
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAATAT
Found at i:10175975 original size:21 final size:21
Alignment explanation
Indices: 10175932--10175976 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10175922 TTTTGAATTT
*
10175932 TTTTAAATATTATTTTTATTA
1 TTTTAAATATTATTTTTAATA
*
10175953 TTTTAAAT-TTTTTTATTAATA
1 TTTTAAATATTATTT-TTAATA
10175974 TTT
1 TTT
10175977 ATGTATGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTAAATATTATTTTTAATA
Found at i:10176729 original size:130 final size:130
Alignment explanation
Indices: 10176496--10176753 Score: 489
Period size: 130 Copynumber: 2.0 Consensus size: 130
10176486 AAAAAATAAA
*
10176496 TAAAACAATTAATAAAATTTCTAAAAAAGAGAATAAAATGTGTGCATCAATATGGTAATATTTTG
1 TAAAACAATTAATAAAATTTCTAAAAAAGAGAATAAAATGTGTGCATCAACATGGTAATATTTTG
10176561 CATTGCATGTACGACATAATTTTTATGAAAAGTAAATTTGAGCCTCTAAAGACGGGATTCTAAGG
66 CATTGCATGTACGACATAATTTTTATGAAAAGTAAATTTGAGCCTCTAAAGACGGGATTCTAAGG
*
10176626 TAAAACAATTAATAAAGTTTCTAAAAAAGAGAATAAAATGTGTGCATCAACATGGTAATATTTTG
1 TAAAACAATTAATAAAATTTCTAAAAAAGAGAATAAAATGTGTGCATCAACATGGTAATATTTTG
*
10176691 CATTGCATGTACGACATAATTTTTATGAAAAGTAAATTTGAGCCTCTAAGGACGGGATTCTAA
66 CATTGCATGTACGACATAATTTTTATGAAAAGTAAATTTGAGCCTCTAAAGACGGGATTCTAA
10176754 AGTATTCCGA
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (130 bp):
TAAAACAATTAATAAAATTTCTAAAAAAGAGAATAAAATGTGTGCATCAACATGGTAATATTTTG
CATTGCATGTACGACATAATTTTTATGAAAAGTAAATTTGAGCCTCTAAAGACGGGATTCTAAGG
Found at i:10177893 original size:46 final size:46
Alignment explanation
Indices: 10177797--10177893 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 46
10177787 TTTTTAAATT
* * * **
10177797 TATTATTTATTAACAACATGTAATTTTATTAAAATTAATATAATTT
1 TATTATTTATTAACAAAATGTAATTTTAATAAAATTAAAATAATAA
*
10177843 TATTATTTGTTAACAAAATGTAATATTATAATAAAA-TAAAATAA-AA
1 TATTATTTATTAACAAAATGTAAT-TT-TAATAAAATTAAAATAATAA
10177889 TATTA
1 TATTA
10177894 AATTTAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
46 27 0.63
47 9 0.21
48 7 0.16
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (46 bp):
TATTATTTATTAACAAAATGTAATTTTAATAAAATTAAAATAATAA
Found at i:10178674 original size:25 final size:25
Alignment explanation
Indices: 10178622--10178680 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
10178612 TATTATTATT
*
10178622 AAATACAAAATACAAAAAAATACCA
1 AAATACAAAATACAAAAAAATAACA
* *
10178647 AAATACAAGATACCAAAAAAA-AATA
1 AAATACAAAATA-CAAAAAAATAACA
10178672 AAA-ACAAAA
1 AAATACAAAA
10178681 AAAATGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 16 0.55
26 8 0.28
ACGTcount: A:0.75, C:0.14, G:0.02, T:0.10
Consensus pattern (25 bp):
AAATACAAAATACAAAAAAATAACA
Found at i:10180232 original size:59 final size:57
Alignment explanation
Indices: 10180149--10180608 Score: 584
Period size: 59 Copynumber: 7.7 Consensus size: 57
10180139 TTTTTTTTAG
*
10180149 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTCT-AA
* *
10180208 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTCTAA
*
10180267 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGGAAATTTATTTTTCTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-----TTTTTTGGAAATTTA--TTTC---T
10180332 AA
56 AA
* * *
10180334 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAA
*
10180393 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
* *
10180450 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTGGAAGTTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCC--CAAA-A-ATATTTTTTGGAAATTTATTTCTAA
*
10180511 GGAAAATTGATACTTTCAACTTTT-CCCTAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
*
10180567 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTT
10180609 TTGGAATTTT
Statistics
Matches: 364, Mismatches: 16, Indels: 43
0.86 0.04 0.10
Matches are distributed among these distances:
56 49 0.13
57 58 0.16
58 7 0.02
59 108 0.30
60 4 0.01
61 61 0.17
62 19 0.05
64 20 0.05
67 38 0.10
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:10180337 original size:21 final size:20
Alignment explanation
Indices: 10180300--10180338 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10180290 TCCCTAAAAA
**
10180300 TATTTTTTTTTTTGGAAATT
1 TATTTTTTTTTAAGGAAATT
10180320 TATTTTTCTTTTAAGGAAA
1 TATTTTT-TTTTAAGGAAA
10180339 ATTGATACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (20 bp):
TATTTTTTTTTAAGGAAATT
Found at i:10180624 original size:118 final size:117
Alignment explanation
Indices: 10180149--10180614 Score: 663
Period size: 126 Copynumber: 3.9 Consensus size: 117
10180139 TTTTTTTTAG
*
10180149 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTCGATTT-TCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTCT-AAGGAAA
*** *
10180213 ATTGATACTTTCAACTTTT-CCTCAAAAA-CCCTTTTTTTGAAAATTTATTTCTAA
63 ATTGATACTTTCAACTTTTCCCT-AAAAATATATTTTTTTGGAAATTTATTTCTAA
*
10180267 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGGAAATTTATTTTTCTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-----TTTTTTGGAAATTTA--TTTC---T
* *
10180332 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTTGAAATTTATTTCTGA
56 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAAATTTATTTCTAA
*
10180393 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
*
10180458 GATACTTTCAACTTTTCCCTAAAAATATATATTTTTTGGAAGTTTATTTCTAA
66 GATACTTTCAACTTTTCCCTAAAAATATAT-TTTTTTGGAAATTTATTTCTAA
*
10180511 GGAAAATTGATACTTTCAACTTTT-CCCTAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
10180575 GATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA
66 GATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAA
10180615 TTTTTTATTT
Statistics
Matches: 319, Mismatches: 14, Indels: 32
0.87 0.04 0.09
Matches are distributed among these distances:
116 49 0.15
117 69 0.22
118 77 0.24
119 4 0.01
121 15 0.05
123 16 0.05
126 85 0.27
127 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
GATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGGAAATTTATTTCTAA
Found at i:10180705 original size:12 final size:11
Alignment explanation
Indices: 10180685--10180752 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
10180675 AACCTAATCT
*
10180685 AATAAATAAAA
1 AATAAAAAAAA
10180696 AATAAAATAAACA
1 AATAAAA-AAA-A
*
10180709 AATAAACAAAGA
1 AATAAA-AAAAA
10180721 AATAAAAAAAA
1 AATAAAAAAAA
* *
10180732 ATTCAAACAAAA
1 AAT-AAAAAAAA
10180744 AA-AAAAAAA
1 AATAAAAAAA
10180753 CCTGGAGCGG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
10 6 0.13
11 12 0.26
12 18 0.39
13 9 0.20
14 1 0.02
ACGTcount: A:0.81, C:0.06, G:0.01, T:0.12
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:10181669 original size:62 final size:61
Alignment explanation
Indices: 10181566--10181733 Score: 171
Period size: 62 Copynumber: 2.6 Consensus size: 61
10181556 GATAAATAAT
* *
10181566 AATAAAAAAATATATCAGATATATAATTAGATAAGTAAAAATACA-A-AAATGAATAA-AATAAA
1 AATAAAAAAATATAT-ACATATATAA-TAAATAA-T-AAAATACACATAAAT-AATAACAA-AAA
10181628 AA
60 AA
* *
10181630 AGATAAAAAAATATATATATATATACATAAATAATAAAATACACATAAATATTAACAAAAAAA
1 A-ATAAAAAAATATATACATATATA-ATAAATAATAAAATACACATAAATAATAACAAAAAAA
* *
10181693 AATAAATAAATATATACATATATTAATACATAATAATAATA
1 AATAAAAAAATATATACATATA-TAATAAATAATAA-AATA
10181734 ATAAATAATA
Statistics
Matches: 91, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
62 37 0.41
63 18 0.20
64 21 0.23
65 15 0.16
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (61 bp):
AATAAAAAAATATATACATATATAATAAATAATAAAATACACATAAATAATAACAAAAAAA
Found at i:10181753 original size:16 final size:15
Alignment explanation
Indices: 10181652--10181754 Score: 59
Period size: 16 Copynumber: 6.6 Consensus size: 15
10181642 ATATATATAT
10181652 ATACATAAATAATAAA
1 ATACATAAATAAT-AA
*
10181668 ATACACATAAATATTAA
1 AT--ACATAAATAATAA
* * *
10181685 CAAAAAAAAATAAATAA
1 -ATACATAAAT-AATAA
* * *
10181702 ATATATACATATATTA
1 ATACATAAATA-ATAA
10181718 ATACAT-AATAAT-A
1 ATACATAAATAATAA
10181731 ATA-ATAAATAATACA
1 ATACATAAATAATA-A
10181746 ATACATAAA
1 ATACATAAA
10181755 ATACAAAAGA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
12 2 0.03
13 10 0.15
14 2 0.03
15 8 0.12
16 27 0.41
17 6 0.09
18 11 0.17
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (15 bp):
ATACATAAATAATAA
Found at i:10183624 original size:29 final size:29
Alignment explanation
Indices: 10183591--10183646 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
10183581 GTGTATAATA
*
10183591 CAAAACA-AAACAAAACAAACAAAAAATCT
1 CAAAACACAAA-AAAACAAAAAAAAAATCT
*
10183620 CAAAACACTAAAAAACAAAAAAAAAAT
1 CAAAACACAAAAAAACAAAAAAAAAAT
10183647 TTTCTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.75, C:0.18, G:0.00, T:0.07
Consensus pattern (29 bp):
CAAAACACAAAAAAACAAAAAAAAAATCT
Found at i:10195447 original size:13 final size:13
Alignment explanation
Indices: 10195429--10195455 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10195419 AAACTGCTGA
10195429 CGCTAGACCGAAC
1 CGCTAGACCGAAC
10195442 CGCTAGACCGAAC
1 CGCTAGACCGAAC
10195455 C
1 C
10195456 CGCGTTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.41, G:0.22, T:0.07
Consensus pattern (13 bp):
CGCTAGACCGAAC
Found at i:10197628 original size:2 final size:2
Alignment explanation
Indices: 10197621--10197653 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10197611 GATATTGGGA
10197621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10197654 AACTGAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10207497 original size:3 final size:3
Alignment explanation
Indices: 10207489--10207514 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10207479 TTTTTGTCTA
10207489 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
10207515 ATCTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10208003 original size:20 final size:20
Alignment explanation
Indices: 10207978--10208025 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
10207968 AGAAAATTTA
* *
10207978 AATTTTTCAGTGATCGTTTG
1 AATTTTTCAATGACCGTTTG
*
10207998 AATTTTTTAATGACCGTTTG
1 AATTTTTCAATGACCGTTTG
10208018 AATTTTTC
1 AATTTTTC
10208026 GACGATCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (20 bp):
AATTTTTCAATGACCGTTTG
Found at i:10208368 original size:25 final size:24
Alignment explanation
Indices: 10208340--10208399 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
10208330 TTCCTTTTCT
*
10208340 TTTTATTTTATCATTTTGATTTTGA
1 TTTTATTTT-TCATGTTGATTTTGA
* *
10208365 TTTTGATTTTTTATGTTGATTTTTA
1 TTTT-ATTTTTCATGTTGATTTTGA
*
10208390 TGTTATTTTT
1 TTTTATTTTT
10208400 TATGATGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.20
25 19 0.63
26 5 0.17
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.72
Consensus pattern (24 bp):
TTTTATTTTTCATGTTGATTTTGA
Found at i:10208397 original size:11 final size:12
Alignment explanation
Indices: 10208355--10208399 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
10208345 TTTTATCATT
* *
10208355 TTGATTTTGATT
1 TTGATTTTTATG
10208367 TTGATTTTTTATG
1 TTGA-TTTTTATG
10208380 TTGATTTTTATG
1 TTGATTTTTATG
10208392 TT-ATTTTT
1 TTGATTTTT
10208400 TATGATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 6 0.20
12 14 0.47
13 10 0.33
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (12 bp):
TTGATTTTTATG
Found at i:10208400 original size:12 final size:13
Alignment explanation
Indices: 10208367--10208403 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
10208357 GATTTTGATT
10208367 TTGATTTTTTATG
1 TTGATTTTTTATG
10208380 TTGA-TTTTTATG
1 TTGATTTTTTATG
10208392 TT-ATTTTTTATG
1 TTGATTTTTTATG
10208404 ATGTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.04
12 18 0.78
13 4 0.17
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (13 bp):
TTGATTTTTTATG
Found at i:10209070 original size:94 final size:94
Alignment explanation
Indices: 10208875--10209079 Score: 281
Period size: 94 Copynumber: 2.2 Consensus size: 94
10208865 TGATATCTTG
*
10208875 AATTTTTAAAAAATATATATAAAAAATTGAAAGAGTTTGATTTTCTTCAAACAAAATATTAATAT
1 AATTTTTAAAAAA-ATATATAAAAAATTGAAAGAGTTCGATTTTCTTCAAAC-AAATATTAATAT
*
10208940 TTAGATTTCATCGATGAGCTGGGATAATCTA
64 TTAGATTTCATCGATGAGCTGAGATAATCTA
* *
10208971 AATTTTTTAAAAAATATATAAAAAATTGAAAGAGTTCGATTTTCTTTAAAC-AATGATTAATATT
1 AATTTTTAAAAAAATATATAAAAAATTGAAAGAGTTCGATTTTCTTCAAACAAAT-ATTAATATT
* *
10209035 TAGATTTTA-CTGGTGAG-TCGAGATAATCTA
65 TAGATTTCATC-GATGAGCT-GAGATAATCTA
*
10209065 AATTTTAAAAAAAAT
1 AATTTTTAAAAAAAT
10209080 TAAAGAATAA
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
93 5 0.05
94 45 0.46
95 36 0.37
96 12 0.12
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (94 bp):
AATTTTTAAAAAAATATATAAAAAATTGAAAGAGTTCGATTTTCTTCAAACAAATATTAATATTT
AGATTTCATCGATGAGCTGAGATAATCTA
Found at i:10210281 original size:20 final size:19
Alignment explanation
Indices: 10210256--10210303 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
10210246 TTCTTCTCAT
*
10210256 TTTTATTACTTATATTTTTA
1 TTTTATTACTCA-ATTTTTA
*
10210276 TTTTATTAATCAATTTTTA
1 TTTTATTACTCAATTTTTA
10210295 -TTTATTACT
1 TTTTATTACT
10210304 ATTTTATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
20 10 0.40
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATTACTCAATTTTTA
Found at i:10210542 original size:12 final size:13
Alignment explanation
Indices: 10210492--10210539 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
10210482 TAGTTTAGTA
10210492 TTATTTTTAAA-T
1 TTATTTTTAAAGT
*
10210504 TTATTTTTATATTATT
1 TTATTTTTA-A--AGT
10210520 TTATTTTTAAAGT
1 TTATTTTTAAAGT
10210533 TTATTTT
1 TTATTTT
10210540 AAAAATTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.29
13 10 0.32
15 2 0.06
16 10 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTATTTTTAAAGT
Found at i:10211687 original size:21 final size:20
Alignment explanation
Indices: 10211638--10211689 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
10211628 TTTGTTCTAT
10211638 TTTTTTGTAATTTTTTTGGTA
1 TTTTTTGT-ATTTTTTTGGTA
10211659 --TTTTGTATTATTTTTGGTA
1 TTTTTTGTATT-TTTTTGGTA
10211678 TTTTTTGTATTT
1 TTTTTTGTATTT
10211690 CGTATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 1 0.04
21 9 0.32
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (20 bp):
TTTTTTGTATTTTTTTGGTA
Found at i:10211694 original size:28 final size:26
Alignment explanation
Indices: 10211638--10211706 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 26
10211628 TTTGTTCTAT
*
10211638 TTTTTTGTAATTTTTTTGGTATTTTGTA
1 TTTTTTGT-A-TTTTTTGGTATTTCGTA
10211666 TTATTTTTGGTATTTTTT-GTATTTCGTA
1 -T-TTTTT-GTATTTTTTGGTATTTCGTA
10211694 TTTTTTGTATTTT
1 TTTTTTGTATTTT
10211707 GTATTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
25 7 0.19
26 5 0.14
27 1 0.03
28 9 0.24
29 7 0.19
30 6 0.16
31 2 0.05
ACGTcount: A:0.13, C:0.01, G:0.13, T:0.72
Consensus pattern (26 bp):
TTTTTTGTATTTTTTGGTATTTCGTA
Found at i:10211696 original size:16 final size:16
Alignment explanation
Indices: 10211675--10211715 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
10211665 ATTATTTTTG
10211675 GTATTTTTTGTATTTC
1 GTATTTTTTGTATTTC
*
10211691 GTATTTTTTGTATTTT
1 GTATTTTTTGTATTTC
10211707 GTATTTTTT
1 GTATTTTTT
10211716 ATTTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (16 bp):
GTATTTTTTGTATTTC
Found at i:10211715 original size:9 final size:9
Alignment explanation
Indices: 10211638--10211725 Score: 62
Period size: 9 Copynumber: 9.9 Consensus size: 9
10211628 TTTGTTCTAT
10211638 TTTTTTGTAA
1 TTTTTTGT-A
10211648 TTTTTTTGGTA
1 -TTTTTT-GTA
10211659 TTTTGTAT-TA
1 TTTT-T-TGTA
*
10211669 TTTTTGGTA
1 TTTTTTGTA
10211678 TTTTTTGTA
1 TTTTTTGTA
*
10211687 --TTTCGTA
1 TTTTTTGTA
10211694 TTTTTTGTA
1 TTTTTTGTA
10211703 --TTTTGTA
1 TTTTTTGTA
*
10211710 TTTTTTAT-
1 TTTTTTGTA
10211718 TTTTTTGT
1 TTTTTTGT
10211726 CTGAACAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
7 13 0.21
8 7 0.11
9 22 0.35
10 10 0.16
11 8 0.13
12 3 0.05
ACGTcount: A:0.12, C:0.01, G:0.12, T:0.74
Consensus pattern (9 bp):
TTTTTTGTA
Found at i:10211722 original size:16 final size:16
Alignment explanation
Indices: 10211651--10211721 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
10211641 TTTGTAATTT
*
10211651 TTTTGGTATTTTGTATTA
1 TTTT-GTATTTTTTA-TA
*
10211669 TTTTTGGTATTTTTTGTA
1 -TTTT-GTATTTTTTATA
* *
10211687 TTTCGTATTTTTTGTA
1 TTTTGTATTTTTTATA
10211703 TTTTGTATTTTTTAT-
1 TTTTGTATTTTTTATA
10211718 TTTT
1 TTTT
10211722 TTGTCTGAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 4 0.09
16 25 0.53
17 3 0.06
18 2 0.04
19 13 0.28
ACGTcount: A:0.13, C:0.01, G:0.13, T:0.73
Consensus pattern (16 bp):
TTTTGTATTTTTTATA
Found at i:10223145 original size:40 final size:40
Alignment explanation
Indices: 10223100--10223177 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
10223090 ACCTCTCAGA
* *
10223100 TTTTAATATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGCC
1 TTTTAACATTTAAAGTTTGTTACCTCTAGTCAGAGGAGCC
10223140 TTTTAACATTTAAAGTTTGTTACCTCTAGTCAGAGGAG
1 TTTTAACATTTAAAGTTTGTTACCTCTAGTCAGAGGAG
10223178 TTTTTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (40 bp):
TTTTAACATTTAAAGTTTGTTACCTCTAGTCAGAGGAGCC
Found at i:10223393 original size:33 final size:35
Alignment explanation
Indices: 10223280--10223521 Score: 144
Period size: 33 Copynumber: 6.8 Consensus size: 35
10223270 CAGATCTTTA
10223280 ATTTAAAGTTTGTTGCCTTTGGTTAAA-GAAG--CC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATG-AGCTCC
** * *
10223313 ATTT-AAGTTCATTGCCTTTGGTCAGAA-GAGCCTTTTAAC
1 ATTTAAAGTTTGTTGCCTTTGGTTA-AATGAG-C---T-CC
10223352 ATTTAAAGTTTGTTGCCTTTGGTTAAATGA-C-CC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTCC
** * *
10223385 ATTTAAAGTTCATTACCTCTGGTTAAA-GAAG--CC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATG-AGCTCC
* * * **
10223418 ATTTAAAGTTTGTTGCCTCTGATCAAATGAGCATTTTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGC----TCC
**
10223457 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGC---TCC
10223495 ATTTAAAGTTTGTTGCCTTTGGTTAAA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAA
10223522 ACAGCTTTTG
Statistics
Matches: 168, Mismatches: 22, Indels: 33
0.75 0.10 0.15
Matches are distributed among these distances:
32 20 0.12
33 58 0.35
34 1 0.01
38 34 0.20
39 36 0.21
40 19 0.11
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (35 bp):
ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTCC
Found at i:10223462 original size:105 final size:105
Alignment explanation
Indices: 10223280--10223486 Score: 292
Period size: 105 Copynumber: 2.0 Consensus size: 105
10223270 CAGATCTTTA
** * * * * *
10223280 ATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCCATTTAAGTTCATTGCCTTTGGTCAGAAGAGCC
1 ATTTAAAGTTCATTACCTCTGGTTAAAGAAGCCATTTAAGTTCATTGCCTCTGATCAGAAGAGCA
10223345 TTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAATGACCC
66 TTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAATGACCC
**
10223385 ATTTAAAGTTCATTACCTCTGGTTAAAGAAGCCATTTAAAGTTTGTTGCCTCTGATCA-AATGAG
1 ATTTAAAGTTCATTACCTCTGGTTAAAGAAGCCATTT-AAGTTCATTGCCTCTGATCAGAA-GAG
*
10223449 CATTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTAAATGA
64 CATTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAATGA
10223487 GCTTTTGAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
105 65 0.72
106 25 0.28
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (105 bp):
ATTTAAAGTTCATTACCTCTGGTTAAAGAAGCCATTTAAGTTCATTGCCTCTGATCAGAAGAGCA
TTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAATGACCC
Found at i:10223502 original size:38 final size:38
Alignment explanation
Indices: 10223418--10223537 Score: 186
Period size: 38 Copynumber: 3.1 Consensus size: 38
10223408 TAAAGAAGCC
* * *
10223418 ATTTAAAGTTTGTTGCCTCTGATCAAATGAGCATTTTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGC-TTTTGA
10223457 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGA
**
10223495 ATTTAAAGTTTGTTGCCTTTGGTTAAAACAGCTTTTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGA
10223533 ATTTA
1 ATTTA
10223538 GCGCTTTTGA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 47 0.62
39 29 0.38
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (38 bp):
ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGA
Done.