Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 24 of 91
Found at i:4247878 original size:48 final size:48
Alignment explanation
Indices: 4247813--4248286 Score: 463
Period size: 48 Copynumber: 9.8 Consensus size: 48
4247803 TTAGGGGAAC
* * * *
4247813 CTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCTTCTACTAAGAGGAG
1 CTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
* * * * *
4247861 CTTTTCCAAGATGAATTTTTAAAATTGTTAAGCCTATGCTTAGAAGAG
1 CTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
* * * **
4247909 CTTTTTCTAAGATTAACTTTTAAAGTTGTTGAGCCTCTGTTGAG-AGAAG
1 C-TTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAG-AG
* *
4247958 CATTTT-CAAGATAAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
1 C-TTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
* ** *
4248006 ATTTTTTTAAGATGAATTTTTAAAGTTGCTGAGCCTCTACTGAGAAGAG
1 -CTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
* * * * * *
4248055 ATTTTTCTAAGATGAATTTTTTAAGTTGTTGAGCCTCTGCTAAGAGGAG
1 -CTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
* * *
4248104 CTTTTCAAAGAT-AGATTTTTAAAGTTATTGATCCTCTGA-TGAGAAGAG
1 CTTTTCCAAGATGA-ATTTTTAAAGTTGTTGAGCCTCT-ACTGAGAAGAG
* * * * * * * * *
4248152 TTTTTCTAAGATAAATTTTTAAAGTTGTTAAGCATCTGCTTATATGAG
1 CTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
* *
4248200 CTTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAAGAG
1 C-TTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
*
4248249 CTTTTCCAAGAT-AGATTTTTAAAGTTATTGAGCCTCTA
1 CTTTTCCAAGATGA-ATTTTTAAAGTTGTTGAGCCTCTA
4248287 GATTTTTAAA
Statistics
Matches: 352, Mismatches: 63, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.01
48 184 0.52
49 166 0.47
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (48 bp):
CTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAG
Found at i:4247931 original size:49 final size:49
Alignment explanation
Indices: 4247813--4248705 Score: 550
Period size: 49 Copynumber: 17.8 Consensus size: 49
4247803 TTAGGGGAAC
* * * *
4247813 CTTTTTC-AAGATGAATTTTTAAAGTTGTTGAGCTTCTACTAAGAGGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * * *
4247861 C-TTTTCCAAGATGAATTTTTAAAATTGTTAAGCCTATGCTTAGAAGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * *
4247909 CTTTTTCTAAGATTAACTTTTAAAGTTGTTGAGCCTCTGTTGAG-AGAAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAG-AG
* * * *
4247958 CATTTTC-AAGATAAATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * *
4248006 ATTTTTTTAAGATGAATTTTTAAAGTTGCTGAGCCTCTACTGAGAAGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * *
4248055 ATTTTTCTAAGATGAATTTTTTAAGTTGTTGAGCCTCTGCTAAGAGGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * *
4248104 C-TTTTCAAAGAT-AGATTTTTAAAGTTATTGATCCTCTGATGAGAAGAG
1 CTTTTTCTAAGATGA-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * * * *
4248152 -TTTTTCTAAGATAAATTTTTAAAGTTGTTAAGCATCTGCTTATATGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* *
4248200 CTTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCTTCTGCTGAGAAGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * ***
4248249 C-TTTTCCAAGAT-AGATTTTTAAAGTTATTGAGCCTCTAGATTTTTAA-AG
1 CTTTTTCTAAGATGA-ATTTTTAAAGTTGTTGAGCCTCT-G-CTGAGAAGAG
* **
4248298 -TTGTTGAGCCTCTATCTAGATGAACTTTTTCAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCT
1 CTT-TT-----TCTA---AGATGAA-TTTTT-AA-A-G-----TT---GTTG-AGCC--TCTGCT
*
4248362 GAGATGAG
42 GAGAAGAG
* * * * * * * *
4248370 CTCTTTC-AAGATGGATTTTTAAATTTGTTGAGCTTCTGTTTATAGGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * *
4248418 CTTTTTC-AAGATG-ACTTTTAAAGTTGTTGAACCTCTGTTTAGAAGAG
1 CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * * *
4248465 C-TTTTCTAAGATGATTTTTTTTTTAAAGTTGTGGAGCCTCT-TTTAG-AGAAG
1 CTTTTTCTAAGATGA----ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAG-AG
* * * * * * *
4248516 CTTTTCCCAAGATGATTTTTTTAAAGTTGTGGAGCCTCTGCTTAGAGGAA
1 CTTTTTCTAAGATGA-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * *
4248566 CTTTTT-TCAAAATGAATTTTTAAAATCGTTGAGCCTCTGCAT-A-AAGGAG
1 CTTTTTCT-AAGATGAATTTTTAAAGTTGTTGAGCCTCTGC-TGAGAA-GAG
* * * * * *
4248615 ATTTTTCTCAAGATAAATTTTTAAAGTTGTTAAGTCTCTACTTAGAAGAG
1 CTTTTTCT-AAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
* * *
4248665 CTTTTTCCAAGAT-AATTCTTTAAAATTGTTGAGCATCTGCT
1 CTTTTTCTAAGATGAATT-TTTAAAGTTGTTGAGCCTCTGCT
4248706 TAAAGGAGTT
Statistics
Matches: 665, Mismatches: 123, Indels: 113
0.74 0.14 0.13
Matches are distributed among these distances:
46 5 0.01
47 42 0.06
48 208 0.31
49 249 0.37
50 62 0.09
51 15 0.02
52 30 0.05
54 2 0.00
55 3 0.00
58 5 0.01
59 6 0.01
60 3 0.00
61 3 0.00
62 6 0.01
63 6 0.01
66 1 0.00
67 4 0.01
70 3 0.00
71 3 0.00
72 5 0.01
73 4 0.01
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (49 bp):
CTTTTTCTAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG
Found at i:4247968 original size:97 final size:96
Alignment explanation
Indices: 4247778--4248707 Score: 568
Period size: 97 Copynumber: 9.3 Consensus size: 96
4247768 AACATATGAG
* * * ** *
4247778 ATTTTTAAAGTTATTAAGCTTTTGCTTAGGGGAACCTTTTTC-AAGATGAATTTTTAAAGTTGTT
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAG-AGCTTTTTCTAAGATGAATTTTTAAAGTTGTT
* * * * *
4247842 GAGCTTCTACTAAGAGGAGCTTTTCCAAGATGA
65 GAGCCTCTGCTGAGAAGAGCTTTT-CAAGATAA
* * * *
4247875 ATTTTTAAAATTGTTAAGCCTATGCTTAGAAGAGCTTTTTCTAAGATTAACTTTTAAAGTTGTTG
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGCTTTTTCTAAGATGAATTTTTAAAGTTGTTG
*
4247940 AGCCTCTGTTGAG-AGAAGCATTTTCAAGATAA
66 AGCCTCTGCTGAGAAG-AGC-TTTTCAAGATAA
* * * * * * *
4247972 ATTTTTAAAGTTATTGAGCCTCTACTGAGAAGAGATTTTTTTAAGATGAATTTTTAAAGTTGCTG
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGCTTTTTCTAAGATGAATTTTTAAAGTTGTTG
* * *
4248037 AGCCTCTACTGAGAAGAGATTTTTCTAAGATGA
66 AGCCTCTGCTGAGAAGAG-CTTTTC-AAGATAA
* * * * * *
4248070 ATTTTTTAAGTTGTTGAGCCTCTGCTAAGAGGAGC-TTTTCAAAGAT-AGATTTTTAAAGTTATT
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGCTTTTTCTAAGATGA-ATTTTTAAAGTTGTT
* * *
4248133 GATCCTCTGATGAGAAGAGTTTTTCTAAGATAA
65 GAGCCTCTGCTGAGAAGAGCTTTTC-AAGATAA
* * * *
4248166 ATTTTTAAAGTTGTTAAGCATCTGCTTATATGAGCTTTTTCCAAGATGAATTTTTAAAGTTGTTG
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGCTTTTTCTAAGATGAATTTTTAAAGTTGTTG
* *
4248231 AGCTTCTGCTGAGAAGAGCTTTTCCAAGATAG
66 AGCCTCTGCTGAGAAGAGCTTTT-CAAGATAA
* * * * *
4248263 ATTTTTAAAGTTATTGAGCCTCTAGATTTTTA-AAGTTGTTGAGCCTCTATCTAGATGAACTTTT
1 ATTTTTAAAGTTGTTAAGCCTCT-G---CTTAGAA------GAG-CTTTTTCT--A---------
* **
4248327 TCAAGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTCTTTCAAGATGG
44 ---AGATGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCT-TTTCAAGATAA
* * * * * * *
4248384 ATTTTTAAATTTGTTGAGCTTCTGTTTATAGGAGCTTTTTC-AAGATG-ACTTTTAAAGTTGTTG
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGCTTTTTCTAAGATGAATTTTTAAAGTTGTTG
* * * *
4248447 AACCTCTGTTTAGAAGAGCTTTTCTAAGATGATTTT
66 AGCCTCTGCTGAGAAGAGCTTTTC-AAGAT-A---A
* ** * * * *
4248483 TTTTTTAAAGTTGTGGAGCCTCT-TTTAG-AGAAGCTTTTCCCAAGATGATTTTTTTAAAGTTGT
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAG-AGCTTTTTCTAAGATGA-ATTTTTAAAGTTGT
* * * * * *
4248546 GGAGCCTCTGCTTAGAGGAACTTTTTTCAAAATGA
64 TGAGCCTCTGCTGAGAAGAGC--TTTTCAAGATAA
* * * * * *
4248581 ATTTTTAAAATCGTTGAGCCTCTGCATA-AAGGAGATTTTTCTCAAGATAAATTTTTAAAGTTGT
1 ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAA-GAGCTTTTTCT-AAGATGAATTTTTAAAGTTGT
* * * *
4248645 TAAGTCTCTACTTAGAAGAGCTTTTTCCAAGAT-A
64 TGAGCCTCTGCTGAGAAGAGC-TTTT-CAAGATAA
* * *
4248679 ATTCTTTAAAATTGTTGAGCATCTGCTTA
1 ATT-TTTAAAGTTGTTAAGCCTCTGCTTA
4248708 AAGGAGTTTT
Statistics
Matches: 660, Mismatches: 119, Indels: 106
0.75 0.13 0.12
Matches are distributed among these distances:
94 4 0.01
95 36 0.05
96 57 0.09
97 247 0.37
98 84 0.13
99 90 0.14
100 8 0.01
101 31 0.05
102 4 0.01
103 5 0.01
106 3 0.00
107 5 0.01
108 1 0.00
109 1 0.00
111 5 0.01
112 3 0.00
117 4 0.01
118 1 0.00
120 1 0.00
121 67 0.10
122 3 0.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (96 bp):
ATTTTTAAAGTTGTTAAGCCTCTGCTTAGAAGAGCTTTTTCTAAGATGAATTTTTAAAGTTGTTG
AGCCTCTGCTGAGAAGAGCTTTTCAAGATAA
Found at i:4248318 original size:29 final size:25
Alignment explanation
Indices: 4248260--4248311 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
4248250 TTTTCCAAGA
4248260 TAGATTTTTAAAGTTATTGAGCCTC
1 TAGATTTTTAAAGTTATTGAGCCTC
*
4248285 TAGATTTTTAAAGTTGTTGAGCCTC
1 TAGATTTTTAAAGTTATTGAGCCTC
4248310 TA
1 TA
4248312 TCTAGATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (25 bp):
TAGATTTTTAAAGTTATTGAGCCTC
Found at i:4248340 original size:73 final size:73
Alignment explanation
Indices: 4248215--4248358 Score: 202
Period size: 73 Copynumber: 2.0 Consensus size: 73
4248205 TCCAAGATGA
* *
4248215 ATTTTTAAAGTTGTTGAGCTTCTGCTGAGAAGAGCTTTTCCAAGATAGATTTTTAAAGTTATTGA
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCAAGATAGATTTTTAAAGTTATTGA
4248280 GCCTCTAG
66 GCCTCTAG
* * * *
4248288 ATTTTTAAAGTTGTTGAGCCTCTATCT-AGATGAACTTTTTCAAGAT-GAATTTTTAAAGTTGTT
1 ATTTTTAAAGTTGTTGAGCCTCT-GCTGAGAAGAACTTTTCCAAGATAG-ATTTTTAAAGTTATT
4248351 GAGCCTCT
64 GAGCCTCT
4248359 GCTGAGATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
72 1 0.02
73 60 0.95
74 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (73 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCAAGATAGATTTTTAAAGTTATTGA
GCCTCTAG
Found at i:4248381 original size:121 final size:122
Alignment explanation
Indices: 4248166--4248402 Score: 345
Period size: 121 Copynumber: 2.0 Consensus size: 122
4248156 TCTAAGATAA
* *
4248166 ATTTTTAAAGTTGTTAAGCATCTGCTTATATGAGCTTTTTCCAAGATGAATTTTTAAAGTTGTTG
1 ATTTTTAAAGTTGTTAAGCATCTGCTTAGATGAACTTTTTCCAAGATGAATTTTTAAAGTTGTTG
*
4248231 AGCTTCTGCTGAGAAGAGCTTTTCCAAGATAGATTTTTAAAGTTATTGAGCCTCTAG
66 AGCCTCTGCTGAGAAGAGCTTTTCCAAGATAGATTTTTAAAGTTATTGAGCCTCTAG
* * *
4248288 ATTTTTAAAGTTGTTGAGCCTCT-ATCTAGATGAACTTTTT-CAAGATGAATTTTTAAAGTTGTT
1 ATTTTTAAAGTTGTTAAGCATCTGCT-TAGATGAACTTTTTCCAAGATGAATTTTTAAAGTTGTT
* * * *
4248351 GAGCCTCTGCTGAGATGAGCTCTTT-CAAGATGGATTTTTAAATTTGTTGAGC
65 GAGCCTCTGCTGAGAAGAGCT-TTTCCAAGATAGATTTTTAAAGTTATTGAGC
4248403 TTCTGTTTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
121 67 0.65
122 36 0.35
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.41
Consensus pattern (122 bp):
ATTTTTAAAGTTGTTAAGCATCTGCTTAGATGAACTTTTTCCAAGATGAATTTTTAAAGTTGTTG
AGCCTCTGCTGAGAAGAGCTTTTCCAAGATAGATTTTTAAAGTTATTGAGCCTCTAG
Found at i:4248659 original size:99 final size:99
Alignment explanation
Indices: 4248533--4248719 Score: 250
Period size: 99 Copynumber: 1.9 Consensus size: 99
4248523 CAAGATGATT
* * * *
4248533 TTTTTAAAGTTGTGGAGCCTCTGCTTAGAGGAACTTTTTTCAAAATGAATT-TTTAAAATCGTTG
1 TTTTTAAAGTTGTGAAGCCTCTACTTAGAAGAACTTTTTCCAAAAT-AATTCTTTAAAATCGTTG
*
4248597 AGCCTCTGCATAAAGGAGATTTTTCTCAAGATAAA
65 AGCATCTGCATAAAGGAGATTTTTCTCAAGATAAA
* * * * *
4248632 TTTTTAAAGTTGTTAAGTCTCTACTTAGAAGAGCTTTTTCCAAGATAATTCTTTAAAATTGTTGA
1 TTTTTAAAGTTGTGAAGCCTCTACTTAGAAGAACTTTTTCCAAAATAATTCTTTAAAATCGTTGA
* *
4248697 GCATCTGCTTAAAGGAGTTTTTT
66 GCATCTGCATAAAGGAGATTTTT
4248720 TATATTTTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
98 4 0.05
99 71 0.95
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (99 bp):
TTTTTAAAGTTGTGAAGCCTCTACTTAGAAGAACTTTTTCCAAAATAATTCTTTAAAATCGTTGA
GCATCTGCATAAAGGAGATTTTTCTCAAGATAAA
Found at i:4248719 original size:49 final size:49
Alignment explanation
Indices: 4248288--4248719 Score: 256
Period size: 48 Copynumber: 8.8 Consensus size: 49
4248278 GAGCCTCTAG
* * * * **
4248288 ATTTTTAAAGTTGTTGAGCCTCT-ATCTAGATGAACTTTTT-CAAGATGA
1 ATTTTTAAAATTGTTGAGCCTCTGCT-TAAAGGAGTTTTTTCCAAGATGA
* * * * * * *
4248336 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTCTTT-CAAGATGG
1 ATTTTTAAAATTGTTGAGCCTCTGCTTAAAGGAGTTTTTTCCAAGATGA
* * * * *
4248384 ATTTTTAAATTTGTTGAGCTTCTGTTTATAGGAGCTTTTT-CAAGATG-
1 ATTTTTAAAATTGTTGAGCCTCTGCTTAAAGGAGTTTTTTCCAAGATGA
* * * * * *
4248431 ACTTTTAAAGTTGTTGAACCTCTGTTTAGAA-GAG-CTTTTCTAAGATGA
1 ATTTTTAAAATTGTTGAGCCTCTGCTTA-AAGGAGTTTTTTCCAAGATGA
* * * * * * * *
4248479 TTTTTTTTTTAAAGTTGTGGAGCCTCT-TTTAGAGAAGCTTTTCCCAAGATGA
1 ----ATTTTTAAAATTGTTGAGCCTCTGCTTAAAGGAGTTTTTTCCAAGATGA
* * * * * *
4248531 TTTTTTTAAAGTTGTGGAGCCTCTGCTTAGAGGAACTTTTTT-CAAAATGA
1 -ATTTTTAAAATTGTTGAGCCTCTGCTTAAAGG-AGTTTTTTCCAAGATGA
* * * *
4248581 ATTTTTAAAATCGTTGAGCCTCTGCATAAAGGAGATTTTTCTCAAGATAA
1 ATTTTTAAAATTGTTGAGCCTCTGCTTAAAGGAGTTTTTTC-CAAGATGA
* * * * *
4248631 ATTTTTAAAGTTGTTAAGTCTCTACTTAGAA-GAGCTTTTTCCAAGAT-A
1 ATTTTTAAAATTGTTGAGCCTCTGCTTA-AAGGAGTTTTTTCCAAGATGA
*
4248679 ATTCTTTAAAATTGTTGAGCATCTGCTTAAAGGAGTTTTTT
1 ATT-TTTAAAATTGTTGAGCCTCTGCTTAAAGGAGTTTTTT
4248720 TATATTTTCA
Statistics
Matches: 310, Mismatches: 57, Indels: 33
0.77 0.14 0.08
Matches are distributed among these distances:
46 4 0.01
47 33 0.11
48 94 0.30
49 85 0.27
50 51 0.16
51 13 0.04
52 30 0.10
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (49 bp):
ATTTTTAAAATTGTTGAGCCTCTGCTTAAAGGAGTTTTTTCCAAGATGA
Found at i:4248742 original size:44 final size:44
Alignment explanation
Indices: 4248692--4248784 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
4248682 CTTTAAAATT
*** *
4248692 GTTGAGCATCTGCTTAAAGGAGTTTTTTTATATTTTCAAAAGTA
1 GTTGAGCATCTGCTTAAAGGAGCCCTTTTAAATTTTCAAAAGTA
* * * *
4248736 GTTGAGCCTCTGCTTATATGAGCCCTTTTAAATTTTCAAAAGTT
1 GTTGAGCATCTGCTTAAAGGAGCCCTTTTAAATTTTCAAAAGTA
4248780 GTTGA
1 GTTGA
4248785 ACCTCTATTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (44 bp):
GTTGAGCATCTGCTTAAAGGAGCCCTTTTAAATTTTCAAAAGTA
Found at i:4248809 original size:44 final size:44
Alignment explanation
Indices: 4248715--4248820 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
4248705 TTAAAGGAGT
* * * * *
4248715 TTTTTTATATTTTCAAAAGTAGTTGAGCCTCTGCTTATATGAGC
1 TTTTTTAAATTTTCAAAAGTAGTTGAACCTCTGATTAGAAGAGC
** *
4248759 CCTTTTAAATTTTCAAAAGTTGTTGAACCTCT-ATTGAGAAGAGC
1 TTTTTTAAATTTTCAAAAGTAGTTGAACCTCTGATT-AGAAGAGC
4248803 TTTTTTAAATTTTCAAAA
1 TTTTTTAAATTTTCAAAA
4248821 AAAAAATCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 2 0.04
44 49 0.96
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (44 bp):
TTTTTTAAATTTTCAAAAGTAGTTGAACCTCTGATTAGAAGAGC
Found at i:4251486 original size:11 final size:11
Alignment explanation
Indices: 4251466--4251494 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4251456 AAAAATTAAC
4251466 AATA-TATAAA
1 AATATTATAAA
4251476 AATATTATAAA
1 AATATTATAAA
4251487 AATATTAT
1 AATATTAT
4251495 TTATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATTATAAA
Found at i:4257707 original size:17 final size:19
Alignment explanation
Indices: 4257661--4257710 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
4257651 GTTCGTAAAT
*
4257661 TTATTTTTTAAAATATTTT
1 TTATTTTTTAAAATATTTG
**
4257680 TTAAATTTTAAAA-A-TTG
1 TTATTTTTTAAAATATTTG
4257697 TTATTTTTTAAAAT
1 TTATTTTTTAAAAT
4257711 TTTTATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 13 0.52
18 1 0.04
19 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATTTTTTAAAATATTTG
Found at i:4260609 original size:20 final size:20
Alignment explanation
Indices: 4260572--4260610 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4260562 ATATATATCT
*
4260572 AATAAATAAATTTTTTATTA
1 AATAAATAAATTTATTATTA
4260592 AATAATATAAA-TTATTATT
1 AATAA-ATAAATTTATTATT
4260611 TTAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAAATAAATTTATTATTA
Found at i:4260620 original size:23 final size:22
Alignment explanation
Indices: 4260572--4260638 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 22
4260562 ATATATATCT
4260572 AATAA-ATAAATT-TT-TTATTA
1 AATAATATAAATTATTATT-TTA
4260592 AATAATATAAATTATTATTTTA
1 AATAATATAAATTATTATTTTA
4260614 AATTAAT-TAAAATTAATATATTTTA
1 AA-TAATAT-AAATT-AT-TATTTTA
4260639 TTAAAGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.12
21 7 0.17
22 8 0.20
23 11 0.28
24 2 0.05
25 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAATATAAATTATTATTTTA
Found at i:4260656 original size:28 final size:26
Alignment explanation
Indices: 4260625--4260689 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 26
4260615 ATTAATTAAA
4260625 ATTAATATAT-TTTATTAAAGAAATATAT
1 ATTAATATATATTTA-TAAA-AAAT-TAT
4260653 ATTAATATATATTTATAAAAAATTAT
1 ATTAATATATATTTATAAAAAATTAT
4260679 -TTAAATATATA
1 ATT-AATATATA
4260690 AGATAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 4 0.11
28 14 0.40
29 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTAATATATATTTATAAAAAATTAT
Found at i:4260826 original size:18 final size:16
Alignment explanation
Indices: 4260805--4260839 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
4260795 AAATATTTAT
4260805 TAAATATGAATATGAAAA
1 TAAATAT-AATAT-AAAA
4260823 TAAATATAATATAAAA
1 TAAATATAATATAAAA
4260839 T
1 T
4260840 TTTGAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAATATAATATAAAA
Found at i:4265046 original size:29 final size:27
Alignment explanation
Indices: 4264997--4265063 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
4264987 AATTACAAAA
**
4264997 AATATTATTTATAATTTAAATTTGATT
1 AATATTATTTATAATAAAAATTTGATT
*
4265024 AATACTTATTTAATAATAAAAATTTTATT
1 AATA-TTATTT-ATAATAAAAATTTGATT
*
4265053 AA-ATTTTTTAT
1 AATATTATTTAT
4265064 TTAAAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 2 0.06
27 9 0.26
28 7 0.21
29 16 0.47
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
AATATTATTTATAATAAAAATTTGATT
Found at i:4265146 original size:7 final size:6
Alignment explanation
Indices: 4265120--4265144 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4265110 TATATAACTA
4265120 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
4265145 TAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:4268301 original size:17 final size:18
Alignment explanation
Indices: 4268250--4268302 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
4268240 GGAATTTTAA
4268250 ATTCCGGAGGAAAGTGTG
1 ATTCCGGAGGAAAGTGTG
* * *
4268268 ATCCCTG-GGAAAATGTG
1 ATTCCGGAGGAAAGTGTG
*
4268285 ATTCC-GAGGGAAGTGTG
1 ATTCCGGAGGAAAGTGTG
4268302 A
1 A
4268303 GTTTCCATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 1 0.04
17 22 0.79
18 5 0.18
ACGTcount: A:0.28, C:0.13, G:0.36, T:0.23
Consensus pattern (18 bp):
ATTCCGGAGGAAAGTGTG
Found at i:4269532 original size:5 final size:5
Alignment explanation
Indices: 4269522--4269559 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
4269512 GATTGAATCA
* *
4269522 TTTCG TTTCG TTTCG TTTCG TTGCG TTGCG TTTC- TTTC
1 TTTCG TTTCG TTTCG TTTCG TTTCG TTTCG TTTCG TTTC
4269560 TCTTTTGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.00, C:0.21, G:0.21, T:0.58
Consensus pattern (5 bp):
TTTCG
Found at i:4272430 original size:16 final size:16
Alignment explanation
Indices: 4272409--4272439 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4272399 GAGTTGAGAC
*
4272409 TGATGTTTTGCATTCA
1 TGATGTTTCGCATTCA
4272425 TGATGTTTCGCATTC
1 TGATGTTTCGCATTC
4272440 CTAAAACCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.48
Consensus pattern (16 bp):
TGATGTTTCGCATTCA
Found at i:4272928 original size:14 final size:13
Alignment explanation
Indices: 4272892--4272935 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
4272882 TTGAGATAAT
*
4272892 AATTAAATTATTTA
1 AATTAATTTA-TTA
4272906 AATTAATTTAATTA
1 AATTAATTT-ATTA
*
4272920 AATTTATTTATTA
1 AATTAATTTATTA
4272933 AAT
1 AAT
4272936 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 7 0.26
14 19 0.70
15 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTATTA
Found at i:4273962 original size:13 final size:14
Alignment explanation
Indices: 4273940--4273976 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
4273930 CTTACTTAAC
4273940 ATAATAATTTAATT
1 ATAATAATTTAATT
4273954 ATAAT-ATTTAATT
1 ATAATAATTTAATT
*
4273967 ATCATAATTT
1 ATAATAATTT
4273977 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATAATTTAATT
Found at i:4275008 original size:21 final size:22
Alignment explanation
Indices: 4274991--4275033 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
4274981 TTCAAAAGTT
4274991 AAATAAATAA-ATT-TAAAATT
1 AAATAAATAATATTATAAAATT
*
4275011 ATAAAAAATAATATTATAAAATT
1 A-AATAAATAATATTATAAAATT
4275034 TTTATGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 8 0.42
22 3 0.16
23 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAATAATATTATAAAATT
Found at i:4276887 original size:22 final size:23
Alignment explanation
Indices: 4276862--4276907 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4276852 CTCGAAATTA
4276862 ATAAAATATT-TTTTTAAAATAT
1 ATAAAATATTATTTTTAAAATAT
*
4276884 ATAAAATATTATTTTTTAAATAT
1 ATAAAATATTATTTTTAAAATAT
4276907 A
1 A
4276908 AATATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAAAATATTATTTTTAAAATAT
Found at i:4278391 original size:12 final size:12
Alignment explanation
Indices: 4278372--4278406 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4278362 TCAGGAAAAT
*
4278372 AATTTTTTT-TG
1 AATTTTTTTATA
4278383 AATTTTTTTATA
1 AATTTTTTTATA
4278395 AATTTTTTTATA
1 AATTTTTTTATA
4278407 TATATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
AATTTTTTTATA
Found at i:4278671 original size:22 final size:21
Alignment explanation
Indices: 4278629--4278680 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4278619 AAATATTTAT
* *
4278629 AAAAAATTTTTCAATATAATA
1 AAAAAAATTTTCAATAAAATA
*
4278650 AAAAAAATTTTCTTATAAAATA
1 AAAAAAATTTTC-AATAAAATA
4278672 ACAAAAAAT
1 A-AAAAAAT
4278681 CAATTAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 11 0.42
22 8 0.31
23 7 0.27
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAAATTTTCAATAAAATA
Found at i:4278724 original size:200 final size:200
Alignment explanation
Indices: 4278501--4278863 Score: 468
Period size: 200 Copynumber: 1.8 Consensus size: 200
4278491 ATTAATTAAT
* *
4278501 ATAATAAAAAAATAAGAAAAAAAATTTTATTCAACGATGAGATTC-AGAAGTACTCCGAGTAGTG
1 ATAATAAAAAAATAAGAAAAAAAATTTTATCCAACGATGAGATTCTAAAAGTA-TCCGAGTAGTG
* * *
4278565 AT-ACCTATAAAATCTCTAGGTGAGAAA-ATTTTTTT-TAATACTATCAGTGTATTGAAATATTT
65 ATGACCTATAAAATCTCTAGGTGA-AAAGATTTTTTTAAAATACTACCAGTGTATTAAAATATTT
* *
4278627 ATA-AAAAATTTTTCAATATAAT-AAAAAAAATTTTCTTATAAAATAACAAAAAATCAATTAATA
129 ATAGAAAAA--CTTCAATACAATAAAAAAAAATTTTCTTATAAAATAACAAAAAATCAATTAATA
4278690 TATTAAAAA
192 TATTAAAAA
* * * **
4278699 ATAATAATATAAATAAGGAAAAAAAATTTTATCCAATGATGGGATTCTAAAAGTATTTGAGTAGT
1 ATAATAA-AAAAATAA-GAAAAAAAATTTTATCCAACGATGAGATTCTAAAAGTATCCGAGTAGT
*** * *
4278764 GATGTTTTATGAAATCTCTAGGTGAAAAGATTTTTTTAAAATATTACCAGTGTATTAAAATATTT
64 GATGACCTATAAAATCTCTAGGTGAAAAGATTTTTTTAAAATACTACCAGTGTATTAAAATATTT
*
4278829 ATAGAAAGACTTCAATACAATAAAAAAAAATTTTC
129 ATAGAAAAACTTCAATACAATAAAAAAAAATTTTC
4278864 AAAATAAAAA
Statistics
Matches: 139, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
198 7 0.05
199 7 0.05
200 41 0.29
201 41 0.29
202 39 0.28
203 4 0.03
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (200 bp):
ATAATAAAAAAATAAGAAAAAAAATTTTATCCAACGATGAGATTCTAAAAGTATCCGAGTAGTGA
TGACCTATAAAATCTCTAGGTGAAAAGATTTTTTTAAAATACTACCAGTGTATTAAAATATTTAT
AGAAAAACTTCAATACAATAAAAAAAAATTTTCTTATAAAATAACAAAAAATCAATTAATATATT
AAAAA
Found at i:4290738 original size:50 final size:48
Alignment explanation
Indices: 4290670--4291107 Score: 309
Period size: 50 Copynumber: 8.8 Consensus size: 48
4290660 TTTGGAGCTT
*
4290670 TTTTTC-AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAAAAGAGC
1 TTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGC-TAAAAGAGC
* * * * *
4290718 TTTTCCAAGATGAAATTTTTTAAAATTGTCT-AGCCTCTACTGAGAGGAGC
1 TTTTTCAAGATGAAA-TTTTTAAAGTTGT-TGAGCCTCTGCT-AAAAGAGC
* * *
4290768 TTTTTCAA-ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGC
1 TTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTAAAAG-AGC
* * *
4290816 TTTTTTCAA-ATG-AATTTTTAAAGTTGTCGAGCCTCTACTAAGAGTAGC
1 -TTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTAAAAG-AGC
* * ** * *
4290864 ATTTTCAAGATGAGAATTTTTAAAATTGTCAAACCTCTGCTAAGATGAGCC
1 TTTTTCAAGATGA-AATTTTTAAAGTTGTTGAGCCTCTGCTAA-AAGAG-C
** * *
4290915 ATTTTT-AAGATGAAAATTTTTAAAGTTGTCAAGCCTCTACTAAGAGGAGC
1 -TTTTTCAAGATG-AAATTTTTAAAGTTGTTGAGCCTCTGCTAA-AAGAGC
* * ** * *
4290965 TTTTGCAAGATGAGAATTTTTAAAGTTATCAAGCCTCTGCTGAGAGAAGC
1 TTTTTCAAGATGA-AATTTTTAAAGTTGTTGAGCCTCTGCTAAAAG-AGC
* * * * *
4291015 TTTTCCAAGATGAGAGATTTTTTTTTAAAAGTTGTTGAGTCTTTGCTGAGATGAGC
1 TTTTTCAAGATGA-A-A----TTTTT-AAAGTTGTTGAGCCTCTGCT-AAAAGAGC
4291071 TTTTTCAAGA-G-AA-TTTTAAAGTTGTTGAGCCTCTGCT
1 TTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCT
4291108 CAGAGGAACC
Statistics
Matches: 316, Mismatches: 50, Indels: 50
0.76 0.12 0.12
Matches are distributed among these distances:
46 18 0.06
47 13 0.04
48 63 0.20
49 30 0.09
50 110 0.35
51 41 0.13
52 6 0.02
53 1 0.00
55 6 0.02
56 27 0.09
57 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (48 bp):
TTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTAAAAGAGC
Found at i:4290784 original size:98 final size:99
Alignment explanation
Indices: 4290670--4291107 Score: 394
Period size: 101 Copynumber: 4.4 Consensus size: 99
4290660 TTTGGAGCTT
*
4290670 TTTTTCAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAAAAG-AGC-TTTTCCAAGATGAAA
1 TTTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGC-TAAAAGAAGCATTTTCCAAGATGAAA
*
4290733 TTTTTTAAAATTGTCTAGCCTCTACTGAGAGGAGC
65 TTTTTTAAAATTGTCTAGCCTCTACTAAGAGGAGC
* * * *
4290768 TTTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTTCAA-ATG-AA-
1 TTTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAAAGAAGCATTTTCCAAGATGAAAT
* * *
4290830 TTTTTAAAGTTGTCGAGCCTCTACTAAGAGTAGC
66 TTTTTAAAATTGTCTAGCCTCTACTAAGAGGAGC
* * ** * * *
4290864 ATTTTCAAGATGAGAATTTTTAAAATTGTCAAACCTCTGCTAAGATG-AGCCATTTT-TAAGATG
1 TTTTTCAA-ATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTAA-AAGAAG-CATTTTCCAAGATG
* * *
4290927 AAAATTTTTAAAGTTGTCAAGCCTCTACTAAGAGGAGC
62 AAATTTTTTAAAATTGTCTAGCCTCTACTAAGAGGAGC
* * ** * *
4290965 TTTTGCAAGATGAGAATTTTTAAAGTTATCAAGCCTCTGCTGAGAGAAGC-TTTTCCAAGATGAG
1 TTTTTCAA-ATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTAAAAGAAGCATTTTCCAAGATGA-
* * * * *
4291029 AGATTTTTTTTTAAAAGTTGT-TGAGTCTTTGCTGAGATGAGC
63 A-A---TTTTTTAAAA-TTGTCT-AGCCTCTACTAAGAGGAGC
*
4291071 TTTTTC-AA-GAGAATTTTAAAGTTGTTGAGCCTCTGCT
1 TTTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGCT
4291108 CAGAGGAACC
Statistics
Matches: 280, Mismatches: 42, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
96 37 0.13
97 11 0.04
98 70 0.25
99 20 0.07
100 11 0.04
101 72 0.26
102 23 0.08
103 3 0.01
104 1 0.00
105 9 0.03
106 23 0.08
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (99 bp):
TTTTTCAAATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAAAGAAGCATTTTCCAAGATGAAAT
TTTTTAAAATTGTCTAGCCTCTACTAAGAGGAGC
Found at i:4290950 original size:101 final size:100
Alignment explanation
Indices: 4290671--4291036 Score: 405
Period size: 101 Copynumber: 3.7 Consensus size: 100
4290661 TTGGAGCTTT
** * *
4290671 TTTTC-AGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTTAAAAG-AGC-TTTTCCAAGATGAA
1 TTTTCAAGATGAGAATTTTTAAAGTTGTCAAGCCTCTGC-TAAGAGAAGCATTTTTCAAGATGAA
* * * *
4290732 ATTTTTTAAAATTGTCTAGCCTCTACTGAGAGGAGC
65 AATTTTTAAAGTTGTCAAGCCTCTACTAAGAGGAGC
** * *
4290768 TTTTTCAA-ATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTTTCAA-ATG--
1 -TTTTCAAGATGAGAATTTTTAAAGTTGTCAAGCCTCTGCTAAGAGAAGCATTTTTCAAGATGAA
* *
4290828 AATTTTTAAAGTTGTCGAGCCTCTACTAAGAGTAGC
65 AATTTTTAAAGTTGTCAAGCCTCTACTAAGAGGAGC
* *
4290864 ATTTTCAAGATGAGAATTTTTAAAATTGTCAAACCTCTGCTAAGATG-AGCCATTTTT-AAGATG
1 -TTTTCAAGATGAGAATTTTTAAAGTTGTCAAGCCTCTGCTAAGA-GAAG-CATTTTTCAAGATG
4290927 AAAATTTTTAAAGTTGTCAAGCCTCTACTAAGAGGAGC
63 AAAATTTTTAAAGTTGTCAAGCCTCTACTAAGAGGAGC
* * *
4290965 TTTTGCAAGATGAGAATTTTTAAAGTTATCAAGCCTCTGCTGAGAGAAGC-TTTTCCAAGATGAG
1 TTTT-CAAGATGAGAATTTTTAAAGTTGTCAAGCCTCTGCTAAGAGAAGCATTTTTCAAGATGA-
*
4291029 AGATTTTT
64 AAATTTTT
4291037 TTTTAAAAGT
Statistics
Matches: 231, Mismatches: 23, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
96 38 0.16
97 9 0.04
98 70 0.30
99 22 0.10
100 13 0.06
101 79 0.34
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (100 bp):
TTTTCAAGATGAGAATTTTTAAAGTTGTCAAGCCTCTGCTAAGAGAAGCATTTTTCAAGATGAAA
ATTTTTAAAGTTGTCAAGCCTCTACTAAGAGGAGC
Found at i:4291303 original size:12 final size:12
Alignment explanation
Indices: 4291288--4291321 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4291278 TTAATTATTA
4291288 TTTTTTTTTCTT
1 TTTTTTTTTCTT
*
4291300 TTTTTCTTTCTT
1 TTTTTTTTTCTT
4291312 TTTTTCTTTT
1 TTTTT-TTTT
4291322 TCCTGCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:4292064 original size:27 final size:27
Alignment explanation
Indices: 4292033--4292095 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
4292023 AGCCAAAACA
4292033 ACGTCGTTTCAATAAACACTCAAAATG
1 ACGTCGTTTCAATAAACACTCAAAATG
4292060 ACGTCGTTTCAATAAACACTCAAAATG
1 ACGTCGTTTCAATAAACACTCAAAATG
4292087 ACGTCGTTT
1 ACGTCGTTT
4292096 TGAGACCTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (27 bp):
ACGTCGTTTCAATAAACACTCAAAATG
Found at i:4292349 original size:13 final size:13
Alignment explanation
Indices: 4292331--4292355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4292321 AAAATTTTGA
4292331 ATTTTTTTTATAG
1 ATTTTTTTTATAG
4292344 ATTTTTTTTATA
1 ATTTTTTTTATA
4292356 TATATTATTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTTTTTTATAG
Found at i:4292352 original size:15 final size:16
Alignment explanation
Indices: 4292331--4292372 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
4292321 AAAATTTTGA
4292331 ATTTTTTTTATAGATT
1 ATTTTTTTTATAGATT
* *
4292347 -TTTTTTATATATATT
1 ATTTTTTTTATAGATT
*
4292362 ATTTTTGTTAT
1 ATTTTTTTTAT
4292373 TTTAATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (16 bp):
ATTTTTTTTATAGATT
Found at i:4292629 original size:22 final size:21
Alignment explanation
Indices: 4292587--4292639 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4292577 GAGTATTTAT
*
4292587 AAAAAAATTTTCAATACAATA
1 AAAAAAATTTTCAATAAAATA
*
4292608 AAAAAAATTTTCTTATAAAATA
1 AAAAAAATTTTC-AATAAAATA
*
4292630 ACATAAAATT
1 A-AAAAAATT
4292640 AATTAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 12 0.44
22 8 0.30
23 7 0.26
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAAATTTTCAATAAAATA
Found at i:4293729 original size:13 final size:13
Alignment explanation
Indices: 4293711--4293768 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
4293701 TATTTTTAAT
4293711 TAATTTAAAATAA
1 TAATTTAAAATAA
* * *
4293724 TAATTTATATTAT
1 TAATTTAAAATAA
4293737 TAA--TAAAA-AA
1 TAATTTAAAATAA
4293747 TATATTTAATAATAA
1 TA-ATTTAA-AATAA
4293762 TAATTTA
1 TAATTTA
4293769 TGTAAATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
13 16 0.47
14 7 0.21
15 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTTAAAATAA
Found at i:4293740 original size:30 final size:33
Alignment explanation
Indices: 4293671--4293741 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
4293661 TTTATAAATA
*
4293671 TATTAATATATATTTTAAATAAAAATATATTAT
1 TATTAATATATATTTAAAATAAAAATATATTAT
* * *
4293704 TTTTAAT-TA-ATTTAAAATAATAATTTA-TAT
1 TATTAATATATATTTAAAATAAAAATATATTAT
4293734 TATTAATA
1 TATTAATA
4293742 AAAAATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 9 0.28
31 15 0.47
32 2 0.06
33 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTAATATATATTTAAAATAAAAATATATTAT
Found at i:4293766 original size:51 final size:51
Alignment explanation
Indices: 4293665--4293768 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 51
4293655 AATTTCTTTA
* *
4293665 TAAATATATTAATATATATTTTAAATAAAAATATATTATTTTTAATTAATT
1 TAAATATAATAATATATATTTTAAATAAAAATATATTATTTATAATTAATT
*
4293716 TAAA-ATAATAATTTATATTATT-AATAAAAA-ATA-TATTTAATAATAATAATT
1 TAAATATAATAATATATATT-TTAAATAAAAATATATTATTT-ATAAT--TAATT
4293767 TA
1 TA
4293769 TGTAAATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
48 5 0.11
49 7 0.15
50 21 0.46
51 13 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (51 bp):
TAAATATAATAATATATATTTTAAATAAAAATATATTATTTATAATTAATT
Found at i:4301350 original size:14 final size:12
Alignment explanation
Indices: 4301317--4301375 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
4301307 TTATATAAAA
4301317 AATTATTT-TTT
1 AATTATTTATTT
4301328 AATTATTTATTT
1 AATTATTTATTT
*
4301340 ATATATATTTATAT
1 A-AT-TATTTATTT
*
4301354 AATAATATT-TTT
1 AATTAT-TTATTT
*
4301366 AAATATTTAT
1 AATTATTTAT
4301376 ATTTAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.34
13 6 0.16
14 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:4302434 original size:14 final size:14
Alignment explanation
Indices: 4302415--4302441 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4302405 AACGCATGTG
4302415 AATATATATTATTA
1 AATATATATTATTA
4302429 AATATATATTATT
1 AATATATATTATT
4302442 TGACTCAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATATATATTATTA
Found at i:4302490 original size:15 final size:15
Alignment explanation
Indices: 4302470--4302501 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4302460 ATCATACATA
4302470 TATTCTTAATTTTAT
1 TATTCTTAATTTTAT
4302485 TATTCTTAATTTTAT
1 TATTCTTAATTTTAT
4302500 TA
1 TA
4302502 ACAAATCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTCTTAATTTTAT
Found at i:4306212 original size:24 final size:24
Alignment explanation
Indices: 4306155--4306214 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
4306145 TTAAAACACG
4306155 ATATAAT-ATAATATAAATAAAAA
1 ATATAATAATAATATAAATAAAAA
* * *
4306178 ATATAAAAATAATATAATTTAAAA
1 ATATAATAATAATATAAATAAAAA
* *
4306202 TTTTAATAATAAT
1 ATATAATAATAAT
4306215 TATATCTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAATAATAATATAAATAAAAA
Found at i:4306290 original size:12 final size:13
Alignment explanation
Indices: 4306273--4306339 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
4306263 GGTATAATTT
4306273 TTATATAAA-ATA
1 TTATATAAATATA
4306285 TTATATAAATATA
1 TTATATAAATATA
* * *
4306298 TTAATTTTAATATT
1 TT-ATATAAATATA
* *
4306312 TTATATGATATAAA
1 TTATAT-AAATATA
4306326 TTAT-TAAAT-TA
1 TTATATAAATATA
4306337 TTA
1 TTA
4306340 AATCTATTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
11 4 0.10
12 12 0.29
13 9 0.21
14 17 0.40
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (13 bp):
TTATATAAATATA
Found at i:4307941 original size:2 final size:2
Alignment explanation
Indices: 4307934--4307970 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4307924 TTCACTACCC
4307934 CT CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4307971 TTACTTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:4308842 original size:18 final size:18
Alignment explanation
Indices: 4308819--4308856 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4308809 TGGTTTATGA
4308819 AATGGTGTTTAGAGTACT
1 AATGGTGTTTAGAGTACT
4308837 AATGGTGTTTAGAGTACT
1 AATGGTGTTTAGAGTACT
4308855 AA
1 AA
4308857 GTTTTCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (18 bp):
AATGGTGTTTAGAGTACT
Found at i:4317421 original size:16 final size:17
Alignment explanation
Indices: 4317396--4317438 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
4317386 CATGAAAAAG
* *
4317396 AAATTGTATATAA-CTT
1 AAATTTTATATAATATT
4317412 AAATTTTATATAATATT
1 AAATTTTATATAATATT
4317429 AAATTATTAT
1 AAATT-TTAT
4317439 TGATTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
17 7 0.30
18 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
AAATTTTATATAATATT
Found at i:4318063 original size:11 final size:11
Alignment explanation
Indices: 4318047--4318082 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
4318037 AATTTCAAAA
4318047 TTAAAAATTAT
1 TTAAAAATTAT
4318058 TTAAAAATTATT
1 TTAAAAATTA-T
4318070 TTAAAAATTAT
1 TTAAAAATTAT
4318081 TT
1 TT
4318083 TCAGCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTAAAAATTAT
Found at i:4318072 original size:12 final size:12
Alignment explanation
Indices: 4318047--4318083 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
4318037 AATTTCAAAA
4318047 TTAAAAATTA-T
1 TTAAAAATTATT
4318058 TTAAAAATTATT
1 TTAAAAATTATT
4318070 TTAAAAATTATT
1 TTAAAAATTATT
4318082 TT
1 TT
4318084 CAGCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TTAAAAATTATT
Found at i:4324140 original size:2 final size:2
Alignment explanation
Indices: 4324133--4324162 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4324123 GAAACCCAAC
4324133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4324163 GAAATTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4326951 original size:2 final size:2
Alignment explanation
Indices: 4326938--4326983 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
4326928 ATACTTCCTC
* * *
4326938 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4326980 AT AT
1 AT AT
4326984 CTAGTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4330451 original size:11 final size:11
Alignment explanation
Indices: 4330437--4330462 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4330427 ACAAATTTAA
4330437 TTATTTATATT
1 TTATTTATATT
4330448 TTATTTATATT
1 TTATTTATATT
4330459 TTAT
1 TTAT
4330463 ATGATACAAA
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTATATT
Found at i:4332053 original size:46 final size:46
Alignment explanation
Indices: 4332000--4332092 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
4331990 TATTTTTTTT
4332000 ATCAGTGAAAGATTACCTATGAGTAGTTATAATTCATTACAAGAGA
1 ATCAGTGAAAGATTACCTATGAGTAGTTATAATTCATTACAAGAGA
4332046 ATCAGTGAAAGATTACCTATGAGTAGTTATAATTCATTACAAGAGA
1 ATCAGTGAAAGATTACCTATGAGTAGTTATAATTCATTACAAGAGA
4332092 A
1 A
4332093 ACCATTTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (46 bp):
ATCAGTGAAAGATTACCTATGAGTAGTTATAATTCATTACAAGAGA
Found at i:4341919 original size:25 final size:26
Alignment explanation
Indices: 4341866--4341920 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
4341856 TATTATTAAA
4341866 ATATTATTTTAAAAAATAAAATAAATAC
1 ATATTATTTTAAAAAATAAAAT--ATAC
* *
4341894 ATATTATTTTAAGAAATCAAAT-TAC
1 ATATTATTTTAAAAAATAAAATATAC
4341919 AT
1 AT
4341921 TAAATGTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
28 20 0.80
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (26 bp):
ATATTATTTTAAAAAATAAAATATAC
Found at i:4342862 original size:16 final size:17
Alignment explanation
Indices: 4342841--4342873 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4342831 TGTGATTTTG
4342841 AAAAAAAAATA-ATATT
1 AAAAAAAAATATATATT
*
4342857 AAAAAAGAATATATATT
1 AAAAAAAAATATATATT
4342874 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAAAAAATATATATT
Found at i:4343442 original size:72 final size:69
Alignment explanation
Indices: 4343310--4343449 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 69
4343300 TAGCAATATT
* * * *
4343310 TATTATGTTTTTATTTTAAAAAATAATTTTTGTTAAAATTTTATAATTTTAAAAATAAAATTTCA
1 TATTATGTTTTTATCTTAAAAAATAATCTTTATTAAAATTTCATAATTTTAAAAATAAAATTT-A
4343375 ACATA
65 ACATA
*
4343380 TATTATGTTTTTTATCTTAAAAATATGATCTTTATTAAAATTTCATAATTTTGAAAAA-AAAATT
1 TATTATG-TTTTTATCTTAAAAA-ATAATCTTTATTAAAATTTCATAATTTT-AAAAATAAAATT
4343444 TAACAT
63 TAACAT
4343450 CTGCAACATT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
70 7 0.11
71 19 0.31
72 31 0.50
73 5 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (69 bp):
TATTATGTTTTTATCTTAAAAAATAATCTTTATTAAAATTTCATAATTTTAAAAATAAAATTTAA
CATA
Found at i:4343463 original size:72 final size:70
Alignment explanation
Indices: 4343317--4343473 Score: 167
Period size: 71 Copynumber: 2.2 Consensus size: 70
4343307 ATTTATTATG
* * * *
4343317 TTTTTATTTTAAAAAATAATTTTTGTTAAAATTTTATAATTTTAAAAATAAAATTTCAACATATA
1 TTTTTATATTAAAAAATAATCTTTATTAAAATTTCATAATTTTAAAAATAAAATTTCAACATATA
**
4343382 TTATGT
66 ACA-GT
* * *
4343388 TTTTTATCTTAAAAATATGATCTTTATTAAAATTTCATAATTTTGAAAAA-AAAATTT-AACATC
1 TTTTTATATTAAAAA-ATAATCTTTATTAAAATTTCATAATTTT-AAAAATAAAATTTCAACATA
4343451 TGCAACA-T
64 T--AACAGT
4343459 TTTTTATATTAAAAA
1 TTTTTATATTAAAAA
4343474 CTTAGTCTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
71 35 0.48
72 31 0.42
73 7 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (70 bp):
TTTTTATATTAAAAAATAATCTTTATTAAAATTTCATAATTTTAAAAATAAAATTTCAACATATA
ACAGT
Found at i:4343600 original size:66 final size:66
Alignment explanation
Indices: 4343365--4343770 Score: 252
Period size: 66 Copynumber: 6.0 Consensus size: 66
4343355 ATTTTAAAAA
** ** * *
4343365 TAAAATTTCAACATATATTATGTTTTTTATCTTAAAAATATGATCTTTATTAAAATTTCATAATT
1 TAAAATTTCAACATCCATTACATTTTTTATATTAAAAATATGATCTTTGTTAAAATTTCATAATT
4343430 T
66 T
*
4343431 TGAAAAAAAAATTT-AACATCTGCA--ACATTTTTTATATTAAAAACT-T-AGTCTTTGTTAAAG
1 T------AAAATTTCAACATC--CATTACATTTTTTATATTAAAAA-TATGA-TCTTTGTTAAAA
* * *
4343491 TTTTAGAATTA
56 TTTCATAATTT
* ** ** * *
4343502 TGAAATTTCAACATCTTTTACGCTTTTCATATTAAAAATATGATTTTTGTTAAAATTTCATAATT
1 TAAAATTTCAACATCCATTACATTTTTTATATTAAAAATATGATCTTTGTTAAAATTTCATAATT
4343567 T
66 T
* * * * *
4343568 CAAAATTTCAACATCCATTACATTTTGTATATTTTAAAAATACGATATTTGTTAAAATTTTGA-A
1 TAAAATTTCAACATCCATTACATTTT-T-TATATTAAAAATATGATCTTTGTTAAAA-TTTCATA
4343632 ATTTT
63 A-TTT
* * * * * * * * *
4343637 AAAAATAAAATTTCAACATTCATTACATTTCTTATCTTTAAAATGTAATTTTTATT-AAATTACA
1 -----TAAAATTTCAACATCCATTACATTTTTTATATTAAAAATATGATCTTTGTTAAAATTTCA
4343701 TAATTT
61 TAATTT
* * * * *
4343707 TGAAATTTTC-ACGTCCACTATATTTTTTATATTAAAAACATGATCTTTGTTAAAATTTCATAAT
1 T-AAAATTTCAACATCCATTACATTTTTTATATTAAAAATATGATCTTTGTTAAAATTTCATAAT
4343771 AAGTTTTAGC
Statistics
Matches: 255, Mismatches: 58, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
65 37 0.15
66 80 0.31
67 2 0.01
68 26 0.10
69 7 0.03
70 7 0.03
71 46 0.18
72 25 0.10
73 2 0.01
74 23 0.09
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (66 bp):
TAAAATTTCAACATCCATTACATTTTTTATATTAAAAATATGATCTTTGTTAAAATTTCATAATT
T
Found at i:4343713 original size:205 final size:198
Alignment explanation
Indices: 4343387--4343872 Score: 433
Period size: 205 Copynumber: 2.4 Consensus size: 198
4343377 ATATATTATG
* * * * * * *
4343387 TTTTTTATCTTAAAAATATGATCTTTATTAAAATTTCATAATTTTGAAAAA-AAAATTT-AACAT
1 TTTTTTATTTTAAAAATACGATATTTGTTAAAATTTTA-AAATTTCAAAAATAAAATTTCAACAT
*** * * * * * * ** *
4343450 CTGCAACATTTTTTATATTAAAAACT-TAGTCTTTGTTAAAGTTTTAGAATTATGAAA-TTTCAA
65 CTATTACATTTCTTATCTTTAAAA-TGTAATTTTTATTAAA-TTACATAATTATGAAATTTTC-A
*** * * *
4343513 CATCTTTTACGCTTTTCATATTAAAAATATGATTTTTGTTAAAATTTCATAATTTCAAAATTTCA
127 CATCCACTACACTTTTCATATTAAAAACATGATCTTTGTTAAAATTTCATAA--T--AAATTTCA
*
4343578 ACATCCATTACA
188 ACAT-CACTACA
* *
4343590 TTTTGTATATTTTAAAAATACGATATTTGTTAAAATTTTGAAATTTTAAAAATAAAATTTCAACA
1 TTTT-T-TATTTTAAAAATACGATATTTGTTAAAATTTTAAAATTTCAAAAATAAAATTTCAACA
*
4343655 T-TCATTACATTTCTTATCTTTAAAATGTAATTTTTATTAAATTACATAATTTTGAAATTTTCAC
64 TCT-ATTACATTTCTTATCTTTAAAATGTAATTTTTATTAAATTACATAATTATGAAATTTTCAC
* * * * * * *
4343719 GTCCACTATATTTTTTATATTAAAAACATGATCTTTGTTAAAATTTCATAATAAGTTTTAGCATC
128 ATCCACTACACTTTTCATATTAAAAACATGATCTTTGTTAAAATTTCATAATAAATTTCAACATC
**
4343784 ACTATG
193 ACTACA
* ** * *
4343790 TTTTTTATTTTAAGAATGTGATCTTTGTTAATATTTTAAAATTTCAAAAATAAAATTTCAACATC
1 TTTTTTATTTTAAAAATACGATATTTGTTAAAATTTTAAAATTTCAAAAATAAAATTTCAACATC
*
4343855 TATTATATTTCTTATCTT
66 TATTACATTTCTTATCTT
4343873 AAACATACGA
Statistics
Matches: 230, Mismatches: 45, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
198 68 0.30
199 2 0.01
200 8 0.03
201 9 0.04
203 5 0.02
204 11 0.05
205 91 0.40
206 36 0.16
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (198 bp):
TTTTTTATTTTAAAAATACGATATTTGTTAAAATTTTAAAATTTCAAAAATAAAATTTCAACATC
TATTACATTTCTTATCTTTAAAATGTAATTTTTATTAAATTACATAATTATGAAATTTTCACATC
CACTACACTTTTCATATTAAAAACATGATCTTTGTTAAAATTTCATAATAAATTTCAACATCACT
ACA
Found at i:4353257 original size:2 final size:2
Alignment explanation
Indices: 4353250--4353278 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4353240 TTTAGAGTCT
4353250 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4353279 TCATACCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4353675 original size:18 final size:18
Alignment explanation
Indices: 4353649--4353693 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
4353639 TTTTCTTTCT
*
4353649 TTTTTCCTTTTTA-AATA
1 TTTTACCTTTTTATAATA
4353666 TTTATACCTTTTTATAATA
1 TTT-TACCTTTTTATAATA
4353685 TTTTACCTT
1 TTTTACCTT
4353694 AAGTTAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 15 0.60
19 7 0.28
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTACCTTTTTATAATA
Found at i:4358084 original size:25 final size:24
Alignment explanation
Indices: 4358036--4358084 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4358026 TATTATATAT
* **
4358036 TTATATTTTATTTTTAAATTTTAA
1 TTATATTATATTTTTAAAAATTAA
4358060 TTATATTAATATTTTTAAAAATTAA
1 TTATATT-ATATTTTTAAAAATTAA
4358085 AATTATCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATATTATATTTTTAAAAATTAA
Found at i:4358526 original size:14 final size:13
Alignment explanation
Indices: 4358505--4358535 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
4358495 ATAATTTTTA
4358505 TAATATTTTAATT
1 TAATATTTTAATT
4358518 TAATAATTTTAATT
1 TAAT-ATTTTAATT
4358532 TAAT
1 TAAT
4358536 CATTAATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TAATATTTTAATT
Found at i:4359120 original size:25 final size:25
Alignment explanation
Indices: 4359066--4359120 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
4359056 TTTTTCTAAT
*
4359066 ATTTAGTTTTTAAAAATAATATTTC
1 ATTTAGTTTTTAAAAATAATACTTC
*
4359091 TTTTA-TTTTTAAAAATCAA-ACTTC
1 ATTTAGTTTTTAAAAAT-AATACTTC
4359115 AATTTA
1 -ATTTA
4359121 AAAAAATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (25 bp):
ATTTAGTTTTTAAAAATAATACTTC
Found at i:4359313 original size:25 final size:27
Alignment explanation
Indices: 4359267--4359320 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
4359257 AATTTTGTAG
* *
4359267 AAAAATCTAATTTTATTGAAAAATTAA
1 AAAAATATAATTTTATTGAAAAAATAA
*
4359294 AAAAATATCATTTT-TT-AAAAAATAA
1 AAAAATATAATTTTATTGAAAAAATAA
4359319 AA
1 AA
4359321 TATTGGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.42
26 2 0.08
27 12 0.50
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAAATATAATTTTATTGAAAAAATAA
Found at i:4359520 original size:23 final size:21
Alignment explanation
Indices: 4359494--4359553 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 21
4359484 TGATTTTTTT
*
4359494 AAAATTAAAATTTGATTGTTAAA
1 AAAATTAAAATATGATT-TT-AA
4359517 AAAATTTTAAAAATATGATTTTAA
1 AAAA--TT-AAAATATGATTTTAA
4359541 AAAATTAAAATAT
1 AAAATTAAAATAT
4359554 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.21
22 2 0.06
23 4 0.12
24 6 0.18
25 4 0.12
26 10 0.30
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATTAAAATATGATTTTAA
Found at i:4359591 original size:18 final size:18
Alignment explanation
Indices: 4359568--4359602 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4359558 ATAAAAATTT
*
4359568 AATTTAATTTTTTTTAAA
1 AATTTAAATTTTTTTAAA
4359586 AATTTAAATTTTTTTAA
1 AATTTAAATTTTTTTAA
4359603 TTTTTTGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTAAATTTTTTTAAA
Found at i:4360029 original size:27 final size:24
Alignment explanation
Indices: 4359963--4360030 Score: 59
Period size: 26 Copynumber: 2.7 Consensus size: 24
4359953 TGAAATTAAT
4359963 TATTAAA--TCAAAATTATATAAA
1 TATTAAATTTCAAAATTATATAAA
* *
4359985 TATTATATTTTTATAAATTATAGTAAAAA
1 TATTA-AATTTCA-AAATTATA-T--AAA
4360014 TATTAAATTTCAAAATT
1 TATTAAATTTCAAAATT
4360031 TTTTAAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
22 5 0.14
23 1 0.03
25 2 0.06
26 8 0.23
27 6 0.17
28 5 0.14
29 8 0.23
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (24 bp):
TATTAAATTTCAAAATTATATAAA
Found at i:4366682 original size:19 final size:19
Alignment explanation
Indices: 4366658--4366695 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4366648 AGTCAGTCAG
*
4366658 AACTGAAGCAATTTGCCCA
1 AACTGAAGCAATTTACCCA
4366677 AACTGAAGCAATTTACCCA
1 AACTGAAGCAATTTACCCA
4366696 TTTTGCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (19 bp):
AACTGAAGCAATTTACCCA
Found at i:4369587 original size:130 final size:130
Alignment explanation
Indices: 4369372--4369976 Score: 624
Period size: 130 Copynumber: 4.6 Consensus size: 130
4369362 AGTTGTTTAC
* * * * * * *
4369372 TTAAATTATTTTTTAATATTTTATACAAAAACAAAAAAAAATGTTACGCAAGTTTTTATTATATT
1 TTAATTTATTTTTTAATATTTTATACAACAAC-AAAAAAATTATTATGAAAATTTTTATTATATT
* * * * ** * *
4369437 TATAACGATAAAATATTATTATTGCAAAAAATTTGTTTTATTTGCAACAATTTTTTAATGTTGTT
65 TATAATGATAAAAAAGTATTATTGC-AAAAATTTATTTTATTTGCAATGATTTTTCAATGTCGTT
4369502 GT
129 GT
* * *
4369504 TTAAGTTA-TTTTTAATATTTTATACAACAACAAAAAAGTTCTTATGAAAATTTTTATTATATTT
1 TTAATTTATTTTTTAATATTTTATACAACAACAAAAAAATTATTATGAAAATTTTTATTATATTT
** * *
4369568 ATAATGATAAAAAAGTATTATTATAAAAAATTATTTTATTTGTAATGATTTTTCAATGTCGTTGT
66 ATAATGATAAAAAAGTATTATTGCAAAAATTTATTTTATTTGCAATGATTTTTCAATGTCGTTGT
* * * *
4369633 TTAATTTATCTTTTAATATTTTATACAACGACAAAAAAAATTATTA-CAAAATTTTTATAATATT
1 TTAATTTATTTTTTAATATTTTATACAACAAC-AAAAAAATTATTATGAAAATTTTTATTATATT
** * ** *
4369697 TATAATGATAAAAAAGTATTATTG-TGAAATCTTGTTTTATTTATAATGATTTTTCAATGTCATT
65 TATAATGATAAAAAAGTATTATTGCAAAAAT-TTATTTTATTTGCAATGATTTTTCAATGTCGTT
*
4369761 GA
129 GT
* * * ** *
4369763 TTAATTTATTTTTTTTTAATATTTTATACAACGATAACAAAATCGTTATGAAAATTTTTATCATA
1 TTAATTTA---TTTTTTAATATTTTATACAACAACAAAAAAATTATTATGAAAATTTTTATTATA
* * * * * * *
4369828 TTTATAACT-ACAAAAAATTATTGTTGCGAAAACTTATTTTATTTGCAATGATTTTTTAATATCG
63 TTTATAA-TGATAAAAAAGTATTATTGCAAAAATTTATTTTATTTGCAATGATTTTTCAATGTCG
*
4369892 TTGC
127 TTGT
* ** *
4369896 TTAATTTATTTTTTAAATATTTTTATACAACAATAAAAATGTTATTATGAAAACTTTTATTATAT
1 TTAATTTATTTTTT-AATA-TTTTATACAACAACAAAAAAATTATTATGAAAATTTTTATTATAT
*
4369961 TTGTAATGATAAAAAA
64 TTATAATGATAAAAAA
4369977 AAATTGTTGT
Statistics
Matches: 396, Mismatches: 65, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
129 44 0.11
130 151 0.38
131 38 0.10
132 66 0.17
133 93 0.23
134 4 0.01
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (130 bp):
TTAATTTATTTTTTAATATTTTATACAACAACAAAAAAATTATTATGAAAATTTTTATTATATTT
ATAATGATAAAAAAGTATTATTGCAAAAATTTATTTTATTTGCAATGATTTTTCAATGTCGTTGT
Found at i:4369821 original size:263 final size:257
Alignment explanation
Indices: 4369371--4369976 Score: 662
Period size: 263 Copynumber: 2.3 Consensus size: 257
4369361 TAGTTGTTTA
* * * * * *
4369371 CTTAAATTATTTTTTAATATTTTATACAAAAACAAAAAAAAATGTTACGCAAGTTTTTATTATAT
1 CTTAATTTATTTTTTAATATTTTATAC-AACACAAAAAAAATTATTAC-AAAATTTTTATTATAT
* * * * * **
4369436 TTATAACGATAAAATATTATTATTGCAAAAAATTTGTTTTATTTGCAACAATTTTTTAATGTTGT
64 TTATAATGATAAAAAAGTATTATTG-AAAAAATTTGTTTTATTTACAACAATTTTTCAATGTCAT
* *
4369501 TGTTTAAGTTATTTTTAATATTTTATACAACAACAAAAAAGTTCTTATGAAAATTTTTATTATAT
128 TGATTAAGTTATTTTTAATATTTTATACAACAACAAAAAAG-TCTTATGAAAATTTTTATCATAT
* * * *
4369566 TTATAA-TGATAAAAAAGTATTATTATAAAAAATTATTTTATTTGTAATGATTTTTCAATGTCGT
192 TTATAACT-ACAAAAAAGTATTATTACAAAAAATTATTTTATTTGCAATGATTTTTCAATATCGT
4369630 TG
256 TG
* * *
4369632 TTTAATTTATCTTTTAATATTTTATACAACGACAAAAAAAATTATTACAAAATTTTTATAATATT
1 CTTAATTTATTTTTTAATATTTTATACAAC-ACAAAAAAAATTATTACAAAATTTTTATTATATT
** * **
4369697 TATAATGATAAAAAAGTATTATTG-TGAAATCTTGTTTTATTTATAATGATTTTTCAATGTCATT
65 TATAATGATAAAAAAGTATTATTGAAAAAAT-TTGTTTTATTTACAACAATTTTTCAATGTCATT
* * *
4369761 GATTAATTTATTTTTTTTTAATATTTTATACAACGATAACAAAA-TCGTTATGAAAATTTTTATC
129 GATTAAGTTA----TTTTTAATATTTTATACAACAACAA-AAAAGTC-TTATGAAAATTTTTATC
* * * * * *
4369825 ATATTTATAACTACAAAAAATTATTGTTGCGAAAACTTATTTTATTTGCAATGATTTTTTAATAT
188 ATATTTATAACTACAAAAAAGTATTATTACAAAAAATTATTTTATTTGCAATGATTTTTCAATAT
4369890 CGTTG
253 CGTTG
** * *
4369895 CTTAATTTATTTTTTAAATATTTTTATACAACA-ATAAAAATGTTATTATGAAAACTTTTATTAT
1 CTTAATTTATTTTTT-AATA-TTTTATACAACACA-AAAAAAATTATTA-CAAAATTTTTATTAT
*
4369959 ATTTGTAATGATAAAAAA
62 ATTTATAATGATAAAAAA
4369977 AAATTGTTGT
Statistics
Matches: 288, Mismatches: 44, Indels: 22
0.81 0.12 0.06
Matches are distributed among these distances:
258 4 0.01
259 34 0.12
260 37 0.13
261 39 0.14
262 2 0.01
263 111 0.39
264 21 0.07
265 40 0.14
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (257 bp):
CTTAATTTATTTTTTAATATTTTATACAACACAAAAAAAATTATTACAAAATTTTTATTATATTT
ATAATGATAAAAAAGTATTATTGAAAAAATTTGTTTTATTTACAACAATTTTTCAATGTCATTGA
TTAAGTTATTTTTAATATTTTATACAACAACAAAAAAGTCTTATGAAAATTTTTATCATATTTAT
AACTACAAAAAAGTATTATTACAAAAAATTATTTTATTTGCAATGATTTTTCAATATCGTTG
Found at i:4373009 original size:64 final size:63
Alignment explanation
Indices: 4372883--4373026 Score: 209
Period size: 64 Copynumber: 2.3 Consensus size: 63
4372873 GAAGAGGATA
* *
4372883 TTGAATGCATTTTTGGCAAAGAAACGCCCTTAATAATCTATAGAAAAAGTATGAAACTGATTC
1 TTGAAAGCATTTTTGGCAAAGAAACGCCCTTAATAATCTATAGAAAAAGTATGAAACCGATTC
* * * *
4372946 TTGAAGGCATTTTTGGTAGAGAAAACGCCCTTAATAATCTATAAGAAAAA-TATGGAACCGATTC
1 TTGAAAGCATTTTTGGCAAAG-AAACGCCCTTAATAATCTAT-AGAAAAAGTATGAAACCGATTC
4373010 TTGAAAGCATTTTTGGC
1 TTGAAAGCATTTTTGGC
4373027 CAAATCGCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
63 18 0.25
64 47 0.65
65 7 0.10
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (63 bp):
TTGAAAGCATTTTTGGCAAAGAAACGCCCTTAATAATCTATAGAAAAAGTATGAAACCGATTC
Found at i:4373682 original size:35 final size:35
Alignment explanation
Indices: 4373629--4373698 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
4373619 TGTATATGTC
*
4373629 AAGTTAGTTGTAAGTTTATG-CCTAAAAAATATTTG
1 AAGTCAGTTGTAAGTTTATGTCC-AAAAAATATTTG
4373664 AAGTCAGTTGTATA-TTTATGTCCAAAAAATATTTG
1 AAGTCAGTTGTA-AGTTTATGTCCAAAAAATATTTG
4373699 GTTTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 29 0.91
36 3 0.09
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (35 bp):
AAGTCAGTTGTAAGTTTATGTCCAAAAAATATTTG
Found at i:4376919 original size:62 final size:62
Alignment explanation
Indices: 4376835--4376976 Score: 171
Period size: 62 Copynumber: 2.3 Consensus size: 62
4376825 ACTACTACAA
* * * * *
4376835 AAACATCATTTAGTAAACCAATCGGCAATGTACTCAGATACACCCA-TT-AGCAAACCATTCAG
1 AAACACCATTTAGCAAATCAATCAGCAATGTACTCAG--ACACACATTTCAGCAAACCATTCAG
* * *
4376897 AAACACCATTTAGCAAATCAATCAGCAATGTACTTAGACACATATTTCAGCAAATCATTCAG
1 AAACACCATTTAGCAAATCAATCAGCAATGTACTCAGACACACATTTCAGCAAACCATTCAG
*
4376959 AAACACCATTCAGCAAAT
1 AAACACCATTTAGCAAAT
4376977 GATTTAGCAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 5 0.07
61 2 0.03
62 62 0.90
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (62 bp):
AAACACCATTTAGCAAATCAATCAGCAATGTACTCAGACACACATTTCAGCAAACCATTCAG
Found at i:4376921 original size:25 final size:25
Alignment explanation
Indices: 4376868--4376921 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
4376858 GGCAATGTAC
* *
4376868 TCAGATACACCCATTAGCAAACCAT
1 TCAGAAACACCCATTAGCAAACCAA
*
4376893 TCAGAAACA-CCATTTAGCAAATCAA
1 TCAGAAACACCCA-TTAGCAAACCAA
4376918 TCAG
1 TCAG
4376922 CAATGTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.20
Consensus pattern (25 bp):
TCAGAAACACCCATTAGCAAACCAA
Found at i:4376990 original size:12 final size:12
Alignment explanation
Indices: 4376970--4377011 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
4376960 AACACCATTC
*
4376970 AGCAAATGATTT
1 AGCATATGATTT
*
4376982 AGCATATGATTC
1 AGCATATGATTT
*
4376994 AGCATACGATTT
1 AGCATATGATTT
4377006 AGCATA
1 AGCATA
4377012 CCAATATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (12 bp):
AGCATATGATTT
Found at i:4377004 original size:24 final size:24
Alignment explanation
Indices: 4376966--4377011 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4376956 CAGAAACACC
*
4376966 ATTCAGCAAATGATTTAGCATATG
1 ATTCAGCAAACGATTTAGCATATG
*
4376990 ATTCAGCATACGATTTAGCATA
1 ATTCAGCAAACGATTTAGCATA
4377012 CCAATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (24 bp):
ATTCAGCAAACGATTTAGCATATG
Found at i:4378151 original size:187 final size:184
Alignment explanation
Indices: 4377810--4378740 Score: 926
Period size: 187 Copynumber: 5.0 Consensus size: 184
4377800 AGCGTTATAT
* * * *
4377810 ACTAAAAGACGCTTTTAATAAT-TCCAAATATTTTTTTAAAAAAATTATTGAAGGCGTTTTTTCT
1 ACTAAAAGATGCCTTTAATAATCT-TAAATA-TTTTTTAAAAAAATTATTGAAGGCGTTTGTTCT
* * * ** * * *
4377874 AAAAAAATACCTTCAGTAATTATGTAAAAAAATTAAAACGAATTAGTGAATGCGTTTTTCTAGAA
64 CAAAAAATACCTTCAATAATTATGT-ACAAAATTAAAAAAAATTAATGAAGGCATTTTTCTAGAA
** * * *
4377939 TAAACATCTTCACTAACCGTTTTAAAATTTGAGTAGTAGAATATTGAATG-ATTTTTT
128 TAAACGCCTTTACTAACCGTCTTAAAATTTGAGTAGT-GAATATTGAATGCATTTTTC
* * *
4377996 ACTAAAAGACGCCTTTAATAATCTTAAATATTTTTAAAAAAAAATTATTGAAGGCGTTTATTCTA
1 ACTAAAAGATGCCTTTAATAATCTTAAATATTTTT-TAAAAAAATTATTGAAGGCGTTTGTTCT-
* * *
4378061 AAAAAAATGCCTTCAATAATTATGTACAAAATCTAAAAAAAATTATTGAAGGCATTTTTCTAGAA
64 CAAAAAATACCTTCAATAATTATGTACAAAAT-TAAAAAAAATTAATGAAGGCATTTTTCTAGAA
* * * *
4378126 TAAACGCCTTTACTAACCATTTTAAAATTTGAGT-GTTGACATATTGAAAGCGTTTTTC
128 TAAACGCCTTTACTAACCGTCTTAAAATTTGAGTAG-TGA-ATATTGAATGCATTTTTC
* * *
4378184 ACTAGAAGATGCCTTTAATAAT-TTCCAAAAATTTTTTAAAAAAATTATTGAAGGCATTTGTTCT
1 ACTAAAAGATGCCTTTAATAATCTT--AAATATTTTTTAAAAAAATTATTGAAGGCGTTTGTTCT
* * * * * *
4378248 CAAAAAATACATTCAATAATTATGTACATAAACTAAACAGAATCAATGAAGGCATTTTTTTAGAA
64 CAAAAAATACCTTCAATAATTATGTACA-AAATTAAAAAAAATTAATGAAGGCATTTTTCTAGAA
* * *
4378313 TAAACGCCTTTACTAATCGTCTTAAAATTCGAGTAGTGAAATATTGAAGGCATTTTTC
128 TAAACGCCTTTACTAACCGTCTTAAAATTTGAGTAGTG-AATATTGAATGCATTTTTC
* * *
4378371 ACTAGAAGATGCATTTAATAATCTCAAATATTTTTTAAAAAAATTATTGAAGGCGTTTGTTCTCA
1 ACTAAAAGATGCCTTTAATAATCTTAAATATTTTTTAAAAAAATTATTGAAGGCGTTTGTTCTCA
* * * * * * *
4378436 AAAAATACCTTTAATAATTTTGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTCTGGAATA
66 AAAAATACCTTCAATAATTATGTACAAAA-TTAAAAAAAATTAATGAAGGCATTTTTCTAGAATA
* * **
4378501 AACGCCTTCACTAACCGTC----AGTGTTGA-TA-T--AT-TAAAAGTG--TTTTTC
130 AACGCCTTTACTAACCGTCTTAAAAT-TTGAGTAGTGAATATTGAA-TGCATTTTTC
* * * *
4378547 ACTAAAAGATG--TATAATAATCCTAAA-AATTTTTAAAATGAAATTATTGAAGGCGTTTGTTTT
1 ACTAAAAGATGCCTTTAATAATCTTAAATATTTTTTAAAA--AAATTATTGAAGGCGTTTGTTCT
* ** * *
4378609 CAAAAAATACATTCAATAATTATGTACATAAATTAAATGAAATCAATGAAGGCGTTTTTCTAGAA
64 CAAAAAATACCTTCAATAATTATGTACA-AAATTAAAAAAAATTAATGAAGGCATTTTTCTAGAA
* * * * * * *
4378674 TAAATGTCGTTACTAACTGTCTAAAAATTTGAGTAGTGAAATATTGAAGGCATTTTGC
128 TAAACGCCTTTACTAACCGTCTTAAAATTTGAGTAGTG-AATATTGAATGCATTTTTC
*
4378732 ACTAGAAGA
1 ACTAAAAGA
4378741 CACCTTCAAT
Statistics
Matches: 623, Mismatches: 91, Indels: 63
0.80 0.12 0.08
Matches are distributed among these distances:
173 10 0.02
174 12 0.02
175 89 0.14
176 19 0.03
177 3 0.00
178 7 0.01
179 4 0.01
180 1 0.00
181 1 0.00
182 4 0.01
183 6 0.01
184 3 0.00
185 21 0.03
186 164 0.26
187 214 0.34
188 56 0.09
189 9 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (184 bp):
ACTAAAAGATGCCTTTAATAATCTTAAATATTTTTTAAAAAAATTATTGAAGGCGTTTGTTCTCA
AAAAATACCTTCAATAATTATGTACAAAATTAAAAAAAATTAATGAAGGCATTTTTCTAGAATAA
ACGCCTTTACTAACCGTCTTAAAATTTGAGTAGTGAATATTGAATGCATTTTTC
Found at i:4378655 original size:361 final size:362
Alignment explanation
Indices: 4377793--4378741 Score: 1110
Period size: 374 Copynumber: 2.6 Consensus size: 362
4377783 TCTTTAACAT
* * * * *
4377793 TATTGAAAGCGTTATAT-ACTAAAAGACGCTTTTAATAATTCCAAATATTTTTTTAAAAAAATTA
1 TATTAAAAGCGTT-TTTCACTAAAAGATGC-TATAATAATTCCAAA-AATTTTTTAAAAAAATTA
* * * * * * *
4377857 TTGAAGGCGTTT-TTTCTAAAAAAATACCTTCAGTAATTATGTAAAAAAATTAAA-ACGAATTAG
63 TTGAAGGCGTTTGTTT-TCAAAAAATACATTCAATAATTATGTACATAAATTAAAGA--AATCAA
* * * *
4377920 TGAATGCGTTTTTCTAGAATAAACATCTTCACTAACCGTTTTAAAATTTGAGTAGT-AGAATATT
125 TGAAGGCGTTTTTCTAGAATAAACGTCTTTACTAA-CGTCTTAAAATTTGAGTAGTGA-AATATT
* * * * *
4377984 GAATG-ATTTTTTACTAAAAGACGCCTTTAATAATCTTAAATATTTTTAAAAAAAAATTATTGAA
188 GAAGGCATTTTTCACTAGAAGACGCATTTAATAATCTCAAATATTTTTAAAAAAAAATTATTGAA
* *
4378048 GGCGTTTATTCTAAAAAAAATGCCTTCAATAATTATGTACAAAATCTAAAAAAAATTATTGAAGG
253 GGCGTTTATTCTAAAAAAAATACCTTCAATAATTATGTACAAAATCTAAAAAAAATTATTAAAGG
* * *
4378113 CATTTTTCTAGAATAAACGCCTTTACTAACCATTTTAAAATTTGAGTGTTGACA
318 CATTTTTCTAGAATAAACGCCTTCACTAACC--------A-GTCAGTGTTGACA
* * *
4378167 TATTGAAAGCGTTTTTCACTAGAAGATGCCTTTAATAATTTCCAAAAATTTTTTAAAAAAATTAT
1 TATTAAAAGCGTTTTTCACTAAAAGATG-CTATAATAA-TTCCAAAAATTTTTTAAAAAAATTAT
* * * *
4378232 TGAAGGCATTTGTTCTCAAAAAATACATTCAATAATTATGTACATAAACTAAACAGAATCAATGA
64 TGAAGGCGTTTGTTTTCAAAAAATACATTCAATAATTATGTACATAAATTAAAGA-AATCAATGA
* * * *
4378297 AGGCATTTTTTTAGAATAAACGCCTTTACTAATCGTCTTAAAATTCGAGTAGTGAAATATTGAAG
128 AGGCGTTTTTCTAGAATAAACGTCTTTACTAA-CGTCTTAAAATTTGAGTAGTGAAATATTGAAG
* *
4378362 GCATTTTTCACTAGAAGATGCATTTAATAATCTCAAATATTTTT-TAAAAAAATTATTGAAGGCG
192 GCATTTTTCACTAGAAGACGCATTTAATAATCTCAAATATTTTTAAAAAAAAATTATTGAAGGCG
* * * * * * *
4378426 TTTGTTCT-CAAAAAATACCTTTAATAATTTTGTACAAAATTTAAAAGAAATTATTAAAGGTATT
257 TTTATTCTAAAAAAAATACCTTCAATAATTATGTACAAAATCTAAAAAAAATTATTAAAGGCATT
* *
4378490 TTTCTGGAATAAACGCCTTCACTAACC-GTCAGTGTTGATA
322 TTTCTAGAATAAACGCCTTCACTAACCAGTCAGTGTTGACA
*
4378530 TATTAAAAGTGTTTTTCACTAAAAGATG-TATAATAA-TCCTAAAAA-TTTTTAAAATGAAATTA
1 TATTAAAAGCGTTTTTCACTAAAAGATGCTATAATAATTCC-AAAAATTTTTTAAAA--AAATTA
4378592 TTGAAGGCGTTTGTTTTCAAAAAATACATTCAATAATTATGTACATAAATTAAATGAAATCAATG
63 TTGAAGGCGTTTGTTTTCAAAAAATACATTCAATAATTATGTACATAAATTAAA-GAAATCAATG
* * *
4378657 AAGGCGTTTTTCTAGAATAAATGTCGTTACTAACTGTCTAAAAATTTGAGTAGTGAAATATTGAA
127 AAGGCGTTTTTCTAGAATAAACGTCTTTACTAAC-GTCTTAAAATTTGAGTAGTGAAATATTGAA
*
4378722 GGCATTTTGCACTAGAAGAC
191 GGCATTTTTCACTAGAAGAC
4378742 ACCTTCAATA
Statistics
Matches: 502, Mismatches: 61, Indels: 37
0.84 0.10 0.06
Matches are distributed among these distances:
359 12 0.02
360 6 0.01
361 146 0.29
362 1 0.00
363 35 0.07
373 75 0.15
374 178 0.35
375 49 0.10
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (362 bp):
TATTAAAAGCGTTTTTCACTAAAAGATGCTATAATAATTCCAAAAATTTTTTAAAAAAATTATTG
AAGGCGTTTGTTTTCAAAAAATACATTCAATAATTATGTACATAAATTAAAGAAATCAATGAAGG
CGTTTTTCTAGAATAAACGTCTTTACTAACGTCTTAAAATTTGAGTAGTGAAATATTGAAGGCAT
TTTTCACTAGAAGACGCATTTAATAATCTCAAATATTTTTAAAAAAAAATTATTGAAGGCGTTTA
TTCTAAAAAAAATACCTTCAATAATTATGTACAAAATCTAAAAAAAATTATTAAAGGCATTTTTC
TAGAATAAACGCCTTCACTAACCAGTCAGTGTTGACA
Found at i:4381290 original size:21 final size:21
Alignment explanation
Indices: 4381222--4381283 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
4381212 ATGAGACATT
4381222 GTCGATGGTTAGATGATAATC
1 GTCGATGGTTAGATGATAATC
*
4381243 GTCAATGGTTAGATGATAATC
1 GTCGATGGTTAGATGATAATC
4381264 GTCGATGGTTAGATGATAAT
1 GTCGATGGTTAGATGATAAT
4381284 TATCGATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (21 bp):
GTCGATGGTTAGATGATAATC
Found at i:4383935 original size:101 final size:101
Alignment explanation
Indices: 4383760--4383970 Score: 404
Period size: 101 Copynumber: 2.1 Consensus size: 101
4383750 TATCTTTTAT
4383760 ATAATGGCTTTTATGATACAGGTAAGCTACAATGCGAAAGAGTAAATTGACAGGAATACATATAA
1 ATAATGGCTTTTATGATACAGGTAAGCTACAATGCGAAAGAGTAAATTGACAGGAATACATATAA
*
4383825 GAAATATTAGTTTAGAATCGTTTGTGACACCTGTTG
66 GAAATATTAGTTTAGAATCGTCTGTGACACCTGTTG
4383861 ATAATGGCTTTTATGATACAGGTAAGCTACAATGCGAAAGAGTAAATTGACAGGAATACATATAA
1 ATAATGGCTTTTATGATACAGGTAAGCTACAATGCGAAAGAGTAAATTGACAGGAATACATATAA
4383926 GAAATATTAGTTTAGAATCGTCTGTGACACCTGTTG
66 GAAATATTAGTTTAGAATCGTCTGTGACACCTGTTG
*
4383962 ATATTGGCT
1 ATAATGGCT
4383971 ATGGACTGAA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 108 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (101 bp):
ATAATGGCTTTTATGATACAGGTAAGCTACAATGCGAAAGAGTAAATTGACAGGAATACATATAA
GAAATATTAGTTTAGAATCGTCTGTGACACCTGTTG
Found at i:4389999 original size:26 final size:26
Alignment explanation
Indices: 4389967--4390019 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4389957 TTAAACCCTC
4389967 TCTAGTTGTAAATTGGAAGAGCAGTG
1 TCTAGTTGTAAATTGGAAGAGCAGTG
4389993 TCTAGTTGTAAATTGGAAGAGCAGTG
1 TCTAGTTGTAAATTGGAAGAGCAGTG
4390019 T
1 T
4390020 AATTGAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (26 bp):
TCTAGTTGTAAATTGGAAGAGCAGTG
Found at i:4393296 original size:63 final size:64
Alignment explanation
Indices: 4393197--4393323 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 64
4393187 CTTTCTTTCT
*
4393197 TTTTTTTTTTTTTTTTTGCTTTGGTGGAAGAAAAAGAGGGGGGAGAGGAGGAGGAGGCGGAGATC
1 TTTTTTTTTTTTTTTTT-CTTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGATC
4393262 TTTTTTTTTTTTTTTTT-TTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGAT
1 TTTTTTTTTTTTTTTTTCTTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGAT
4393324 GCCAAGAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
63 44 0.72
65 17 0.28
ACGTcount: A:0.24, C:0.03, G:0.38, T:0.35
Consensus pattern (64 bp):
TTTTTTTTTTTTTTTTTCTTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGATC
Found at i:4393337 original size:63 final size:64
Alignment explanation
Indices: 4393205--4393337 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 64
4393195 CTTTTTTTTT
* ******
4393205 TTTTTTTTTGCTTTGGTGGAAGAAAAAGAGGGGGGAGAGGAGGAGGAGGCGGAGATCT-TTTTTT
1 TTTTTTTTT-CTTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGATCTCAAGAAA
*
4393269 TTTTTTTTTTTTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGATGC-CAAGAAA
1 TTTTTTTTTCTTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGAT-CTCAAGAAA
4393333 TTTTT
1 TTTTT
4393338 AAGTTTGTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 44 0.75
64 15 0.25
ACGTcount: A:0.27, C:0.05, G:0.38, T:0.31
Consensus pattern (64 bp):
TTTTTTTTTCTTTGGTGGAAGAAAAAGAGGGGGAAGAGGAGGAGGAGGCGGAGATCTCAAGAAA
Found at i:4400145 original size:22 final size:24
Alignment explanation
Indices: 4400119--4400175 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
4400109 TATAATATTT
4400119 TTTAATTATTATT-AAATTTGT-A
1 TTTAATTATTATTAAAATTTGTAA
* *
4400141 TTTAATTGTTATTAAAATTTTTAA
1 TTTAATTATTATTAAAATTTGTAA
4400165 TTTATATTATT
1 TTTA-ATTATT
4400176 TTTATGCCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.41
23 7 0.24
24 5 0.17
25 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTAATTATTATTAAAATTTGTAA
Found at i:4400598 original size:17 final size:16
Alignment explanation
Indices: 4400576--4400620 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
4400566 TATTATATGT
*
4400576 AAAAATAAATTTAAACA
1 AAAAATAAATCTAAA-A
*
4400593 AAAAATAAAACTAAAA
1 AAAAATAAATCTAAAA
4400609 AAAAATCAAATC
1 AAAAAT-AAATC
4400621 GGATCTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAATAAATCTAAAA
Found at i:4406584 original size:21 final size:21
Alignment explanation
Indices: 4406559--4406611 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
4406549 TAAATATTAT
*
4406559 AAAATAATATAATATAAAAAC
1 AAAATAATATAATACAAAAAC
*
4406580 AAAATGAA-AAAATACAAAAAC
1 AAAAT-AATATAATACAAAAAC
*
4406601 -ATATAATATAA
1 AAAATAATATAA
4406612 AAATTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 2 0.08
20 6 0.23
21 16 0.62
22 2 0.08
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATAATATAATACAAAAAC
Found at i:4412591 original size:6 final size:6
Alignment explanation
Indices: 4412580--4412613 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4412570 TACCCCTCTT
4412580 GGCTGA GGCTGA GGCTGA GGCTGA GGCTGA GGCT
1 GGCTGA GGCTGA GGCTGA GGCTGA GGCTGA GGCT
4412614 TTGAAGTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.18, G:0.50, T:0.18
Consensus pattern (6 bp):
GGCTGA
Found at i:4413860 original size:32 final size:32
Alignment explanation
Indices: 4413823--4413883 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4413813 GGGAAATTTT
*
4413823 TATTTTAAAAT-GATATAAAATTTTTTATTTAA
1 TATTTT-AAATGGATATAAAAATTTTTATTTAA
*
4413855 TATTTTAAATGGATCTAAAAATTTTTATT
1 TATTTTAAATGGATATAAAAATTTTTATT
4413884 CATTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (32 bp):
TATTTTAAATGGATATAAAAATTTTTATTTAA
Found at i:4413892 original size:31 final size:31
Alignment explanation
Indices: 4413825--4413894 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
4413815 GAAATTTTTA
* *
4413825 TTTTAAAATGATATAAAATTTTTTATTTAAT
1 TTTTTAAATGATATAAAAATTTTTATTTAAT
* * *
4413856 ATTTTAAATGGATCTAAAAATTTTTA-TTCAT
1 TTTTTAAAT-GATATAAAAATTTTTATTTAAT
4413887 TTTTTAAA
1 TTTTTAAA
4413895 AATAGCACGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 18 0.56
32 14 0.44
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (31 bp):
TTTTTAAATGATATAAAAATTTTTATTTAAT
Found at i:4415346 original size:39 final size:38
Alignment explanation
Indices: 4415274--4415384 Score: 97
Period size: 38 Copynumber: 2.9 Consensus size: 38
4415264 TTCAAAAAAT
* * *
4415274 TTTCTAAAAATTTTCATAATGTTTTTTAGTTTTTATAG-
1 TTTCTTAAAATTTTCATAATGTTTTTAAATTTTT-TAGA
4415312 TTTCTTAAAATATTTCATAAT-TTTTTAAAATTTTTTAGA
1 TTTCTTAAAAT-TTTCATAATGTTTTT-AAATTTTTTAGA
* * *
4415351 TTT-TTAAATCTTTTTA-AAT-TTTTTAATTTTTTTA
1 TTTCTTAAA-ATTTTCATAATGTTTTTAAATTTTTTA
4415385 TTAATATTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
36 9 0.14
37 8 0.13
38 27 0.43
39 19 0.30
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (38 bp):
TTTCTTAAAATTTTCATAATGTTTTTAAATTTTTTAGA
Found at i:4415383 original size:9 final size:9
Alignment explanation
Indices: 4415329--4415384 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
4415319 AAATATTTCA
4415329 TAATTTTTT
1 TAATTTTTT
* *
4415338 AAAATTTTT
1 TAATTTTTT
4415347 TAGA-TTTTT
1 TA-ATTTTTT
* *
4415356 AAATCTTTT
1 TAATTTTTT
*
4415365 TAAATTTTT
1 TAATTTTTT
4415374 TAATTTTTT
1 TAATTTTTT
4415383 TA
1 TA
4415385 TTAATATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
8 1 0.03
9 34 0.94
10 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (9 bp):
TAATTTTTT
Found at i:4415383 original size:18 final size:18
Alignment explanation
Indices: 4415330--4415384 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
4415320 AATATTTCAT
*
4415330 AATTTTTTAAAATTTTTTA
1 AATTTTTT-AATTTTTTTA
* * *
4415349 GATTTTTAAATCTTTTTA
1 AATTTTTTAATTTTTTTA
4415367 AATTTTTTAATTTTTTTA
1 AATTTTTTAATTTTTTTA
4415385 TTAATATTAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 23 0.79
19 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
AATTTTTTAATTTTTTTA
Found at i:4416715 original size:63 final size:63
Alignment explanation
Indices: 4416639--4416757 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
4416629 AAGACTCAAT
* * *
4416639 TTAAATCACTTATTATT-GAGATTGACAAAATTATCAAAGGATAACATTGAATAAGAGTTGCAC
1 TTAAATAAATTATT-TTGGAGATCGACAAAATTATCAAAGGATAACATTGAATAAGAGTTGCAC
* * *
4416702 TTAAATAAATTATTTTGGAGATCGACAAATTTATTAACGGATAACATTGAATAAGA
1 TTAAATAAATTATTTTGGAGATCGACAAAATTATCAAAGGATAACATTGAATAAGA
4416758 CTGAATTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
62 2 0.04
63 47 0.96
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (63 bp):
TTAAATAAATTATTTTGGAGATCGACAAAATTATCAAAGGATAACATTGAATAAGAGTTGCAC
Found at i:4424226 original size:19 final size:20
Alignment explanation
Indices: 4424199--4424245 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
4424189 TACATGTATA
* *
4424199 ATTAAATTC-ATAATCAAGT
1 ATTATATTCAATAATCAACT
4424218 ATTATATTCATATAATCAACT
1 ATTATATTCA-ATAATCAACT
4424239 ATTATAT
1 ATTATAT
4424246 CACTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTATATTCAATAATCAACT
Found at i:4431183 original size:11 final size:11
Alignment explanation
Indices: 4431166--4431199 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4431156 TTTGTCAGTA
4431166 ATTACCAATTG
1 ATTACCAATTG
* *
4431177 CTTACCAATGG
1 ATTACCAATTG
4431188 ATTACCAATTG
1 ATTACCAATTG
4431199 A
1 A
4431200 CCATAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (11 bp):
ATTACCAATTG
Found at i:4438021 original size:45 final size:45
Alignment explanation
Indices: 4437970--4438142 Score: 174
Period size: 45 Copynumber: 3.9 Consensus size: 45
4437960 ATGCTCAGAG
* * * *
4437970 GTTTTAAAGACGATATTCAAAGGTTTTTAAAGATAATACCTAAAA
1 GTTTTAAAGATGATACTCAAAGATTTTTAAAGATGATACCTAAAA
* * **
4438015 GTTTTAAAGATGATACCCAAAGATTTTGAAA-ATGATACCCGAAA
1 GTTTTAAAGATGATACTCAAAGATTTTTAAAGATGATACCTAAAA
* * *
4438059 GTTATTAAAGATGATACTAAAAGATTTTT-TAGAATGATACCTAAAG
1 GTT-TTAAAGATGATACTCAAAGATTTTTAAAG-ATGATACCTAAAA
* *
4438105 GTTTTAAAGATGATAC-C-TAGAGGTTTTAAAGATGATAC
1 GTTTTAAAGATGATACTCAAAGA-TTTTTAAAGATGATAC
4438143 TCGAAGGTTT
Statistics
Matches: 104, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
43 3 0.03
44 25 0.24
45 63 0.61
46 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.32
Consensus pattern (45 bp):
GTTTTAAAGATGATACTCAAAGATTTTTAAAGATGATACCTAAAA
Found at i:4438022 original size:22 final size:22
Alignment explanation
Indices: 4437994--4438142 Score: 151
Period size: 22 Copynumber: 6.7 Consensus size: 22
4437984 ATTCAAAGGT
*
4437994 TTTTAAAGATAATACCTAAAAG
1 TTTTAAAGATGATACCTAAAAG
*
4438016 TTTTAAAGATGATACC-CAAAG
1 TTTTAAAGATGATACCTAAAAG
**
4438037 ATTTTGAAA-ATGATACCCGAAAG
1 -TTTT-AAAGATGATACCTAAAAG
4438060 TTATTAAAGATGATA-CTAAAAG
1 TT-TTAAAGATGATACCTAAAAG
** *
4438082 ATTTTTTAGAATGATACCTAAAGG
1 -TTTTAAAG-ATGATACCTAAAAG
* *
4438106 TTTTAAAGATGATACCTAGAGG
1 TTTTAAAGATGATACCTAAAAG
4438128 TTTTAAAGATGATAC
1 TTTTAAAGATGATAC
4438143 TCGAAGGTTT
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
21 4 0.04
22 69 0.64
23 29 0.27
24 6 0.06
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (22 bp):
TTTTAAAGATGATACCTAAAAG
Found at i:4438150 original size:22 final size:21
Alignment explanation
Indices: 4437861--4438159 Score: 147
Period size: 22 Copynumber: 13.5 Consensus size: 21
4437851 TGTACTCAGA
* *
4437861 GTTTTAAAGAAG-TGCCTAAAG
1 GTTTTAAAGATGATACC-AAAG
* * * *
4437882 ATTTTAAATATGATACTTATAG
1 GTTTTAAAGATGATAC-CAAAG
* * * *
4437904 GTCTTGAAGATGATTCCCATAG
1 GTTTTAAAGATGA-TACCAAAG
* * *
4437926 GTTTTAAAAATTATACCTAGAG
1 GTTTTAAAGATGATACC-AAAG
* * *
4437948 GTTTTTAAA-ATAATGCTCAGAG
1 G-TTTTAAAGATGATAC-CAAAG
* *
4437970 GTTTTAAAGACGATATTCAAAG
1 GTTTTAAAGATGATA-CCAAAG
* *
4437992 GTTTTTAAAGATAATACCTAAAA
1 G-TTTTAAAGATGATACC-AAAG
4438015 GTTTTAAAGATGATACCCAAAG
1 GTTTTAAAGATGATA-CCAAAG
*
4438037 ATTTTGAAA-ATGATACCCGAAA-
1 GTTTT-AAAGATGATA-CC-AAAG
*
4438059 GTTATTAAAGATGATACTAAAAG
1 GTT-TTAAAGATGATAC-CAAAG
* **
4438082 ATTTTTTAGAATGATACCTAAAG
1 GTTTTAAAG-ATGATACC-AAAG
*
4438105 GTTTTAAAGATGATACCTAGAG
1 GTTTTAAAGATGATACC-AAAG
*
4438127 GTTTTAAAGATGATACTCGAAG
1 GTTTTAAAGATGATAC-CAAAG
*
4438149 GTTTGAAAGAT
1 GTTTTAAAGAT
4438160 AGTACTAAGA
Statistics
Matches: 213, Mismatches: 45, Indels: 39
0.72 0.15 0.13
Matches are distributed among these distances:
21 19 0.09
22 132 0.62
23 62 0.29
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.33
Consensus pattern (21 bp):
GTTTTAAAGATGATACCAAAG
Found at i:4438151 original size:44 final size:43
Alignment explanation
Indices: 4437861--4438175 Score: 169
Period size: 44 Copynumber: 7.1 Consensus size: 43
4437851 TGTACTCAGA
* * * * * *
4437861 GTTTTAAAGAAG-TGCCTAAAGATTTTAAATATGATACTTATAG
1 GTTTTAAAGATGATACC-AAAGGTTTTAAAGATGATACCTAAAG
* * * * * * *
4437904 GTCTTGAAGATGATTCCCATAGGTTTTAAAAATTATACCTAGAG
1 GTTTTAAAGATGA-TACCAAAGGTTTTAAAGATGATACCTAAAG
* * * * *
4437948 GTTTTTAAA-ATAATGCTCAGAGGTTTTAAAGACGATA-TTCAAAG
1 G-TTTTAAAGATGATAC-CAAAGGTTTTAAAGATGATACCT-AAAG
* * *
4437992 GTTTTTAAAGATAATACCTAAAAGTTTTAAAGATGATACCCAAAG
1 G-TTTTAAAGATGATACC-AAAGGTTTTAAAGATGATACCTAAAG
*
4438037 ATTTTGAAA-ATGATACCCGAAA-GTTATTAAAGATGATA-CTAAAAG
1 GTTTT-AAAGATGATA-CC-AAAGGTT-TTAAAGATGATACCT-AAAG
* ** *
4438082 ATTTTTTAGAATGATACCTAAAGGTTTTAAAGATGATACCTAGAG
1 GTTTTAAAG-ATGATACC-AAAGGTTTTAAAGATGATACCTAAAG
* *
4438127 GTTTTAAAGATGATACTCGAAGGTTTGAAAGAT-AGTA-CTAAGAG
1 GTTTTAAAGATGATAC-CAAAGGTTTTAAAGATGA-TACCTAA-AG
4438171 GTTTT
1 GTTTT
4438176 GGAAAAAGTT
Statistics
Matches: 213, Mismatches: 40, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
43 16 0.08
44 96 0.45
45 90 0.42
46 11 0.05
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (43 bp):
GTTTTAAAGATGATACCAAAGGTTTTAAAGATGATACCTAAAG
Found at i:4438264 original size:22 final size:22
Alignment explanation
Indices: 4438248--4438320 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
4438238 GGTCTTTCAG
* *
4438248 ATCATTCCTTTAAGTCTTATAA
1 ATCATGCCTTAAAGTCTTATAA
* *
4438270 ATCATGCCTTAAAGTCTTAGAG
1 ATCATGCCTTAAAGTCTTATAA
* **
4438292 ATTATGCCAAAAAGTCTTATAA
1 ATCATGCCTTAAAGTCTTATAA
*
4438314 ATTATGC
1 ATCATGC
4438321 TTGGAGGTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (22 bp):
ATCATGCCTTAAAGTCTTATAA
Found at i:4438330 original size:22 final size:23
Alignment explanation
Indices: 4438305--4438357 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
4438295 ATGCCAAAAA
*
4438305 GTCTTATAAATT-ATG-CTTGGAG
1 GTCTTATAAATTAATGCCCT-GAG
* *
4438327 GTCTTTTAGATTAATGCCCTGAG
1 GTCTTATAAATTAATGCCCTGAG
4438350 GTCTTATA
1 GTCTTATA
4438358 GATCATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 10 0.40
23 13 0.52
24 2 0.08
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (23 bp):
GTCTTATAAATTAATGCCCTGAG
Found at i:4438338 original size:44 final size:43
Alignment explanation
Indices: 4438217--4438344 Score: 112
Period size: 44 Copynumber: 2.9 Consensus size: 43
4438207 ATACTTGGAG
* * * ***
4438217 GTCTTATAAATCATGCTCAGAGGTCTTTCAGATCATTCCTTTAA
1 GTCTTATAAATCATGCT-TGAGGTCTTTCAGATTATGCCAAAAA
* * **
4438261 GTCTTATAAATCATGCCTTAAAGTCTTAGAGATTATGCCAAAAA
1 GTCTTATAAATCATG-CTTGAGGTCTTTCAGATTATGCCAAAAA
* *
4438305 GTCTTATAAATTATGCTTGGAGGTCTTTTAGATTAATGCC
1 GTCTTATAAATCATGCTT-GAGGTCTTTCAGATT-ATGCC
4438345 CTGAGGTCTT
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
43 3 0.05
44 56 0.85
45 7 0.11
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (43 bp):
GTCTTATAAATCATGCTTGAGGTCTTTCAGATTATGCCAAAAA
Found at i:4439869 original size:9 final size:9
Alignment explanation
Indices: 4439855--4439886 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
4439845 TCATTTTCCT
4439855 TTTTATTTC
1 TTTTATTTC
4439864 TTTTATTTC
1 TTTTATTTC
4439873 ATTTTATTTC
1 -TTTTATTTC
4439883 TTTT
1 TTTT
4439887 TCTTTCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTC
Found at i:4439877 original size:10 final size:10
Alignment explanation
Indices: 4439855--4439894 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
4439845 TCATTTTCCT
4439855 TTTTATTTC-
1 TTTTATTTCA
4439864 TTTTATTTCA
1 TTTTATTTCA
*
4439874 TTTTATTTCT
1 TTTTATTTCA
*
4439884 TTTTCTTTCA
1 TTTTATTTCA
4439894 T
1 T
4439895 GTTTCCACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATTTCA
Found at i:4441447 original size:14 final size:15
Alignment explanation
Indices: 4441416--4441457 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
4441406 CAAACAAATG
*
4441416 AAATAATGTACATAC
1 AAATAATGTATATAC
*
4441431 AAA-AATGTATATGC
1 AAATAATGTATATAC
4441445 AAATATATGTATA
1 AAATA-ATGTATA
4441458 CAACACATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 4 0.17
16 7 0.30
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (15 bp):
AAATAATGTATATAC
Found at i:4442236 original size:44 final size:44
Alignment explanation
Indices: 4442186--4442286 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
4442176 CCCAAGTAAT
***
4442186 CAAATAAATTAGTACACATGTAAAATCA-AAGTCTACAAAATAAA
1 CAAATAAATTAGTACACACACAAAATCATAAG-CTACAAAATAAA
*
4442230 CAAATAAATTATTACACACACAAAATCATAAGCTACAAAATAAA
1 CAAATAAATTAGTACACACACAAAATCATAAGCTACAAAATAAA
* *
4442274 TAAATAGATTAGT
1 CAAATAAATTAGT
4442287 GTACATAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 46 0.94
45 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.24
Consensus pattern (44 bp):
CAAATAAATTAGTACACACACAAAATCATAAGCTACAAAATAAA
Found at i:4443056 original size:18 final size:18
Alignment explanation
Indices: 4443001--4443062 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
4442991 AAAAAAACCT
4443001 AAATAAA-AAATAAATAA
1 AAATAAACAAATAAATAA
* * *
4443018 TGAATAAATAAATAAACAA
1 -AAATAAACAAATAAATAA
*
4443037 AAATAAACAAATAAGTAA
1 AAATAAACAAATAAATAA
*
4443055 AAAAAAAC
1 AAATAAAC
4443063 TAGCAAAACA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 27 0.75
19 9 0.25
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (18 bp):
AAATAAACAAATAAATAA
Found at i:4446141 original size:10 final size:10
Alignment explanation
Indices: 4446126--4446171 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
4446116 GTAACCAAAT
4446126 TAACTAACTA
1 TAACTAACTA
4446136 TAACTAACTA
1 TAACTAACTA
* *
4446146 TAATTAACTT
1 TAACTAACTA
4446156 TAACTAACTA
1 TAACTAACTA
4446166 TAACTA
1 TAACTA
4446172 TTTGCTCAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (10 bp):
TAACTAACTA
Found at i:4451827 original size:39 final size:40
Alignment explanation
Indices: 4451744--4451866 Score: 117
Period size: 39 Copynumber: 3.1 Consensus size: 40
4451734 TAAAAGTAGG
* * *
4451744 ATTGATA-AGAGGTGATACACTTATCTGGTCTTATTCAAC
1 ATTGATAGAGAGGTGATACACCTATCAGGTCATATTCAAC
* *
4451783 ATTGATAGA-AGGTGATACACCTATCAGGTCATGTTCAGC
1 ATTGATAGAGAGGTGATACACCTATCAGGTCATATTCAAC
* * * ** * *
4451822 TTTGAT-GAGAGATGATCCACCTATTGGGTCATCTACAAC
1 ATTGATAGAGAGGTGATACACCTATCAGGTCATATTCAAC
4451861 ATTGAT
1 ATTGAT
4451867 GATAGATGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.03
39 65 0.96
40 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (40 bp):
ATTGATAGAGAGGTGATACACCTATCAGGTCATATTCAAC
Found at i:4451867 original size:39 final size:39
Alignment explanation
Indices: 4451779--4451880 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
4451769 TGGTCTTATT
* * * *
4451779 CAACATTGAT-AGAAGGTGATACACCTATCAGGTCATGTT
1 CAACATTGATGAG-AGATGATCCACCTATCAGGTCATCTA
* * **
4451818 CAGCTTTGATGAGAGATGATCCACCTATTGGGTCATCTA
1 CAACATTGATGAGAGATGATCCACCTATCAGGTCATCTA
*
4451857 CAACATTGATGATAGATGATCCAC
1 CAACATTGATGAGAGATGATCCAC
4451881 TTACAGAGCC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 49 0.96
40 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (39 bp):
CAACATTGATGAGAGATGATCCACCTATCAGGTCATCTA
Found at i:4453209 original size:158 final size:158
Alignment explanation
Indices: 4452962--4453301 Score: 452
Period size: 158 Copynumber: 2.2 Consensus size: 158
4452952 TTCCTAGCTG
* * * * * *
4452962 TATTGTACTAGATAGTGCATTGTTTATATTAAGATGCAATGACTTTGTGAAAGGTAAAAACTATT
1 TATTGAACTAGATAATGTATTGTGTATATTAAGATGCAATGACTTTCTAAAAGGTAAAAACTATT
* * *
4453027 GCTAATTTTGCCTTGTGAGTCTTGTTGTGTGTTGTGCTTGTTGATGAACTACTTTTT-TAGTAAT
66 GCTAATTTTGCCTTGTGAGTCTTGTTGTGTATTATACTTGTTGATGAACTA-TTTTTATAGTAAT
* *
4453091 TCAAAACCTAAACTTTGTAGGAAATTCTT
130 TCAAAACCTAAAATTTGTAAGAAATTCTT
* * *
4453120 TATTGAACTAGATAATGTATTGTGTGTATTGAGATGCAATGACTTTCTAAAATGTGAAAAA-TAT
1 TATTGAACTAGATAATGTATTGTGTATATTAAGATGCAATGACTTTCTAAAAGGT-AAAAACTAT
* * *
4453184 TG-TGAATTTTGCTTTGTGATTCTTGTTGTGTATTATATTTGTTGATGAACTATTTTTATAGTAA
65 TGCT-AATTTTGCCTTGTGAGTCTTGTTGTGTATTATACTTGTTGATGAACTATTTTTATAGTAA
* *
4453248 TTCAAAACTTAAAATTTGTAAGAAATTTTT
129 TTCAAAACCTAAAATTTGTAAGAAATTCTT
*
4453278 TATTGAACTAGATAATGTTTTGTG
1 TATTGAACTAGATAATGTATTGTG
4453302 GATGCATTGA
Statistics
Matches: 159, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
157 6 0.04
158 148 0.93
159 5 0.03
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (158 bp):
TATTGAACTAGATAATGTATTGTGTATATTAAGATGCAATGACTTTCTAAAAGGTAAAAACTATT
GCTAATTTTGCCTTGTGAGTCTTGTTGTGTATTATACTTGTTGATGAACTATTTTTATAGTAATT
CAAAACCTAAAATTTGTAAGAAATTCTT
Found at i:4454021 original size:19 final size:20
Alignment explanation
Indices: 4453992--4454032 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
4453982 GTTTTTGTAG
4453992 ATTTGAACTTTATAATATGA
1 ATTTGAACTTTATAATATGA
*
4454012 ATTT-AACTTTATAATTTGA
1 ATTTGAACTTTATAATATGA
4454031 AT
1 AT
4454033 AGTTAAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTTGAACTTTATAATATGA
Found at i:4454959 original size:23 final size:23
Alignment explanation
Indices: 4454909--4454976 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
4454899 AAGGATAGTG
*
4454909 CTGCCCAAATCCAACCACCACTA
1 CTGCCCAAGTCCAACCACCACTA
* * *
4454932 CTGCCCAAGTCCAACCAGCATTG
1 CTGCCCAAGTCCAACCACCACTA
* * *
4454955 TTGCCTAAGTCAAACCACCACT
1 CTGCCCAAGTCCAACCACCACT
4454977 CACTAGGAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.31, C:0.41, G:0.10, T:0.18
Consensus pattern (23 bp):
CTGCCCAAGTCCAACCACCACTA
Found at i:4456420 original size:14 final size:15
Alignment explanation
Indices: 4456381--4456432 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 15
4456371 AAATGAAAAG
4456381 AGAAAGAGAAAATATGA
1 AGAAA-AGAAAA-ATGA
4456398 AGAAAAAGAAAAAT-A
1 AG-AAAAGAAAAATGA
4456413 AGAAAAGAAAAATGA
1 AGAAAAGAAAAATGA
4456428 A-AAAA
1 AGAAAA
4456433 AATGATAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 15 0.45
15 5 0.15
16 2 0.06
17 8 0.24
18 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (15 bp):
AGAAAAGAAAAATGA
Found at i:4456423 original size:19 final size:20
Alignment explanation
Indices: 4456375--4456423 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
4456365 AAGTGCAAAT
*
4456375 GAAAAGAGAAAGAGAAAATAT
1 GAAAAGA-AAAGAGAAAATAA
*
4456396 GAAGA-AAAAGA-AAAATAA
1 GAAAAGAAAAGAGAAAATAA
4456414 GAAAAGAAAA
1 GAAAAGAAAA
4456424 ATGAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 10 0.42
19 9 0.38
20 1 0.04
21 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.06
Consensus pattern (20 bp):
GAAAAGAAAAGAGAAAATAA
Found at i:4457739 original size:38 final size:39
Alignment explanation
Indices: 4457656--4457743 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
4457646 ATGGAAAAAT
* * * *
4457656 AAATGAGATTTTAATCCTTGATTTAGGAAAAATTTTCAA
1 AAATAAGATTTCAATCCTTAATTAAGGAAAAATTTTCAA
*
4457695 AAATAAGATTTCAATCCTTAATTAAGGAAAATTTTTC-A
1 AAATAAGATTTCAATCCTTAATTAAGGAAAAATTTTCAA
*
4457733 AGATAAGATTT
1 AAATAAGATTT
4457744 TGGTCTTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 11 0.26
39 32 0.74
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (39 bp):
AAATAAGATTTCAATCCTTAATTAAGGAAAAATTTTCAA
Found at i:4458257 original size:58 final size:58
Alignment explanation
Indices: 4458175--4458327 Score: 188
Period size: 58 Copynumber: 2.6 Consensus size: 58
4458165 TTTTAGATAC
* * *
4458175 GAAATTTTGAGATTT-ATCTGTAAATCTTTGAAATTTTTTATGAATCTTTACAATTG-A
1 GAAA-TTTGAAATTTCATTTGTAAATCTTTGAAATTATTTATGAATCTTTACAATTGTA
*
4458232 GAAATTATGAAATTTCATTTGTAAATCTTTGAAATTATTTATGAATCTTTACCATTGTA
1 GAAATT-TGAAATTTCATTTGTAAATCTTTGAAATTATTTATGAATCTTTACAATTGTA
**
4458291 -AAATTTAGAAATTTCATTTGCGAATCTTT-ATAATTAT
1 GAAATTT-GAAATTTCATTTGTAAATCTTTGA-AATTAT
4458328 GAAATTTTGG
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
56 2 0.02
57 13 0.15
58 69 0.81
59 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (58 bp):
GAAATTTGAAATTTCATTTGTAAATCTTTGAAATTATTTATGAATCTTTACAATTGTA
Found at i:4458358 original size:22 final size:21
Alignment explanation
Indices: 4458333--4458378 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4458323 ATTATGAAAT
*
4458333 TTTGGAATTTCATTTGTGAATA
1 TTTGGAAATT-ATTTGTGAATA
*
4458355 TTT-GAAATTATTTGTGAATC
1 TTTGGAAATTATTTGTGAATA
4458375 TTTG
1 TTTG
4458379 AACTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 13 0.62
21 5 0.24
22 3 0.14
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (21 bp):
TTTGGAAATTATTTGTGAATA
Found at i:4458364 original size:38 final size:38
Alignment explanation
Indices: 4458291--4458365 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
4458281 TACCATTGTA
*
4458291 AAATTTAGAAATTTCATTTGCGAATCTTTATAATTATG
1 AAATTTAGAAATTTCATTTGCGAATATTTATAATTATG
* * *
4458329 AAATTTTGGAATTTCATTTGTGAATATTTGA-AATTAT
1 AAATTTAGAAATTTCATTTGCGAATATTT-ATAATTAT
4458366 TTGTGAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (38 bp):
AAATTTAGAAATTTCATTTGCGAATATTTATAATTATG
Done.