Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 116 of 211
Found at i:36533038 original size:45 final size:45
Alignment explanation
Indices: 36532984--36533076 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
36532974 GATTGCTCTG
36532984 CAATGATGGTTTCTTAAATCATTTATGTCATCCCAGATTGCCCGA
1 CAATGATGGTTTCTTAAATCATTTATGTCATCCCAGATTGCCCGA
* **
36533029 CAATGATGGTTTCTTAATTCATTTATGTCATCTTAGATTGCCCGA
1 CAATGATGGTTTCTTAAATCATTTATGTCATCCCAGATTGCCCGA
36533074 CAA
1 CAA
36533077 CAATGACCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (45 bp):
CAATGATGGTTTCTTAAATCATTTATGTCATCCCAGATTGCCCGA
Found at i:36533220 original size:107 final size:107
Alignment explanation
Indices: 36533029--36533223 Score: 255
Period size: 107 Copynumber: 1.8 Consensus size: 107
36533019 GATTGCCCGA
* * * *
36533029 CAATGATGGTTTCTTAATTCATTTATGTCATCTTAGATTGCCCGACAACAATGACCTACCACCCC
1 CAATAATGGTTTCTTAATTCATTCATGTCATCCTAGATTGCCCGACAACAATGACCTACCACCCA
*
36533094 GGGTTGCCTGACGACGATGGCTTACCACATTGAATTTCTTGG
66 GGGTTGCCCGACGACGATGGCTTACCACATTGAATTTCTTGG
*** ** * * ** *
36533136 CAATAATGGTTTCTTAATTCATTCATGTCATCCTAGATTTTTCGGTAACGATGACTTGTCACCTA
1 CAATAATGGTTTCTTAATTCATTCATGTCATCCTAGATTGCCCGACAACAATGACCTACCACCCA
36533201 GGGTTGCCCGACGACGATGGCTT
66 GGGTTGCCCGACGACGATGGCTT
36533224 TGTCGAGTCT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
107 73 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (107 bp):
CAATAATGGTTTCTTAATTCATTCATGTCATCCTAGATTGCCCGACAACAATGACCTACCACCCA
GGGTTGCCCGACGACGATGGCTTACCACATTGAATTTCTTGG
Found at i:36534358 original size:9 final size:9
Alignment explanation
Indices: 36534344--36534377 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
36534334 TATCTTTAAA
36534344 CTCTCAATT
1 CTCTCAATT
*
36534353 CTCTCAACT
1 CTCTCAATT
36534362 CTCTCAATT
1 CTCTCAATT
36534371 CTCTCAA
1 CTCTCAA
36534378 AGTTCCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (9 bp):
CTCTCAATT
Found at i:36538231 original size:17 final size:16
Alignment explanation
Indices: 36538206--36538259 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
36538196 TGGAATGGCA
*
36538206 AATGATATTGTAATGAC
1 AATGTTATTG-AATGAC
*
36538223 AATGTTATTGAAATAAC
1 AATGTTATTG-AATGAC
36538240 AAGTGTTATTGAATGA-
1 AA-TGTTATTGAATGAC
36538256 AATG
1 AATG
36538260 AAATGTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 20 0.62
18 8 0.25
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.35
Consensus pattern (16 bp):
AATGTTATTGAATGAC
Found at i:36538248 original size:18 final size:17
Alignment explanation
Indices: 36538206--36538252 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
36538196 TGGAATGGCA
* * *
36538206 AATGATATTGTAATGAC
1 AATGTTATTGAAATAAC
36538223 AATGTTATTGAAATAAC
1 AATGTTATTGAAATAAC
36538240 AAGTGTTATTGAA
1 AA-TGTTATTGAA
36538253 TGAAATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (17 bp):
AATGTTATTGAAATAAC
Found at i:36539639 original size:11 final size:11
Alignment explanation
Indices: 36539595--36539643 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
36539585 TAATTAGATC
*
36539595 ATTATTATTTA
1 ATTATTATTTT
36539606 ATTATTATTTT
1 ATTATTATTTT
**
36539617 ATTAAGATTTTT
1 ATTATTA-TTTT
*
36539629 AGTATTATTTT
1 ATTATTATTTT
36539640 ATTA
1 ATTA
36539644 ATATGATTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
11 22 0.73
12 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:36540092 original size:24 final size:24
Alignment explanation
Indices: 36540052--36540098 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
36540042 AAAGGGAAAT
*
36540052 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
36540076 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
36540099 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:36542746 original size:20 final size:21
Alignment explanation
Indices: 36542705--36542749 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
36542695 TGCAATCATA
36542705 ATTTTGTTATTGTTTTATTTT
1 ATTTTGTTATTGTTTTATTTT
36542726 ATTTT-TTATTTGTTTTA-TTT
1 ATTTTGTTA-TTGTTTTATTTT
36542746 ATTT
1 ATTT
36542750 ATTTTCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.78
Consensus pattern (21 bp):
ATTTTGTTATTGTTTTATTTT
Found at i:36542752 original size:17 final size:16
Alignment explanation
Indices: 36542722--36542753 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
36542712 TATTGTTTTA
36542722 TTTTATTTTTTATTTG
1 TTTTATTTTTTATTTG
36542738 TTTTATTTATTTATTT
1 TTTTATTT-TTTATTT
36542754 TCTTTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTATTTG
Found at i:36545635 original size:14 final size:16
Alignment explanation
Indices: 36545616--36545658 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
36545606 GAGAACTCAT
36545616 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
36545630 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
36545646 ATTCAGTTTAATT
1 ATTTA-TTTAATT
36545659 CATATTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 5 0.20
17 7 0.28
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:36551502 original size:21 final size:21
Alignment explanation
Indices: 36551478--36551546 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
36551468 ATGAGTTGCT
36551478 CACATGACCATCTGACCTATC
1 CACATGACCATCTGACCTATC
* * *
36551499 CACATGGCCATTTGACCTATT
1 CACATGACCATCTGACCTATC
* * *
36551520 CACACGACCATGTGGCCTATC
1 CACATGACCATCTGACCTATC
36551541 TCACAT
1 -CACAT
36551547 AGACACGACT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 34 0.89
22 4 0.11
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (21 bp):
CACATGACCATCTGACCTATC
Found at i:36566500 original size:6 final size:6
Alignment explanation
Indices: 36566489--36566570 Score: 92
Period size: 6 Copynumber: 13.7 Consensus size: 6
36566479 TGTGGGATCG
* * *
36566489 TCTTCT TCTTCT TTTTCT TCTTTT TCTTCT TCTTAT TCTTCT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * *
36566537 TTTTCT TTTTCT TCTTTT TCTTTT TATTCT TCTT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTT
36566571 TAGAATCCTC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (6 bp):
TCTTCT
Found at i:36566506 original size:9 final size:9
Alignment explanation
Indices: 36566489--36566571 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
36566479 TGTGGGATCG
*
36566489 TCTTCTTCT
1 TCTTTTTCT
36566498 TCTTTTTCT
1 TCTTTTTCT
36566507 TCTTTTTCT
1 TCTTTTTCT
* *
36566516 TCTTCTTAT
1 TCTTTTTCT
*
36566525 TCTTCTTCT
1 TCTTTTTCT
36566534 TC--TTT-T
1 TCTTTTTCT
36566540 TCTTTTTCT
1 TCTTTTTCT
36566549 TCTTTTTCT
1 TCTTTTTCT
36566558 T-TTTATTCT
1 TCTTT-TTCT
36566567 TCTTT
1 TCTTT
36566572 AGAATCCTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.05
7 2 0.03
8 6 0.09
9 50 0.78
10 3 0.05
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:36566509 original size:15 final size:15
Alignment explanation
Indices: 36566489--36566570 Score: 89
Period size: 15 Copynumber: 5.7 Consensus size: 15
36566479 TGTGGGATCG
36566489 TCTTCTTCTTCTTTT
1 TCTTCTTCTTCTTTT
*
36566504 TCTTC-T-TT-TTCT
1 TCTTCTTCTTCTTTT
* *
36566516 TCTTCTTATTCTTCT
1 TCTTCTTCTTCTTTT
*
36566531 TCTTCTTTTTCTTTT
1 TCTTCTTCTTCTTTT
*
36566546 TCTTCTTTTTCTTTT
1 TCTTCTTCTTCTTTT
*
36566561 TATTCTTCTT
1 TCTTCTTCTT
36566571 TAGAATCCTC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
12 8 0.14
13 3 0.05
14 3 0.05
15 45 0.76
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTCTTCTTCTTTT
Found at i:36570460 original size:50 final size:49
Alignment explanation
Indices: 36570406--36570530 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 49
36570396 GTCATTAGGG
36570406 TTACCGATTCTTAGCTCGTATGAGCTTACCGAGTTGC-AGCTCGTGAAAGC
1 TTACCGATTCTTAGCTCGTATGAGCTTACCGA-TT-CAAGCTCGTGAAAGC
*
36570456 TTACCGATTCTTAGCTCGTATGAGCTTACCGATTCATAGCTCGTGAGAGC
1 TTACCGATTCTTAGCTCGTATGAGCTTACCGATTCA-AGCTCGTGAAAGC
* *
36570506 ATACCGATTCATAGCTCGTATGAGC
1 TTACCGATTCTTAGCTCGTATGAGC
36570531 ATACATGTAC
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
48 1 0.01
49 2 0.03
50 67 0.96
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (49 bp):
TTACCGATTCTTAGCTCGTATGAGCTTACCGATTCAAGCTCGTGAAAGC
Found at i:36570534 original size:25 final size:25
Alignment explanation
Indices: 36570406--36570530 Score: 150
Period size: 25 Copynumber: 5.0 Consensus size: 25
36570396 GTCATTAGGG
*
36570406 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTCATAGCTCGTATGAGC
*
36570431 TTACCGAGTTGC--AGCTCGTGA-AAGC
1 TTACCGA-TT-CATAGCTCGT-ATGAGC
*
36570456 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTCATAGCTCGTATGAGC
36570481 TTACCGATTCATAGCTCGTGA-GAGC
1 TTACCGATTCATAGCTCGT-ATGAGC
*
36570506 ATACCGATTCATAGCTCGTATGAGC
1 TTACCGATTCATAGCTCGTATGAGC
36570531 ATACATGTAC
Statistics
Matches: 88, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
23 1 0.01
24 4 0.05
25 78 0.89
26 4 0.05
27 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (25 bp):
TTACCGATTCATAGCTCGTATGAGC
Found at i:36571783 original size:12 final size:12
Alignment explanation
Indices: 36571768--36571797 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36571758 TCAGGTTGTT
36571768 ACACGGCCTAGC
1 ACACGGCCTAGC
*
36571780 ACACGGCCTGGC
1 ACACGGCCTAGC
36571792 ACACGG
1 ACACGG
36571798 GCGTGTGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:36571997 original size:30 final size:30
Alignment explanation
Indices: 36571963--36572020 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
36571953 TGTCTCTTGG
*
36571963 CCGTGTGAGTCACACGGCCTGGCCACACAT
1 CCGTGTGAGTCACACGACCTGGCCACACAT
36571993 CCGTGTGAGTCACACGACCTGGCCACAC
1 CCGTGTGAGTCACACGACCTGGCCACAC
36572021 GGCTGTGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.16
Consensus pattern (30 bp):
CCGTGTGAGTCACACGACCTGGCCACACAT
Found at i:36572029 original size:30 final size:30
Alignment explanation
Indices: 36571962--36572030 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
36571952 GTGTCTCTTG
*
36571962 GCCGTGTGAGTCACACGGCCTGGCCACACA
1 GCCGTGTGAGTCACACGACCTGGCCACACA
* *
36571992 TCCGTGTGAGTCACACGACCTGGCCACACG
1 GCCGTGTGAGTCACACGACCTGGCCACACA
*
36572022 GCTGTGTGA
1 GCCGTGTGA
36572031 CCCCTACAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.17
Consensus pattern (30 bp):
GCCGTGTGAGTCACACGACCTGGCCACACA
Found at i:36572127 original size:14 final size:14
Alignment explanation
Indices: 36572108--36572145 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
36572098 GTTTTCCAGT
*
36572108 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
36572122 AAAATGATTTCTGG
1 AAAATGATTTCTGG
36572136 AAAATGATTT
1 AAAATGATTT
36572146 AATTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:36572159 original size:19 final size:20
Alignment explanation
Indices: 36572129--36572174 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
36572119 TGGAAAATGA
36572129 TTTCTGGAAAATGATTTAAT
1 TTTCTGGAAAATGATTTAAT
*
36572149 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTAAT
36572168 TTTCTGG
1 TTTCTGG
36572175 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTAAT
Found at i:36578569 original size:49 final size:48
Alignment explanation
Indices: 36578476--36578572 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
36578466 TTTCTTTGCT
* * * *
36578476 TAAAAACGCCTAAGTCAGCCTAACTTGCAATGATAACGAATTCAACAG
1 TAAAAACACCTAAGTCAACCTAACTCGCAATGATAAAGAATTCAACAG
* *
36578524 TAAAAACACCTAAGTCAACTTAATCTCGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAACCTAA-CTCGCAATGATAAAGAATTCAACAG
36578573 AATTCCCTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 20 0.48
49 22 0.52
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAACCTAACTCGCAATGATAAAGAATTCAACAG
Found at i:36578807 original size:19 final size:19
Alignment explanation
Indices: 36578783--36578836 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
36578773 AAAGTTGTAT
36578783 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
36578802 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
36578819 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
36578837 TTTTATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:36578808 original size:36 final size:36
Alignment explanation
Indices: 36578768--36578836 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
36578758 CAAGGGCTAT
*
36578768 AATTAAAAGTTGTATACAATTAGAACTCTAAGACAC
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAC
*
36578804 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
36578837 TTTTATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAC
Found at i:36583899 original size:17 final size:17
Alignment explanation
Indices: 36583877--36583941 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
36583867 ACATCAAGGG
*
36583877 ATACAATTAAAAGCTGT
1 ATACAATTAGAAGCTGT
*
36583894 ATACAATTAGAA-CTCT
1 ATACAATTAGAAGCTGT
*
36583910 AAGACACAATTAGAAGCTGT
1 ---ATACAATTAGAAGCTGT
36583930 ATACAATTAGAA
1 ATACAATTAGAA
36583942 CTCTAAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.08
17 22 0.56
19 11 0.28
20 3 0.08
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (17 bp):
ATACAATTAGAAGCTGT
Found at i:36583920 original size:19 final size:19
Alignment explanation
Indices: 36583896--36583949 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
36583886 AAAGCTGTAT
36583896 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
36583915 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
36583932 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
36583950 TTTTATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:36583927 original size:36 final size:36
Alignment explanation
Indices: 36583879--36583949 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
36583869 ATCAAGGGAT
36583879 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
36583915 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
36583950 TTTTATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:36600154 original size:46 final size:44
Alignment explanation
Indices: 36600104--36600194 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
36600094 ATAGAAATAA
* *
36600104 AGAAATGAAAAAC-ATTTAAAAATGATTATGGTTTTCTCCGAAATGG
1 AGAAATG--AAACTATTTAAAAATGAATATGGTTTTCT-CAAAATGG
* * *
36600150 AGAAATGGAACTATTTAGAAATGAATATTGTTTTCTCAAAATGG
1 AGAAATGAAACTATTTAAAAATGAATATGGTTTTCTCAAAATGG
36600194 A
1 A
36600195 AATGAGAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 11 0.28
45 21 0.54
46 7 0.18
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.32
Consensus pattern (44 bp):
AGAAATGAAACTATTTAAAAATGAATATGGTTTTCTCAAAATGG
Found at i:36602980 original size:43 final size:42
Alignment explanation
Indices: 36602922--36603106 Score: 187
Period size: 43 Copynumber: 4.4 Consensus size: 42
36602912 TTTTAGAAAT
* *
36602922 AAACGCCG-TAAAGACCATAACCTTTAGCGACGCTTTTCCGAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGACGCTTTT-CGAC
* **
36602964 AAACGCCGCTATAGACCATGACATTTAGCGGTGCTCTTTC-AC
1 AAACGCCGCTATAGACCATGACCTTTAGCGACGCT-TTTCGAC
* *
36603006 AAACGCTGCTATAGACCATGACCTTTAGC-AGCGCTTTTTGCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGA-CGCTTTTCG-AC
* * * * * *
36603049 AAACGCCGCTAAAGACCATTACCATTAACGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGACGCTTTT-CGAC
36603092 AAACGCCGCTATAGA
1 AAACGCCGCTATAGA
36603107 ATAAGCTTTT
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
41 3 0.03
42 40 0.34
43 71 0.61
44 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGACGCTTTTCGAC
Found at i:36603031 original size:85 final size:85
Alignment explanation
Indices: 36602922--36603149 Score: 227
Period size: 85 Copynumber: 2.7 Consensus size: 85
36602912 TTTTAGAAAT
* *
36602922 AAACGCCG-TAAAGACCATAACCTTTAGC-GACGCTTTTC-CGACAAACGCCGCTATAGACCATG
1 AAACGCCGCTATAGACCATAACCTTTAGCAG-CGCTTTTCGC-ACAAACGCCGCTAAAGACCATG
* *
36602984 A-CATTTAGCGGTGCTCTTT-CAC
64 ACCA-TTAACGGCGCT-TTTCCAC
* * * *
36603006 AAACGCTGCTATAGACCATGACCTTTAGCAGCGCTTTTTGCACAAACGCCGCTAAAGACCATTAC
1 AAACGCCGCTATAGACCATAACCTTTAGCAGCGCTTTTCGCACAAACGCCGCTAAAGACCATGAC
36603071 CATTAACGGCGCTTTTCCCAC
66 CATTAACGGCGCTTTT-CCAC
* * *
36603092 AAACGCCGCTATAGA--ATAAGCTTTTAACGGCGGCGCTTTTCACACAAACGCCGCTAAA
1 AAACGCCGCTATAGACCATAA-CCTTT-A--GCAGCGCTTTTCGCACAAACGCCGCTAAA
36603150 AACATATATT
Statistics
Matches: 120, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
84 13 0.11
85 59 0.49
86 22 0.18
88 26 0.22
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTATAGACCATAACCTTTAGCAGCGCTTTTCGCACAAACGCCGCTAAAGACCATGAC
CATTAACGGCGCTTTTCCAC
Found at i:36603299 original size:21 final size:21
Alignment explanation
Indices: 36603275--36603315 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
36603265 ATTTTAACTT
36603275 TAAAACTAAATATAAATATAG
1 TAAAACTAAATATAAATATAG
36603296 TAAAACTAAATATAAATATA
1 TAAAACTAAATATAAATATA
36603316 AAAATTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAACTAAATATAAATATAG
Found at i:36603458 original size:17 final size:17
Alignment explanation
Indices: 36603436--36603470 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
36603426 TAAATAATAC
36603436 ATATGCAAGGTAATAAA
1 ATATGCAAGGTAATAAA
36603453 ATATGCAAGGTAATAAA
1 ATATGCAAGGTAATAAA
36603470 A
1 A
36603471 ATCTTGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (17 bp):
ATATGCAAGGTAATAAA
Found at i:36610108 original size:19 final size:19
Alignment explanation
Indices: 36610057--36610108 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
36610047 ATTATAACAG
36610057 TAAAAATTATTAA-AAAATA
1 TAAAAATT-TTAATAAAATA
* **
36610076 TAAGAATTCAAATAAAATA
1 TAAAAATTTTAATAAAATA
36610095 TAAAAATTTTAATA
1 TAAAAATTTTAATA
36610109 TATATAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAAATTTTAATAAAATA
Found at i:36611834 original size:22 final size:23
Alignment explanation
Indices: 36611806--36611850 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36611796 ATGCAATTTT
36611806 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
36611828 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
36611851 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:36613885 original size:12 final size:12
Alignment explanation
Indices: 36613851--36613891 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
36613841 TAATAATGTC
36613851 AATAACAATAATA
1 AATAACAATAA-A
**
36613864 AATAGTAATAAA
1 AATAACAATAAA
36613876 AATAACAATAAA
1 AATAACAATAAA
36613888 AATA
1 AATA
36613892 GTCAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (12 bp):
AATAACAATAAA
Found at i:36613897 original size:13 final size:13
Alignment explanation
Indices: 36613856--36613897 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
36613846 ATGTCAATAA
36613856 CAATAATAAATAGT
1 CAATAA-AAATAGT
*
36613870 -AATAAAAATA-A
1 CAATAAAAATAGT
36613881 CAATAAAAATAGT
1 CAATAAAAATAGT
36613894 CAAT
1 CAAT
36613898 TAATCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (13 bp):
CAATAAAAATAGT
Found at i:36615333 original size:15 final size:16
Alignment explanation
Indices: 36615303--36615335 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
36615293 TTTTCCCTTA
36615303 TTATTCATTTTCAAAT
1 TTATTCATTTTCAAAT
*
36615319 TTATT-ATTTTTAAAT
1 TTATTCATTTTCAAAT
36615334 TT
1 TT
36615336 GTTTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTCATTTTCAAAT
Found at i:36620690 original size:62 final size:62
Alignment explanation
Indices: 36620593--36620726 Score: 268
Period size: 62 Copynumber: 2.2 Consensus size: 62
36620583 CAACTTTCCT
36620593 AAGCACTTTTGTGTAAGAAAGGTACTTAGTTTTTATATTTTTGAATACCTTCCTAAACACCA
1 AAGCACTTTTGTGTAAGAAAGGTACTTAGTTTTTATATTTTTGAATACCTTCCTAAACACCA
36620655 AAGCACTTTTGTGTAAGAAAGGTACTTAGTTTTTATATTTTTGAATACCTTCCTAAACACCA
1 AAGCACTTTTGTGTAAGAAAGGTACTTAGTTTTTATATTTTTGAATACCTTCCTAAACACCA
36620717 AAGCACTTTT
1 AAGCACTTTT
36620727 AAGCATGGAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (62 bp):
AAGCACTTTTGTGTAAGAAAGGTACTTAGTTTTTATATTTTTGAATACCTTCCTAAACACCA
Found at i:36622749 original size:15 final size:15
Alignment explanation
Indices: 36622726--36622755 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36622716 ACTAGTATAC
*
36622726 CAAAGAAAAAACAAA
1 CAAAAAAAAAACAAA
36622741 CAAAAAAAAAACAAA
1 CAAAAAAAAAACAAA
36622756 AATAGAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAACAAA
Found at i:36622903 original size:15 final size:16
Alignment explanation
Indices: 36622883--36622915 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
36622873 AGACGGCGAC
36622883 GAGCGGT-GATGGCGG
1 GAGCGGTAGATGGCGG
36622898 GAGCGGTCAGATGGCGG
1 GAGCGGT-AGATGGCGG
36622915 G
1 G
36622916 TGTCGGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.15, C:0.15, G:0.58, T:0.12
Consensus pattern (16 bp):
GAGCGGTAGATGGCGG
Found at i:36626365 original size:2 final size:2
Alignment explanation
Indices: 36626358--36626393 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
36626348 AGTTCTTTTA
36626358 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
36626394 CTGCATGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:36630568 original size:5 final size:5
Alignment explanation
Indices: 36630558--36630583 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36630548 CAGCTGCATG
36630558 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
36630584 ATCCATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:36631621 original size:12 final size:12
Alignment explanation
Indices: 36631604--36631628 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36631594 CCTTTACCTC
36631604 TTTTTCTTTTTT
1 TTTTTCTTTTTT
36631616 TTTTTCTTTTTT
1 TTTTTCTTTTTT
36631628 T
1 T
36631629 GGGGGTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:36633291 original size:2 final size:2
Alignment explanation
Indices: 36633284--36633315 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36633274 TTCTCTTCTT
36633284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36633316 ATGATATTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36643288 original size:36 final size:36
Alignment explanation
Indices: 36643241--36643309 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
36643231 ACAACAACAC
* *
36643241 ACCTTCTAATTTCGCTATGGAGGCTATTGCTTGTAT
1 ACCTTATAATTTCGCTACGGAGGCTATTGCTTGTAT
36643277 ACCTTATAATTTCGCTACGGAGGCTATTGCTTG
1 ACCTTATAATTTCGCTACGGAGGCTATTGCTTG
36643310 ACTACTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (36 bp):
ACCTTATAATTTCGCTACGGAGGCTATTGCTTGTAT
Found at i:36648411 original size:12 final size:13
Alignment explanation
Indices: 36648394--36648423 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36648384 TGCAAATGCA
36648394 AATTT-ATGTTTT
1 AATTTAATGTTTT
36648406 AATTTAATGTTTT
1 AATTTAATGTTTT
36648419 AATTT
1 AATTT
36648424 CACACCCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
AATTTAATGTTTT
Found at i:36650704 original size:113 final size:113
Alignment explanation
Indices: 36650567--36650802 Score: 404
Period size: 113 Copynumber: 2.1 Consensus size: 113
36650557 GAATTATATT
* *
36650567 TACAATTATTAGTTTAAGAGTTTTGACGAAAATAAAAAAGTTGTGCTAATTTTATTGATGTAAAA
1 TACAATTATTAGTTTAAGAATTTTGACGAAAATAAAAAAGTTGTACTAATTTTATTGATGTAAAA
* *
36650632 TATAGTTATTACTTGAATAGAATTCTAATTATCTTAATTATCAGGTAA
66 TATAGTTATTACTTGAATAGAATTCTAATTATATTAATTATCAGATAA
*
36650680 TACAATTATTAGTTTAAGAATTTTGACGAAAATAAAAAAGTTGTACTGATTTTATTGATGTAAAA
1 TACAATTATTAGTTTAAGAATTTTGACGAAAATAAAAAAGTTGTACTAATTTTATTGATGTAAAA
*
36650745 TATAGTTATTACTTGAATAGAATTTTAATTATATTAATTATCAGATAA
66 TATAGTTATTACTTGAATAGAATTCTAATTATATTAATTATCAGATAA
36650793 T-CAA-TATTAG
1 TACAATTATTAG
36650803 AGTTAATTAT
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
111 6 0.05
112 3 0.03
113 108 0.92
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (113 bp):
TACAATTATTAGTTTAAGAATTTTGACGAAAATAAAAAAGTTGTACTAATTTTATTGATGTAAAA
TATAGTTATTACTTGAATAGAATTCTAATTATATTAATTATCAGATAA
Found at i:36651601 original size:7 final size:8
Alignment explanation
Indices: 36651582--36651609 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
36651572 TCACATCATA
36651582 AAAAAATT
1 AAAAAATT
36651590 AAAAAATT
1 AAAAAATT
36651598 AAAAAATT
1 AAAAAATT
36651606 AAAA
1 AAAA
36651610 TAAAGATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAATT
Found at i:36654155 original size:26 final size:26
Alignment explanation
Indices: 36654116--36654168 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
36654106 CTGATCAAAA
36654116 AGGGGTTGTGAAGTG-TAGATTCCCCG
1 AGGGGTTGTGAAGTGCT-GATTCCCCG
36654142 AGGGGTTGCT-AAGTGCTGATTCCCCG
1 AGGGGTTG-TGAAGTGCTGATTCCCCG
36654168 A
1 A
36654169 ATTATTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (26 bp):
AGGGGTTGTGAAGTGCTGATTCCCCG
Found at i:36654204 original size:42 final size:43
Alignment explanation
Indices: 36654145--36654295 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 43
36654135 TTCCCCGAGG
* * *
36654145 GGTTGCTAAGTGCTGATTCC-CCGAATTATTGTTTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
* * *
36654187 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTAT-AAAGGT
* * * * *
36654230 GGTTGCTATGTGCTGATTCC-CCGTATCACTGAATAT-AAGTT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
36654271 GGTTGCTAAGTGCTGATTCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
36654296 GTAACGGTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.03
41 19 0.21
42 35 0.38
43 30 0.33
44 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
Found at i:36660803 original size:27 final size:27
Alignment explanation
Indices: 36660773--36660824 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36660763 AGCAAAATAA
36660773 TGCAATATCTCGCACAAATCTACACTT
1 TGCAATATCTCGCACAAATCTACACTT
*
36660800 TGCATTATCTCGCACAAATCTACAC
1 TGCAATATCTCGCACAAATCTACAC
36660825 ACACCCGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.29
Consensus pattern (27 bp):
TGCAATATCTCGCACAAATCTACACTT
Found at i:36662050 original size:20 final size:20
Alignment explanation
Indices: 36662025--36662079 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
36662015 GATCATGAAC
* *
36662025 CATTCCATTTGCTTACTTTT
1 CATTCCATTTACTTACTTTA
36662045 CATTCCATTTACTTACTTTA
1 CATTCCATTTACTTACTTTA
*
36662065 CATTTCATTTACTTA
1 CATTCCATTTACTTA
36662080 ACATAAACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.53
Consensus pattern (20 bp):
CATTCCATTTACTTACTTTA
Found at i:36662836 original size:20 final size:20
Alignment explanation
Indices: 36662781--36662836 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
36662771 GATGCATAAT
*
36662781 AAGGGCACCAAAGTGCAATC
1 AAGGGCACCGAAGTGCAATC
* *
36662801 AAGAGCA-TGAATGTGCAATC
1 AAGGGCACCGAA-GTGCAATC
*
36662821 AAGGGTACCGAAGTGC
1 AAGGGCACCGAAGTGC
36662837 GAATAGGGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.82
21 3 0.11
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.14
Consensus pattern (20 bp):
AAGGGCACCGAAGTGCAATC
Found at i:36662854 original size:40 final size:40
Alignment explanation
Indices: 36662810--36662922 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 40
36662800 CAAGAGCATG
* * *
36662810 AATGTGCAATCAAGGGTACCGAAGTGCGAATAGGGGCACA
1 AATGTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACA
* * * *
36662850 AATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCACGT
1 AATGTGCAATCAAGGGTACCGAAGTACAAACAGGGGCAC-A
* **
36662891 AA-GTGCAA-CCAGAGGTATTGAAGTACAAACAG
1 AATGTGCAATCAAG-GGTACCGAAGTACAAACAG
36662923 AGACATGTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.03
40 56 0.93
41 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (40 bp):
AATGTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACA
Found at i:36662883 original size:20 final size:20
Alignment explanation
Indices: 36662860--36662922 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
36662850 AATGTGCATT
36662860 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
* * *
36662880 CAGGGGCAC-GTAAGTGCAAC
1 CAGGGGTACTG-AAGTACAAA
* *
36662900 CAGAGGTATTGAAGTACAAA
1 CAGGGGTACTGAAGTACAAA
36662920 CAG
1 CAG
36662923 AGACATGTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.30, T:0.14
Consensus pattern (20 bp):
CAGGGGTACTGAAGTACAAA
Found at i:36662933 original size:40 final size:39
Alignment explanation
Indices: 36662864--36662947 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
36662854 TGCATTCAGG
* * *
36662864 GGTACTGAAGTACAAACAGGGGCACGTAAGTGCAACCAGA
1 GGTATTGAAGTACAAACAGAGACACGTAAGTGCAACCA-A
* *
36662904 GGTATTGAAGTACAAACAGAGACATGTAAGTGCAATCAA
1 GGTATTGAAGTACAAACAGAGACACGTAAGTGCAACCAA
36662943 GGTAT
1 GGTAT
36662948 AATTTACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 6 0.15
40 33 0.85
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.18
Consensus pattern (39 bp):
GGTATTGAAGTACAAACAGAGACACGTAAGTGCAACCAA
Found at i:36662934 original size:20 final size:20
Alignment explanation
Indices: 36662871--36662934 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
36662861 AGGGGTACTG
* *
36662871 AAGTACAAACAGGGGCACGT
1 AAGTACAAACAGAGGCATGT
* * *
36662891 AAGTGCAACCAGAGGTAT-T
1 AAGTACAAACAGAGGCATGT
*
36662910 GAAGTACAAACAGAGACATGT
1 -AAGTACAAACAGAGGCATGT
36662931 AAGT
1 AAGT
36662935 GCAATCAAGG
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.16
Consensus pattern (20 bp):
AAGTACAAACAGAGGCATGT
Found at i:36665147 original size:28 final size:28
Alignment explanation
Indices: 36665116--36665178 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
36665106 TTTGGTGTAA
*
36665116 AAACTCAAA-AATTTGGATGGTGATGATT
1 AAACT-AAATAATTTGGATGGCGATGATT
36665144 AAACTAAATAATTTGGATGGCGATGATT
1 AAACTAAATAATTTGGATGGCGATGATT
36665172 AAACTAA
1 AAACTAA
36665179 GTAAAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 3 0.09
28 30 0.91
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (28 bp):
AAACTAAATAATTTGGATGGCGATGATT
Found at i:36666911 original size:14 final size:14
Alignment explanation
Indices: 36666892--36666918 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36666882 ATTGCTCATC
36666892 CTGAGGCAATTTTA
1 CTGAGGCAATTTTA
36666906 CTGAGGCAATTTT
1 CTGAGGCAATTTT
36666919 GCAAAATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (14 bp):
CTGAGGCAATTTTA
Found at i:36668079 original size:25 final size:25
Alignment explanation
Indices: 36668051--36668100 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
36668041 GAAGCCTAGT
* *
36668051 TTAAAAATTCATGTGAAATGCCTTA
1 TTAAAAACTCATGCGAAATGCCTTA
36668076 TTAAAAACTCATGCGAAATGCCTTA
1 TTAAAAACTCATGCGAAATGCCTTA
36668101 CCCCTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
TTAAAAACTCATGCGAAATGCCTTA
Found at i:36673501 original size:31 final size:31
Alignment explanation
Indices: 36673459--36673521 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
36673449 TGATCTTCAG
36673459 AAAAATATGATATCTCTTCTAAACCGTCTTT
1 AAAAATATGATATCTCTTCTAAACCGTCTTT
* *
36673490 AAAAATCTGATATCTCTTTTAAACCGTCTTT
1 AAAAATATGATATCTCTTCTAAACCGTCTTT
36673521 A
1 A
36673522 CTTGCTAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (31 bp):
AAAAATATGATATCTCTTCTAAACCGTCTTT
Found at i:36677785 original size:27 final size:27
Alignment explanation
Indices: 36677755--36677836 Score: 119
Period size: 29 Copynumber: 3.0 Consensus size: 27
36677745 GTATAGATAA
*
36677755 CCTTTATGGCAAACTCTGACTGGATTG
1 CCTTTGTGGCAAACTCTGACTGGATTG
36677782 CCTTTGTGGCATAAACTCTGACTGGATTG
1 CCTTTGTGGC--AAACTCTGACTGGATTG
* *
36677811 CCTTTGTGGCATACTCTGAATGGATT
1 CCTTTGTGGCAAACTCTGACTGGATT
36677837 ATTTTGGTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.46
29 27 0.54
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (27 bp):
CCTTTGTGGCAAACTCTGACTGGATTG
Found at i:36677803 original size:29 final size:29
Alignment explanation
Indices: 36677765--36677836 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
36677755 CCTTTATGGC
36677765 AAACTCTGACTGGATTGCCTTTGTGGCAT
1 AAACTCTGACTGGATTGCCTTTGTGGCAT
36677794 AAACTCTGACTGGATTGCCTTTGTGGCAT
1 AAACTCTGACTGGATTGCCTTTGTGGCAT
*
36677823 --ACTCTGAATGGATT
1 AAACTCTGACTGGATT
36677837 ATTTTGGTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 13 0.31
29 29 0.69
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (29 bp):
AAACTCTGACTGGATTGCCTTTGTGGCAT
Found at i:36680719 original size:25 final size:26
Alignment explanation
Indices: 36680691--36680755 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
36680681 AAATTGTAGA
36680691 ATTTGA-ATGTATAATCAATTTATAT
1 ATTTGATATGTATAATCAATTTATAT
*
36680716 ATTTTGATGTGTATAATCAATTTATAT
1 A-TTTGATATGTATAATCAATTTATAT
*
36680743 ATTTTGATGTGTA
1 A-TTTGATATGTA
36680756 GATATTCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 31 0.84
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (26 bp):
ATTTGATATGTATAATCAATTTATAT
Found at i:36680735 original size:27 final size:27
Alignment explanation
Indices: 36680698--36680755 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
36680688 AGAATTTGAA
36680698 TGTATAATCAATTTATATATTTTGATG
1 TGTATAATCAATTTATATATTTTGATG
36680725 TGTATAATCAATTTATATATTTTGATG
1 TGTATAATCAATTTATATATTTTGATG
36680752 TGTA
1 TGTA
36680756 GATATTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (27 bp):
TGTATAATCAATTTATATATTTTGATG
Found at i:36683491 original size:42 final size:42
Alignment explanation
Indices: 36683443--36683523 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
36683433 ACGGCCTGGA
* * *
36683443 GACATGACCGTGTGACCTTATTTCGAATCACACACGGTCTAT
1 GACATGACCATATGACCCTATTTCGAATCACACACGGTCTAT
* *
36683485 GACATGACCATATGACCCTATTTCGAATTACACATGGTC
1 GACATGACCATATGACCCTATTTCGAATCACACACGGTC
36683524 GGGCACATGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
GACATGACCATATGACCCTATTTCGAATCACACACGGTCTAT
Found at i:36686431 original size:7 final size:7
Alignment explanation
Indices: 36686421--36686455 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
36686411 TTATAAAAGG
36686421 TTATATA
1 TTATATA
36686428 TTATATA
1 TTATATA
36686435 TTATATA
1 TTATATA
* *
36686442 TTATTTT
1 TTATATA
36686449 TTATATA
1 TTATATA
36686456 ACCTAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
TTATATA
Found at i:36696368 original size:110 final size:111
Alignment explanation
Indices: 36696236--36696457 Score: 385
Period size: 111 Copynumber: 2.0 Consensus size: 111
36696226 CACATATTTA
*
36696236 TAGCTAAAATTTTCTGAACTAATTAAGTTAATTACAGCCTAAAAA-TGATAAATGTTTATTGTGC
1 TAGCTAAAATTTTCTGAACTAATTAAGTTAATTACAACCTAAAAATTGATAAATGTTTATTGTGC
*
36696300 TGACAGAAACACTCCTAACTTAATTATTTATGTTCGCCGTTCGGTG
66 TGACAGAAACACCCCTAACTTAATTATTTATGTTCGCCGTTCGGTG
*
36696346 TAGCTAAAATTTTCT-AATCTAATTAAGTTAATTACAACTTAAAAATTGATAAATGTTTATTGTG
1 TAGCTAAAATTTTCTGAA-CTAATTAAGTTAATTACAACCTAAAAATTGATAAATGTTTATTGTG
*
36696410 CTGACAGAAACACCCCTAACTTAATTATTTATGTTCGTCGTTCGGTG
65 CTGACAGAAACACCCCTAACTTAATTATTTATGTTCGCCGTTCGGTG
36696457 T
1 T
36696458 CACGGCATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
109 2 0.02
110 40 0.38
111 64 0.60
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (111 bp):
TAGCTAAAATTTTCTGAACTAATTAAGTTAATTACAACCTAAAAATTGATAAATGTTTATTGTGC
TGACAGAAACACCCCTAACTTAATTATTTATGTTCGCCGTTCGGTG
Found at i:36698393 original size:16 final size:16
Alignment explanation
Indices: 36698372--36698404 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36698362 AATTGGATTA
36698372 AGAAAA-TAATTTAATT
1 AGAAAATTAA-TTAATT
36698388 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
36698404 A
1 A
36698405 TATTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:36704097 original size:18 final size:17
Alignment explanation
Indices: 36704064--36704101 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
36704054 TTTTATAAAT
36704064 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
36704082 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
36704099 TGT
1 TGT
36704102 AGAAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:36705052 original size:257 final size:257
Alignment explanation
Indices: 36704596--36705115 Score: 995
Period size: 257 Copynumber: 2.0 Consensus size: 257
36704586 TGATGGAAAT
*
36704596 TGAATTAGAGAGTGAATAAGATATGAAATGAAAGCTTAATGAGTCTATTTTTACATAAAAGGAAC
1 TGAATTAGAGAGTGAATAAGATATGAAATGAAAGCTTAATGAGTCTATTTTTACATAAAAGAAAC
*
36704661 AGATCAAGCAAAAGACTCATATATATTGAGATATTTTAAGTTTAGTGAGAAAGGGTCAGAATGAG
66 AGAGCAAGCAAAAGACTCATATATATTGAGATATTTTAAGTTTAGTGAGAAAGGGTCAGAATGAG
*
36704726 TTTGGAATCCCCTATTCTGAATTTGGAAAATTGTTAAAAATTGTACAAAAATAATTACGGGCTAA
131 TTTGAAATCCCCTATTCTGAATTTGGAAAATTGTTAAAAATTGTACAAAAATAATTACGGGCTAA
36704791 AATTTATATGTTTAGAACCCTGAATGAGTCTATTTTCAAGTGAAATAAATGTAAGTACCATA
196 AATTTATATGTTTAGAACCCTGAATGAGTCTATTTTCAAGTGAAATAAATGTAAGTACCATA
36704853 TGAATTAGAGAGTGAATAAGATATGAAATGAAAGCTTAATGAGTCTATTTTTACATAAAAGAAAC
1 TGAATTAGAGAGTGAATAAGATATGAAATGAAAGCTTAATGAGTCTATTTTTACATAAAAGAAAC
*
36704918 AGAGCAAGCAAAAGACTTATATATATTGAGATATTTTAAGTTTAGTGAGAAAGGGTCAGAATGAG
66 AGAGCAAGCAAAAGACTCATATATATTGAGATATTTTAAGTTTAGTGAGAAAGGGTCAGAATGAG
36704983 TTTGAAATCCCCTATTCTGAATTTGGAAAATTGTTAAAAATTGTACAAAAATAATTACGGGCTAA
131 TTTGAAATCCCCTATTCTGAATTTGGAAAATTGTTAAAAATTGTACAAAAATAATTACGGGCTAA
36705048 AATTTATATGTTTAGAACCCTGAATGAGTCTATTTTCAAGTGAAATAAATGTAAGTACCATA
196 AATTTATATGTTTAGAACCCTGAATGAGTCTATTTTCAAGTGAAATAAATGTAAGTACCATA
*
36705110 CGAATT
1 TGAATT
36705116 CTATACAGTG
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
257 258 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (257 bp):
TGAATTAGAGAGTGAATAAGATATGAAATGAAAGCTTAATGAGTCTATTTTTACATAAAAGAAAC
AGAGCAAGCAAAAGACTCATATATATTGAGATATTTTAAGTTTAGTGAGAAAGGGTCAGAATGAG
TTTGAAATCCCCTATTCTGAATTTGGAAAATTGTTAAAAATTGTACAAAAATAATTACGGGCTAA
AATTTATATGTTTAGAACCCTGAATGAGTCTATTTTCAAGTGAAATAAATGTAAGTACCATA
Found at i:36710860 original size:31 final size:30
Alignment explanation
Indices: 36710820--36710912 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 30
36710810 ATAAAACTTA
* *
36710820 AATTAATTTAAATTTTATGTATTATTATATT-
1 AATT-ATTTAAATATAAT-TATTATTATATTG
* *
36710851 AGATTATTTAAATAGAATTGATCATTATATTG
1 A-ATTATTTAAATATAATT-ATTATTATATTG
*
36710883 AATTATTTAAATGTAATTTATTATTATATT
1 AATTATTTAAATATAA-TTATTATTATATT
36710913 TAAAATTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
30 1 0.02
31 44 0.86
32 6 0.12
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (30 bp):
AATTATTTAAATATAATTATTATTATATTG
Found at i:36715362 original size:51 final size:52
Alignment explanation
Indices: 36715300--36715417 Score: 123
Period size: 51 Copynumber: 2.3 Consensus size: 52
36715290 TAGCAAAATA
* * ** * * * *
36715300 AAAATTTTAAAAATAAAAAATACATATT-TATTATTTTGAACTTAAAATTTT
1 AAAATTATAAAAATAAAAAATACAAATTATAAAAATATGAAATAAAAATTTT
* *
36715351 AAAATTATAAAAA-AATATATACAAATTATAAAAATATGAAATAAAAATTTT
1 AAAATTATAAAAATAAAAAATACAAATTATAAAAATATGAAATAAAAATTTT
*
36715402 AAAATTAAAAAAATAA
1 AAAATTATAAAAATAA
36715418 TTATTTAAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
50 11 0.20
51 41 0.76
52 2 0.04
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (52 bp):
AAAATTATAAAAATAAAAAATACAAATTATAAAAATATGAAATAAAAATTTT
Found at i:36715398 original size:22 final size:21
Alignment explanation
Indices: 36715351--36715405 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
36715341 TTAAAATTTT
*
36715351 AAAATTATAAAAAAATATATA
1 AAAATTATAAAAAAATAAATA
* *
36715372 CAAATTATAAAAATATGAAATA
1 AAAATTATAAAAAAAT-AAATA
*
36715394 AAAATTTTAAAA
1 AAAATTATAAAA
36715406 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATTATAAAAAAATAAATA
Found at i:36717204 original size:34 final size:34
Alignment explanation
Indices: 36717159--36717231 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
36717149 ATTTTGAAAA
* *
36717159 GTTAGGACACTGTGTTCATGAAAATCAGGCCCAT
1 GTTAGGACACTGTGCTCATGAAAATCAGACCCAT
* * * *
36717193 GTTAGGGCACTGTGCTCGTGGAAATCAGACCCGT
1 GTTAGGACACTGTGCTCATGAAAATCAGACCCAT
36717227 GTTAG
1 GTTAG
36717232 TTTTGATTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (34 bp):
GTTAGGACACTGTGCTCATGAAAATCAGACCCAT
Found at i:36724519 original size:37 final size:37
Alignment explanation
Indices: 36724478--36724605 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 37
36724468 AAAATGCGAG
* *
36724478 AAATGCATATTATCTGTTTGGTGATATGAAATGTAAT
1 AAATGCATATTATCTGTTTGGTGATATAAAATGTAAC
* * * *
36724515 AAATGTATACTATC-GTTGGGCGATATAAAATGTAAC
1 AAATGCATATTATCTGTTTGGTGATATAAAATGTAAC
* * ** * *
36724551 AAGTGCGTATTATCCATTTGGTGATGTAAAATGTAAG
1 AAATGCATATTATCTGTTTGGTGATATAAAATGTAAC
* *
36724588 AAATGCATAATGTCTGTT
1 AAATGCATATTATCTGTT
36724606 AAGATGTGAG
Statistics
Matches: 69, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
36 28 0.41
37 41 0.59
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (37 bp):
AAATGCATATTATCTGTTTGGTGATATAAAATGTAAC
Found at i:36728366 original size:18 final size:19
Alignment explanation
Indices: 36728333--36728370 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
36728323 AGACTCCTGG
*
36728333 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
36728352 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
36728370 T
1 T
36728371 ACTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:36742910 original size:31 final size:31
Alignment explanation
Indices: 36742869--36742929 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
36742859 TGATTTATGT
*
36742869 GTTGAAATTTAAACTTGACAATTGTTCTCAC
1 GTTGAAATTTAAACTAGACAATTGTTCTCAC
*
36742900 GTTGAGATTTAAACTAGACAATTGTTCTCA
1 GTTGAAATTTAAACTAGACAATTGTTCTCA
36742930 TATTGGGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (31 bp):
GTTGAAATTTAAACTAGACAATTGTTCTCAC
Found at i:36744175 original size:37 final size:37
Alignment explanation
Indices: 36744118--36744205 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
36744108 TGGGAGAATT
* * *
36744118 TTTGTAGAGAATCGTTATTGTTCATCTTCGTCTTTTC
1 TTTGTAGAGAATCATCATTGTTCATCTTCGCCTTTTC
*
36744155 TTTGTAGAGAATCATCATTGTTCATCTTCGCCTTTTG
1 TTTGTAGAGAATCATCATTGTTCATCTTCGCCTTTTC
*
36744192 TCTTCTAGAGAATC
1 T-TTGTAGAGAATC
36744206 TTTACTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 34 0.76
38 11 0.24
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (37 bp):
TTTGTAGAGAATCATCATTGTTCATCTTCGCCTTTTC
Found at i:36747959 original size:9 final size:8
Alignment explanation
Indices: 36747937--36747967 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
36747927 CCCATATATC
*
36747937 AATTTTTC
1 AATTTTTG
36747945 AATTTTTG
1 AATTTTTG
36747953 AATTTTTG
1 AATTTTTG
36747961 AATTTTT
1 AATTTTT
36747968 AGCAAGTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (8 bp):
AATTTTTG
Found at i:36752517 original size:23 final size:21
Alignment explanation
Indices: 36752451--36752518 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
36752441 TGTGGAAGAT
* *
36752451 CACATGCCTGTGTGA-GAGGA
1 CACACGCCTGTGTGACGATGA
*
36752471 GGCACACGCCTGTGTGACTATGA
1 --CACACGCCTGTGTGACGATGA
36752494 CACACGCCTGTGTGACCGAGTGA
1 CACACGCCTGTGTGA-CGA-TGA
36752517 CA
1 CA
36752519 TGGCCGTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 15 0.38
22 16 0.41
23 8 0.21
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.19
Consensus pattern (21 bp):
CACACGCCTGTGTGACGATGA
Found at i:36758500 original size:33 final size:33
Alignment explanation
Indices: 36758458--36758523 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
36758448 TTAATGATAG
36758458 TTTGGCTCTTGGGATCATGAAACATAAAGTGGA
1 TTTGGCTCTTGGGATCATGAAACATAAAGTGGA
36758491 TTTGGCTCTTGGGATCATGAAACATAAAGTGGA
1 TTTGGCTCTTGGGATCATGAAACATAAAGTGGA
36758524 CTCTATCACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.30
Consensus pattern (33 bp):
TTTGGCTCTTGGGATCATGAAACATAAAGTGGA
Found at i:36778314 original size:26 final size:26
Alignment explanation
Indices: 36778285--36778365 Score: 153
Period size: 26 Copynumber: 3.1 Consensus size: 26
36778275 AACACTCTAA
36778285 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
36778311 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
36778337 TATCGCAACAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
36778363 TAT
1 TAT
36778366 ACTTCCTCCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:36778546 original size:27 final size:27
Alignment explanation
Indices: 36778531--36778670 Score: 181
Period size: 27 Copynumber: 5.2 Consensus size: 27
36778521 GTATAACAGA
36778531 CATTTTACCCTATAGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* * *
36778558 TATTTTACCCTGTAGGAGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
36778585 CATTTTACCCTATAGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* * * **
36778612 TATTTTATCATATAGGATTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* * *
36778639 CATTGTACACTATAGGGGTATTTCAGT
1 CATTTTACCCTATAGGGGTATTTCGGT
36778666 CATTT
1 CATTT
36778671 ATTAACCTCT
Statistics
Matches: 93, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATAGGGGTATTTCGGT
Found at i:36778595 original size:54 final size:54
Alignment explanation
Indices: 36778531--36778662 Score: 210
Period size: 54 Copynumber: 2.4 Consensus size: 54
36778521 GTATAACAGA
* *
36778531 CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCCTGTAGGAGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATATAGGAGTATTTCGGT
* *
36778585 CATTTTACCCTATAGGGGTATTTCGGTTATTTTATCATATAGGATTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATATAGGAGTATTTCGGT
* *
36778639 CATTGTACACTATAGGGGTATTTC
1 CATTTTACCCTATAGGGGTATTTC
36778663 AGTCATTTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.43
Consensus pattern (54 bp):
CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATATAGGAGTATTTCGGT
Found at i:36780391 original size:50 final size:51
Alignment explanation
Indices: 36780297--36780393 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 51
36780287 ACCTTATTCT
*
36780297 AATCAATGTCAAATCAAAAGGAAAGAAGTTCTATACAGATTCTACTTGTAC
1 AATCAATATCAAATCAAAAGGAAAGAAGTTCTATACAGATTCTACTTGTAC
* * * *
36780348 AATCAATATCAAAT-AGAA-GAAGAGTAGTTTTATACGGATTCTACTT
1 AATCAATATCAAATCAAAAGGAA-AGAAGTTCTATACAGATTCTACTT
36780394 ATGCCACTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
49 3 0.08
50 24 0.60
51 13 0.32
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (51 bp):
AATCAATATCAAATCAAAAGGAAAGAAGTTCTATACAGATTCTACTTGTAC
Found at i:36781882 original size:13 final size:13
Alignment explanation
Indices: 36781864--36781890 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36781854 TTAATTTATA
36781864 TGTGTGAAAATTT
1 TGTGTGAAAATTT
36781877 TGTGTGAAAATTT
1 TGTGTGAAAATTT
36781890 T
1 T
36781891 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:36783043 original size:44 final size:44
Alignment explanation
Indices: 36782980--36783138 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 44
36782970 TATGTGATAT
*
36782980 CGTGTAAGACCACATCTGGGACGTTGGCATCGAATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
* * * * *
36783024 CGTGTAAGACCATGTCTGGGACATAGGCATCGTA-T-ATG-TTTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGA-GATTTA
* *
36783066 CGTGTAAGACC-CTGTCCGGGACAG-TGGCATCGTTATTTG-GA--TA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG--AATTGAGATTTA
*
36783109 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
36783139 TGTACGAGTT
Statistics
Matches: 90, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
42 31 0.34
43 27 0.30
44 31 0.34
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
Found at i:36783130 original size:43 final size:42
Alignment explanation
Indices: 36782975--36783138 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 42
36782965 TCTGATATGT
* *
36782975 GATATCGTGTAAGACCACATCTGGGACGTTGGCATCG-AATTG
1 GATA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTG
* * * *
36783017 AGATTTACGTGTAAGACCATGTCTGGGACATAGGCATCGTATATG
1 -GA--TACGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTG
** * *
36783062 TTTTCGTGTAAGACC-CTGTCCGGGACAG-TGGCATCGTTATTTG
1 GATACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTG
*
36783105 GATACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATACGTGTAAGACCACGTCTGGGACGTTGGCAT
36783139 TGTACGAGTT
Statistics
Matches: 94, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
42 28 0.30
43 32 0.34
44 29 0.31
45 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
GATACGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTG
Found at i:36786439 original size:32 final size:33
Alignment explanation
Indices: 36786403--36786476 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
36786393 TCATAAACTT
36786403 ATAAATTGATT-ACTTGAATTT-AGTAACTCA-TG
1 ATAAATTGATTCA-TTGAATTTGA-TAACTCATTG
* *
36786435 ATAAATTAATTCATTTAATTTGATAACTCATTG
1 ATAAATTGATTCATTGAATTTGATAACTCATTG
*
36786468 ATTAATTGA
1 ATAAATTGA
36786477 ACTTGTTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (33 bp):
ATAAATTGATTCATTGAATTTGATAACTCATTG
Found at i:36807990 original size:25 final size:25
Alignment explanation
Indices: 36807961--36808011 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
36807951 TGTTTGGGTG
36807961 ATCTGAAGAGGGGGAACAAGAAGCT
1 ATCTGAAGAGGGGGAACAAGAAGCT
36807986 ATCTGAAGAGGGGGAACAAGAAGCT
1 ATCTGAAGAGGGGGAACAAGAAGCT
36808011 A
1 A
36808012 ACTAACCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.35, T:0.12
Consensus pattern (25 bp):
ATCTGAAGAGGGGGAACAAGAAGCT
Found at i:36816387 original size:12 final size:12
Alignment explanation
Indices: 36816357--36816389 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
36816347 TATATATTTT
36816357 AAAATT-ATATA
1 AAAATTAATATA
36816368 AAAA-TAATATA
1 AAAATTAATATA
36816379 AAAATTAATAT
1 AAAATTAATAT
36816390 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:36817314 original size:21 final size:21
Alignment explanation
Indices: 36817276--36817315 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36817266 TATTTATGGT
*
36817276 GTTAGGGTTTTTTATTTTAGG
1 GTTAGGGTTTTATATTTTAGG
* *
36817297 GTTAGTGTTTTATGTTTTA
1 GTTAGGGTTTTATATTTTA
36817316 TGTTTTGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (21 bp):
GTTAGGGTTTTATATTTTAGG
Found at i:36820720 original size:3 final size:3
Alignment explanation
Indices: 36820707--36820767 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
36820697 TTAAATTGAT
* * * * ** * *
36820707 ATA AAA ATA ATA ATA ATA CTA CTA CTA ATA ATA ATA GCA GTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36820755 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
36820768 GAGTATTAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:36820737 original size:18 final size:18
Alignment explanation
Indices: 36820714--36820760 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
36820704 GATATAAAAA
36820714 TAATAATAATA-CTACTAC
1 TAATAATAATAGC-ACTAC
* *
36820732 TAATAATAATAGCAGTAG
1 TAATAATAATAGCACTAC
36820750 TAATAATAATA
1 TAATAATAATA
36820761 ATAATAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (18 bp):
TAATAATAATAGCACTAC
Found at i:36820772 original size:21 final size:21
Alignment explanation
Indices: 36820707--36820772 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
36820697 TTAAATTGAT
* * *
36820707 ATAAAAATAATAATAATACTA
1 ATAATAATAATAATAAGAGTA
* *
36820728 CTACTAATAATAATAGCAGTAGTA
1 ATAATAATAATAATA--AG-AGTA
36820752 ATAATAATAATAATAAGAGTA
1 ATAATAATAATAATAAGAGTA
36820773 TTAAACTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 16 0.46
22 2 0.06
23 1 0.03
24 16 0.46
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (21 bp):
ATAATAATAATAATAAGAGTA
Found at i:36824328 original size:43 final size:42
Alignment explanation
Indices: 36824244--36824347 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 42
36824234 ATCGTCCTAG
*
36824244 ACGTGGTCTTACA-TATAATCACATATCGATGCCACTATCCCAA
1 ACGTGGTCTTACACTA-AA-CACAAATCGATGCCACTATCCCAA
* *
36824287 ACAG-GGTCTTACACGTAAACACAAATCGATGCCAAC-GTCCCAG
1 AC-GTGGTCTTACAC-TAAACACAAATCGATGCC-ACTATCCCAA
36824330 ACGTGGTCTTACACTAAA
1 ACGTGGTCTTACACTAAA
36824348 AACACATATC
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
42 5 0.09
43 41 0.77
44 5 0.09
45 2 0.04
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (42 bp):
ACGTGGTCTTACACTAAACACAAATCGATGCCACTATCCCAA
Found at i:36826125 original size:41 final size:41
Alignment explanation
Indices: 36826076--36826156 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
36826066 GCATGTAGTC
36826076 ACCACTATTAAAGATTCTTTAAAATTCTTTGGTATGTAATT
1 ACCACTATTAAAGATTCTTTAAAATTCTTTGGTATGTAATT
* *
36826117 ACCACTATTAAATATTCTTTGAAATTCTTTGGTATGTAAT
1 ACCACTATTAAAGATTCTTTAAAATTCTTTGGTATGTAAT
36826157 GTACGAGCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (41 bp):
ACCACTATTAAAGATTCTTTAAAATTCTTTGGTATGTAATT
Found at i:36828088 original size:26 final size:26
Alignment explanation
Indices: 36828043--36828093 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
36828033 TAAATGGATA
** *
36828043 AATTTGAAATAATGACACATAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
36828069 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
36828094 AATATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:36828518 original size:62 final size:63
Alignment explanation
Indices: 36828451--36828568 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 63
36828441 TAGGCTTTAA
* *
36828451 AGTTTAGATTAATTAGTGTGTTTT-AATTT-TTTATGAAATAAGGTTTAGGGGTTAGGGATTTG
1 AGTTTAGATTAATTAATGT-TTTTGAATTTATATATGAAATAAGGTTTAGGGGTTAGGGATTTG
* * *
36828513 AGTTTAGATTAATTAATGTTTTTGAATTTATATATTAGATAATGTTTAGGGGTTAG
1 AGTTTAGATTAATTAATGTTTTTGAATTTATATATGAAATAAGGTTTAGGGGTTAG
36828569 TAGTTAGGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
61 4 0.08
62 23 0.47
63 22 0.45
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (63 bp):
AGTTTAGATTAATTAATGTTTTTGAATTTATATATGAAATAAGGTTTAGGGGTTAGGGATTTG
Found at i:36833418 original size:43 final size:43
Alignment explanation
Indices: 36833307--36833496 Score: 194
Period size: 43 Copynumber: 4.5 Consensus size: 43
36833297 AATATTTTTT
* * * *
36833307 TAAAGGTTATG-T-TTTAGTGGCGTTTTTG-CTAGAAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTA-AAGCGCCGC
* * * *
36833348 TAAAGGT--TTATTCTTTAGCGGCATTTGTGGCTAAAGCGCTGC
1 TAAAGGTCATGA-TCTTTAGCGGCGTTTGTGACTAAAGCGCCGC
* *
36833390 TAAAGGTCACGATCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGCGCCGC
* * *
36833433 TAAAGGTCATGTTCTTTAGCGGCGTTTGTTA-TAAAAGCGCCGT
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACT-AAAGCGCCGC
36833476 TAAAGGTCATGATCTTTAGCG
1 TAAAGGTCATGATCTTTAGCG
36833497 TCATTTTTTC
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
39 1 0.01
41 8 0.06
42 27 0.22
43 87 0.70
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGCGCCGC
Found at i:36836020 original size:18 final size:18
Alignment explanation
Indices: 36835992--36836029 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
36835982 AAAAGTGTTT
36835992 AATATATTATT-ATAAAA
1 AATATATTATTCATAAAA
36836009 AATATAATTATTCATAAAA
1 AATAT-ATTATTCATAAAA
36836028 AA
1 AA
36836030 AATGTTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATTATTCATAAAA
Found at i:36836866 original size:18 final size:17
Alignment explanation
Indices: 36836826--36836869 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
36836816 ATTTAGAAAT
36836826 TATTTTTATAATACTAA
1 TATTTTTATAATACTAA
* *
36836843 TAATTTTTATAGTAATTAA
1 T-ATTTTTATAAT-ACTAA
36836862 TATTTTTA
1 TATTTTTA
36836870 AAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.74
19 5 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTTTTATAATACTAA
Found at i:36837267 original size:19 final size:18
Alignment explanation
Indices: 36837238--36837275 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
36837228 TTTTTATGAG
36837238 TATTTTATATTTGAGATT
1 TATTTTATATTTGAGATT
*
36837256 TATTTTATTATTTGATATT
1 TATTTTA-TATTTGAGATT
36837275 T
1 T
36837276 GTAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (18 bp):
TATTTTATATTTGAGATT
Found at i:36838046 original size:15 final size:16
Alignment explanation
Indices: 36838019--36838048 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36838009 CGTGGGTGTG
36838019 ATAAAATCTAGTATTA
1 ATAAAATCTAGTATTA
36838035 ATAAAA-CTAGTATT
1 ATAAAATCTAGTATT
36838049 CGTCCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (16 bp):
ATAAAATCTAGTATTA
Found at i:36845585 original size:109 final size:109
Alignment explanation
Indices: 36845392--36845833 Score: 728
Period size: 109 Copynumber: 4.1 Consensus size: 109
36845382 TACGCATACT
*
36845392 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCAAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
* * * *
36845457 CTAATGTGCTGCGTATCGATTTTTCTCGTTCGACCAAATAACTA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
36845501 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGATAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
* *
36845566 CTAATGTGCTGAGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* * * *
36845610 AATATCCTTTTAAAAATTTCAAAACAAGACAATATTTTACGTTTTG-AAATTCGAGAAAACGTGC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCG-TTTGAAAATTCGAGAAAACGTGC
36845674 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
65 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
36845719 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
36845784 CTAATGTGCTGGGTTTCGA--TTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
36845826 AATATCCT
1 AATATCCT
36845834 CCTAAATCTT
Statistics
Matches: 311, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
107 31 0.10
108 3 0.01
109 273 0.88
110 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:36846131 original size:6 final size:6
Alignment explanation
Indices: 36846120--36846145 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36846110 TGGCGACTCC
36846120 CATTTT CATTTT CATTTT CATTTT CA
1 CATTTT CATTTT CATTTT CATTTT CA
36846146 AAATCCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (6 bp):
CATTTT
Found at i:36846778 original size:16 final size:16
Alignment explanation
Indices: 36846757--36846792 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
36846747 TTGTTGTTTT
*
36846757 ATTTTGACTGCATGGC
1 ATTTTGACTACATGGC
36846773 ATTTTGACTACATGGC
1 ATTTTGACTACATGGC
36846789 ATTT
1 ATTT
36846793 CATTAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (16 bp):
ATTTTGACTACATGGC
Found at i:36853500 original size:45 final size:43
Alignment explanation
Indices: 36853327--36853650 Score: 215
Period size: 40 Copynumber: 7.7 Consensus size: 43
36853317 GAAGTTACCC
* *
36853327 ATCTCCCTGAAGTTGCAGT-GGAGCGGATTAAAGACACAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGA-TAAAAAC-CAGATCTT
* *** *
36853371 ATCTCTCTGAAGTTGCAGTA-GAGCAGATCGCATCCAG-TCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
* ** * *
36853412 ACCTCCCT-AAGCAGTAGT-GGAGCAGA-AAAAAGCCA-ATCCT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAA-CCAGATCTT
* *
36853452 ATCTCCCTAAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGA-TAAAAAC-CAGATCTT
* ** *** *
36853497 ATCTCTCTGAAGTTTTAGTA-GAGCAGATCGCATCCAG-TCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
* ** * * * *
36853538 ACCTCCCT-AAGCAGTAGT-GGAGCAGACAAAAGCCA-ATCCT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
*
36853578 ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGA-TAAAAAC-CAGATCTT
* *
36853623 ATCTCTCTGAAGTTGTAGTA-GAGCAGAT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGAT
36853651 CGCATCTAGT
Statistics
Matches: 209, Mismatches: 54, Indels: 35
0.70 0.18 0.12
Matches are distributed among these distances:
39 1 0.00
40 55 0.26
41 34 0.16
42 20 0.10
43 12 0.06
44 45 0.22
45 42 0.20
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
Found at i:36853551 original size:126 final size:126
Alignment explanation
Indices: 36853327--36853673 Score: 624
Period size: 126 Copynumber: 2.8 Consensus size: 126
36853317 GAAGTTACCC
* *
36853327 ATCTCCCTGAAGTTGCAGT-GGAGCGGATTAAAGACACAGATCTTATCTCTCTGAAGTTGCAGTA
1 ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGTAGTA
36853391 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
66 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
* *
36853452 ATCTCCCTAAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTTTAGTA
1 ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGTAGTA
*
36853517 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGACAAAAGCCAATCCT
66 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
36853578 ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGTAGTA
1 ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGTAGTA
* *
36853643 GAGCAGATCGCATCTAGTCTTATCTCCCTAA
66 GAGCAGATCGCATCCAGTCTTACCTCCCTAA
36853674 CGACACAATG
Statistics
Matches: 212, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
125 18 0.08
126 194 0.92
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (126 bp):
ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGTAGTA
GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
Found at i:36856142 original size:109 final size:109
Alignment explanation
Indices: 36855949--36856391 Score: 739
Period size: 109 Copynumber: 4.1 Consensus size: 109
36855939 TACGCATACT
*
36855949 AATATCCTTTTTAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
*
36856014 CTAATGTGCTGGGTATCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
36856058 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGATAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
*
36856123 CTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* * *
36856167 AATATCCTTTTAAAATTTTCAAAACAAGACAATGTTTTTGCGTTTTG-AAATTCGAGAAAACGTG
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATG-TTTTGCG-TTTGAAAATTCGAGAAAACGTG
* *
36856231 CCCTAATGTGCTGGGTTTCGATTTTTTTCGTTCGACCAAGTAGCCA
64 CCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
36856277 AATATCCTTTTAATAATTTCAAAATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
36856342 CTAATGTGCTGGGTTTCGA--TTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
36856384 AATATCCT
1 AATATCCT
36856392 CCTAAATCTT
Statistics
Matches: 312, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
107 29 0.09
108 3 0.01
109 180 0.58
110 96 0.31
111 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:36856329 original size:219 final size:215
Alignment explanation
Indices: 36855949--36856391 Score: 735
Period size: 219 Copynumber: 2.0 Consensus size: 215
36855939 TACGCATACT
* *
36855949 AATATCCTTTTTAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
1 AATATCC-TTTTAAAATTTCAAAACAAGACAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
36856014 CTAATGTGCTGGGTATCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
65 CTAATGTGCTGGGTATCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
* * *
36856079 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGATAACGTGCCCTAATGTGCTGGGTTTCGATT
130 AAATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA--
*
36856144 TTTCTCGTTTGACCAAATAGCCA
193 TTTCTCGTTCGACCAAATAGCCA
36856167 AATATCCTTTTAAAATTTTCAAAACAAGACAATGTTTTTGCGTTTTG-AAATTCGAGAAAACGTG
1 AATATCCTTTTAAAA-TTTCAAAACAAGACAATG-TTTTGCG-TTTGAAAATTCGAGAAAACGTG
* * * *
36856231 CCCTAATGTGCTGGGTTTCGATTTTTTTCGTTCGACCAAGTAGCCAAATATCCTTTTAATAATTT
63 CCCTAATGTGCTGGGTATCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTT
36856296 CAAAATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA
128 CAAAATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA
36856361 TTTCTCGTTCGACCAAATAGCCA
193 TTTCTCGTTCGACCAAATAGCCA
36856384 AATATCCT
1 AATATCCT
36856392 CCTAAATCTT
Statistics
Matches: 212, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
217 38 0.18
218 23 0.11
219 147 0.69
220 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (215 bp):
AATATCCTTTTAAAATTTCAAAACAAGACAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCC
TAATGTGCTGGGTATCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
AATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
CTCGTTCGACCAAATAGCCA
Found at i:36862780 original size:17 final size:17
Alignment explanation
Indices: 36862736--36862781 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
36862726 GAAATACATG
*
36862736 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
36862751 GAAAT-ATTGATATAAT
1 GAAATGAATGATATAAT
36862767 GAAATGAATGATATA
1 GAAATGAATGATATA
36862782 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:36867653 original size:17 final size:17
Alignment explanation
Indices: 36867631--36867664 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36867621 CAGATTATCA
36867631 GAAGCTTGATTGG-GTTG
1 GAAGCTTG-TTGGAGTTG
36867648 GAAGCTTGTTGGAGTTG
1 GAAGCTTGTTGGAGTTG
36867665 TATCATACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.06, G:0.41, T:0.35
Consensus pattern (17 bp):
GAAGCTTGTTGGAGTTG
Found at i:36876195 original size:24 final size:23
Alignment explanation
Indices: 36876168--36876214 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
36876158 AGTTTAGTTG
36876168 TCGAC-TTAAAAATGAAAATTGGGA
1 TCGACTTTAAAAAT-AAAA-TGGGA
*
36876192 TCGACTTTGAAAATAAAATGGGA
1 TCGACTTTAAAAATAAAATGGGA
36876215 GTCTCCACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (23 bp):
TCGACTTTAAAAATAAAATGGGA
Found at i:36882828 original size:24 final size:24
Alignment explanation
Indices: 36882762--36882821 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
36882752 GTCGTGATCA
* *
36882762 TCATCTTCATCTTCACCTCGACTC
1 TCATCTTCATCTTCATCTCGACCC
* *
36882786 TCGTATTCATCTTCATCTCGACCC
1 TCATCTTCATCTTCATCTCGACCC
36882810 TCATCTTCATCT
1 TCATCTTCATCT
36882822 CTATCTCCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.17, C:0.38, G:0.05, T:0.40
Consensus pattern (24 bp):
TCATCTTCATCTTCATCTCGACCC
Found at i:36901537 original size:25 final size:25
Alignment explanation
Indices: 36901473--36901539 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
36901463 CCCACCACAG
*
36901473 CTCGTATGAGCTTACTGATTTACAA
1 CTCGTATGAGCTTACCGATTTACAA
*
36901498 CTCGTGA-GAGTTTACCGATTCT-CAA
1 CTCGT-ATGAGCTTACCGATT-TACAA
36901523 CTCGTATGAGCTTACCG
1 CTCGTATGAGCTTACCG
36901540 TTGTTTAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 1 0.03
25 33 0.92
26 2 0.06
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGATTTACAA
Found at i:36901869 original size:20 final size:20
Alignment explanation
Indices: 36901844--36901886 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
36901834 TTTTAGAATG
36901844 CTTAGAAAGCCTAAAAAATA
1 CTTAGAAAGCCTAAAAAATA
36901864 CTTAGAAAGCCTAAAAAATA
1 CTTAGAAAGCCTAAAAAATA
36901884 CTT
1 CTT
36901887 TTTTCCGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.23
Consensus pattern (20 bp):
CTTAGAAAGCCTAAAAAATA
Found at i:36906041 original size:16 final size:17
Alignment explanation
Indices: 36906020--36906066 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
36906010 TTCAAAATTG
36906020 TTTTAAA-ATTTTTAAT
1 TTTTAAACATTTTTAAT
*
36906036 TTTTAAAGA-TTTT-A-
1 TTTTAAACATTTTTAAT
36906050 TTTTAAACATTTTTAAT
1 TTTTAAACATTTTTAAT
36906067 ACATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 12 0.46
17 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTAAACATTTTTAAT
Found at i:36916407 original size:28 final size:28
Alignment explanation
Indices: 36916350--36916407 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
36916340 TACAAACGAA
* *
36916350 AATAATAATTTATTACATTTTAAACTAT
1 AATAATAATTTATAACATTTTAAACAAT
36916378 AATAATAAATTTA-AACATTATTAAA-AAT
1 AATAAT-AATTTATAACATT-TTAAACAAT
36916406 AA
1 AA
36916408 ATATTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (28 bp):
AATAATAATTTATAACATTTTAAACAAT
Done.