Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 115 of 161
Found at i:36504174 original size:15 final size:15
Alignment explanation
Indices: 36504154--36504186 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
36504144 AACGTTACAT
36504154 AATTAT-TTTCATGAA
1 AATTATATTTCAT-AA
36504169 AATTATATTTCATAA
1 AATTATATTTCATAA
36504184 AAT
1 AAT
36504187 AACTATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
AATTATATTTCATAA
Found at i:36505877 original size:152 final size:154
Alignment explanation
Indices: 36505662--36505966 Score: 515
Period size: 152 Copynumber: 2.0 Consensus size: 154
36505652 TAAACTTTAA
* * *
36505662 GATATTTTTTAGTATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAACAAGAGAATTTAGT
1 GATATTTTTCAATATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAAAAAGAGAATTTAGT
*
36505727 TTCACTAAAACTACTTCTTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGA
66 TTCACTAAAACTACTTATTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGA
36505792 TATAATTAGCTAGTCTATATAAAG
131 TATAATTAGCTAGTCTATATAAAG
* *
36505816 GATATTTTTCAATATTTTGAATTG-TTAGAAG-TTTATGTTTCTTAAGCAAAAAGCGAGTTTAGT
1 GATATTTTTCAATATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAAAAAGAGAATTTAGT
* * *
36505879 TTCACTAAAACTACTTATTATTTAGATTAATTAGAGTTTTATTGTATTTAGGAGTTTTATTTTGA
66 TTCACTAAAACTACTTATTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGA
36505944 TATAATTAGCTAGTCTATATAAA
131 TATAATTAGCTAGTCTATATAAA
36505967 AACATCTTCA
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
152 113 0.80
153 7 0.05
154 22 0.15
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (154 bp):
GATATTTTTCAATATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAAAAAGAGAATTTAGT
TTCACTAAAACTACTTATTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGA
TATAATTAGCTAGTCTATATAAAG
Found at i:36507153 original size:30 final size:30
Alignment explanation
Indices: 36507119--36507180 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
36507109 TGCATAACGG
36507119 TGATGCTTGATTTTACTTGATCAATTTTCT
1 TGATGCTTGATTTTACTTGATCAATTTTCT
*
36507149 TGATGCTTGATTTTACTTGATGAATTTTCT
1 TGATGCTTGATTTTACTTGATCAATTTTCT
36507179 TG
1 TG
36507181 TTTGAGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.53
Consensus pattern (30 bp):
TGATGCTTGATTTTACTTGATCAATTTTCT
Found at i:36507169 original size:17 final size:17
Alignment explanation
Indices: 36507119--36507170 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
36507109 TGCATAACGG
36507119 TGATGCTTGATTTTACT
1 TGATGCTTGATTTTACT
*
36507136 TGAT-C--AATTTT-CT
1 TGATGCTTGATTTTACT
36507149 TGATGCTTGATTTTACT
1 TGATGCTTGATTTTACT
36507166 TGATG
1 TGATG
36507171 AATTTTCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
16 6 0.21
17 11 0.38
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.52
Consensus pattern (17 bp):
TGATGCTTGATTTTACT
Found at i:36507692 original size:23 final size:23
Alignment explanation
Indices: 36507666--36507712 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
36507656 ATTTATTGTA
* *
36507666 TATCTATAGAATTACTAAGTGTC
1 TATCTATAGAATTACCAAATGTC
*
36507689 TATCTATAGACTTACCAAATGTC
1 TATCTATAGAATTACCAAATGTC
36507712 T
1 T
36507713 TACAAGTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (23 bp):
TATCTATAGAATTACCAAATGTC
Found at i:36507780 original size:23 final size:23
Alignment explanation
Indices: 36507744--36507787 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36507734 ATGTATTTGA
*
36507744 TATTTATGGACTTACTAAGTGCC
1 TATTTATGGACTTACCAAGTGCC
36507767 TATTTATAGG-CTTACCAAGTG
1 TATTTAT-GGACTTACCAAGTG
36507788 TCTTACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (23 bp):
TATTTATGGACTTACCAAGTGCC
Found at i:36508172 original size:84 final size:84
Alignment explanation
Indices: 36508020--36508177 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 84
36508010 ATATTATTTT
* ** * * *
36508020 TTGCCTTACTTAAATGTATATTCATTTTGCTTATGTTCATTGTCAAGTATCAAATAGGGTTGGTA
1 TTGCCTTACTAAAATGTATATTCATTTTGCTTATGTTCATCATCAAGTACCAAATAGGGTCGGCA
36508085 ATTAAATATGCATTATTGC
66 ATTAAATATGCATTATTGC
*
36508104 TTGCCTTACTAAAATGTATATTCATTTTGCTTCTGTTCATCAT-AGAGTACCAAA-AGAGGTCGG
1 TTGCCTTACTAAAATGTATATTCATTTTGCTTATGTTCATCATCA-AGTACCAAATAG-GGTCGG
36508167 CAATTAAATAT
64 CAATTAAATAT
36508178 TAGGACACCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
83 3 0.05
84 62 0.95
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (84 bp):
TTGCCTTACTAAAATGTATATTCATTTTGCTTATGTTCATCATCAAGTACCAAATAGGGTCGGCA
ATTAAATATGCATTATTGC
Found at i:36509720 original size:58 final size:55
Alignment explanation
Indices: 36509652--36509778 Score: 130
Period size: 58 Copynumber: 2.3 Consensus size: 55
36509642 AAATGAGAAA
* * **
36509652 CATTCAGAAATGATTATGATTTTCTACAGTATGAAAATGAAAATGGAGAAAATGGAA-T
1 CATTTAGAAATGAATATGATTTTCT-CAAAATGAAAATGAAAAT-GAG-AAAT-GAATT
* * * * *
36509710 CATTTGGAAATAAATGTGGTTTTCTCAAAATGGAAATGAAAATGAGAAATGAATT
1 CATTTAGAAATGAATATGATTTTCTCAAAATGAAAATGAAAATGAGAAATGAATT
36509765 CATTTAGAAATGAA
1 CATTTAGAAATGAA
36509779 CAAGGAATTC
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
54 3 0.05
55 17 0.30
56 3 0.05
57 15 0.26
58 19 0.33
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (55 bp):
CATTTAGAAATGAATATGATTTTCTCAAAATGAAAATGAAAATGAGAAATGAATT
Found at i:36517199 original size:24 final size:25
Alignment explanation
Indices: 36517137--36517199 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
36517127 TCAAAATAAA
**
36517137 TATTAGATTAAATTTAATATTAAATC
1 TATTAGA-TAAATAAAATATTAAATC
* * *
36517163 TATTACATTAATAAAATATT-TATC
1 TATTAGATAAATAAAATATTAAATC
36517187 TATTAGATAAATA
1 TATTAGATAAATA
36517200 TTAAATTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 14 0.47
25 10 0.33
26 6 0.20
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (25 bp):
TATTAGATAAATAAAATATTAAATC
Found at i:36533968 original size:20 final size:20
Alignment explanation
Indices: 36533945--36534010 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
36533935 TACTTTGGTA
36533945 CCCCTGAATGCACATACATG
1 CCCCTGAATGCACATACATG
* * * *
36533965 CCCCTG-TTGTAC-TTCAGTA
1 CCCCTGAATGCACATACA-TG
* *
36533984 CCCCTAAATGCACATATATG
1 CCCCTGAATGCACATACATG
36534004 CCCCTGA
1 CCCCTGA
36534011 TTGTACTTCG
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
18 3 0.09
19 10 0.31
20 17 0.53
21 2 0.06
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCACATACATG
Found at i:36533986 original size:39 final size:40
Alignment explanation
Indices: 36533869--36534024 Score: 210
Period size: 40 Copynumber: 3.9 Consensus size: 40
36533859 AATTACTGTA
*
36533869 TGAATGCACATACGTGCCCCT-ATTTGTACTTCGGTACCCC
1 TGAATGCACATACATGCCCCTGA-TTGTACTTCGGTACCCC
* * *
36533909 TGAATGCACATA-AGAGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACA-TGCCCCTGATTGTACTTCGGTACCCC
*
36533949 TGAATGCACATACATGCCCCTG-TTGTACTTCAGTACCCC
1 TGAATGCACATACATGCCCCTGATTGTACTTCGGTACCCC
* *
36533988 TAAATGCACATATATGCCCCTGATTGTACTTCGGTAC
1 TGAATGCACATACATGCCCCTGATTGTACTTCGGTAC
36534025 TTCTGAAAGC
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 35 0.34
40 66 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACATGCCCCTGATTGTACTTCGGTACCCC
Found at i:36534031 original size:79 final size:80
Alignment explanation
Indices: 36533869--36534024 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 80
36533859 AATTACTGTA
* * * * *
36533869 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGCACATAAGAGCCCCTGTTT
1 TGAATGCACATACATGCCCCTAGTTGTACTTCAGTACCCCTAAATGCACATAAGAGCCCCTGATT
*
36533934 GTACTTTGGTACCCC
66 GTACTTCGGTACCCC
*
36533949 TGAATGCACATACATGCCCCT-GTTGTACTTCAGTACCCCTAAATGCACATATA-TGCCCCTGAT
1 TGAATGCACATACATGCCCCTAGTTGTACTTCAGTACCCCTAAATGCACATA-AGAGCCCCTGAT
36534012 TGTACTTCGGTAC
65 TGTACTTCGGTAC
36534025 TTCTGAAAGC
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
79 47 0.69
80 21 0.31
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (80 bp):
TGAATGCACATACATGCCCCTAGTTGTACTTCAGTACCCCTAAATGCACATAAGAGCCCCTGATT
GTACTTCGGTACCCC
Found at i:36534041 original size:40 final size:40
Alignment explanation
Indices: 36533869--36534042 Score: 176
Period size: 40 Copynumber: 4.4 Consensus size: 40
36533859 AATTACTGTA
* **
36533869 TGAATGCACATACGTGCCCCT-ATTTGTACTTCGGTACCCC
1 TGAAAGCACATATATGCCCCTGA-TTGTACTTCGGTACCCC
* * * *
36533909 TGAATGCACATA-AGAGCCCCTGTTTGTACTTTGGTACCCC
1 TGAAAGCACATATA-TGCCCCTGATTGTACTTCGGTACCCC
* * *
36533949 TGAATGCACATACATGCCCCTG-TTGTACTTCAGTACCCC
1 TGAAAGCACATATATGCCCCTGATTGTACTTCGGTACCCC
**
36533988 T-AAATGCACATATATGCCCCTGATTGTACTTCGGTACTTC
1 TGAAA-GCACATATATGCCCCTGATTGTACTTCGGTACCCC
*
36534028 TGAAAGCATATATAT
1 TGAAAGCACATATAT
36534043 ACATGCTCCT
Statistics
Matches: 115, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.28
40 77 0.67
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (40 bp):
TGAAAGCACATATATGCCCCTGATTGTACTTCGGTACCCC
Found at i:36538634 original size:17 final size:17
Alignment explanation
Indices: 36538612--36538652 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
36538602 AGATTATCGA
*
36538612 AAGCTCAATTGATTTGG
1 AAGCTCAATCGATTTGG
*
36538629 AAGCTCGATCGATTTGG
1 AAGCTCAATCGATTTGG
36538646 AAGCTCA
1 AAGCTCA
36538653 TCAGAGATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGCTCAATCGATTTGG
Found at i:36540411 original size:13 final size:13
Alignment explanation
Indices: 36540393--36540417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36540383 AATAGAGAAC
36540393 ATATATGAAATTA
1 ATATATGAAATTA
36540406 ATATATGAAATT
1 ATATATGAAATT
36540418 GATTCACACA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
ATATATGAAATTA
Found at i:36544681 original size:19 final size:19
Alignment explanation
Indices: 36544657--36544696 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
36544647 TTCATGAAGT
36544657 TATAATGGTTACAATAAGA
1 TATAATGGTTACAATAAGA
*
36544676 TATAATGGTTACAGTAAGA
1 TATAATGGTTACAATAAGA
36544695 TA
1 TA
36544697 AAATAGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (19 bp):
TATAATGGTTACAATAAGA
Found at i:36545150 original size:7 final size:6
Alignment explanation
Indices: 36545119--36545151 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
36545109 CAGTTTTCTC
36545119 AAAATG AAAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG A-AAATG AA
36545152 TTCATTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:36547950 original size:11 final size:11
Alignment explanation
Indices: 36547934--36547958 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36547924 TATGTATTTA
36547934 TATGATTCGTT
1 TATGATTCGTT
36547945 TATGATTCGTT
1 TATGATTCGTT
36547956 TAT
1 TAT
36547959 TTTATTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (11 bp):
TATGATTCGTT
Found at i:36552438 original size:51 final size:51
Alignment explanation
Indices: 36552352--36552643 Score: 299
Period size: 51 Copynumber: 5.7 Consensus size: 51
36552342 TGTCGATGAA
*
36552352 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGT
* * * * * * ***
36552403 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTA-CCA-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATA-AATAATT-GT
* * *
36552454 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGT
* ** * * *
36552505 CACATGTGTAGTACTAAATGAAGGCTACTATGTGTATTGA-AAAGT-TTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GT
* *
36552556 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAA-TTG-T
36552607 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
36552644 TGAATGATAA
Statistics
Matches: 192, Mismatches: 39, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
49 1 0.01
50 11 0.06
51 174 0.91
52 5 0.03
53 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGT
Found at i:36552540 original size:26 final size:26
Alignment explanation
Indices: 36552458--36552540 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
36552448 TTTGGTCACG
**
36552458 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAATGAAGGCTACTA
* * *
36552484 CGTG-AAT-CGATAAATGATGG-TCAC-A
1 TGTGTAGTAC--TAAATGAAGGCT-ACTA
36552509 TGTGTAGTACTAAATGAAGGCTACTA
1 TGTGTAGTACTAAATGAAGGCTACTA
36552535 TGTGTA
1 TGTGTA
36552541 TTGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (26 bp):
TGTGTAGTACTAAATGAAGGCTACTA
Found at i:36552611 original size:153 final size:153
Alignment explanation
Indices: 36552356--36552640 Score: 380
Period size: 153 Copynumber: 1.9 Consensus size: 153
36552346 GATGAACACG
***
36552356 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
1 TGTGTAGTACTAAATGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
* * * *
36552421 TGAAGGCTACAATGTGTACCAAGAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACG
66 TGAAGGCTACAACGTGAACCAAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
36552486 TGAATCGATAAATGATGGTCACA
131 TGAATCGATAAATGATGGTCACA
* * * * *
36552509 TGTGTAGTACTAAATGAAGGCTACTATGTGTATTGA-AAAGT-TTTGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAATGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGTCTAGTACTA
* *
36552572 TGTGAAGGCTACTACGTGAACCGTAA-AAAC-TTGATCACGTGTGTAGTACTATGTGAAGGCTAC
64 AGTGAAGGCTACAACGTGAACC--AAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTAC
36552635 TACGTG
127 TACGTG
36552641 TATTGAATGA
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
152 5 0.04
153 104 0.91
154 3 0.03
155 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (153 bp):
TGTGTAGTACTAAATGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
TGAAGGCTACAACGTGAACCAAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
TGAATCGATAAATGATGGTCACA
Found at i:36552644 original size:102 final size:101
Alignment explanation
Indices: 36552352--36552647 Score: 398
Period size: 102 Copynumber: 2.9 Consensus size: 101
36552342 TGTCGATGAA
* * *
36552352 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-AATTGTCACATGTGTAGTAC
* **
36552417 TAAGTGAAGGCTACAATGTGTA-CCAAGAAGCTTTGGT
64 TAAGTGAAGGCTACTATGTGTATTGAAGAAGCTTTGGT
* *
36552454 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-AATTGTCACATGTGTAGTAC
* *
36552519 TAAATGAAGGCTACTATGTGTATTGAA-AAGTTTTGGT
64 TAAGTGAAGGCTACTATGTGTATTGAAGAAGCTTTGGT
* *
36552556 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAAA-TTG-TCACATGTGTAGTAC
* *
36552621 TATGTGAAGGCTACTACGTGTATTGAA
64 TAAGTGAAGGCTACTATGTGTATTGAA
36552648 TGATAAAAGT
Statistics
Matches: 174, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.01
101 6 0.03
102 165 0.95
103 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAAATTGTCACATGTGTAGTACTA
AGTGAAGGCTACTATGTGTATTGAAGAAGCTTTGGT
Found at i:36552663 original size:153 final size:153
Alignment explanation
Indices: 36552356--36552672 Score: 356
Period size: 153 Copynumber: 2.1 Consensus size: 153
36552346 GATGAACACG
***
36552356 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
1 TGTGTAGTACTAAATGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
* * * *
36552421 TGAAGGCTACAATGTGTACCAAGAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACG
66 TGAAGGCTACAACGTGAACCAAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
* ** *
36552486 TGAATCGATAAATGATGGTCACA
131 TGAATCGATAAATAAAAGTAACA
* * * * *
36552509 TGTGTAGTACTAAATGAAGGCTACTATGTGTATTGA-AAAGT-TTTGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAATGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGTCTAGTACTA
* *
36552572 TGTGAAGGCTACTACGTGAACCGTAA-AAAC-TTGATCACGTGTGTAGTACTATGTGAAGGCTAC
64 AGTGAAGGCTACAACGTGAACC--AAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTAC
* * *
36552635 TACGTGTATTGA-ATGATAAAAGTAACA
127 TACGTGAATCGATA-AATAAAAGTAACA
*
36552662 TGGGTAGTACT
1 TGTGTAGTACT
36552673 GTGTGAAAAA
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
152 6 0.04
153 126 0.92
154 3 0.02
155 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (153 bp):
TGTGTAGTACTAAATGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAAG
TGAAGGCTACAACGTGAACCAAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
TGAATCGATAAATAAAAGTAACA
Found at i:36555818 original size:16 final size:17
Alignment explanation
Indices: 36555797--36555829 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36555787 AAAATTCCAC
*
36555797 ATGAAAGTAAA-CAATT
1 ATGAAAGCAAAGCAATT
36555813 ATGAAAGCAAAGCAATT
1 ATGAAAGCAAAGCAATT
36555830 CAACTACCAT
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:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (17 bp):
ATGAAAGCAAAGCAATT
Found at i:36566109 original size:16 final size:16
Alignment explanation
Indices: 36566039--36566109 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
36566029 GTTTGGTTCA
*
36566039 CTCTAACGGAATAGAG
1 CTCTAATGGAATAGAG
* **
36566055 TTCTAACAGAATAGAG
1 CTCTAATGGAATAGAG
* *
36566071 CTCTAATGGAATAAAA
1 CTCTAATGGAATAGAG
36566087 CTCTAATGGAATAGAG
1 CTCTAATGGAATAGAG
*
36566103 CTATAAT
1 CTCTAAT
36566110 CAGTAATTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (16 bp):
CTCTAATGGAATAGAG
Found at i:36566317 original size:14 final size:14
Alignment explanation
Indices: 36566281--36566321 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
36566271 TTTATTAAAT
*
36566281 TTTAAT-AAAATTA
1 TTTAATAAAAATAA
*
36566294 -TTATTAAAAATAA
1 TTTAATAAAAATAA
36566307 TTTAATAAAAATAA
1 TTTAATAAAAATAA
36566321 T
1 T
36566322 AAATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:36569509 original size:49 final size:49
Alignment explanation
Indices: 36569443--36569927 Score: 888
Period size: 49 Copynumber: 10.0 Consensus size: 49
36569433 ATGATAGTAA
36569443 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
36569492 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
36569541 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
36569590 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
36569639 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
36569688 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
36569737 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
36569786 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
36569835 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * * *
36569882 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
36569928 AGTCCCGAAG
Statistics
Matches: 427, Mismatches: 7, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
47 48 0.11
48 1 0.00
49 378 0.89
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:36570102 original size:37 final size:37
Alignment explanation
Indices: 36570046--36570124 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36570036 CCGAGCTCTA
* * *
36570046 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
36570083 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
36570120 AAGAC
1 AAGAC
36570125 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36572041 original size:50 final size:50
Alignment explanation
Indices: 36571931--36572105 Score: 185
Period size: 50 Copynumber: 3.4 Consensus size: 50
36571921 ACATTAAGAG
* *
36571931 GATGAGA--TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
**
36571982 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* *
36572035 GATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* **
36572085 TATGAGAACTCCCATGTAAGA
1 GATGAGAGGTCCCATGTAAGA
36572106 GGTGTTGGCA
Statistics
Matches: 106, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
49 1 0.01
50 59 0.56
51 2 0.02
53 3 0.03
54 6 0.06
55 1 0.01
56 34 0.32
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:36572163 original size:85 final size:85
Alignment explanation
Indices: 36572021--36572190 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
36572011 TCTGGGACAT
36572021 GGTGTTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 GGTGTTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
36572086 ATGAGAACTCCCATGTAAGA
66 ATGAGAACTCCCATGTAAGA
36572106 GGTGTTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 GGTGTTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
36572171 ATGAGAACTCCCATGTAAGA
66 ATGAGAACTCCCATGTAAGA
36572191 CCATATCTGG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (85 bp):
GGTGTTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
ATGAGAACTCCCATGTAAGA
Found at i:36574055 original size:76 final size:76
Alignment explanation
Indices: 36573929--36574081 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
36573919 TCATGATTTT
36573929 TAATAACACACTATAAAAGAAAAATGAACAATACATAAGAATTTTTACAAAGCACAAAGTAGAAA
1 TAATAACACACTATAAAAGAAAAATGAACAATACATAAGAATTTTTACAAAGCACAAAGTAGAAA
36573994 TTACAACTATC
66 TTACAACTATC
* *
36574005 TAATAACACACTATACAAGACAAATGAACAATACATAAGAATTTTTACAAAGCACAAAGTAGAAA
1 TAATAACACACTATAAAAGAAAAATGAACAATACATAAGAATTTTTACAAAGCACAAAGTAGAAA
36574070 TTACAACTATC
66 TTACAACTATC
36574081 T
1 T
36574082 TTGCAAGTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.23
Consensus pattern (76 bp):
TAATAACACACTATAAAAGAAAAATGAACAATACATAAGAATTTTTACAAAGCACAAAGTAGAAA
TTACAACTATC
Found at i:36577364 original size:21 final size:21
Alignment explanation
Indices: 36577340--36577380 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36577330 ATGTTGAGGA
* *
36577340 AGAAATCTGCTGAAGTGAAAG
1 AGAAATCTACTAAAGTGAAAG
*
36577361 AGAATTCTACTAAAGTGAAA
1 AGAAATCTACTAAAGTGAAA
36577381 AAGTTGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (21 bp):
AGAAATCTACTAAAGTGAAAG
Found at i:36577458 original size:14 final size:14
Alignment explanation
Indices: 36577427--36577457 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
36577417 ACCCGGGCCC
36577427 AAAACCAAATAAAT
1 AAAACCAAATAAAT
36577441 AAAACC-AATAAAT
1 AAAACCAAATAAAT
36577454 AAAA
1 AAAA
36577458 AAAAGTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACCAAATAAAT
Found at i:36585175 original size:18 final size:18
Alignment explanation
Indices: 36585142--36585194 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
36585132 ATTCACCTAA
*
36585142 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
36585161 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
36585179 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
36585195 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:36585312 original size:9 final size:9
Alignment explanation
Indices: 36585298--36585364 Score: 107
Period size: 9 Copynumber: 7.4 Consensus size: 9
36585288 GTAGCGATTC
36585298 AATTCGGTT
1 AATTCGGTT
36585307 AATTCGGTT
1 AATTCGGTT
36585316 AATTCGGTT
1 AATTCGGTT
*
36585325 AATTCGGGT
1 AATTCGGTT
*
36585334 AATCCGGTT
1 AATTCGGTT
36585343 AATTCGGTT
1 AATTCGGTT
*
36585352 AATTCTGTT
1 AATTCGGTT
36585361 AATT
1 AATT
36585365 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:36586623 original size:17 final size:17
Alignment explanation
Indices: 36586597--36586636 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
36586587 TTTTTTAAAA
* *
36586597 AAATTATTTTAATTTTT
1 AAATTTTTTTAATATTT
*
36586614 TAATTTTTTTAATATTT
1 AAATTTTTTTAATATTT
36586631 AAATTT
1 AAATTT
36586637 ACATTATCTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
AAATTTTTTTAATATTT
Found at i:36593172 original size:18 final size:18
Alignment explanation
Indices: 36593148--36593195 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
36593138 TGTCATTCGT
36593148 TTTCAAAACATTATTC-A
1 TTTCAAAACATTATTCAA
* *
36593165 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTCAA
36593184 TTTCAAAACATT
1 TTTCAAAACATT
36593196 TTTTATTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTCAAAACATTATTCAA
Found at i:36598889 original size:49 final size:49
Alignment explanation
Indices: 36598822--36598918 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
36598812 ACGTTTTATC
*
36598822 GGTATTAACAGTTCTATGCATCAGTTTACAGTTTCAGTGTTTATTAACA
1 GGTATTAAAAGTTCTATGCATCAGTTTACAGTTTCAGTGTTTATTAACA
*
36598871 GGTATTAAAAGTTTTATGCATCAGTTTACAGTTTCAGTGTTTATTAAC
1 GGTATTAAAAGTTCTATGCATCAGTTTACAGTTTCAGTGTTTATTAAC
36598919 CAATATTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.42
Consensus pattern (49 bp):
GGTATTAAAAGTTCTATGCATCAGTTTACAGTTTCAGTGTTTATTAACA
Found at i:36607461 original size:31 final size:31
Alignment explanation
Indices: 36607426--36607490 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
36607416 AACAAGCTAT
*
36607426 TGACTTAAATAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAAACTTTCGAATAGTTCAA
36607457 TGACTTAAATAAAAACTTTCGAATAGTTCAA
1 TGACTTAAATAAAAACTTTCGAATAGTTCAA
36607488 TGA
1 TGA
36607491 TCAAATTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAGTTCAA
Found at i:36607684 original size:14 final size:14
Alignment explanation
Indices: 36607630--36607684 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
36607620 TAGCTTATAA
36607630 AAAATATAAAAATT
1 AAAATATAAAAATT
*
36607644 AAATTATATTAGAAATT
1 AAA--ATA-TAAAAATT
*
36607661 AAAGTATAAAAATT
1 AAAATATAAAAATT
*
36607675 AAAATTTAAA
1 AAAATATAAA
36607685 CTTAAACATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 18 0.55
15 2 0.06
16 3 0.09
17 10 0.30
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:36608898 original size:26 final size:26
Alignment explanation
Indices: 36608845--36608911 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
36608835 TTTAAAGCCT
36608845 TTTTATAGTATTTTA-ATTACGATAA
1 TTTTATAGTATTTTATATTACGATAA
*
36608870 TTTTATAGTATTTTATGA-TAC-CTATA
1 TTTTATAGTATTTTAT-ATTACGATA-A
36608896 TTTTATAGTATTTTAT
1 TTTTATAGTATTTTAT
36608912 TATAACATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
25 17 0.45
26 20 0.53
27 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (26 bp):
TTTTATAGTATTTTATATTACGATAA
Found at i:36609473 original size:74 final size:74
Alignment explanation
Indices: 36609339--36609483 Score: 175
Period size: 74 Copynumber: 2.0 Consensus size: 74
36609329 TATTTATAAA
* * * *
36609339 ATTTATCATATGTATAAATCAAAATTTTAATTTTAATAAAATAATTTGATGAAATTAATTTATTT
1 ATTTATCATATGTATAAATCAAAATTTTAATTCTAATAAAAGAATTTGATGAAATGAATTTATAT
36609404 GATAAAAAT
66 GATAAAAAT
* * * ** * *
36609413 ATTTATCATATTTATAAAT-AAGAATTTTGATTCTATTAAAAGGTTTTTATTAAATGAATTTATA
1 ATTTATCATATGTATAAATCAA-AATTTTAATTCTAATAAAAGAATTTGATGAAATGAATTTATA
36609477 TGATAAA
65 TGATAAA
36609484 TAAGAAGTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 2 0.03
74 57 0.97
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (74 bp):
ATTTATCATATGTATAAATCAAAATTTTAATTCTAATAAAAGAATTTGATGAAATGAATTTATAT
GATAAAAAT
Found at i:36611970 original size:37 final size:38
Alignment explanation
Indices: 36611924--36612008 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 38
36611914 GATTAACTTC
* *
36611924 AAATAAATTTCCTAT-TATACAAGTACTTAAAGTTTTA
1 AAATCAATTTCCTATACATACAAGTACTTAAAGTTTTA
** *
36611961 AAATCAATTTGTTGTACATACAAGTACTTAAAGTTTTA
1 AAATCAATTTCCTATACATACAAGTACTTAAAGTTTTA
*
36611999 CAATCAATTT
1 AAATCAATTT
36612009 GTTGTACCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 11 0.27
38 30 0.73
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (38 bp):
AAATCAATTTCCTATACATACAAGTACTTAAAGTTTTA
Found at i:36611982 original size:38 final size:38
Alignment explanation
Indices: 36611940--36612015 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
36611930 ATTTCCTATT
36611940 ATACAAGTACTTAAAGTTTTAAAATCAATTTGTTGTAC
1 ATACAAGTACTTAAAGTTTTAAAATCAATTTGTTGTAC
*
36611978 ATACAAGTACTTAAAGTTTTACAATCAATTTGTTGTAC
1 ATACAAGTACTTAAAGTTTTAAAATCAATTTGTTGTAC
36612016 CAAGCCCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (38 bp):
ATACAAGTACTTAAAGTTTTAAAATCAATTTGTTGTAC
Found at i:36623437 original size:13 final size:14
Alignment explanation
Indices: 36623419--36623448 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
36623409 TAATTAATTA
36623419 TAATTAAG-TTAAT
1 TAATTAAGTTTAAT
36623432 TAATTAAGTTTAAT
1 TAATTAAGTTTAAT
36623446 TAA
1 TAA
36623449 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
TAATTAAGTTTAAT
Found at i:36628093 original size:31 final size:31
Alignment explanation
Indices: 36628047--36628119 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 31
36628037 TGAATTATAC
*
36628047 ATTAATTTATTCAAATTGATGATTTGTGTTTT
1 ATTAA-TTGTTCAAATTGATGATTTGTGTTTT
36628079 ATTAATTGTTCAAATTGATGATTTGTGTTTT
1 ATTAATTGTTCAAATTGATGATTTGTGTTTT
36628110 ATTAATTGTT
1 ATTAATTGTT
36628120 GAGTATATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 35 0.88
32 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (31 bp):
ATTAATTGTTCAAATTGATGATTTGTGTTTT
Found at i:36628695 original size:34 final size:33
Alignment explanation
Indices: 36628596--36628696 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 33
36628586 GGTATTAAAG
*
36628596 TGTGGTTGTTTCGCATATTACAATGATGTCCAAA
1 TGTGGTTGTTT-GCATGTTACAATGATGTCCAAA
* * *
36628630 TGTGGTTGTTTTTACATGTTATAATGTTGTCCAAA
1 TGTGGTTG--TTTGCATGTTACAATGATGTCCAAA
*
36628665 TGTGGTTGCTTTGCATGTATA-AATGCTGTCCA
1 TGTGGTTG-TTTGCATGT-TACAATGATGTCCA
36628697 TTTTGAGCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
34 26 0.46
35 28 0.49
36 3 0.05
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.43
Consensus pattern (33 bp):
TGTGGTTGTTTGCATGTTACAATGATGTCCAAA
Found at i:36630374 original size:14 final size:14
Alignment explanation
Indices: 36630355--36630397 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
36630345 GTTAATAAAA
36630355 TTCTCTTTGAGTTT
1 TTCTCTTTGAGTTT
** **
36630369 TTCTCTTCAAGAAT
1 TTCTCTTTGAGTTT
36630383 TTCTCTTTGAGTTT
1 TTCTCTTTGAGTTT
36630397 T
1 T
36630398 CTTTTAGAAG
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.58
Consensus pattern (14 bp):
TTCTCTTTGAGTTT
Found at i:36636000 original size:15 final size:15
Alignment explanation
Indices: 36635980--36636010 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36635970 CCAACCTTCA
36635980 AATTTTACCTCAATT
1 AATTTTACCTCAATT
36635995 AATTTTACCTCAATT
1 AATTTTACCTCAATT
36636010 A
1 A
36636011 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:36636982 original size:93 final size:92
Alignment explanation
Indices: 36636850--36637044 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
36636840 TTGATTTTAG
* *
36636850 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
36636914 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
36636942 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
36637007 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
36637035 CAAATTCATA
1 TAAATTCATA
36637045 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:36637102 original size:17 final size:17
Alignment explanation
Indices: 36637077--36637110 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36637067 ATAATTTTAA
*
36637077 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
36637094 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
36637111 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:36637112 original size:15 final size:16
Alignment explanation
Indices: 36637077--36637115 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
36637067 ATAATTTTAA
*
36637077 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
36637094 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
36637109 ATTTAAT
1 ATTTAAT
36637116 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:36637119 original size:17 final size:18
Alignment explanation
Indices: 36637081--36637120 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
36637071 TTTTAAATTT
*
36637081 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
36637099 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
36637115 TATTAA
1 TATTAA
36637121 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:36637235 original size:15 final size:15
Alignment explanation
Indices: 36637200--36637334 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
36637190 TTAAGAATTT
*
36637200 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36637214 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36637228 TATTTAATAATAAT-
1 TATTTAATTATAATA
36637242 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
36637256 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
36637271 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
36637293 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36637307 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36637321 TATTTAATAATAAT
1 TATTTAATTATAAT
36637335 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:36637242 original size:120 final size:119
Alignment explanation
Indices: 36637076--36637294 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
36637066 AATAATTTTA
* *
36637076 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
36637139 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
36637195 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
36637259 TACAGTATCATATATTATGATTTGAGTAAATTCATA
64 TACAGTATCATATATTATGATTTGAGTAAATTCATA
36637295 TTAAATTATA
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 23 0.25
120 64 0.70
121 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:36637323 original size:16 final size:16
Alignment explanation
Indices: 36637302--36637343 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
36637292 ATATTAAATT
*
36637302 ATATATTTTAATTATA
1 ATATATTTTAATAATA
36637318 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
36637333 AT-TATGTTTAA
1 ATATAT-TTTAA
36637344 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:36637451 original size:154 final size:156
Alignment explanation
Indices: 36637293--36637590 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
36637283 AGTAAATTCA
*
36637293 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
36637358 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
36637421 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
36637447 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
36637512 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
36637577 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
36637591 GGGTATTCTA
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 60 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:36637471 original size:18 final size:17
Alignment explanation
Indices: 36637443--36637477 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36637433 ATTATTAAGA
*
36637443 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36637460 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36637478 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36637731 original size:16 final size:16
Alignment explanation
Indices: 36637710--36637748 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36637700 TTGATTTGCT
*
36637710 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
36637726 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
36637742 ATTACAC
1 ATTACAC
36637749 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:36637749 original size:16 final size:16
Alignment explanation
Indices: 36637723--36637779 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
36637713 ACACAGCTTT
* *
36637723 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
36637739 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
36637755 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
36637771 TCCAATACA
1 TCCAATACA
36637780 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:36639706 original size:17 final size:17
Alignment explanation
Indices: 36639641--36639707 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
36639631 TCAAAATTAT
36639641 TATTTTGAATTTTTTAAA
1 TATTTT-AATTTTTTAAA
* *
36639659 -ATTTAAACGTTTTTATATA
1 TATTTTAA--TTTTT-TAAA
**
36639678 TATTTTTCTTTTTTAAA
1 TATTTTAATTTTTTAAA
36639695 TATTTTAATTTTT
1 TATTTTAATTTTT
36639708 AAAAGATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 9
0.69 0.15 0.17
Matches are distributed among these distances:
16 2 0.05
17 18 0.49
18 10 0.27
19 3 0.08
20 4 0.11
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTTAATTTTTTAAA
Found at i:36639737 original size:18 final size:19
Alignment explanation
Indices: 36639714--36639753 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36639704 TTTTAAAAGA
36639714 TTTATAAA-AATTAGAATT
1 TTTATAAATAATTAGAATT
* *
36639732 TTTATAAATATTTTGAATT
1 TTTATAAATAATTAGAATT
36639751 TTT
1 TTT
36639754 GAAAATAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTATAAATAATTAGAATT
Found at i:36643302 original size:15 final size:17
Alignment explanation
Indices: 36643272--36643306 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
36643262 CCTTGTTTGC
36643272 TTTTCTTTTAGACTATT
1 TTTTCTTTTAGACTATT
36643289 TTTTC-TTTAG-CTATT
1 TTTTCTTTTAGACTATT
36643304 TTT
1 TTT
36643307 GAAATTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 5 0.28
17 5 0.28
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTCTTTTAGACTATT
Found at i:36646041 original size:5 final size:5
Alignment explanation
Indices: 36646031--36646057 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
36646021 TTTAATTGTC
36646031 AAATT AAATT AAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AA
36646058 CTCATGTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:36652656 original size:27 final size:27
Alignment explanation
Indices: 36652584--36652667 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
36652574 TGAAAAAATA
* * * * *
36652584 GAAGCCTTTTTGGAAATTTAAGAAATG
1 GAAGCATTTATGGAAATCTATGGAATG
36652611 GAAGCATTTATGGAAATCTATGGAATG
1 GAAGCATTTATGGAAATCTATGGAATG
* * ** *
36652638 GAAGTATTTGTGGCGATCTATGGAAAG
1 GAAGCATTTATGGAAATCTATGGAATG
36652665 GAA
1 GAA
36652668 CGACTTTGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (27 bp):
GAAGCATTTATGGAAATCTATGGAATG
Found at i:36652875 original size:27 final size:27
Alignment explanation
Indices: 36652853--36652906 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
36652843 ATTGAAGGAG
*
36652853 TAGTACATATGGCGAACTCTGAAAGAA
1 TAGTACATATGGCGAACACTGAAAGAA
* * *
36652880 TAGTGCGTATGGCGAACACTGAGAGAA
1 TAGTACATATGGCGAACACTGAAAGAA
36652907 ACGGTTCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (27 bp):
TAGTACATATGGCGAACACTGAAAGAA
Found at i:36655105 original size:11 final size:11
Alignment explanation
Indices: 36655060--36655104 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
36655050 CTGTTATTTC
*
36655060 TTTTATTGTTG
1 TTTTATTGTTA
36655071 TTTT-TT-TTA
1 TTTTATTGTTA
*
36655080 TTTTGTTGTTA
1 TTTTATTGTTA
36655091 TTTTATTGTT-
1 TTTTATTGTTA
36655101 TTTT
1 TTTT
36655105 TTCACTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 6 0.20
10 8 0.27
11 16 0.53
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (11 bp):
TTTTATTGTTA
Found at i:36661503 original size:6 final size:6
Alignment explanation
Indices: 36661492--36661520 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36661482 TTGGTATTGT
36661492 TGGGAA TGGGAA TGGGAA TGGGAA TGGGA
1 TGGGAA TGGGAA TGGGAA TGGGAA TGGGA
36661521 GGAGGGAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.52, T:0.17
Consensus pattern (6 bp):
TGGGAA
Found at i:36661632 original size:58 final size:59
Alignment explanation
Indices: 36661499--36661684 Score: 199
Period size: 58 Copynumber: 3.2 Consensus size: 59
36661489 TGTTGGGAAT
*
36661499 GGGA-ATGGGAATGGG-AATGGGAGGAGGGAACGGTGGAAGAGGGGAATCGATGGAAGAG
1 GGGAGATGGGAATGGGAAATGGGAGGAGGGAACGGTGGAAGAGGGAAATCGA-GGAAGAG
* * *
36661557 GGGAGATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAA-TGGGAAAT-G-GGAA-TG
1 GGGAGATGGGAATGGGAAATGGGAGGAGGGAACGGTGGAAGAGGGAAATCGAGGAAGAG
* * *
36661612 GGTATTGCATGGGAATGGGAAATGGGA-GAAGGATACGGTGGAAGAGGGGAAT-GATGGAAGAG
1 GGGA--G-ATGGGAATGGGAAATGGGAGGAGGGA-ACGGTGGAAGAGGGAAATCGA-GGAAGAG
36661674 GGGAGATGGGA
1 GGGAGATGGGA
36661685 TTTCATTGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
55 4 0.04
56 4 0.04
57 5 0.05
58 33 0.31
59 30 0.28
60 23 0.21
61 4 0.04
62 4 0.04
ACGTcount: A:0.32, C:0.03, G:0.52, T:0.13
Consensus pattern (59 bp):
GGGAGATGGGAATGGGAAATGGGAGGAGGGAACGGTGGAAGAGGGAAATCGAGGAAGAG
Found at i:36661737 original size:30 final size:30
Alignment explanation
Indices: 36661701--36661969 Score: 351
Period size: 30 Copynumber: 9.1 Consensus size: 30
36661691 TGTATTTAAA
* *
36661701 ATTTTAAAAATAAAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
36661731 ATTTTAAAAATAAAAAAATACT-TGTAGTGT
1 ATTTTAAAAATAAAAAAATA-TATGTAGTGT
*
36661761 ATTTT-AAAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
36661786 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
36661815 ATTTTAAAAATAAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT--AAAAAAATATATGTAGTGT
* *
36661847 A-TTTAAAAA-ATAAAAA-ATATGTTGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
36661874 ATTTTAAAAATAAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT--AAAAAAATATATGTAGTGT
36661906 ATTTTAAAAATAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
* *
36661937 ATTGTAAAAATAAAAAAATATATGTAGTAT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
36661967 ATT
1 ATT
36661970 CGGCGTATTC
Statistics
Matches: 215, Mismatches: 10, Indels: 28
0.85 0.04 0.11
Matches are distributed among these distances:
24 1 0.00
25 17 0.08
26 5 0.02
27 11 0.05
28 14 0.07
29 30 0.14
30 52 0.24
31 45 0.21
32 40 0.19
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:36661838 original size:32 final size:31
Alignment explanation
Indices: 36661773--36661969 Score: 291
Period size: 31 Copynumber: 6.5 Consensus size: 31
36661763 TTTAAAATAT
36661773 ATATATGTAGTGTATTTTAAAAAT--AAAAA
1 ATATATGTAGTGTATTTTAAAAATAAAAAAA
36661802 ATATATGTAGTGTATTTTAAAAATAAAAAAAA
1 ATATATGTAGTGTATTTTAAAAAT-AAAAAAA
*
36661834 ATATATGTAGTGTA-TTT-AAAA-AATAAAA
1 ATATATGTAGTGTATTTTAAAAATAAAAAAA
*
36661862 A-ATATGTTGTGTATTTTAAAAATAAAAAAAA
1 ATATATGTAGTGTATTTTAAAAAT-AAAAAAA
36661893 ATATATGTAGTGTATTTTAAAAATAAAAAAA
1 ATATATGTAGTGTATTTTAAAAATAAAAAAA
*
36661924 ATATATGTAGTGTATTGTAAAAAT-AAAAAA
1 ATATATGTAGTGTATTTTAAAAATAAAAAAA
*
36661954 ATATATGTAGTATATT
1 ATATATGTAGTGTATT
36661970 CGGCGTATTC
Statistics
Matches: 154, Mismatches: 6, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
27 11 0.07
28 10 0.06
29 28 0.18
30 25 0.16
31 40 0.26
32 40 0.26
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (31 bp):
ATATATGTAGTGTATTTTAAAAATAAAAAAA
Found at i:36661838 original size:61 final size:61
Alignment explanation
Indices: 36661773--36661969 Score: 312
Period size: 59 Copynumber: 3.3 Consensus size: 61
36661763 TTTAAAATAT
36661773 ATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
1 ATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
* *
36661834 ATATATGTAGTGTATTTAAAAAAT-AAAAA-ATATGTTGTGTATTTTAAAAATAAAAAAAA
1 ATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
*
36661893 ATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTAGTGTATTGTAAAAAT--AAAAAA
1 ATATATGTAGTGTATTTTAAAAAT--AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
*
36661954 ATATATGTAGTATATT
1 ATATATGTAGTGTATT
36661970 CGGCGTATTC
Statistics
Matches: 126, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
59 52 0.41
60 5 0.04
61 44 0.35
62 5 0.04
63 20 0.16
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (61 bp):
ATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
Found at i:36661896 original size:59 final size:60
Alignment explanation
Indices: 36661773--36661969 Score: 292
Period size: 61 Copynumber: 3.3 Consensus size: 60
36661763 TTTAAAATAT
*
36661773 ATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
1 ATATATGTAGTGTATTTAAAAAAT-AAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
*
36661834 ATATATGTAGTGTATTTAAAAAATAAAAA-ATATGTTGTGTATTTTAAAAATAAAAAAAA
1 ATATATGTAGTGTATTTAAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
* *
36661893 ATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTAGTGTATTGTAAAAAT--AAAAAA
1 ATATATGTAGTGTA-TTT-AAAA-AATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
*
36661954 ATATATGTAGTATATT
1 ATATATGTAGTGTATT
36661970 CGGCGTATTC
Statistics
Matches: 126, Mismatches: 6, Indels: 9
0.89 0.04 0.06
Matches are distributed among these distances:
59 43 0.34
60 10 0.08
61 46 0.37
62 7 0.06
63 20 0.16
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (60 bp):
ATATATGTAGTGTATTTAAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAA
Found at i:36662406 original size:21 final size:21
Alignment explanation
Indices: 36662368--36662417 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
36662358 CATTGTTTCT
* *
36662368 AATCTCACAGCTATAGTATCC
1 AATCTCACAGCTACAGTAACC
* * *
36662389 AATCTCACCGCTGCAGTAACT
1 AATCTCACAGCTACAGTAACC
36662410 AATCTCAC
1 AATCTCAC
36662418 TGCCACCGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (21 bp):
AATCTCACAGCTACAGTAACC
Found at i:36663505 original size:13 final size:13
Alignment explanation
Indices: 36663487--36663512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36663477 TGAGTTTTCT
36663487 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
36663500 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
36663513 ACAGTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:36665659 original size:3 final size:3
Alignment explanation
Indices: 36665653--36665678 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36665643 CAGTTATTCT
36665653 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
36665679 TAAGAGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:36666547 original size:67 final size:67
Alignment explanation
Indices: 36666428--36666784 Score: 376
Period size: 67 Copynumber: 5.3 Consensus size: 67
36666418 GGCTGCAATA
* * * * *
36666428 GGGTATAATGTGTAAGACTATAGCTCAGCTATGGAAACATAGAGAGTCTGCTAGGATATTAAACG
1 GGGTATGATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCTAGGACATTAAACA
36666493 TG
66 TG
* ** * * *
36666495 GGGTTTGATGTGTAAGACCATAAATCATCTATGGCAACAAAGAGAGTTTGCTAGGACATTAAACA
1 GGGTATGATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCTAGGACATTAAACA
36666560 TG
66 TG
* * * * ** *
36666562 AGGTATGATGTGCAAGACGATAGCTCGGCTATGGCAACATAGAGAGTCCACCAGGACATTAAACA
1 GGGTATGATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCTAGGACATTAAACA
*
36666627 TA
66 TG
* * * *
36666629 GGGTATGATGTGTAAGACCACAGCTC-GGTGATGACAACATAGAGAGTCCG-TCAGGACATTAAA
1 GGGTATGATGTGTAAGACCATAGCTCAGCT-ATGGCAACATAGAGAGTCTGCT-AGGACATTAAA
36666692 CATG
64 CATG
** * * * * * * *
36666696 GGGTATGATGTGTAAGACCATAGCTTGGTTATGACAATATAGAGAGTTTTCCAGGACATTAAAAA
1 GGGTATGATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCTAGGACATTAAACA
*
36666761 TA
66 TG
*
36666763 GGGTATGATGTGTAATACCATA
1 GGGTATGATGTGTAAGACCATA
36666785 TCTTGACTAT
Statistics
Matches: 241, Mismatches: 45, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
66 2 0.01
67 237 0.98
68 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (67 bp):
GGGTATGATGTGTAAGACCATAGCTCAGCTATGGCAACATAGAGAGTCTGCTAGGACATTAAACA
TG
Found at i:36666822 original size:49 final size:49
Alignment explanation
Indices: 36666750--36666843 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
36666740 AGTTTTCCAG
* * *
36666750 GACATTAAAAATAGGGTATGATGTGTAATACCATATCTTGACTATGCAT
1 GACATTAAAAATAAGGTATGATGTGTAAGACCATAGCTTGACTATGCAT
* *
36666799 GACATTAAACATAAGGTATGATGTGTAAGACCATAGCTTGGCTAT
1 GACATTAAAAATAAGGTATGATGTGTAAGACCATAGCTTGACTAT
36666844 AGAAGCATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (49 bp):
GACATTAAAAATAAGGTATGATGTGTAAGACCATAGCTTGACTATGCAT
Found at i:36666916 original size:27 final size:27
Alignment explanation
Indices: 36666856--36666916 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
36666846 AAGCATATAT
* *
36666856 GCGGGGTAGTCCGCCGGGATAATAAAC
1 GCGGGGTAGTCCGCCAGGATAATAAAA
** *
36666883 GTAGGGTAGTCCGTCAGGATAATAAAA
1 GCGGGGTAGTCCGCCAGGATAATAAAA
36666910 GCGGGGT
1 GCGGGGT
36666917 TGTCTGCCGG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.38, T:0.18
Consensus pattern (27 bp):
GCGGGGTAGTCCGCCAGGATAATAAAA
Found at i:36670294 original size:18 final size:18
Alignment explanation
Indices: 36670268--36670303 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36670258 AAAACACAAT
36670268 AATAAAATTCTCTAAAAG
1 AATAAAATTCTCTAAAAG
* *
36670286 AATACAATTCTTTAAAAG
1 AATAAAATTCTCTAAAAG
36670304 GTCTAAGCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
AATAAAATTCTCTAAAAG
Found at i:36671031 original size:62 final size:62
Alignment explanation
Indices: 36670934--36671057 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
36670924 CATTTCCATT
36670934 TCTATTTTTGGAAACCTACATTCATTTCCAAATGATTATATTTCTCCATTTCGGTGAAAACC
1 TCTATTTTTGGAAACCTACATTCATTTCCAAATGATTATATTTCTCCATTTCGGTGAAAACC
36670996 TCTATTTTTGGAAACCTACATTCATTTCCAAATGATTATATTTCTCCATTTCGGTGAAAACC
1 TCTATTTTTGGAAACCTACATTCATTTCCAAATGATTATATTTCTCCATTTCGGTGAAAACC
36671058 GTAATCATTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (62 bp):
TCTATTTTTGGAAACCTACATTCATTTCCAAATGATTATATTTCTCCATTTCGGTGAAAACC
Found at i:36674297 original size:18 final size:18
Alignment explanation
Indices: 36674274--36674308 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36674264 TGCAACATAT
*
36674274 CATATCTCCATTCAATGA
1 CATATCTACATTCAATGA
*
36674292 CATATCTACATTTAATG
1 CATATCTACATTCAATG
36674309 TGCACATCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (18 bp):
CATATCTACATTCAATGA
Found at i:36677882 original size:16 final size:17
Alignment explanation
Indices: 36677861--36677892 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
36677851 AATTGGGCCA
36677861 TGTGGGCC-ACACGGGG
1 TGTGGGCCTACACGGGG
36677877 TGTGGGCCTACACGGG
1 TGTGGGCCTACACGGG
36677893 CATGTGGAAT
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:0.12, C:0.25, G:0.47, T:0.16
Consensus pattern (17 bp):
TGTGGGCCTACACGGGG
Found at i:36697625 original size:22 final size:22
Alignment explanation
Indices: 36697597--36697645 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
36697587 ATTGTTGTAC
36697597 TACTATAACCTTTTGATTCCTA
1 TACTATAACCTTTTGATTCCTA
36697619 TACTATAACCTTTTGATTCCTA
1 TACTATAACCTTTTGATTCCTA
36697641 TACTA
1 TACTA
36697646 CGTTGCTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (22 bp):
TACTATAACCTTTTGATTCCTA
Found at i:36697961 original size:21 final size:21
Alignment explanation
Indices: 36697937--36697978 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36697927 TTTCTTCACC
*
36697937 CTCTTCTCACCTTTCCATTTT
1 CTCTTCTCACCTCTCCATTTT
*
36697958 CTCTTCTCATCTCTCCATTTT
1 CTCTTCTCACCTCTCCATTTT
36697979 TGCTGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (21 bp):
CTCTTCTCACCTCTCCATTTT
Found at i:36700965 original size:28 final size:29
Alignment explanation
Indices: 36700919--36700973 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
36700909 TTTTTACAAC
36700919 AAATAAAATATTAAACAATTA-TATTATAT
1 AAATAAAATATTAAACAA-TACTATTATAT
36700948 AAAT-AAAT-TTAAATCAATACTATTAT
1 AAATAAAATATTAAA-CAATACTATTAT
36700974 TACATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 7 0.29
28 13 0.54
29 4 0.17
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
AAATAAAATATTAAACAATACTATTATAT
Found at i:36702980 original size:3 final size:3
Alignment explanation
Indices: 36702972--36703005 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
36702962 ACCAAATGCA
*
36702972 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
36703006 GAAAAGTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36704858 original size:23 final size:23
Alignment explanation
Indices: 36704825--36704881 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
36704815 ATATTTAATA
36704825 ATAAATATTTTATAGTATA-AAAT
1 ATAAATATTTTA-AGTATATAAAT
* *
36704848 ATGAATATTTTAATTATATAAAT
1 ATAAATATTTTAAGTATATAAAT
36704871 ATAAATATTTT
1 ATAAATATTTT
36704882 TTAAAATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAAATATTTTAAGTATATAAAT
Found at i:36706131 original size:114 final size:113
Alignment explanation
Indices: 36705799--36706137 Score: 275
Period size: 114 Copynumber: 3.0 Consensus size: 113
36705789 GGAACCTTTG
** *
36705799 AAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCCGCGCTTAGCTGAAAACGCCG
1 AAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGTGGCGCTTA-CCGAAAACGCCG
* * * * * *
36705864 CTATATATCAGCTTTTCGTGGTGCTATTTG-TGAATCGCTGCAAATATTTT
65 CTATATATCAGCTTTTAGTGGCGC--TTTGCTAAAACGCCGCAAAAATTTT
* * * ** * *
36705914 GAA-CAAAACGCATCG-TTCAGGT-TTGA-CGTATAAAGGCATTAGTGGCGCTTACCTGAAAACG
1 AAACCGAAACGCAACGTTTC--GTCTTGAGC-TATAGCGCCTTTAGTGGCGCTTACC-GAAAACG
* ** *
36705975 CTGC--TATATC-GCATAAATAGTGGCG-TTTAACTAAAAAACGCCG-AAAAATTTT
62 CCGCTATATATCAGC-T-TTTAGTGGCGCTTT-GCT--AAAACGCCGCAAAAATTTT
*
36706027 AAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGTGGCGCTTACCCATAAACGCCG
1 AAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGTGGCGCTTACCGA-AAACGCCG
* *
36706092 CTATATATCAGCTTTTAGTGGCGCTTCTGCTTAAGCGCCGCAAAAA
65 CTATATATCAGCTTTTAGTGGCGCTT-TGCTAAAACGCCGCAAAAA
36706138 ATTTGACTAA
Statistics
Matches: 169, Mismatches: 34, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
110 3 0.02
111 2 0.01
112 8 0.05
113 24 0.14
114 97 0.57
115 21 0.12
116 11 0.07
117 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (113 bp):
AAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGTGGCGCTTACCGAAAACGCCGC
TATATATCAGCTTTTAGTGGCGCTTTGCTAAAACGCCGCAAAAATTTT
Found at i:36706173 original size:228 final size:228
Alignment explanation
Indices: 36705780--36706210 Score: 564
Period size: 228 Copynumber: 1.9 Consensus size: 228
36705770 CGCATAACCG
* **
36705780 AAAAACGCCGGAACCTTTGAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCCG
1 AAAAACGCCGAAAAATTTGAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCCG
** * * * * * *
36705845 CGCTTAGCTGAAAACGCCGCTATATATCAGCTTTTCGTGGTGCTATTTGTGAATCGCTGCAAATA
66 CGCTTAGCCCAAAACGCCGCTATATATCAGCTTTTAGTGGCGCTATCTGTGAAGCGCCGCAAAAA
* * * * *
36705910 TTTTGAACAAAACGCATCGTTCAGGTTTGACGTATAAAGGCATTAGTGGCGCTTACCTGAAAACG
131 ATTTGAACAAAACGCATCGTTCAGGCTTCACGTATAAAGGAATTAGCGGCGCTTACCTGAAAACG
36705975 CTGCTATATCGCATAAATAGTGGCGTTTAACTA
196 CTGCTATATCGCATAAATAGTGGCGTTTAACTA
* **
36706008 AAAAACGCCGAAAAATTTTAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGTGG
1 AAAAACGCCGAAAAATTTGAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCCG
*
36706073 CGCTTA-CCCATAAACGCCGCTATATATCAGCTTTTAGTGGCGCT-TCTGCTTAAGCGCCGCAAA
66 CGCTTAGCCCA-AAACGCCGCTATATATCAGCTTTTAGTGGCGCTATCTG-TGAAGCGCCGCAAA
* ** ** *
36706136 AAATTTG-ACTAAAACGCATCGTTTC-GGCTTCACGTATAGATTAATTAGCGGCGCTTATTTGGA
129 AAATTTGAAC-AAAACGCATCG-TTCAGGCTTCACGTATAAAGGAATTAGCGGCGCTTACCTGAA
36706199 AACGCTGCTATA
192 AACGCTGCTATA
36706211 GAGTAATTTT
Statistics
Matches: 173, Mismatches: 26, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
227 7 0.04
228 163 0.94
229 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (228 bp):
AAAAACGCCGAAAAATTTGAAACCGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCTTTAGCCG
CGCTTAGCCCAAAACGCCGCTATATATCAGCTTTTAGTGGCGCTATCTGTGAAGCGCCGCAAAAA
ATTTGAACAAAACGCATCGTTCAGGCTTCACGTATAAAGGAATTAGCGGCGCTTACCTGAAAACG
CTGCTATATCGCATAAATAGTGGCGTTTAACTA
Found at i:36706786 original size:21 final size:22
Alignment explanation
Indices: 36706760--36706829 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 22
36706750 GTTAATTGAC
36706760 GGGTTTAGGGTTTA-AGTTTTA
1 GGGTTTAGGGTTTAGAGTTTTA
* *
36706781 TGGTTT-GAGATTTAGAG-TTTA
1 GGGTTTAG-GGTTTAGAGTTTTA
* * *
36706802 GGGTTAAGGGTTTATAG-TTTG
1 GGGTTTAGGGTTTAGAGTTTTA
36706823 GGGTTTA
1 GGGTTTA
36706830 AGATTTACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.03
21 34 0.89
22 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (22 bp):
GGGTTTAGGGTTTAGAGTTTTA
Found at i:36706794 original size:14 final size:14
Alignment explanation
Indices: 36706763--36706836 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
36706753 AATTGACGGG
*
36706763 TTTAGGGTTTAAGT
1 TTTAGGGTTTAAGA
* *
36706777 TTTATGGTTTGAGA
1 TTTAGGGTTTAAGA
* * *
36706791 TTTAGAGTTTAGGG
1 TTTAGGGTTTAAGA
*
36706805 TTAAGGGTTTATAG-
1 TTTAGGGTTTA-AGA
*
36706819 TTTGGGGTTTAAGA
1 TTTAGGGTTTAAGA
36706833 TTTA
1 TTTA
36706837 CAATTAATTA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
13 2 0.05
14 41 0.93
15 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:36706836 original size:21 final size:21
Alignment explanation
Indices: 36706777--36706836 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
36706767 GGGTTTAAGT
* *
36706777 TTTATGGTTTGAGATTTAGAG
1 TTTAGGGTTTAAGATTTAGAG
* *
36706798 TTTAGGG-TTAAGGGTTTATAG
1 TTTAGGGTTTAA-GATTTAGAG
*
36706819 TTTGGGGTTTAAGATTTA
1 TTTAGGGTTTAAGATTTA
36706837 CAATTAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 3 0.10
21 24 0.77
22 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTAAGATTTAGAG
Found at i:36708029 original size:16 final size:16
Alignment explanation
Indices: 36708008--36708039 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36707998 ACTTAGTAAT
36708008 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
36708024 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
36708040 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:36708055 original size:28 final size:29
Alignment explanation
Indices: 36708005--36708059 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
36707995 TATACTTAGT
*
36708005 AATTAAAAGATACAATTAATAAAAGATAC
1 AATTAAAAGATACAATAAATAAAAGATAC
36708034 AATTAAGAA-ATA-AATAAATAAAAGAT
1 AATTAA-AAGATACAATAAATAAAAGAT
36708060 GTGAGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 9 0.38
30 2 0.08
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (29 bp):
AATTAAAAGATACAATAAATAAAAGATAC
Found at i:36708402 original size:24 final size:24
Alignment explanation
Indices: 36708374--36708435 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
36708364 CACTTAGCCG
36708374 AAATTCCCCCCAAATTTCT-CCCCA
1 AAATTCCCCCC-AATTTCTCCCCCA
* * *
36708398 AAATTGCCCCCGATTTTTCCCCCA
1 AAATTCCCCCCAATTTCTCCCCCA
*
36708422 AAAAT-CCCCCAATT
1 AAATTCCCCCCAATT
36708436 CTAGAACTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.29, C:0.42, G:0.03, T:0.26
Consensus pattern (24 bp):
AAATTCCCCCCAATTTCTCCCCCA
Found at i:36709527 original size:20 final size:20
Alignment explanation
Indices: 36709490--36709528 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36709480 ATCACCAAAA
*
36709490 ATATAGCATAATTAAAATAT
1 ATATAGCATAAATAAAATAT
* *
36709510 ATATAGCTTAAATGAAATA
1 ATATAGCATAAATAAAATA
36709529 AAATAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
ATATAGCATAAATAAAATAT
Found at i:36709625 original size:9 final size:9
Alignment explanation
Indices: 36709611--36709787 Score: 92
Period size: 9 Copynumber: 20.3 Consensus size: 9
36709601 CGGGTATAGA
36709611 TTACATAAC
1 TTACATAAC
*
36709620 TTACATTAATAT
1 TTACA-T-A-AC
*
36709632 TATACATAAA
1 T-TACATAAC
36709642 TTACATAAC
1 TTACATAAC
36709651 TTA-ATTAA-
1 TTACA-TAAC
*
36709659 TTA-AT-AT
1 TTACATAAC
36709666 TATACATAAC
1 T-TACATAAC
36709676 TTACATAAC
1 TTACATAAC
36709685 TTAC--AAC
1 TTACATAAC
36709692 TTACATAAC
1 TTACATAAC
*
36709701 TTAC-TTA-
1 TTACATAAC
36709708 -TA-ATAAC
1 TTACATAAC
36709715 TTACATAA-
1 TTACATAAC
* *
36709723 TGCATATAAC
1 T-TACATAAC
* *
36709733 TTTCGTAAC
1 TTACATAAC
*
36709742 TTACATTA-
1 TTACATAAC
*
36709750 -TACACAAC
1 TTACATAAC
*
36709758 TTATATAAC
1 TTACATAAC
36709767 TTACATAAC
1 TTACATAAC
*
36709776 TTACATAGC
1 TTACATAAC
36709785 TTA
1 TTA
36709788 ATTATACTTA
Statistics
Matches: 128, Mismatches: 21, Indels: 38
0.68 0.11 0.20
Matches are distributed among these distances:
6 5 0.04
7 14 0.11
8 12 0.09
9 82 0.64
10 6 0.05
11 2 0.02
12 3 0.02
13 4 0.03
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (9 bp):
TTACATAAC
Found at i:36709694 original size:16 final size:16
Alignment explanation
Indices: 36709673--36709704 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36709663 TATTATACAT
36709673 AACTTACATAACTTAC
1 AACTTACATAACTTAC
36709689 AACTTACATAACTTAC
1 AACTTACATAACTTAC
36709705 TTATAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:36709857 original size:15 final size:16
Alignment explanation
Indices: 36709837--36709869 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
36709827 ATAACTTATT
36709837 AATATATATAT-TTTA
1 AATATATATATCTTTA
36709852 AATATATATATCTTTA
1 AATATATATATCTTTA
36709868 AA
1 AA
36709870 ACTTAATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATATATATCTTTA
Found at i:36709893 original size:24 final size:23
Alignment explanation
Indices: 36709848--36709978 Score: 126
Period size: 23 Copynumber: 5.5 Consensus size: 23
36709838 ATATATATAT
36709848 TTTAA-ATATATATATCTTTAAAA
1 TTTAATATATATATAT-TTTAAAA
* *
36709871 CTTAATATGTATATATTTGT-AAA
1 TTTAATATATATATATTT-TAAAA
*
36709894 TTTAATTTATATATATTTTGAAAA
1 TTTAATATATATATATTTT-AAAA
36709918 TTTAATATATATGCATATACTTTTAAAA
1 TTT-A-ATATAT--ATATA-TTTTAAAA
*
36709946 TTTAAT-TA-ATATTTTTTAAAA
1 TTTAATATATATATATTTTAAAA
36709967 TTTAATATATAT
1 TTTAATATATAT
36709979 TTTTAATATA
Statistics
Matches: 90, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
21 14 0.16
22 7 0.08
23 26 0.29
24 16 0.18
25 3 0.03
26 7 0.08
27 1 0.01
28 12 0.13
29 4 0.04
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (23 bp):
TTTAATATATATATATTTTAAAA
Found at i:36709923 original size:47 final size:48
Alignment explanation
Indices: 36709848--36709978 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 48
36709838 ATATATATAT
* * *
36709848 TTTAAATATATATATCTTTAAAACTTAATATGTAT-ATAT-TTGT-AAA
1 TTTAATTATATATAT-TTTAAAATTTAATATATATCATATATTGTAAAA
*
36709894 TTTAATTTATATATATTTTGAAAATTTAATATATATGCATATACTTTTAAAA
1 TTTAA-TTATATATATTTT-AAAATTTAATATATAT-CATATA-TTGTAAAA
*
36709946 TTTAATTA-ATATTTTTTAAAATTTAATATATAT
1 TTTAATTATATATATTTTAAAATTTAATATATAT
36709979 TTTTAATATA
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
46 8 0.11
47 23 0.32
49 20 0.27
50 8 0.11
51 6 0.08
52 8 0.11
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (48 bp):
TTTAATTATATATATTTTAAAATTTAATATATATCATATATTGTAAAA
Found at i:36709962 original size:21 final size:21
Alignment explanation
Indices: 36709938--36709982 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
36709928 ATGCATATAC
36709938 TTTTAAAATTTAAT-TAATATT
1 TTTTAAAATTTAATAT-ATATT
36709959 TTTTAAAATTTAATATATATT
1 TTTTAAAATTTAATATATATT
36709980 TTT
1 TTT
36709983 AATATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAAATTTAATATATATT
Found at i:36709972 original size:49 final size:51
Alignment explanation
Indices: 36709875--36709978 Score: 144
Period size: 49 Copynumber: 2.1 Consensus size: 51
36709865 TTAAAACTTA
*
36709875 ATATGTATATATTTGTAAATTTAATTTATATATATTTTGAAAATTTAATAT
1 ATATGCATATATTTGTAAATTTAATTTATATATATTTTGAAAATTTAATAT
*
36709926 ATATGCATATACTTT-TAAAATTTAA-TTA-ATAT-TTTTTAAAATTTAATAT
1 ATATGCATATA-TTTGT-AAATTTAATTTATATATATTTTGAAAATTTAATAT
36709975 ATAT
1 ATAT
36709979 TTTTAATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
49 20 0.41
50 4 0.08
51 14 0.29
52 11 0.22
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (51 bp):
ATATGCATATATTTGTAAATTTAATTTATATATATTTTGAAAATTTAATAT
Found at i:36709976 original size:19 final size:22
Alignment explanation
Indices: 36709848--36709984 Score: 93
Period size: 24 Copynumber: 5.9 Consensus size: 22
36709838 ATATATATAT
* *
36709848 TTTAAATATATATATCTTTAAAA
1 TTTAATTA-ATATATTTTTAAAA
* * *
36709871 CTTAATATGTATATATTTGT-AAA
1 TTTAAT-T-AATATATTTTTAAAA
*
36709894 TTTAATTTATATATATTTTGAAAA
1 TTTAA-TTA-ATATATTTTTAAAA
36709918 TTTAATATATATGCATATACTTTTAAAA
1 TTTAAT-TA-AT--ATAT--TTTTAAAA
36709946 TTTAATTAATAT-TTTTTAAAA
1 TTTAATTAATATATTTTTAAAA
36709967 TTTAA-T-ATATATTTTTAA
1 TTTAATTAATATATTTTTAA
36709985 TATAATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 25
0.73 0.08 0.20
Matches are distributed among these distances:
19 4 0.04
20 8 0.09
21 13 0.14
23 22 0.24
24 25 0.27
26 6 0.06
27 2 0.02
28 13 0.14
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (22 bp):
TTTAATTAATATATTTTTAAAA
Found at i:36709983 original size:20 final size:20
Alignment explanation
Indices: 36709932--36709984 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
36709922 ATATATATGC
*
36709932 ATATACTTTTAAAATTTAAT
1 ATATATTTTTAAAATTTAAT
36709952 -TAATATTTTTTAAAATTTAAT
1 AT-ATA-TTTTTAAAATTTAAT
36709973 ATATATTTTTAA
1 ATATATTTTTAA
36709985 TATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
20 10 0.34
21 17 0.59
22 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTTTTAAAATTTAAT
Found at i:36709994 original size:12 final size:13
Alignment explanation
Indices: 36709967--36709996 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36709957 TTTTTTAAAA
36709967 TTTAATATATATT
1 TTTAATATATATT
36709980 TTTAATATA-ATT
1 TTTAATATATATT
36709992 TTTAA
1 TTTAA
36709997 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAATATATATT
Found at i:36709999 original size:52 final size:51
Alignment explanation
Indices: 36709875--36710004 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 51
36709865 TTAAAACTTA
* *
36709875 ATATGTATAT-ATTTGTAAATTTAATTTATATATATTTTGAAAATTTAATAT
1 ATATGAATATAATTTTTAAATTTAA-TTATATATATTTTGAAAATTTAATAT
* * * *
36709926 ATATGCATATACTTTTAAAATTTAATTA-ATAT-TTTTTAAAATTTAATAT
1 ATATGAATATAATTTTTAAATTTAATTATATATATTTTGAAAATTTAATAT
*
36709975 ATATTTTTAATATAATTTTTAAATTTAATT
1 ATA---TGAATATAATTTTTAAATTTAATT
36710005 TAACGTAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
49 19 0.29
50 4 0.06
51 12 0.18
52 31 0.47
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (51 bp):
ATATGAATATAATTTTTAAATTTAATTATATATATTTTGAAAATTTAATAT
Found at i:36710133 original size:20 final size:18
Alignment explanation
Indices: 36710083--36710129 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
36710073 GATATATGTG
36710083 TATATACTTCTAAAATTTAA
1 TATATA-TT-TAAAATTTAA
36710103 TATATATTTAAAATTTAA
1 TATATATTTAAAATTTAA
*
36710121 TTTATATTT
1 TATATATTT
36710130 TTAATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 18 0.69
19 2 0.08
20 6 0.23
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATATTTAAAATTTAA
Found at i:36710177 original size:34 final size:34
Alignment explanation
Indices: 36710139--36710222 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 34
36710129 TTTAATATAA
* * * *
36710139 TACATAACTTACTTAATTTTCATAATAAATAACT
1 TACATAACTTACATAACTTACATAATAAACAACT
*
36710173 TACATAACTTACATAACTTACATAATACACAACT
1 TACATAACTTACATAACTTACATAATAAACAACT
* * *
36710207 TGCATAATTTTCATAA
1 TACATAACTTACATAA
36710223 TACACAACTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAATAAACAACT
Found at i:36710179 original size:9 final size:9
Alignment explanation
Indices: 36710139--36710283 Score: 94
Period size: 9 Copynumber: 17.2 Consensus size: 9
36710129 TTTAATATAA
36710139 TACATAACT
1 TACATAACT
* *
36710148 TACTTAATT
1 TACATAACT
*
36710157 TTCATAA--
1 TACATAACT
*
36710164 TAAATAACT
1 TACATAACT
36710173 TACATAACT
1 TACATAACT
36710182 TACATAACT
1 TACATAACT
36710191 TACATAA--
1 TACATAACT
*
36710198 TACACAACT
1 TACATAACT
* *
36710207 TGCATAATT
1 TACATAACT
*
36710216 TTCATAA--
1 TACATAACT
*
36710223 TACACAACT
1 TACATAACT
*
36710232 TACATAATT
1 TACATAACT
*
36710241 TTCATAA--
1 TACATAACT
*
36710248 TAAATAACT
1 TACATAACT
*
36710257 TATATAA--
1 TACATAACT
36710264 TACATAACT
1 TACATAACT
*
36710273 TACATAGCT
1 TACATAACT
36710282 TA
1 TA
36710284 ATTATATTTA
Statistics
Matches: 104, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
7 27 0.26
9 77 0.74
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:36710187 original size:25 final size:25
Alignment explanation
Indices: 36710135--36710188 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
36710125 TATTTTTAAT
* * * *
36710135 ATAATACATAACTTACTTAATTTTC
1 ATAATAAATAACTTACATAACTTAC
36710160 ATAATAAATAACTTACATAACTTAC
1 ATAATAAATAACTTACATAACTTAC
36710185 ATAA
1 ATAA
36710189 CTTACATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATAAATAACTTACATAACTTAC
Found at i:36710201 original size:25 final size:25
Alignment explanation
Indices: 36710173--36710264 Score: 112
Period size: 25 Copynumber: 3.7 Consensus size: 25
36710163 ATAAATAACT
* *
36710173 TACATAACTTACATAACTTACATAA
1 TACACAACTTACATAATTTACATAA
* *
36710198 TACACAACTTGCATAATTTTCATAA
1 TACACAACTTACATAATTTACATAA
*
36710223 TACACAACTTACATAATTTTCATAA
1 TACACAACTTACATAATTTACATAA
* * *
36710248 TAAATAACTTATATAAT
1 TACACAACTTACATAAT
36710265 ACATAACTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (25 bp):
TACACAACTTACATAATTTACATAA
Found at i:36710263 original size:16 final size:16
Alignment explanation
Indices: 36710244--36710274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36710234 CATAATTTTC
36710244 ATAATAAATAACTTAT
1 ATAATAAATAACTTAT
*
36710260 ATAATACATAACTTA
1 ATAATAAATAACTTA
36710275 CATAGCTTAA
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:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAATAAATAACTTAT
Found at i:36713902 original size:90 final size:90
Alignment explanation
Indices: 36713782--36713959 Score: 320
Period size: 90 Copynumber: 2.0 Consensus size: 90
36713772 ACCTGAGGAT
36713782 CCTACAGAAGTTCAAACAAATTTTACATTTAATTTACATGCGCGTTGACTTATAATTGATTTATT
1 CCTACAGAAGTTCAAACAAATTTTACATTTAATTTACATGCGCGTTGACTTATAATTGATTTATT
36713847 TTTCAAATTCTTATATTATAATAAA
66 TTTCAAATTCTTATATTATAATAAA
* ** *
36713872 CCTACGGAAGTTCAAAGTAATTTTACATTTAATTTACATGCGTGTTGACTTATAATTGATTTATT
1 CCTACAGAAGTTCAAACAAATTTTACATTTAATTTACATGCGCGTTGACTTATAATTGATTTATT
36713937 TTTCAAATTCTTATATTATAATA
66 TTTCAAATTCTTATATTATAATA
36713960 TACCATTTGT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (90 bp):
CCTACAGAAGTTCAAACAAATTTTACATTTAATTTACATGCGCGTTGACTTATAATTGATTTATT
TTTCAAATTCTTATATTATAATAAA
Found at i:36714861 original size:12 final size:12
Alignment explanation
Indices: 36714823--36714871 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
36714813 NNNNNNNGCT
36714823 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
36714835 GCA--GAG-GCC
1 GCAGCGAGAGAA
36714844 GCAGCGAGAGAA
1 GCAGCGAGAGAA
36714856 GCAGCGAGAGAA
1 GCAGCGAGAGAA
36714868 GCAG
1 GCAG
36714872 AGGTTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 3 0.10
12 20 0.67
ACGTcount: A:0.37, C:0.20, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:36715408 original size:42 final size:42
Alignment explanation
Indices: 36715306--36715598 Score: 297
Period size: 42 Copynumber: 6.9 Consensus size: 42
36715296 TTTGTGAAAT
* * * ** **
36715306 AAGCACCGCGAAAGAACACTACTTTTAGCGGCGTTTGTAGATG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTT-TTTACC
* *
36715349 AAGCGCCGCTAAAGAACATTACTTTTAGCAGCGTTTTCTACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
* *
36715391 AAGCGCCGCTATAGAACATTACTTTTAGCGGTGTTTTTTACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
*
36715433 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTT-CC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
* * *
36715474 TAAGCGCCGCAAAAGAACATGA-TCTTTAGCGGCGTTTTTTCCC
1 -AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTACC
* * * * * *
36715517 AAGCACTGCTAAAGAACATGA-TGATTAGTGACGTTTCTTT-CC
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTT-TTTACC
* *
36715559 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTT
1 -AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTT
36715599 TCTGTAAGCG
Statistics
Matches: 215, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.01
42 146 0.68
43 66 0.31
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACC
Found at i:36716284 original size:12 final size:12
Alignment explanation
Indices: 36716267--36716297 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36716257 ACTGTAATTA
*
36716267 TTTAACTTTATT
1 TTTAACCTTATT
36716279 TTTAACCTTATT
1 TTTAACCTTATT
36716291 TTTAACC
1 TTTAACC
36716298 ATCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTAACCTTATT
Found at i:36721400 original size:21 final size:21
Alignment explanation
Indices: 36721361--36721408 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
36721351 TTTATTGTTG
*
36721361 TTATTATTTTTACTTTTA-TA
1 TTATTATATTTACTTTTATTA
36721381 TTTATTATATTTA-TTGTTATTA
1 -TTATTATATTTACTT-TTATTA
36721403 TTATTA
1 TTATTA
36721409 GTATATGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTATTATATTTACTTTTATTA
Found at i:36723947 original size:23 final size:22
Alignment explanation
Indices: 36723901--36723965 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
36723891 ATGTATATTT
* *
36723901 ATATATATATTTTAATTCACGTAC
1 ATATATATATTTTTA-T-ATGTAC
* *
36723925 TTATATATTTTTCTTATATGTAC
1 ATATATATATTT-TTATATGTAC
36723948 ATATATATATTTTTATAT
1 ATATATATATTTTTATAT
36723966 TTTATAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 6 0.18
23 15 0.44
24 11 0.32
25 2 0.06
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (22 bp):
ATATATATATTTTTATATGTAC
Done.