Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 36 of 349
Found at i:10123503 original size:25 final size:26
Alignment explanation
Indices: 10123443--10123513 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
10123433 TAAAATTTAC
*
10123443 AAATTTATAAAAATATATAAATATAT
1 AAATATATAAAAATATATAAATATAT
* *
10123469 AAA-AGAATAAAAAT-TATAAATGTAT
1 AAATA-TATAAAAATATATAAATATAT
*
10123494 AAATATAT-AAAATATCTAAA
1 AAATATATAAAAATATATAAA
10123514 AAGCACAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 5 0.14
25 20 0.54
26 12 0.32
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (26 bp):
AAATATATAAAAATATATAAATATAT
Found at i:10123516 original size:43 final size:43
Alignment explanation
Indices: 10123431--10123514 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
10123421 TTTATGAATT
* *
10123431 AATAAAATTTACAAATTTATAAAAATATATAAATATATAAAAG
1 AATAAAAATTACAAATGTATAAAAATATATAAATATATAAAAG
* * *
10123474 AATAAAAATTATAAATGTATAAATATATA-AAATATCTAAAA
1 AATAAAAATTACAAATGTATAAAAATATATAAATATATAAAA
10123515 AGCACAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 11 0.31
43 25 0.69
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (43 bp):
AATAAAAATTACAAATGTATAAAAATATATAAATATATAAAAG
Found at i:10124434 original size:54 final size:54
Alignment explanation
Indices: 10124352--10124459 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
10124342 TTTGTGGTAT
10124352 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
1 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
*
10124406 GGGTTCAAATCTCCCCCTATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
1 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
10124460 ATGACAAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (54 bp):
GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
Found at i:10127532 original size:43 final size:40
Alignment explanation
Indices: 10127476--10127631 Score: 177
Period size: 43 Copynumber: 3.7 Consensus size: 40
10127466 ATATCGTACA
*
10127476 ATGCCAATGTCCCAGACGTGGTCTTACATGCAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACA--CAATCACATAT-G
* * * *
10127519 ATGCCACTATCCCAGACAGGGTCTTACACAAATCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-AATCACATATG
* *
10127560 GTGACAATGTCCCAGACATGGTCTTACACATAATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACAC--AATCACATA-TG
*
10127603 ATGCCAACGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
10127632 GAGAACACAT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 26 0.27
42 17 0.18
43 52 0.55
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (40 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAATCACATATG
Found at i:10142521 original size:46 final size:46
Alignment explanation
Indices: 10142348--10142517 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
10142338 TGTAACCCGC
* ** ** *
10142348 CCATAAGTGAACTCGGACTCAAGTCAATAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
* *
10142394 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA--AC-A-TTCGCAT
* * *
10142444 -C-TCA-TGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
10142487 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
10142518 TTCGGATGCT
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
Found at i:10143114 original size:20 final size:18
Alignment explanation
Indices: 10143080--10143116 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
10143070 GCAACTCATA
10143080 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
10143098 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
10143117 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:10149817 original size:2 final size:2
Alignment explanation
Indices: 10149805--10149836 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10149795 AATAAAATCA
10149805 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10149837 AATTTTAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10153107 original size:2 final size:2
Alignment explanation
Indices: 10153100--10153150 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
10153090 TGGCTTTCTT
10153100 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10153142 TC TC TC TC T
1 TC TC TC TC T
10153151 TTTCTTCTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10167325 original size:35 final size:33
Alignment explanation
Indices: 10167278--10167346 Score: 77
Period size: 35 Copynumber: 2.0 Consensus size: 33
10167268 TTGAACTGTG
* *
10167278 GCATGAGATTTTAAATTTTGGACATTGAATAATTT
1 GCATGAGATTTTAAATTATGG--ATTAAATAATTT
*
10167313 GCATG-GATTTTTATATTATGGATTAAATAATTT
1 GCATGAGA-TTTTAAATTATGGATTAAATAATTT
10167346 G
1 G
10167347 ACATTTTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 12 0.40
34 2 0.07
35 16 0.53
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.45
Consensus pattern (33 bp):
GCATGAGATTTTAAATTATGGATTAAATAATTT
Found at i:10167839 original size:16 final size:16
Alignment explanation
Indices: 10167820--10167850 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10167810 CTGTAGATTG
10167820 TGAAAACTATAGACTT
1 TGAAAACTATAGACTT
*
10167836 TGAAAACTCTAGACT
1 TGAAAACTATAGACT
10167851 CTGTAGTTGA
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:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (16 bp):
TGAAAACTATAGACTT
Found at i:10168737 original size:18 final size:19
Alignment explanation
Indices: 10168700--10168738 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10168690 ATTACAAAAT
* *
10168700 AATTTAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
10168719 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
10168737 AA
1 AA
10168739 ATCCCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:10168780 original size:21 final size:21
Alignment explanation
Indices: 10168754--10168794 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10168744 AAAATTTATA
10168754 TTTT-AAAAAAGTTTATAAAAT
1 TTTTAAAAAAAG-TTATAAAAT
10168775 TTTTAAAAAAAGTTATAAAA
1 TTTTAAAAAAAGTTATAAAA
10168795 AATATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTTAAAAAAAGTTATAAAAT
Found at i:10169027 original size:23 final size:23
Alignment explanation
Indices: 10168984--10169030 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10168974 TGTAATAAGA
*
10168984 TTTTAATTTAACATATTTAATTT
1 TTTTAATTTAACATATATAATTT
* *
10169007 TTTTAATTTAACTTGTATAATTT
1 TTTTAATTTAACATATATAATTT
10169030 T
1 T
10169031 ACTCTATTCA
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:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAATTTAACATATATAATTT
Found at i:10177444 original size:21 final size:21
Alignment explanation
Indices: 10177402--10177489 Score: 126
Period size: 21 Copynumber: 4.3 Consensus size: 21
10177392 GAATACATTG
* *
10177402 ACAGAAGCTTG-AA-AGCTAA
1 ACAGAAGCTCGTAAGAGCTTA
10177421 ACAGAAGCTCGTAAGAGCTTA
1 ACAGAAGCTCGTAAGAGCTTA
10177442 ACAGAAGCTCGTAAGAGCTTA
1 ACAGAAGCTCGTAAGAGCTTA
* *
10177463 ACAGAAGCTCGTAGGAGCTGA
1 ACAGAAGCTCGTAAGAGCTTA
10177484 ACAGAA
1 ACAGAA
10177490 AGTAAAACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 10 0.16
20 2 0.03
21 51 0.81
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
ACAGAAGCTCGTAAGAGCTTA
Found at i:10177650 original size:17 final size:17
Alignment explanation
Indices: 10177630--10177666 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10177620 ATTAAATTCG
*
10177630 ATAATATATTTCCAATA
1 ATAATATAATTCCAATA
*
10177647 ATAATTTAATTCCAATA
1 ATAATATAATTCCAATA
10177664 ATA
1 ATA
10177667 TAACATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATATAATTCCAATA
Found at i:10180794 original size:29 final size:30
Alignment explanation
Indices: 10180747--10180814 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
10180737 TGGCCCAAGA
* *
10180747 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
10180777 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
10180807 GCAAATAT
1 GTAAATAT
10180815 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:10183071 original size:72 final size:72
Alignment explanation
Indices: 10182954--10183098 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
10182944 GCTCTCTGAT
* *
10182954 ATGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
10183019 GGTTGAA
66 GGTTGAA
10183026 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
10183091 GGTTGAA
66 GGTTGAA
10183098 A
1 A
10183099 GATACCATGG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (72 bp):
ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
GGTTGAA
Found at i:10183078 original size:46 final size:46
Alignment explanation
Indices: 10183026--10183299 Score: 381
Period size: 46 Copynumber: 6.0 Consensus size: 46
10183016 CATGGTTGAA
** * *
10183026 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
10183072 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
10183118 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
10183164 A-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
10183210 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
10183256 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
10183300 TCAAAGATAA
Statistics
Matches: 210, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 2 0.01
46 207 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:10183135 original size:92 final size:92
Alignment explanation
Indices: 10183026--10183294 Score: 432
Period size: 92 Copynumber: 2.9 Consensus size: 92
10183016 CATGGTTGAA
** * * * *
10183026 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCA
10183090 TGGTTGAAAGATACCATGGCAACGTGAT
65 TGGTTGAAAGATACCATGGCAACGTGAT
*
10183118 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
10183183 GGTTGAAAGATACCATGGCAACGTGAT
66 GGTTGAAAGATACCATGGCAACGTGAT
10183210 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
* * *
10183275 AGTTGAAAGACACTATGGCA
66 GGTTGAAAGATACCATGGCA
10183295 TCATGTCAAA
Statistics
Matches: 165, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
91 1 0.01
92 164 0.99
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
GGTTGAAAGATACCATGGCAACGTGAT
Found at i:10183601 original size:16 final size:17
Alignment explanation
Indices: 10183580--10183612 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10183570 ATGATGGAGC
10183580 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
10183596 ATGAAATAATTGATATA
1 ATGAAATAATTGATATA
10183613 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:10190027 original size:47 final size:48
Alignment explanation
Indices: 10189910--10190034 Score: 162
Period size: 48 Copynumber: 2.6 Consensus size: 48
10189900 GTGCGAATGA
* * * *
10189910 TACCTTGATTTGGCTAGGGGCCATGGTATAGGTATTTCAGAGAGGAGT
1 TACCTTGATTTGGCTAGGGGCCATGGTATAGATACTGCAGAGAGAAGT
* *
10189958 TACCTTTATTTGGCTAGGGGCCATGGTATAGATACTGCAG-GATAAGT
1 TACCTTGATTTGGCTAGGGGCCATGGTATAGATACTGCAGAGAGAAGT
* **
10190005 TACCTTGATTTGGTTACAGGCCATGGTATA
1 TACCTTGATTTGGCTAGGGGCCATGGTATA
10190035 AGTACTTATC
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 31 0.46
48 36 0.54
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (48 bp):
TACCTTGATTTGGCTAGGGGCCATGGTATAGATACTGCAGAGAGAAGT
Found at i:10191807 original size:39 final size:39
Alignment explanation
Indices: 10191745--10191921 Score: 221
Period size: 39 Copynumber: 4.5 Consensus size: 39
10191735 CATTTTTGTT
10191745 AGTATTGTGATATATATGCTTGAATGTTATGTGATTATATG
1 AGTATTGTG--ATATATGCTTGAATGTTATGTGATTATATG
* * *
10191786 AGTATTGTGAGATATGTTTGAATGTTATGTGATTATATA
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* * * *
10191825 AATATTGAGATATATGCTTGAACGTTATGTAATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* *
10191864 AGTATT-TCGATATATGCTTAAATATTATGTGATTATATG
1 AGTATTGT-GATATATGCTTGAATGTTATGTGATTATATG
* *
10191903 TGTAATGTGATATATGCTT
1 AGTATTGTGATATATGCTT
10191922 AAAAGTTAAC
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 106 0.91
40 1 0.01
41 9 0.08
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
Found at i:10192231 original size:30 final size:30
Alignment explanation
Indices: 10192197--10192256 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
10192187 TCGTAGGTGT
10192197 TATTGTTGTTTGTTTTCATTTTGGGAATAA
1 TATTGTTGTTTGTTTTCATTTTGGGAATAA
10192227 TATTGTTGTTTGTTTTCATTTTGGGAATAA
1 TATTGTTGTTTGTTTTCATTTTGGGAATAA
10192257 GGCAATGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (30 bp):
TATTGTTGTTTGTTTTCATTTTGGGAATAA
Found at i:10193358 original size:22 final size:22
Alignment explanation
Indices: 10193332--10193376 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10193322 AGATCAACAC
10193332 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
**
10193354 AAATATCAATTTCATCATATCA
1 AAATATCAATCACATCATATCA
10193376 A
1 A
10193377 TCATCATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:10193573 original size:22 final size:22
Alignment explanation
Indices: 10193548--10193590 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10193538 AAACCACAAC
*
10193548 TGATCTGTAGATAAACTGCCAT
1 TGATCTGCAGATAAACTGCCAT
*
10193570 TGATTTGCAGATAAACTGCCA
1 TGATCTGCAGATAAACTGCCA
10193591 CTAATAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
TGATCTGCAGATAAACTGCCAT
Found at i:10193675 original size:73 final size:73
Alignment explanation
Indices: 10193533--10193790 Score: 390
Period size: 73 Copynumber: 3.5 Consensus size: 73
10193523 ACATCGTTTA
* * * *
10193533 TGGACAAACCACAACTGATCTGTAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAA
1 TGGACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAA
10193598 CACTGATG
66 CACTGATG
* *
10193606 TGAACAAGCCACCACTGGTTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAA
1 TGGACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAA
10193671 CACTGATG
66 CACTGATG
* *
10193679 TGGACAAGCCACCATTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAATTGCCACTAATAA
1 TGGACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAA
*
10193744 CACTAATG
66 CACTGATG
* * * * *
10193752 TGGACAAGCCACCACTAAATTGCAAATATACTACCATTG
1 TGGACAAGCCACCACTGATTTGCAGATAAACTGCCATTG
10193791 CTTCCACCTT
Statistics
Matches: 168, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 168 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (73 bp):
TGGACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAA
CACTGATG
Found at i:10193715 original size:22 final size:22
Alignment explanation
Indices: 10193690--10193736 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
10193680 GGACAAGCCA
10193690 CCATTGATTTGCAGATAAACTG
1 CCATTGATTTGCAGATAAACTG
*
10193712 CCATTGATTTGCAGATAAATTG
1 CCATTGATTTGCAGATAAACTG
10193734 CCA
1 CCA
10193737 CTAATAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (22 bp):
CCATTGATTTGCAGATAAACTG
Found at i:10199700 original size:145 final size:147
Alignment explanation
Indices: 10199421--10199704 Score: 473
Period size: 145 Copynumber: 1.9 Consensus size: 147
10199411 AACAGGAAAG
*
10199421 AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGATATCATAATAAAAAAGCATGGTAGGCA
1 AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGAAATCATAATAAAAAAGCATGGTAGGCA
* * *
10199486 AAGGAATGAGTGGTCGGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAGAGAGCA
66 AAGGAATGAGTGGTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAAAGAACA
10199551 GGGGAGAGGCTGATGAA
131 GGGGAGAGGCTGATGAA
* * *
10199568 AGGATGGGAGAAATAAGATGCATATGC-AATTAGAAGAAATCATAATAGAAAAGCATGGTAGGCA
1 AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGAAATCATAATAAAAAAGCATGGTAGGCA
* *
10199632 AAGGAATGAGT-GTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGTAACAGGCAAAAGAACA
66 AAGGAATGAGTGGTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAAAGAACA
10199696 GGGGAGAGG
131 GGGGAGAGG
10199705 TTTTAGACTT
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
145 57 0.45
146 45 0.35
147 26 0.20
ACGTcount: A:0.45, C:0.09, G:0.31, T:0.14
Consensus pattern (147 bp):
AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGAAATCATAATAAAAAAGCATGGTAGGCA
AAGGAATGAGTGGTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAAAGAACA
GGGGAGAGGCTGATGAA
Found at i:10202582 original size:18 final size:18
Alignment explanation
Indices: 10202556--10202598 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
10202546 AAAATCTATT
*
10202556 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
10202574 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
10202592 TTTATAT
1 TTTATAT
10202599 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:10208303 original size:21 final size:21
Alignment explanation
Indices: 10208266--10208328 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
10208256 TGATCAGAAT
*
10208266 ACGACACATAA-GTGCCTGAA
1 ACGACACACAAGGTGCCTGAA
* **
10208286 ACGACACACGAGGTGCCTGCT
1 ACGACACACAAGGTGCCTGAA
*
10208307 GCGACACACAAGGTGCCTGAA
1 ACGACACACAAGGTGCCTGAA
10208328 A
1 A
10208329 TATGACACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
20 9 0.27
21 24 0.73
ACGTcount: A:0.33, C:0.29, G:0.25, T:0.13
Consensus pattern (21 bp):
ACGACACACAAGGTGCCTGAA
Found at i:10208581 original size:28 final size:29
Alignment explanation
Indices: 10208550--10208605 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
10208540 AACACACCAG
*
10208550 TATAATCC-TCCCAAACACACCAGAATAA
1 TATAATCCATCCAAAACACACCAGAATAA
10208578 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCCATCCAAAACACACCAGAATA
10208606 GCACAAAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.18
Consensus pattern (29 bp):
TATAATCCATCCAAAACACACCAGAATAA
Found at i:10213773 original size:20 final size:20
Alignment explanation
Indices: 10213748--10213786 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10213738 TTATTTAAAT
10213748 TAATATAC-AGTTTTATATAC
1 TAATATACTA-TTTTATATAC
10213768 TAATATACTATTTTATATA
1 TAATATACTATTTTATATA
10213787 ATTTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
TAATATACTATTTTATATAC
Found at i:10213831 original size:22 final size:22
Alignment explanation
Indices: 10213801--10213843 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10213791 TTCAAATATG
10213801 TAAAATAATATACTGTTTTATT
1 TAAAATAATATACTGTTTTATT
* *
10213823 TAAACTAATATATTGTTTTAT
1 TAAAATAATATACTGTTTTAT
10213844 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (22 bp):
TAAAATAATATACTGTTTTATT
Found at i:10214232 original size:2 final size:2
Alignment explanation
Indices: 10214222--10214272 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
10214212 CTCTCTCTTT
*
10214222 CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10214264 CA CA CA CA C
1 CA CA CA CA C
10214273 TTCTTCCCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10214426 original size:24 final size:24
Alignment explanation
Indices: 10214398--10214449 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
10214388 TTTCTAGAAG
*
10214398 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
10214422 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
10214446 ATTT
1 ATTT
10214450 GACTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:10217880 original size:39 final size:39
Alignment explanation
Indices: 10217835--10217911 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
10217825 AATGGATCAA
10217835 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCAT
1 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCAT
10217874 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCA
1 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCA
10217912 GAGATTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (39 bp):
ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCAT
Found at i:10218766 original size:23 final size:23
Alignment explanation
Indices: 10218716--10218766 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
10218706 CCTTAGAAAG
10218716 AGAGATTTGCCTTTGCCTGGTAA
1 AGAGATTTGCCTTTGCCTGGTAA
*
10218739 TGAGATTTGCCTTTGCCTGAG-AA
1 AGAGATTTGCCTTTGCCTG-GTAA
10218762 AGAGA
1 AGAGA
10218767 GAAAAAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (23 bp):
AGAGATTTGCCTTTGCCTGGTAA
Found at i:10222974 original size:18 final size:18
Alignment explanation
Indices: 10222951--10222986 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10222941 GTCAATACAC
10222951 AATCTCAAATATCCATCT
1 AATCTCAAATATCCATCT
10222969 AATCTCAAATATCCATCT
1 AATCTCAAATATCCATCT
10222987 TTCTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
AATCTCAAATATCCATCT
Found at i:10228411 original size:22 final size:24
Alignment explanation
Indices: 10228369--10228412 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
10228359 TAACTAAGTT
10228369 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
10228393 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
10228413 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:10229468 original size:5 final size:5
Alignment explanation
Indices: 10229458--10229509 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
10229448 AATCTGTTTC
*
10229458 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -CAAT -TAAT AGTAAT AT-AT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
10229507 ATA
1 ATA
10229510 CCTAAGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 10 0.24
5 21 0.51
6 10 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:10229483 original size:16 final size:15
Alignment explanation
Indices: 10229458--10229509 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
10229448 AATCTGTTTC
10229458 ATAATATAATATAAT
1 ATAATATAATATAAT
10229473 ATAATTATAATATAAT
1 ATAA-TATAATATAAT
*
10229489 -CAAT-TAATAGTAAT
1 ATAATATAATA-TAAT
10229503 AT-ATATA
1 ATAATATA
10229510 CCTAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 5 0.16
14 7 0.23
15 8 0.26
16 11 0.35
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:10234793 original size:28 final size:28
Alignment explanation
Indices: 10234762--10234839 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
10234752 ATAGCATTTA
* * *
10234762 TGGTGAATTATGAAAAGAATATACTTTG
1 TGGTGAACTATGAAAAGAATAGACTCTG
** *
10234790 TGGTGAACTCCGAAAAGAATAGCCTCTG
1 TGGTGAACTATGAAAAGAATAGACTCTG
* *
10234818 TGGCGAACCATGAAAAGAATAG
1 TGGTGAACTATGAAAAGAATAG
10234840 CCTATGTACC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (28 bp):
TGGTGAACTATGAAAAGAATAGACTCTG
Found at i:10234840 original size:28 final size:27
Alignment explanation
Indices: 10234772--10234916 Score: 112
Period size: 28 Copynumber: 5.2 Consensus size: 27
10234762 TGGTGAATTA
** * *
10234772 TGAAAAGAATATACTTTGTGGTGAACTC
1 TGAAAAGAATAGCCTGTGTGGCGAAC-C
* *
10234800 CGAAAAGAATAGCCTCTGTGGCGAACC
1 TGAAAAGAATAGCCTGTGTGGCGAACC
* **
10234827 ATGAAAAGAATAGCCTATGTACCGAA-C
1 -TGAAAAGAATAGCCTGTGTGGCGAACC
* * *
10234854 TGTAAAAATAATAGCCTGTGAGGCAAACTC
1 TG--AAAAGAATAGCCTGTGTGGCGAAC-C
*
10234884 TGAAAAGAATAGCTTGTGTGGCGAACTC
1 TGAAAAGAATAGCCTGTGTGGCGAAC-C
10234912 TGAAA
1 TGAAA
10234917 GGGATGCCTT
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.02
27 2 0.02
28 86 0.92
30 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
TGAAAAGAATAGCCTGTGTGGCGAACC
Found at i:10236720 original size:34 final size:34
Alignment explanation
Indices: 10236677--10236800 Score: 135
Period size: 34 Copynumber: 3.6 Consensus size: 34
10236667 ACATATACGA
*
10236677 ATATCATATCAGAATGTCATATTACCAGAAACAT
1 ATATCATATCAGAATGTCATATTTCCAGAAACAT
* *
10236711 ATATCATATCAAAATGTCGTATTTCCAGAAACAT
1 ATATCATATCAGAATGTCATATTTCCAGAAACAT
* * * * *
10236745 AT-GCTAGATTAGAATGTCATATTTTCATAAACAT
1 ATATC-ATATCAGAATGTCATATTTCCAGAAACAT
*
10236779 ATAT-TTGATCAGAATGTCATAT
1 ATATCAT-ATCAGAATGTCATAT
10236801 CAAATCAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
33 1 0.01
34 72 0.99
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTTCCAGAAACAT
Found at i:10237651 original size:30 final size:30
Alignment explanation
Indices: 10237615--10237677 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
10237605 ATTTATTTTA
10237615 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
10237645 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
10237675 TTG
1 TTG
10237678 ATTGTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:10250921 original size:22 final size:22
Alignment explanation
Indices: 10250895--10250940 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10250885 CATCATCATC
10250895 AAAAATT-TAAATAAATTTATAA
1 AAAAATTGTAAA-AAATTTATAA
*
10250917 AAAAATTGTAAACAATTTATAA
1 AAAAATTGTAAAAAATTTATAA
10250939 AA
1 AA
10250941 TATAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAAATTGTAAAAAATTTATAA
Found at i:10256359 original size:17 final size:17
Alignment explanation
Indices: 10256337--10256370 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10256327 ACATACCAAT
10256337 TTTTATTTTATAAAATA
1 TTTTATTTTATAAAATA
*
10256354 TTTTATTTTATGAAATA
1 TTTTATTTTATAAAATA
10256371 ATATCATTTA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATTTTATAAAATA
Found at i:10256645 original size:18 final size:18
Alignment explanation
Indices: 10256559--10256645 Score: 54
Period size: 18 Copynumber: 4.7 Consensus size: 18
10256549 TCACATCATC
*
10256559 AATTAGTTAATTTTTAAAA
1 AATTAATTAA-TTTTAAAA
10256578 AATTAA--AATTATTAAAAA
1 AATTAATTAATT-TT-AAAA
** *
10256596 AATTATAAGAATTATAAAGA
1 AATTA-ATTAATTTTAAA-A
*
10256616 ATATT-TTTAATTTTAAAA
1 A-ATTAATTAATTTTAAAA
10256634 AATTAATTAATT
1 AATTAATTAATT
10256646 GCTAACGGGC
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
16 2 0.04
17 7 0.13
18 17 0.32
19 17 0.32
20 3 0.06
21 7 0.13
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AATTAATTAATTTTAAAA
Found at i:10260401 original size:31 final size:31
Alignment explanation
Indices: 10260354--10260466 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
10260344 TAAAAAATAT
* *
10260354 TTTAAA-AATTAAATATAATAATAAATGAGA
1 TTTAAATAATTTAATATAATAATAAATGAAA
* * * *
10260384 TTTAAATAATTTTATATAATGATAAATTATA
1 TTTAAATAATTTAATATAATAATAAATGAAA
* * * *
10260415 TTTAAATAATTTCATTTAATCATATATGAAAA
1 TTTAAATAATTTAATATAATAATAAATG-AAA
*
10260447 TTTAAATAATTCAATATAAT
1 TTTAAATAATTTAATATAAT
10260467 GGAATATAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
30 6 0.09
31 42 0.63
32 19 0.28
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATAATAAATGAAA
Found at i:10260423 original size:21 final size:20
Alignment explanation
Indices: 10260386--10260424 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10260376 AAATGAGATT
*
10260386 TAAATAATTTTATATAATGA
1 TAAATAATTTTAAATAATGA
*
10260406 TAAATTATATTTAAATAAT
1 TAAATAAT-TTTAAATAAT
10260425 TTCATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAATAATTTTAAATAATGA
Found at i:10261065 original size:15 final size:16
Alignment explanation
Indices: 10261044--10261097 Score: 74
Period size: 15 Copynumber: 3.3 Consensus size: 16
10261034 TTAGAATTGC
10261044 TATTTTTAGTGTTTGT
1 TATTTTTAGTGTTTGT
*
10261060 TATTTTTA-TGTTTGC
1 TATTTTTAGTGTTTGT
10261075 TATTTTTAAGTGTTTTGT
1 TATTTTT-AGTG-TTTGT
10261093 TATTT
1 TATTT
10261098 GAATTTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 13 0.39
16 9 0.27
17 2 0.06
18 9 0.27
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.69
Consensus pattern (16 bp):
TATTTTTAGTGTTTGT
Found at i:10261215 original size:30 final size:30
Alignment explanation
Indices: 10261179--10261235 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
10261169 TTGAATAATA
10261179 TTCATCAGTTCAGTTTTCTTTTCTTTTATC
1 TTCATCAGTTCAGTTTTCTTTTCTTTTATC
10261209 TTCATCAGTTCAGTTTTCTTTTCTTTT
1 TTCATCAGTTCAGTTTTCTTTTCTTTT
10261236 CTTTTCTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.12, C:0.19, G:0.07, T:0.61
Consensus pattern (30 bp):
TTCATCAGTTCAGTTTTCTTTTCTTTTATC
Found at i:10265335 original size:93 final size:93
Alignment explanation
Indices: 10265223--10265391 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
10265213 ACCCATAAGT
****
10265223 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10265288 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
10265316 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
10265381 CGAGTTCGGAT
66 CGAGCTCGGAT
10265392 ACTCAACCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:10265409 original size:46 final size:46
Alignment explanation
Indices: 10265215--10265395 Score: 197
Period size: 46 Copynumber: 3.9 Consensus size: 46
10265205 TGTAACCCAC
* **
10265215 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTCGCAT
* *
10265261 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT-ACTCG---CAT
* * * * * *
10265311 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTCGCAT
*
10265354 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTC
10265396 AACCATCCTA
Statistics
Matches: 111, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 70 0.63
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATACTCGCAT
Found at i:10267702 original size:197 final size:196
Alignment explanation
Indices: 10267367--10267761 Score: 754
Period size: 197 Copynumber: 2.0 Consensus size: 196
10267357 ACATCTTCGC
10267367 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
1 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
10267432 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
66 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
10267497 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGGAGCTTG
131 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAA-GAGCTTG
10267562 GT
195 GT
*
10267564 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTTGCTTTT
1 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
10267629 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
66 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
* *
10267694 AGGAAGACAAGTTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGAGCTTGG
131 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGAGCTTGG
10267759 T
196 T
10267760 AC
1 AC
10267762 AGTAAGATAG
Statistics
Matches: 195, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
196 11 0.06
197 184 0.94
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (196 bp):
ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGAGCTTGG
T
Found at i:10268818 original size:16 final size:17
Alignment explanation
Indices: 10268797--10268828 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10268787 TTTAGGACTC
10268797 CTATTTTTA-GTGTTTG
1 CTATTTTTAGGTGTTTG
10268813 CTATTTTTAGGTGTTT
1 CTATTTTTAGGTGTTT
10268829 TGTTATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (17 bp):
CTATTTTTAGGTGTTTG
Found at i:10272012 original size:46 final size:46
Alignment explanation
Indices: 10271945--10272035 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
10271935 TATATATATA
* *
10271945 TATATTTGTATTCTTGTTTTGGTCATCTAATTTTAAAAATTTTAAG
1 TATATTTGTATTCTTGTTTTGGTCATCCAATTTTAAAAAATTTAAG
* *
10271991 TATATTTGTGTTCTTGTTTTGGTCATCCCATTTTAAAAAATTTAA
1 TATATTTGTATTCTTGTTTTGGTCATCCAATTTTAAAAAATTTAA
10272036 TTTAGGTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (46 bp):
TATATTTGTATTCTTGTTTTGGTCATCCAATTTTAAAAAATTTAAG
Found at i:10272387 original size:20 final size:19
Alignment explanation
Indices: 10272354--10272391 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
10272344 TTTTAATTTA
10272354 ATAATAATTAAAATATTTTT
1 ATAATAATTAAAAT-TTTTT
10272374 ATAACTAATT-AAATTTTT
1 ATAA-TAATTAAAATTTTT
10272392 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATAATTAAAATTTTTT
Found at i:10283804 original size:12 final size:12
Alignment explanation
Indices: 10283787--10283811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10283777 GGGAAGAAAG
10283787 TTGATGGCCAGA
1 TTGATGGCCAGA
10283799 TTGATGGCCAGA
1 TTGATGGCCAGA
10283811 T
1 T
10283812 AATTCTTTAC
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:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TTGATGGCCAGA
Found at i:10288029 original size:52 final size:50
Alignment explanation
Indices: 10287963--10288193 Score: 213
Period size: 52 Copynumber: 4.6 Consensus size: 50
10287953 ATATGTGTGC
10287963 CCGTATAAGACCATAGATGGGCTATGGCATCGATGCATTATGATATGTGCAT
1 CCGTATAAGACCATAGATGGGCTATGGCATCGATG-A-TATGATATGTGCAT
* * * *
10288015 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCATTGTGATATGTAC-T
1 CCGTATAAGACCATAGATGGGCTATGGCATCGATG-A-TATGATATGTGCAT
* * * *
10288066 CCCGTATAAGACCATGGCTGGGCTATGGCATCGGTATGATGTGATAATGTGCCT
1 -CCGTATAAGACCATAGATGGGCTATGGCATC-G-ATGATATGAT-ATGTGCAT
* ** *
10288120 CCGTATAAGACCATATATATGATATGGCATCG--G-TATGATATGTG-AT
1 CCGTATAAGACCATAGATGGGCTATGGCATCGATGATATGATATGTGCAT
* *
10288166 CCGTGTAAGACCAT-GATAGGGCTCTGGC
1 CCGTATAAGACCATAGAT-GGGCTATGGC
10288194 TTCAGTGTGT
Statistics
Matches: 152, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 20 0.13
47 5 0.03
48 5 0.03
49 1 0.01
51 1 0.01
52 83 0.55
53 32 0.21
54 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
CCGTATAAGACCATAGATGGGCTATGGCATCGATGATATGATATGTGCAT
Found at i:10293847 original size:31 final size:31
Alignment explanation
Indices: 10293812--10293876 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
10293802 CGTGAAAGAA
10293812 AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
1 AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
*
10293843 AGTTTTACGGTTTGGTAGAAAGGGAAAGCTT
1 AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
10293874 AGT
1 AGT
10293877 CCATGATTTA
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:0.31, C:0.06, G:0.31, T:0.32
Consensus pattern (31 bp):
AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
Found at i:10295669 original size:52 final size:51
Alignment explanation
Indices: 10295591--10295796 Score: 216
Period size: 52 Copynumber: 3.9 Consensus size: 51
10295581 ACGGAGTAGA
* * *
10295591 TGTGATATGTGCACCCTTATAAGACCATAGCTGAGCTATGGCATTGGTACAT
1 TGTGATATGTGC-CCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAT
*
10295643 TGTGATATGTGCGCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
1 TGTGATATGTGC-CCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAT
* ** * * * * * *
10295695 TGTGATATATATTCCTGTATAAGACCATGGTTGGGCTATGGCTTCAGTATGA-
1 TGTGATATGT-GCCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA-CAT
* *
10295747 TGTGATAATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCGGTA
1 TGTGAT-ATGTGCC-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
10295797 TGATATGTGA
Statistics
Matches: 125, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
52 93 0.74
53 32 0.26
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGATATGTGCCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAT
Found at i:10299774 original size:16 final size:16
Alignment explanation
Indices: 10299755--10299787 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10299745 TTTCATATAA
10299755 TTCTATGTAAATATTT
1 TTCTATGTAAATATTT
*
10299771 TTCTATGTATATATTT
1 TTCTATGTAAATATTT
10299787 T
1 T
10299788 CCTCTAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTCTATGTAAATATTT
Found at i:10300500 original size:13 final size:13
Alignment explanation
Indices: 10300482--10300515 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10300472 TGCCATGTTA
10300482 ATTATTGTTGTAT
1 ATTATTGTTGTAT
*
10300495 ATTATTTTTGTAT
1 ATTATTGTTGTAT
10300508 -TTATTGTT
1 ATTATTGTT
10300516 CACCATCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (13 bp):
ATTATTGTTGTAT
Found at i:10302518 original size:40 final size:40
Alignment explanation
Indices: 10302463--10302544 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
10302453 TTTGTAAAAA
10302463 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
1 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
10302503 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
1 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
10302543 AA
1 AA
10302545 CTTTGAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (40 bp):
AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
Found at i:10310397 original size:15 final size:16
Alignment explanation
Indices: 10310377--10310406 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10310367 TCTCCTTGAA
10310377 TTTTGAAT-TTTTATT
1 TTTTGAATATTTTATT
10310392 TTTTGAATATTTTAT
1 TTTTGAATATTTTAT
10310407 GGTTTTAAAA
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:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTTGAATATTTTATT
Found at i:10311210 original size:25 final size:28
Alignment explanation
Indices: 10311157--10311214 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
10311147 TCATTATTTT
* *
10311157 ATATTATTTTTTTTTGTTTTTTAATAAA
1 ATATTATTTTTTATTGTTTATTAATAAA
10311185 ATATTATTTTTTATT-TTTATT-A-AAA
1 ATATTATTTTTTATTGTTTATTAATAAA
10311210 ATATT
1 ATATT
10311215 TAAATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 1 0.04
27 5 0.18
28 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (28 bp):
ATATTATTTTTTATTGTTTATTAATAAA
Found at i:10311759 original size:33 final size:33
Alignment explanation
Indices: 10311716--10311822 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 33
10311706 GTTTTTTATA
*
10311716 ATTATTTTAAAAATAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAAATAATTTGTTAGTAATTTAGG
*
10311749 ATTATGTTAAAAAT-TTTTG-T-GT--TTGTA--
1 ATTATGTTAAAAATAATTTGTTAGTAATT-TAGG
* * *
10311776 ATTATATTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAAATAATTTGTTAGTAATTTAGG
* *
10311809 ATTAAGTTATAAAT
1 ATTATGTTAAAAAT
10311823 TGTTGTGTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
27 12 0.21
28 5 0.09
29 3 0.05
30 4 0.07
31 3 0.05
32 6 0.11
33 23 0.41
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (33 bp):
ATTATGTTAAAAATAATTTGTTAGTAATTTAGG
Found at i:10311793 original size:60 final size:60
Alignment explanation
Indices: 10311714--10311832 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
10311704 TTGTTTTTTA
* * * *
10311714 TAATTATTTTAAAAATAATTTGTTAGTAATTTAGGATTATGTTAAAAATTTTTGTGTTTG
1 TAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTAAAAATTGTTGTGTTTG
* *
10311774 TAATTATATTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTAAAAATTGTTGTGTTT
10311833 AGTTTAGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (60 bp):
TAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTAAAAATTGTTGTGTTTG
Found at i:10317146 original size:132 final size:132
Alignment explanation
Indices: 10316994--10317282 Score: 384
Period size: 132 Copynumber: 2.2 Consensus size: 132
10316984 TAAGTATCCA
10316994 TTTAAAAATTCTTTAAAACGAAGGCGAAAT-CTGATATTT-GACAATTCGCGAAATAGTGCCCTA
1 TTTAAAAATTCTTTAAAACGAAGGCGAAATGC-GATATTTAG-CAATTCGCGAAATAGTGCCCTA
* * * * *
10317057 ACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATGTCCTTTCAATATTTCATTCAT
64 ACGTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCAT
10317122 GCCT
129 GCCT
* * ** * *
10317126 TTTAAAATTTCTTTAAAACGAAAGCGATGTGCGATATTTAGCAATTCGCGGAATCGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCGAAATGCGATATTTAGCAATTCGCGAAATAGTGCCCTAAC
* * * *
10317191 GTGTTGGGTTGCAATTCCGTGTTCGCTTAAAATAATCGAATATCCCTTCAAAATTTCATTTATGT
66 GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGC
10317256 CT
131 CT
* * *
10317258 TCTAAAAATTATTTAAAACAAAGGC
1 TTTAAAAATTCTTTAAAACGAAGGC
10317283 AATATTCGGC
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
132 133 0.99
133 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCGAAATGCGATATTTAGCAATTCGCGAAATAGTGCCCTAAC
GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGC
CT
Found at i:10326892 original size:53 final size:53
Alignment explanation
Indices: 10326812--10326919 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
10326802 CCTAAGTTGA
* *
10326812 TTGATTATCGAAAACTGGTCCTTGAATTGGTTAAAGAGTTCGACGACATTACC
1 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
10326865 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
1 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
10326918 TT
1 TT
10326920 CCACTACCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (53 bp):
TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
Found at i:10329331 original size:44 final size:44
Alignment explanation
Indices: 10329256--10329658 Score: 549
Period size: 44 Copynumber: 9.2 Consensus size: 44
10329246 TGGCGAATCC
* * * *
10329256 AGCAAATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
*
10329300 AGTAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * * *
10329344 AGCAGATTTAGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* *
10329388 AGCAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
*
10329432 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * *
10329476 AGCAGATTTGCCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * *
10329520 AGTAGATTTGGCGTCTCTGTATTGGC-GAAGAGCAGATCAAATAT
1 AGCAGATTTGGCATCTCTGTATTGGCAG-AGAGCAGATCAAAGAT
* * *
10329564 AGCAGATTTGGCATATCTGTATTGGCGGAGAGCAGATCAAAAAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * * *
10329608 AGCAGATTTGACATCTCTG-ATGGGCGGAGAACAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
*
10329651 AACAGATT
1 AGCAGATT
10329659 GGTGTTCCCG
Statistics
Matches: 318, Mismatches: 39, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
43 29 0.09
44 288 0.91
45 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.25
Consensus pattern (44 bp):
AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
Found at i:10332813 original size:132 final size:132
Alignment explanation
Indices: 10332502--10332795 Score: 403
Period size: 132 Copynumber: 2.2 Consensus size: 132
10332492 TAAGTATCCA
*
10332502 TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCAATATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
* * * * *
10332567 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATGTCCCTTCAAGATTTCATTCATGC
66 GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATAC
10332632 CT
131 CT
* * * * * *
10332634 TTAAAAAATTCTTTAAAACGAAGGCGATGTGCGATATTT-AGCAATTCGCGGAATCGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAATATCCGATATTTGA-CAATTCGCAGAATAGTGCCCTAA
* * *
10332698 CGTGTTGGGTTGCAATTCCGTGTTCGCTTAAAATAATCGAATATCCCTTCAAAATTTCATTTATA
65 CGTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATA
*
10332763 TCT
130 CCT
*
10332766 TTTAAAAATTATTTAAAA-GAAAGGCAATAT
1 TTTAAAAATTCTTTAAAACG-AAGGCAATAT
10332796 TCGGCGTTTG
Statistics
Matches: 140, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
131 2 0.01
132 138 0.99
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCAATATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATAC
CT
Found at i:10333155 original size:130 final size:130
Alignment explanation
Indices: 10332922--10333155 Score: 326
Period size: 130 Copynumber: 1.8 Consensus size: 130
10332912 CTTAAAAGAC
* * *
10332922 GAAGACAATGTTCAATGTTTGGCAATTTGAGAATCGTGCCCTACCATGCTGGGTTGCGCTTTTTC
1 GAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGAGTTGCGCTTTTTC
* * *
10332987 ATTGGTCCGAAACAATTAAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAATCTTTCAAAAT
66 ATTGGTCCAAAACAATCAAAGATCCCTTCGGAAGTTCACTCACATTTTCTAAAATCTTTCAAAAT
* * * *
10333052 GAAGACGATATTCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGAGTTGCGCTTTTTC
1 GAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGAGTTGCGCTTTTTC
* * * *
10333117 ATTTGTCCAAAATAATCGAATATCTCCTT-GGAAGTTCAC
66 ATTGGTCCAAAACAATCAAAGATC-CCTTCGGAAGTTCAC
10333156 ACGTATTTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 85 0.96
131 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (130 bp):
GAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGAGTTGCGCTTTTTC
ATTGGTCCAAAACAATCAAAGATCCCTTCGGAAGTTCACTCACATTTTCTAAAATCTTTCAAAAT
Found at i:10336253 original size:27 final size:27
Alignment explanation
Indices: 10336221--10336298 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
10336211 ACGTATGGGC
*
10336221 ACCATTTGCGCCTCTGGGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
10336248 ACCATTTGCGCCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
* *
10336275 ACCATTTGCGCCTCAGAGAAAGGC
1 ACCATTTGCGCCTCTGAGATAGGC
10336299 TCGATTAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCACA
Found at i:10345912 original size:15 final size:14
Alignment explanation
Indices: 10345893--10345927 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10345883 TCAAAAATAG
*
10345893 AAAATTCAAAGAAA
1 AAAATTAAAAGAAA
10345907 ATAAATTAAAAGAAA
1 A-AAATTAAAAGAAA
10345922 AAAATT
1 AAAATT
10345928 TATTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (14 bp):
AAAATTAAAAGAAA
Found at i:10346455 original size:14 final size:14
Alignment explanation
Indices: 10346423--10346470 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10346413 CAAATTTTAA
* *
10346423 AAAATGTAATAACT
1 AAAATATAAAAACT
10346437 AAAA-ATAATCAAACT
1 AAAATATAA--AAACT
10346452 AAAATATAAAAACT
1 AAAATATAAAAACT
10346466 AAAAT
1 AAAAT
10346471 CACAATGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 3 0.10
14 14 0.48
15 8 0.28
16 4 0.14
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (14 bp):
AAAATATAAAAACT
Found at i:10347893 original size:147 final size:148
Alignment explanation
Indices: 10347625--10347931 Score: 546
Period size: 147 Copynumber: 2.1 Consensus size: 148
10347615 ACTTTTAGAG
* *
10347625 TTTGATTTTTATGCATCTAATTTTATCACTAGCTATAAATTTACATCAGCTGGTCAAACACCAAC
1 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
*
10347690 TATTTGCCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
66 TATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
10347755 TCCAACGTGGAGGCAGAA
131 TCCAACGTGGAGGCAGAA
*
10347773 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACT-GTCAAAGACC-AC
1 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
10347836 TTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCC
66 -TATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCC
*
10347901 CTCCAATGTGGAGGCAGAA
130 CTCCAACGTGGAGGCAGAA
10347920 TTTGATTTTGAT
1 TTTGATTTTGAT
10347932 ACACTAGCTA
Statistics
Matches: 153, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 2 0.01
147 102 0.67
148 49 0.32
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (148 bp):
TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
TATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
TCCAACGTGGAGGCAGAA
Found at i:10348002 original size:31 final size:32
Alignment explanation
Indices: 10347966--10348029 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
10347956 TTGGTCAAAC
10347966 ACCACCTATTTACCTCGTAAAA-AATCATAAG
1 ACCACCTATTTACCTCGTAAAACAATCATAAG
*
10347997 ACCACCTATTTACCTCGTAAAACAATTATAAG
1 ACCACCTATTTACCTCGTAAAACAATCATAAG
10348029 A
1 A
10348030 AATCATCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (32 bp):
ACCACCTATTTACCTCGTAAAACAATCATAAG
Found at i:10349500 original size:62 final size:62
Alignment explanation
Indices: 10349410--10349544 Score: 189
Period size: 62 Copynumber: 2.2 Consensus size: 62
10349400 AGTGTGTGTT
* * *
10349410 CGGGCCGTATAACTCACTGTTTATGGTATAAGACCACACGACCAGGGACACGGGCGTGTGCC
1 CGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGGGACACGGGCGTGTGCC
** * * **
10349472 TTGGCCGTGTAACTCACTATTTATGGTATAAAACTATACGGTCAGGGACACGGGCGTGTGCC
1 CGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGGGACACGGGCGTGTGCC
10349534 CGGGCCGTGTA
1 CGGGCCGTGTA
10349545 CCCGGGCCGT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (62 bp):
CGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGGGACACGGGCGTGTGCC
Found at i:10349537 original size:12 final size:13
Alignment explanation
Indices: 10349522--10349557 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
10349512 GTCAGGGACA
10349522 CGGG-CGTGTGCC
1 CGGGCCGTGTGCC
*
10349534 CGGGCCGTGTACC
1 CGGGCCGTGTGCC
10349547 CGGGCCGTGTG
1 CGGGCCGTGTG
10349558 ATTCATACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.03, C:0.33, G:0.47, T:0.17
Consensus pattern (13 bp):
CGGGCCGTGTGCC
Found at i:10351785 original size:26 final size:24
Alignment explanation
Indices: 10351754--10351802 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
10351744 AATAAAAAAT
*
10351754 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
10351780 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
10351803 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:10351822 original size:21 final size:22
Alignment explanation
Indices: 10351789--10351831 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10351779 ATTTAAAAAC
* *
10351789 ATAAAAATAAATATTAAGACAA
1 ATAAAAATAAATACTAAAACAA
10351811 ATAAAAAT-AATACTAAAACAA
1 ATAAAAATAAATACTAAAACAA
10351832 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (22 bp):
ATAAAAATAAATACTAAAACAA
Found at i:10354410 original size:40 final size:41
Alignment explanation
Indices: 10354292--10354410 Score: 181
Period size: 40 Copynumber: 3.0 Consensus size: 41
10354282 GTACATAGCC
* * *
10354292 GAAG-CTATCTCAAATCGCACACTTAGTGCCATATATAGCT
1 GAAGTCTATCTCGAATCGCACACTAAGTGCCATATATAGTT
*
10354332 GAAGT-TATCTCGAATCGCATACTAAGTGCCATATATAGTT
1 GAAGTCTATCTCGAATCGCACACTAAGTGCCATATATAGTT
10354372 GAA-TCTATCTCGAATCGCACACTAAGTGCCATATATAGT
1 GAAGTCTATCTCGAATCGCACACTAAGTGCCATATATAGT
10354411 CGATTTGTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (41 bp):
GAAGTCTATCTCGAATCGCACACTAAGTGCCATATATAGTT
Found at i:10354425 original size:40 final size:40
Alignment explanation
Indices: 10354297--10354426 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
10354287 TAGCCGAAGC
* * *
10354297 TATCTCAAATCGCACACTTAGTGCCATATATAG-CTGAAGT
1 TATCTCGAATCGCACACTAAGTGCCATATATAGTC-GAATT
* * *
10354337 TATCTCGAATCGCATACTAAGTGCCATATATAGTTGAATC
1 TATCTCGAATCGCACACTAAGTGCCATATATAGTCGAATT
10354377 TATCTCGAATCGCACACTAAGTGCCATATATAGTCG-ATT
1 TATCTCGAATCGCACACTAAGTGCCATATATAGTCGAATT
*
10354416 TGTCTTCGAAT
1 TATC-TCGAAT
10354427 ATAACTGTAG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.06
40 73 0.94
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (40 bp):
TATCTCGAATCGCACACTAAGTGCCATATATAGTCGAATT
Found at i:10357654 original size:21 final size:21
Alignment explanation
Indices: 10357589--10357655 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
10357579 GAGGTCAAGG
*
10357589 TCGTGTGACTAAAACACA-GC
1 TCGTGTGGCTAAAACACACGC
* * * * *
10357609 CCGTGTGGCTAAGATATACGG
1 TCGTGTGGCTAAAACACACGC
10357630 TCGTGTGGCTAAAACACACGC
1 TCGTGTGGCTAAAACACACGC
10357651 TCGTG
1 TCGTG
10357656 CACGATTGAA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (21 bp):
TCGTGTGGCTAAAACACACGC
Found at i:10359409 original size:14 final size:15
Alignment explanation
Indices: 10359377--10359415 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
10359367 ATAGTTGTGG
10359377 GTAACTAATTACAAA
1 GTAACTAATTACAAA
*
10359392 -TAAC-AATTATAAA
1 GTAACTAATTACAAA
10359405 GTAACTAATTA
1 GTAACTAATTA
10359416 AAATTGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (15 bp):
GTAACTAATTACAAA
Found at i:10360464 original size:20 final size:20
Alignment explanation
Indices: 10360439--10360477 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10360429 CTCAATTCCT
10360439 TGTTTCTGCAGTCATTGGTC
1 TGTTTCTGCAGTCATTGGTC
10360459 TGTTTCTGCAGTCATTGGT
1 TGTTTCTGCAGTCATTGGT
10360478 TAATATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.46
Consensus pattern (20 bp):
TGTTTCTGCAGTCATTGGTC
Found at i:10368320 original size:33 final size:32
Alignment explanation
Indices: 10368281--10368344 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
10368271 TAGCAAAATT
* *
10368281 AACAACAGAATAATAATTATACAATATCCAAAC
1 AACAACAAAATAATAATAATACAATA-CCAAAC
* *
10368314 AACAACAAAATAGTAATAATATAATACCAAA
1 AACAACAAAATAATAATAATACAATACCAAA
10368345 ATGGCAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.61, C:0.16, G:0.03, T:0.20
Consensus pattern (32 bp):
AACAACAAAATAATAATAATACAATACCAAAC
Found at i:10373624 original size:20 final size:20
Alignment explanation
Indices: 10373599--10373639 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
10373589 TTAAATAAGG
10373599 ATTCAGGTCACTTAATTCTA
1 ATTCAGGTCACTTAATTCTA
10373619 ATTCAGGTCACTTAATTCTA
1 ATTCAGGTCACTTAATTCTA
10373639 A
1 A
10373640 CATATCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (20 bp):
ATTCAGGTCACTTAATTCTA
Found at i:10379424 original size:16 final size:17
Alignment explanation
Indices: 10379388--10379424 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10379378 TTGTATTTAA
10379388 ATAA-TAATATAAAATC
1 ATAATTAATATAAAATC
10379404 A-AATTAATATAAAAT-
1 ATAATTAATATAAAATC
10379419 ATAATT
1 ATAATT
10379425 GTTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATTAATATAAAATC
Found at i:10390255 original size:18 final size:16
Alignment explanation
Indices: 10390228--10390276 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
10390218 AAATTAAAAT
10390228 AAATATTTAAAATTTACA
1 AAATA-TTAAAATTTA-A
10390246 AAATTATTAAAATTATAA
1 AAA-TATTAAAATT-TAA
10390264 AAATA-TAAAATTT
1 AAATATTAAAATTT
10390277 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.03
16 7 0.24
17 2 0.07
18 15 0.52
19 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATTAAAATTTAA
Found at i:10390683 original size:29 final size:29
Alignment explanation
Indices: 10390627--10390688 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
10390617 AAAAATTACA
**
10390627 AAAAAATTATTAAAATTATTAAAAAATAG
1 AAAAAATTATTAAAATTACAAAAAAATAG
*
10390656 AAAAAATTA-TAAAATTACAAAAACAATAT
1 AAAAAATTATTAAAATTACAAAAA-AATAG
10390685 AAAA
1 AAAA
10390689 TATAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (29 bp):
AAAAAATTATTAAAATTACAAAAAAATAG
Found at i:10391169 original size:12 final size:11
Alignment explanation
Indices: 10391142--10391171 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
10391132 ATTTTTTTGT
10391142 AATTTTTAAAG
1 AATTTTTAAAG
10391153 AATTTTTAAAG
1 AATTTTTAAAG
10391164 ATATTTTT
1 A-ATTTTT
10391172 GAATGATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
AATTTTTAAAG
Found at i:10391349 original size:27 final size:27
Alignment explanation
Indices: 10391311--10391372 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
10391301 GGATTGGAAT
*
10391311 GGGTAAAAGAACTTTAAGGACTAAAGC
1 GGGTAAAAGAACTTTAAGGACCAAAGC
*
10391338 GGGTAAAAGAACTTTAAGGACCAAAGT
1 GGGTAAAAGAACTTTAAGGACCAAAGC
*
10391365 GGGAAAAA
1 GGGTAAAA
10391373 CAGTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.27, T:0.16
Consensus pattern (27 bp):
GGGTAAAAGAACTTTAAGGACCAAAGC
Found at i:10401999 original size:13 final size:13
Alignment explanation
Indices: 10401978--10402034 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
10401968 AAATTTTTCC
10401978 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
10401991 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
10402004 AAAGCACTTTTCC
1 AAAGCACTTCTCA
* *
10402017 ACAGCACTTTTCA
1 AAAGCACTTCTCA
10402030 AAAGC
1 AAAGC
10402035 GATGAAGAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.37, C:0.28, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:10413615 original size:42 final size:42
Alignment explanation
Indices: 10413506--10413636 Score: 113
Period size: 42 Copynumber: 3.0 Consensus size: 42
10413496 TTCGATGTGT
* * *
10413506 TTTCGTGTAAGACCAC-GTCTAGGACGTTGGCATCG-ATTTGAGA
1 TTTCGTGTAAGACC-CTATCTGGGACATTGGCATCGTATTT--GA
* ** * *
10413549 TTTACTTGTAAGACTATATATGGGACATTGGCATCGTATATGA
1 TTT-CGTGTAAGACCCTATCTGGGACATTGGCATCGTATTTGA
* *
10413592 TTTCGTGTAAGACCCTATCTGGGATAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCCTATCTGGGACATTGGCATCG-TATTTGA
10413635 TT
1 TT
10413637 ACATATAAGA
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
42 26 0.38
43 16 0.23
44 24 0.35
45 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTATCTGGGACATTGGCATCGTATTTGA
Found at i:10425940 original size:6 final size:5
Alignment explanation
Indices: 10425911--10426004 Score: 77
Period size: 6 Copynumber: 17.8 Consensus size: 5
10425901 TATGTCTTTC
* *
10425911 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
10425959 AAAAAT AAAAT -AAAT AAAAT AGAAAT AAAAT AAAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT -AAAAT AAAAT AAAA
10426005 AAATAGGAGG
Statistics
Matches: 74, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 31 0.42
6 36 0.49
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:10429338 original size:24 final size:24
Alignment explanation
Indices: 10429300--10429426 Score: 179
Period size: 23 Copynumber: 5.4 Consensus size: 24
10429290 CTGGAAGCCT
*
10429300 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
10429325 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
10429349 AGCCC-TTTAATAACT-GGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
* *
10429371 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
10429395 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
10429418 AGCCCTTTT
1 AGCCCTTTT
10429427 TCACTTCCTC
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
22 11 0.12
23 39 0.43
24 37 0.41
25 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:10429385 original size:46 final size:47
Alignment explanation
Indices: 10429307--10429426 Score: 197
Period size: 46 Copynumber: 2.6 Consensus size: 47
10429297 CCTAGCCTCT
* * *
10429307 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
*
10429354 TTTAATAACT-GGGCGTAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
10429400 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
10429427 TCACTTCCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 42 0.63
47 25 0.37
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
Found at i:10429506 original size:20 final size:20
Alignment explanation
Indices: 10429481--10429536 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10429471 AATACATCAT
10429481 GTGCATATCATACATATAAC
1 GTGCATATCATACATATAAC
* * *
10429501 GTGCATATCATACATGTCAT
1 GTGCATATCATACATATAAC
*
10429521 ATGCATATCATACATA
1 GTGCATATCATACATA
10429537 CCATGTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (20 bp):
GTGCATATCATACATATAAC
Found at i:10440582 original size:34 final size:34
Alignment explanation
Indices: 10440543--10440611 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
10440533 ATTGTCCAAA
10440543 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
1 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
10440577 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
1 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
10440611 T
1 T
10440612 ACTTTCTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (34 bp):
TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
Found at i:10446316 original size:17 final size:17
Alignment explanation
Indices: 10446267--10446358 Score: 66
Period size: 17 Copynumber: 5.5 Consensus size: 17
10446257 AGTAAATGAA
*
10446267 AGAAAAAGGAATGAAAT
1 AGAAAAAGGAAAGAAAT
*
10446284 A-AAAGAAAGAAAGAAAT
1 AGAAA-AAGGAAAGAAAT
* * *
10446301 AGAATAAGGAACGAAAC
1 AGAAAAAGGAAAGAAAT
* * *
10446318 AG-AGAAGGAAGGAAAG
1 AGAAAAAGGAAAGAAAT
10446334 A-AAGAAAGGAAAGAAA-
1 AGAA-AAAGGAAAGAAAT
10446350 AGAAAAAGG
1 AGAAAAAGG
10446359 GAAAATTAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
16 22 0.37
17 35 0.59
18 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.27, T:0.04
Consensus pattern (17 bp):
AGAAAAAGGAAAGAAAT
Found at i:10447064 original size:26 final size:24
Alignment explanation
Indices: 10447034--10447083 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
10447024 AAATAAAAAA
*
10447034 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
10447060 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
10447084 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:10447103 original size:21 final size:20
Alignment explanation
Indices: 10447023--10447112 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 20
10447013 CTTATTTCAT
10447023 TAAATAAAAAAAT-TTAAAAA
1 TAAATAAAAAAATATT-AAAA
10447043 TATAATAAATCAAATATATTTAAAA
1 TA-AATAAA--AAA-ATA-TTAAAA
*
10447068 -ACATAAAAACAAATATTAAAA
1 TAAAT-AAAA-AAATATTAAAA
*
10447089 TAAATAAAAATAATACTAAAA
1 TAAATAAAAA-AATATTAAAA
10447110 TAA
1 TAA
10447113 TTCTTAAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
20 3 0.05
21 28 0.49
22 7 0.12
23 7 0.12
24 6 0.11
25 4 0.07
26 2 0.04
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAATAAAAAAATATTAAAA
Found at i:10447952 original size:6 final size:6
Alignment explanation
Indices: 10447938--10447967 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10447928 TATGTACCGC
*
10447938 TACTGT TACTAT TACTGT TACTGT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT
10447968 GTATCCTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:10448155 original size:24 final size:22
Alignment explanation
Indices: 10448109--10448155 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
10448099 ATTTGACTGT
* *
10448109 TACTGAATAAATGATTGACTGA
1 TACTGAATAAATGATTAAATGA
10448131 TACTGAATAATAATGATTAAATGA
1 TACTGAAT-A-AATGATTAAATGA
10448155 T
1 T
10448156 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 12 0.57
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (22 bp):
TACTGAATAAATGATTAAATGA
Found at i:10456165 original size:47 final size:48
Alignment explanation
Indices: 10456004--10456181 Score: 211
Period size: 49 Copynumber: 3.7 Consensus size: 48
10455994 GGATAAGTTA
* *
10456004 CCGATGCCATGTCCCAAACATGGTCTTACACTGGTTATCATCATCGAGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
* * * * *
10456053 CCGATGCCATGTCCCTGACATGGTCTTGCACTAGCTGTCTTAT-ATACG-TG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC--ATCAT-CGAGG
10456103 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
*
10456150 CCAATGCATGTCCCAGACAT-GTCTTACACTGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGG
10456182 TACACAATCA
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
46 4 0.04
47 34 0.31
48 14 0.13
49 46 0.41
50 9 0.08
51 4 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGG
Found at i:10467719 original size:35 final size:35
Alignment explanation
Indices: 10467680--10467789 Score: 89
Period size: 35 Copynumber: 3.1 Consensus size: 35
10467670 CCATGGTTGG
* *
10467680 TCCATGGAAAAG-TGTGAAACTTAGGTATGGTATCA
1 TCCAT-GAAAAGTTGTGAAACGTAGATATGGTATCA
** *
10467715 TCCATGCCAAGTTGTGAAACGTAGATATGGTATTA
1 TCCATGAAAAGTTGTGAAACGTAGATATGGTATCA
* ** * * *
10467750 ACCAT-ACCGAGTTGTGAAAAGTAGGTATGGTATTA
1 TCCATGA-AAAGTTGTGAAACGTAGATATGGTATCA
10467785 TCCAT
1 TCCAT
10467790 ACTGAGTTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 4 0.06
35 58 0.94
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.30
Consensus pattern (35 bp):
TCCATGAAAAGTTGTGAAACGTAGATATGGTATCA
Found at i:10467814 original size:70 final size:70
Alignment explanation
Indices: 10467692--10467853 Score: 198
Period size: 70 Copynumber: 2.3 Consensus size: 70
10467682 CATGGAAAAG
** * * ** * *
10467692 TGTGAAACTTAGGTATGGTATCATCCATGCCAAGTTGTGAAACGTAGATATGGTATTAACCATAC
1 TGTGAAAAGTAGGTATGGTATTATCCATACCAAGTTAAGAAACATAGATATGGCATTAACCATAC
10467757 CGAGT
66 CGAGT
** * **
10467762 TGTGAAAAGTAGGTATGGTATTATCCATACTGAGTTAAGAAACATAGGTATGGCATTTCCCATAC
1 TGTGAAAAGTAGGTATGGTATTATCCATACCAAGTTAAGAAACATAGATATGGCATTAACCATAC
10467827 CGAGT
66 CGAGT
*
10467832 TGTGAAATGTAGGTATGGTATT
1 TGTGAAAAGTAGGTATGGTATT
10467854 TCAATGAGGA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (70 bp):
TGTGAAAAGTAGGTATGGTATTATCCATACCAAGTTAAGAAACATAGATATGGCATTAACCATAC
CGAGT
Found at i:10467855 original size:35 final size:34
Alignment explanation
Indices: 10467692--10467855 Score: 175
Period size: 35 Copynumber: 4.7 Consensus size: 34
10467682 CATGGAAAAG
* * * *
10467692 TGTGAAACTTAGGTATGGTATCATCCATGCCAAGT
1 TGTGAAACGTAGGTATGGTAT-TTCCATACCGAGT
* *
10467727 TGTGAAACGTAGATATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATT-TCCATACCGAGT
* *
10467762 TGTGAAAAGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATT-TCCATACCGAGT
** * *
10467797 TAAGAAACATAGGTATGGCATTTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTT-CCATACCGAGT
*
10467832 TGTGAAATGTAGGTATGGTATTTC
1 TGTGAAACGTAGGTATGGTATTTC
10467856 AATGAGGAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
34 2 0.02
35 104 0.98
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (34 bp):
TGTGAAACGTAGGTATGGTATTTCCATACCGAGT
Found at i:10467998 original size:31 final size:31
Alignment explanation
Indices: 10467953--10468040 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 31
10467943 GTAATTTGGC
*
10467953 CAGTGAGAAGTGGTAGCTCCGGCTACCTGAT
1 CAGTGAAAAGTGGTAGCTCCGGCTACCTGAT
*
10467984 CAGTGAAAAATGGTAGCTCCGGCTACCTGAT
1 CAGTGAAAAGTGGTAGCTCCGGCTACCTGAT
* *
10468015 CAGTGAATAGTGGTAGCTTCGGCTAC
1 CAGTGAAAAGTGGTAGCTCCGGCTAC
10468041 AAGTGACAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (31 bp):
CAGTGAAAAGTGGTAGCTCCGGCTACCTGAT
Found at i:10472369 original size:5 final size:5
Alignment explanation
Indices: 10472359--10472386 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10472349 ATCTTGTAAA
10472359 GATTT GATTT GATTT GATTT GATTT GAT
1 GATTT GATTT GATTT GATTT GATTT GAT
10472387 GTAATCTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (5 bp):
GATTT
Found at i:10479735 original size:13 final size:13
Alignment explanation
Indices: 10479719--10479751 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10479709 TTTAATTAAA
*
10479719 TTAGTTAATTAGT
1 TTAGATAATTAGT
10479732 TTAGATAATTAGT
1 TTAGATAATTAGT
10479745 TTA-ATAA
1 TTAGATAA
10479752 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:10481125 original size:86 final size:85
Alignment explanation
Indices: 10480917--10481160 Score: 273
Period size: 85 Copynumber: 2.8 Consensus size: 85
10480907 AACCAAATGG
* * *
10480917 TGGCGCCATTTAGAATGGCTACACCAAATAAAATATTAATTTTCAAAAATTTTAAATAAAA-AAA
1 TGGCGCCATTTAGAATGGCTTCACCAAAAAAAATA-TAA-TTT--AAAATATT--ATAAAACAAA
10480981 TAAATTTAAAAAACATTTAAATGAACTAA
60 T-AA--TAAAAAACATTTAAATGAACTAA
10481010 TGGCGCCATTTAGAATGGC-TCTACCAAAAAAAATATACATTTAAAATATTATAAAACAAATAAT
1 TGGCGCCATTTAGAATGGCTTC-ACCAAAAAAAATATA-ATTTAAAATATTATAAAACAAATAAT
* *
10481074 AAAAAA-AGTTTAAATTAACTGGA
64 AAAAAACA-TTTAAATGAACT-AA
*
10481097 -GGCGCCATTTAGAATGGCTTCA-CAAAAAATATATATATTTAAAATATTATAAAACAAATAATA
1 TGGCGCCATTTAGAATGGCTTCACCAAAAAAAATATA-ATTTAAAATATTATAAAACAAATAATA
10481160 A
65 A
10481161 TAATAAAAAA
Statistics
Matches: 138, Mismatches: 7, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
85 41 0.30
86 37 0.27
87 3 0.02
88 8 0.06
89 4 0.03
90 7 0.05
92 6 0.04
93 32 0.23
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (85 bp):
TGGCGCCATTTAGAATGGCTTCACCAAAAAAAATATAATTTAAAATATTATAAAACAAATAATAA
AAAACATTTAAATGAACTAA
Found at i:10482762 original size:43 final size:43
Alignment explanation
Indices: 10482714--10482800 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
10482704 ATATAAAGAA
*
10482714 AACCCAAAACTTCTGAAGGGAAATTGAGGAGCGATCTTCAGTC
1 AACCCAAAACTTCTGAAGGGAAATTGAGGAGAGATCTTCAGTC
10482757 AACCCAAAACTTCTGAAGGGAAATTGAGGAGAGATCTTCAGTC
1 AACCCAAAACTTCTGAAGGGAAATTGAGGAGAGATCTTCAGTC
10482800 A
1 A
10482801 TGATGATGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (43 bp):
AACCCAAAACTTCTGAAGGGAAATTGAGGAGAGATCTTCAGTC
Found at i:10483178 original size:19 final size:19
Alignment explanation
Indices: 10483145--10483183 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10483135 TGAGTTCGTA
*
10483145 TTTTGGCCCATTTTCTCTGT
1 TTTTGGCCCAGTTTCT-TGT
10483165 TTTTGGCCC-GTTTCTTGT
1 TTTTGGCCCAGTTTCTTGT
10483183 T
1 T
10483184 CCTTTCGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.03, C:0.23, G:0.18, T:0.56
Consensus pattern (19 bp):
TTTTGGCCCAGTTTCTTGT
Found at i:10483696 original size:12 final size:12
Alignment explanation
Indices: 10483679--10483709 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10483669 CATTTATAGT
*
10483679 CAAATACATCGC
1 CAAATACATCAC
10483691 CAAATACATCAC
1 CAAATACATCAC
10483703 CAAATAC
1 CAAATAC
10483710 TACCTACTAC
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:0.48, C:0.32, G:0.03, T:0.16
Consensus pattern (12 bp):
CAAATACATCAC
Found at i:10499521 original size:33 final size:33
Alignment explanation
Indices: 10499479--10499550 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
10499469 ACCGACACAG
*
10499479 AACAAAACCAGAAATATATATTTCAATTAAAAC
1 AACAGAACCAGAAATATATATTTCAATTAAAAC
10499512 AACAGAACCAGAAATATATATTTCAATTAAAAC
1 AACAGAACCAGAAATATATATTTCAATTAAAAC
10499545 AACAGA
1 AACAGA
10499551 GTTCAACGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.57, C:0.15, G:0.06, T:0.22
Consensus pattern (33 bp):
AACAGAACCAGAAATATATATTTCAATTAAAAC
Found at i:10500073 original size:7 final size:7
Alignment explanation
Indices: 10500061--10500105 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
10500051 GGAGCTCACA
10500061 TGAAGGC
1 TGAAGGC
10500068 TGAAGGC
1 TGAAGGC
10500075 TGAAGGC
1 TGAAGGC
*
10500082 TGGAGGC
1 TGAAGGC
10500089 TGAAGGC
1 TGAAGGC
10500096 TGAAGG-
1 TGAAGGC
10500102 TGAA
1 TGAA
10500106 AGGGTTTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 4 0.11
7 32 0.89
ACGTcount: A:0.29, C:0.11, G:0.44, T:0.16
Consensus pattern (7 bp):
TGAAGGC
Done.