Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 101 of 322
Found at i:32818732 original size:7 final size:7
Alignment explanation
Indices: 32818713--32818759 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
32818703 ATCCAAACAA
32818713 AATAAAGT
1 AATAAA-T
32818721 AATAAAT
1 AATAAAT
32818728 AAT-AA-
1 AATAAAT
32818733 AATAAAAT
1 AAT-AAAT
32818741 AATAAAT
1 AATAAAT
32818748 AATAAA-
1 AATAAAT
32818754 AATAAA
1 AATAAA
32818760 ATTTGGGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 3 0.08
6 8 0.22
7 16 0.44
8 9 0.25
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:32818736 original size:20 final size:21
Alignment explanation
Indices: 32818711--32818761 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
32818701 ATATCCAAAC
*
32818711 AAAATAAAGTAATAAATAAT-
1 AAAATAAAATAATAAATAATA
32818731 AAAATAAAATAATAAATAATA
1 AAAATAAAATAATAAATAATA
32818752 AAAATAAAAT
1 AAAATAAAAT
32818762 TTGGGTTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAATAAAATAATAAATAATA
Found at i:32818755 original size:16 final size:13
Alignment explanation
Indices: 32818724--32818761 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
32818714 ATAAAGTAAT
32818724 AAATAATAAAATA
1 AAATAATAAAATA
32818737 AAATAAT-AAATA
1 AAATAATAAAATA
*
32818749 ATAAAAATAAAAT
1 A-AATAATAAAAT
32818762 TTGGGTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 6 0.27
13 12 0.55
14 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:32819282 original size:34 final size:34
Alignment explanation
Indices: 32819239--32819307 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
32819229 TTCATTCAGG
* *
32819239 TGACTAATAGTGTCATAAACGTTAAACTTCACGA
1 TGACTAATAGCGTCATAAACATTAAACTTCACGA
32819273 TGACTAATAGCGTCATAAACATTAAACTTCACGA
1 TGACTAATAGCGTCATAAACATTAAACTTCACGA
32819307 T
1 T
32819308 CTCCTCGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (34 bp):
TGACTAATAGCGTCATAAACATTAAACTTCACGA
Found at i:32822306 original size:3 final size:3
Alignment explanation
Indices: 32822293--32822344 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
32822283 TTTAGTTTAG
*
32822293 TAT TA- TAT TAT TAT TAT TAT TGT TAT TAT TAT T-T TAT T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32822337 TAAT TAT T
1 T-AT TAT T
32822345 GAAGGCACGT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 8 0.19
3 32 0.76
4 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:32827192 original size:27 final size:26
Alignment explanation
Indices: 32827134--32827447 Score: 303
Period size: 27 Copynumber: 11.7 Consensus size: 26
32827124 TTAGTTTACC
* *
32827134 AAATTACTGAAATACCCTC-AATTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
* *
32827160 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAA-TACCCTCGATTTGTA
*
32827187 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
*
32827214 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACC-AAATACCCTCGA-TTTGTA
*
32827241 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
* *
32827268 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
* *
32827295 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAA-TACCCTCGATTTGTA
*
32827322 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
**
32827349 AAATTACCGAAATACCCTCGATCAGTA
1 AAATTACC-AAATACCCTCGATTTGTA
* *
32827376 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTAC-CAAATACCCTC-GATTTGTA
* *
32827403 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACC-AAATACCCTC-GATTTGTA
32827430 AAATTACCGAAATACCCT
1 AAATTACC-AAATACCCT
32827448 TGTAGGATAG
Statistics
Matches: 243, Mismatches: 31, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
25 3 0.01
26 22 0.09
27 207 0.85
28 11 0.05
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:32827270 original size:81 final size:81
Alignment explanation
Indices: 32827134--32827474 Score: 345
Period size: 81 Copynumber: 4.2 Consensus size: 81
32827124 TTAGTTTACC
* * * * *
32827134 AAATTACTGAAATACCCTCA-ATTGTAAAATTA-CCAAAGTACCCCCGATTTATAAAATTACCCA
1 AAATTACCGAAATACCCTCAGTTTGTAAAATTACCCAAA-TACCCTCGATTTGTAAAATTACCGA
*
32827197 AATATCCTCGATTTGTA
65 AATACCCTCGATTTGTA
* ** *
32827214 AAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAA
1 AAATTACCGAAATACCCTCAGTTTGTAAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAA
*
32827279 ATACCCTCGACTTGTA
66 ATACCCTCGATTTGTA
* * *
32827295 AAATTACC-AAAGTACCC-CCGATTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCG
1 AAATTACCGAAA-TACCCTCAG-TTTGTAAAATTACCCAAATACCCTCGATTTGTAAAATTACCG
**
32827358 AAATACCCTCGATCAGTA
64 AAATACCCTCGATTTGTA
** * * * *
32827376 AAATTACTAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCC-CTAATTTGTGAAATTACCG
1 AAATTACCGAAATACCCTC-AGTTTGTAAAATTACCCAAATACCCTC-GATTTGTAAAATTACCG
* **
32827439 AAATACCCTTG-TAGGATA
64 AAATACCCTCGATTTG-TA
*
32827457 GAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
32827475 TGTAGGGTAG
Statistics
Matches: 218, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
80 27 0.12
81 184 0.84
82 7 0.03
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAGTTTGTAAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAA
ATACCCTCGATTTGTA
Found at i:32827461 original size:27 final size:27
Alignment explanation
Indices: 32827431--32827545 Score: 167
Period size: 27 Copynumber: 4.3 Consensus size: 27
32827421 TAATTTGTGA
*
32827431 AATTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
32827458 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
32827485 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
32827512 AATTACCGAGATACCCTTGTAAGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
32827539 AATTACC
1 AATTACC
32827546 AGTTTGCCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:32827984 original size:6 final size:6
Alignment explanation
Indices: 32827953--32828040 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
32827943 TTGTATTCAC
* *
32827953 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
32828002 -TCACCTG ATTCTA ATTCTG TTTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
32828041 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:32827988 original size:31 final size:31
Alignment explanation
Indices: 32827953--32828031 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
32827943 TTGTATTCAC
* *
32827953 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
* *
32827984 ATTCTGATTCTGATTCTGTCACCTGATTCTA
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
32828015 ATTCTG-TTTCTGATTCT
1 ATTCTGATTT-TGATTCT
32828032 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTA
Found at i:32829123 original size:50 final size:50
Alignment explanation
Indices: 32829048--32829147 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
32829038 TGATAGTAGG
32829048 ATCAGAGTGCGTAGCGGTAGCGTAGAGGGGTAGATGTTACACGACTACCC
1 ATCAGAGTGCGTAGCGGTAGCGTAGAGGGGTAGATGTTACACGACTACCC
32829098 ATCAGAGTGCGTAGCGGTAGCGTAGAGGGGTAGATGTTACACGACTACCC
1 ATCAGAGTGCGTAGCGGTAGCGTAGAGGGGTAGATGTTACACGACTACCC
32829148 TATTAGATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (50 bp):
ATCAGAGTGCGTAGCGGTAGCGTAGAGGGGTAGATGTTACACGACTACCC
Found at i:32829853 original size:18 final size:18
Alignment explanation
Indices: 32829830--32829867 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32829820 GATGGGCCGA
32829830 AAGGGGCCATGTGGGCCC
1 AAGGGGCCATGTGGGCCC
32829848 AAGGGGCCATGTGGGCCC
1 AAGGGGCCATGTGGGCCC
32829866 AA
1 AA
32829868 TTGGATAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.42, T:0.11
Consensus pattern (18 bp):
AAGGGGCCATGTGGGCCC
Found at i:32830108 original size:27 final size:27
Alignment explanation
Indices: 32830078--32830288 Score: 296
Period size: 27 Copynumber: 7.8 Consensus size: 27
32830068 ATTACCAAAG
* *
32830078 TACCCTCGATTTACAGAATTACTGTCT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
32830105 TACCATCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
32830132 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
32830159 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
32830186 TACCCTCGATTTACAGAATTACAGTCT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
32830213 TACCATCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
32830240 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
32830267 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAGAATTAC
32830289 TAAAATACCC
Statistics
Matches: 160, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 160 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:32830125 original size:54 final size:54
Alignment explanation
Indices: 32830078--32830316 Score: 325
Period size: 54 Copynumber: 4.4 Consensus size: 54
32830068 ATTACCAAAG
* *
32830078 TACCCTCGATTTACAGAATTACTGTCTTACCATCGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAGAATTACCGTCTTACCATCGATTTACAGAATTACCATTT
* * *
32830132 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTTGATTTACAGAATTACCGTCTTACCATCGATTTACAGAATTACCATTT
* *
32830186 TACCCTCGATTTACAGAATTACAGTCTTACCATCGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAGAATTACCGTCTTACCATCGATTTACAGAATTACCATTT
* * * * * ***
32830240 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTCTTACCATCGATTTACAGAATTACCATTT
* *
32830294 TACCCTTGGTTTACAAAATTACC
1 TACCCTTGATTTACAGAATTACC
32830317 AAAATACCCT
Statistics
Matches: 163, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 163 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTCTTACCATCGATTTACAGAATTACCATTT
Found at i:32830222 original size:108 final size:108
Alignment explanation
Indices: 32830051--32830315 Score: 431
Period size: 108 Copynumber: 2.5 Consensus size: 108
32830041 ATTACTGAAA
* *
32830051 TACCCTCGACTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACTGTCTTACCATCGATT
1 TACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACAGTCTTACCATCGATT
32830116 TACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
66 TACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
* ***
32830159 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACAGTCTTACCATCGATT
1 TACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACAGTCTTACCATCGATT
32830224 TACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
66 TACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
* * * * *
32830267 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTAC
32830316 CAAAATACCC
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 143 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (108 bp):
TACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACAGTCTTACCATCGATT
TACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
Found at i:32830297 original size:27 final size:27
Alignment explanation
Indices: 32830039--32830379 Score: 155
Period size: 27 Copynumber: 12.6 Consensus size: 27
32830029 TTAGTTTACC
** *
32830039 AAATTACTGAAATACCCTCGACTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
32830066 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** * *
32830093 GAATTACTGTCTTACCATCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *** * *
32830120 GAATTACCATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
32830147 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
32830174 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *** * *
32830201 GAATTA-CAGTCTTACCATCGATTTACA
1 AAATTACCA-AAATACCCTCGATTTATA
* *** * *
32830228 GAATTACCATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
32830255 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
32830282 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **
32830309 AAATTACCAAAATACCCTTGATCAATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
32830336 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
32830363 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
32830380 CTAATTTGTG
Statistics
Matches: 262, Mismatches: 49, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 258 0.98
28 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:32830380 original size:27 final size:27
Alignment explanation
Indices: 32830269--32830402 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
32830259 TACCGTTTTA
*
32830269 CCCTCGATTTATAAAATTACTAAAATAC
1 CCCT-GATTTATAAAATTACCAAAATAC
* * *
32830297 CCTTGGTTTACAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* **
32830324 CCTTGATCAATAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* *
32830351 CCCTGGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* * * *
32830378 CCCTAATTTGTGAAATTACCGAAAT
1 CCCTGATTTATAAAATTACCAAAAT
32830403 TCGAAATACC
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 86 0.97
28 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
CCCTGATTTATAAAATTACCAAAATAC
Found at i:32830562 original size:27 final size:27
Alignment explanation
Indices: 32830404--32830565 Score: 211
Period size: 27 Copynumber: 6.0 Consensus size: 27
32830394 TACCGAAATT
*
32830404 CGAAATACCCTTGTAGGG-AGAATTAT
1 CGAAATACCCTTGTAGGGTAGAATTAC
*
32830430 CAAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
*
32830457 TGAAATACTCC-TGTAGGGTAGAATTAC
1 CGAAATAC-CCTTGTAGGGTAGAATTAC
*
32830484 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
* *
32830511 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
* * * *
32830538 CGAGATACCCTTGTGGGGCAAAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
32830565 C
1 C
32830566 AGTTTACCCC
Statistics
Matches: 118, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
26 19 0.16
27 97 0.82
28 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAATTAC
Found at i:32831003 original size:6 final size:6
Alignment explanation
Indices: 32830972--32831059 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
32830962 TTGCATTCAC
* *
32830972 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
32831021 -TCACCTG ATTCTA ATTCTG TTTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
32831060 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:32831007 original size:31 final size:31
Alignment explanation
Indices: 32830972--32831050 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
32830962 TTGCATTCAC
* *
32830972 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
* *
32831003 ATTCTGATTCTGATTCTGTCACCTGATTCTA
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
32831034 ATTCTG-TTTCTGATTCT
1 ATTCTGATTT-TGATTCT
32831051 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTA
Found at i:32831921 original size:21 final size:21
Alignment explanation
Indices: 32831891--32831976 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
32831881 GCCATGTCCC
32831891 TAGTCCACACGGGCGTGTGCCT
1 TAGT-CACACGGGCGTGTGCCT
*
32831913 TAGTCACACGAGCGTGTGCCT
1 TAGTCACACGGGCGTGTGCCT
** * *
32831934 CTCTTCACACGGGTGTGCGCCT
1 -TAGTCACACGGGCGTGTGCCT
* * * *
32831956 TTGCCACATGGCCGTGTGCCT
1 TAGTCACACGGGCGTGTGCCT
32831977 CTCTTTATGC
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
21 30 0.60
22 20 0.40
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.26
Consensus pattern (21 bp):
TAGTCACACGGGCGTGTGCCT
Found at i:32842037 original size:80 final size:80
Alignment explanation
Indices: 32841936--32842312 Score: 445
Period size: 80 Copynumber: 4.7 Consensus size: 80
32841926 AGCATGATTA
* * * * * * ** *
32841936 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
32842001 TCACTAGCACGAATG
66 TCACTAGCACGAATG
* *
32842016 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGTTCCTCGGGACTTAGCCCGGATATA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
*
32842081 TCACTAGCATGAATG
66 TCACTAGCACGAATG
* * *
32842096 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
32842161 TCGCTAGCATGAATG
66 TCACTAGCACGAATG
* * * *
32842176 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
32842241 GTAACTCGCACCAATG
66 -TCACTAGCACGAATG
* * ** *
32842257 C-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCC
1 CTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGGACTTAGCC
32842313 TGGACATCAT
Statistics
Matches: 258, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
80 235 0.91
81 18 0.07
82 5 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
TCACTAGCACGAATG
Found at i:32842153 original size:120 final size:120
Alignment explanation
Indices: 32841940--32842312 Score: 428
Period size: 120 Copynumber: 3.1 Consensus size: 120
32841930 TGATTACTCT
* * * * * ** * *
32841940 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
*
32842005 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGTTCC
66 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
*
32842060 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* * * * * *
32842125 TAGCATGAATGCTCTTTGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCT
66 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
* * ** *
32842180 TCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAA
1 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCA
* * * * ** * *
32842245 CTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CT
65 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCC
32842300 TCGGGACTTAGCC
1 TCGGGACTTAGCC
32842313 TGGACATCAT
Statistics
Matches: 215, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
120 191 0.89
121 19 0.09
122 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
Found at i:32842263 original size:40 final size:40
Alignment explanation
Indices: 32841921--32842237 Score: 427
Period size: 40 Copynumber: 7.9 Consensus size: 40
32841911 CGAATACACG
* * * * *
32841921 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * ** * *
32841961 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
32842001 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
32842041 TCACTAGCACGAATGTTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32842081 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32842121 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32842161 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32842201 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
32842238 TTAGTAACTC
Statistics
Matches: 247, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 247 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:32842310 original size:40 final size:40
Alignment explanation
Indices: 32841938--32842312 Score: 169
Period size: 40 Copynumber: 9.4 Consensus size: 40
32841928 CATGATTACT
* * * *
32841938 CTTCGGGACCTAGCCCGGATATA--ACACCAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTAGCACCAAAGC
* ** * * * *
32841977 TCTTTGGGGTTTAGCACGGATATA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * * * *
32842017 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAATGTTC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAG--C
* ** *
32842059 C-TCGGGACTTAGCCCGGATATA-TCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * * ** *
32842097 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * ** ** *
32842137 TCTTTGGGACTTAGCCCGGATACA-TCGCTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* ** ** *
32842177 TCTTCGGGACTTAGCCCGGATACA-TCGCTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * *
32842217 TCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * *
32842258 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCACCAAAGC
32842298 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
32842313 TGGACATCAT
Statistics
Matches: 290, Mismatches: 36, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
38 1 0.00
39 4 0.01
40 265 0.91
41 19 0.07
42 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
Found at i:32842663 original size:29 final size:29
Alignment explanation
Indices: 32842624--32842702 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
32842614 CTTAATAATC
*
32842624 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
32842654 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
32842683 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
32842703 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:32842796 original size:42 final size:43
Alignment explanation
Indices: 32842684--32842828 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
32842674 TGCATTTCAA
32842684 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
32842727 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
32842770 GCCCGCACA-TTAGTGACAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
32842812 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
32842829 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 41 0.41
43 58 0.59
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:32847252 original size:10 final size:10
Alignment explanation
Indices: 32847233--32847281 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
32847223 TTAAATTCTA
*
32847233 AAAGACAAAT
1 AAAGATAAAT
32847243 AAAGATAAAT
1 AAAGATAAAT
*
32847253 AAGGATAAAT
1 AAAGATAAAT
*
32847263 AAAGTTAAAT
1 AAAGATAAAT
32847273 AAAGATAAA
1 AAAGATAAA
32847282 AGCTAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:32848584 original size:21 final size:22
Alignment explanation
Indices: 32848560--32848609 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
32848550 AAAAGTTATT
*
32848560 AAAATTA-TTATAAAATTTTCA
1 AAAATTATTTATAAAATTTTAA
* *
32848581 AAAAGTATTTTTAAAATTTTAA
1 AAAATTATTTATAAAATTTTAA
32848603 AAAATTA
1 AAAATTA
32848610 ATTAAATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAATTATTTATAAAATTTTAA
Found at i:32854704 original size:40 final size:40
Alignment explanation
Indices: 32854644--32854867 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
32854634 TATTCGAATG
* *
32854644 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
* * * **
32854684 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTAACT
* * *
32854724 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
*
32854764 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
* * *
32854804 ATATCTGGGCTAAGTCCCGAAGGCATTAATGCTAGTAACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
*
32854844 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
32854868 CTCATGCGAG
Statistics
Matches: 162, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 161 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACT
Found at i:32854857 original size:120 final size:120
Alignment explanation
Indices: 32854644--32854867 Score: 333
Period size: 120 Copynumber: 1.9 Consensus size: 120
32854634 TATTCGAATG
* * *
32854644 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGACTAAGATCCGAAGGCA
** ** *
32854709 TTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
66 TTAATGCGAGTAACCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
* *
32854764 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCTGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGACTAAGAT-CCGAAGGC
*
32854828 ATTAATGCTAGTAACCATATCCGGGCTAAGACCCGAAGGC
65 ATTAATGCGAGTAACCATATCCGGGCTAAGACCCGAAGGC
32854868 CTCATGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
119 1 0.01
120 91 0.99
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAACCATATCCGGACTAAGATCCGAAGGCA
TTAATGCGAGTAACCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAACT
Found at i:32873459 original size:38 final size:38
Alignment explanation
Indices: 32873345--32873574 Score: 298
Period size: 38 Copynumber: 6.0 Consensus size: 38
32873335 GAATCCAGTC
* * * * *
32873345 ACCAACACAAAGCTTGCGGGACTTTAAGCTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
32873385 ACCAGCACTAAGCCTGCGGGACTTTAACCCGAATATATT
1 ACCAGCACGAAGCCTGCGGGA-TTTAACCCGGATATATT
* *
32873424 ACCAGCACGAAGCCTGTGGGATTTAACCTGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* * *
32873462 ACCAGCACGAAGCCTACGAGACTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
32873500 ACCAGCACGAAGCCTGCGAGACTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
*
32873538 ACCAGCACGAAGCCTACGGGATTTAACCCGGATATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
32873575 ATCGAGTGCT
Statistics
Matches: 171, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 119 0.70
39 28 0.16
40 24 0.14
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:32893572 original size:19 final size:19
Alignment explanation
Indices: 32893544--32893582 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
32893534 AGAGCGAAAG
32893544 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
32893562 AAACAGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
32893582 A
1 A
32893583 GTATGAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:32897567 original size:137 final size:137
Alignment explanation
Indices: 32897319--32897594 Score: 489
Period size: 137 Copynumber: 2.0 Consensus size: 137
32897309 AATTTAGGAT
*
32897319 ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGATGTAATCGTCCACTAATACTTGGCCATATA
1 ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGAGGTAATCGTCCACTAATACTTGGCCATATA
*
32897384 TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTGCATAT
66 TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTACATAT
32897449 ACTATGG
131 ACTATGG
* * *
32897456 ATTGGTTTGCACGAAACATTCATTCTGTTTTGTGAGGTAATCGTTCACTAATACTTGGCCATATA
1 ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGAGGTAATCGTCCACTAATACTTGGCCATATA
* *
32897521 TTACAAATTTAACCTCTTAACTTTTTCCCTCTGAAGTCGATTTCTCGTCCTTAACATGTACATAT
66 TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTACATAT
32897586 ACTATGG
131 ACTATGG
32897593 AT
1 AT
32897595 AGCCTAGGTA
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (137 bp):
ATTGGTTTGCACAAAACATTCATTCTGTTTTGCGAGGTAATCGTCCACTAATACTTGGCCATATA
TTACAAATTTAACCTCTCAACTTTTTCCCTCTGAAGTCGATATCTCGTCCTTAACATGTACATAT
ACTATGG
Found at i:32898253 original size:8 final size:8
Alignment explanation
Indices: 32898240--32898277 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
32898230 ATATTTGCTT
*
32898240 ATAAATAA
1 ATAAATTA
32898248 ATAAATTA
1 ATAAATTA
32898256 ATAAAATTA
1 AT-AAATTA
32898265 ATAAATTA
1 ATAAATTA
32898273 ATAAA
1 ATAAA
32898278 GGCTCAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
ATAAATTA
Found at i:32898267 original size:17 final size:17
Alignment explanation
Indices: 32898242--32898277 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
32898232 ATTTGCTTAT
32898242 AAATAAATAAATTAATA
1 AAATAAATAAATTAATA
*
32898259 AAATTAATAAATTAATA
1 AAATAAATAAATTAATA
32898276 AA
1 AA
32898278 GGCTCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATAAATAAATTAATA
Found at i:32905235 original size:39 final size:40
Alignment explanation
Indices: 32905140--32905292 Score: 127
Period size: 39 Copynumber: 3.9 Consensus size: 40
32905130 ACTTGAAACC
** * *
32905140 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * * *
32905179 AATACTAGCTCAAAGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
32905218 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* *
32905257 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
32905293 TANNNNNNNN
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
38 17 0.18
39 75 0.82
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:32905293 original size:39 final size:39
Alignment explanation
Indices: 32905210--32905294 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
32905200 GGACTTTAGC
* * * *
32905210 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
32905249 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
32905288 CCGGATA
1 CCGGATA
32905295 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:32906477 original size:44 final size:44
Alignment explanation
Indices: 32906428--32906512 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
32906418 AAATTTCATA
*
32906428 CCTTAATTCTAGCTCAAAAGTGACCGAATGGCTATCTCCCCGTC
1 CCTTAATTCTAGCTCAAAAGTAACCGAATGGCTATCTCCCCGTC
32906472 CCTTAATTCTAGCTCAAAAGTAACCGAATGGCTATCTCCCC
1 CCTTAATTCTAGCTCAAAAGTAACCGAATGGCTATCTCCCC
32906513 TTTCTTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (44 bp):
CCTTAATTCTAGCTCAAAAGTAACCGAATGGCTATCTCCCCGTC
Found at i:32930295 original size:3 final size:3
Alignment explanation
Indices: 32930287--32930316 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32930277 TAGTTAAATT
32930287 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32930317 GTTAGCACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32930907 original size:120 final size:121
Alignment explanation
Indices: 32930761--32930999 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
32930751 GAGATTAAAA
*
32930761 TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAGTATGGT-AAAAAATTGAAATTTAAT
1 TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAATATGGTAAAAAAATTGAAATTTAAT
*
32930825 AAAAACTGAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAACG
66 AAAAACTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAACG
* *
32930881 TTAGTCTCAGTTTAGGGACTAAATTGAAGATTAAGTAAAATATGGTAAAAAAATTGAAATTTAAT
1 TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAATATGGTAAAAAAATTGAAATTTAAT
* *
32930946 AAAAATTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAGCAAA
66 AAAAACTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAA
32931000 GGTCGTTCTG
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 43 0.38
121 69 0.62
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (121 bp):
TTAGTCTCAGTTTAAGGACTAAATTGAAGATTAAGCAAAATATGGTAAAAAAATTGAAATTTAAT
AAAAACTAAGTTATGTATTATTAATCTATTTTAATTATTTTATTCCATAACAAACG
Found at i:32938811 original size:13 final size:13
Alignment explanation
Indices: 32938793--32938817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32938783 AATCACAAAT
32938793 AAATACACATATC
1 AAATACACATATC
32938806 AAATACACATAT
1 AAATACACATAT
32938818 TTTTTTTTCT
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:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:32947802 original size:9 final size:9
Alignment explanation
Indices: 32947752--32947800 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
32947742 TTTGTTAAAC
32947752 ATTAACCGA
1 ATTAACCGA
*
32947761 ATTAACCAA
1 ATTAACCGA
* *
32947770 ATTACCCAA
1 ATTAACCGA
32947779 ATTAACCGA
1 ATTAACCGA
*
32947788 ATTACCCGA
1 ATTAACCGA
32947797 ATTA
1 ATTA
32947801 CCTGAATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (9 bp):
ATTAACCGA
Found at i:32947807 original size:9 final size:9
Alignment explanation
Indices: 32947752--32947808 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
32947742 TTTGTTAAAC
*
32947752 ATTAACCGA
1 ATTACCCGA
* *
32947761 ATTAACCAA
1 ATTACCCGA
*
32947770 ATTACCCAA
1 ATTACCCGA
*
32947779 ATTAACCGA
1 ATTACCCGA
32947788 ATTACCCGA
1 ATTACCCGA
*
32947797 ATTACCTGA
1 ATTACCCGA
32947806 ATT
1 ATT
32947809 GAATCACTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (9 bp):
ATTACCCGA
Found at i:32947838 original size:17 final size:17
Alignment explanation
Indices: 32947816--32947876 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
32947806 ATTGAATCAC
32947816 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
* * *
32947833 TACATAAGTCTTTAAACCAC
1 TACATAA---TTAAAAACAT
*
32947853 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
32947870 TACATAA
1 TACATAA
32947877 GTCTTTGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 20 0.59
20 14 0.41
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:32947971 original size:74 final size:74
Alignment explanation
Indices: 32947807--32947972 Score: 228
Period size: 74 Copynumber: 2.2 Consensus size: 74
32947797 ATTACCTGAA
* * *
32947807 TTGAATCACTACATAATTAAAAACATTACATAAGTCTTTAAACCACTACATAATTAAAAATATTA
1 TTGAATAACTACATAATTAAAAACATTACACAAGTCTTTAAACCACTACATAATTAAAAACATTA
*
32947872 CATAAGTCT
66 CACAAGTCT
* * * *
32947881 TTGAATCACTATATAATTAAAAACATTACACAAGTCTTTGAATCACTACATAATTAAAAACATTA
1 TTGAATAACTACATAATTAAAAACATTACACAAGTCTTTAAACCACTACATAATTAAAAACATTA
32947946 CACAAGTC-
66 CACAAGTCT
32947954 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
32947973 GAAATGTAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
73 3 0.04
74 76 0.93
75 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (74 bp):
TTGAATAACTACATAATTAAAAACATTACACAAGTCTTTAAACCACTACATAATTAAAAACATTA
CACAAGTCT
Found at i:32947972 original size:37 final size:37
Alignment explanation
Indices: 32947807--32947955 Score: 244
Period size: 37 Copynumber: 4.0 Consensus size: 37
32947797 ATTACCTGAA
*
32947807 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
* * * *
32947844 TTAAACCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
*
32947881 TTGAATCACTATATAATTAAAAACATTACACAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
32947918 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACACAAGTCT
32947955 T
1 T
32947956 GAAATTAACA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACACAAGTCT
Found at i:32950882 original size:73 final size:72
Alignment explanation
Indices: 32950796--32950940 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 72
32950786 TCTCCATAGC
*
32950796 TGAATCCTTCTACCACTTTACTCTTCACCACTTTTTATTCTTTTTATTTTTAAGCCTTACAGCCG
1 TGAATCCTTCTACCACTTTACTCTTCACCACTCTTTATTCTTTTTATTTTTAAGCCTTACAGCCG
32950861 AATATCA
66 AATATCA
32950868 NTGAATCCTTCTACCACTTTACTCTTCACCACTCTTTATTCTTTTTATTTTTAAGCCTTACAGCC
1 -TGAATCCTTCTACCACTTTACTCTTCACCACTCTTTATTCTTTTTATTTTTAAGCCTTACAGCC
32950933 GAATATCA
65 GAATATCA
32950941 CAAAAGCCGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.23, C:0.27, G:0.06, T:0.43
Consensus pattern (72 bp):
TGAATCCTTCTACCACTTTACTCTTCACCACTCTTTATTCTTTTTATTTTTAAGCCTTACAGCCG
AATATCA
Found at i:32951735 original size:108 final size:108
Alignment explanation
Indices: 32951546--32951761 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 108
32951536 ATTAACGTGT
32951546 TAGTAATCTAATTGTAGGCAGTTCGTGTGGGGATCTCGTCAGCATATCGTCACAAATCAGGTGTG
1 TAGTAATCTAATTGTAGGCAGTTCGTGTGGGGATCTCGTCAGCATATCGTCACAAATCAGGTGTG
*
32951611 TAACTGACACCCTCTCATAGACTAGATCGGCAAAAGCCGAAAA
66 TAACTGACACCCTCTCATAAACTAGATCGGCAAAAGCCGAAAA
32951654 TAGTAATCTAATTGTAGGCAGTTCGTGTGGGGATCTCGTCAGCATATCGTCACAAATCAGGTGTG
1 TAGTAATCTAATTGTAGGCAGTTCGTGTGGGGATCTCGTCAGCATATCGTCACAAATCAGGTGTG
*
32951719 TAACTGACACCCTCTCATAAACTAGATCGGCAAAAGTCGAAAA
66 TAACTGACACCCTCTCATAAACTAGATCGGCAAAAGCCGAAAA
32951762 GCTGAAAAGC
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (108 bp):
TAGTAATCTAATTGTAGGCAGTTCGTGTGGGGATCTCGTCAGCATATCGTCACAAATCAGGTGTG
TAACTGACACCCTCTCATAAACTAGATCGGCAAAAGCCGAAAA
Found at i:32952268 original size:27 final size:26
Alignment explanation
Indices: 32952207--32952317 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
32952197 AGGAAGCGTC
* *
32952207 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
32952235 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
32952262 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
32952290 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
32952316 CT
1 CT
32952318 AGCAGCCATG
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.07
27 36 0.50
28 31 0.43
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:32952301 original size:55 final size:54
Alignment explanation
Indices: 32952207--32952317 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 54
32952197 AGGAAGCGTC
*
32952207 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTT
* * * * *
32952262 CTGGTGGCTCTGCCAC-GATTATTTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTAGTGACTCTGCCACATTATCTGTT
32952316 CT
1 CT
32952318 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
54 17 0.35
55 32 0.65
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACATTATCTGTT
Found at i:32956021 original size:47 final size:47
Alignment explanation
Indices: 32955947--32956051 Score: 201
Period size: 47 Copynumber: 2.2 Consensus size: 47
32955937 GTGCTACAAG
*
32955947 TGTTAAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
1 TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
32955994 TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
1 TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
32956041 TGTTGAGGGAG
1 TGTTGAGGGAG
32956052 GTAACTTTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TGTTGAGGGAGAAAGAACTTTATGCGAAGTTCAGCAAGTGTGAATTT
Found at i:32961631 original size:29 final size:29
Alignment explanation
Indices: 32961568--32961635 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
32961558 TAATCAACCG
*
32961568 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32961597 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32961626 CGCACACTTA
1 CGCACACTTA
32961636 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32961747 original size:174 final size:174
Alignment explanation
Indices: 32961457--32961784 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
32961447 AACTCAAGGT
* *
32961457 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
32961522 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
32961587 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
32961631 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
32961696 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
32961761 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
32961785 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:32961776 original size:29 final size:30
Alignment explanation
Indices: 32961737--32961815 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
32961727 CTTAATAATC
32961737 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
32961767 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
32961796 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
32961816 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:32969783 original size:29 final size:29
Alignment explanation
Indices: 32969720--32969787 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
32969710 TAATCAACCG
32969720 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
32969749 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
32969778 CGCACACTTA
1 CGCACACTTA
32969788 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:32969899 original size:174 final size:174
Alignment explanation
Indices: 32969609--32969936 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
32969599 AACTCAAGGT
* *
32969609 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
32969674 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
32969739 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
32969783 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
32969848 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
32969913 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
32969937 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:32969928 original size:29 final size:30
Alignment explanation
Indices: 32969889--32969967 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
32969879 CTTAATAATC
32969889 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
32969919 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
32969948 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
32969968 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:32971633 original size:26 final size:27
Alignment explanation
Indices: 32971576--32971688 Score: 124
Period size: 28 Copynumber: 4.1 Consensus size: 27
32971566 AGGAAGCGTC
* *
32971576 CTGGTGGCTATGCCACAAATTTATCTGAT
1 CTGGTGGCTCTGCCAC-AA-TTATCTGTT
32971605 CTGGTGGCT-TGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
32971631 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGT-T
* *
32971659 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
32971685 CTGG
1 CTGG
32971689 CAACCATGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
25 1 0.01
26 22 0.29
27 22 0.29
28 23 0.30
29 9 0.12
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:32971685 original size:54 final size:55
Alignment explanation
Indices: 32971576--32971688 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 55
32971566 AGGAAGCGTC
*
32971576 CTGGTGGCTATGCCACAAATTTATCTGATCTGGTGGCTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTTATCTGATCTGGTGACTTGCCACATATATCTGTT
* * *
32971631 CTGGTGGCTCTGCCAC-GA-TTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATTTATCTG-ATCTGGTGACT-TGCCACATATATCTGTT
32971685 CTGG
1 CTGG
32971689 CAACCATGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
53 7 0.13
54 23 0.44
55 22 0.42
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAATTTATCTGATCTGGTGACTTGCCACATATATCTGTT
Found at i:32974907 original size:13 final size:13
Alignment explanation
Indices: 32974889--32974914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32974879 TATCTTTATT
32974889 ATATAATAATATA
1 ATATAATAATATA
32974902 ATATAATAATATA
1 ATATAATAATATA
32974915 TTAAACATAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:32977851 original size:50 final size:50
Alignment explanation
Indices: 32977797--32977912 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 50
32977787 TTTCAAAATC
* *
32977797 TTATTTATTTAATTGTT-CTCAACTCTGATATTTTAAATAAATACAAATAT
1 TTATTTATTTAATT-TTACTCAAATATGATATTTTAAATAAATACAAATAT
* * * * * * *
32977847 TTATTTAATTCATTTTATTTAAATATGATGTTTTACATAAATATAAATAT
1 TTATTTATTTAATTTTACTCAAATATGATATTTTAAATAAATACAAATAT
*
32977897 TTGTTTATATTAATTT
1 TTATTTAT-TTAATTT
32977913 ATTTTATTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.04
50 44 0.85
51 6 0.12
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (50 bp):
TTATTTATTTAATTTTACTCAAATATGATATTTTAAATAAATACAAATAT
Found at i:32977914 original size:50 final size:50
Alignment explanation
Indices: 32977822--32977916 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
32977812 TTCTCAACTC
*
32977822 TGATATTTTAAATAAATACAAATATTTATTTAATTCATTTTATTTAAATA
1 TGATATTTTAAATAAATACAAATATTTATTTAATTCAATTTATTTAAATA
* * * *
32977872 TGATGTTTTACATAAATATAAATATTTGTTTATATT-AATTTATTT
1 TGATATTTTAAATAAATACAAATATTTATTTA-ATTCAATTTATTT
32977917 TATTTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 36 0.92
51 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (50 bp):
TGATATTTTAAATAAATACAAATATTTATTTAATTCAATTTATTTAAATA
Found at i:32978201 original size:81 final size:80
Alignment explanation
Indices: 32978116--32978659 Score: 496
Period size: 82 Copynumber: 6.8 Consensus size: 80
32978106 CGTTCAACAA
* * * * * *
32978116 ATTTTATTCTTTTTTATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGAGATTTAT
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
*
32978181 TGCCGACATTTAATAT
66 T-CCGACATTTAATAG
* * * * * * *
32978197 ATTTTATTCTTTTTTATTTTGTTTCTAAAAAAGAATTAATTGAATAATTCTGTCTCGGGATTTAT
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
* * *
32978262 TCCGGCCATATAACAG
66 TCC-GACATTTAATAG
* ***
32978278 ATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCAACATTTA
1 ATTTTATTC-ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTA
* *
32978343 TTCCCACCATTTAATTG
65 TTCCGA-CATTTAATAG
* *
32978360 ATTTTATTCGATTTTAATTTTGTTTCCAAACTAAGATTTAATTAAATAATTCTGTTTCGCGATTT
1 ATTTTATTC-ATTTTGATTTTGTTTCCAAAC-AAGATTTAATTAAATAATTCTGTTTCGGGATTT
***
32978425 ATTCTCGTTGTTT-ATCAG
64 ATTC-CGACATTTAAT-AG
* * * * *
32978443 A---T-TTGATTTTGATTTTATTTTCAAACAATATTTAATTAAATAATTCTATTTCGGGATTTAT
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
* *
32978504 TCCCG-CAGTT-A-AC
66 T-CCGACATTTAATAG
* * * * *
32978517 ATATT-TT-ATTTTGATTTTATTTCCAAGCAAGATTTAATCAAATAAATTTTGTTTCGGGATTTA
1 ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAAT-AATTCTGTTTCGGGATTTA
**
32978580 TTCCCTCCATTTAATAG
65 TT-CCGACATTTAATAG
** * *
32978597 ATTTTATTCGATTTCAATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCAGGATT
1 ATTTTATTC-ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATT
32978660 CAATCCAACA
Statistics
Matches: 384, Mismatches: 62, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
74 2 0.01
76 35 0.09
77 60 0.16
78 23 0.06
79 3 0.01
80 8 0.02
81 80 0.21
82 103 0.27
83 69 0.18
84 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (80 bp):
ATTTTATTCATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAT
TCCGACATTTAATAG
Found at i:32978342 original size:82 final size:82
Alignment explanation
Indices: 32978083--32978659 Score: 550
Period size: 81 Copynumber: 7.2 Consensus size: 82
32978073 TTGAATAAAA
** * * * * * *
32978083 TCTGTTTAAGGATTTATTCCTGCCGTTCAACAAATTTTATTC-TTTTTTATTTTGTTTCCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
* *
32978147 AGAATTAATTGAATAAT
66 AGATTTAATTAAATAAT
* * * * * * * * * *
32978164 TCTATTTCGAGATTTATTGCCGACATTTAATATATTTTATTC-TTTTTTATTTTGTTTCTAAAAA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
* *
32978228 AGAATTAATTGAATAAT
66 AGATTTAATTAAATAAT
* * *
32978245 TCTGTCTCGGGATTTATTCCGGCCATATAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
32978310 AGATTTAATTAAATAAT
66 AGATTTAATTAAATAAT
* *** * ** *
32978327 TTTGTTTCAACATTTATTCCCACCATTTAATTGATTTTATTCGATTTTAATTTTGTTTCCAAACT
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAAC-
32978392 AAGATTTAATTAAATAAT
65 AAGATTTAATTAAATAAT
* * *** * * *
32978410 TCTGTTTCGCGATTTATTCTCGTTGTTTATCAGA---T-TT-GATTTTGATTTTATTTTCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
*
32978470 ATATTTAATTAAATAAT
66 AGATTTAATTAAATAAT
* * * * *
32978487 TCTATTTCGGGATTTATTCCCG-CAGTTAAC--ATATT-TT--ATTTTGATTTTATTTCCAAGCA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
*
32978546 AGATTTAATCAAATAAAT
66 AGATTTAATTAAAT-AAT
* * * **
32978564 TTTGTTTCGGGATTTATTCCCTCCATTTAATAGATTTTATTCGATTTCAATTTTGTTTCCAAACA
1 TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
32978629 AGATTTAATTAAATAAT
66 AGATTTAATTAAATAAT
* *
32978646 TTTGTTTCAGGATT
1 TCTGTTTCGGGATT
32978660 CAATCCAACA
Statistics
Matches: 406, Mismatches: 78, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
74 1 0.00
76 36 0.09
77 61 0.15
78 25 0.06
79 2 0.00
80 5 0.01
81 103 0.25
82 102 0.25
83 71 0.17
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (82 bp):
TCTGTTTCGGGATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA
AGATTTAATTAAATAAT
Found at i:32980250 original size:23 final size:23
Alignment explanation
Indices: 32980224--32980271 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
32980214 GCCACACGGA
32980224 CATGTGGGCCCACACGGGTGAAC
1 CATGTGGGCCCACACGGGTGAAC
32980247 CATGTGGGCCCACACGGGTGAAC
1 CATGTGGGCCCACACGGGTGAAC
32980270 CA
1 CA
32980272 CATGGGCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.31, G:0.33, T:0.12
Consensus pattern (23 bp):
CATGTGGGCCCACACGGGTGAAC
Found at i:32980277 original size:23 final size:23
Alignment explanation
Indices: 32980228--32980278 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
32980218 CACGGACATG
**
32980228 TGGGCCCACACGGGTGAACCATG
1 TGGGCCCACACGGGTGAACCACA
32980251 TGGGCCCACACGGGTGAACCACA
1 TGGGCCCACACGGGTGAACCACA
32980274 TGGGC
1 TGGGC
32980279 GTGTAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.31, G:0.35, T:0.12
Consensus pattern (23 bp):
TGGGCCCACACGGGTGAACCACA
Found at i:32980544 original size:17 final size:18
Alignment explanation
Indices: 32980512--32980545 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32980502 GAACTATGAT
*
32980512 ATCTGAATTGATTGTATG
1 ATCTGAATTAATTGTATG
32980530 ATCTG-ATTAATTGTAT
1 ATCTGAATTAATTGTAT
32980546 ATTAGGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (18 bp):
ATCTGAATTAATTGTATG
Found at i:32988402 original size:44 final size:45
Alignment explanation
Indices: 32988299--32988477 Score: 150
Period size: 44 Copynumber: 3.8 Consensus size: 45
32988289 GAATTTAAAA
* * * *
32988299 ATCTGAACTCGTTGAGTTGGTCCGGGTTCGTGA-TATGTAT-GAG-GC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTT--T-ATTATGGATACAGAGC
*
32988344 ATCTGAGCTGGTTGAGTTGGTCCGAGTTTATTATGGATAC-GAGC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTTTATTATGGATACAGAGC
* * * *
32988388 ATCCGAGCTTGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGAC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTT--T-AT-TATG-GATACA-GAG-C
*
32988440 ATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGAT
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTTTATTATGGAT
32988478 GTGATACATG
Statistics
Matches: 110, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 28 0.25
45 25 0.23
46 1 0.01
47 5 0.05
48 6 0.05
49 7 0.06
51 2 0.02
52 27 0.25
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.34
Consensus pattern (45 bp):
ATCTGAGCTCGTTGAGTTGGTCCGAGTTTATTATGGATACAGAGC
Found at i:32988454 original size:52 final size:52
Alignment explanation
Indices: 32988387--32988488 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
32988377 TGGATACGAG
*
32988387 CATCCGAGCTTGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
* * *
32988439 CATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTGATACATGT
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGT
32988489 AATTGGGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (52 bp):
CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
Found at i:32992497 original size:15 final size:16
Alignment explanation
Indices: 32992477--32992517 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
32992467 GTATCGTATA
32992477 TTGGATTTCTTC-ATC
1 TTGGATTTCTTCTATC
*
32992492 TTGGATTT-TTCTGTC
1 TTGGATTTCTTCTATC
32992507 TTGGATTTCTT
1 TTGGATTTCTT
32992518 TATTTTGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.59
Consensus pattern (16 bp):
TTGGATTTCTTCTATC
Found at i:32992525 original size:15 final size:15
Alignment explanation
Indices: 32992477--32992525 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
32992467 GTATCGTATA
*
32992477 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
*
32992492 TTGGATTT-TTCTGTC
1 TTGGATTTCTT-TATC
*
32992507 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
32992522 TTGG
1 TTGG
32992526 TCTTCTTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.10, C:0.12, G:0.18, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:32995417 original size:45 final size:44
Alignment explanation
Indices: 32995351--32995611 Score: 186
Period size: 44 Copynumber: 5.7 Consensus size: 44
32995341 AAATCTGAAA
* * * *
32995351 TCGTTGAGTAGGTCCGGGTTCATGATATGTAAGAG-GCATCCGAGC
1 TCGTTGAGTTGGTCCGAGTTCAT--TATGGATGAGAGCATCCGAGC
* * * **
32995396 TCGTTGAGTTGGTCCGAGTTCATTATGGATGCGAGTATCTGAAA
1 TCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAGC
* * * * *
32995440 TTGTTGAGTAGGTTC-AGGTTCGTGATATGTATGAG-GCATCCGAGC
1 TCGTTGAGTTGGTCCGA-GTTCAT--TATGGATGAGAGCATCCGAGC
* * * *
32995485 TCGTTGAGTTGGTTCGAGTTCATTATGGATGCGACCATCCAAGC
1 TCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAGC
* *
32995529 TCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGACATCCGAGC
1 TCGTTGAGTTGGTCCGAGTTCAT--T--ATG-GAT-GA-GAG-CATCCGAGC
* *
32995581 TCGTTGAGTTGATCCAAGTTCATTATGGATG
1 TCGTTGAGTTGGTCCGAGTTCATTATGGATG
32995612 CGATACATGT
Statistics
Matches: 167, Mismatches: 35, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
43 16 0.10
44 53 0.32
45 45 0.27
46 10 0.06
47 3 0.02
48 6 0.04
49 3 0.02
50 1 0.01
51 1 0.01
52 29 0.17
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (44 bp):
TCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAGC
Found at i:32995494 original size:89 final size:89
Alignment explanation
Indices: 32995343--32995614 Score: 305
Period size: 89 Copynumber: 3.0 Consensus size: 89
32995333 GAATTTAGAA
*
32995343 ATCTGAAATCGTTGAGTAGGTCCGGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
1 ATCTGAAATCGTTGAGTAGGTCCAGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
32995408 TCCGAGTTCATTATGGATGCGAGT
66 TCCGAGTTCATTATGGATGCGAGT
* * * *
32995432 ATCTGAAATTGTTGAGTAGGTTCAGGTTCGTGATATGTATGAGGCATCCGAGCTCGTTGAGTTGG
1 ATCTGAAATCGTTGAGTAGGTCCAGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
* **
32995497 TTCGAGTTCATTATGGATGCGACC
66 TCCGAGTTCATTATGGATGCGAGT
* * * * * *
32995521 ATC-CAAGCTCGTTGAGTTGGTCC-GAGTTCATAATGGATGCGATACATGTGACATCCGAGCTCG
1 ATCTGAA-ATCGTTGAGTAGGTCCAG-GTTCATGAT--AT--G-TA-A-GAGGCATCCGAGCTCG
* *
32995584 TTGAGTTGATCCAAGTTCATTATGGATGCGA
57 TTGAGTTGGTCCGAGTTCATTATGGATGCGA
32995615 TACATGTAAT
Statistics
Matches: 153, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
88 3 0.02
89 103 0.67
91 2 0.01
93 1 0.01
94 2 0.01
96 42 0.27
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (89 bp):
ATCTGAAATCGTTGAGTAGGTCCAGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
TCCGAGTTCATTATGGATGCGAGT
Found at i:32995583 original size:52 final size:52
Alignment explanation
Indices: 32995520--32995621 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
32995510 TGGATGCGAC
* *
32995520 CATCCAAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
1 CATCCAAGCTCGTTGAGTTGATCCAAGTTCATAATGGATGCGATACATGTGA
* *
32995572 CATCCGAGCTCGTTGAGTTGATCCAAGTTCATTATGGATGCGATACATGT
1 CATCCAAGCTCGTTGAGTTGATCCAAGTTCATAATGGATGCGATACATGT
32995622 AATTGGTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (52 bp):
CATCCAAGCTCGTTGAGTTGATCCAAGTTCATAATGGATGCGATACATGTGA
Found at i:32999279 original size:20 final size:20
Alignment explanation
Indices: 32999236--32999283 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32999226 ATATCTTGAT
*
32999236 TTGATTTGATTCCAATCAAT
1 TTGATTTGATTCCAATCAAA
** *
32999256 TTGATTTGATTTTATTCAAA
1 TTGATTTGATTCCAATCAAA
32999276 TTGATTTG
1 TTGATTTG
32999284 TTAATGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.52
Consensus pattern (20 bp):
TTGATTTGATTCCAATCAAA
Found at i:33003259 original size:32 final size:30
Alignment explanation
Indices: 33003218--33003276 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
33003208 AGCATTTCTC
*
33003218 TTTAATTAATTTAGAAAATTCAATAAATTAAA
1 TTTAATTAA-TTA-AAAAATCAATAAATTAAA
* *
33003250 TTTAGTTAATTAAAAAATCAATTAATT
1 TTTAATTAATTAAAAAATCAATAAATT
33003277 TACTTGGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 3 0.12
32 8 0.33
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTAATTAATTAAAAAATCAATAAATTAAA
Found at i:33007999 original size:27 final size:27
Alignment explanation
Indices: 33007961--33008016 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
33007951 AGATATGTTC
33007961 ATCATAACAACAAAAAAAATTAAAGAG
1 ATCATAACAACAAAAAAAATTAAAGAG
*
33007988 ATCATAACAACAACAAAAATTAAAGAG
1 ATCATAACAACAAAAAAAATTAAAGAG
33008015 AT
1 AT
33008017 AGGGAACAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.64, C:0.12, G:0.07, T:0.16
Consensus pattern (27 bp):
ATCATAACAACAAAAAAAATTAAAGAG
Found at i:33008214 original size:13 final size:13
Alignment explanation
Indices: 33008196--33008220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33008186 ATTGAAATGG
33008196 AAAAATGAGAGAA
1 AAAAATGAGAGAA
33008209 AAAAATGAGAGA
1 AAAAATGAGAGA
33008221 TGAGAGAAGT
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (13 bp):
AAAAATGAGAGAA
Found at i:33012400 original size:17 final size:18
Alignment explanation
Indices: 33012373--33012406 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33012363 AATTAAATAT
33012373 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
33012391 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
33012407 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:33025614 original size:31 final size:31
Alignment explanation
Indices: 33025579--33025645 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
33025569 AATAATTTCT
* *
33025579 ATTTTTATAACTTTTAAAAAATTAAATTAAA
1 ATTTTTATAACTTTTAAAAAACTAAAATAAA
* * **
33025610 ATTTTTATTATTTTTAAAGGACTAAAATAAA
1 ATTTTTATAACTTTTAAAAAACTAAAATAAA
33025641 ATTTT
1 ATTTT
33025646 ATCTTCACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
ATTTTTATAACTTTTAAAAAACTAAAATAAA
Found at i:33026818 original size:18 final size:18
Alignment explanation
Indices: 33026797--33026831 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33026787 TAAAAAATAT
33026797 AATAAATTAAATACACCA
1 AATAAATTAAATACACCA
*
33026815 AATAAATTAAATGCACC
1 AATAAATTAAATACACC
33026832 CCTTGTGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAATTAAATACACCA
Found at i:33028467 original size:17 final size:17
Alignment explanation
Indices: 33028445--33028478 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33028435 ATGTGGTTCA
33028445 CCCGTGTGGCCCACATG
1 CCCGTGTGGCCCACATG
*
33028462 CCCGTGTGGCCTACATG
1 CCCGTGTGGCCCACATG
33028479 GCCCAATTGG
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:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (17 bp):
CCCGTGTGGCCCACATG
Found at i:33033793 original size:24 final size:22
Alignment explanation
Indices: 33033765--33033828 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 22
33033755 TAGAATACCG
33033765 CGAACTGTATTCATAGAAACGCCA
1 CGAACTGTATT-ATAGAAACG-CA
* *
33033789 CGAACTGCATTTATAGAAATGCA
1 CGAACTGTA-TTATAGAAACGCA
*
33033812 CGAACTATATTATAGAA
1 CGAACTGTATTATAGAA
33033829 TATTACAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.23
23 9 0.26
24 16 0.46
25 2 0.06
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (22 bp):
CGAACTGTATTATAGAAACGCA
Found at i:33034155 original size:77 final size:78
Alignment explanation
Indices: 33034022--33034218 Score: 218
Period size: 77 Copynumber: 2.5 Consensus size: 78
33034012 CGTGTAAGTA
* * * * * * *
33034022 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGCCGAAGGCCATGGTTGTAAATTAGCGGA
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAAGCCATGATCGTAAATCAGCGAA
*
33034087 -CGTAAGAAA-AT
66 CCGTAAGAAAGCT
* * * * *
33034098 CAAAGGTCATGATCGTAAATCAATGAACCATAAGAAAGTCAAAAGTCGTGATCGTAAATCAGCGA
1 -AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAAGCCATGATCGTAAATCAGCGA
33034163 ACCGTAAGAAAGCT
65 ACCGTAAGAAAGCT
* * * *
33034177 GAAGGTCGTGACCGTAAATCAGTGGACTATAAGAAAGCCAAA
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAA
33034219 GATCGCAATT
Statistics
Matches: 98, Mismatches: 20, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 53 0.54
78 44 0.45
79 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (78 bp):
AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAAGCCATGATCGTAAATCAGCGAA
CCGTAAGAAAGCT
Found at i:33034198 original size:39 final size:40
Alignment explanation
Indices: 33034022--33034244 Score: 170
Period size: 39 Copynumber: 5.7 Consensus size: 40
33034012 CGTGTAAGTA
* *
33034022 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGC-C
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* * * * * * * * *
33034061 GAAGGCCATGGTTGTAAATTAGCGGA-CGTAAGAAA-ATC
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* **
33034099 AAAGGTCATGATCGTAAATCAATGAACCATAAGAAAG-TC
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* *
33034138 AAAAGTCGTGATCGTAAATCAGCGAACCGTAAGAAAGCT-
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* * * * *
33034177 GAAGGTCGTGACCGTAAATCAGTGGACTATAAGAAAGC-C
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* ** * *
33034216 AAAGATCGCAATTGTAAATCAGCAAACCA
1 AAAGGTCGTGATCGTAAATCAGCGAACCA
33034245 CGAGGTTCAT
Statistics
Matches: 139, Mismatches: 40, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
38 27 0.19
39 111 0.80
40 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
Found at i:33034233 original size:78 final size:78
Alignment explanation
Indices: 33034022--33034243 Score: 211
Period size: 78 Copynumber: 2.9 Consensus size: 78
33034012 CGTGTAAGTA
* * * * *
33034022 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGCCGAAG-GC-CATGGTTGTAAATTAGCG
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGATCGCA--ATTGTAAATCAGCG
*
33034085 GA-CGTAAGAAAATC
64 AACCGTAAGAAAATC
* * * ** *
33034099 AAAGGTCATGATCGTAAATCAATGAACCATAAGAAAGTCAAA-AGTCGTGATCGTAAATCAGCGA
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGA-TCGCAATTGTAAATCAGCGA
*
33034163 ACCGTAAG-AAAGC
65 ACCGTAAGAAAATC
* * * * *
33034176 TGAAGGTCGTGACCGTAAATCAGTGGACTATAAGAAAGCCAAAGATCGCAATTGTAAATCAGCAA
1 -AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGATCGCAATTGTAAATCAGCGA
33034241 ACC
65 ACC
33034244 ACGAGGTTCA
Statistics
Matches: 115, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
77 53 0.46
78 61 0.53
79 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (78 bp):
AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGATCGCAATTGTAAATCAGCGAA
CCGTAAGAAAATC
Found at i:33034312 original size:54 final size:54
Alignment explanation
Indices: 33034229--33034454 Score: 231
Period size: 54 Copynumber: 4.2 Consensus size: 54
33034219 GATCGCAATT
* * * * *
33034229 GTAAATCAGCAAACCACGAGGTTCATAAAATCTCATAAGTAAAAGGTCATAATC
1 GTAAATCAGCGAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
* * *
33034283 GTAAATCAGTGAACCGCGAGATTCGTAAAATCCCATAAGTAAAAGGTCGTGATC
1 GTAAATCAGCGAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
* * * * *
33034337 GTAAATCAGCGGACTGCAAGATTTGTAAAATC-CTGTAAGTAAAAGGTCATGATC
1 GTAAATCAGCGAACCGCGAGATTCGTAAAATCTC-ATAAGTAAAAGGTCATGATC
* ** ** **
33034391 ATAAATCAGCTG-ATTGCGAGATTCGTAAAATCTTGTAAGTAAAAGGTTGTGATC
1 GTAAATCAGC-GAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
*
33034445 ATAAATCAGC
1 GTAAATCAGC
33034455 ATACCGTAAG
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 145 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (54 bp):
GTAAATCAGCGAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
Found at i:33034476 original size:39 final size:38
Alignment explanation
Indices: 33034440--33034573 Score: 144
Period size: 39 Copynumber: 3.4 Consensus size: 38
33034430 TAAAAGGTTG
* *
33034440 TGATCATAAATCAGCATACCGTAAGAACACTGAAGGTCA
1 TGATCGTAAATCAGCAGACCGTAAGAA-ACTGAAGGTCA
* * **
33034479 TGATCGTAAATCAAG-GGACCATAAGAAAACCAAAGGTCA
1 TGATCGTAAATC-AGCAGACCGTAAG-AAACTGAAGGTCA
* * *
33034518 TGATCGTAAATCAACAGATCGTAAGAAAGCTGAAGGTCG
1 TGATCGTAAATCAGCAGACCGTAAGAAA-CTGAAGGTCA
33034557 TGATCGTAAATCAGCAG
1 TGATCGTAAATCAGCAG
33034574 GCCGCGAGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.05
39 69 0.90
40 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (38 bp):
TGATCGTAAATCAGCAGACCGTAAGAAACTGAAGGTCA
Found at i:33044900 original size:20 final size:20
Alignment explanation
Indices: 33044872--33044918 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
33044862 AATTATAGAT
33044872 TAAAAAATAATTAAAGGGAC
1 TAAAAAATAATTAAAGGGAC
*
33044892 TAAAGAATAATTAAAGGGAC
1 TAAAAAATAATTAAAGGGAC
33044912 TAAAAAA
1 TAAAAAA
33044919 ACAATTATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (20 bp):
TAAAAAATAATTAAAGGGAC
Found at i:33045058 original size:35 final size:33
Alignment explanation
Indices: 33044973--33045067 Score: 77
Period size: 35 Copynumber: 2.8 Consensus size: 33
33044963 AAATTTATTT
* *
33044973 TATTATAAT-TATATAATATATATACTTAATAAT
1 TATTATAATATATATAATATATAT-TTTAATAAA
* *
33045006 TAAGTA-AACATATTATAATATATATTTTAACTTAAA
1 T-ATTATAATATA-TATAATATATATTTTAA--TAAA
* *
33045042 TATTATAATATATATAAAATAAATTT
1 TATTATAATATATATAATATATATTT
33045068 ACAGTTACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
33 3 0.06
34 9 0.19
35 27 0.56
36 9 0.19
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (33 bp):
TATTATAATATATATAATATATATTTTAATAAA
Found at i:33049533 original size:30 final size:30
Alignment explanation
Indices: 33049479--33049536 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33049469 ATGTCTGTGT
*
33049479 TGGATAATTAACAAACCCCTAATTAATTAA
1 TGGATAATTAACAAACCCCAAATTAATTAA
* * *
33049509 TGGATAATTAATAGACTCCAAATTAATT
1 TGGATAATTAACAAACCCCAAATTAATT
33049537 GATAACGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (30 bp):
TGGATAATTAACAAACCCCAAATTAATTAA
Found at i:33057323 original size:5 final size:5
Alignment explanation
Indices: 33057282--33057366 Score: 53
Period size: 5 Copynumber: 15.0 Consensus size: 5
33057272 AAGTACCAAA
* * *
33057282 AAAATT AAAAT AAAGT AGAAT AACAAT AAAAT GAAAT AAAAT AAAAAGT
1 AAAA-T AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT -AAAA-T
33057331 AAAAATT AAAATT AAAAT AAATAGTT AAAAT AAAAT
1 -AAAA-T AAAA-T AAAAT AAA-A--T AAAAT AAAAT
33057367 TTCAACTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
5 30 0.45
6 24 0.36
7 8 0.12
8 4 0.06
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:33057324 original size:21 final size:22
Alignment explanation
Indices: 33057281--33057364 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 22
33057271 AAAGTACCAA
* *
33057281 AAAAATTAAAATAAAGTAGAAT
1 AAAAAGTAAAATAAAGTAAAAT
*
33057303 AACAA-TAAAATGAAA-TAAAAT
1 AAAAAGTAAAAT-AAAGTAAAAT
*
33057324 AAAAAGTAAAAATTAAAATTAAAAT
1 AAAAAGT-AAAA-T-AAAGTAAAAT
*
33057349 AAATAGTTAAAATAAA
1 AAAAAG-TAAAATAAA
33057365 ATTTCAACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
21 15 0.29
22 8 0.16
23 7 0.14
24 5 0.10
25 15 0.29
26 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAAGTAAAATAAAGTAAAAT
Found at i:33057341 original size:13 final size:13
Alignment explanation
Indices: 33057319--33057365 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
33057309 AAAATGAAAT
33057319 AAAATAAAAAGTA
1 AAAATAAAAAGTA
* *
33057332 AAAATTAAAA-TT
1 AAAATAAAAAGTA
* *
33057344 AAAATAAATAGTT
1 AAAATAAAAAGTA
33057357 AAAATAAAA
1 AAAATAAAA
33057366 TTTCAACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (13 bp):
AAAATAAAAAGTA
Found at i:33057342 original size:19 final size:19
Alignment explanation
Indices: 33057318--33057365 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
33057308 TAAAATGAAA
33057318 TAAAATAAAAAGTAAA-AAT
1 TAAAATAAAAA-TAAATAAT
* *
33057337 TAAAATTAAAATAAATAGT
1 TAAAATAAAAATAAATAAT
33057356 TAAAATAAAA
1 TAAAATAAAA
33057366 TTTCAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
TAAAATAAAAATAAATAAT
Found at i:33057347 original size:25 final size:24
Alignment explanation
Indices: 33057309--33057367 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
33057299 GAATAACAAT
*
33057309 AAAATGAAA-TAAAATAAAAAGTA
1 AAAATAAAATTAAAATAAAAAGTA
* *
33057332 AAAATTAAAATTAAAATAAATAGTT
1 AAAA-TAAAATTAAAATAAAAAGTA
33057357 AAAATAAAATT
1 AAAATAAAATT
33057368 TCAACTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 16 0.52
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (24 bp):
AAAATAAAATTAAAATAAAAAGTA
Found at i:33067832 original size:32 final size:32
Alignment explanation
Indices: 33067790--33067851 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
33067780 GGGGGCGAGA
*
33067790 TAATGAAAAATAATAAATTTTA-AAATAAAAAT
1 TAATGAAAAATAAT-AATTTAATAAATAAAAAT
*
33067822 TAATTAAAAATAATAATTTAATAAATAAAA
1 TAATGAAAAATAATAATTTAATAAATAAAA
33067852 TAAACTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (32 bp):
TAATGAAAAATAATAATTTAATAAATAAAAAT
Found at i:33067842 original size:18 final size:18
Alignment explanation
Indices: 33067790--33067855 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
33067780 GGGGGCGAGA
*
33067790 TAATGAAAAATAATAAAT
1 TAATTAAAAATAATAAAT
33067808 T--TT-AAAATAA-AAAT
1 TAATTAAAAATAATAAAT
*
33067822 TAATTAAAAATAATAATT
1 TAATTAAAAATAATAAAT
33067840 TAA-TAAATAA-AATAAA
1 TAATTAAA-AATAATAAA
33067856 CTGGAAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
14 5 0.12
15 7 0.17
16 3 0.08
17 16 0.40
18 9 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATTAAAAATAATAAAT
Found at i:33069897 original size:76 final size:76
Alignment explanation
Indices: 33069771--33069914 Score: 261
Period size: 76 Copynumber: 1.9 Consensus size: 76
33069761 TTGTTCATTG
*
33069771 TTATGCAGTAAATTCGAATCTTTTCCCATATGTGTCAAAAAAGCACAATTGCATCCATCGTGTAC
1 TTATGCAGTAAATTCGAATCTTTTCCCATATGTGTCAAAAAAGCACAATTGCAGCCATCGTGTAC
33069836 CTTATGCATCA
66 CTTATGCATCA
* *
33069847 TTATGCAGTGAATTCGGATCTTTTCCCATATGTGTCAAAAAAGCACAATTGCAGCCATCGTGTAC
1 TTATGCAGTAAATTCGAATCTTTTCCCATATGTGTCAAAAAAGCACAATTGCAGCCATCGTGTAC
33069912 CTT
66 CTT
33069915 TTTCCAATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (76 bp):
TTATGCAGTAAATTCGAATCTTTTCCCATATGTGTCAAAAAAGCACAATTGCAGCCATCGTGTAC
CTTATGCATCA
Found at i:33070434 original size:18 final size:18
Alignment explanation
Indices: 33070411--33070451 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
33070401 ATCTTAAAAG
33070411 ATAAAA-AAAATAATAACT
1 ATAAAATAAAATAA-AACT
33070429 ATAAAATAAAATAAAACT
1 ATAAAATAAAATAAAACT
33070447 ATAAA
1 ATAAA
33070452 CTTTAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAAATAAAATAAAACT
Found at i:33070444 original size:25 final size:25
Alignment explanation
Indices: 33070416--33070470 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
33070406 AAAAGATAAA
*
33070416 AAAAATA-ATAACTATAAAATAAAAT
1 AAAAATATA-AACTATAAAACAAAAT
* * *
33070441 AAAACTATAAACTTTAAAACACAAT
1 AAAAATATAAACTATAAAACAAAAT
33070466 AAAAA
1 AAAAA
33070471 GAATTGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAAATATAAACTATAAAACAAAAT
Found at i:33073713 original size:22 final size:22
Alignment explanation
Indices: 33073653--33073744 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
33073643 GCTTACTATT
* * * *
33073653 TTCAGCTCATTGGAACTTTCTG
1 TTCAGCTCAATAGAGCTTACTG
*
33073675 ATTCAACTC-ATATGAGCTTACTG
1 -TTCAGCTCAATA-GAGCTTACTG
**
33073698 TTCAGCTTGATAGAGCTTACCAT-
1 TTCAGCTCAATAGAGCTTA-C-TG
*
33073721 TTTAGCTCAATAGAGCTTACTG
1 TTCAGCTCAATAGAGCTTACTG
33073743 TT
1 TT
33073745 TATCGGCTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.02
22 17 0.31
23 35 0.65
24 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTACTG
Found at i:33073935 original size:20 final size:20
Alignment explanation
Indices: 33073910--33073968 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
33073900 GAATGAGATA
33073910 TGTTGAAATGGATGAATTAC
1 TGTTGAAATGGATGAATTAC
*
33073930 TGTTGAAATGAATGAATTAC
1 TGTTGAAATGGATGAATTAC
* *
33073950 TATTGATATGGATGAATTA
1 TGTTGAAATGGATGAATTA
33073969 TAGTTTATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.37
Consensus pattern (20 bp):
TGTTGAAATGGATGAATTAC
Found at i:33080004 original size:17 final size:18
Alignment explanation
Indices: 33079982--33080022 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
33079972 AAATATTAAT
33079982 AATTAATGAATT-AAAAA
1 AATTAATGAATTGAAAAA
* *
33079999 AATTAATTAATTGAATAA
1 AATTAATGAATTGAAAAA
33080017 AATTAA
1 AATTAA
33080023 AAATTAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTAATGAATTGAAAAA
Found at i:33080009 original size:25 final size:27
Alignment explanation
Indices: 33079969--33080025 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
33079959 GAAGATTTTA
*
33079969 AAAAAATATTAATAATT-AAT-GAATT
1 AAAAAATATTAATAATTGAATAAAATT
33079994 AAAAAA-ATTAATTAATTGAATAAAATT
1 AAAAAATATTAA-TAATTGAATAAAATT
33080021 AAAAA
1 AAAAA
33080026 TTAAGAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 5 0.18
25 11 0.39
26 3 0.11
27 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAAAATATTAATAATTGAATAAAATT
Found at i:33104621 original size:18 final size:18
Alignment explanation
Indices: 33104598--33104633 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33104588 CCGTGTGGAC
33104598 TGCCTGTGTAGGTCCACA
1 TGCCTGTGTAGGTCCACA
33104616 TGCCTGTGTAGGTCCACA
1 TGCCTGTGTAGGTCCACA
33104634 GGTCCACACG
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:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (18 bp):
TGCCTGTGTAGGTCCACA
Found at i:33108416 original size:46 final size:46
Alignment explanation
Indices: 33108290--33108503 Score: 175
Period size: 46 Copynumber: 4.6 Consensus size: 46
33108280 ACTCGATACG
* * * **
33108290 ATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTA-GCCAATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCG-AGGCTGATGC
* * * *
33108337 ATGTCCTAGACAAGTCTTACATTGGCT-TACGTCTCGAGGCTGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCGAGGCTGATGC
* * * *
33108383 ATGTCCTAAACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGCTGATG-C
* * * * *
33108430 ATGTCCCAGTCATGGTCTTACACT-GCTCTCATAAT-GTGGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTCGAGGCTGATGC
*
33108476 ATATCCCAGACATGTCTTACACTAGCTC
1 ATGTCCCAGACATGTCTTACACTAGCTC
33108504 ACAAAAAAAT
Statistics
Matches: 135, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
45 12 0.09
46 76 0.56
47 36 0.27
48 11 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGCTGATGC
Found at i:33111813 original size:5 final size:5
Alignment explanation
Indices: 33111803--33111849 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
33111793 ATAGAAAATC
33111803 TTATT TTATT TT-TAT TTATT TTATTT TTGATT TTATT TTGATT TTAT
1 TTATT TTATT TTAT-T TTATT TTA-TT TT-ATT TTATT TT-ATT TTAT
33111850 GTTAAATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 1 0.03
5 21 0.57
6 14 0.38
7 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:33111819 original size:11 final size:11
Alignment explanation
Indices: 33111806--33111849 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
33111796 GAAAATCTTA
33111806 TTTTATTTT-T
1 TTTTATTTTAT
*
33111816 ATTTATTTTAT
1 TTTTATTTTAT
33111827 TTTTGATTTTAT
1 TTTT-ATTTTAT
*
33111839 TTTGATTTTAT
1 TTTTATTTTAT
33111850 GTTAAATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 8 0.28
11 11 0.38
12 10 0.34
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:33114336 original size:46 final size:46
Alignment explanation
Indices: 33114216--33114338 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
33114206 AACCCGCCCC
* * * *
33114216 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGGATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCA
* *
33114262 TAAATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCA
*
33114308 TAAGTGAACTCAGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
33114339 AGATGCTNNN
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCA
Found at i:33118172 original size:50 final size:47
Alignment explanation
Indices: 33118058--33118183 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 47
33118048 TTAATTATAT
* * * *
33118058 GCTACTGTAAGACATGTCTGGGACATGGCATAGGCACGTATAGAGGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATAGACACGGATAGAGGA
* * *
33118105 G-TCAGTGTAAGATCATGTCCGGGACATGGCATCGACACGGATATGTGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATAGACACGGATA-GAG-GA
*
33118155 GCTAGTGTAAGACCATGTTTGGGACATGG
1 GCTAGTGTAAGA-CATGTCTGGGACATGG
33118184 TGTCGGCCCC
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
46 1 0.02
47 9 0.14
48 26 0.41
49 2 0.03
50 25 0.39
51 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATAGACACGGATAGAGGA
Found at i:33119484 original size:20 final size:21
Alignment explanation
Indices: 33119445--33119484 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33119435 GTTATAATGA
*
33119445 TCACACGGGCGTATTGCCCTT
1 TCACACGGGCGTAGTGCCCTT
*
33119466 TCACACGGGTGT-GTGCCCT
1 TCACACGGGCGTAGTGCCCT
33119485 ATTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (21 bp):
TCACACGGGCGTAGTGCCCTT
Found at i:33123366 original size:48 final size:48
Alignment explanation
Indices: 33123292--33123527 Score: 292
Period size: 48 Copynumber: 4.9 Consensus size: 48
33123282 AGGGTAAATT
* * * * * ** *
33123292 GCCGATGCCATGTCCTAGACAGGGTCTTACATTGGCTCACATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
* * * *** * *
33123340 GCCGATGCCATGTTCTAGACATGGTCTTACACTAGCTCTTGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
* *
33123388 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
33123436 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
* *
33123484 GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCGCACATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
33123528 AACCCAAATG
Statistics
Matches: 163, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 163 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
Found at i:33129511 original size:32 final size:32
Alignment explanation
Indices: 33129465--33129529 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
33129455 ACCTTAATGT
*
33129465 CCCTCCTACAGGCCTACAACGCCCCGAATACA
1 CCCTACTACAGGCCTACAACGCCCCGAATACA
* *
33129497 CCCTACTACGGGCCTACGACGCCCCGAATACA
1 CCCTACTACAGGCCTACAACGCCCCGAATACA
33129529 C
1 C
33129530 TTTGGAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.46, G:0.15, T:0.12
Consensus pattern (32 bp):
CCCTACTACAGGCCTACAACGCCCCGAATACA
Found at i:33130857 original size:48 final size:48
Alignment explanation
Indices: 33130795--33131111 Score: 296
Period size: 48 Copynumber: 6.6 Consensus size: 48
33130785 TCATGTCTTG
* *
33130795 GACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * ** * * * *
33130843 GGCATGATCTTACACTAGCTCTTATCTCAATGCCGATGGCGTGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * * * **
33130891 AACATGGTCTTAGATTGGCTCTCACA-AT-GTGGCCGATGCCATGTCCCA
1 GACATGGTCTTACACTAG--CTCACATATCAAGGCCGATGCCATGTCCCA
* * * *
33130939 AACATGGTCTTACACTAGCGCACATACCAATGCCGATGCCATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * *
33130987 GACATGGTCTTACACTAGCGCACCTATCAATGCCGATGCCATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * * ** * **
33131035 GACATGGTCTTACACTGGCTCTCATAACGTGGTCGATGTTATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * *
33131083 GACTTGATCTTACACTAGCGCACATATCA
1 GACATGGTCTTACACTAGCTCACATATCA
33131112 CTCAAATGTC
Statistics
Matches: 212, Mismatches: 53, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
46 5 0.02
47 1 0.00
48 201 0.95
49 1 0.00
50 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
Found at i:33131046 original size:144 final size:144
Alignment explanation
Indices: 33130796--33131108 Score: 401
Period size: 144 Copynumber: 2.2 Consensus size: 144
33130786 CATGTCTTGG
* * * * *
33130796 ACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCAGGCATGATCTTACACTAG
1 ACATGGTCTTACACTAGCGCACATACCAAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
* ** * * * * * *
33130861 CTCTTATCTCAATGCCGATGGCGTGTCCCAAACATGGTCTTAGATTGGCTCTCACAATGTGGCCG
66 CGCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACGTGGCCG
33130926 ATGCCATGTCCCAA
131 ATGCCATGTCCCAA
* *
33130940 ACATGGTCTTACACTAGCGCACATACCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 ACATGGTCTTACACTAGCGCACATACCAAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
* * * *
33131005 CGCACCTATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGTCG
66 CGCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACGTGGCCG
** *
33131070 ATGTTATGTCCCAG
131 ATGCCATGTCCCAA
* *
33131084 ACTTGATCTTACACTAGCGCACATA
1 ACATGGTCTTACACTAGCGCACATA
33131109 TCACTCAAAT
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (144 bp):
ACATGGTCTTACACTAGCGCACATACCAAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
CGCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACGTGGCCG
ATGCCATGTCCCAA
Found at i:33143222 original size:15 final size:16
Alignment explanation
Indices: 33143202--33143234 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33143192 ATAGAAAACC
*
33143202 TTATTTT-ATTTTTAT
1 TTATTTTAATTTTGAT
33143217 TTATTTTAATTTTGAT
1 TTATTTTAATTTTGAT
33143233 TT
1 TT
33143235 TGTATTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTATTTTAATTTTGAT
Found at i:33143245 original size:23 final size:21
Alignment explanation
Indices: 33143204--33143247 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
33143194 AGAAAACCTT
*
33143204 ATTTTATTTTTATTTATTTTA
1 ATTTTATTTTTATTGATTTTA
33143225 ATTTTGATTTTGTATTGATTTTA
1 ATTTT-ATTTT-TATTGATTTTA
33143248 TGTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (21 bp):
ATTTTATTTTTATTGATTTTA
Found at i:33148979 original size:47 final size:48
Alignment explanation
Indices: 33148926--33149161 Score: 220
Period size: 46 Copynumber: 5.0 Consensus size: 48
33148916 GGTAAGGTGT
*
33148926 ATGGTCTTACACTGGCTCAT-ATCTC-AAGTCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG-CATGTCCCAGAC
* *
33148973 ATGGTCTTACACTGACT-ATCATCTCGTAGCCGATGCATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGAC
* * * * * *
33149020 AT-GTCTTACAATGGCTTA-CGTCTCGAGGCCGATGTATGTCCCAAAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGAC
* * * *
33149066 AT-GTCTTACACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG-CATGTCCCAGAC
* * ** *
33149113 ATGGTCTTACACTAGCTC-TCATAAT-GTGGCCGATGAATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCAT-CTCGAAGCCGATGCATGTCCCAGAC
33149160 AT
1 AT
33149162 TTCCGACACT
Statistics
Matches: 159, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
46 65 0.41
47 61 0.38
48 32 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGAC
Done.