Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 203 of 214
Found at i:59618655 original size:52 final size:48
Alignment explanation
Indices: 59618636--59618838 Score: 274
Period size: 46 Copynumber: 4.3 Consensus size: 48
59618626 TGACAAGTGG
*
59618636 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59618682 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
59618734 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
59618780 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59618826 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59618839 GCTACACTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
46 101 0.70
52 44 0.30
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:59618690 original size:98 final size:98
Alignment explanation
Indices: 59618570--59618838 Score: 466
Period size: 98 Copynumber: 2.7 Consensus size: 98
59618560 TTTGAGTACT
*
59618570 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59618635 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
**
59618668 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59618733 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
59618766 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
59618831 GATAAGTG
65 GAAAAGTG
59618839 GCTACACTTA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 150 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:59618846 original size:37 final size:37
Alignment explanation
Indices: 59618802--59618947 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
59618792 GATAGCTTTA
*
59618802 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59618839 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
59618876 GCTACACTTATCTAATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59618913 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59618948 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59620219 original size:37 final size:37
Alignment explanation
Indices: 59620158--59620340 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
59620148 TACGTATGAT
* *
59620158 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
59620193 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
59620230 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
59620267 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
59620304 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
59620341 TAAAGCTATC
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 128 0.91
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:59620383 original size:52 final size:52
Alignment explanation
Indices: 59620304--59620618 Score: 384
Period size: 52 Copynumber: 6.2 Consensus size: 52
59620294 TAAGTGTAGC
* * *
59620304 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
59620357 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
59620409 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
59620455 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
59620507 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
59620553 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
59620605 CACTTTGTCACTTG
1 CACTTT-TCACTTG
59620619 ATCAGAAGTA
Statistics
Matches: 224, Mismatches: 25, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
46 83 0.37
49 1 0.00
52 124 0.55
53 16 0.07
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:59620426 original size:46 final size:46
Alignment explanation
Indices: 59620354--59620624 Score: 328
Period size: 46 Copynumber: 5.7 Consensus size: 46
59620344 AGCTATCACT
*
59620354 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
59620399 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
59620445 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
59620497 TACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
59620543 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
59620595 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
59620625 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 18, Indels: 25
0.82 0.08 0.11
Matches are distributed among these distances:
45 12 0.06
46 99 0.51
48 2 0.01
50 2 0.01
52 80 0.41
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:59620445 original size:98 final size:98
Alignment explanation
Indices: 59620303--59620624 Score: 554
Period size: 98 Copynumber: 3.3 Consensus size: 98
59620293 ATAAGTGTAG
* * * ** * *
59620303 CCACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
**
59620368 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
*
59620401 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
59620466 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
59620499 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
59620564 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
59620597 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
59620625 AGTACTCAAA
Statistics
Matches: 213, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 213 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
Found at i:59621514 original size:37 final size:37
Alignment explanation
Indices: 59621473--59621612 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
59621463 TTTGAGTACT
59621473 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
59621510 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
* *
59621547 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
59621584 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
59621613 AGCTTCAGCT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:59621683 original size:45 final size:46
Alignment explanation
Indices: 59621574--59621697 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
59621564 GTGATAAGTG
* *
59621574 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
59621620 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
59621665 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
59621698 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:59624126 original size:46 final size:44
Alignment explanation
Indices: 59624101--59624421 Score: 215
Period size: 46 Copynumber: 7.5 Consensus size: 44
59624091 GATCAAGTGA
* *
59624101 CAAGTGGA-AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGAT
*
59624146 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTT-AGCTACACTTATCTGAT
* *
59624192 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTT-AGCTACACTTATCTGAT
*
59624244 CAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGC-TTAGCTACACTTATCTGAT
*
59624290 CAAGAGACAAAGTGATAA--G-T-G----GCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTAGCTACACTTATCTGAT
*
59624327 CAAGAGACAAAGTGATAA--G-T-G----GCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTAGCTACACTTATCTGAT
* * *
59624364 CAA--GA-AA--CA-AAGTGATAG-GTGGCTACACTTATCTGAT
1 CAAGTGACAAGTGATAAGTGATAGCTTAGCTACACTTATCTGAT
*
59624401 C-AGGGACAAGTGATAAGTGAT
1 CAAGTGACAAGTGATAAGTGAT
59624422 CATACGTAAG
Statistics
Matches: 247, Mismatches: 7, Indels: 47
0.82 0.02 0.16
Matches are distributed among these distances:
30 2 0.01
31 1 0.00
32 1 0.00
33 3 0.01
34 1 0.00
35 2 0.01
36 1 0.00
37 73 0.30
38 2 0.01
39 2 0.01
41 1 0.00
42 8 0.03
43 1 0.00
44 3 0.01
45 5 0.02
46 95 0.38
47 2 0.01
52 44 0.18
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (44 bp):
CAAGTGACAAGTGATAAGTGATAGCTTAGCTACACTTATCTGAT
Found at i:59624127 original size:52 final size:48
Alignment explanation
Indices: 59624108--59624310 Score: 274
Period size: 46 Copynumber: 4.3 Consensus size: 48
59624098 TGACAAGTGG
*
59624108 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59624154 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
59624206 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
59624252 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59624298 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59624311 GCTACACTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
46 101 0.70
52 44 0.30
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:59624162 original size:98 final size:98
Alignment explanation
Indices: 59624042--59624310 Score: 466
Period size: 98 Copynumber: 2.7 Consensus size: 98
59624032 TTTGAGTACT
*
59624042 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59624107 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
**
59624140 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59624205 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
59624238 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
59624303 GATAAGTG
65 GAAAAGTG
59624311 GCTACACTTA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 150 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:59624318 original size:37 final size:37
Alignment explanation
Indices: 59624274--59624419 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
59624264 GATAGCTTTA
59624274 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
59624311 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
59624348 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
59624385 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
59624420 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:59625734 original size:49 final size:49
Alignment explanation
Indices: 59625673--59625816 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
59625663 ATGTGAACAT
* *
59625673 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59625723 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59625772 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
59625817 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:59629023 original size:52 final size:48
Alignment explanation
Indices: 59629004--59629206 Score: 274
Period size: 46 Copynumber: 4.3 Consensus size: 48
59628994 TGACAAGTGG
*
59629004 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59629050 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
59629102 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
59629148 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59629194 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59629207 GCTACACTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
46 101 0.70
52 44 0.30
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:59629058 original size:98 final size:98
Alignment explanation
Indices: 59628938--59629206 Score: 466
Period size: 98 Copynumber: 2.7 Consensus size: 98
59628928 TTTGAGTACT
*
59628938 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59629003 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
**
59629036 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59629101 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
59629134 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
59629199 GATAAGTG
65 GAAAAGTG
59629207 GCTACACTTA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 150 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:59629214 original size:37 final size:37
Alignment explanation
Indices: 59629170--59629342 Score: 226
Period size: 37 Copynumber: 5.0 Consensus size: 37
59629160 GATAGCTTTA
*
59629170 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59629207 GCTACACTTATCTGAT-------C-AA--GATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59629234 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59629271 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59629308 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59629343 ATCATACGTA
Statistics
Matches: 122, Mismatches: 4, Indels: 22
0.82 0.03 0.15
Matches are distributed among these distances:
27 24 0.20
29 2 0.02
30 1 0.01
34 1 0.01
35 13 0.11
36 4 0.03
37 77 0.63
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59629237 original size:27 final size:27
Alignment explanation
Indices: 59629199--59629254 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
59629189 GAGACAAAGT
59629199 GATAAGTGGCTACACTTATCTGATCAA
1 GATAAGTGGCTACACTTATCTGATCAA
59629226 GATAAGTGGCTACACTTATCTGATCAA
1 GATAAGTGGCTACACTTATCTGATCAA
59629253 GA
1 GA
59629255 AACAAAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (27 bp):
GATAAGTGGCTACACTTATCTGATCAA
Found at i:59629271 original size:64 final size:64
Alignment explanation
Indices: 59629170--59629291 Score: 235
Period size: 64 Copynumber: 1.9 Consensus size: 64
59629160 GATAGCTTTA
*
59629170 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGATAAGTG
59629234 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGA
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGA
59629292 AACAAAGTGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (64 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGATAAGTG
Found at i:59634592 original size:49 final size:49
Alignment explanation
Indices: 59634531--59634674 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
59634521 ATGTGAACAT
* *
59634531 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59634581 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59634630 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
59634675 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:59636290 original size:46 final size:46
Alignment explanation
Indices: 59636272--59636526 Score: 246
Period size: 46 Copynumber: 5.3 Consensus size: 46
59636262 TGAAAAGTGG
* * *
59636272 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
59636318 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
* * *
59636364 AAGTGGAAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
59636416 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
59636462 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
*
59636514 AGAGTGATAAGTG
1 AAAGTGATAAGTG
59636527 GCTACACTTA
Statistics
Matches: 181, Mismatches: 13, Indels: 30
0.81 0.06 0.13
Matches are distributed among these distances:
46 96 0.53
47 1 0.01
51 1 0.01
52 82 0.45
53 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:59636303 original size:52 final size:51
Alignment explanation
Indices: 59636213--59636509 Score: 353
Period size: 52 Copynumber: 5.9 Consensus size: 51
59636203 ACTTCTGATC
* *
59636213 AAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAA
1 AAGTG-CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTG-A
* * * *
59636266 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG-
1 AAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
59636316 -A---CAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 AAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* * * *
59636363 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG-
1 -AAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
59636414 -A---CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 AAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
59636461 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 -AAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
59636510 AGACAGAGTG
Statistics
Matches: 208, Mismatches: 24, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
46 81 0.39
49 4 0.02
52 118 0.57
53 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
Found at i:59636375 original size:98 final size:98
Alignment explanation
Indices: 59636206--59636527 Score: 545
Period size: 98 Copynumber: 3.3 Consensus size: 98
59636196 TTTGAGTACT
*
59636206 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59636271 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59636304 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59636369 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
59636402 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * ** *
59636467 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
59636500 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
59636528 CTACACTTAT
Statistics
Matches: 212, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 212 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59636533 original size:37 final size:37
Alignment explanation
Indices: 59636490--59636672 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
59636480 GATAGCTTTA
* *
59636490 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59636527 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59636564 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59636601 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59636638 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59636673 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59643028 original size:46 final size:46
Alignment explanation
Indices: 59643003--59643264 Score: 200
Period size: 46 Copynumber: 5.5 Consensus size: 46
59642993 GATCAAGTGA
* * *
59643003 CAAGTGGA-AAGT-GATAAGTAATAGCT-TCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
* *
59643048 CAAGTGACAAAGT-GATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGGATAAGTGATAGCTATAGCTACACTTATCTGAT
*
59643094 CAAGTGACAAGTGGA-AAGTGATAAG-TAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGACAAGTGGATAAGTGAT-AGCT-ATA------GCTACACTTATCTGAT
*
59643146 CAAGTGACAAAGT-GATAAGTGATAGCT-TCGGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
*
59643192 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAGT-----G-GATAAGTGATAGCTATAGCTACACTTATCTGAT
*
59643244 CAAGAGACAGAGT-GATAAGTG
1 CAAGTGACA-AGTGGATAAGTG
59643265 GCTACACTTA
Statistics
Matches: 181, Mismatches: 11, Indels: 49
0.75 0.05 0.20
Matches are distributed among these distances:
44 2 0.01
45 20 0.11
46 76 0.42
47 1 0.01
51 1 0.01
52 65 0.36
53 16 0.09
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAGTGGATAAGTGATAGCTATAGCTACACTTATCTGAT
Found at i:59643029 original size:52 final size:51
Alignment explanation
Indices: 59642958--59643264 Score: 382
Period size: 52 Copynumber: 6.1 Consensus size: 51
59642948 ATCAAGTGAC
* *
59642958 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59643010 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59643056 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59643108 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
59643154 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59643205 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
59643258 ATAAGTG
1 A-AAGTG
59643265 GCTACACTTA
Statistics
Matches: 221, Mismatches: 20, Indels: 27
0.82 0.07 0.10
Matches are distributed among these distances:
46 85 0.38
52 127 0.57
53 9 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:59643113 original size:98 final size:98
Alignment explanation
Indices: 59642944--59643265 Score: 554
Period size: 98 Copynumber: 3.3 Consensus size: 98
59642934 TTTGAGTACT
59642944 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59643009 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59643042 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59643107 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
59643140 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * ** *
59643205 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
59643238 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
59643266 CTACACTTAT
Statistics
Matches: 213, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 213 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59643271 original size:37 final size:37
Alignment explanation
Indices: 59643228--59643410 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
59643218 GATAGCTTTA
* *
59643228 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59643265 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59643302 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59643339 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59643376 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59643411 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59644392 original size:37 final size:37
Alignment explanation
Indices: 59644331--59644587 Score: 419
Period size: 37 Copynumber: 7.0 Consensus size: 37
59644321 TACGTATGAT
* *
59644331 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
59644366 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
59644403 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
59644440 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
59644477 CACCTATCACTTTTTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
59644514 CACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
59644551 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
59644588 TAAAGCTATC
Statistics
Matches: 205, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 193 0.94
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:59644486 original size:111 final size:111
Alignment explanation
Indices: 59644331--59644587 Score: 482
Period size: 111 Copynumber: 2.3 Consensus size: 111
59644321 TACGTATGAT
*
59644331 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
59644394 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
66 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
*
59644440 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTTTTTCTTGATCAGAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
59644505 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
66 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
59644551 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
59644588 TAAAGCTATC
Statistics
Matches: 144, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
109 10 0.07
110 5 0.03
111 129 0.90
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (111 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGC
Found at i:59644604 original size:46 final size:46
Alignment explanation
Indices: 59644551--59644917 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
59644541 TAAGTGCAGC
* * **
59644551 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
59644597 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
59644643 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
59644695 CACTTATCACTTTATTACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
59644741 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
59644793 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
59644839 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
59644891 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
59644918 AGTACTCAAA
Statistics
Matches: 284, Mismatches: 19, Indels: 36
0.84 0.06 0.11
Matches are distributed among these distances:
46 153 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 125 0.44
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:59644670 original size:52 final size:52
Alignment explanation
Indices: 59644594--59644911 Score: 444
Period size: 52 Copynumber: 6.3 Consensus size: 52
59644584 TAGCTAAAGC
* *
59644594 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
59644647 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
59644699 TATCAC-TTT-A--T-T-ACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
59644745 TATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
59644797 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
59644843 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
59644895 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
59644912 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 14, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
46 80 0.34
47 5 0.02
48 3 0.01
50 3 0.01
51 6 0.03
52 123 0.52
53 18 0.08
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:59644716 original size:98 final size:98
Alignment explanation
Indices: 59644562--59644917 Score: 595
Period size: 98 Copynumber: 3.6 Consensus size: 98
59644552 ACTTATCACT
* * * * *
59644562 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
* *
59644627 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* *
59644660 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATTACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
59644725 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
59644758 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
59644823 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
* * *
59644856 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGA
59644918 AGTACTCAAA
Statistics
Matches: 244, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 244 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:59645341 original size:37 final size:37
Alignment explanation
Indices: 59645279--59645387 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
59645269 TCCTCTAATT
*
59645279 ACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGCC
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
*
59645315 ACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCC
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
59645352 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
59645388 TAAAGCTATC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 9 0.13
37 60 0.87
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (37 bp):
ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
Found at i:59645406 original size:7 final size:7
Alignment explanation
Indices: 59645394--59645427 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
59645384 TAGCTAAAGC
59645394 TATCACT
1 TATCACT
59645401 TATCACT
1 TATCACT
59645408 TATCACT
1 TATCACT
*
59645415 TGTCACT
1 TATCACT
59645422 TGATCA
1 T-ATCA
59645428 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.88
8 3 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.41
Consensus pattern (7 bp):
TATCACT
Found at i:59645430 original size:52 final size:51
Alignment explanation
Indices: 59645351--59645657 Score: 373
Period size: 52 Copynumber: 6.1 Consensus size: 51
59645341 TAAGTGTAGC
* *
59645351 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
59645404 CACTTATCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTT-TCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
59645456 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * * * *
59645508 CAC--T---TTGTCACTTGATCAGATAAGTATATCCGAACCTATAACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
59645554 CACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* *
59645600 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
59645652 CACTTT
1 CACTTT
59645658 ATCACTTGAT
Statistics
Matches: 225, Mismatches: 19, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
46 81 0.36
48 2 0.01
50 1 0.00
51 1 0.00
52 130 0.58
53 10 0.04
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (51 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:59645658 original size:98 final size:97
Alignment explanation
Indices: 59645350--59645671 Score: 411
Period size: 98 Copynumber: 3.3 Consensus size: 97
59645340 ATAAGTGTAG
* *
59645350 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTATCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTT-TCACT
59645415 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
59645448 TCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--
1 CCACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTT
* * *
59645511 T---TTGTCACTTGATCAGATAAGTATATCCGAACCTA
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
** * ** *
59645546 TAACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTT-CACT
**
59645611 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
59645644 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
59645672 AGTACTCAAA
Statistics
Matches: 194, Mismatches: 18, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
92 38 0.20
94 1 0.01
96 1 0.01
98 112 0.58
101 1 0.01
104 41 0.21
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (97 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:59651091 original size:45 final size:46
Alignment explanation
Indices: 59651024--59651147 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
59651014 CATATGACCT
*
59651024 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59651067 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59651113 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59651148 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:59651130 original size:46 final size:45
Alignment explanation
Indices: 59651024--59651221 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 45
59651014 CATATGACCT
*
59651024 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59651067 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
59651113 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59651150 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59651187 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59651222 CACTTATCAC
Statistics
Matches: 140, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:59651151 original size:37 final size:37
Alignment explanation
Indices: 59651110--59651248 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
59651100 GCTGAAGCTA
* *
59651110 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59651147 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59651184 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59651221 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
59651249 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:59653674 original size:46 final size:46
Alignment explanation
Indices: 59653619--59653775 Score: 206
Period size: 46 Copynumber: 3.3 Consensus size: 46
59653609 AATTAAGTGG
* *
59653619 AAAGTGATAAGTAATAGCTTTGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGAC
*
59653665 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGAC
* *
59653711 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGAC
*
59653763 AGAGTGATAAGTG
1 AAAGTGATAAGTG
59653776 GCTACACTTA
Statistics
Matches: 98, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
46 55 0.56
52 43 0.44
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGAC
Found at i:59653731 original size:52 final size:52
Alignment explanation
Indices: 59653657--59653775 Score: 184
Period size: 52 Copynumber: 2.2 Consensus size: 52
59653647 CTTATCTGAT
* *
59653657 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
*
59653710 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
*
59653762 CAGAGTGATAAGTG
1 CA-AGTGAAAAGTG
59653776 GCTACACTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 44 0.72
53 17 0.28
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
Found at i:59653782 original size:37 final size:37
Alignment explanation
Indices: 59653739--59653921 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
59653729 GATAGCTTTA
* *
59653739 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59653776 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59653813 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59653850 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59653887 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59653922 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59655129 original size:37 final size:37
Alignment explanation
Indices: 59655072--59655223 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
59655062 TATGATCACT
*
59655072 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
59655107 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
59655144 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
59655189 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
59655224 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:59655207 original size:46 final size:46
Alignment explanation
Indices: 59655140--59655408 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
59655130 TAAGTGTAGC
* **
59655140 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
59655186 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
59655232 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
59655284 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
59655330 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
59655382 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
59655409 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:59655259 original size:52 final size:52
Alignment explanation
Indices: 59655183--59655402 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
59655173 TAGCTAAAGC
* *
59655183 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
59655236 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
59655288 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
59655334 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
59655386 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
59655403 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:59655305 original size:98 final size:98
Alignment explanation
Indices: 59655140--59655408 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
59655130 TAAGTGTAGC
* * *
59655140 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
59655205 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
59655239 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
59655304 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
59655337 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
59655402 GATCAGA
66 GATCAGA
59655409 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:59659013 original size:45 final size:46
Alignment explanation
Indices: 59658946--59659069 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
59658936 CATATGACCT
*
59658946 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59658989 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59659035 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59659070 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:59659052 original size:46 final size:45
Alignment explanation
Indices: 59658946--59659143 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 45
59658936 CATATGACCT
*
59658946 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59658989 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
59659035 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59659072 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59659109 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59659144 CACTTATCAC
Statistics
Matches: 140, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:59659073 original size:37 final size:37
Alignment explanation
Indices: 59659032--59659166 Score: 225
Period size: 37 Copynumber: 3.6 Consensus size: 37
59659022 GCTGAAGCTA
* *
59659032 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59659069 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59659106 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59659143 CCACTTATCACTTTGTTTCTTGAT
1 CCACTTATCACTTTGTCTCTTGAT
59659167 TAGAAGTACT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.40
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:59664469 original size:58 final size:59
Alignment explanation
Indices: 59664392--59664510 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
59664382 CATGTGAACA
59664392 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
*
59664451 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
59664509 TG
1 TG
59664511 ATTTCGTGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 54 0.92
59 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (59 bp):
TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
Found at i:59664524 original size:49 final size:49
Alignment explanation
Indices: 59664452--59664594 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
59664442 AGTGATATGT
* *
59664452 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59664501 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59664550 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
59664595 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:59666381 original size:46 final size:46
Alignment explanation
Indices: 59666363--59666617 Score: 214
Period size: 46 Copynumber: 5.3 Consensus size: 46
59666353 TGACAAGTGG
* * *
59666363 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
59666409 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
59666455 AAGTGGAAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
59666507 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * * *
59666553 AAGTGAAAAGTGAAAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
59666605 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59666618 GCTACACTTA
Statistics
Matches: 187, Mismatches: 10, Indels: 24
0.85 0.05 0.11
Matches are distributed among these distances:
46 100 0.53
52 87 0.47
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:59666382 original size:52 final size:51
Alignment explanation
Indices: 59666311--59666617 Score: 409
Period size: 52 Copynumber: 6.1 Consensus size: 51
59666301 ATCAAGTGAC
* **
59666311 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
59666363 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59666409 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
59666461 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59666507 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* * *
59666558 AAAAGTGAAAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
59666611 ATAAGTG
1 A-AAGTG
59666618 GCTACACTTA
Statistics
Matches: 227, Mismatches: 14, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
46 88 0.39
52 129 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:59666417 original size:98 final size:98
Alignment explanation
Indices: 59666297--59666617 Score: 579
Period size: 98 Copynumber: 3.3 Consensus size: 98
59666287 TTTGAGTACT
* **
59666297 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59666362 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59666395 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59666460 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59666493 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* * *
59666558 AAAAGTGAAAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
59666591 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
59666618 GCTACACTTA
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 216 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59666627 original size:37 final size:37
Alignment explanation
Indices: 59666580--59666726 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
59666570 TGATAGCTTC
* *
59666580 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
59666617 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
59666654 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
59666691 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
59666726 G
1 G
59666727 ATCATACGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:59667769 original size:39 final size:38
Alignment explanation
Indices: 59667726--59667857 Score: 176
Period size: 39 Copynumber: 3.4 Consensus size: 38
59667716 ATTTTATTTT
*
59667726 AAAAATTAAAAAAAGTATTTTAAAAATGTTTTAAAATTTAA
1 AAAAATTAAAAAAAGTATTTT-AAAATATTTTAAAA-TT-A
*
59667767 AAAAATT-TAAAAAGTATTTTAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAGTATTTTAAAATATTTTAAAATTA
*
59667804 AAAAATAATAAAAAAGTATTTTAAAATATTTTAAAATTAA
1 AAAAATTA-AAAAAAGTATTTTAAAATATTTTAAAATT-A
*
59667844 AAAAATTTAAAAAA
1 AAAAATTAAAAAAA
59667858 TAAATATATT
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
37 7 0.09
38 2 0.02
39 47 0.57
40 19 0.23
41 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (38 bp):
AAAAATTAAAAAAAGTATTTTAAAATATTTTAAAATTA
Found at i:59667794 original size:10 final size:10
Alignment explanation
Indices: 59667736--59667840 Score: 65
Period size: 10 Copynumber: 10.5 Consensus size: 10
59667726 AAAAATTAAA
59667736 AAAAGTATTTT
1 AAAA-TATTTT
59667747 AAAA-ATGTTT
1 AAAATAT-TTT
* *
59667757 TAAA-ATTTA
1 AAAATATTTT
* *
59667766 AAAAAATTTA
1 AAAATATTTT
59667776 AAAAGTATTTT
1 AAAA-TATTTT
59667787 AAAATATTTT
1 AAAATATTTT
**
59667797 -AAA-ATTAA
1 AAAATATTTT
* **
59667805 AAAATAATAA
1 AAAATATTTT
59667815 AAAAGTATTTT
1 AAAA-TATTTT
59667826 AAAATATTTT
1 AAAATATTTT
59667836 AAAAT
1 AAAAT
59667841 TAAAAAAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
8 3 0.04
9 13 0.17
10 42 0.55
11 19 0.25
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (10 bp):
AAAATATTTT
Found at i:59667800 original size:29 final size:30
Alignment explanation
Indices: 59667768--59667830 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
59667758 AAAATTTAAA
* * **
59667768 AAAATTTAAAAAGTATTTTAAAA-TATTTT
1 AAAATTTAAAAAATAATAAAAAAGTATTTT
59667797 AAAA-TTAAAAAATAATAAAAAAGTATTTT
1 AAAATTTAAAAAATAATAAAAAAGTATTTT
59667826 AAAAT
1 AAAAT
59667831 ATTTTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTTAAAAAATAATAAAAAAGTATTTT
Found at i:59668290 original size:25 final size:25
Alignment explanation
Indices: 59668229--59668296 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
59668219 ACAAGCGTAT
* * * *
59668229 TCATTCGAGCTATGAATCAGTATGC
1 TCATACGAGCTGTGAATTAGTAAGC
*
59668254 TCTTACGAGCTGTGAATTAGTAAGC
1 TCATACGAGCTGTGAATTAGTAAGC
*
59668279 TCATACGAGCTGAGAATT
1 TCATACGAGCTGTGAATT
59668297 GGTAGCCTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
TCATACGAGCTGTGAATTAGTAAGC
Found at i:59670552 original size:26 final size:26
Alignment explanation
Indices: 59670523--59670574 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
59670513 TCTGTTCATC
*
59670523 CAGAGTACGCCATAAAGGTTATTTTT
1 CAGAGTACGCCATAAAGGCTATTTTT
* *
59670549 CAGAGTTCGCCATAAATGCTATTTTT
1 CAGAGTACGCCATAAAGGCTATTTTT
59670575 AGTTGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (26 bp):
CAGAGTACGCCATAAAGGCTATTTTT
Found at i:59671376 original size:11 final size:11
Alignment explanation
Indices: 59671360--59671384 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59671350 TACATTTAGA
59671360 TTTAAGGAAGG
1 TTTAAGGAAGG
59671371 TTTAAGGAAGG
1 TTTAAGGAAGG
59671382 TTT
1 TTT
59671385 TAGTAGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (11 bp):
TTTAAGGAAGG
Found at i:59675172 original size:71 final size:72
Alignment explanation
Indices: 59675055--59675199 Score: 267
Period size: 71 Copynumber: 2.0 Consensus size: 72
59675045 GTATGTTGGA
59675055 TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAACATGCTTGATCTTC-TTAAGG
1 TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAACATGCTTGATCTTCTTTAAGG
59675119 CAATCAG
66 CAATCAG
59675126 TTGACATTTTCATATGTTCTTGTTGG-CAATTTGGAAATGTGAAACATGCTTGATCTTCTTTAAG
1 TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTG-AACATGCTTGATCTTCTTTAAG
59675190 GCAATCAG
65 GCAATCAG
59675198 TT
1 TT
59675200 TTGTTATGGT
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
70 15 0.21
71 42 0.58
72 15 0.21
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (72 bp):
TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAACATGCTTGATCTTCTTTAAGG
CAATCAG
Found at i:59689844 original size:45 final size:46
Alignment explanation
Indices: 59689777--59689900 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
59689767 CATATGACCT
*
59689777 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59689820 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59689866 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59689901 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:59689883 original size:46 final size:45
Alignment explanation
Indices: 59689777--59689974 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 45
59689767 CATATGACCT
*
59689777 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59689820 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
59689866 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59689903 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59689940 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59689975 CACTTATCAC
Statistics
Matches: 140, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:59689904 original size:37 final size:37
Alignment explanation
Indices: 59689863--59690001 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
59689853 GCTGAAGCTA
* *
59689863 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59689900 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59689937 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
59689974 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
59690002 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:59695286 original size:58 final size:59
Alignment explanation
Indices: 59695209--59695327 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
59695199 CATGTGAACA
59695209 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
*
59695268 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
59695326 TG
1 TG
59695328 ATTTCGTGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 54 0.92
59 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (59 bp):
TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATAAGTGATATG
Found at i:59695341 original size:49 final size:49
Alignment explanation
Indices: 59695269--59695411 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
59695259 AGTGATATGT
* *
59695269 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59695318 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59695367 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
59695412 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:59697201 original size:46 final size:46
Alignment explanation
Indices: 59697183--59697437 Score: 214
Period size: 46 Copynumber: 5.3 Consensus size: 46
59697173 TGACAAGTGG
* * *
59697183 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
59697229 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
59697275 AAGTGGAAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
59697327 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * * *
59697373 AAGTGAAAAGTGAAAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
59697425 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59697438 GCTACACTTA
Statistics
Matches: 187, Mismatches: 10, Indels: 24
0.85 0.05 0.11
Matches are distributed among these distances:
46 100 0.53
52 87 0.47
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:59697202 original size:52 final size:51
Alignment explanation
Indices: 59697131--59697437 Score: 409
Period size: 52 Copynumber: 6.1 Consensus size: 51
59697121 ATCAAGTGAC
* **
59697131 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
59697183 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59697229 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
59697281 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59697327 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* * *
59697378 AAAAGTGAAAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
59697431 ATAAGTG
1 A-AAGTG
59697438 GCTACACTTA
Statistics
Matches: 227, Mismatches: 14, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
46 88 0.39
52 129 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:59697237 original size:98 final size:98
Alignment explanation
Indices: 59697117--59697437 Score: 579
Period size: 98 Copynumber: 3.3 Consensus size: 98
59697107 TTTGAGTACT
* **
59697117 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59697182 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59697215 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
59697280 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59697313 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* * *
59697378 AAAAGTGAAAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
59697411 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
59697438 GCTACACTTA
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 216 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59697447 original size:37 final size:37
Alignment explanation
Indices: 59697400--59697546 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
59697390 TGATAGCTTC
* *
59697400 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
59697437 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
59697474 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
59697511 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
59697546 G
1 G
59697547 ATCATACGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:59698589 original size:39 final size:38
Alignment explanation
Indices: 59698546--59698677 Score: 176
Period size: 39 Copynumber: 3.4 Consensus size: 38
59698536 ATTTTATTTT
*
59698546 AAAAATTAAAAAAAGTATTTTAAAAATGTTTTAAAATTTAA
1 AAAAATTAAAAAAAGTATTTT-AAAATATTTTAAAA-TT-A
*
59698587 AAAAATT-TAAAAAGTATTTTAAAATATTTTAAAATTA
1 AAAAATTAAAAAAAGTATTTTAAAATATTTTAAAATTA
*
59698624 AAAAATAATAAAAAAGTATTTTAAAATATTTTAAAATTAA
1 AAAAATTA-AAAAAAGTATTTTAAAATATTTTAAAATT-A
*
59698664 AAAAATTTAAAAAA
1 AAAAATTAAAAAAA
59698678 TAAATATATT
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
37 7 0.09
38 2 0.02
39 47 0.57
40 19 0.23
41 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (38 bp):
AAAAATTAAAAAAAGTATTTTAAAATATTTTAAAATTA
Found at i:59698614 original size:10 final size:10
Alignment explanation
Indices: 59698556--59698660 Score: 65
Period size: 10 Copynumber: 10.5 Consensus size: 10
59698546 AAAAATTAAA
59698556 AAAAGTATTTT
1 AAAA-TATTTT
59698567 AAAA-ATGTTT
1 AAAATAT-TTT
* *
59698577 TAAA-ATTTA
1 AAAATATTTT
* *
59698586 AAAAAATTTA
1 AAAATATTTT
59698596 AAAAGTATTTT
1 AAAA-TATTTT
59698607 AAAATATTTT
1 AAAATATTTT
**
59698617 -AAA-ATTAA
1 AAAATATTTT
* **
59698625 AAAATAATAA
1 AAAATATTTT
59698635 AAAAGTATTTT
1 AAAA-TATTTT
59698646 AAAATATTTT
1 AAAATATTTT
59698656 AAAAT
1 AAAAT
59698661 TAAAAAAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
8 3 0.04
9 13 0.17
10 42 0.55
11 19 0.25
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (10 bp):
AAAATATTTT
Found at i:59698620 original size:29 final size:30
Alignment explanation
Indices: 59698588--59698650 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
59698578 AAAATTTAAA
* * **
59698588 AAAATTTAAAAAGTATTTTAAAA-TATTTT
1 AAAATTTAAAAAATAATAAAAAAGTATTTT
59698617 AAAA-TTAAAAAATAATAAAAAAGTATTTT
1 AAAATTTAAAAAATAATAAAAAAGTATTTT
59698646 AAAAT
1 AAAAT
59698651 ATTTTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTTAAAAAATAATAAAAAAGTATTTT
Found at i:59699114 original size:25 final size:25
Alignment explanation
Indices: 59699053--59699120 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
59699043 ACAAGCGTAT
* * * *
59699053 TCATTCGAGCTATGAATCAGTATGC
1 TCATACGAGCTGTGAATTAGTAAGC
*
59699078 TCTTACGAGCTGTGAATTAGTAAGC
1 TCATACGAGCTGTGAATTAGTAAGC
*
59699103 TCATACGAGCTGAGAATT
1 TCATACGAGCTGTGAATT
59699121 GGTAGCCTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
TCATACGAGCTGTGAATTAGTAAGC
Found at i:59701385 original size:27 final size:27
Alignment explanation
Indices: 59701355--59701407 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
59701345 TCTGTTCATC
*
59701355 CAGAGTACGCCATAAAGGTTATTTTTT
1 CAGAGTACGCCATAAAGGCTATTTTTT
* *
59701382 CAGAGTTCGCCATAAATGCTATTTTT
1 CAGAGTACGCCATAAAGGCTATTTTT
59701408 AGTTGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (27 bp):
CAGAGTACGCCATAAAGGCTATTTTTT
Found at i:59702213 original size:11 final size:11
Alignment explanation
Indices: 59702197--59702221 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59702187 TACATTTAGA
59702197 TTTAAGGAAGG
1 TTTAAGGAAGG
59702208 TTTAAGGAAGG
1 TTTAAGGAAGG
59702219 TTT
1 TTT
59702222 TAGTAGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (11 bp):
TTTAAGGAAGG
Found at i:59706028 original size:73 final size:73
Alignment explanation
Indices: 59705909--59706056 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
59705899 GTATGTTGGA
59705909 TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAAACATGCTTGATCTTCTTTAAG
1 TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAAACATGCTTGATCTTCTTTAAG
59705974 GCAATCAG
66 GCAATCAG
59705982 TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAAACATGCTTGATCTTCTTTAAG
1 TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAAACATGCTTGATCTTCTTTAAG
59706047 GCAATCAG
66 GCAATCAG
59706055 TT
1 TT
59706057 TTGTTATGGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (73 bp):
TTGACATTTTCATATGTTCTTGTTGGTCAATTTGGAAATGTGAAACATGCTTGATCTTCTTTAAG
GCAATCAG
Found at i:59717590 original size:18 final size:18
Alignment explanation
Indices: 59717544--59717590 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
59717534 ATTTGAAATT
59717544 TAGGGATTTAAGTGAAAA
1 TAGGGATTTAAGTGAAAA
* *
59717562 TATGGATTTAAGTTAAAA
1 TAGGGATTTAAGTGAAAA
*
59717580 TAGGGAGTTAA
1 TAGGGATTTAA
59717591 ATTTAGTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.32
Consensus pattern (18 bp):
TAGGGATTTAAGTGAAAA
Found at i:59724472 original size:33 final size:34
Alignment explanation
Indices: 59724397--59724465 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 34
59724387 TCTTTGTCGA
59724397 ACTAATCAAATCAAAATATCAAGTTCCAGTTCAG
1 ACTAATCAAATCAAAATATCAAGTTCCAGTTCAG
59724431 ACTAATCAAATC-AAATATCAAGTTCCAGTTCAG
1 ACTAATCAAATCAAAATATCAAGTTCCAGTTCAG
59724464 AC
1 AC
59724466 ATATCAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (34 bp):
ACTAATCAAATCAAAATATCAAGTTCCAGTTCAG
Found at i:59728505 original size:26 final size:26
Alignment explanation
Indices: 59728476--59728670 Score: 108
Period size: 26 Copynumber: 7.8 Consensus size: 26
59728466 TTCTCTCTCA
59728476 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
*
59728502 AGCCAT-TAATCGGGAAGCTCACAAAG
1 AGCCATATAA-CAGGAAGCTCACAAAG
* * *
59728528 AGCC-TAT--CAGAAAGCTTATC--CG
1 AGCCATATAACAGGAAGCTCA-CAAAG
* * *
59728550 GGCTATATAACAGGAA-CTCACACAG
1 AGCCATATAACAGGAAGCTCACAAAG
* * *
59728575 AGCCATA-ATCAGGAAGTTCACAAAT
1 AGCCATATAACAGGAAGCTCACAAAG
* * * *
59728600 A-ACTTTTAATCAGGAAGCTCACGAAG
1 AGCCATATAA-CAGGAAGCTCACAAAG
* * *
59728626 AGCC-TTTAAACAGGAAACTCACGAAG
1 AGCCATAT-AACAGGAAGCTCACAAAG
59728652 AGCCAT-TAATCAGG-AGCTC
1 AGCCATATAA-CAGGAAGCTC
59728671 CGGATAGCCA
Statistics
Matches: 128, Mismatches: 26, Indels: 31
0.69 0.14 0.17
Matches are distributed among these distances:
22 3 0.02
23 12 0.09
24 13 0.10
25 29 0.23
26 67 0.52
27 4 0.03
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.18
Consensus pattern (26 bp):
AGCCATATAACAGGAAGCTCACAAAG
Found at i:59739831 original size:29 final size:30
Alignment explanation
Indices: 59739764--59739822 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59739754 CATGGTTTAA
59739764 TGTG-CAATTGTATATATGAATTTTGATTT
1 TGTGCCAATTGTATATATGAATTTTGATTT
**
59739793 TGTGTAAATT-TATATATGAAATTTTGATTT
1 TGTGCCAATTGTATATATG-AATTTTGATTT
59739823 GATCCAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.53
Consensus pattern (30 bp):
TGTGCCAATTGTATATATGAATTTTGATTT
Found at i:59744595 original size:19 final size:19
Alignment explanation
Indices: 59744551--59744595 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
59744541 GGGATTTAAA
59744551 TTGCGGTCGCGATCGCGTT
1 TTGCGGTCGCGATCGCGTT
* *
59744570 TTTCGGTCGC-ATTGCGTT
1 TTGCGGTCGCGATCGCGTT
59744588 TATGCGGT
1 T-TGCGGT
59744596 TGCGGACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.07, C:0.22, G:0.33, T:0.38
Consensus pattern (19 bp):
TTGCGGTCGCGATCGCGTT
Found at i:59748288 original size:3 final size:3
Alignment explanation
Indices: 59748280--59748307 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
59748270 GCTCAATTTT
59748280 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
59748308 AAGTACCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:59753060 original size:21 final size:20
Alignment explanation
Indices: 59753028--59753067 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
59753018 TCTATTATTC
*
59753028 TCTCTTGTTTATTATATAAT
1 TCTCTTGTTTATAATATAAT
59753048 TCTCTTAGTTTATAATATAA
1 TCTCTT-GTTTATAATATAA
59753068 CCTCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (20 bp):
TCTCTTGTTTATAATATAAT
Found at i:59753140 original size:27 final size:24
Alignment explanation
Indices: 59753098--59753146 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 24
59753088 TCCCTAAATC
59753098 AATAATAAATAAAATATAAATATA
1 AATAATAAATAAAATATAAATATA
59753122 AATAATATAATTAAGAATATAAATA
1 AATAATA-AA-TAA-AATATAAATA
59753147 GCATAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 2 0.09
26 3 0.14
27 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AATAATAAATAAAATATAAATATA
Found at i:59756342 original size:52 final size:51
Alignment explanation
Indices: 59756280--59756377 Score: 117
Period size: 52 Copynumber: 1.9 Consensus size: 51
59756270 AATTTTATTT
*
59756280 TTTTATTTTTTAAAAAAGT-ATAAAATTATAAATTAATAATGATAAAATTACA
1 TTTTAATTTTTAAAAAA-TAATAAAATTATAAATTAAT-ATGATAAAATTACA
* * * * *
59756332 TTTTAATTTTTCATAAATAATAAAATTTTAACTTAATATTATAAAA
1 TTTTAATTTTTAAAAAATAATAAAATTATAAATTAATATGATAAAA
59756378 ATATTAATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
51 9 0.23
52 30 0.77
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (51 bp):
TTTTAATTTTTAAAAAATAATAAAATTATAAATTAATATGATAAAATTACA
Found at i:59756616 original size:2 final size:2
Alignment explanation
Indices: 59756609--59756633 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59756599 AGCACAAATC
59756609 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
59756634 AATGTGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59757370 original size:22 final size:22
Alignment explanation
Indices: 59757330--59757376 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
59757320 TATAATAGTA
*
59757330 AAATGACAGCAAATCAACATCG
1 AAATGACAGCAAATCAACAACG
*
59757352 AAATGGCAGCAAAAT-AACAACG
1 AAATGACAGC-AAATCAACAACG
59757374 AAA
1 AAA
59757377 AAATTAGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.55, C:0.19, G:0.15, T:0.11
Consensus pattern (22 bp):
AAATGACAGCAAATCAACAACG
Found at i:59758000 original size:21 final size:21
Alignment explanation
Indices: 59757976--59758041 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
59757966 TATTAAAGTG
59757976 GTAATTTTTTATTTGAATATA
1 GTAATTTTTTATTTGAATATA
** *
59757997 GTAA-AATTAATATT-AA-AGT-
1 GTAATTTTTTAT-TTGAATA-TA
59758016 GCTAATTTTTTATTTGAATATA
1 G-TAATTTTTTATTTGAATATA
59758038 GTAA
1 GTAA
59758042 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
21 16 0.50
22 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (21 bp):
GTAATTTTTTATTTGAATATA
Found at i:59758085 original size:41 final size:41
Alignment explanation
Indices: 59757959--59758086 Score: 229
Period size: 41 Copynumber: 3.1 Consensus size: 41
59757949 CCCTAAATTC
*
59757959 AAAATAATATTAAAGTGGTAATTTTTTATTTGAATATAGTA
1 AAAATAATATTAAAGTGCTAATTTTTTATTTGAATATAGTA
*
59758000 AAATTAATATTAAAGTGCTAATTTTTTATTTGAATATAGTA
1 AAAATAATATTAAAGTGCTAATTTTTTATTTGAATATAGTA
*
59758041 AAAATAATATTAAAGTGCTAATTTTTCATTTGAATATAGTA
1 AAAATAATATTAAAGTGCTAATTTTTTATTTGAATATAGTA
59758082 AAAAT
1 AAAAT
59758087 TGAGATTAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (41 bp):
AAAATAATATTAAAGTGCTAATTTTTTATTTGAATATAGTA
Found at i:59763593 original size:16 final size:17
Alignment explanation
Indices: 59763560--59763593 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59763550 GGACACGTAT
59763560 CTAAGCTACAGTCAAGCC
1 CTAAGCTACAG-CAAGCC
59763578 CTAAGCTACA-CAAGCC
1 CTAAGCTACAGCAAGCC
59763594 AAGCTCTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (17 bp):
CTAAGCTACAGCAAGCC
Found at i:59773747 original size:27 final size:29
Alignment explanation
Indices: 59773717--59773779 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
59773707 TTCTTTTATG
*
59773717 TTCTTTT-AACGTTT-TTTTTCCATTCTC
1 TTCTTTTCAACCTTTGTTTTTCCATTCTC
**
59773744 TTCTTTTCTCCCTTTGTTTTTCCATTCTC
1 TTCTTTTCAACCTTTGTTTTTCCATTCTC
59773773 TTCTTTT
1 TTCTTTT
59773780 TTCCATCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 7 0.23
28 4 0.13
29 20 0.65
ACGTcount: A:0.06, C:0.25, G:0.03, T:0.65
Consensus pattern (29 bp):
TTCTTTTCAACCTTTGTTTTTCCATTCTC
Found at i:59773782 original size:17 final size:16
Alignment explanation
Indices: 59773730--59773790 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
59773720 TTTTAACGTT
59773730 TTTTTTCCATTCTCTTC
1 TTTTTTCCA-TCTCTTC
*
59773747 TTTTCTCC--CT-TT-
1 TTTTTTCCATCTCTTC
*
59773759 GTTTTTCCATTCTCTTC
1 TTTTTTCCA-TCTCTTC
59773776 TTTTTTCCATCTCTT
1 TTTTTTCCATCTCTT
59773791 TTAATTTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
12 6 0.17
13 2 0.06
14 2 0.06
15 2 0.06
16 8 0.23
17 15 0.43
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTTTCCATCTCTTC
Found at i:59773792 original size:29 final size:29
Alignment explanation
Indices: 59773731--59773792 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
59773721 TTTAACGTTT
* * *
59773731 TTTTTCCATTCTCTTCTTTTCTCCCTTTG
1 TTTTTCCATTCTCTTCTTTTCTCCATCTC
*
59773760 TTTTTCCATTCTCTTCTTTTTTCCATCTC
1 TTTTTCCATTCTCTTCTTTTCTCCATCTC
59773789 TTTT
1 TTTT
59773793 AATTTAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.05, C:0.29, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTTTCCATTCTCTTCTTTTCTCCATCTC
Found at i:59777410 original size:17 final size:17
Alignment explanation
Indices: 59777388--59777422 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
59777378 ATAAAGAAGA
59777388 AAAATATGCATATATAT
1 AAAATATGCATATATAT
*
59777405 AAAATATGTATATATAT
1 AAAATATGCATATATAT
59777422 A
1 A
59777423 TAGGTGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (17 bp):
AAAATATGCATATATAT
Found at i:59777865 original size:3 final size:3
Alignment explanation
Indices: 59777854--59777911 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
59777844 CAATAATACC
* * *
59777854 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
59777899 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
59777912 GCAAAGTACT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59779747 original size:44 final size:43
Alignment explanation
Indices: 59779609--59779970 Score: 164
Period size: 43 Copynumber: 8.5 Consensus size: 43
59779599 ATCTACTCTG
* *
59779609 CTGTAACCTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* * ** * *
59779648 CTGTAACTTCGGGGAGATAAGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* *
59779691 CTGTAA-TCTCAGGGAGATAAGAT-CTCTTATTTTAATCCGCTCCA
1 CTGTAACT-TCAGGGAGATAAGATACT-GT-CTTTAATCCGCTCCA
* * ** * *
59779735 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
** * *
59779778 CTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAACT-TCAGGGAGATAAGATACTG----TCTTTAATCCGCTCCA
* * * * * ** *
59779824 CTGTAA-TCTCAAGGAGATAAGA-CCTG-ATGTGATCTTCTCTA
1 CTGTAACT-TCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
*
59779865 CTGTAACTTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* * * * * * * *
59779904 TTGTAA-TCTCAAGGAGATAGGATTACTATCCTTGATCTGCTCCG
1 CTGTAACT-TCAGGGAGATAAGA-TACTGTCTTTAATCCGCTCCA
59779948 CTGTAA-TCTCAGGGAGATAAGAT
1 CTGTAACT-TCAGGGAGATAAGAT
59779971 CTGAAATTCT
Statistics
Matches: 244, Mismatches: 56, Indels: 42
0.71 0.16 0.12
Matches are distributed among these distances:
38 1 0.00
39 45 0.18
40 1 0.00
41 29 0.12
42 6 0.02
43 63 0.26
44 61 0.25
45 2 0.01
46 36 0.15
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
Found at i:59779750 original size:87 final size:83
Alignment explanation
Indices: 59779597--59779972 Score: 338
Period size: 87 Copynumber: 4.4 Consensus size: 83
59779587 AGACTTGAAG
* * * * **
59779597 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTAATCCGCTCCACTGTAA-CTTCGG
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTAATCCGCTCCACTGTAATC-TCAA
*
59779660 GGAGATAAGATAGTGTCTT
65 GGAGATAAGATACTGTCTT
59779679 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAA-CT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC----TTTAATCCGCTCCACTGTAATC-
* * *
59779743 TCAGGGAGATAGGATAGTGTCTT
61 TCAAGGAGATAAGATACTGTCTT
** * *
59779766 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAAT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC------TCTTTAATCCGCTCCACTGTAAT
* *
59779831 CTCAAGGAGATAAGA-CCTGAT-GT
60 CTCAAGGAGATAAGATACTG-TCTT
* ** * *
59779854 -GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-CTTTAATCCGCTCCATTGTAATCTCAA
1 CGATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTCTTTAATCCGCTCCACTGTAATCTCAA
* *
59779916 GGAGATAGGATTACTATCCTT
65 GGAGATAAGA-TACTGT-CTT
59779937 -GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
59779973 GAAATTCTTT
Statistics
Matches: 242, Mismatches: 32, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
80 31 0.13
81 1 0.00
82 34 0.14
83 31 0.13
84 1 0.00
86 1 0.00
87 108 0.45
88 3 0.01
89 29 0.12
90 1 0.00
93 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (83 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTAATCCGCTCCACTGTAATCTCAAG
GAGATAAGATACTGTCTT
Found at i:59779834 original size:46 final size:45
Alignment explanation
Indices: 59779633--59780015 Score: 236
Period size: 46 Copynumber: 8.8 Consensus size: 45
59779623 AGATAAGATC
* * * *
59779633 CTTTAATCCGCTCCACTGTAA-CTTCGGGGAGATAAGA--T-AGTGT
1 CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-T
* * *
59779676 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CTT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
* * * * *
59779719 ATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGTGT
1 -CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-T
* *
59779763 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATT
* * * *
59779809 CTTTGGTCTGTTCCACTGTAATCTCAAGGAGATAAGACCTG-A--
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
* * * *
59779851 -TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC------
1 CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAATT
* * * * * *
59779889 CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTAT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-T
* *
59779933 CCTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATT
* *
59779979 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
59780016 CCTGTATAAT
Statistics
Matches: 261, Mismatches: 55, Indels: 45
0.72 0.15 0.12
Matches are distributed among these distances:
39 26 0.10
40 2 0.01
41 28 0.11
42 1 0.00
43 62 0.24
44 65 0.25
45 3 0.01
46 70 0.27
47 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
Found at i:59793615 original size:15 final size:16
Alignment explanation
Indices: 59793595--59793627 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
59793585 TTTCGCGTAC
59793595 TATATATAC-ATTATT
1 TATATATACTATTATT
59793610 TATATATACTATTATT
1 TATATATACTATTATT
59793626 TA
1 TA
59793628 AGTGTGTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATACTATTATT
Found at i:59794079 original size:8 final size:8
Alignment explanation
Indices: 59794066--59794090 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59794056 AAAATGTATA
59794066 AAAATTTT
1 AAAATTTT
59794074 AAAATTTT
1 AAAATTTT
59794082 AAAATTTT
1 AAAATTTT
59794090 A
1 A
59794091 GTCGACTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:59794426 original size:27 final size:28
Alignment explanation
Indices: 59794373--59794426 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
59794363 ATTCTTATAA
**
59794373 AGTTTCAAATGAAAACTAAAATTGTTTT
1 AGTTTCAAATGAAAACTAAAAAAGTTTT
59794401 AGTTT-AAATGATAAA-TAAAAAAGTTT
1 AGTTTCAAATGA-AAACTAAAAAAGTTT
59794427 ATATGCATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (28 bp):
AGTTTCAAATGAAAACTAAAAAAGTTTT
Found at i:59797601 original size:58 final size:58
Alignment explanation
Indices: 59797536--59797648 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 58
59797526 ATACTAAACT
* *
59797536 AAACACA-ACAATTTATAAC-TAATCCTAATTACTAATAAATTAA-TTT-AAATAATTAC
1 AAACACACA-AATTTATAACATAATCCTAAATACTAACAAA-TAATTTTAAAATAATTAC
59797592 AAACACACAAATTTATAACATAATCCTAAATACTAACAAATAATTTTAAAATAATTA
1 AAACACACAAATTTATAACATAATCCTAAATACTAACAAATAATTTTAAAATAATTA
59797649 TAAAAAGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
56 20 0.39
57 22 0.43
58 9 0.18
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (58 bp):
AAACACACAAATTTATAACATAATCCTAAATACTAACAAATAATTTTAAAATAATTAC
Found at i:59802299 original size:55 final size:56
Alignment explanation
Indices: 59802211--59802316 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 56
59802201 TTAGTAATAT
**
59802211 TTACATAAATATTATGAGATTTGTAATGTTTGTTTAATTAGCCAATGTTTTCTGTA
1 TTACATAAATATTATGAGATTTGTAATCATTGTTTAATTAGCCAATGTTTTCTGTA
*
59802267 TTACAT-AATGTTATGA-ATATTGTAATCATTGTTTAATTAGCCAATGTTTT
1 TTACATAAATATTATGAGAT-TTGTAATCATTGTTTAATTAGCCAATGTTTT
59802317 GTATAATTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
54 2 0.04
55 38 0.83
56 6 0.13
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (56 bp):
TTACATAAATATTATGAGATTTGTAATCATTGTTTAATTAGCCAATGTTTTCTGTA
Found at i:59810153 original size:6 final size:6
Alignment explanation
Indices: 59810132--59810168 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
59810122 ATTACATGTA
59810132 TGGGGG T-GGGG T-GGGG TGGGGG TGGGGG TGGGGG TGG
1 TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGG
59810169 AGTGGAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (6 bp):
TGGGGG
Found at i:59810153 original size:11 final size:11
Alignment explanation
Indices: 59810134--59810173 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
59810124 TACATGTATG
59810134 GGGGT-GGGGT
1 GGGGTGGGGGT
59810144 GGGGTGGGGGT
1 GGGGTGGGGGT
59810155 GGGGGTGGGGGT
1 -GGGGTGGGGGT
*
59810167 GGAGTGG
1 GGGGTGG
59810174 AGAAACGCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 5 0.19
11 11 0.41
12 11 0.41
ACGTcount: A:0.03, C:0.00, G:0.80, T:0.17
Consensus pattern (11 bp):
GGGGTGGGGGT
Found at i:59823231 original size:34 final size:35
Alignment explanation
Indices: 59823187--59823253 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
59823177 GAGTAAAATA
*
59823187 TTTTCCGTAAAATGATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
59823221 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
59823254 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:59829731 original size:23 final size:24
Alignment explanation
Indices: 59829685--59829731 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
59829675 ATTTGGATAC
*
59829685 ATATATATATTTAATAATTTTTAAA
1 ATATATATATTTAATAA-TGTTAAA
*
59829710 ATATATATATTTGATAA-GTTAA
1 ATATATATATTTAATAATGTTAA
59829732 TAGATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
25 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATATATATTTAATAATGTTAAA
Found at i:59852310 original size:62 final size:62
Alignment explanation
Indices: 59852213--59852336 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
59852203 GTGGAGTTTT
** *
59852213 GGCGATGATAGAAACCGTCATCTATCTATCACAACTCGTGAAGATAGTAAAAATACTTGCAA
1 GGCGATGATAGAAACCACCATCTACCTATCACAACTCGTGAAGATAGTAAAAATACTTGCAA
59852275 GGCGATGATAGAAACCACCATCTACCTATCACAACTCGTGAAGATAGTAAAAATACTTGCAA
1 GGCGATGATAGAAACCACCATCTACCTATCACAACTCGTGAAGATAGTAAAAATACTTGCAA
59852337 TATATATATG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (62 bp):
GGCGATGATAGAAACCACCATCTACCTATCACAACTCGTGAAGATAGTAAAAATACTTGCAA
Found at i:59852670 original size:20 final size:21
Alignment explanation
Indices: 59852641--59852714 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 21
59852631 TTTATTTTAA
*
59852641 AAAAACTATT-AAAATATTAT
1 AAAAATTATTAAAAATATTAT
* * *
59852661 AAAAATTATTGAAACT-TGAT
1 AAAAATTATTAAAAATATTAT
* *
59852681 GAAAACTT-TTAAAAAAATTAT
1 -AAAAATTATTAAAAATATTAT
59852702 AAAAA-TATTAAAA
1 AAAAATTATTAAAA
59852715 CTTTTAAATA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
19 1 0.02
20 27 0.66
21 13 0.32
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAAATTATTAAAAATATTAT
Found at i:59852716 original size:40 final size:40
Alignment explanation
Indices: 59852642--59852717 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
59852632 TTATTTTAAA
* *
59852642 AAAACTATTAAAATATTATAAAAATTATTGAAACTTGATG
1 AAAACTATTAAAAAATTATAAAAATTATTAAAACTTGATG
*
59852682 AAAACTTTTAAAAAAATTATAAAAA-TATTAAAACTT
1 AAAACTATT-AAAAAATTATAAAAATTATTAAAACTT
59852718 TTAAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 18 0.56
41 14 0.44
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (40 bp):
AAAACTATTAAAAAATTATAAAAATTATTAAAACTTGATG
Found at i:59854113 original size:24 final size:24
Alignment explanation
Indices: 59854081--59854126 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
59854071 TATAAATTTG
*
59854081 AAATTTAATCTTTGTATTTTTTTA
1 AAATTTAATCTTTCTATTTTTTTA
*
59854105 AAATTTAATTTTTCTATTTTTT
1 AAATTTAATCTTTCTATTTTTT
59854127 AGATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (24 bp):
AAATTTAATCTTTCTATTTTTTTA
Found at i:59855131 original size:3 final size:3
Alignment explanation
Indices: 59855123--59855147 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
59855113 ATCAATACCT
59855123 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
59855148 AGTCAACCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:59855497 original size:11 final size:12
Alignment explanation
Indices: 59855471--59855496 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59855461 GATGACATGG
59855471 TTTGTTCTTTTT
1 TTTGTTCTTTTT
59855483 TTTGTTCTTTTT
1 TTTGTTCTTTTT
59855495 TT
1 TT
59855497 GGTTAACTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTGTTCTTTTT
Found at i:59877686 original size:30 final size:30
Alignment explanation
Indices: 59877664--59877720 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
59877654 TTAATATTTT
*
59877664 TTTTATA-ATTCTTAATCATTTTAA-AATAA
1 TTTTATATATTCTTAA-AATTTTAATAATAA
59877693 TTTTATATATTCTTAAAATTTTAATAAT
1 TTTTATATATTCTTAAAATTTTAATAAT
59877721 TCTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTTATATATTCTTAAAATTTTAATAATAA
Found at i:59877692 original size:21 final size:21
Alignment explanation
Indices: 59877668--59877711 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
59877658 TATTTTTTTT
59877668 ATAATTCTTA-ATCATT-TTAAA
1 ATAATT-TTATAT-ATTCTTAAA
59877689 ATAATTTTATATATTCTTAAA
1 ATAATTTTATATATTCTTAAA
59877710 AT
1 AT
59877712 TTTAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTTTATATATTCTTAAA
Found at i:59877714 original size:18 final size:19
Alignment explanation
Indices: 59877691--59877729 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
59877681 ATTTTAAAAT
59877691 AATTTT-ATATATTC-TTAA
1 AATTTTAATA-ATTCTTTAA
59877709 AATTTTAATAATTCTTTAA
1 AATTTTAATAATTCTTTAA
59877728 AA
1 AA
59877730 AATCGCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTAATAATTCTTTAA
Found at i:59877731 original size:21 final size:21
Alignment explanation
Indices: 59877683--59877732 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 21
59877673 TCTTAATCAT
59877683 TTTAAAATAATTTTATATATTC
1 TTTAAAA-AATTTTATATATTC
59877705 -TT--AAAATTTTA-ATAATTC
1 TTTAAAAAATTTTATAT-ATTC
59877723 TTTAAAAAAT
1 TTTAAAAAAT
59877733 CGCATTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
17 2 0.08
18 11 0.46
19 4 0.17
21 7 0.29
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTAAAAAATTTTATATATTC
Done.