Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 76 of 199
Found at i:27688549 original size:11 final size:12
Alignment explanation
Indices: 27688525--27688557 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
27688515 TAAAAATTCA
27688525 AAAATAACAATTT
1 AAAATAA-AATTT
27688538 AAAA-AAAATTT
1 AAAATAAAATTT
27688549 AAAATAAAA
1 AAAATAAAA
27688558 AAATTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 6 0.32
13 4 0.21
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAAAATTT
Found at i:27693545 original size:43 final size:43
Alignment explanation
Indices: 27693483--27693653 Score: 118
Period size: 43 Copynumber: 4.0 Consensus size: 43
27693473 CATAGGATTT
* * *
27693483 TCGATGTGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCG
1 TCGATTTGTGTTTTCGTGTAAGACCACGTCTAGGACATTGGCA
* *
27693526 TCGATTTGTGTTTAT-GTGTAAGACCATGTCTTGGACATTGGCA
1 TCGATTTGTGTTT-TCGTGTAAGACCACGTCTAGGACATTGGCA
** * * * *
27693569 TCG-TATT-T-AATTCATGGAAGACC-CTGTCTGGGACAGTGGCA
1 TCGAT-TTGTGTTTTCGTGTAAGACCAC-GTCTAGGACATTGGCA
* * * * * * *
27693610 TCGATATGTGATTACATGTAAAACCACGTCTGGGACGTTGGCA
1 TCGATTTGTGTTTTCGTGTAAGACCACGTCTAGGACATTGGCA
27693653 T
1 T
27693654 TGTACGAGCC
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 27 0.27
42 4 0.04
43 67 0.66
44 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGATTTGTGTTTTCGTGTAAGACCACGTCTAGGACATTGGCA
Found at i:27696431 original size:17 final size:17
Alignment explanation
Indices: 27696409--27696442 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27696399 GCATAAATGA
27696409 GATGGAAACTATAAAAC
1 GATGGAAACTATAAAAC
27696426 GATGGAAACTATAAAAC
1 GATGGAAACTATAAAAC
27696443 TCATACCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
GATGGAAACTATAAAAC
Found at i:27697461 original size:30 final size:30
Alignment explanation
Indices: 27697425--27697526 Score: 177
Period size: 30 Copynumber: 3.4 Consensus size: 30
27697415 CGGCCAGGCG
* *
27697425 CACGGGCTTGTGACCAGGTCGTGTAAGTCA
1 CACGGGCATGTGACCAGGCCGTGTAAGTCA
27697455 CACGGGCATGTGACCAGGCCGTGTAAGTCA
1 CACGGGCATGTGACCAGGCCGTGTAAGTCA
27697485 CACGGGCATGTGACCAGGCCGTGTAAGTCA
1 CACGGGCATGTGACCAGGCCGTGTAAGTCA
*
27697515 CACGGGCGTGTG
1 CACGGGCATGTG
27697527 GTAAACCGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.21, C:0.25, G:0.35, T:0.19
Consensus pattern (30 bp):
CACGGGCATGTGACCAGGCCGTGTAAGTCA
Found at i:27701412 original size:41 final size:41
Alignment explanation
Indices: 27701367--27701499 Score: 178
Period size: 41 Copynumber: 3.2 Consensus size: 41
27701357 GGCTCGGTGC
** * **
27701367 CTAGCAGGCTTGATGCCAATGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
27701408 CTAGCAGGCTTG-TCGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGAT-GCCGGTGAAACATTTCAGACTTTAAGT
* * *
27701449 TTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
27701490 CTAGCAGGCT
1 CTAGCAGGCT
27701500 AAGTGCCAGT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 80 0.99
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:27708324 original size:41 final size:41
Alignment explanation
Indices: 27708279--27708411 Score: 196
Period size: 41 Copynumber: 3.2 Consensus size: 41
27708269 GGCTCGGTGC
* * **
27708279 CTAGCAGGCTTGATGCCAGTGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
27708320 CTAGCAGGCTTG-TCGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGAT-GCCGGTGAAACATTTCAGACTTTAAGT
* *
27708361 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
27708402 CTAGCAGGCT
1 CTAGCAGGCT
27708412 AAGTGCCAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 83 0.99
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:27712737 original size:16 final size:16
Alignment explanation
Indices: 27712716--27712750 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27712706 CAAATGAATT
*
27712716 ATTAAAAATATAAAAA
1 ATTAAAAATAAAAAAA
27712732 ATTAAAAATAAAAAAA
1 ATTAAAAATAAAAAAA
27712748 ATT
1 ATT
27712751 GGTCCAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTAAAAATAAAAAAA
Found at i:27714946 original size:20 final size:21
Alignment explanation
Indices: 27714918--27714956 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27714908 GTGCATGGGT
*
27714918 GCAATTTC-AGCTTTACAACA
1 GCAAGTTCAAGCTTTACAACA
*
27714938 GCAAGTTCAATCTTTACAA
1 GCAAGTTCAAGCTTTACAA
27714957 GCTGAACTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (21 bp):
GCAAGTTCAAGCTTTACAACA
Found at i:27715111 original size:12 final size:12
Alignment explanation
Indices: 27715072--27715114 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
27715062 TCGGTGGCTG
27715072 CACCACCTCCAGC
1 CACCACCTCCA-C
*
27715085 CACCA-CTCAAC
1 CACCACCTCCAC
27715096 CACCACCTCCAC
1 CACCACCTCCAC
27715108 CACCACC
1 CACCACC
27715115 ACCTCCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 6 0.22
12 16 0.59
13 5 0.19
ACGTcount: A:0.28, C:0.63, G:0.02, T:0.07
Consensus pattern (12 bp):
CACCACCTCCAC
Found at i:27720211 original size:50 final size:50
Alignment explanation
Indices: 27720123--27720326 Score: 230
Period size: 50 Copynumber: 4.1 Consensus size: 50
27720113 GCCAAAAATC
* * * * *
27720123 CTTTATAGAGAGTTCGCCACAAAAGGCTTTACAAAATATTTGCCACAAAGA
1 CTTTACAGAGAGTCCGCCAC-AAAGGCTTTACAGAATATTCGCCACAAAGG
* * *
27720174 CTTAACAGAGAGTCCACCACAAAGGCTTTACAGAATATTCGTCACAAAGG
1 CTTTACAGAGAGTCCGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
* * *
27720224 TTTTACAGAGAG-CTCGCCACAAAGGCTTTATAGAATATTCGCCATAAAGG
1 CTTTACAGAGAGTC-CGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
* * * * * *
27720274 CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCACCATAAAGG
1 CTTTACAGAGAGTCCGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
27720324 CTT
1 CTT
27720327 GGTTTGGTTT
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 113 0.87
51 16 0.12
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (50 bp):
CTTTACAGAGAGTCCGCCACAAAGGCTTTACAGAATATTCGCCACAAAGG
Found at i:27720219 original size:25 final size:25
Alignment explanation
Indices: 27720135--27720326 Score: 174
Period size: 25 Copynumber: 7.6 Consensus size: 25
27720125 TTATAGAGAG
*
27720135 TTCGCCACAAAAGGCTTTACAAAATA
1 TTCGCCAC-AAAGGCTTTACAGAATA
* * * *
27720161 TTTGCCACAAAGACTTAACAGAGA-G
1 TTCGCCACAAAGGCTTTACAGA-ATA
* *
27720186 TCCACCACAAAGGCTTTACAGAATA
1 TTCGCCACAAAGGCTTTACAGAATA
* * *
27720211 TTCGTCACAAAGGTTTTACAGAGA-G
1 TTCGCCACAAAGGCTTTACAGA-ATA
* *
27720236 CTCGCCACAAAGGCTTTATAGAATA
1 TTCGCCACAAAGGCTTTACAGAATA
* *
27720261 TTCGCCATAAAGGCTTTATAGAGA-A
1 TTCGCCACAAAGGCTTTACAGA-ATA
*
27720286 TTCGCCACAAAGGTTTTACAGAATA
1 TTCGCCACAAAGGCTTTACAGAATA
* *
27720311 TTCACCATAAAGGCTT
1 TTCGCCACAAAGGCTT
27720327 GGTTTGGTTT
Statistics
Matches: 131, Mismatches: 29, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
24 3 0.02
25 118 0.90
26 10 0.08
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (25 bp):
TTCGCCACAAAGGCTTTACAGAATA
Found at i:27720323 original size:75 final size:75
Alignment explanation
Indices: 27720123--27720326 Score: 198
Period size: 75 Copynumber: 2.7 Consensus size: 75
27720113 GCCAAAAATC
* * * * * *
27720123 CTTTATAGAGAGTTCGCCACAAAAGGCTTTACAAAATATTTGCCACAAAGACTTAACAGAGAGTC
1 CTTTATAGAGAATTCGCCAC-AAAGGTTTTACAGAATATTCGCCACAAAGGCTTAACAGAGAATC
27720188 CACCACAAAGG
65 CACCACAAAGG
* * ** * *
27720199 CTTTACAGA-ATATTCGTCACAAAGGTTTTACAGAGA-GCTCGCCACAAAGGCTTTATAGA-ATA
1 CTTTATAGAGA-ATTCGCCACAAAGGTTTTACAGA-ATATTCGCCACAAAGGCTTAACAGAGA-A
* * *
27720261 TTCGCCATAAAGG
63 TCCACCACAAAGG
* *
27720274 CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCACCATAAAGGCTT
1 CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCGCCACAAAGGCTT
27720327 GGTTTGGTTT
Statistics
Matches: 102, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
74 2 0.02
75 83 0.81
76 17 0.17
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (75 bp):
CTTTATAGAGAATTCGCCACAAAGGTTTTACAGAATATTCGCCACAAAGGCTTAACAGAGAATCC
ACCACAAAGG
Found at i:27733046 original size:16 final size:15
Alignment explanation
Indices: 27733012--27733057 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
27733002 ATAAACTAAA
27733012 AAAATATAAATTATG
1 AAAATATAAATTATG
27733027 AAAATATGAAATT-TG
1 AAAATAT-AAATTATG
27733042 TAAAA-A-AAATTATG
1 -AAAATATAAATTATG
27733056 AA
1 AA
27733058 TTTTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.25
14 2 0.07
15 10 0.36
16 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (15 bp):
AAAATATAAATTATG
Found at i:27733610 original size:20 final size:19
Alignment explanation
Indices: 27733587--27733624 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27733577 TCAATTTTAA
27733587 ATAATTATTAATATTTTTTT
1 ATAATTATTAA-ATTTTTTT
*
27733607 ATAATTTTTAAATTTTTT
1 ATAATTATTAAATTTTTT
27733625 ATAGTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATAATTATTAAATTTTTTT
Found at i:27733749 original size:18 final size:18
Alignment explanation
Indices: 27733716--27733751 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27733706 ATTCAAGATG
27733716 TAATTTTTATTAATTTTT
1 TAATTTTTATTAATTTTT
27733734 TAATTATTTATT-ATTTTT
1 TAATT-TTTATTAATTTTT
27733752 GAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TAATTTTTATTAATTTTT
Found at i:27734533 original size:15 final size:15
Alignment explanation
Indices: 27734513--27734542 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27734503 ATTTAGTATG
27734513 GGATAATCTTGTTGT
1 GGATAATCTTGTTGT
27734528 GGATAATCTTGTTGT
1 GGATAATCTTGTTGT
27734543 TTAATGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
GGATAATCTTGTTGT
Found at i:27734629 original size:19 final size:20
Alignment explanation
Indices: 27734588--27734629 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
27734578 TATAAAATTT
27734588 ATTGATGAATATTTTATATA
1 ATTGATGAATATTTTATATA
*
27734608 ATTGGTGAATATTTTA-ATA
1 ATTGATGAATATTTTATATA
27734627 ATT
1 ATT
27734630 TTATTTAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTGATGAATATTTTATATA
Found at i:27735449 original size:11 final size:11
Alignment explanation
Indices: 27735418--27735460 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
27735408 AGCCCATTTT
27735418 TATTTTAAAAA
1 TATTTTAAAAA
**
27735429 -ATTAAAAAAA
1 TATTTTAAAAA
27735439 GTATTTTAAAAA
1 -TATTTTAAAAA
27735451 TATTTTAAAA
1 TATTTTAAAA
27735461 TTAAAAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 8 0.31
11 10 0.38
12 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:27736119 original size:43 final size:42
Alignment explanation
Indices: 27736034--27736343 Score: 316
Period size: 43 Copynumber: 7.2 Consensus size: 42
27736024 TAGAAATAAG
* * * * * *
27736034 CGCCGCTAAAGGTCTTGGTCTATAGCGGCGCTTGTCCAACAAA
1 CGCCGCTAAA-GACATGGTCTTTAACGGCGCTTTTCCCACAAA
* * * * *
27736077 CGCCACTAAAGACAATGATCGTTAACGGCACTTTTCGCACAAA
1 CGCCGCTAAAGAC-ATGGTCTTTAACGGCGCTTTTCCCACAAA
* * * * * *
27736120 CGCCACGAAAGACCCTGATCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAGA-CATGGTCTTTAACGGCGCTTTTCCCACAAA
* *
27736163 CGCCGCTAAAGAGCATGGTCTTTAGCGGCGCTTCTCCCACAAA
1 CGCCGCTAAAGA-CATGGTCTTTAACGGCGCTTTTCCCACAAA
* * *
27736206 CGCCGCTAAAGACCCTCGTCTTTAACGGTGCTTTTCCCACAAA
1 CGCCGCTAAAGA-CATGGTCTTTAACGGCGCTTTTCCCACAAA
* *
27736249 CGCCGCTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTAAAGA-CATGGTCTTTAACGGCGCTTTTCCCACAAA
*
27736292 CGCCGCTAAAGA-ACTGGTCTTTAACGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACA-TGGTCTTTAACGGCGCTTTTCCCACAAA
*
27736334 CGCCACTAAA
1 CGCCGCTAAA
27736344 TTTGGCAGAT
Statistics
Matches: 223, Mismatches: 41, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.00
42 36 0.16
43 185 0.83
44 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (42 bp):
CGCCGCTAAAGACATGGTCTTTAACGGCGCTTTTCCCACAAA
Found at i:27736204 original size:86 final size:84
Alignment explanation
Indices: 27736059--27736343 Score: 358
Period size: 86 Copynumber: 3.3 Consensus size: 84
27736049 TGGTCTATAG
* * * * *
27736059 CGGCGCTTGTCCAACAAACGCCACTAAAGA-CAATGATCGTTAACGGCACTTTTCGCACAAACGC
1 CGGCGCTTTTCC-ACAAACGCCACTAAAGAGC-ATGGTCTTTAGCGGCACTTTTCCCACAAACGC
* * *
27736123 CACGAAAGACCCTGATCTTTAG
64 CGCTAAAGACCCTG-TCTTTAA
* * *
27736145 CGGCGCTTTTACCACAAACGCCGCTAAAGAGCATGGTCTTTAGCGGCGCTTCTCCCACAAACGCC
1 CGGCGCTTTT-CCACAAACGCCACTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCC
27736210 GCTAAAGACCCTCGTCTTTAA
65 GCTAAAGACCCT-GTCTTTAA
* *
27736231 CGGTGCTTTTCCCACAAACGCCGCTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCC
1 CGGCGCTTTT-CCACAAACGCCACTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCC
*
27736296 GCTAAAGA-ACTGGTCTTTAA
65 GCTAAAGACCCT-GTCTTTAA
27736316 CGGCGCTTTTTCCACAAACGCCACTAAA
1 CGGCGC-TTTTCCACAAACGCCACTAAA
27736344 TTTGGCAGAT
Statistics
Matches: 176, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
85 31 0.18
86 141 0.80
87 4 0.02
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (84 bp):
CGGCGCTTTTCCACAAACGCCACTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAACGCCG
CTAAAGACCCTGTCTTTAA
Found at i:27736271 original size:129 final size:128
Alignment explanation
Indices: 27736034--27736343 Score: 381
Period size: 129 Copynumber: 2.4 Consensus size: 128
27736024 TAGAAATAAG
* * *
27736034 CGCCGCTAAAG-GTCTTGGTCTATAGCGGCGCTTGTCCAACAAACGCCACTAAAGACAATGATCG
1 CGCCGCTAAAGAG-C-TGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACAATGATCG
* * *
27736098 TTAACGGCACTTTTCGCACAAACGCCACGAAAGACCCTGATCTTTAGCGGCGCTTTTACCACAAA
64 TTAACGGCACTTTTCCCACAAACGCCACGAAAGACCATGATCTTTAGCGGCACTTTTACCACAAA
* ** *
27736163 CGCCGCTAAAGAGCATGGTCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCCTCG-TCT
1 CGCCGCTAAAGAGC-TGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACAAT-GATCG
** * * * * *
27736227 TTAACGGTGCTTTTCCCACAAACGCCGCTAAAGAGCATGGTCTTTAGCGGCACTTTTCCCACAAA
64 TTAACGGCACTTTTCCCACAAACGCCACGAAAGACCATGATCTTTAGCGGCACTTTTACCACAAA
* * * *
27736292 CGCCGCTAAAGAACTGGTCTTTAACGGCGCTTTTTCCACAAACGCCACTAAA
1 CGCCGCTAAAGAGCTGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAA
27736344 TTTGGCAGAT
Statistics
Matches: 156, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
128 34 0.22
129 120 0.77
130 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (128 bp):
CGCCGCTAAAGAGCTGGTCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACAATGATCGTT
AACGGCACTTTTCCCACAAACGCCACGAAAGACCATGATCTTTAGCGGCACTTTTACCACAAA
Found at i:27736688 original size:21 final size:21
Alignment explanation
Indices: 27736662--27736740 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 21
27736652 TTTTACGCTG
27736662 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
27736683 CTCTGCTGCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
* ** *
27736704 CTCTACTTCTTTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
27736725 CTCTGCTTCTCTCGCT
1 CTCTGCTTCCCTCGCT
27736741 ACTGCATCTG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.06, C:0.43, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:27736750 original size:21 final size:21
Alignment explanation
Indices: 27736662--27736753 Score: 94
Period size: 21 Copynumber: 4.4 Consensus size: 21
27736652 TTTTACGCTG
*
27736662 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTACAGC
*
27736683 CTCTGCTGCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTACAGC
* ** * *
27736704 CTCTACTTCTTTTGCTGCAGC
1 CTCTGCTTCCCTCGCTACAGC
* *
27736725 CTCTGCTTCTCTCGCTACTGC
1 CTCTGCTTCCCTCGCTACAGC
*
27736746 ATCTGCTT
1 CTCTGCTT
27736754 TAAGCTGCTG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.08, C:0.41, G:0.16, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACAGC
Found at i:27736801 original size:66 final size:66
Alignment explanation
Indices: 27736724--27736870 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
27736714 TTTGCTGCAG
* * *
27736724 CCTCTGCTTCTCTCGCTACTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTACTGCATATGCTTTAAG-TGATAGCTGGAGTTCTTCATATCTTT-GTT
27736787 GAA
64 GAA
* * ** * *
27736790 CCTTAGCTTCTCTCCCTGTTGCATATGCTTTAAGTTATAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTACTGCATATGCTTTAAGTGATAGCTGGAGTTCTTCATATCTTTGTTGA
27736855 A
66 A
27736856 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
27736871 ATGTTGCCTC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
65 2 0.03
66 62 0.91
67 4 0.06
ACGTcount: A:0.15, C:0.27, G:0.16, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTACTGCATATGCTTTAAGTGATAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:27736876 original size:66 final size:66
Alignment explanation
Indices: 27736763--27736891 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
27736753 TTAAGCTGCT
* * *
27736763 GCTGGAGTTCTTCATACTTTCGTTGAACCTTAGCTTCTCTCCCTGTTGCATATGCTTTAAGTTAT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCCATGTTGCATACGCTTTAAGTTAT
27736828 A
66 A
* * * *
27736829 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTT
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCCATGTTGCATACGCTTTAAGTT
27736892 GTGTAATTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 51 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCCATGTTGCATACGCTTTAAGTTAT
A
Found at i:27737986 original size:43 final size:43
Alignment explanation
Indices: 27737919--27738123 Score: 211
Period size: 43 Copynumber: 4.8 Consensus size: 43
27737909 GCATCGCTAA
** **
27737919 CTTTAGCGGCGCTTTCCCTC-CAAACGTTGCTAAAGACCACAAC
1 CTTTAGCGGCGCTTT-TATCACAAACGCCGCTAAAGACCACAAC
* * *
27737962 CTTTAGCGGCGCTTTTCTCACAAACGCCACTAAAAACCACAAC
1 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCACAAC
* *
27738005 CTTTAACGGCGCTTTTATCACAAACGCCGTTAAAGACCA-AGAC
1 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCACA-AC
** *
27738048 CTTTAGCGGCGCTTTTATCACAATTGCCACTAAAGA--ACGAAC
1 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCAC-AAC
* * * *
27738090 CTTTAGCGACGCTTCTAGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
27738124 AATAGAATCT
Statistics
Matches: 136, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 33 0.24
43 102 0.75
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCACAAC
Found at i:27739343 original size:12 final size:12
Alignment explanation
Indices: 27739326--27739350 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27739316 ATTTGATCTG
27739326 TATACTAAATGA
1 TATACTAAATGA
27739338 TATACTAAATGA
1 TATACTAAATGA
27739350 T
1 T
27739351 GCCAATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TATACTAAATGA
Found at i:27740008 original size:15 final size:13
Alignment explanation
Indices: 27739979--27740018 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 13
27739969 ACTAACCTGG
27739979 TTTAAAATAATTA
1 TTTAAAATAATTA
27739992 TTTAAAATACTATTA
1 TTTAAAATA--ATTA
27740007 TTTAAAATAATT
1 TTTAAAATAATT
27740019 TTAAAGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATAATTA
Found at i:27742529 original size:957 final size:944
Alignment explanation
Indices: 27740963--27742867 Score: 3612
Period size: 957 Copynumber: 2.0 Consensus size: 944
27740953 TCAAAGTTAT
27740963 TATATATATAATGGTGCTGCTGAACCACCTGTGCTCTCTGAGTCTCAGAATTGCGTTCCCATTTA
1 TATATATATAATGGTGCTGCTGAACCACCTGTGCTCTCTGAGTCTCAGAATTGCGTTCCCATTTA
27741028 TGCATTTGACTTTTTTTTTTCTTTTTTGTTTCTCATTTTAGCAGGATATATTGTGCTGTGAGATG
66 TGCATTTGACTTTTTTTTTTCTTTTTTGTTTCTCATTTTAGCAGGATATATTGTGCTGTGAGATG
27741093 AGAGAGGTAAATGGGTTGGGCACACCTTTTTTTAACATAGAAAAAGCATTTAAAGAAAGCAAAGG
131 AGAGAGGTAAATGGGTTGGGCACACCTTTTTTTAACATAGAAAAAGCATTTAAAGAAAGCAAAGG
27741158 TCAAAGTTTTTATGATCCATGGAATCGAATTTTAAGAATTTTATTTTGCAGGATCATATACATGT
196 TCAAAGTTTTTATGATCCATGGAATCGAATTTTAAGAATTTTATTTTGCAGGATCATATACATGT
27741223 ATATATAGCAGGAAAAAAAAGAGGAGAGGGTGGGGTGGGGGAGGGGGCATATAGTAAAAGTATAC
261 ATATATAGCAGGAAAAAAAAGAGGAGAGGGTGGGGTGGGGGAGGGGGCATATAGTAAAAGTATAC
*
27741288 AGATACAGGTGCAACAGCAGTAGCAGTCAAGGAGCTATGAATTGTAGTTTGGAGTTTGGAGCATA
326 AGATACAGGTGCAACAGCAGTAGCAGTCAAGGAGCTATGAATTGTAGTTTGGAGTTTGAAGCATA
* *
27741353 CCTGTGTAAGTCCACAAGGTTCAAAAATAGATGGGATGATGAACATGTCAGATGCTGCGTAAATG
391 CCTGTGTAAGGCCACAAGGTTCAAAAATAGATGGGATGATGAACATGTCAGATGCTGCATAAATG
27741418 GCATGAGAAAGAGACTCGTCATATTTTAGTATTAGCCGAATGTGTTCGTGGTTTTGGAATTGGTT
456 GCATGAGAAAGAGACTCGTCATATTTTAGTATTAGCCGAATGTGTTCGTGGTTTTGGAATTGGTT
27741483 TGCTATACCCTCAAATTCCCTCTGAAAACAAATAAAAGAAAAAGAAAATGCAAAGGAAAATCTCA
521 TGCTATACCCTCAAATTCCCTCTGAAAACAAATAAAAGAAAAAGAAAATGCAAAGGAAAATCTCA
27741548 GTGTACTAAGTATGGAACAGGAAAAGTATCAACTTAAAATAAAACAAATAACTCCGCATGGACCG
586 GTGTACTAAGTATGGAACAGGAAAAGTATCAACTTAAAATAAAACAAATAACTCCGCATGGACCG
27741613 ATATGCCTGAATAGAGTTTTTATTGTTTTTATAGCTTTCATTCATGCAAGCAGAAAGAAATCCGT
651 ATATGCCTGAATAGAGTTTTTATTGTTTTTATAGCTTTCATTCATGCAAGCAGAAAGAAATCCGT
27741678 TGTTCACACAGAGAAAATAGCAGTAGAGATTCACCTGAATGTGGGGAACTGGACATGAACCAAGA
716 TGTTCACACAGAGAAAATAGCAGTAGAGATTCACCTGAATGTGGGGAACTGGACATGAACCAAGA
*
27741743 AGTTCAAATTGACCGCCCATCTCCAATGTTCAATATATGGCATGCTTAATCAGATGAACACCTTT
781 AGTTCAAACTGACCGCCCATCTCCAATGTTCAATATATGGCATGCTTAATCAGATGAACACCTTT
27741808 CTGTGGCACCAATCTTGTTATGCAGCCTACCTATTTAATAGTAAAAGACTTCGAGTAAGAATCTA
846 CTGTGGCACCAATCTTGTTATGCAGCCTACCTATTTAATAGTAAAAGACTTCGAGTAAGAATCTA
27741873 GGCAGTATTCAGCTAAGAAATAATAAGAACCTCC
911 GGCAGTATTCAGCTAAGAAATAATAAGAACCTCC
27741907 TATATATATAATGGTGCTGCTGAACCACCTGTGCTCTCTGAGTCTCAGAATTGCGTTCCCATTTA
1 TATATATATAATGGTGCTGCTGAACCACCTGTGCTCTCTGAGTCTCAGAATTGCGTTCCCATTTA
27741972 TGCATTTGACCTTTTTTTTTTCTTTTTTGTTTCTCATTTTAGCAGGATATATTGTGCTGTGAGAT
66 TGCATTTGA-CTTTTTTTTTTCTTTTTTGTTTCTCATTTTAGCAGGATATATTGTGCTGTGAGAT
27742037 GAGAGAGGTAAATGGGTTGGGCACACCTTTTTTTAACATAGAAAAAGCATTTAAAGAAAGCAAAG
130 GAGAGAGGTAAATGGGTTGGGCACACCTTTTTTTAACATAGAAAAAGCATTTAAAGAAAGCAAAG
* *
27742102 GTCAAAGTTTTTATGATCCATGGAATCGAATTTTAAGAATTTTATTTTGCCGGATCATATATATG
195 GTCAAAGTTTTTATGATCCATGGAATCGAATTTTAAGAATTTTATTTTGCAGGATCATATACATG
27742167 TATATATAGCAGGAAAAAAAAGAGGAGAGGGTGGGGTGGGGGAGGGGGAGGGGGAGGGGGCATAT
260 TATATATAGCAGGAAAAAAAAGAGGAGAGGGTGGGGT------------GGGGGAGGGGGCATAT
*
27742232 TGTAAAAGTATACAGATACAGGTGCAACAGCAGTAGCAGTCAAGGAGCTATGAATTGTAGTTTGG
313 AGTAAAAGTATACAGATACAGGTGCAACAGCAGTAGCAGTCAAGGAGCTATGAATTGTAGTTTGG
27742297 AGTTTGAAGCATACCTGTGTAAGGCCACAAGGTTCAAAAATAGATGGGATGATGAACATGTCAGA
378 AGTTTGAAGCATACCTGTGTAAGGCCACAAGGTTCAAAAATAGATGGGATGATGAACATGTCAGA
27742362 TGCTGCATAAATGGCATGAGAAAGAGACTCGTCATATTTTAGTATTAGCCGAATGTGTTCGTGGT
443 TGCTGCATAAATGGCATGAGAAAGAGACTCGTCATATTTTAGTATTAGCCGAATGTGTTCGTGGT
27742427 TTTGGAATTGGTTTGCTATACCCTCAAATTCCCTCTGAAAACAAATAAAAGAAAAAGAAAATGCA
508 TTTGGAATTGGTTTGCTATACCCTCAAATTCCCTCTGAAAACAAATAAAAGAAAAAGAAAATGCA
*
27742492 AAGGAAAATCTCAGTGTACTAAGTATGGAATAGGAAAAGTATCAACTTAAAATAAAACAAATAAC
573 AAGGAAAATCTCAGTGTACTAAGTATGGAACAGGAAAAGTATCAACTTAAAATAAAACAAATAAC
27742557 TCCGCATGGACCGATATGCCTGAATAGAGTTTTTATTGTTTTTATAGCTTTCATTCATGCAAGCA
638 TCCGCATGGACCGATATGCCTGAATAGAGTTTTTATTGTTTTTATAGCTTTCATTCATGCAAGCA
27742622 GAAAGAAATCCGTTGTTCACACAGAGAAAATAGCAGTAGAGATTCACCTGAATGTGGGGAACTGG
703 GAAAGAAATCCGTTGTTCACACAGAGAAAATAGCAGTAGAGATTCACCTGAATGTGGGGAACTGG
*
27742687 ACATGAACCAAGAAGTTCAAACTGACCGCCCATCTCCAATGTTCGATATATGGCATGCTTAATCA
768 ACATGAACCAAGAAGTTCAAACTGACCGCCCATCTCCAATGTTCAATATATGGCATGCTTAATCA
27742752 GATGAACACCTTTCTGTGGCACCAATCTTGTTATGCAGCCTACCTATTTAATAGTAAAAGACTTC
833 GATGAACACCTTTCTGTGGCACCAATCTTGTTATGCAGCCTACCTATTTAATAGTAAAAGACTTC
27742817 GAGTAAGAATCTAGGCAGTATTCAGCTAAGAAATAATAAGAACCTCC
898 GAGTAAGAATCTAGGCAGTATTCAGCTAAGAAATAATAAGAACCTCC
27742864 TATA
1 TATA
27742868 ATGCTGTGTT
Statistics
Matches: 939, Mismatches: 9, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
944 74 0.08
945 220 0.23
957 645 0.69
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (944 bp):
TATATATATAATGGTGCTGCTGAACCACCTGTGCTCTCTGAGTCTCAGAATTGCGTTCCCATTTA
TGCATTTGACTTTTTTTTTTCTTTTTTGTTTCTCATTTTAGCAGGATATATTGTGCTGTGAGATG
AGAGAGGTAAATGGGTTGGGCACACCTTTTTTTAACATAGAAAAAGCATTTAAAGAAAGCAAAGG
TCAAAGTTTTTATGATCCATGGAATCGAATTTTAAGAATTTTATTTTGCAGGATCATATACATGT
ATATATAGCAGGAAAAAAAAGAGGAGAGGGTGGGGTGGGGGAGGGGGCATATAGTAAAAGTATAC
AGATACAGGTGCAACAGCAGTAGCAGTCAAGGAGCTATGAATTGTAGTTTGGAGTTTGAAGCATA
CCTGTGTAAGGCCACAAGGTTCAAAAATAGATGGGATGATGAACATGTCAGATGCTGCATAAATG
GCATGAGAAAGAGACTCGTCATATTTTAGTATTAGCCGAATGTGTTCGTGGTTTTGGAATTGGTT
TGCTATACCCTCAAATTCCCTCTGAAAACAAATAAAAGAAAAAGAAAATGCAAAGGAAAATCTCA
GTGTACTAAGTATGGAACAGGAAAAGTATCAACTTAAAATAAAACAAATAACTCCGCATGGACCG
ATATGCCTGAATAGAGTTTTTATTGTTTTTATAGCTTTCATTCATGCAAGCAGAAAGAAATCCGT
TGTTCACACAGAGAAAATAGCAGTAGAGATTCACCTGAATGTGGGGAACTGGACATGAACCAAGA
AGTTCAAACTGACCGCCCATCTCCAATGTTCAATATATGGCATGCTTAATCAGATGAACACCTTT
CTGTGGCACCAATCTTGTTATGCAGCCTACCTATTTAATAGTAAAAGACTTCGAGTAAGAATCTA
GGCAGTATTCAGCTAAGAAATAATAAGAACCTCC
Found at i:27743757 original size:2 final size:2
Alignment explanation
Indices: 27743752--27743780 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27743742 CTATATAACC
27743752 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27743781 TGCCTATCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27744935 original size:14 final size:15
Alignment explanation
Indices: 27744916--27744948 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
27744906 CTTAAATTAG
27744916 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
27744930 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
27744945 AATC
1 AATC
27744949 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:27745410 original size:41 final size:41
Alignment explanation
Indices: 27745353--27745462 Score: 202
Period size: 41 Copynumber: 2.7 Consensus size: 41
27745343 AAATATTTTT
* *
27745353 GCGGCGCATTCTCAAAAACGCCGCTAAAAGTCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
27745394 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
27745435 GCGGCGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
27745463 GCCCCAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:27745545 original size:40 final size:38
Alignment explanation
Indices: 27745501--27745624 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 38
27745491 GGGCTTATGT
*
27745501 TTTTTGCAAAAACGCCGCTAATGCTCATTTTTAGCGGCAC
1 TTTTTG-AAAAGCGCCGCTAATGCTCATTTTTAGCGGC-C
* * * * * * *
27745541 TTTTTGAAAAGCACTGCAAATGCTGGATCTTTAGTGGCG
1 TTTTTGAAAAGCGCCGCTAATGCT-CATTTTTAGCGGCC
* *
27745580 TTTTGTGTAAAGCGCCGCTAATGCTCAATTTTTAGCGGCG
1 TTTT-TGAAAAGCGCCGCTAATGCTC-ATTTTTAGCGGCC
27745620 TTTTT
1 TTTTT
27745625 CGTCCAAACG
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
39 19 0.29
40 47 0.71
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (38 bp):
TTTTTGAAAAGCGCCGCTAATGCTCATTTTTAGCGGCC
Found at i:27748145 original size:11 final size:11
Alignment explanation
Indices: 27748123--27748154 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27748113 ACAACATCCA
27748123 AACAATA-A-T
1 AACAATATAGT
27748132 AACAATATAGT
1 AACAATATAGT
27748143 AACAATATAGT
1 AACAATATAGT
27748154 A
1 A
27748155 GTGAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 7 0.33
10 1 0.05
11 13 0.62
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (11 bp):
AACAATATAGT
Found at i:27749521 original size:62 final size:62
Alignment explanation
Indices: 27749405--27749522 Score: 141
Period size: 62 Copynumber: 1.9 Consensus size: 62
27749395 TTTATTGGTT
*
27749405 CAAGTTAAGCCCTGAACTTAACAATTGTTCCCACATTGAGGTGTAAACTATTTTTTTTTGTC
1 CAAGTTAAGCCCTGAACTTAACAATTGTTCCCACATTGAGGTGTAAAATATTTTTTTTTGTC
* * ** ** *
27749467 CAAGTTAGGCCCTGGACTTGGCAATTGTTCTTACATTGGGGCT-TAAAAT-TTTTTTT
1 CAAGTTAAGCCCTGAACTTAACAATTGTTCCCACATTGAGG-TGTAAAATATTTTTTT
27749523 CCAAGTTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
61 7 0.15
62 39 0.83
63 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (62 bp):
CAAGTTAAGCCCTGAACTTAACAATTGTTCCCACATTGAGGTGTAAAATATTTTTTTTTGTC
Found at i:27757522 original size:31 final size:32
Alignment explanation
Indices: 27757482--27757545 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
27757472 TATTTTATTT
* * *
27757482 TTATATATATAATAATTAAATACAAATACGTA
1 TTATATATATAATAAATAAATAAAAATAAGTA
*
27757514 TTAT-TATATTATAAATAAATAAAAATAAGTA
1 TTATATATATAATAAATAAATAAAAATAAGTA
27757545 T
1 T
27757546 AGAAACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (32 bp):
TTATATATATAATAAATAAATAAAAATAAGTA
Found at i:27759187 original size:43 final size:42
Alignment explanation
Indices: 27759135--27759341 Score: 208
Period size: 43 Copynumber: 4.9 Consensus size: 42
27759125 ATAGACCCTG
* *
27759135 ATCTATAGCGGCG-TTTATACCACAAACGCCACTAAAGAACC-T
1 ATCTTTAGCGGCGCTTT-TACCACAAACGCCGCTAAAG-ACCTT
* *
27759177 ATTTTTTAGCGGCGCTTTGACCACAAACGCCGC-AATAGACTCTT
1 A-TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAA-AGAC-CTT
* *
27759221 ATCTATAGCGGCGC-TTT-CTCACAAACGCCGCTAAAGACCATG
1 ATCTTTAGCGGCGCTTTTAC-CACAAACGCCGCTAAAGACC-TT
* *
27759263 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGA-CCTT
* * *
27759306 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1 ATCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA
27759342 AAGGCCAACA
Statistics
Matches: 138, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.01
42 36 0.26
43 92 0.67
44 8 0.06
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (42 bp):
ATCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCTT
Found at i:27759276 original size:85 final size:86
Alignment explanation
Indices: 27759121--27759341 Score: 256
Period size: 85 Copynumber: 2.6 Consensus size: 86
27759111 GGAGAAGCGT
* *
27759121 CGCAATAGACCCTGATCTATAGCGGCG-TTTATACCACAAACGCCACTAAAGAACCTATTTTTTA
1 CGCAATAGACCCTTATCTATAGCGGCGCTTTATA-CACAAACGCCACTAAAGAACCTATTCTTTA
27759185 GCGGCGCTTTGACCACAAACGC
65 GCGGCGCTTTGACCACAAACGC
* * *
27759207 CGCAATAGACTCTTATCTATAGCGGCGCTTTCT-CACAAACGCCGCTAAAG-ACC-ATGATCTTT
1 CGCAATAGACCCTTATCTATAGCGGCGCTTTATACACAAACGCCACTAAAGAACCTAT--TCTTT
* **
27759269 AGTGGCGCTTTTTCCACAAACGC
64 AGCGGCGCTTTGACCACAAACGC
* * *
27759292 CGCTAA-AGACCCTTATCTTTAGCGGCGCTTTGA-CCAAAAACGCCACTAAA
1 CGC-AATAGACCCTTATCTATAGCGGCGCTTT-ATACACAAACGCCACTAAA
27759342 AAGGCCAACA
Statistics
Matches: 116, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
83 2 0.02
84 3 0.03
85 66 0.57
86 41 0.35
87 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (86 bp):
CGCAATAGACCCTTATCTATAGCGGCGCTTTATACACAAACGCCACTAAAGAACCTATTCTTTAG
CGGCGCTTTGACCACAAACGC
Found at i:27759758 original size:21 final size:21
Alignment explanation
Indices: 27759715--27759759 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27759705 GCAGTCTGTA
*
27759715 CTTCTCTCGCTGCCGCCTATG
1 CTTCTCTCGCTGCCGCCAATG
*
27759736 CTTCTCTTGCTGCCG-CAACTG
1 CTTCTCTCGCTGCCGCCAA-TG
27759757 CTT
1 CTT
27759760 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.07, C:0.40, G:0.18, T:0.36
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCCAATG
Found at i:27759841 original size:66 final size:65
Alignment explanation
Indices: 27759735--27759900 Score: 208
Period size: 66 Copynumber: 2.5 Consensus size: 65
27759725 TGCCGCCTAT
* * * *
27759735 GCTTCTCTTGCTGCCGCAACTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTG-TGCTGGAGTTCTTCATATCTTT-GTTGAACCT
27759799 CA
64 CA
* *
27759801 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT-GCTGGAGTTCTTCATATCTTTGTTGAACCTC
27759866 A
65 A
* * * *
27759867 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTG
27759901 TAATTTGCTC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 81 0.93
67 4 0.05
ACGTcount: A:0.13, C:0.27, G:0.20, T:0.40
Consensus pattern (65 bp):
GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
Found at i:27765341 original size:16 final size:16
Alignment explanation
Indices: 27765320--27765379 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
27765310 ATTAAGCTAC
27765320 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
27765336 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
* *
27765352 GAAAATTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
*
27765370 GTAATTTATG
1 GTAAGTTATG
27765380 AATAATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
16 23 0.64
17 1 0.03
18 12 0.33
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:27765359 original size:25 final size:28
Alignment explanation
Indices: 27765331--27765654 Score: 128
Period size: 31 Copynumber: 11.7 Consensus size: 28
27765321 TAAGTTATGT
*
27765331 ATTATGTAAGTTAT-TTA-TTATGAA-A
1 ATTATGTAAGTTATGTAATTTATGAATA
27765356 ATTATGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTATGTAATTTATGAATA
** *
27765384 ATTA---AAAATATGTAAGTTATG--TA
1 ATTATGTAAGTTATGTAATTTATGAATA
* * *
27765407 AGT-TGTAAGTTATGT-A-TAAT-ATTA
1 ATTATGTAAGTTATGTAATTTATGAATA
* ** *
27765431 AATAACTAAGTTATGTAATTTATGTATAA
1 ATTATGTAAGTTATGTAATTTATGAAT-A
* *
27765460 TATTAATGTAAGTTATGT-A-TAAT-ATTA
1 -ATT-ATGTAAGTTATGTAATTTATGAATA
* ** *
27765487 AATAACTAAGTTATGTAATTTATGTATAA
1 ATTATGTAAGTTATGTAATTTATGAAT-A
* *
27765516 TATTAATGTAAGTTATGT-A-TAAT-ATTA
1 -ATT-ATGTAAGTTATGTAATTTATGAATA
** * *
27765543 ATTAACTAAGTTATGTAATTTCTGTATAA
1 ATTATGTAAGTTATGTAATTTATGAAT-A
*
27765572 TATTAATGTATGTTATGTAATTTATGTATATTA
1 -ATT-ATGTAAGTTATGTAATTTATG-A-A-TA
* * *
27765605 ACTAAT-TAAGTTATGTAATTTTTGTATAA
1 A-TTATGTAAGTTATGTAATTTATGAAT-A
27765634 TATTAATGTAAGTTATGTAAT
1 -ATT-ATGTAAGTTATGTAAT
27765655 ATCTTATATT
Statistics
Matches: 216, Mismatches: 48, Indels: 64
0.66 0.15 0.20
Matches are distributed among these distances:
23 7 0.03
24 5 0.02
25 67 0.31
26 10 0.05
27 17 0.08
28 11 0.05
29 12 0.06
30 12 0.06
31 68 0.31
32 3 0.01
33 3 0.01
34 1 0.00
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (28 bp):
ATTATGTAAGTTATGTAATTTATGAATA
Found at i:27765372 original size:34 final size:34
Alignment explanation
Indices: 27765325--27765410 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
27765315 GCTACGTAAG
** *
27765325 TTATGT-A-TTATGTAAGTTATTTATTATGAAAA
1 TTATGTAAGTTATGTAAGTTATGAATAATGAAAA
* *
27765357 TTATGTAAGTTATGTAATTTATGAATAATTAAAA
1 TTATGTAAGTTATGTAAGTTATGAATAATGAAAA
*
27765391 ATATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTT
27765411 GTAAGTTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 6 0.13
33 1 0.02
34 38 0.84
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGAATAATGAAAA
Found at i:27765426 original size:41 final size:43
Alignment explanation
Indices: 27765357--27765456 Score: 116
Period size: 41 Copynumber: 2.4 Consensus size: 43
27765347 ATTATGAAAA
* **
27765357 TTATGTAAGTTATGTAATTTATGAATAAT-TAAAAATATGTAAG
1 TTATGTAAGTTATGTAAGTTATGAATAATAT-AAAATAACTAAG
* *
27765400 TTATGTAAG-T-TGTAAGTTATGTATAATATTAAATAACTAAG
1 TTATGTAAGTTATGTAAGTTATGAATAATATAAAATAACTAAG
*
27765441 TTATGTAATTTATGTA
1 TTATGTAAGTTATGTA
27765457 TAATATTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 32 0.67
42 3 0.06
43 13 0.27
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGAATAATATAAAATAACTAAG
Found at i:27765475 original size:22 final size:22
Alignment explanation
Indices: 27765443--27765487 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
27765433 TAACTAAGTT
*
27765443 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
27765465 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
27765487 A
1 A
27765488 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:27765475 original size:31 final size:31
Alignment explanation
Indices: 27765402--27765654 Score: 248
Period size: 31 Copynumber: 8.5 Consensus size: 31
27765392 TATGTAAGTT
*
27765402 ATGTAAG-T-TGTAAGTTATGTATAATATTAA
1 ATGTAAGTTATGTAATTTATGTATAATATT-A
*
27765432 ATAACTAAGTTATGTAATTTATGTATAATATTA
1 AT--GTAAGTTATGTAATTTATGTATAATATTA
* *
27765465 ATGTAAGTTATGT-A-TAATAT-TAA-A-TA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
27765491 A-CTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
27765521 ATGTAAGTTATGT-A--TA-ATATTA-ATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* *
27765547 A-CTAAGTTATGTAATTTCTGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* * *
27765577 ATGTATGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATTA
*
27765609 AT-TAAGTTATGTAATTTTTGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
27765639 ATGTAAGTTATGTAAT
1 ATGTAAGTTATGTAAT
27765655 ATCTTATATT
Statistics
Matches: 181, Mismatches: 24, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
25 20 0.11
26 10 0.06
27 9 0.05
28 9 0.05
29 9 0.05
30 17 0.09
31 75 0.41
32 9 0.05
33 4 0.02
34 19 0.10
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:27765478 original size:56 final size:56
Alignment explanation
Indices: 27765410--27765652 Score: 378
Period size: 56 Copynumber: 4.2 Consensus size: 56
27765400 TTATGTAAGT
27765410 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
27765466 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
* *
27765522 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTCTGTATAATATTAA
1 TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
* * * *
27765578 TGTATGTTATGTAATTTATGTATATTAACTAATTAAGTTATGTAATTTTTGTATAATATTAA
1 TGTAAGTTATGT-A--TA---ATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
27765640 TGTAAGTTATGTA
1 TGTAAGTTATGTA
27765653 ATATCTTATA
Statistics
Matches: 174, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
56 121 0.70
57 1 0.01
59 2 0.01
61 1 0.01
62 49 0.28
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (56 bp):
TGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTAA
Found at i:27765531 original size:22 final size:22
Alignment explanation
Indices: 27765499--27765544 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
27765489 TAACTAAGTT
*
27765499 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
27765521 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
27765543 AT
1 AT
27765545 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:27768532 original size:35 final size:36
Alignment explanation
Indices: 27768484--27768553 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
27768474 CAACTTTTAA
* *
27768484 TTTGTAATATTATAATATTT-ATTTTTTTGTATAAAG
1 TTTGAAATATTATAATATTTAATTTTATTG-ATAAAG
27768520 TTTGAAAT-TTATAATATTTAATTTTATTGATAAA
1 TTTGAAATATTATAATATTTAATTTTATTGATAAA
27768554 TAAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (36 bp):
TTTGAAATATTATAATATTTAATTTTATTGATAAAG
Found at i:27769158 original size:4 final size:4
Alignment explanation
Indices: 27769149--27769180 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
27769139 AATTACCTAC
*
27769149 TTAT TTAT TTGT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
27769181 ACCAAGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:27770689 original size:41 final size:40
Alignment explanation
Indices: 27770603--27771003 Score: 223
Period size: 41 Copynumber: 9.8 Consensus size: 40
27770593 TTTTGTTACT
* ** * ** * *
27770603 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTAAATA
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGACAGAGA
* * *
27770643 CATTAGCGGCACTTAGATACAAACGCCGCTGAAGACAAGCGA
1 -ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGAC-AGAGA
* * * * * *
27770685 ATTAGTGGCGCTCAGTTAGAAACACCGCTAAAGATCTGAGA
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGA-CAGAGA
* ** * *
27770726 ATTAGCGGCGTTTTTATACAAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGA-CAGAGA
* * * *
27770767 ATTAGCGGCGCATAGACA-AAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGA-CAGAGA
* * * * *
27770807 ATTAGCGGCGCATAGACAAAAACGCCGCAAAAGATCCGAGA
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGA-CAGAGA
* * * * *
27770848 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGA-CAGAGA
* * * * *
27770889 ATTAGTGACGCTTAG--ACGAAATCGCCGCTAAAGATCGGGGC
1 ATTAGCGGCGCTTAGATAC-AAA-CGCCGCTAAAGA-CAGAGA
** * * * * *
27770930 ATTAGCGGCGCTTTCACAAAAACGCCGCGAAAGATCGGAGC
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGA-CAGAGA
* * *
27770971 ATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTAGATACAAACGCCGCTAAAG
27771004 GTTTAAAAAA
Statistics
Matches: 297, Mismatches: 56, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.00
40 43 0.14
41 246 0.83
42 6 0.02
43 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGATACAAACGCCGCTAAAGACAGAGA
Found at i:27770771 original size:82 final size:81
Alignment explanation
Indices: 27770659--27770893 Score: 213
Period size: 81 Copynumber: 2.9 Consensus size: 81
27770649 CGGCACTTAG
* * * ** * *
27770659 ATACAAACGCCGCTGAAGACAAGCGAATTAGTGGCGC-TCAGTTAGAAACACCGCTAAAGATCTG
1 ATACAAACGCCGCTAAAGACAAGAGAATTAGCGGCGCAT-AGACA-AAACACCGCTAAAGACCCG
27770723 AGAATTAGCGGCGTTTTT
64 AGAATTAGCGGCGTTTTT
** * *
27770741 ATACAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAAAACGCCGCTAAAGACCCGAG
1 ATACAAACGCCGCTAAAGACAAGAGAATTAGCGGCGCATAGACAAAACACCGCTAAAGACCCGAG
* ** **
27770806 CATTAGCGGCGCATAG
66 AATTAGCGGCGTTTTT
* * * * * *
27770822 ACAAAAACGCCGCAAAAGATC-CGAGAATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCG
1 ATACAAACGCCGCTAAAGA-CAAGAGAATTAGCGGCGCATAGAC-AAAACACCGCTAAAGACCCG
*
27770886 AGCATTAG
64 AGAATTAG
27770894 TGACGCTTAG
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
81 66 0.51
82 62 0.48
83 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (81 bp):
ATACAAACGCCGCTAAAGACAAGAGAATTAGCGGCGCATAGACAAAACACCGCTAAAGACCCGAG
AATTAGCGGCGTTTTT
Found at i:27770915 original size:82 final size:82
Alignment explanation
Indices: 27770704--27771003 Score: 368
Period size: 82 Copynumber: 3.7 Consensus size: 82
27770694 GCTCAGTTAG
* * * * ** * * *
27770704 AAACACCGCTAAAGATCTGAGAATTAGCGGCGTTTTTATACAAACGCCGCTAAAGACCCGAGCAT
1 AAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGCAT
27770769 TAGCGGCGCATAGAC-A
66 TAGCGGCGCATAGACAA
* * * *
27770785 AAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAAAAACGCCGCAAAAGATCCGAGAAT
1 AAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGCAT
27770850 TAGCGGCGCATAGACAA
66 TAGCGGCGCATAGACAA
* * * * * *
27770867 AAACGCCGCTAAAGATCCGAGCATTAGTGACGCTTAGACGAAATCGCCGCTAAAGATCGGGGCAT
1 AAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGCAT
* **
27770932 TAGCGGCGCTTTCACAA
66 TAGCGGCGCATAGACAA
* * *
27770949 AAACGCCGCGAAAGATCGGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 AAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
27771004 GTTTAAAAAA
Statistics
Matches: 185, Mismatches: 33, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
81 67 0.36
82 118 0.64
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (82 bp):
AAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCCGAGCAT
TAGCGGCGCATAGACAA
Found at i:27770965 original size:123 final size:122
Alignment explanation
Indices: 27770704--27771003 Score: 375
Period size: 123 Copynumber: 2.5 Consensus size: 122
27770694 GCTCAGTTAG
* * * * ** * *
27770704 AAACACCGCTAAAGATCTGAGAATTAGCGGCGTTTTTATACAAACGCCGCTAAAGACCCGAGCAT
1 AAACGCCGCAAAAGATCCGAGAATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACCCGAGCAT
* *
27770769 TAGCGGCGCATAGACAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAA
66 TAGCGACGCATAGACAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATACACAA
* * *
27770826 AAACGCCGCAAAAGATCCGAGAATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGCAT
1 AAACGCCGCAAAAGATCCGAGAATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACCCGAGCAT
* * * * * * * *
27770891 TAGTGACGCTTAGACGAAATCGCCGCTAAAGATCGGGGCATTAGCGGCGCTTTCACAA
66 TAGCGACGCATAGAC-AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATACACAA
* * *
27770949 AAACGCCGCGAAAGATCGGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 AAACGCCGCAAAAGATCCGAGAATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
27771004 GTTTAAAAAA
Statistics
Matches: 152, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
122 67 0.44
123 85 0.56
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (122 bp):
AAACGCCGCAAAAGATCCGAGAATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACCCGAGCAT
TAGCGACGCATAGACAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCATACACAA
Found at i:27772058 original size:17 final size:18
Alignment explanation
Indices: 27772016--27772061 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
27772006 CTCCAACTTA
*
27772016 ATTTAACTTCAATTAAGTT
1 ATTTAAATT-AATTAAGTT
27772035 ATTTAAATTAATTAA-TT
1 ATTTAAATTAATTAAGTT
*
27772052 TTTTAAATTA
1 ATTTAAATTA
27772062 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 6 0.24
19 8 0.32
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTTAAATTAATTAAGTT
Found at i:27772357 original size:28 final size:28
Alignment explanation
Indices: 27772300--27772353 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
27772290 AAGGTTTGGG
* *
27772300 TTCAGAATTTAAGGTTTAGGGTTTTAGA
1 TTCAGAATTTAAGGTTTAGGGTGTAAGA
*
27772328 TTCAGAGTTTAAGGTTTA-GGTGTAAG
1 TTCAGAATTTAAGGTTTAGGGTGTAAG
27772354 GATTTGAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.41
Consensus pattern (28 bp):
TTCAGAATTTAAGGTTTAGGGTGTAAGA
Found at i:27777471 original size:73 final size:73
Alignment explanation
Indices: 27777386--27777591 Score: 285
Period size: 73 Copynumber: 2.8 Consensus size: 73
27777376 AAAAGTTGAG
*
27777386 ATAGACC-CGTCTAAGGCAACCTTTAAAAAAGGTT-AGGATAGA-CCTGTCTAAGACAACCTTAA
1 ATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGA-GATAGAGCC-GTCTAAGACAACCTTAA
27777448 AAAGGTCAGC
64 AAAGGTCAGC
* *
27777458 ATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGAGATAGAGCCGTCTATGGCAACCTTAAAA
1 ATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGAGATAGAGCCGTCTAAGACAACCTTAAAA
** *
27777523 AGGTTGGG
66 AGGTCAGC
* * *
27777531 ATAGACCTTGTCTAAGGCAACCTTT-AAAAAGGTTGAGATACAGCCATCTAATACAACCTTA
1 ATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGAGATAGAGCCGTCTAAGACAACCTTA
27777592 GTAGAAGATC
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
72 38 0.32
73 79 0.66
74 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (73 bp):
ATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGAGATAGAGCCGTCTAAGACAACCTTAAAA
AGGTCAGC
Found at i:27777581 original size:36 final size:37
Alignment explanation
Indices: 27777367--27777570 Score: 253
Period size: 37 Copynumber: 5.6 Consensus size: 37
27777357 GTCAAGGTTG
* *
27777367 ACCTTTAAAAAAAGTTGAGATAGACCCGTCTAAGGCA
1 ACCTTTAAAAAAGGTTGAGATAGACCTGTCTAAGGCA
*
27777404 ACCTTTAAAAAAGGTT-AGGATAGACCTGTCTAAGACA
1 ACCTTTAAAAAAGGTTGA-GATAGACCTGTCTAAGGCA
*
27777441 ACC-TT-AAAAAGG-TCAGCATAGACCTTGTCTAAGGCA
1 ACCTTTAAAAAAGGTTGAG-ATAGACC-TGTCTAAGGCA
*
27777477 ACCTTTAAAAAAGGTTGAGATAGAGCC-GTCTATGGCA
1 ACCTTTAAAAAAGGTTGAGATAGA-CCTGTCTAAGGCA
*
27777514 ACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
1 ACCTTTAAAAAAGGTTGAGATAGACC-TGTCTAAGGCA
27777550 ACCTTT-AAAAAGGTTGAGATA
1 ACCTTTAAAAAAGGTTGAGATA
27777571 CAGCCATCTA
Statistics
Matches: 147, Mismatches: 9, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
34 4 0.03
35 31 0.21
36 30 0.20
37 65 0.44
38 12 0.08
39 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (37 bp):
ACCTTTAAAAAAGGTTGAGATAGACCTGTCTAAGGCA
Found at i:27778505 original size:23 final size:23
Alignment explanation
Indices: 27778479--27778566 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
27778469 TTAATGTTTA
*
27778479 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-TGAACATTAAT
* * *
27778502 CGAACATATTCACGAACATTAAA
1 CGAACATGTTCATGAACATTAAT
27778525 CGAACATGTTCATGAACATATAAT
1 CGAACATGTTCATGAACAT-TAAT
* *
27778549 TGAACATGTTCACGAACA
1 CGAACATGTTCATGAACA
27778567 ATGTTAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.59
24 19 0.35
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.28
Consensus pattern (23 bp):
CGAACATGTTCATGAACATTAAT
Found at i:27787638 original size:43 final size:43
Alignment explanation
Indices: 27787482--27787639 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
27787472 TATGAGTTAT
27787482 CATGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATT-AGA-TTA
* ** * * * *
27787526 CGTGTAAGACCATTTTTGAGACATCGGCATCG-TA-TACGATT-
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTA-GATTA
* * * *
27787567 CGTGTAAGACC-CTGTCTGAGAAAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTG-GGACGTTGGCATCGATATTAGATTA
27787610 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
27787640 TGTAAGAGCT
Statistics
Matches: 86, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
41 21 0.24
42 13 0.15
43 26 0.30
44 26 0.30
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTAGATTA
Found at i:27802581 original size:16 final size:18
Alignment explanation
Indices: 27802560--27802592 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27802550 GAAACAAAAA
27802560 TATCAT-TT-TTATTTTT
1 TATCATATTATTATTTTT
27802576 TATCATATTATTATTTT
1 TATCATATTATTATTTT
27802593 GGTGTCGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (18 bp):
TATCATATTATTATTTTT
Found at i:27805082 original size:24 final size:22
Alignment explanation
Indices: 27805026--27805084 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
27805016 AATAAATAAT
*
27805026 TTAAAATGATTATAAAAAATTTAA
1 TTAAAAT-ATT-TAAAAAATTCAA
27805050 TTAAAATATTTAAAAAATTACAA
1 TTAAAATATTTAAAAAATT-CAA
*
27805073 TCTAACATATTT
1 T-TAAAATATTT
27805085 TAATAATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 9 0.29
23 6 0.19
24 16 0.52
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TTAAAATATTTAAAAAATTCAA
Found at i:27810234 original size:20 final size:20
Alignment explanation
Indices: 27810209--27810253 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27810199 CAATTTTTTT
* *
27810209 AAAAAATTCATTAAGAATCC
1 AAAAAATTAATTAAAAATCC
*
27810229 AAAAAATTAATTAAAAATCT
1 AAAAAATTAATTAAAAATCC
27810249 AAAAA
1 AAAAA
27810254 GCCCCCTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATTAATTAAAAATCC
Found at i:27810394 original size:19 final size:18
Alignment explanation
Indices: 27810362--27810397 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27810352 ATAAGTATGT
27810362 AAAACTTCAAAAATTTTA
1 AAAACTTCAAAAATTTTA
*
27810380 AAAACTTTCATAAATTTT
1 AAAAC-TTCAAAAATTTT
27810398 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAACTTCAAAAATTTTA
Found at i:27810552 original size:24 final size:23
Alignment explanation
Indices: 27810504--27810556 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
27810494 ATTTTAGGGG
*
27810504 TTTTTTTTGCATTTTTAAATGAT
1 TTTTTTTTGCATTTTTAAAGGAT
* *
27810527 TTTTATTTTGTATTTTT-AAGGAA
1 TTTT-TTTTGCATTTTTAAAGGAT
27810550 TTTTTTT
1 TTTTTTT
27810557 AGTAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 3 0.12
23 12 0.46
24 11 0.42
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTTTTTTGCATTTTTAAAGGAT
Found at i:27812626 original size:49 final size:49
Alignment explanation
Indices: 27812566--27812723 Score: 192
Period size: 49 Copynumber: 3.2 Consensus size: 49
27812556 CATATCGGAC
* *
27812566 ATGGTCTTACATGGGATGTTTCCTGCACTGCCAATGCCATATCCTAGAT
1 ATGGTCTTACATGGGATGTTTCCTGCACTGCCAAAGCCATATCCCAGAT
*
27812615 ATGGTCTTACATGGGATGTTTCTTGCACTGCCAAAGCCATATCCCAGAT
1 ATGGTCTTACATGGGATGTTTCCTGCACTGCCAAAGCCATATCCCAGAT
* * * ** * * *
27812664 ATAGTCTTACATGGGA-GTTCTCATATCGGTGCCCAAGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATGTT-TCCT-GCACTGCCAAAGCCATATCCCAGAT
27812714 ATGGTCTTAC
1 ATGGTCTTAC
27812724 GGGGGACCTC
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
48 3 0.03
49 64 0.67
50 28 0.29
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (49 bp):
ATGGTCTTACATGGGATGTTTCCTGCACTGCCAAAGCCATATCCCAGAT
Found at i:27812721 original size:50 final size:49
Alignment explanation
Indices: 27812563--27812779 Score: 172
Period size: 49 Copynumber: 4.4 Consensus size: 49
27812553 TCTCATATCG
* * * *
27812563 GACATGGTCTTACATGGGATGTT-TCCTGCACTGCCAATGCCATATCCTA
1 GACATGGTCTTACATGGGA-GTTCTCATTCACTGCCAACGCCATATCCCA
* *
27812612 GATATGGTCTTACATGGGATGTT-TC-TTGCACTGCCAAAGCCATATCCCA
1 GACATGGTCTTACATGGGA-GTTCTCATT-CACTGCCAACGCCATATCCCA
* * ** *
27812661 GATATAGTCTTACATGGGAGTTCTCATATCGGTGCCCAA-GCCATGTCCCA
1 GACATGGTCTTACATGGGAGTTCTCAT-TCACTG-CCAACGCCATATCCCA
** ** ** * * *
27812711 GACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACACCATGTCCTA
1 GACATGGTCTTACATGGGAGTTCTCAT-TCACTGCCAACGCCATATCCCA
27812761 GACATGGTCTTACATGGGA
1 GACATGGTCTTACATGGGA
27812780 CCTCTCATAA
Statistics
Matches: 143, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
48 4 0.03
49 67 0.47
50 67 0.47
51 5 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (49 bp):
GACATGGTCTTACATGGGAGTTCTCATTCACTGCCAACGCCATATCCCA
Found at i:27812780 original size:50 final size:50
Alignment explanation
Indices: 27812645--27812788 Score: 173
Period size: 50 Copynumber: 2.9 Consensus size: 50
27812635 TCTTGCACTG
* * * **
27812645 CCAAAGCCATATCCCAGATATAGTCTTACATGGGAGTTCTCATATCGGTGC
1 CCAAA-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
* ** *
27812696 CCAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG-
1 CCAAACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
*
27812745 CCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATA
1 CCAA-ACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
27812789 ATCTCAATGA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 4 0.05
50 70 0.90
51 4 0.05
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
CCAAACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
Found at i:27813869 original size:24 final size:24
Alignment explanation
Indices: 27813837--27813927 Score: 128
Period size: 25 Copynumber: 3.7 Consensus size: 24
27813827 GACACCAACA
*
27813837 TGCTAAAATCAGAGAGCACTGACG
1 TGCTAAAATCAGAGAGCACTAACG
*
27813861 TGCTAAAATCAGAGAGCACCAACG
1 TGCTAAAATCAGAGAGCACTAACG
* *
27813885 TGCTAGTATTCAGAGAGCACTAACG
1 TGCTA-AAATCAGAGAGCACTAACG
27813910 TGCTAATAATCAGAGAGC
1 TGCTAA-AATCAGAGAGC
27813928 GCGCTAAAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
24 27 0.47
25 31 0.53
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
TGCTAAAATCAGAGAGCACTAACG
Found at i:27815017 original size:16 final size:16
Alignment explanation
Indices: 27814996--27815032 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
27814986 GTTTTATGTA
27814996 TATAATAATATAATAT
1 TATAATAATATAATAT
27815012 TATAATAATATAATAT
1 TATAATAATATAATAT
*
27815028 AATAA
1 TATAA
27815033 CTTACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:27815032 original size:8 final size:8
Alignment explanation
Indices: 27814995--27815026 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
27814985 TGTTTTATGT
27814995 ATATAATA
1 ATATAATA
27815003 ATATAATA
1 ATATAATA
*
27815011 TTATAATA
1 ATATAATA
27815019 ATATAATA
1 ATATAATA
27815027 TAATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:27815032 original size:13 final size:13
Alignment explanation
Indices: 27814995--27815075 Score: 53
Period size: 13 Copynumber: 6.1 Consensus size: 13
27814985 TGTTTTATGT
27814995 ATATAATAATATAA
1 ATATAATAATAT-A
27815009 TATTATAATAATATA
1 -A-TATAATAATATA
27815024 ATATAATAACT-TA
1 ATATAATAA-TATA
* *
27815037 CT-TATTAAT-TA
1 ATATAATAATATA
*
27815048 AT-TAAATAACATA
1 ATAT-AATAATATA
27815061 ATATAATATATATA
1 ATATAATA-ATATA
27815075 A
1 A
27815076 CTTAAATTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
11 5 0.09
12 9 0.17
13 19 0.35
14 8 0.15
15 2 0.04
16 11 0.20
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:27817921 original size:23 final size:23
Alignment explanation
Indices: 27817895--27817991 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
27817885 ATAAGTGCCA
27817895 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27817918 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27817941 CACTG--ATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27817962 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27817985 CACTGAT
1 CACTGAT
27817992 CAATAACACT
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
21 21 0.30
23 50 0.70
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27817960 original size:44 final size:44
Alignment explanation
Indices: 27817902--27817991 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
27817892 CCACACTGAT
*
27817902 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
27817946 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
27817990 AT
1 AT
27817992 CAATAACACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (44 bp):
ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
Found at i:27825284 original size:23 final size:23
Alignment explanation
Indices: 27825258--27825354 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
27825248 ATAAGTGCCA
27825258 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27825281 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27825304 CACTG--ATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27825325 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27825348 CACTGAT
1 CACTGAT
27825355 CAATAACACT
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
21 21 0.30
23 50 0.70
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27825323 original size:44 final size:44
Alignment explanation
Indices: 27825265--27825354 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
27825255 CCACACTGAT
*
27825265 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
27825309 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
27825353 AT
1 AT
27825355 CAATAACACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (44 bp):
ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
Found at i:27827012 original size:16 final size:16
Alignment explanation
Indices: 27826993--27827027 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27826983 ATATGTAGGT
*
27826993 ATATAAAAATTATAAA
1 ATATAAAAATAATAAA
*
27827009 ATATGAAAATAATAAA
1 ATATAAAAATAATAAA
27827025 ATA
1 ATA
27827028 CATATAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATAAA
Found at i:27827210 original size:2 final size:2
Alignment explanation
Indices: 27827205--27827262 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
27827195 GTTTATAAAG
**
27827205 AT AT AT AT GC AT AT AT A- AT AT AT AT AT AT AT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
27827244 AG AT AT AA AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
27827263 AGTAGTTACA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (2 bp):
AT
Found at i:27827229 original size:19 final size:19
Alignment explanation
Indices: 27827205--27827243 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27827195 GTTTATAAAG
*
27827205 ATATATATGCATATATAAT
1 ATATATATACATATATAAT
*
27827224 ATATATATATATATATAAT
1 ATATATATACATATATAAT
27827243 A
1 A
27827244 AGATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATATATACATATATAAT
Found at i:27827344 original size:17 final size:17
Alignment explanation
Indices: 27827322--27827368 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
27827312 TAAATATGAA
27827322 ATAATAATATAACAATG
1 ATAATAATATAACAATG
*
27827339 ATAAT-ATAAAACTAATG
1 ATAATAATATAAC-AATG
27827356 AT-ATAATATAACA
1 ATAATAATATAACA
27827369 GTAGTAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (17 bp):
ATAATAATATAACAATG
Found at i:27852593 original size:21 final size:21
Alignment explanation
Indices: 27852564--27852616 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
27852554 TACGGTGGTA
*
27852564 TTAAAGTTTCGTTAAAAAATT
1 TTAACGTTTCGTTAAAAAATT
* *
27852585 TTAACGTTTCGTTGAAAATTT
1 TTAACGTTTCGTTAAAAAATT
*
27852606 TTAACATTTCG
1 TTAACGTTTCG
27852617 ATAGTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
TTAACGTTTCGTTAAAAAATT
Found at i:27878648 original size:6 final size:6
Alignment explanation
Indices: 27878639--27878666 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27878629 AAACATGGCA
27878639 ATGGTG ATGGTG ATGGTG ATGGTG ATGG
1 ATGGTG ATGGTG ATGGTG ATGGTG ATGG
27878667 ATCAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
ATGGTG
Found at i:27889574 original size:24 final size:21
Alignment explanation
Indices: 27889522--27889575 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 21
27889512 CATTGACTTA
27889522 TTTTTTTAAAATTAATTATTT
1 TTTTTTTAAAATTAATTATTT
*
27889543 TTATTTTTAAGAATTTAGTTATTT
1 TT-TTTTTAA-AA-TTAATTATTT
27889567 TATTTTTTA
1 T-TTTTTTA
27889576 CATTTAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.07
22 7 0.25
23 2 0.07
24 16 0.57
25 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTTTAAAATTAATTATTT
Found at i:27889580 original size:22 final size:23
Alignment explanation
Indices: 27889523--27889582 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
27889513 ATTGACTTAT
*
27889523 TTTTTTAAAATTAATTATTTTTA
1 TTTTTTAAATTTAATTATTTTTA
* *
27889546 TTTTTAAGAATTTAGTTA-TTTTA
1 TTTTTTA-AATTTAATTATTTTTA
*
27889569 TTTTTTACATTTAA
1 TTTTTTAAATTTAA
27889583 AAGTTTCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 5 0.17
23 17 0.57
24 8 0.27
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (23 bp):
TTTTTTAAATTTAATTATTTTTA
Found at i:27890409 original size:25 final size:26
Alignment explanation
Indices: 27890373--27890426 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
27890363 AAATTCTAAA
*
27890373 TATTATAGAAT-ATTTTTATAATTTT
1 TATTATAGAATAATTTTTATAATCTT
27890398 TATTATTA-AATAATTTTTATAATCTT
1 TATTA-TAGAATAATTTTTATAATCTT
27890424 TAT
1 TAT
27890427 GCTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TATTATAGAATAATTTTTATAATCTT
Found at i:27891915 original size:21 final size:20
Alignment explanation
Indices: 27891888--27891943 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 20
27891878 TGGATCAACT
27891888 TTTACGAGCTTCTGTTCAGC
1 TTTACGAGCTTCTGTTCAGC
27891908 TCTTACGAGCTTCTGTTCAGC
1 T-TTACGAGCTTCTGTTCAGC
*
27891929 TTT-CAAGCTTCTGTT
1 TTTACGAGCTTCTGTT
27891944 GGCGTATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 11 0.32
20 3 0.09
21 20 0.59
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (20 bp):
TTTACGAGCTTCTGTTCAGC
Found at i:27897740 original size:3 final size:3
Alignment explanation
Indices: 27897732--27897779 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
27897722 GTGTTTAAGT
* *
27897732 ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA GTA TTA TATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
27897776 ATA A
1 ATA A
27897780 CAAAAATAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:27900499 original size:26 final size:26
Alignment explanation
Indices: 27900470--27900521 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
27900460 TAGTGCTTTG
* *
27900470 TGGTGTGCAACCATTAGAGGTGCAAA
1 TGGTATGCAACCATTAGAAGTGCAAA
* *
27900496 TGGTATGTAACCATTGGAAGTGCAAA
1 TGGTATGCAACCATTAGAAGTGCAAA
27900522 AGGTTGCTCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (26 bp):
TGGTATGCAACCATTAGAAGTGCAAA
Found at i:27907283 original size:21 final size:21
Alignment explanation
Indices: 27907257--27907300 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
27907247 CAGACTTTTG
*
27907257 ATGCTTTAGTATTTGTGGGTA
1 ATGCTTTAGCATTTGTGGGTA
27907278 ATGCTTTAGCATTTGTGGGTA
1 ATGCTTTAGCATTTGTGGGTA
27907299 AT
1 AT
27907301 CAGGCACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.45
Consensus pattern (21 bp):
ATGCTTTAGCATTTGTGGGTA
Found at i:27907909 original size:34 final size:33
Alignment explanation
Indices: 27907825--27907910 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 33
27907815 TAGTGTTTAG
*
27907825 AGTTTTTTAAAAAAA-AGAATTAAATTAGGTTTT
1 AGTTTTTTAAAAAAATA-AATTAAATTAGGGTTT
*** *
27907858 AGGGGGTTTAAATAAATAAATTAAATTAGGGTTT
1 A-GTTTTTTAAAAAAATAAATTAAATTAGGGTTT
27907892 AGTTTTTTGAAAAAAATAA
1 AGTTTTTT-AAAAAAATAA
27907911 TTTTGTGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
33 5 0.12
34 35 0.85
35 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.38
Consensus pattern (33 bp):
AGTTTTTTAAAAAAATAAATTAAATTAGGGTTT
Found at i:27908310 original size:113 final size:118
Alignment explanation
Indices: 27907989--27908588 Score: 637
Period size: 126 Copynumber: 5.0 Consensus size: 118
27907979 AATTTTGTTT
* * * ** * * *
27907989 TTTTTCTATAGTAGTTTCTGAAAAATTAATTTTGAGAAGACAGTTTTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
* *
27908054 ACGCTTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCT--C-C---G--ACTC
*
27908115 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGACGA---TTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
* * *
27908177 ACGGTTCAAGCATGATGCACTGTCAGTAAAATTA-TCGAAAAAAGCT-C-ACT-
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-GAAAAAAGCTCCGACTC
*
27908227 TTTTTCTATAGTAGTT-CTGAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
* *
27908290 ATGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCT-CC-----GA--CTC
* * * *
27908351 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
* *
27908416 ACGCTTCAAGCAAGATGCACTATCAGCAAAATTACTGAAAAAAAGCTTCCACGTGGACGTTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AAAAAAGC-T-C-C---GAC--TC
*
27908478 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCT--AAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
* * * *
27908541 ACGCTTCAAGCAGGATGCATTATCAGCAAAACTACTAAAAAAAGCTCC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCC
27908589 CACGTGGACG
Statistics
Matches: 414, Mismatches: 37, Indels: 51
0.82 0.07 0.10
Matches are distributed among these distances:
111 22 0.05
112 15 0.04
113 58 0.14
114 6 0.01
115 1 0.00
119 1 0.00
121 2 0.00
122 2 0.00
123 61 0.15
124 23 0.06
125 77 0.19
126 84 0.20
127 58 0.14
128 3 0.01
129 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (118 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCGACTC
Found at i:27908318 original size:236 final size:243
Alignment explanation
Indices: 27907988--27908617 Score: 882
Period size: 251 Copynumber: 2.6 Consensus size: 243
27907978 GAATTTTGTT
* * * *
27907988 TTTTTTCTATAGTAGTTTCTGAAAAATTAATTTTGAGAAGACAGTTTTGAAAAGATAATGTCAAA
1 TTTTTTCTATAGTAG-TTCTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAA-ATAGTGTCAAA
* *
27908053 AACGCTTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTT
64 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
*
27908118 TTCTACAGTAGTTCCTGAAAAAATAATTTT-G-AGACGATTCTGAAAAAATAGTGTCAAAAACGG
129 TTCTACAGTAGTTCCTGAAAAAATAATTTTAGAAGACGATTCTGAAAAAATAGTGTCAAAAACGC
* * *
27908181 TTCAAGCATGATGCACTGTCAGTAAAATTA-TCG-AAAAAAGC-T-C-AC-
194 TTCAAGCAAGATGCACTATCAGCAAAATTACT-GAAAAAAAGCTTCCGACG
*
27908226 TTTTTTCTATAGTAGTTCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAATAGTGTCAAAAA
1 TTTTTTCTATAGTAGTTCTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAAATAGTGTCAAAAA
* * * *
27908291 TGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTT
66 CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTT
* * * *
27908356 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTTAAAAACGCT
131 CTACAGTAGTTCCTGAAAAAATAATTTT-AGAAGACGATTCTGAAAAAATAGTGTCAAAAACGCT
27908421 TCAAGCAAGATGCACTATCAGCAAAATTACTGAAAAAAAGCTTCCACGTGGACG
195 TCAAGCAAGATGCACTATCAGCAAAATTACTGAAAAAAAGCTT-C-C---GACG
*
27908475 TTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCT-AAAAATAGTGTCAA
1 -T-TTTTTCTATAGTAGTT-CTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAAATAGTGTCAA
* * *
27908539 AAACGCTTCAAGCAGGATGCATTATCAGCAAAACTACTAAAAAAAGCTCCCACGTGGACGCTCTT
63 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
27908604 TTTCTACAGTAGTT
128 TTTCTACAGTAGTT
27908618 TCTGCTTGGC
Statistics
Matches: 347, Mismatches: 28, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
236 98 0.28
237 33 0.10
238 16 0.05
239 56 0.16
240 9 0.03
241 1 0.00
244 1 0.00
248 2 0.01
250 1 0.00
251 101 0.29
252 29 0.08
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (243 bp):
TTTTTTCTATAGTAGTTCTGAAAAAATAATTTTGAGAAGATAGTTCTGAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTT
CTACAGTAGTTCCTGAAAAAATAATTTTAGAAGACGATTCTGAAAAAATAGTGTCAAAAACGCTT
CAAGCAAGATGCACTATCAGCAAAATTACTGAAAAAAAGCTTCCGACG
Found at i:27908517 original size:127 final size:126
Alignment explanation
Indices: 27908227--27908617 Score: 610
Period size: 125 Copynumber: 3.1 Consensus size: 126
27908217 AAAGCTCACT
*
27908227 TTTTTCTATAGTAGTT-CTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAATAGTGTCAAAAA
* * * *
27908291 TGCTTCAAACAGGATGCACTGTCAGCAAAATTACTG-AAAAAAGCTCCCATGTGGACGCTC
66 CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
* * * *
27908351 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAATAGTGTCAAAA
* * *
27908416 ACGCTTCAAGCAAGATGCACTATCAGCAAAATTACTGAAAAAAAGCTTCCACGTGGACGTTC
65 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
*
27908478 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCT-AAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAATAGTGTCAAAAA
* *
27908542 CGCTTCAAGCAGGATGCATTATCAGCAAAACTACT-AAAAAAAGCTCCCACGTGGACGCTC
66 CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
27908602 TTTTTCTACAGTAGTT
1 TTTTTCTACAGTAGTT
27908618 TCTGCTTGGC
Statistics
Matches: 242, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
124 54 0.22
125 76 0.31
126 48 0.20
127 64 0.26
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTC
Found at i:27911005 original size:30 final size:30
Alignment explanation
Indices: 27910959--27911016 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27910949 TCCGAGCTTT
*
27910959 GGGGTAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * *
27910989 GGGGCAAAATTGTAAATTTTCAAAAGTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTT
27911017 CGAGTCAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:27911424 original size:33 final size:33
Alignment explanation
Indices: 27911355--27911586 Score: 163
Period size: 33 Copynumber: 6.6 Consensus size: 33
27911345 ATATAAAGGG
*
27911355 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
27911382 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
27911415 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGA-TTCCCCGAATC-----AT-TG---GT
**
27911458 GGTTGCTAAGTGCCAATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
27911491 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----AT-TG---GT
27911534 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
27911567 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
27911587 ACCGTATCTT
Statistics
Matches: 164, Mismatches: 13, Indels: 50
0.72 0.06 0.22
Matches are distributed among these distances:
27 22 0.13
31 2 0.01
32 2 0.01
33 57 0.35
34 14 0.09
36 4 0.02
37 4 0.02
39 4 0.02
40 4 0.02
42 14 0.09
43 37 0.23
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:27911504 original size:76 final size:76
Alignment explanation
Indices: 27911378--27911632 Score: 456
Period size: 76 Copynumber: 3.4 Consensus size: 76
27911368 TGATTCCCCC
*
27911378 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
27911443 TTTGAATGTGA
66 TTTGAATGTGA
** *
27911454 AAGGGGTTGCTAAGTGCCAATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
27911519 TTTGAATGTGA
66 TTTGAATGTGA
27911530 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
27911595 TTTGATTGTGA
66 TTTGAATGTGA
*
27911606 AAGGGGTTGCTATGTGCTGATTCCCCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCG
27911633 TATTACTGAA
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 170 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTTGAATGTGA
Found at i:27911552 original size:43 final size:43
Alignment explanation
Indices: 27911491--27911629 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 43
27911481 AATCATTGGT
27911491 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
*
27911534 GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGTGAAAGG
* *
27911567 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
*
27911610 GGTTGCTATGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
27911630 CCGTATTACT
Statistics
Matches: 79, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
33 21 0.27
34 5 0.06
36 2 0.03
37 2 0.03
39 1 0.01
40 2 0.03
42 5 0.06
43 41 0.52
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
Found at i:27911664 original size:41 final size:43
Alignment explanation
Indices: 27911564--27911673 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
27911554 CCGAATCATT
* * *
27911564 GGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAA
1 GGTGGTTGCTAAGTGCTGATTCCACCGTATCTCTGAATAT-AAA
*
27911608 GG-GGTTGCTATGTGCTGATTCC-CCGTAT-TACTGAATAT-AA
1 GGTGGTTGCTAAGTGCTGATTCCACCGTATCT-CTGAATATAAA
* *
27911648 GGTGGTTGCTAAGTGCTAAATCCACC
1 GGTGGTTGCTAAGTGCTGATTCCACC
27911674 AAGTAAAGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
40 4 0.07
41 18 0.32
42 13 0.23
43 19 0.34
44 2 0.04
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (43 bp):
GGTGGTTGCTAAGTGCTGATTCCACCGTATCTCTGAATATAAA
Found at i:27915276 original size:30 final size:30
Alignment explanation
Indices: 27915240--27915299 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
27915230 AGAGTCATCA
*
27915240 GGAAAAGAGATGCATTGGGCCATGCACTCC
1 GGAAAAGAGATGCATAGGGCCATGCACTCC
27915270 GGAAAAGAGATGCATAGGGCCATGCACTCC
1 GGAAAAGAGATGCATAGGGCCATGCACTCC
27915300 AACCTGGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.30, T:0.15
Consensus pattern (30 bp):
GGAAAAGAGATGCATAGGGCCATGCACTCC
Found at i:27915348 original size:18 final size:18
Alignment explanation
Indices: 27915322--27915365 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27915312 GACTTGAAAA
* **
27915322 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGACT
*
27915340 AGGATACATATAAGGACT
1 AGGATACATAAAAGGACT
27915358 AGGATACA
1 AGGATACA
27915366 CATTTGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (18 bp):
AGGATACATAAAAGGACT
Found at i:27916889 original size:16 final size:18
Alignment explanation
Indices: 27916870--27916914 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
27916860 AAAATTAATT
*
27916870 AAAATTACATAA-A-TAA
1 AAAATTAAATAATATTAA
27916886 AAAATTAAATAATATTAA
1 AAAATTAAATAATATTAA
27916904 AAAATTGAAAT
1 AAAATT-AAAT
27916915 TAACCCTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 11 0.44
17 1 0.04
18 9 0.36
19 4 0.16
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATTAAATAATATTAA
Found at i:27924987 original size:15 final size:16
Alignment explanation
Indices: 27924967--27924996 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27924957 TTGCATGAAC
27924967 TAAATTAAA-AAAAAT
1 TAAATTAAACAAAAAT
27924982 TAAATTAAACAAAAA
1 TAAATTAAACAAAAA
27924997 AGGCAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAATTAAACAAAAAT
Found at i:27930339 original size:16 final size:16
Alignment explanation
Indices: 27930308--27930348 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
27930298 TGCTATTTGC
*
27930308 TTGAAATAAATTAAAAA
1 TTGAAA-AAATAAAAAA
27930325 TTGAAAAAATAAAAAA
1 TTGAAAAAATAAAAAA
*
27930341 TAGAAAAA
1 TTGAAAAA
27930349 TTAACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (16 bp):
TTGAAAAAATAAAAAA
Found at i:27935230 original size:9 final size:9
Alignment explanation
Indices: 27935218--27935285 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
27935208 AAATATATTT
27935218 ATTTTTTAA
1 ATTTTTTAA
27935227 ATTTTTTAA
1 ATTTTTTAA
*
27935236 A-TTTTAAA
1 ATTTTTTAA
27935244 ATATTTTTAAAA
1 AT-TTTTT--AA
*
27935256 TACTTTTTTTA
1 -A-TTTTTTAA
27935267 ATTTTTT-A
1 ATTTTTTAA
*
27935275 ATTTTTAAA
1 ATTTTTTAA
27935284 AT
1 AT
27935286 AAAATTTTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
8 14 0.29
9 19 0.40
10 5 0.10
11 1 0.02
12 2 0.04
13 6 0.12
14 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:27935250 original size:18 final size:17
Alignment explanation
Indices: 27935220--27935254 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27935210 ATATATTTAT
*
27935220 TTTTTAAATTTTTTAAA
1 TTTTAAAATTTTTTAAA
27935237 TTTTAAAATATTTTTAAA
1 TTTTAAAAT-TTTTTAAA
27935255 ATACTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAAAATTTTTTAAA
Found at i:27937279 original size:10 final size:10
Alignment explanation
Indices: 27937194--27937376 Score: 75
Period size: 10 Copynumber: 19.0 Consensus size: 10
27937184 AATCTTTTTC
27937194 TTATAAAAAA
1 TTATAAAAAA
* *
27937204 TAATTAAAAA
1 TTATAAAAAA
*
27937214 TCATAAAAAA
1 TTATAAAAAA
27937224 --ATAAAAAA
1 TTATAAAAAA
27937232 -TAT-AAAAA
1 TTATAAAAAA
* *
27937240 TTGT--TAAA
1 TTATAAAAAA
*
27937248 -TATTAAAAA
1 TTATAAAAAA
* *
27937257 -TATGAAAAT
1 TTATAAAAAA
27937266 TTATAAAAAA
1 TTATAAAAAA
27937276 TTATAAAACATA
1 TTATAAAA-A-A
**
27937288 TT-TAAAATT
1 TTATAAAAAA
27937297 TTATAAAAAAA
1 TTAT-AAAAAA
*
27937308 TTAT-TAAAA
1 TTATAAAAAA
*
27937317 TTCTATAAAAA
1 TTATA-AAAAA
*
27937328 TCAT-AAAAA
1 TTATAAAAAA
*
27937337 GTATAAAAAA
1 TTATAAAAAA
* * *
27937347 GTAT-TAAGA
1 TTATAAAAAA
*
27937356 TTGATACAAAA
1 TT-ATAAAAAA
27937367 TTATAAAAAA
1 TTATAAAAAA
27937377 AAAATCACAA
Statistics
Matches: 130, Mismatches: 29, Indels: 28
0.70 0.16 0.15
Matches are distributed among these distances:
7 2 0.02
8 16 0.12
9 34 0.26
10 50 0.38
11 25 0.19
12 3 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:27937283 original size:19 final size:19
Alignment explanation
Indices: 27937194--27937375 Score: 88
Period size: 20 Copynumber: 9.5 Consensus size: 19
27937184 AATCTTTTTC
* *
27937194 TTATAAAAAATAATTAAAAA
1 TTAT-AAAAATTATAAAAAA
* *
27937214 TCATAAAAA-AATAAAAAA
1 TTATAAAAATTATAAAAAA
* * *
27937232 -TATAAAAATTGTTAAATA
1 TTATAAAAATTATAAAAAA
* *
27937250 -T-TAAAAA-TATGAAAAT
1 TTATAAAAATTATAAAAAA
27937266 TTATAAAAAATTATAAAACATA
1 TTAT-AAAAATTATAAAA-A-A
*
27937288 TT-TAAAATTTTATAAAAAAA
1 TTATAAAA-ATTAT-AAAAAA
* *
27937308 TTATTAAAATTCTATAAAAA
1 TTATAAAAATTATA-AAAAA
* *
27937328 TCATAAAAAGTATAAAAAA
1 TTATAAAAATTATAAAAAA
* * * *
27937347 GTATTAAGATTGATACAAAA
1 TTATAAAAATT-ATAAAAAA
27937367 TTATAAAAA
1 TTATAAAAA
27937376 AAAAATCACA
Statistics
Matches: 120, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
16 5 0.04
17 14 0.12
18 15 0.12
19 22 0.18
20 47 0.39
21 11 0.09
22 6 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
TTATAAAAATTATAAAAAA
Found at i:27937667 original size:25 final size:26
Alignment explanation
Indices: 27937612--27937668 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
27937602 TATAAACTTA
*
27937612 TTAAAATTATAAAAAATTTAAATATT
1 TTAAAATTATAAAAAATATAAATATT
*
27937638 ATAAAA-TATAAAAAATAT-AATAATT
1 TTAAAATTATAAAAAATATAAAT-ATT
27937663 TTAAAA
1 TTAAAA
27937669 AAATTAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.11
25 19 0.70
26 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TTAAAATTATAAAAAATATAAATATT
Found at i:27937872 original size:18 final size:16
Alignment explanation
Indices: 27937849--27937888 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27937839 AATTTATTAT
27937849 TTTAATTAATGGTAAGAA
1 TTTAATTAA--GTAAGAA
*
27937867 TTTAATTGAGTAAGAA
1 TTTAATTAAGTAAGAA
27937883 TTTAAT
1 TTTAAT
27937889 ACAAAGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
18 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
TTTAATTAAGTAAGAA
Found at i:27942162 original size:20 final size:21
Alignment explanation
Indices: 27942139--27942178 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
27942129 TTTAAAAATA
27942139 AAAAATAAAAAAA-ATATTTT
1 AAAAATAAAAAAATATATTTT
27942159 AAAAATAAAAAAATATATTT
1 AAAAATAAAAAAATATATTT
27942179 ATTATATTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAAAAAATATATTTT
Found at i:27945218 original size:9 final size:8
Alignment explanation
Indices: 27945198--27945255 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 8
27945188 TTTGGTTAAA
27945198 AATTAACCG
1 AATT-ACCG
27945207 AATTACCTG
1 AATTACC-G
27945216 AATTAACCG
1 AATT-ACCG
27945225 AATTAACCG
1 AATT-ACCG
*
27945234 GATTACCTG
1 AATTACC-G
27945243 AATTAACCG
1 AATT-ACCG
27945252 AATT
1 AATT
27945256 GAATCACTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 6 0.14
9 31 0.72
10 6 0.14
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (8 bp):
AATTACCG
Found at i:27945228 original size:27 final size:27
Alignment explanation
Indices: 27945198--27945255 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
27945188 TTTGGTTAAA
27945198 AATTAACCGAATTACCTGAATTAACCG
1 AATTAACCGAATTACCTGAATTAACCG
*
27945225 AATTAACCGGATTACCTGAATTAACCG
1 AATTAACCGAATTACCTGAATTAACCG
27945252 AATT
1 AATT
27945256 GAATCACTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTACCTGAATTAACCG
Found at i:27945238 original size:18 final size:18
Alignment explanation
Indices: 27945198--27945255 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
27945188 TTTGGTTAAA
27945198 AATTAACCGAATT-ACCTG
1 AATTAACCGAATTAACC-G
27945216 AATTAACCGAATTAACCG
1 AATTAACCGAATTAACCG
*
27945234 GATT-ACCTGAATTAACCG
1 AATTAACC-GAATTAACCG
27945252 AATT
1 AATT
27945256 GAATCACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.08
18 30 0.83
19 3 0.08
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTAACCG
Found at i:27948289 original size:22 final size:21
Alignment explanation
Indices: 27948259--27948303 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
27948249 ACACCAAAAC
*
27948259 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCG-TTTTTT
*
27948281 AGGCCTTTAGTGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
27948302 AG
1 AG
27948304 CGCCGCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.11, C:0.16, G:0.29, T:0.44
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGTTTTTT
Found at i:27948580 original size:43 final size:43
Alignment explanation
Indices: 27948548--27948880 Score: 355
Period size: 43 Copynumber: 7.7 Consensus size: 43
27948538 TTAGGGTCTT
* *
27948548 TAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTG
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTG
* * *
27948591 TAGCGGCGCTTTTCCCACAAATGCCGCAAAAGACCCTGATCTG
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTG
* * * *
27948634 TAGCGGCACTTTTCCCACAAACGCTGCAAAAGACCCTGATCTG
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTG
* * *
27948677 TAGCAGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTG
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTG
*** * * * *
27948720 TAGCGGCGCTTCGACCAGAAACGCCACTAAAGAACCA-AATCTT
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAG-ACCATGATCTG
* *
27948763 TAGCGGCG-TTTCCCCCACAAACGCCGCTAAAGACCATGATCTT
1 TAGCGGCGCTTT-TCCCACAAACGCCGCTAAAGACCATGATCTG
* * * * *
27948806 TAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTT
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTG
* ** * *
27948849 TAGCAGCGCTTTTATCAAAAACACCGCTAAAG
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
27948881 GCCAACACCT
Statistics
Matches: 252, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
42 6 0.02
43 240 0.95
44 6 0.02
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTG
Found at i:27948879 original size:129 final size:128
Alignment explanation
Indices: 27948544--27948902 Score: 414
Period size: 129 Copynumber: 2.8 Consensus size: 128
27948534 AAGATTAGGG
* *
27948544 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTGTAGCGGCGCTTTTCCCAC
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTGTAGCGGCGCTTTTACCAA
* * * ** * * * * *
27948609 AAATGCCGCAAAAGACCCTGATCTGTAGCGGCACTTTTCCCACAAACGCTGCAAAAGACCCTGA
66 AAACGCCGCTAAAGAACCAAATCTTTAGCGGC-GTTTCCCCACAAACGCCGCAAAAGACCATGA
* * ** *
27948673 TCTGTAGCAGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTGTAGCGGCGCTTCGACCAG
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTGTAGCGGCGCTTTTACCAA
* *
27948738 AAACGCCACTAAAGAACCAAATCTTTAGCGGCGTTTCCCCCACAAACGCCGCTAAAGACCATGA
66 AAACGCCGCTAAAGAACCAAATCTTTAGCGGCGTTT-CCCCACAAACGCCGCAAAAGACCATGA
* * * * * * *
27948802 TCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAGCAGCGCTTTTATCAA
1 TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTGTAGCGGCGCTTTTACCAA
* * * *
27948867 AAACACCGCTAAAG-GCCAACACCTTTAGTGGCGTTT
66 AAACGCCGCTAAAGAACCAA-ATCTTTAGCGGCGTTT
27948903 TTTAAAAAAC
Statistics
Matches: 193, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
128 7 0.04
129 186 0.96
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (128 bp):
TCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGATCTGTAGCGGCGCTTTTACCAA
AAACGCCGCTAAAGAACCAAATCTTTAGCGGCGTTTCCCCACAAACGCCGCAAAAGACCATGA
Found at i:27949258 original size:21 final size:21
Alignment explanation
Indices: 27949233--27949299 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
27949223 CGCTGCTTTG
*
27949233 CTTCCCTCGCTGCAGCTTTTA
1 CTTCCCTCGCTGCAGCTTCTA
** *
27949254 CTTCCCTCGCTATAGCTTCTG
1 CTTCCCTCGCTGCAGCTTCTA
* * *
27949275 CTTCCCTTGCTGCAGCCTGTA
1 CTTCCCTCGCTGCAGCTTCTA
27949296 CTTC
1 CTTC
27949300 TCTCATTGTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.09, C:0.39, G:0.15, T:0.37
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCTTCTA
Found at i:27949319 original size:42 final size:41
Alignment explanation
Indices: 27949227--27949329 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
27949217 TTTTGACGCT
* * * *
27949227 GCTTTGCTTCCCTCGCTGCAGCTTTTACTTCCCTCGCTATA
1 GCTTTGCTTCCCTTGCTGCAGCCTGTACTTCCCTCACTATA
* * * *
27949268 GCTTCTGCTTCCCTTGCTGCAGCCTGTACTTCTCTCATTGTC
1 GCTT-TGCTTCCCTTGCTGCAGCCTGTACTTCCCTCACTATA
*
27949310 GCCTTTGCTTCTCTTGCTGC
1 G-CTTTGCTTCCCTTGCTGC
27949330 CGCATCTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.08
42 44 0.86
43 3 0.06
ACGTcount: A:0.07, C:0.36, G:0.17, T:0.41
Consensus pattern (41 bp):
GCTTTGCTTCCCTTGCTGCAGCCTGTACTTCCCTCACTATA
Found at i:27949388 original size:66 final size:66
Alignment explanation
Indices: 27949316--27949457 Score: 200
Period size: 66 Copynumber: 2.2 Consensus size: 66
27949306 TGTCGCCTTT
* *
27949316 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CT-TTCGTTGAAC
1 GCTTCTCTCGCTGCCGCATCAGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTCTT--TTGAAC
27949378 CTCA
63 CTCA
* *
27949382 GCTTCTCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTCTTTTGAACCTC
1 GCTTCTCTCGCTGCCGCATCAGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTCTTTTGAACCTC
27949447 A
66 A
27949448 GCTTCTCTCG
1 GCTTCTCTCG
27949458 ATGTTGCCTC
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 2 0.03
68 2 0.03
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCAGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTCTTTTGAACCTC
A
Found at i:27949473 original size:66 final size:64
Alignment explanation
Indices: 27949316--27949481 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 64
27949306 TGTCGCCTTT
* * * * *
27949316 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTC
1 GCTTCTCTCGATGCTGCATCAGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTC-TTGAACCTC
27949381 A
64 A
*
27949382 GCTTCTCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTCTT-TTGAACCT
1 GCTTCTCTCGATGCTGCATCAGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CT-TTCTTGAACCT
27949446 CA
63 CA
* * *
27949448 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 GCTTCTCTCGATGCTGCATCAGCTTTAAGTTGTG
27949482 TAATTTGCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
65 2 0.02
66 83 0.93
67 2 0.02
68 2 0.02
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (64 bp):
GCTTCTCTCGATGCTGCATCAGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCTTGAACCTCA
Done.