Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 89 of 168
Found at i:26439873 original size:23 final size:23
Alignment explanation
Indices: 26439845--26439904 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
26439835 TTAGGTTAGG
*
26439845 GGTTAGGGTTTTTAATTAATTTA
1 GGTTAGGGTTTTTAATTAAATTA
****
26439868 GGTTAGGGTTTAGGGTTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
26439891 GGTTAGGGTTTTTA
1 GGTTAGGGTTTTTA
26439905 TTACATCAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:26439928 original size:25 final size:25
Alignment explanation
Indices: 26439900--26439967 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
26439890 AGGTTAGGGT
26439900 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
26439925 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
26439950 TTTTATTACATTAAATAA
1 TTTTATTACATCAAATAA
26439968 TATCAAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:26440003 original size:44 final size:45
Alignment explanation
Indices: 26439935--26440021 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
26439925 TTTTATTACA
* *
26439935 TCAAATAAACTTCTATTTTATTACATTAAATAATATCAAAATAAC
1 TCAAATAAAATTCTATTTTATTACATAAAATAATATCAAAATAAC
*
26439980 TCAAA-AAAATTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAAATTCTATTTTATTACATAAAATAATATCAAAATA
26440022 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAAATTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:26447215 original size:23 final size:23
Alignment explanation
Indices: 26447189--26447264 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
26447179 ATAAGTGCCA
26447189 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
26447212 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
26447235 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
26447258 CACTGAT
1 CACTGAT
26447265 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:26447502 original size:18 final size:17
Alignment explanation
Indices: 26447476--26447514 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
26447466 ATTTTCCTTC
26447476 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
26447493 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
26447511 CACA
1 CACA
26447515 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:26449347 original size:7 final size:7
Alignment explanation
Indices: 26449337--26449368 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
26449327 TTATATACAT
26449337 AATACTA
1 AATACTA
26449344 AATACTA
1 AATACTA
26449351 AATACTA
1 AATACTA
26449358 AATACTA
1 AATACTA
26449365 AATA
1 AATA
26449369 TCAATCGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:26450586 original size:12 final size:11
Alignment explanation
Indices: 26450552--26450586 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
26450542 GAATTTTGGA
26450552 AGGAAATTGAG
1 AGGAAATTGAG
26450563 AGG-AATTGAG
1 AGGAAATTGAG
26450573 AGGAAATATGAG
1 AGGAAAT-TGAG
26450585 AG
1 AG
26450587 AGGATTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:26453338 original size:12 final size:12
Alignment explanation
Indices: 26453321--26453362 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
26453311 TTTTTTAAAG
26453321 TTAAATAAATAT
1 TTAAATAAATAT
*
26453333 TTAAATATAATTT
1 TTAAATA-AATAT
26453346 TTCAAA-AAATAT
1 TT-AAATAAATAT
26453358 TTAAA
1 TTAAA
26453363 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.12
12 13 0.50
13 7 0.27
14 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAAATAAATAT
Found at i:26454150 original size:16 final size:16
Alignment explanation
Indices: 26454129--26454159 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26454119 AGGAAAAATA
*
26454129 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
26454145 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
26454160 AGTAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:26454530 original size:9 final size:9
Alignment explanation
Indices: 26454516--26454543 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
26454506 TATAGTTTGA
26454516 TATTCGAAT
1 TATTCGAAT
26454525 TATTCGAAT
1 TATTCGAAT
26454534 TATTCGAAT
1 TATTCGAAT
26454543 T
1 T
26454544 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26465720 original size:15 final size:17
Alignment explanation
Indices: 26465702--26465747 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
26465692 TGTGTCCTAT
26465702 TTTAAAG-T-GTTCTCG
1 TTTAAAGATAGTTCTCG
*
26465717 TTTATAGATAGTTCTCG
1 TTTAAAGATAGTTCTCG
* *
26465734 TTTAGAGATTGTTC
1 TTTAAAGATAGTTC
26465748 CGGTCCAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 6 0.23
16 1 0.04
17 19 0.73
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.48
Consensus pattern (17 bp):
TTTAAAGATAGTTCTCG
Found at i:26465732 original size:17 final size:17
Alignment explanation
Indices: 26465710--26465747 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26465700 ATTTTAAAGT
*
26465710 GTTCTCGTTTATAGATA
1 GTTCTCGTTTAGAGATA
*
26465727 GTTCTCGTTTAGAGATT
1 GTTCTCGTTTAGAGATA
26465744 GTTC
1 GTTC
26465748 CGGTCCAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (17 bp):
GTTCTCGTTTAGAGATA
Found at i:26465964 original size:10 final size:10
Alignment explanation
Indices: 26465942--26465978 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
26465932 TTCTTTAGAT
26465942 AAATTAGTAAA
1 AAATTA-TAAA
26465953 AAATTATAAA
1 AAATTATAAA
*
26465963 AAAATATAAA
1 AAATTATAAA
26465973 AAATTA
1 AAATTA
26465979 GTTGAATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATTATAAA
Found at i:26467802 original size:42 final size:42
Alignment explanation
Indices: 26467738--26467846 Score: 191
Period size: 42 Copynumber: 2.6 Consensus size: 42
26467728 ACGGCCAAGC
*
26467738 CACACGCCCGTGTGCTAGGCCGTGTAACACTCGAAATAGCCT
1 CACATGCCCGTGTGCTAGGCCGTGTAACACTCGAAATAGCCT
26467780 CACATGCCCGTGTGCTAGGCCGTGTAACACTCGAAATAGCCT
1 CACATGCCCGTGTGCTAGGCCGTGTAACACTCGAAATAGCCT
* *
26467822 CACATGCCCGTGTGCCAGGCTGTGT
1 CACATGCCCGTGTGCTAGGCCGTGT
26467847 GTTAGGCCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (42 bp):
CACATGCCCGTGTGCTAGGCCGTGTAACACTCGAAATAGCCT
Found at i:26468790 original size:35 final size:35
Alignment explanation
Indices: 26468747--26468815 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
26468737 ACACACCAAA
* *
26468747 TGCTCATAAGAG-TTGATCCAACTGAAACACGCCAG
1 TGCTCATAAGAGCTAG-TCCAACCGAAACACGCCAG
*
26468782 TGCTCATAAGAGCTAGTCTAACCGAAACACGCCA
1 TGCTCATAAGAGCTAGTCCAACCGAAACACGCCA
26468816 AACATAGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (35 bp):
TGCTCATAAGAGCTAGTCCAACCGAAACACGCCAG
Found at i:26474785 original size:50 final size:50
Alignment explanation
Indices: 26474718--26474909 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 50
26474708 TTTTTGTACT
* * * **
26474718 GCCAATGCCATATCCCAGATATGGTCGTACATGGGAGTTCTCATATCGGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGA
* ** * *
26474768 GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGA
* *
26474818 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GGA
* *
26474873 TGCCAATGCCATATCCCATACATGGTCTTACATGGGA
1 -GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
26474910 TCTCATCCTC
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 80 0.69
53 2 0.02
55 1 0.01
56 33 0.28
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGA
Found at i:26482345 original size:50 final size:51
Alignment explanation
Indices: 26482278--26482519 Score: 256
Period size: 50 Copynumber: 4.7 Consensus size: 51
26482268 TTTCTGTACT
* * **
26482278 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-ATCGGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCGGA
* ** ** *
26482328 GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCGT-GGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCGGA
* * *
26482378 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCGGA
* * * * *
26482428 GCTAATGCCACGTCCCAGACATGGTCGTACATGAGACCTCTCATAATCTCATTGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAA--TC--GGA
26482483 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
26482520 TCTCATCTTC
Statistics
Matches: 158, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 121 0.77
51 1 0.01
53 2 0.01
55 1 0.01
56 32 0.20
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (51 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCGGA
Found at i:26482420 original size:100 final size:103
Alignment explanation
Indices: 26482277--26482519 Score: 294
Period size: 100 Copynumber: 2.4 Consensus size: 103
26482267 TTTTCTGTAC
* * ** * *
26482277 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGAGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGAGCCAATGCCACGTC
* * * *
26482342 CCAGACATGGTCTTACGGGGGACCTCTC-A-TC-GTGG
66 CCAGACATGGTCGTACAGGAGACCTCTCAACTCAGTGA
* * * *
26482377 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCTAATGCCACGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGAGCCAATGCCACGTC
* *
26482442 CCAGACATGGTCGTACATGAGACCTCTCATAATCTCATTGA
66 CCAGACATGGTCGTACAGGAGACCTCTC--AA-CTCAGTGA
26482483 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
26482520 TCTCATCTTC
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
100 79 0.66
103 1 0.01
105 2 0.02
106 38 0.32
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (103 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGAGCCAATGCCACGTC
CCAGACATGGTCGTACAGGAGACCTCTCAACTCAGTGA
Found at i:26488294 original size:18 final size:19
Alignment explanation
Indices: 26488253--26488294 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
26488243 CTGCGTTCTA
*
26488253 CTCAATTTGAACTTTCTTT
1 CTCAATTTGAACTATCTTT
*
26488272 C-CAATTT-ATCTATCTTT
1 CTCAATTTGAACTATCTTT
26488289 CTCAAT
1 CTCAAT
26488295 AATCATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (19 bp):
CTCAATTTGAACTATCTTT
Found at i:26489380 original size:23 final size:23
Alignment explanation
Indices: 26489351--26489469 Score: 159
Period size: 23 Copynumber: 5.2 Consensus size: 23
26489341 ATCAGTGCCA
*
26489351 CACTGATATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* *
26489374 CACTGATACGTAGCC-ATAGCTAC
1 CACTAATATGTAGCCGA-AGCTAC
*
26489397 CACTAAAATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* *
26489420 CACTAATATGTAGCTGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
26489443 CACTAAAATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
26489466 CACT
1 CACT
26489470 GATCAATAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 1 0.01
23 82 0.98
24 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:26489433 original size:46 final size:46
Alignment explanation
Indices: 26489358--26489469 Score: 188
Period size: 46 Copynumber: 2.4 Consensus size: 46
26489348 CCACACTGAT
*
26489358 ATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTAATACGTAGCCATAGCTACCACTAAA
* **
26489404 ATGTAGCCGAAGCTACCACTAATATGTAGCTGTAGCTACCACTAAA
1 ATGTAGCCGAAGCTACCACTAATACGTAGCCATAGCTACCACTAAA
26489450 ATGTAGCCGAAGCTACCACT
1 ATGTAGCCGAAGCTACCACT
26489470 GATCAATAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTAATACGTAGCCATAGCTACCACTAAA
Found at i:26489710 original size:18 final size:17
Alignment explanation
Indices: 26489684--26489722 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
26489674 ATTTTCCTTC
26489684 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
26489701 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
26489719 CACA
1 CACA
26489723 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:26489942 original size:30 final size:30
Alignment explanation
Indices: 26489907--26489964 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26489897 TCATTGACTC
26489907 AAACTTTGGCAAAATTACAATTTTGCCCTT
1 AAACTTTGGCAAAATTACAATTTTGCCCTT
* * * *
26489937 AAACTTTTGCATATTTACATTTTTGCCC
1 AAACTTTGGCAAAATTACAATTTTGCCC
26489965 AAAGCTCGTA
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:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCTT
Found at i:26504408 original size:55 final size:55
Alignment explanation
Indices: 26504319--26504449 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 55
26504309 CCCATGTGGG
* * * *
26504319 TATTCGAAATAAGGTCACACAGTCGTGTCACAGGCCATGTGCCAGA-CTGTGTGTA
1 TATTCGAAATATGGTCACACAGCCATGTCACAGGCCATGCGCCAGATC-GTGTGTA
* *
26504374 TATTCGAAATATGGTCACAC-GACCATGTCGCAGGCCATGCGCTAGATCGTGTGTA
1 TATTCGAAATATGGTCACACAG-CCATGTCACAGGCCATGCGCCAGATCGTGTGTA
*
26504429 TATTTGAAATATGGTCACACA
1 TATTCGAAATATGGTCACACA
26504450 ACCGTGTTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.02
55 64 0.97
56 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (55 bp):
TATTCGAAATATGGTCACACAGCCATGTCACAGGCCATGCGCCAGATCGTGTGTA
Found at i:26504473 original size:55 final size:55
Alignment explanation
Indices: 26504319--26504473 Score: 152
Period size: 55 Copynumber: 2.8 Consensus size: 55
26504309 CCCATGTGGG
* ** * * *
26504319 TATTCGAAATAAGGTCACACAGTCGTGTC-ACAGGCCATGTGCCAGACTGTGTGTA
1 TATTCGAAATATGGTCACACAACCATGTCGA-AGACCATGTGCTAGACTGTGTGTA
* * * *
26504374 TATTCGAAATATGGTCACACGACCATGTCGCAGGCCATGCGCTAGA-TCGTGTGTA
1 TATTCGAAATATGGTCACACAACCATGTCGAAGACCATGTGCTAGACT-GTGTGTA
* * * *
26504429 TATTTGAAATATGGTCACACAACCGTGTTGAAGATCATGTGCTAG
1 TATTCGAAATATGGTCACACAACCATGTCGAAGACCATGTGCTAG
26504474 GCCGTGTGAA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 1 0.01
55 81 0.99
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (55 bp):
TATTCGAAATATGGTCACACAACCATGTCGAAGACCATGTGCTAGACTGTGTGTA
Found at i:26512297 original size:30 final size:30
Alignment explanation
Indices: 26512252--26512418 Score: 150
Period size: 30 Copynumber: 5.6 Consensus size: 30
26512242 TTCAACAGCT
* * *
26512252 GAAGCTATCCTTTTTCATAATTTGATGGTC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
*
26512282 GTCA-CCATCCCTTTTCATAA-TTGATAGTC
1 G-AAGCCATCCCTTTTCATAATTTGATAGTC
* * * *
26512311 GAAGCTATCCTTTTTCATAGA-TCGATAGCC
1 GAAGCCATCCCTTTTCATA-ATTTGATAGTC
*
26512341 GAAGCCATCCCTTTTCATAATTTGATGGTC
1 GAAGCCATCCCTTTTCATAATTTGATAGTC
26512371 -ATCA-CCATCCCTTTTCATAATTT-ATA-TCC
1 GA--AGCCATCCCTTTTCATAATTTGATAGT-C
*
26512400 GAAGCTATCCCTTTTCATA
1 GAAGCCATCCCTTTTCATA
26512419 GATTGATGAT
Statistics
Matches: 112, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.03
29 41 0.37
30 66 0.59
31 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (30 bp):
GAAGCCATCCCTTTTCATAATTTGATAGTC
Found at i:26512329 original size:89 final size:89
Alignment explanation
Indices: 26512196--26512421 Score: 301
Period size: 89 Copynumber: 2.5 Consensus size: 89
26512186 AATGGCTGAC
* * * ** * * *
26512196 CCATCCTTTTTCGTAATTTGATAACCGAAATTATCCCTTTTCATAGTTCAACAGCTGAAGCTATC
1 CCATCCCTTTTCATAA-TTGATATCCGAAGCTATCCCTTTTCATAGATCAACAGCCGAAGCCATC
* *
26512261 CTTTTTCATAATTTGATGGTCGTCA
65 CCTTTTCATAATTTGATGGTCATCA
* * *
26512286 CCATCCCTTTTCATAATTGATAGT-CGAAGCTATCCTTTTTCATAGATCGATAGCCGAAGCCATC
1 CCATCCCTTTTCATAATTGATA-TCCGAAGCTATCCCTTTTCATAGATCAACAGCCGAAGCCATC
26512350 CCTTTTCATAATTTGATGGTCATCA
65 CCTTTTCATAATTTGATGGTCATCA
*
26512375 CCATCCCTTTTCATAATTTATATCCGAAGCTATCCCTTTTCATAGAT
1 CCATCCCTTTTCATAATTGATATCCGAAGCTATCCCTTTTCATAGAT
26512422 TGATGATCAT
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 104 0.87
90 14 0.12
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (89 bp):
CCATCCCTTTTCATAATTGATATCCGAAGCTATCCCTTTTCATAGATCAACAGCCGAAGCCATCC
CTTTTCATAATTTGATGGTCATCA
Found at i:26512349 original size:59 final size:58
Alignment explanation
Indices: 26512198--26512425 Score: 176
Period size: 59 Copynumber: 3.8 Consensus size: 58
26512188 TGGCTGACCC
* * *** * * *
26512198 ATCCTTTTTCGTAATTTGATAACCGAAATTATCCCTTTTCATAGTTCAACAG-CTGAAGCT
1 ATCCTTTTTCATAA-TTGATAGCCGAAGCCATCCCTTTTCATAATT-GATAGTC-GAAGCT
* * *
26512258 ATCCTTTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATAATTGATAGTCGAAGCT
1 ATCCTTTTTCATAA-TTGATAGCCG-AAGCCATCCCTTTTCATAATTGATAGTCGAAGCT
* * *
26512317 ATCCTTTTTCATAGATCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTC-ATCA-CC
1 ATCCTTTTTCATA-ATTGATAGCCGAAGCCATCCCTTTTCATAA-TTGATAGTCGA--AGCT
* * * *
26512377 ATCCCTTTTCATAATTTATATCCGAAGCTATCCCTTTTCATAGATTGAT
1 ATCCTTTTTCATAATTGATAGCCGAAGCCATCCCTTTTCATA-ATTGAT
26512426 GATCATCATT
Statistics
Matches: 139, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
58 1 0.01
59 76 0.55
60 60 0.43
61 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (58 bp):
ATCCTTTTTCATAATTGATAGCCGAAGCCATCCCTTTTCATAATTGATAGTCGAAGCT
Found at i:26513433 original size:13 final size:13
Alignment explanation
Indices: 26513415--26513449 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
26513405 ATTGAATTAT
26513415 AAAATTTCTTAAC
1 AAAATTTCTTAAC
26513428 AAAATTTCTTAAC
1 AAAATTTCTTAAC
26513441 AAAATTTCT
1 AAAATTTCT
26513450 ATACAGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTTCTTAAC
Found at i:26514535 original size:20 final size:20
Alignment explanation
Indices: 26514512--26514549 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26514502 TATTTGAGGA
*
26514512 CATTTCATTAGTATTTTGTT
1 CATTTCATTAGGATTTTGTT
26514532 CATTTCATTAGGATTTTG
1 CATTTCATTAGGATTTTG
26514550 GACTGTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (20 bp):
CATTTCATTAGGATTTTGTT
Found at i:26517901 original size:20 final size:20
Alignment explanation
Indices: 26517877--26517934 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
26517867 TAAAAATGCT
26517877 AACAGAGGCA-CGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
* *
26517896 ATACAGAGGCATCAAAGTGCA
1 A-ACAGAGGCACCGAAGTGCA
*
26517917 AATAGAGGCACCGAAGTG
1 AACAGAGGCACCGAAGTG
26517935 TAATCTTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 23 0.70
21 9 0.27
ACGTcount: A:0.41, C:0.19, G:0.29, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:26519943 original size:28 final size:28
Alignment explanation
Indices: 26519903--26520126 Score: 146
Period size: 27 Copynumber: 8.2 Consensus size: 28
26519893 GGTCGCCGAG
*
26519903 ACCCCCGATTTGCAAAAATTACTAAAAT
1 ACCCTCGATTTGCAAAAATTACTAAAAT
* *
26519931 ACCCTCGATTTGCAAAAATTATTGAAAT
1 ACCCTCGATTTGCAAAAATTACTAAAAT
*
26519959 ACCCT-TAGTTTGC-AAAATTA-TCAAAAT
1 ACCCTCGA-TTTGCAAAAATTACT-AAAAT
* *
26519986 ACCC-CTGATTTG-TAAAATTACCAAAAT
1 ACCCTC-GATTTGCAAAAATTACTAAAAT
* * *
26520013 ACCCTCTATATGCAAAAATTA-TCGAAAT
1 ACCCTCGATTTGCAAAAATTACT-AAAAT
** *
26520041 ACCCTCGATTTG-TGAAATTA-TCGAAAT
1 ACCCTCGATTTGCAAAAATTACT-AAAAT
* * * *
26520068 ACCTTC-AGTTTG-TAGAATTACCAAAAT
1 ACCCTCGA-TTTGCAAAAATTACTAAAAT
* **
26520095 ACCATCGATTTGC-AAAATTACCGAAAT
1 ACCCTCGATTTGCAAAAATTACTAAAAT
26520122 ACCCT
1 ACCCT
26520127 TATAGGGTAA
Statistics
Matches: 158, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
26 2 0.01
27 97 0.61
28 59 0.37
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
ACCCTCGATTTGCAAAAATTACTAAAAT
Found at i:26519996 original size:55 final size:55
Alignment explanation
Indices: 26519911--26520128 Score: 232
Period size: 55 Copynumber: 4.0 Consensus size: 55
26519901 AGACCCCCGA
* **
26519911 TTTGCAAAAATTA-CTAAAATACCCTCGATTTGCAAAAATTATTGAAATACCCTTAG
1 TTTGCAAAAATTATC-AAAATACCCTCGATTTG-TAAAATTACCGAAATACCCTTAG
*
26519967 TTTGC-AAAATTATCAAAATACCC-CTGATTTGTAAAATTACCAAAATACCCTCTA-
1 TTTGCAAAAATTATCAAAATACCCTC-GATTTGTAAAATTACCGAAATACCCT-TAG
* * * *
26520021 TATGCAAAAATTATCGAAATACCCTCGATTTGTGAAATTATCGAAATA-CCTTCAG
1 TTTGCAAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTT-AG
* * * * *
26520076 TTTG-TAGAATTACCAAAATACCATCGATTTGCAAAATTACCGAAATACCCTTA
1 TTTGCAAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTA
26520129 TAGGGTAAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 61 0.45
55 67 0.49
56 7 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (55 bp):
TTTGCAAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAG
Found at i:26520041 original size:82 final size:83
Alignment explanation
Indices: 26519903--26520128 Score: 271
Period size: 82 Copynumber: 2.7 Consensus size: 83
26519893 GGTCGCCGAG
* * * *
26519903 ACCCCCGATTTGCAAAAATTACTAAAATACCCTCGATTTGCAAAAATTATTGAAATACCCTTAG-
1 ACCCCTGATTTG-TAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTAGA
26519967 TTTGCAAAATTATCAAAAT
65 TTTGCAAAATTATCAAAAT
* * *
26519986 ACCCCTGATTTGTAAAATTACCAAAATACCCTCTATATGCAAAAATTATCGAAATACCC-TCGAT
1 ACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTAGAT
** *
26520050 TTGTGAAATTATCGAAAT
66 TTGCAAAATTATCAAAAT
* * * * *
26520068 A-CCTTCAGTTTGTAGAATTACCAAAATACCATCGATTTGC-AAAATTACCGAAATACCCTTA
1 ACCCCTGA-TTTGTAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTA
26520129 TAGGGTAAAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
81 23 0.19
82 88 0.72
83 11 0.09
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (83 bp):
ACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTTGCAAAAATTATCGAAATACCCTTAGAT
TTGCAAAATTATCAAAAT
Found at i:26520406 original size:27 final size:27
Alignment explanation
Indices: 26520371--26520585 Score: 204
Period size: 27 Copynumber: 7.9 Consensus size: 27
26520361 CAACCCTTAG
* *
26520371 TTTGTAAAATTATCAAAATACCCCCAA
1 TTTGTAAAATTATCAAAATACCCTCGA
* *
26520398 TTT-TCAAAATTACCGAAATACCCTCGA
1 TTTGT-AAAATTATCAAAATACCCTCGA
26520425 TTTGTAAAAATTA-CTAAAATACCC-CTGA
1 TTTGT-AAAATTATC-AAAATACCCTC-GA
* *
26520453 TTTGCAAAATTACCAAAATACCCTCGA
1 TTTGTAAAATTATCAAAATACCCTCGA
* * *
26520480 TATGCAAAAATTATCGAAATACCCTCGA
1 TTTG-TAAAATTATCAAAATACCCTCGA
* * * *
26520508 TTTGTGAAATTATCGAAATACCTTCAA
1 TTTGTAAAATTATCAAAATACCCTCGA
* *
26520535 TTTGTATAATTACCAAAATACCC-CTGA
1 TTTGTAAAATTATCAAAATACCCTC-GA
*
26520562 TTTGTAAAATTATCGAAATACCCT
1 TTTGTAAAATTATCAAAATACCCT
26520586 TATAGGGTAA
Statistics
Matches: 154, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
26 2 0.01
27 105 0.68
28 47 0.31
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTATCAAAATACCCTCGA
Found at i:26520446 original size:55 final size:54
Alignment explanation
Indices: 26520371--26520585 Score: 236
Period size: 55 Copynumber: 3.9 Consensus size: 54
26520361 CAACCCTTAG
*
26520371 TTTGTAAAATTATCAAAATACCCCCAATTT-TCAAAATTACCGAAATACCCTCGA
1 TTTGTAAAATTATCAAAATACCCCCGATTTGT-AAAATTACCGAAATACCCTCGA
* * *
26520425 TTTGTAAAAATTA-CTAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGA
1 TTTGT-AAAATTATC-AAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA
* * * * * * * *
26520480 TATGCAAAAATTATCGAAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAA
1 TTTG-TAAAATTATCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA
* * * *
26520535 TTTGTATAATTACCAAAATACCCCTGATTTGTAAAATTATCGAAATACCCT
1 TTTGTAAAATTATCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCT
26520586 TATAGGGTAA
Statistics
Matches: 132, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
54 45 0.34
55 86 0.65
56 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTATCAAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCGA
Found at i:26520518 original size:82 final size:81
Alignment explanation
Indices: 26520371--26520585 Score: 247
Period size: 82 Copynumber: 2.6 Consensus size: 81
26520361 CAACCCTTAG
* * * *
26520371 TTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATTTGTAAAAAT
1 TTTGTAAAATTACCAAAATA-CCCCGATTTGCAAAATTATCGAAATACCCTCGATTTGTAAAAAT
*
26520436 TA-CTAAAATACCC-CTGA
65 TATC-AAAATACCCTC-AA
* * *
26520453 TTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATCGAAATACCCTCGATTTGT-GAAA
1 TTTGTAAAATTACCAAAATACCC-CGATTTGC-AAAATTATCGAAATACCCTCGATTTGTAAAAA
* *
26520517 TTATCGAAATACCTTCAA
64 TTATCAAAATACCCTCAA
* *
26520535 TTTGTATAATTACCAAAATACCCCTGATTTGTAAAATTATCGAAATACCCT
1 TTTGTAAAATTACCAAAATACCCC-GATTTGCAAAATTATCGAAATACCCT
26520586 TATAGGGTAA
Statistics
Matches: 114, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
81 23 0.20
82 63 0.55
83 28 0.25
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTGTAAAATTACCAAAATACCCCGATTTGCAAAATTATCGAAATACCCTCGATTTGTAAAAATT
ATCAAAATACCCTCAA
Found at i:26520775 original size:459 final size:459
Alignment explanation
Indices: 26519972--26520803 Score: 1524
Period size: 459 Copynumber: 1.8 Consensus size: 459
26519962 CTTAGTTTGC
* *
26519972 AAAATTATCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCTATATGCAAAAATTATCG
1 AAAATTATCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATCG
*
26520037 AAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAGTTTGTAGAATTACCAAAATACCATCG
66 AAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTAGAATTACCAAAATACCATCG
*
26520102 ATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAATGACCGTTTTGCCCTTGTGGGTAGATGA
131 ATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGATGA
*
26520167 CTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATTACTGGTATGCTTTTAATATGT
196 CTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATATGT
26520232 GTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACATAC
261 GTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACATAC
26520297 ACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTTACGGGGGGCTCTGCCAC
326 ACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTTACGGGGGGCTCTGCCAC
26520362 AACCCTTAGTTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATT
391 AACCCTTAGTTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATT
26520427 TGTA
456 TGTA
26520431 AAAATTA-CTAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATC
1 AAAATTATC-AAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATC
* *
26520495 GAAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTATAATTACCAAAATACC-CC
65 GAAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTAGAATTACCAAAATACCATC
* *
26520559 TGATTTGTAAAATTATCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGAT
130 -GATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGAT
*
26520624 GACTGGCTTGGTCTTTGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATAT
194 GACTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATAT
*
26520689 GTGTGTAAATGATTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACAT
259 GTGTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACAT
*
26520754 ACACGACATATTGCATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTT
324 ACACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTT
26520804 TTTGGTGGCT
Statistics
Matches: 359, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
458 2 0.01
459 357 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (459 bp):
AAAATTATCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCTCGATATGCAAAAATTATCG
AAATACCCTCGATTTGTGAAATTATCGAAATACCTTCAATTTGTAGAATTACCAAAATACCATCG
ATTTGCAAAATTACCGAAATACCCTTATAGGGTAAAAGGACCGTTTTGCCCTTGTGGGTAGATGA
CTGGCTTGGTCTTCGAATTTGACTGACTTGACTGTGGTTGTATGACTGGTATGCTTTTAATATGT
GTGTAAATGACTGTTACTGTGCATGGCCATTTTGCATACACGTGTGATGATTGAGCATGACATAC
ACGACATATTACATAGGGTTGGGATTCTGTTATGGAGGAATTACTGTTACGGGGGGCTCTGCCAC
AACCCTTAGTTTGTAAAATTATCAAAATACCCCCAATTTTCAAAATTACCGAAATACCCTCGATT
TGTA
Found at i:26527110 original size:50 final size:50
Alignment explanation
Indices: 26527052--26527188 Score: 238
Period size: 50 Copynumber: 2.7 Consensus size: 50
26527042 TATTGAGGTT
* *
26527052 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
* *
26527102 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACGTGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
26527152 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGG
26527189 AATGGGCACT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
Found at i:26527220 original size:100 final size:100
Alignment explanation
Indices: 26527052--26527233 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 100
26527042 TATTGAGGTT
** * ** *
26527052 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAGATGAGAGGTCCCCCG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGAATGGGCACCGAGATGAGAACTCCCACG
*
26527117 TAAGACCATGTCTGGGACGTGGCGTTGGCACCGAG
66 TAAGACCATATCTGGGACGTGGCGTTGGCACCGAG
* * * * *
26527152 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGAATGGGCACTGATATGAGAACTCTCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGAATGGGCACCGAGATGAGAACTCCCACG
26527217 TAAGACCATATCTGGGA
66 TAAGACCATATCTGGGA
26527234 TATGGCATTG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 70 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGAATGGGCACCGAGATGAGAACTCCCACG
TAAGACCATATCTGGGACGTGGCGTTGGCACCGAG
Found at i:26527225 original size:50 final size:50
Alignment explanation
Indices: 26527052--26527207 Score: 231
Period size: 50 Copynumber: 3.1 Consensus size: 50
26527042 TATTGAGGTT
* *
26527052 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGAGTTGGCACCGAG
* * *
26527102 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACGTGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGAGTTGGCACCGAG
* * * *
26527152 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGAATGGGCACTGAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGAGTTGGCACCGAG
26527202 ATGAGA
1 ATGAGA
26527208 ACTCTCATGT
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGAGTTGGCACCGAG
Found at i:26534953 original size:50 final size:50
Alignment explanation
Indices: 26534808--26534940 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 50
26534798 TTATTGAGGT
26534808 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
*
26534858 GATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCC-CACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
** * *
26534908 TATGAGAACTCCCATGTAAGACCATATCTGGGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGA
26534941 TATGACATTG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 1 0.01
50 73 0.97
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:26539165 original size:27 final size:27
Alignment explanation
Indices: 26539135--26539283 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
26539125 CATGATAGCT
* *
26539135 AAAGAATAGCCTTTGTGGCGAACTTTG
1 AAAGAATAGCCTTTGTGGTGAACTTTA
* ** *
26539162 AAAGAATAACCTTTGTGGCAAACTCTA
1 AAAGAATAGCCTTTGTGGTGAACTTTA
* * *
26539189 AAAGAATAGTCTTTGTGGTAAACTCTA
1 AAAGAATAGCCTTTGTGGTGAACTTTA
* * * *
26539216 AAAGAATAACCATTGTGATGAA-TTCTG
1 AAAGAATAGCCTTTGTGGTGAACTT-TA
*
26539243 AAAGAATAGTCTTTGTGGTGAACTTTA
1 AAAGAATAGCCTTTGTGGTGAACTTTA
26539270 AAAGAGAT-GCCTTT
1 AAAGA-ATAGCCTTT
26539284 ACGGAAAATT
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 94 0.95
28 4 0.04
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGTGAACTTTA
Found at i:26539220 original size:54 final size:54
Alignment explanation
Indices: 26539135--26539274 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
26539125 CATGATAGCT
* * * * *
26539135 AAAGAATAGCCTTTGTGGCGAACTTTGAAAGAATAACCTTTGTGGCAAACTCTA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCATTGTGACAAACTCTA
* * ** * *
26539189 AAAGAATAGTCTTTGTGGTAAACTCTAAAAGAATAACCATTGTGATGAATTCTG
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCATTGTGACAAACTCTA
26539243 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGA
26539275 GATGCCTTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (54 bp):
AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCATTGTGACAAACTCTA
Found at i:26539294 original size:54 final size:52
Alignment explanation
Indices: 26539135--26539298 Score: 159
Period size: 54 Copynumber: 3.0 Consensus size: 52
26539125 CATGATAGCT
* * * * *
26539135 AAAGAATAGCCTTTGTGGCGAACTTTGAAAGAATAACCTTTGTGGCAAACTCTA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACC-TT-TGGAAAATTCTA
* * * * *
26539189 AAAGAATAGTCTTTGTGGTAAACTCTAAAAGAATAACCATTGTGATGAATTCTG
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCTTTG-GA-AAATTCTA
*
26539243 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAGAT-GCCTTTACGGAAAATTCTA
1 AAAGAATAGTCTTTGTGGTGAACTTTAAAAGA-ATAACCTTT--GGAAAATTCTA
26539297 AA
1 AA
26539299 TAGATCACCT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.02
53 2 0.02
54 80 0.90
55 4 0.04
56 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (52 bp):
AAAGAATAGTCTTTGTGGTGAACTTTAAAAGAATAACCTTTGGAAAATTCTA
Found at i:26551653 original size:16 final size:16
Alignment explanation
Indices: 26551629--26551659 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26551619 AGTATTTCAT
26551629 AATGACTAGCTATTGG
1 AATGACTAGCTATTGG
*
26551645 AATGGCTAGCTATTG
1 AATGACTAGCTATTG
26551660 ACATGTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
AATGACTAGCTATTGG
Found at i:26555202 original size:20 final size:19
Alignment explanation
Indices: 26555166--26555212 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
26555156 TTATTTAGTT
*
26555166 TAATTGAACTTAATTAATC
1 TAATTTAACTTAATTAATC
26555185 TAATTTAACTTAAATTAATC
1 TAATTTAACTT-AATTAATC
*
26555205 TAGTTTAA
1 TAATTTAA
26555213 TAATGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (19 bp):
TAATTTAACTTAATTAATC
Found at i:26558318 original size:36 final size:37
Alignment explanation
Indices: 26558250--26558323 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
26558240 TAAATCCCTT
*
26558250 TTCCTCCCCTTGTATTTTACCATGTAATAGCACAAAA
1 TTCCTCCCCTTGTATTTTACCATGTAAAAGCACAAAA
*
26558287 TTCCTCCGCTTGTATTTTA-CATGTAAAAGCACAAAA
1 TTCCTCCCCTTGTATTTTACCATGTAAAAGCACAAAA
26558323 T
1 T
26558324 AAACAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 17 0.49
37 18 0.51
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (37 bp):
TTCCTCCCCTTGTATTTTACCATGTAAAAGCACAAAA
Found at i:26560917 original size:3 final size:3
Alignment explanation
Indices: 26560909--26560938 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
26560899 AACAATCCCT
26560909 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26560939 CCCTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26562350 original size:14 final size:14
Alignment explanation
Indices: 26562328--26562361 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
26562318 GAAAGAGACA
*
26562328 TTAACCAAGGATTT
1 TTAATCAAGGATTT
26562342 TTAATCAAGGATTT
1 TTAATCAAGGATTT
26562356 TTAATC
1 TTAATC
26562362 TCTTACCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (14 bp):
TTAATCAAGGATTT
Found at i:26565124 original size:3 final size:3
Alignment explanation
Indices: 26565116--26565142 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26565106 CAAGAACAAA
26565116 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
26565143 GAAAAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26565364 original size:23 final size:22
Alignment explanation
Indices: 26565324--26565366 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
26565314 AAATTATAAA
*
26565324 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
26565346 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
26565367 GTGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:26567040 original size:100 final size:99
Alignment explanation
Indices: 26566908--26567172 Score: 433
Period size: 100 Copynumber: 2.6 Consensus size: 99
26566898 TCGCTACATT
* * *
26566908 TAGCTTTAATCTGTTCCACTAGACCGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACA-CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
26566973 TAACTGCAATGTTAGG-GAAACAAGATTCACCGTCG
65 TAACTGCAATGTT-GGAGAAACAAGATTCACCGTCG
*
26567008 TAGCTTCAATCTGTTCCACTACATCGCTAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACA-CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
*
26567073 TAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
65 TAACTGCAATGTTGGAGAAACAAGATTCACCGTCG
*
26567108 TATCTTCAATCTGTTCCACTACACAGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACAC-GCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
26567173 CCACTGTAAT
Statistics
Matches: 155, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
99 3 0.02
100 152 0.98
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (99 bp):
TAGCTTCAATCTGTTCCACTACACGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTT
AACTGCAATGTTGGAGAAACAAGATTCACCGTCG
Found at i:26567175 original size:50 final size:50
Alignment explanation
Indices: 26566910--26567177 Score: 229
Period size: 50 Copynumber: 5.4 Consensus size: 50
26566900 GCTACATTTA
* * * * * *
26566910 GCTTTAATCTGTTCCACTAGACCGCCAGGGAAGTAAGATTCGTCGTTGTG
1 GCTTCAATCTATTCCACTACACAGCTAGGGAAGTAAGATTCGCCGTTGTG
** * * ** * * *
26566960 GCTTCAATCTATTTAACTGCA-ATGTTAGGGAAACAAGATTCACCGTCGTA
1 GCTTCAATCTATTCCACTACACA-GCTAGGGAAGTAAGATTCGCCGTTGTG
*
26567010 GCTTCAATCTGTTCCACTACATC-GCTAGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTATTCCACTACA-CAGCTAGGGAAGTAAGATTCGCCGTTGTG
** * * ** * *
26567060 GCTTCAATCTATTTAACTGCA-ATG-TTGGAGAAACAAGATTCGCCGTCGTA
1 GCTTCAATCTATTCCACTACACA-GCTAGG-GAAGTAAGATTCGCCGTTGTG
* * *
26567110 TCTTCAATCTGTTCCACTACACAGCCAGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTATTCCACTACACAGCTAGGGAAGTAAGATTCGCCGTTGTG
26567160 GCTTCAATCTATTCCACT
1 GCTTCAATCTATTCCACT
26567178 GTAATGCCAA
Statistics
Matches: 163, Mismatches: 47, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
49 3 0.02
50 157 0.96
51 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
GCTTCAATCTATTCCACTACACAGCTAGGGAAGTAAGATTCGCCGTTGTG
Found at i:26567363 original size:40 final size:42
Alignment explanation
Indices: 26567311--26567419 Score: 150
Period size: 40 Copynumber: 2.6 Consensus size: 42
26567301 CTTCGATCTG
* * *
26567311 CTCCACTACTGCTTAGGGAGATAAGATCTATAAT-T-TCCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTATAATCTAACCTA
*
26567351 CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTATAAT-CT-AACCTA
26567395 CTCCACTGCTGCTCAGGGAGATAAG
1 CTCCACTGCTGCTCAGGGAGATAAG
26567420 GCTAGTGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 31 0.51
42 1 0.02
44 29 0.48
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
CTCCACTGCTGCTCAGGGAGATAAGATCTATAATCTAACCTA
Found at i:26567532 original size:44 final size:44
Alignment explanation
Indices: 26567311--26567790 Score: 165
Period size: 44 Copynumber: 11.2 Consensus size: 44
26567301 CTTCGATCTG
26567311 CTCCACTACTGCTTAGGGAGATAAGATCTATAAT-TT---CCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTA
* * * *
26567351 CTCCACTGCTGCTCAGGGAGATAAGGTCTATAATCCTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTA
* * * * * *
26567395 CTCCACTGCTGCTCAGGGAGATAAG-GCTAGTGGA--TTAAATCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTA-T-AATCTTCAACCTA
* *** * *
26567438 CTTCC-CTACTACCTT-GGGAGGATAAGAT-TCACCGTCTTCGATCTGA
1 C-TCCACTACT-GCTTAGGGA-GATAAGATCT-ATAATCTTCAACCT-A
* *
26567484 -TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTA
* * * * *
26567527 CTCCACTGCTGCTTAGGAAGATAGGAT-TCACAATCTTCAACTTA
1 CTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCAACCTA
* * * * *
26567571 TTCCAGTGCTGAC-CAGGGAGAT-AG------GA--TTC-ACCTA
1 CTCCACTACTG-CTTAGGGAGATAAGATCTATAATCTTCAACCTA
* * * *
26567605 TTCCACTACTGAC-CAGGGAGAT-AGAACTTACAATCTTCAACCTA
1 CTCCACTACTG-CTTAGGGAGATAAGATC-TATAATCTTCAACCTA
* * * * * *
26567649 TTCCACTGCTGATCAGGGAGATAGGA-CTCACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCAACCTA
* * * * *
26567693 TTCCACTGCTGAC-CAGGGAGATAGGAT-TCACAATCTTCAACCTA
1 CTCCACTACTG-CTTAGGGAGATAAGATCT-ATAATCTTCAACCTA
* * * * *
26567737 TTCCACTGCTGAC-CAGGGAGATAGGAT-TCACAATCTTCAACCTA
1 CTCCACTACTG-CTTAGGGAGATAAGATCT-ATAATCTTCAACCTA
*
26567781 TTCCACTACT
1 CTCCACTACT
26567791 TTCCAGGGAG
Statistics
Matches: 357, Mismatches: 48, Indels: 66
0.76 0.10 0.14
Matches are distributed among these distances:
34 26 0.07
35 3 0.01
37 1 0.00
40 31 0.09
41 2 0.01
43 25 0.07
44 247 0.69
45 21 0.06
46 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTA
Found at i:26567564 original size:88 final size:86
Alignment explanation
Indices: 26567300--26567564 Score: 211
Period size: 88 Copynumber: 3.1 Consensus size: 86
26567290 AGATTCGTTG
* *
26567300 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTT--CCTACTCCACTGCTGC
1 TCTTCGATCTGATCCACTACTGCTTAGGGAGATAAGATCTGTAATTTAACCTACTCCACTGCTGC
* * *
26567363 TCAGGGAGATAAGG--TCTATAA
66 TTAGGAAGAT-AGGATTC-ACAA
* * * * * * * * * *
26567384 TCCTCAACCT-ACTCCACTGCTGCTCAGGGAGATAAG-GCTAGTGGATTAAATCTACTTCC-CTA
1 TCTTCGATCTGA-TCCACTACTGCTTAGGGAGATAAGATCT-GT-AATTTAACCTAC-TCCACTG
* * * * **
26567446 CTACCTTGGGAGGATAAGATTCACCG
62 CT-GCTTAGGAAGATAGGATTCACAA
26567472 TCTTCGATCTGATCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCT
1 TCTTCGATCTGATCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTT-AACCTACTCCACTGCT
26567537 GCTTAGGAAGATAGGATTCACAA
64 GCTTAGGAAGATAGGATTCACAA
26567560 TCTTC
1 TCTTC
26567565 AACTTATTCC
Statistics
Matches: 130, Mismatches: 37, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
83 2 0.02
84 30 0.23
85 3 0.02
87 11 0.08
88 69 0.53
89 15 0.12
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (86 bp):
TCTTCGATCTGATCCACTACTGCTTAGGGAGATAAGATCTGTAATTTAACCTACTCCACTGCTGC
TTAGGAAGATAGGATTCACAA
Found at i:26567797 original size:44 final size:44
Alignment explanation
Indices: 26567600--26567801 Score: 325
Period size: 44 Copynumber: 4.6 Consensus size: 44
26567590 GATAGGATTC
* *
26567600 ACCTATTCCACTACTGACCAGGGAGATAGAACTT-ACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCA
* *
26567644 ACCTATTCCACTGCTGATCAGGGAGATAGGACTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
26567688 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
26567732 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* **
26567776 ACCTATTCCACTACTTTCCAGGGAGA
1 ACCTATTCCACTGCTGACCAGGGAGA
26567802 CAAGACTACT
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
43 1 0.01
44 147 0.99
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:26570392 original size:25 final size:25
Alignment explanation
Indices: 26570339--26570404 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
26570329 AAGAAAATCC
* *
26570339 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
26570364 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
26570389 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
26570405 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:26574200 original size:3 final size:3
Alignment explanation
Indices: 26574192--26574220 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26574182 CATGATCAAG
26574192 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
26574221 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:26574225 original size:3 final size:3
Alignment explanation
Indices: 26574219--26574260 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
26574209 CAACAACAAC
26574219 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26574261 GAAAAGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26574378 original size:4 final size:4
Alignment explanation
Indices: 26574369--26574414 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
26574359 TGGTAATGTG
26574369 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
26574415 CATCAAGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:26574505 original size:23 final size:22
Alignment explanation
Indices: 26574465--26574507 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
26574455 AAATTATAAA
*
26574465 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
26574487 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
26574508 GTGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:26574805 original size:20 final size:20
Alignment explanation
Indices: 26574776--26574813 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26574766 ATGGTGTTAA
* *
26574776 TAATATTAAAACAATTAATT
1 TAATAATAAAAAAATTAATT
26574796 TAATAATAAAAAAATTAA
1 TAATAATAAAAAAATTAA
26574814 AATAACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATAATAAAAAAATTAATT
Found at i:26575232 original size:23 final size:22
Alignment explanation
Indices: 26575189--26575246 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
26575179 AAAGGATATC
* *
26575189 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
26575210 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
26575233 TGCATATCATATCT
1 TACAAATCATATCT
26575247 AAGATTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:26580710 original size:47 final size:47
Alignment explanation
Indices: 26580641--26580734 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
26580631 TGGGTAAGAA
* *
26580641 GCCTTTTTTAGCATAAGAGAATTCTTCCCAGTTCTGTTTATATATTT
1 GCCTTATTTAGCATAAGAGAATTCTTCCCAGTTCTGTTCATATATTT
* *
26580688 GCCTTATTTAGCATAGGAGAATTCTTCCCAGTTTTGTTCATATATTT
1 GCCTTATTTAGCATAAGAGAATTCTTCCCAGTTCTGTTCATATATTT
26580735 TCTCATCCGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (47 bp):
GCCTTATTTAGCATAAGAGAATTCTTCCCAGTTCTGTTCATATATTT
Found at i:26588534 original size:23 final size:23
Alignment explanation
Indices: 26588508--26588553 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
26588498 ACTTTCTTAT
26588508 TGTAGTAATTTTCAGGG-TATTAC
1 TGTAGTAATTTTC-GGGATATTAC
26588531 TGTAGTAATTTTCGGGATATTAC
1 TGTAGTAATTTTCGGGATATTAC
26588554 AAGCACCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (23 bp):
TGTAGTAATTTTCGGGATATTAC
Found at i:26593912 original size:101 final size:102
Alignment explanation
Indices: 26593792--26593983 Score: 298
Period size: 101 Copynumber: 1.9 Consensus size: 102
26593782 AAAGTGATGG
* *
26593792 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGGATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TGGGATGATAATGGCCACATGTGTAGT
*
26593855 ACTATATGCAGGCTACTATGTGTACCAGATAGTTTCGA
65 ACTATATGCAGGCTACTATGTGAACCAGATAGTTTCGA
* * *
26593893 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATGGTAATGGCCACATGTGTTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATGGGATGATAATGGCCACATGTGTAGTA
*
26593958 CTATGTGCAGGCTACTATGTGAACCA
66 CTATATGCAGGCTACTATGTGAACCA
26593984 AACATCATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 7 0.09
101 38 0.46
102 37 0.45
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATGGGATGATAATGGCCACATGTGTAGTA
CTATATGCAGGCTACTATGTGAACCAGATAGTTTCGA
Found at i:26593916 original size:51 final size:49
Alignment explanation
Indices: 26593788--26593983 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 49
26593778 AGTGAAAGTG
* **
26593788 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGGATG-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-CAGATGT
* * *
26593837 ATAGGTCGCATGTGTAGTACTATATGCAGGCTACTATGTGTACCAGATAGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-GT
* * * ***
26593888 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-GT
* * * *
26593939 AATGGCCACATGTGTTGTACTATGTGCAGGCTACTATGTGAACCA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
26593984 AACATCATTT
Statistics
Matches: 116, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 5 0.04
50 37 0.32
51 73 0.63
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGT
Found at i:26594049 original size:45 final size:45
Alignment explanation
Indices: 26593985--26594073 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
26593975 TGTGAACCAA
* * *
26593985 ACATCATTTATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
26594030 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
26594074 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:26600744 original size:42 final size:42
Alignment explanation
Indices: 26600686--26600805 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
26600676 TAGTGAAGCC
*
26600686 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCT-GTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAAT-ACTGGTGAAATAA
*
26600728 ATTCAGAATTTACGTCTAGCAGGCTTAATACTGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATACTGGTGAAATAA
* * * *
26600770 ATTTAGACTATAAGTGTAGCAGGCTTAA-AGCTGGTG
1 ATTCAGACTTTACGTCTAGCAGGCTTAATA-CTGGTG
26600806 TACTGAATCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.04
42 66 0.96
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
ATTCAGACTTTACGTCTAGCAGGCTTAATACTGGTGAAATAA
Found at i:26602124 original size:28 final size:28
Alignment explanation
Indices: 26602084--26602140 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
26602074 TAAACTCGGA
26602084 TGCATTGACAATGTCCTCAACAGATTCT
1 TGCATTGACAATGTCCTCAACAGATTCT
26602112 TGCATTGACAATGTCCTCAACAGATTCT
1 TGCATTGACAATGTCCTCAACAGATTCT
26602140 T
1 T
26602141 TCTCAGTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (28 bp):
TGCATTGACAATGTCCTCAACAGATTCT
Found at i:26602154 original size:15 final size:15
Alignment explanation
Indices: 26602136--26602178 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
26602126 CCTCAACAGA
26602136 TTCTTTCTCAGTAGC
1 TTCTTTCTCAGTAGC
* **
26602151 TTCTATCTCAGTATT
1 TTCTTTCTCAGTAGC
*
26602166 TTCTTCCTCAGTA
1 TTCTTTCTCAGTA
26602179 TTCTCCCTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.09, T:0.49
Consensus pattern (15 bp):
TTCTTTCTCAGTAGC
Found at i:26618026 original size:16 final size:17
Alignment explanation
Indices: 26618007--26618040 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26617997 AAATATTATG
26618007 AAATAAAAAT-AAACAA
1 AAATAAAAATCAAACAA
*
26618023 AAATAAACATCAAACAA
1 AAATAAAAATCAAACAA
26618040 A
1 A
26618041 TTTCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:26626747 original size:12 final size:12
Alignment explanation
Indices: 26626722--26626760 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26626712 ACTCGCTTTT
* *
26626722 TTACTTACTCAC
1 TTACTTGCTTAC
*
26626734 TTACTTGTTTAC
1 TTACTTGCTTAC
26626746 TTACTTGCTTAC
1 TTACTTGCTTAC
26626758 TTA
1 TTA
26626761 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:26627081 original size:50 final size:50
Alignment explanation
Indices: 26627013--26627148 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
26627003 ACTACCAATT
* * ** * * *
26627013 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACG
** *
26627063 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACG
* * *
26627113 TCATGTCTCAGACATGGTCTTACATGAGACCTCTCA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCA
26627149 AAATCTCAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACG
Found at i:26629537 original size:21 final size:21
Alignment explanation
Indices: 26629511--26629573 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
26629501 TTGGTATTTG
26629511 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
26629532 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
26629553 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
26629574 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:26630722 original size:11 final size:9
Alignment explanation
Indices: 26630706--26630768 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 9
26630696 TTGAAAAGGT
26630706 TTGAGCTGAA
1 TTGAGCT-AA
26630716 GTTGAGCTAA
1 -TTGAGCTAA
*
26630726 TTCGAGCTCA
1 TT-GAGCTAA
26630736 TTGAGCTGAA
1 TTGAGCT-AA
26630746 GTTGAGCTAA
1 -TTGAGCTAA
*
26630756 TTCGAGCTCA
1 TT-GAGCTAA
26630766 TTG
1 TTG
26630769 CTTTTCGAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
9 10 0.22
10 21 0.47
11 14 0.31
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (9 bp):
TTGAGCTAA
Found at i:26630742 original size:30 final size:30
Alignment explanation
Indices: 26630706--26630768 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
26630696 TTGAAAAGGT
26630706 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
26630736 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
26630766 TTG
1 TTG
26630769 CTTTTCGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (30 bp):
TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
Found at i:26633780 original size:19 final size:20
Alignment explanation
Indices: 26633758--26633802 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
26633748 TTTTTCATTC
*
26633758 TCTTTTTTTGAATTTTC-TT
1 TCTTTTTTTCAATTTTCTTT
*
26633777 TCTTTTTTTCATTTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
26633797 TCTTTT
1 TCTTTT
26633803 GTATTTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (20 bp):
TCTTTTTTTCAATTTTCTTT
Found at i:26633817 original size:36 final size:33
Alignment explanation
Indices: 26633746--26633818 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 33
26633736 TTTTCTCATT
**
26633746 TTTTTTTCATTCTCTTTTTTTGAATTTTCTTTC
1 TTTTTTTCATTCTCTTTTTTTGAATTTTCGCTC
* *
26633779 TTTTTTTCATTTTTCTTTTCTTTTGTATTTTCGCTC
1 TTTTTTTCA-TTCTC-TTT-TTTTGAATTTTCGCTC
26633815 TTTT
1 TTTT
26633819 CTTTTTCTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 9 0.27
34 4 0.12
35 3 0.09
36 17 0.52
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.74
Consensus pattern (33 bp):
TTTTTTTCATTCTCTTTTTTTGAATTTTCGCTC
Found at i:26638654 original size:10 final size:10
Alignment explanation
Indices: 26638639--26638700 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
26638629 TTTGAACCAT
*
26638639 TACCAATTCG
1 TACCAATTCA
*
26638649 TACCAAATACCA
1 TACC-AAT-TCA
*
26638661 TACCATTTCA
1 TACCAATTCA
26638671 TACCAATTCCA
1 TACCAATT-CA
* *
26638682 TACCATTTCG
1 TACCAATTCA
26638692 TACCAATTC
1 TACCAATTC
26638701 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:26638684 original size:21 final size:21
Alignment explanation
Indices: 26638639--26638701 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
26638629 TTTGAACCAT
* *
26638639 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
26638661 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
26638682 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
26638702 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:26642718 original size:12 final size:12
Alignment explanation
Indices: 26642693--26642731 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26642683 ACTCACTTCT
* *
26642693 TTACTTACTCAC
1 TTACTTGCTTAC
*
26642705 TTACTTGTTTAC
1 TTACTTGCTTAC
26642717 TTACTTGCTTAC
1 TTACTTGCTTAC
26642729 TTA
1 TTA
26642732 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:26643125 original size:22 final size:22
Alignment explanation
Indices: 26643100--26643142 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26643090 CTCATGGCTA
26643100 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
26643122 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
26643143 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:26647714 original size:16 final size:15
Alignment explanation
Indices: 26647689--26647729 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
26647679 AGATTCAATC
26647689 CAAAAAAAAACACAA
1 CAAAAAAAAACACAA
26647704 CAAAAACAAAACACAA
1 CAAAAA-AAAACACAA
26647720 -AAACAAAAAA
1 CAAA-AAAAAA
26647730 AGGGGGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAACACAA
Found at i:26647719 original size:13 final size:14
Alignment explanation
Indices: 26647689--26647727 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
26647679 AGATTCAATC
*
26647689 CAAAAAAAAACACAA
1 CAAAAACAAA-ACAA
26647704 CAAAAACAAAAC-A
1 CAAAAACAAAACAA
26647717 CAAAAACAAAA
1 CAAAAACAAAA
26647728 AAAGGGGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAACAAAACAA
Found at i:26647730 original size:16 final size:16
Alignment explanation
Indices: 26647690--26647730 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
26647680 GATTCAATCC
26647690 AAAAAAAAACACAACA
1 AAAAAAAAACACAACA
*
26647706 AAAACAAAACACAA-A
1 AAAAAAAAACACAACA
26647721 AACAAAAAAA
1 AA-AAAAAAA
26647731 GGGGGGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACACAACA
Found at i:26647759 original size:19 final size:18
Alignment explanation
Indices: 26647737--26647778 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
26647727 AAAAGGGGGG
*
26647737 AAAAAGAAGAAAAAATAGA
1 AAAAAAAAGAAAAAA-AGA
*
26647756 AAAAAAAAGAGAAAAAGA
1 AAAAAAAAGAAAAAAAGA
26647774 AAAAA
1 AAAAA
26647779 CCCCGCTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAGA
Found at i:26648300 original size:8 final size:7
Alignment explanation
Indices: 26648270--26648302 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
26648260 AAAGATGTGA
26648270 AAAAATG
1 AAAAATG
26648277 -AAAATG
1 AAAAATG
26648283 AAAAATG
1 AAAAATG
26648290 AAAAATGG
1 AAAAAT-G
26648298 AAAAA
1 AAAAA
26648303 GTAAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:26648310 original size:15 final size:14
Alignment explanation
Indices: 26648270--26648302 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
26648260 AAAGATGTGA
26648270 AAAAATG-AAAATG
1 AAAAATGAAAAATG
26648283 AAAAATGAAAAATGG
1 AAAAATGAAAAAT-G
26648298 AAAAA
1 AAAAA
26648303 GTAAAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:26649698 original size:50 final size:50
Alignment explanation
Indices: 26649644--26650610 Score: 486
Period size: 50 Copynumber: 19.5 Consensus size: 50
26649634 GTAGCGGAGC
* * *
26649644 AGATTGAAGTTACAACGGCAGATCTAGTTTCCCCGACAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * **
26649694 AGATTGAAGTCACAACGGCGGATCTTA-CTTCCCTGGCAATGCAATGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* *
26649744 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * **
26649793 AGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGGC-GATGCAATGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAG-TGCAATTGAAA
* * * *
26649843 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGCCAGCGTAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * * * * **
26649892 AGATTGAGGCCACAACGGCGGATCTTA-CTTCCCTGGCAATGCAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * * *
26649942 AGATTAAAGTCACAATGGCAGATCTGGTTCCCCCGACAGTGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * **
26649991 AGATTGAAGCCACAACGGCGGATCTTA-CTT-CCCTAGC-GATGCAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGA-CAG-TGCAATTGAAA
* * *
26650041 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * *** **
26650090 AGATTGAAGCCACAACGACGGATCTTA-CTT-CCCTAGCGGTGCAGCGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGA-CAGTGCAATTGAAA
* ** *
26650140 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCTGACAACGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * ** *** **
26650190 AGATTGAAGCCACAACGGCAGATCTTA-TTTCCCTGGTAGTGCAGCGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * *
26650240 AGATTGAAGTCACAACGGTAGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * ** * * * * * * **
26650289 AGGATTGAAGCCACAGCGGTGGATCTTA-CTTCCCTGGCGGTGCAGTGGAGC
1 A-GATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * *
26650340 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATT-AAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * * * **
26650389 AG---GATGCCACAGCGGCGGATCTTA-CTT-CCCTAGCAGTGCAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGA-CAGTGCAATTGAAA
* * * * * *
26650436 AGATTGAAGTCACAACGACAGATCTGGTTTTCCCGATAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * * * **
26650486 AGATTGAAGCCACAACGGCAGATCTTA-CTTCCCTGGCGGTACAGTGGAGC
1 AGATTGAAGTCACAACGGCAGATC-TAGTTTCCCCGACAGTGCAATTGAAA
* * * * * * *
26650536 AGATTGAAGTCACAGCGGCAGATTTGGTTTCCTCGATAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
* *
26650586 AGATTGAAGCCACAACGGCGGATCT
1 AGATTGAAGTCACAACGGCAGATCT
26650611 TACCTCCTTA
Statistics
Matches: 648, Mismatches: 231, Indels: 76
0.68 0.24 0.08
Matches are distributed among these distances:
45 4 0.01
46 25 0.04
47 4 0.01
48 10 0.02
49 141 0.22
50 443 0.68
51 21 0.03
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (50 bp):
AGATTGAAGTCACAACGGCAGATCTAGTTTCCCCGACAGTGCAATTGAAA
Found at i:26650693 original size:100 final size:99
Alignment explanation
Indices: 26649639--26650644 Score: 1464
Period size: 99 Copynumber: 10.1 Consensus size: 99
26649629 GCGTTGTAGC
* * *
26649639 GGAGCAGATTGAAGTTACAACGGCAGATCTAGTTTCCCCGACAGCGCAATTAAAAAGATTGAAGT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* *
26649704 CACAACGGCGGATCTTACTTCCCTGGCAATGCAAT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
26649739 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
26649804 ACAACGGCGGATCTTACTTCCCTGGC-GATGCAAT
66 ACAACGGCGGATCTTACTTCCCTGGCAG-TGCAGT
* * *
26649838 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGCCAGCGTAATTAAAAGATTGAGGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
26649903 ACAACGGCGGATCTTACTTCCCTGGCAATGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * * *
26649937 GGAGCAGATTAAAGTCACAATGGCAGATCTGGTTCCCCCGACAGTGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
*
26650002 ACAACGGCGGATCTTACTTCCCTAGC-GATGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCAG-TGCAGT
*
26650036 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
* * * *
26650101 ACAACGACGGATCTTACTTCCCTAGCGGTGCAGC
66 ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * *
26650135 GGAGCAGATTGAAGTCACAACGGCAGATCTAGTTTCCCTGACAACGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* * * *
26650200 CACAACGGCAGATCTTATTTCCCTGGTAGTGCAGC
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
*
26650235 GGAGCAGATTGAAGTCACAACGGTAGATCTGGTTTCCCCGACAGCGCAATTAAAAGGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAA-GATTGAAGC
* * *
26650300 CACAGCGGTGGATCTTACTTCCCTGGCGGTGCAGT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* *
26650335 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTAAAAG---GATGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
* *
26650397 ACAGCGGCGGATCTTACTTCCCTAGCAGTGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * *
26650431 GGAGCAGATTGAAGTCACAACGACAGATCTGGTTTTCCCGATAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* * *
26650496 CACAACGGCAGATCTTACTTCCCTGGCGGTACAGT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* * * *
26650531 GGAGCAGATTGAAGTCACAGCGGCAGATTTGGTTTCCTCGATAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGC
* * *
26650596 CACAACGGCGGATCTTACCTCCTTAGCAGTGCAGT
65 CACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
* *
26650631 TGAACAGATTGAAG
1 GGAGCAGATTGAAG
26650645 CTACGACGGC
Statistics
Matches: 821, Mismatches: 75, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
96 83 0.10
97 5 0.01
99 369 0.45
100 364 0.44
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (99 bp):
GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
ACAACGGCGGATCTTACTTCCCTGGCAGTGCAGT
Found at i:26652125 original size:3 final size:3
Alignment explanation
Indices: 26652117--26652171 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
26652107 TGTTTATTTA
*
26652117 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26652162 ATAT TAT TAT
1 -TAT TAT TAT
26652172 ACTTACTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 3 0.07
3 35 0.78
4 5 0.11
5 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:26652139 original size:22 final size:22
Alignment explanation
Indices: 26652090--26652171 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
26652080 TTTTTATATA
* *
26652090 TATTACATTATTAATACTGT-T
1 TATTATATTATTATTACTGTAT
26652111 TATTTATATTATTATTACTGTAT
1 TA-TTATATTATTATTACTGTAT
* *
26652134 TATTATTAGTTTATTATTATTATAT
1 TATTA-TA--TTATTATTACTGTAT
26652159 TA-TATATTATTAT
1 TATTATATTATTAT
26652172 ACTTACTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
21 9 0.17
22 19 0.37
23 7 0.13
24 2 0.04
25 15 0.29
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTATATTATTATTACTGTAT
Found at i:26652161 original size:14 final size:14
Alignment explanation
Indices: 26652117--26652170 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
26652107 TGTTTATTTA
*
26652117 TATTATTATTACTG
1 TATTATTATTACTT
*
26652131 TATTATTATTAGTT
1 TATTATTATTACTT
26652145 TATTATTATTA-TAT
1 TATTATTATTACT-T
26652159 TATATATTATTA
1 TAT-TATTATTA
26652171 TACTTACTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 1 0.03
14 27 0.75
15 8 0.22
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (14 bp):
TATTATTATTACTT
Found at i:26670433 original size:23 final size:25
Alignment explanation
Indices: 26670376--26670459 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 25
26670366 GAGCCATGAT
26670376 CGGTAAGCTCATTCTGAGCTGATAAA
1 CGGTAAGCTCATTCTGAGCTGA-AAA
26670402 CGGTAAGCTC-TATC-GAGCTG-AAA
1 CGGTAAGCTCAT-TCTGAGCTGAAAA
* ** **
26670425 TGGTAAGCTCCGT-AAAGCT-AAAA
1 CGGTAAGCTCATTCTGAGCTGAAAA
26670448 CGGTAAGCTCAT
1 CGGTAAGCTCAT
26670460 ACAAGTTGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
23 29 0.60
25 7 0.15
26 12 0.25
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
CGGTAAGCTCATTCTGAGCTGAAAA
Found at i:26673083 original size:19 final size:21
Alignment explanation
Indices: 26673047--26673085 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
26673037 AACTAGATGA
*
26673047 GAGAGAAAATAAGTGAAAATG
1 GAGAGAAAATAAGAGAAAATG
26673068 GAGAG-AAA-AAGAGAAAAT
1 GAGAGAAAATAAGAGAAAAT
26673086 ATGGAGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (21 bp):
GAGAGAAAATAAGAGAAAATG
Found at i:26674285 original size:29 final size:29
Alignment explanation
Indices: 26674243--26674362 Score: 152
Period size: 29 Copynumber: 4.1 Consensus size: 29
26674233 ATCGATGCTT
* *
26674243 ATCGAATATGAAAAGGGATGATTTCGACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
** *
26674272 ATCGAATATGAAAAGGGATGGTGACAACT
1 ATCGAATATGAAAAGGGATGGTTTCAACC
* *
26674301 ATCGAATATGAAAAGGGATGGTGAT-GACC
1 ATCGAATATGAAAAGGGATGGT-TTCAACC
*
26674330 ATCGAATATGAAAGGGGATGGTTTCAACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
26674359 ATCG
1 ATCG
26674363 TTTAGCACAC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.01
29 76 0.99
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTTCAACC
Found at i:26674312 original size:58 final size:58
Alignment explanation
Indices: 26674242--26674351 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
26674232 TATCGATGCT
*
26674242 TATCGAATATGAAAAGGGATGAT-TTCGACCATCGAATATGAAAAGGGATGGTGACAAC
1 TATCGAATATGAAAAGGGATGATGAT-GACCATCGAATATGAAAAGGGATGGTGACAAC
* *
26674300 TATCGAATATGAAAAGGGATGGTGATGACCATCGAATATGAAAGGGGATGGT
1 TATCGAATATGAAAAGGGATGATGATGACCATCGAATATGAAAAGGGATGGT
26674352 TTCAACCATC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
58 47 0.98
59 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.23
Consensus pattern (58 bp):
TATCGAATATGAAAAGGGATGATGATGACCATCGAATATGAAAAGGGATGGTGACAAC
Found at i:26685153 original size:38 final size:39
Alignment explanation
Indices: 26685102--26685177 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
26685092 CTCATAGTTC
*
26685102 ACCAACATGTTTGGTC-TTTGCAGTTAGGTGACATGATG
1 ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGATG
*
26685140 ACCAACATGTTTGGTCTTTTGCAATTAGTTGACATGAT
1 ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGAT
26685178 CAGTTGTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 16 0.46
39 19 0.54
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (39 bp):
ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGATG
Found at i:26687352 original size:32 final size:30
Alignment explanation
Indices: 26687315--26687417 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 30
26687305 TTAATTAATT
26687315 TAATATTAAATTAATATAATACTTATCAAGA
1 TAATATTAAATTAATATAATAC-TATCAAGA
* *
26687346 TGAATATTAGATTAAATTTAATA-T-T-AAGA
1 T-AATATTAAATT-AATATAATACTATCAAGA
* *
26687375 T-A-ATTAATTTAATAAAATACTATCAAGA
1 TAATATTAAATTAATATAATACTATCAAGA
26687403 TAAGTATTAAATTAA
1 TAA-TATTAAATTAA
26687418 ATTAAATGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
25 7 0.12
26 7 0.12
27 2 0.04
28 5 0.09
29 6 0.11
30 1 0.02
31 11 0.19
32 10 0.18
33 8 0.14
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (30 bp):
TAATATTAAATTAATATAATACTATCAAGA
Found at i:26687420 original size:57 final size:58
Alignment explanation
Indices: 26687319--26687429 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
26687309 TTAATTTAAT
* * *
26687319 ATTAAATTAATATAATACTTATCAAGATGAATATTAGATTAAATTTAATATTAAGATA
1 ATTAAATTAATAAAATACTTATCAAGATGAATATTAAATTAAATTAAATATTAAGATA
* *
26687377 ATTAATTTAATAAAATAC-TATCAAGAT-AAGTATTAAATTAAATTAAATGTTAA
1 ATTAAATTAATAAAATACTTATCAAGATGAA-TATTAAATTAAATTAAATATTAA
26687430 ATTTATTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 2 0.04
57 29 0.62
58 16 0.34
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (58 bp):
ATTAAATTAATAAAATACTTATCAAGATGAATATTAAATTAAATTAAATATTAAGATA
Found at i:26688838 original size:45 final size:45
Alignment explanation
Indices: 26688698--26688828 Score: 244
Period size: 45 Copynumber: 2.9 Consensus size: 45
26688688 TACTAAGTAT
26688698 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
*
26688743 CATTGATTAGAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
*
26688788 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCGG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGG
26688829 AAATTATTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
Found at i:26693115 original size:101 final size:101
Alignment explanation
Indices: 26692897--26693150 Score: 345
Period size: 101 Copynumber: 2.5 Consensus size: 101
26692887 TCATTTAACT
* * *
26692897 ATTATCATTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTTC
1 ATTATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTTCTCGGTAC
* *
26692962 ACGTAGTAGCCTGCACATAGTACTACACACGTGACC
66 ACATAGTAGCCTGCACATAGTACTACACACGCGACC
* * *
26692998 ATTAAT-ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACTTGATCGAAGCTATCT-GG
1 ATT-ATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACT-TCTCGG
* *
26693061 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACC
63 TACACATAGTAGCCTGCACATAGTACTACACACGCGACC
*
26693100 -TT-TCATTCTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGATCA
1 ATTATCATTC-GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCA
26693151 TCACTTTCAT
Statistics
Matches: 136, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 5 0.04
101 86 0.63
102 42 0.31
103 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (101 bp):
ATTATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTTCTCGGTAC
ACATAGTAGCCTGCACATAGTACTACACACGCGACC
Found at i:26697802 original size:18 final size:19
Alignment explanation
Indices: 26697776--26697811 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26697766 ATTTCTATGA
*
26697776 TGAATAAGAAA-GAGAGAT
1 TGAAAAAGAAACGAGAGAT
26697794 TGAAAAAGAAACGAGAGA
1 TGAAAAAGAAACGAGAGA
26697812 AGAAGAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.58, C:0.03, G:0.28, T:0.11
Consensus pattern (19 bp):
TGAAAAAGAAACGAGAGAT
Found at i:26699972 original size:33 final size:34
Alignment explanation
Indices: 26699935--26700003 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
26699925 TGAATACACT
**
26699935 CTCCCAAG-CTATTCGAGAACTTGAAGTGTCAAG
1 CTCCCAAGACTATTCGAGAACTCCAAGTGTCAAG
* * *
26699968 CTCCCAAGACTGTTCGGGAACTCCAATTGTCAAG
1 CTCCCAAGACTATTCGAGAACTCCAAGTGTCAAG
26700002 CT
1 CT
26700004 GATCATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 8 0.27
34 22 0.73
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (34 bp):
CTCCCAAGACTATTCGAGAACTCCAAGTGTCAAG
Found at i:26702760 original size:51 final size:49
Alignment explanation
Indices: 26702684--26702872 Score: 216
Period size: 51 Copynumber: 3.8 Consensus size: 49
26702674 TATAAACACG
* * *
26702684 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-AGAT-TTGGTCACA
* * *
26702735 TGTGTAGTACTATGTGGAGGCTACTATGTGTACCAGAAGTCTTTGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAG-ATTTGGTCACA
* * * * **
26702786 TGTGTAGTACTATGTGCAGGCTACAACGTGAACCGAAAAGTTTGATCAGG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGA-TTTGGTCACA
*
26702836 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
26702873 TGATAATAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 44 0.38
51 70 0.60
52 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGATTTGGTCACA
Found at i:26711965 original size:51 final size:50
Alignment explanation
Indices: 26711910--26712047 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 50
26711900 CGATAGATAA
* * * * * *
26711910 TGGTCACATGTGTAGTAGTATGTGCAGACTACTATGTGTACCGGAAGGCTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TT
* *
26711961 TGGTCACGTGTGTTGTACTATGTACAGGCTACTACGTGAACCGGAAAGTT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAGTT
* * *
26712011 TGATCAGGTGTGTAGTACTATGTGAAGGCTACTACGT
1 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGT
26712048 ATATCGAATG
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 34 0.46
51 40 0.54
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAGTT
Found at i:26713854 original size:27 final size:28
Alignment explanation
Indices: 26713823--26713885 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
26713813 TGGAAGTTGT
* *
26713823 GTTCGCTAGTTTGTTTGGTGAGTT-GGG
1 GTTCGCCAGTTTGTTTGGTGACTTGGGG
26713850 GTTCGCCAGTTTGTTTGGTGACTTGGGG
1 GTTCGCCAGTTTGTTTGGTGACTTGGGG
26713878 GTTCGCCA
1 GTTCGCCA
26713886 ATTGAGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.08, C:0.14, G:0.38, T:0.40
Consensus pattern (28 bp):
GTTCGCCAGTTTGTTTGGTGACTTGGGG
Found at i:26716069 original size:50 final size:50
Alignment explanation
Indices: 26715893--26716071 Score: 207
Period size: 50 Copynumber: 3.6 Consensus size: 50
26715883 ATTTGGGTAA
* * * *
26715893 AGAGATCCCATGTAAGAACATGTCTAGGACATGGCGTTAGCACCGAGATG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
26715943 AGAGGTCTCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAGATG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
26715993 AGAGGTTCCC-CGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATG
1 AGA-GCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
26716043 AGAACTCCCATGTAAGACCATATCTGGGA
1 AGAGCTCCCATGTAAGACCATGTCTGGGA
26716072 TATGTCATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 4 0.04
50 102 0.93
51 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:26717813 original size:24 final size:24
Alignment explanation
Indices: 26717759--26717813 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
26717749 ACATGTAACT
* *
26717759 GATAAGATAAGATAAGTTTGTTAA
1 GATAAGTTAAGATAAGTATGTTAA
**
26717783 GCCAAGTTAAGATAAGTATGTTAA
1 GATAAGTTAAGATAAGTATGTTAA
26717807 GATAAGT
1 GATAAGT
26717814 GCGAGAATGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (24 bp):
GATAAGTTAAGATAAGTATGTTAA
Found at i:26720817 original size:12 final size:12
Alignment explanation
Indices: 26720800--26720829 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26720790 AGCCACACGC
26720800 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
26720812 CCGTGTGCTAGG
1 CCGTGTGCCAGG
26720824 CCGTGT
1 CCGTGT
26720830 AACTGCCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:26726437 original size:40 final size:40
Alignment explanation
Indices: 26726382--26726457 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
26726372 GATGCATAAA
*
26726382 AGGGGCACCAAAGTGCAATCA-GGAGCACGAATGTGCGATC
1 AGGGGCACCAAAGTGCAATCAGGGA-CACAAATGTGCGATC
* *
26726422 AGGGGCACCGAAGTGCAATTAGGGACACAAATGTGC
1 AGGGGCACCAAAGTGCAATCAGGGACACAAATGTGC
26726458 TTTCCAGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.13
Consensus pattern (40 bp):
AGGGGCACCAAAGTGCAATCAGGGACACAAATGTGCGATC
Found at i:26726445 original size:20 final size:20
Alignment explanation
Indices: 26726382--26726445 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
26726372 GATGCATAAA
*
26726382 AGGGGCACCAAAGTGCAATC
1 AGGGGCACCGAAGTGCAATC
* *
26726402 AGGAGCA-CGAATGTGCGATC
1 AGGGGCACCGAA-GTGCAATC
*
26726422 AGGGGCACCGAAGTGCAATT
1 AGGGGCACCGAAGTGCAATC
26726442 AGGG
1 AGGG
26726446 ACACAAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 3 0.08
20 29 0.81
21 4 0.11
ACGTcount: A:0.31, C:0.20, G:0.36, T:0.12
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAATC
Found at i:26726475 original size:40 final size:39
Alignment explanation
Indices: 26726442--26726524 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
26726432 AAGTGCAATT
* *
26726442 AGGGACACAAATGTGCT-TTCCAGGGTGCTGAAGTACAAC
1 AGGGACACAAATGTG-TATTCAAGGGTGCCGAAGTACAAC
* *
26726481 AGGGGCACAGATGTGTATTCAAGGGTGCCGAAGTACAAAC
1 AGGGACACAAATGTGTATTCAAGGGTGCCGAAGTAC-AAC
26726521 AGGG
1 AGGG
26726525 GCACTTCTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.03
39 30 0.79
40 7 0.18
ACGTcount: A:0.31, C:0.18, G:0.33, T:0.18
Consensus pattern (39 bp):
AGGGACACAAATGTGTATTCAAGGGTGCCGAAGTACAAC
Found at i:26746407 original size:60 final size:58
Alignment explanation
Indices: 26746329--26746492 Score: 168
Period size: 60 Copynumber: 2.8 Consensus size: 58
26746319 CTAAATATGA
* * * *
26746329 GGATCAACATCTTAACCATTCAAATTATCATTTAGACCAGGTATCACCCTACAAACAGG
1 GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGG-ATCACCCTACAAACAGG
* * * * *
26746388 AGGA-TCACTATCCTGACCATTCAAGTTATCATTCAGACTAGGCATCACCCTACGAATAGG
1 -GGATTAAC-ATCCTGACCATTCAAATTATCATTCAGACCAGG-ATCACCCTACAAACAGG
* * * *
26746448 GGATTAACATCTTGGCCATTCATATTATCATTGAGACCAGGATCA
1 GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGGATCA
26746493 TTCCCGTTGC
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
58 4 0.05
59 32 0.38
60 49 0.58
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (58 bp):
GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGGATCACCCTACAAACAGG
Found at i:26755879 original size:63 final size:63
Alignment explanation
Indices: 26755694--26755915 Score: 245
Period size: 63 Copynumber: 3.6 Consensus size: 63
26755684 AGACACCACA
* * * *
26755694 TTGTGGCCAAGCCACT-AATATAGCAGACAAGCTGCACATTGTGGTCAAACTACTCAATAATG
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
* * * * * *
26755756 TTGGGGCTAAGCCACTCAATATTGCAGACAAGCTGCACATTCTGGATAAGCCATTCAATAATG
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
* * * ** * *
26755819 TTGTGGCCGAGCCACTCAATATTGCAGATAAGCTACATGTTGTGGACAAGCAACTGAATAACG
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
* *
26755882 TTGTGGCCAAG---CTAAATATTGCAGACAAGTTGCA
1 TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCA
26755916 TAATGTTGTG
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
60 19 0.14
62 14 0.11
63 99 0.75
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (63 bp):
TTGTGGCCAAGCCACTCAATATTGCAGACAAGCTGCACATTGTGGACAAGCAACTCAATAATG
Found at i:26756052 original size:33 final size:33
Alignment explanation
Indices: 26756008--26756076 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
26755998 GGGCATGCTT
*
26756008 AACATGCGAATCAGATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
* *
26756041 AACATGTGAATCAAATTTATAGTCAACATAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
26756074 AAC
1 AAC
26756077 GTGCTCAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAGTC
Found at i:26756099 original size:18 final size:18
Alignment explanation
Indices: 26756063--26756105 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26756053 AAATTTATAG
*
26756063 TCAACATAGTCAACGTGC
1 TCAACATAGTCAACATGC
*
26756081 TCAACATAGTCAATATGC
1 TCAACATAGTCAACATGC
*
26756099 TTAACAT
1 TCAACAT
26756106 GAAAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (18 bp):
TCAACATAGTCAACATGC
Done.