Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015186.1 Kokia drynarioides strain JFW-HI SEQ_130230, whole genome shotgun sequence
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: 400691
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 303 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:615 original size:14 final size:15
Alignment explanation
Indices: 587--619 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
577 TTATTTAAAA
*
587 TTATAAAATTAATTT
1 TTATAAAAATAATTT
602 TTATAAAAAT-ATTT
1 TTATAAAAATAATTT
616 TTAT
1 TTAT
620 TTTTCCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAAAAATAATTT
Found at i:2953 original size:22 final size:22
Alignment explanation
Indices: 2925--3170 Score: 358
Period size: 22 Copynumber: 11.4 Consensus size: 22
2915 ACGCTAGAGC
2925 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
2947 GCTTCTG-T----ACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
*
2964 GCTTTTGTTCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
2986 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
3008 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
* *
3030 GCTTTTGATCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
*
3052 GCTTCTGTTCAGCACTATGTGT
1 GCTTCTGTTCAGCACTGTGTGT
* *
3074 GCTTTTGATCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
*
3096 GCTTCTGTTCAGCACTATGTGT
1 GCTTCTGTTCAGCACTGTGTGT
* *
3118 GCTTTTGTTCAGCACTATGTGT
1 GCTTCTGTTCAGCACTGTGTGT
* *
3140 GCTTCTGTTCAACGCTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
3162 GCTTCTGTT
1 GCTTCTGTT
3171 TCCCCAGCAG
Statistics
Matches: 201, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.07
18 1 0.00
21 1 0.00
22 184 0.92
ACGTcount: A:0.11, C:0.21, G:0.26, T:0.43
Consensus pattern (22 bp):
GCTTCTGTTCAGCACTGTGTGT
Found at i:5235 original size:21 final size:21
Alignment explanation
Indices: 5211--5262 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
5201 CTTGACAGTT
*
5211 CTACCGATACAAGTGATGCAA
1 CTACCGATACAAGTGATACAA
* *
5232 CTACCGATACAAGTTATACTA
1 CTACCGATACAAGTGATACAA
5253 CTACCGATAC
1 CTACCGATAC
5263 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (21 bp):
CTACCGATACAAGTGATACAA
Found at i:5419 original size:116 final size:116
Alignment explanation
Indices: 5299--5547 Score: 367
Period size: 116 Copynumber: 2.1 Consensus size: 116
5289 CTACCCTGCA
* * *
5299 ACTTCTACTGATACAAGTATTTAAACTACCGATACCTCAATGTACAGAACTATC-GATACCTGTT
1 ACTTCTACTGATACAAGCATTTAAACTACCGATACCTCAATATACAAAACTA-CAGATACCTGTT
5363 ATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCTCGTACCCTAT
65 ATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCTCGTACCCTAT
* *
5415 ACTTCTA-TCGATACAAGCATTTAAACTACTGATACCTCGATATACAAAACTACAGATACCTGTT
1 ACTTCTACT-GATACAAGCATTTAAACTACCGATACCTCAATATACAAAACTACAGATACCTGTT
* * * * *
5479 ATTCAACTACCGAAACAACTTAAGTTAGAGAACAACCTCTCTCTTACCCTGT
65 ATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCTCGTACCCTAT
*
5531 ACTTCTACCGATACAAG
1 ACTTCTACTGATACAAG
5548 AATGAATTCT
Statistics
Matches: 119, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
115 2 0.02
116 117 0.98
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (116 bp):
ACTTCTACTGATACAAGCATTTAAACTACCGATACCTCAATATACAAAACTACAGATACCTGTTA
TACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCTCGTACCCTAT
Found at i:6092 original size:35 final size:34
Alignment explanation
Indices: 6031--6103 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 34
6021 ACTTCAGTGA
*
6031 TCATTATTCATTTTACTCCCTGTTGACCCAAAGG
1 TCATTATTCATTTTACTCCCTATTGACCCAAAGG
6065 TCATTATGCTCATTTT-CTCCCTATTGACCCAAAGG
1 TCATTAT--TCATTTTACTCCCTATTGACCCAAAGG
6100 TCAT
1 TCAT
6104 GCCTGTTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 7 0.19
35 22 0.61
36 7 0.19
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.38
Consensus pattern (34 bp):
TCATTATTCATTTTACTCCCTATTGACCCAAAGG
Found at i:12510 original size:44 final size:46
Alignment explanation
Indices: 12424--12517 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
12414 GGTTCGCTGT
* *
12424 AATGGAATAGGGCTATAATCAGTATTTTAGTTGTTTGGTTGAATGA
1 AATGGAATAGAGCTATAATCAGTATTTTAGTTATTTGGTTGAATGA
* * *
12470 AATGGAATAGAGCTGTAAT-AGTATTTTTG-TATTTGGTTGAATGG
1 AATGGAATAGAGCTATAATCAGTATTTTAGTTATTTGGTTGAATGA
12514 AATG
1 AATG
12518 ATGCTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 17 0.40
45 9 0.21
46 17 0.40
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (46 bp):
AATGGAATAGAGCTATAATCAGTATTTTAGTTATTTGGTTGAATGA
Found at i:12774 original size:58 final size:58
Alignment explanation
Indices: 12612--12829 Score: 229
Period size: 58 Copynumber: 3.8 Consensus size: 58
12602 TTGTTAAATT
* * *
12612 TTAATA-AGATTATTATTAAATAT-AATTTAATAAAAA--ATAAATATTATAATCATATT-
1 TTAATATA-ATTATTATAAAATATGAATTTAATAAAAATCAT-AATATT-TAATAACATTC
* * * * *
12668 TTAATTTGATTATTATTAAATA-CAATTTAAT-AAAATAATATATAATTTAATAACATTC
1 TTAATATAATTATTATAAAATATGAATTTAATAAAAATCATA-AT-ATTTAATAACATTC
12726 TTAATATAATTATTACTAAAATATGAA-TTAATAAAAATCATAATATTTAATAACATTC
1 TTAATATAATTATTA-TAAAATATGAATTTAATAAAAATCATAATATTTAATAACATTC
*
12784 TTAATATAATTATTATTAAAATATGAA-TTAAGAAAAATCATAATAT
1 TTAATATAATTATTA-TAAAATATGAATTTAATAAAAATCATAATAT
12830 ATAAAATTAG
Statistics
Matches: 141, Mismatches: 11, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
55 4 0.03
56 28 0.20
57 12 0.09
58 74 0.52
59 13 0.09
60 10 0.07
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (58 bp):
TTAATATAATTATTATAAAATATGAATTTAATAAAAATCATAATATTTAATAACATTC
Found at i:13037 original size:14 final size:14
Alignment explanation
Indices: 13002--13028 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12992 ATTCAAACAA
13002 AATCTATATGTTAT
1 AATCTATATGTTAT
13016 AATCTATATGTTA
1 AATCTATATGTTA
13029 AATTTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
AATCTATATGTTAT
Found at i:33457 original size:20 final size:20
Alignment explanation
Indices: 33419--33457 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33409 AAGTTTGGAT
*
33419 TAAATGTTATTTTTCATCTC
1 TAAATGTTATTTTTAATCTC
33439 TAAAT-TTATTCTTTAATCT
1 TAAATGTTATT-TTTAATCT
33458 TACTTAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
TAAATGTTATTTTTAATCTC
Found at i:33836 original size:20 final size:20
Alignment explanation
Indices: 33797--33836 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33787 AAAATATATA
*
33797 TTTTTAAAAAAATTATAAAG
1 TTTTTAAAAAAATTACAAAG
* *
33817 TTTTTTAAAAAATTCCAAAG
1 TTTTTAAAAAAATTACAAAG
33837 AATATATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTTTAAAAAAATTACAAAG
Found at i:36444 original size:2 final size:2
Alignment explanation
Indices: 36437--36466 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36427 GTTATCATTT
36437 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36467 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:36655 original size:21 final size:22
Alignment explanation
Indices: 36631--36683 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
36621 TTGTGCTAAC
36631 TCTACCGATACAAGT-ATG-AA
1 TCTACCGATACAAGTCATGCAA
36651 TTCTACCGATACAAGTCATGCAA
1 -TCTACCGATACAAGTCATGCAA
36674 -CTACCGATAC
1 TCTACCGATAC
36684 CAAAAACTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 25 0.83
22 3 0.10
23 2 0.07
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (22 bp):
TCTACCGATACAAGTCATGCAA
Found at i:37176 original size:17 final size:17
Alignment explanation
Indices: 37151--37192 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
37141 TAGTGTGATG
* *
37151 TCTTTAAGACGATTCTA
1 TCTTCAAGACGATTCGA
*
37168 TCTTCAAGACGATTGGA
1 TCTTCAAGACGATTCGA
37185 TCTTCAAG
1 TCTTCAAG
37193 TCGCAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (17 bp):
TCTTCAAGACGATTCGA
Found at i:46918 original size:58 final size:58
Alignment explanation
Indices: 46825--46934 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
46815 CATCTCGGCG
**
46825 CTTCCATAAACCCTTTGGGCTCTTGATAGAGATGAGGCACATCTTCTACATTCGGGTC
1 CTTCCATAAACCCTTTGGGCTCTCAATAGAGATGAGGCACATCTTCTACATTCGGGTC
* * * * *
46883 CTTCCATGAACCCTTTGGGCTGTCAAT-GAATATGAGTCATATCTTCTACATT
1 CTTCCATAAACCCTTTGGGCTCTCAATAG-AGATGAGGCACATCTTCTACATT
46935 TGGCCCTCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 1 0.02
58 43 0.98
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (58 bp):
CTTCCATAAACCCTTTGGGCTCTCAATAGAGATGAGGCACATCTTCTACATTCGGGTC
Found at i:56031 original size:5 final size:5
Alignment explanation
Indices: 56017--56046 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
56007 ACGATCAAAG
56017 TATA- TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
56047 GGTGTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:66562 original size:167 final size:167
Alignment explanation
Indices: 66286--66619 Score: 668
Period size: 167 Copynumber: 2.0 Consensus size: 167
66276 CACCATACTT
66286 AAAATAAACGTGGATGAAATGGGACCCTAAGTTTTATTATTGTTTTTATTTTGTTGATGGCCTGC
1 AAAATAAACGTGGATGAAATGGGACCCTAAGTTTTATTATTGTTTTTATTTTGTTGATGGCCTGC
66351 AAAGTTGGAAACATCCAATTTGTTACATTTCAGGCAACGTCCCATCTTCCTATTATTATTATTAT
66 AAAGTTGGAAACATCCAATTTGTTACATTTCAGGCAACGTCCCATCTTCCTATTATTATTATTAT
66416 TATTATTATCAGCCGTAGTAGTGCTTAAAGACCGCAA
131 TATTATTATCAGCCGTAGTAGTGCTTAAAGACCGCAA
66453 AAAATAAACGTGGATGAAATGGGACCCTAAGTTTTATTATTGTTTTTATTTTGTTGATGGCCTGC
1 AAAATAAACGTGGATGAAATGGGACCCTAAGTTTTATTATTGTTTTTATTTTGTTGATGGCCTGC
66518 AAAGTTGGAAACATCCAATTTGTTACATTTCAGGCAACGTCCCATCTTCCTATTATTATTATTAT
66 AAAGTTGGAAACATCCAATTTGTTACATTTCAGGCAACGTCCCATCTTCCTATTATTATTATTAT
66583 TATTATTATCAGCCGTAGTAGTGCTTAAAGACCGCAA
131 TATTATTATCAGCCGTAGTAGTGCTTAAAGACCGCAA
66620 TCTCTAATTC
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 167 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (167 bp):
AAAATAAACGTGGATGAAATGGGACCCTAAGTTTTATTATTGTTTTTATTTTGTTGATGGCCTGC
AAAGTTGGAAACATCCAATTTGTTACATTTCAGGCAACGTCCCATCTTCCTATTATTATTATTAT
TATTATTATCAGCCGTAGTAGTGCTTAAAGACCGCAA
Found at i:68331 original size:19 final size:21
Alignment explanation
Indices: 68307--68346 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
68297 TTTAGATTAT
68307 ATTTGA-A-TTAAAAAAAATG
1 ATTTGAGACTTAAAAAAAATG
68326 ATTTGAGACTTTAAAAAAAAT
1 ATTTGAGAC-TTAAAAAAAAT
68347 TAAAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
22 11 0.61
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
ATTTGAGACTTAAAAAAAATG
Found at i:75457 original size:2 final size:2
Alignment explanation
Indices: 75452--75476 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75442 TTATTGTCCA
75452 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
75477 GTATGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76551 original size:20 final size:20
Alignment explanation
Indices: 76526--76563 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
76516 GCCAATCCAT
76526 TTTAGGGTTTTAGTTAGTAG
1 TTTAGGGTTTTAGTTAGTAG
* *
76546 TTTAGGTTTTTATTTAGT
1 TTTAGGGTTTTAGTTAGT
76564 TTAGTTCATT
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:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (20 bp):
TTTAGGGTTTTAGTTAGTAG
Found at i:80165 original size:29 final size:29
Alignment explanation
Indices: 80125--80413 Score: 196
Period size: 30 Copynumber: 9.8 Consensus size: 29
80115 ATCCGAGAGT
*
80125 AAAATGGTAATTTTTGAAAGTTTCAGGGTT
1 AAAAT-GTAATTTTTGAAAGTTTCAGGGTA
* * * *
80155 AAAATGAAATTTTTG-GAGGTTCGGGGGT-
1 AAAATGTAATTTTTGAAAGTTTC-AGGGTA
* *
80183 AAAATGTAATTTTTGGAAGTTTCAAGGTCA
1 AAAATGTAATTTTTGAAAGTTTCAGGGT-A
** * **
80213 AAAATAAAATTTTTGGAAGTTTGGGGGGTA
1 AAAATGTAATTTTTGAAAGTTT-CAGGGTA
*
80243 AAAATAG-AATTTTTGGAAGTTTCAGGGTCA
1 AAAAT-GTAATTTTTGAAAGTTTCAGGGT-A
*
80273 AAAATG-AATTTTTAAAAG-TTCGAGGGTA
1 AAAATGTAATTTTTGAAAGTTTC-AGGGTA
* *
80301 AAAATGTAATTTTTGGAAATTTTGA-GGTAA
1 AAAATGTAATTTTT-GAAAGTTTCAGGGT-A
* * **
80331 AAAATG-GATTTTTTAGAAGTTTGGGGGTA
1 AAAATGTAATTTTTGA-AAGTTTCAGGGTA
* **
80360 AAAATGTAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGAAAGTTTCAGGG-TA
* *
80390 AAAATGGAATTTTTGGATAGTTTC
1 AAAATGTAATTTTT-GAAAGTTTC
80414 GGGACCTTCG
Statistics
Matches: 208, Mismatches: 34, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
28 33 0.16
29 77 0.37
30 87 0.42
31 11 0.05
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTTCAGGGTA
Found at i:80292 original size:59 final size:60
Alignment explanation
Indices: 80125--80416 Score: 312
Period size: 59 Copynumber: 4.9 Consensus size: 60
80115 ATCCGAGAGT
* * * * *
80125 AAAATGGTAATTTTTGAAAGTTTCAGGGT-TAAAATGAAATTTTT-GGAGGTTCGGGGGT-
1 AAAAT-GTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTCGGGGGTA
* ** * *
80183 AAAATGTAATTTTTGGAAGTTTCAAGGTCAAAAATAAAATTTTTGGAAGTTTGGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTCGGGGGTA
* *
80243 AAAATAG-AATTTTTGGAAGTTTCAGGGTCAAAAAT-GAATTTTTAAAAG-TTCGAGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTCGGGGGTA
* * * *
80301 AAAATGTAATTTTTGGAAATTT-TGAGGTAAAAAATGGATTTTTTAGAAGTTT-GGGGGTA
1 AAAATGTAATTTTTGGAAGTTTCAG-GGTCAAAAATGGAATTTTTAGAAGTTTCGGGGGTA
** * *
80360 AAAATGTAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGATAGTTTCGGG
1 AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTAGA-AGTTTCGGG
80417 ACCTTCGAGG
Statistics
Matches: 199, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
57 23 0.12
58 54 0.27
59 78 0.39
60 40 0.20
61 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.37
Consensus pattern (60 bp):
AAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTCGGGGGTA
Found at i:82143 original size:16 final size:16
Alignment explanation
Indices: 82122--82174 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
82112 TGTTTTGGAC
* *
82122 TTTTAATTTAATTAAG
1 TTTTAATTAAATTAAA
* *
82138 TTTTAAATCAATTTAAA
1 TTTT-AATTAAATTAAA
82155 TTTTAATTAAATTTAAA
1 TTTTAATTAAA-TTAAA
82172 TTT
1 TTT
82175 AAAGAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTTAATTAAATTAAA
Found at i:82158 original size:17 final size:17
Alignment explanation
Indices: 82133--82222 Score: 83
Period size: 17 Copynumber: 5.1 Consensus size: 17
82123 TTTAATTTAA
* *
82133 TTAAGTTTTAAATCAAT
1 TTAAATTTTAAATAAAT
*
82150 TTAAATTTTAATTAAAT
1 TTAAATTTTAAATAAAT
*
82167 TTAAA-TTTAAAGAAAAT
1 TTAAATTTTAAA-TAAAT
*
82184 TTAAATTTAAAAGATAAAT
1 TTAAATTT-TAA-ATAAAT
*
82203 TTAAATTTAAAAATAAAT
1 TTAAATTT-TAAATAAAT
82221 TT
1 TT
82223 GAATCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.08
17 28 0.45
18 10 0.16
19 18 0.29
20 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (17 bp):
TTAAATTTTAAATAAAT
Found at i:82162 original size:6 final size:6
Alignment explanation
Indices: 82147--82213 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
82137 GTTTTAAATC
* **
82147 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GAA AATTTA AATTTAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A
**
82194 AAGATA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AA
82214 AATAAATTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
5 7 0.15
6 37 0.77
7 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:84138 original size:29 final size:29
Alignment explanation
Indices: 84103--84323 Score: 164
Period size: 30 Copynumber: 7.5 Consensus size: 29
84093 CTAAACTATC
*
84103 CAAAAATTATATTTTAACCCCAAAACTTT
1 CAAAAATTACATTTTAACCCCAAAACTTT
*
84132 CAAAAATTACATTTTTACCCCAAAAC-TT
1 CAAAAATTACATTTTAACCCCAAAACTTT
* * *
84160 CTAAAAATTCCATTTTTGACCCTAAAACTTT
1 C-AAAAATTACA-TTTTAACCCCAAAACTTT
* **
84191 CAAAAATTACATTTTTTACCCTTAAAC-TT
1 CAAAAATTACA-TTTTAACCCCAAAACTTT
* * *
84220 CTAAAAATTCCAATTTTGACCCGAAAAC-TT
1 C-AAAAATTAC-ATTTTAACCCCAAAACTTT
* * * *
84250 CTAAAAGTTTCCATTTT-ACACCTAAACTTT
1 C-AAAA-ATTACATTTTAACCCCAAAACTTT
* * *
84280 CAAAAATTCCATTTTTGA-CCCGAAACTTT
1 CAAAAATTACA-TTTTAACCCCAAAACTTT
*
84309 AAAAAATTACATTTT
1 CAAAAATTACATTTT
84324 TTACCCTCGG
Statistics
Matches: 162, Mismatches: 21, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
28 12 0.07
29 69 0.43
30 73 0.45
31 8 0.05
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (29 bp):
CAAAAATTACATTTTAACCCCAAAACTTT
Found at i:84148 original size:30 final size:30
Alignment explanation
Indices: 84103--84329 Score: 200
Period size: 29 Copynumber: 7.7 Consensus size: 30
84093 CTAAACTATC
* *
84103 CAAAAATTATA-TTTTAACCCCAAAACTTT
1 CAAAAATTACATTTTTGACCCCAAAACTTT
84132 CAAAAATTACATTTTT-ACCCCAAAAC-TT
1 CAAAAATTACATTTTTGACCCCAAAACTTT
* *
84160 CTAAAAATTCCATTTTTGACCCTAAAACTTT
1 C-AAAAATTACATTTTTGACCCCAAAACTTT
* **
84191 CAAAAATTACATTTTTTACCCTTAAAC-TT
1 CAAAAATTACATTTTTGACCCCAAAACTTT
* * *
84220 CTAAAAATTCCAATTTTGACCCGAAAAC-TT
1 C-AAAAATTACATTTTTGACCCCAAAACTTT
* * * *
84250 CTAAAAGTTTCCA-TTTT-ACACCTAAACTTT
1 C-AAAA-ATTACATTTTTGACCCCAAAACTTT
* *
84280 CAAAAATTCCATTTTTGA-CCCGAAACTTT
1 CAAAAATTACATTTTTGACCCCAAAACTTT
* *
84309 AAAAAATTACATTTTTTACCC
1 CAAAAATTACATTTTTGACCC
84330 TCGGATGTTC
Statistics
Matches: 167, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
28 8 0.05
29 76 0.46
30 75 0.45
31 8 0.05
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
CAAAAATTACATTTTTGACCCCAAAACTTT
Found at i:84189 original size:59 final size:59
Alignment explanation
Indices: 84091--84329 Score: 267
Period size: 59 Copynumber: 4.0 Consensus size: 59
84081 CCTTAAGTGT
* *
84091 CCCTAAACTATCCAAAAATT--ATATTTTAACCCCAAAACTTTCAAAAATTACA-TTTTTAC
1 CCCTAAACT-TCTAAAAATTCCAT-TTTTGA-CCCAAAACTTTCAAAAATTACATTTTTTAC
*
84150 CCCAAAACTTCTAAAAATTCCATTTTTGACCCTAAAACTTTCAAAAATTACATTTTTTAC
1 CCCTAAACTTCTAAAAATTCCATTTTTGACCC-AAAACTTTCAAAAATTACATTTTTTAC
* * * *
84210 CCTTAAACTTCTAAAAATTCCAATTTTGACCCGAAAAC-TTCTAAAAGTTTCCA--TTTTAC
1 CCCTAAACTTCTAAAAATTCCATTTTTGACCC-AAAACTTTC-AAAA-ATTACATTTTTTAC
* * *
84269 ACCTAAACTT-TCAAAAATTCCATTTTTGACCCGAAACTTTAAAAAATTACATTTTTTAC
1 CCCTAAACTTCT-AAAAATTCCATTTTTGACCCAAAACTTTCAAAAATTACATTTTTTAC
84328 CC
1 CC
84330 TCGGATGTTC
Statistics
Matches: 153, Mismatches: 17, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
57 4 0.03
58 21 0.14
59 77 0.50
60 47 0.31
61 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (59 bp):
CCCTAAACTTCTAAAAATTCCATTTTTGACCCAAAACTTTCAAAAATTACATTTTTTAC
Found at i:84406 original size:118 final size:119
Alignment explanation
Indices: 84113--84330 Score: 298
Period size: 119 Copynumber: 1.8 Consensus size: 119
84103 CAAAAATTAT
* * * * *
84113 ATTTTAACCCCAAAACTT-TCAAAAATTA-CATTTTTACCCCAAAACTTCTAAAAATTCCATTTT
1 ATTTTGACCCGAAAACTTCT-AAAAATTACCA-TTTTACACCTAAACTTCCAAAAATTCCATTTT
* *
84176 TGACCCTAAAACTTTCAAAAATTACATTTTTTACCCTTAAACTTCTAAAAATTCCA
64 TGACCCTAAAACTTTAAAAAATTACATTTTTTACCCTGAAACTTCTAAAAATTCCA
* * *
84232 ATTTTGACCCGAAAACTTCTAAAAGTTTCCATTTTACACCTAAACTTTCAAAAATTCCATTTTTG
1 ATTTTGACCCGAAAACTTCTAAAAATTACCATTTTACACCTAAACTTCCAAAAATTCCATTTTTG
*
84297 ACCC-GAAACTTTAAAAAATTACATTTTTTACCCT
66 ACCCTAAAACTTTAAAAAATTACATTTTTTACCCT
84331 CGGATGTTCG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
118 28 0.32
119 56 0.64
120 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.37
Consensus pattern (119 bp):
ATTTTGACCCGAAAACTTCTAAAAATTACCATTTTACACCTAAACTTCCAAAAATTCCATTTTTG
ACCCTAAAACTTTAAAAAATTACATTTTTTACCCTGAAACTTCTAAAAATTCCA
Found at i:84471 original size:58 final size:57
Alignment explanation
Indices: 84322--84505 Score: 179
Period size: 59 Copynumber: 3.1 Consensus size: 57
84312 AAATTACATT
* *
84322 TTTTACCCTCGGATGTTCGAAAATTCCGTTTTTGATCCTGATTTTTCTAAAAATTACCA
1 TTTTACCCTCGGATG-TCAAAAATTCCATTTTT-ATCCTGATTTTTCTAAAAATTACCA
* * * * **
84381 TTTTTCCCTCGAATGTCCAAAAATTCTATTTTTATCTTGATTTTCTCTTGAAATTACCA
1 TTTTACCCTCGGATGT-CAAAAATTCCATTTTTATCCTGATTTT-TCTAAAAATTACCA
* * * * * ** *
84440 TTTTACCCCCGGATGTCTAAAATTCCCTTTTTAACCCCGAACTTTCTCAAAATTACCA
1 TTTTACCCTCGGATGTCAAAAATTCCATTTTT-ATCCTGATTTTTCTAAAAATTACCA
84498 TTTTACCC
1 TTTTACCC
84506 CTCTAAGTGT
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
58 44 0.44
59 57 0.56
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (57 bp):
TTTTACCCTCGGATGTCAAAAATTCCATTTTTATCCTGATTTTTCTAAAAATTACCA
Found at i:84502 original size:30 final size:29
Alignment explanation
Indices: 84431--84536 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 29
84421 TTTTCTCTTG
*
84431 AAATTACCATTTTACCCCCGGATGTCT-A
1 AAATTACCATTTTACCCCCGAATGTCTCA
* * * *
84459 AAATTCCCTTTTTAACCCCGAACTTTCTCA
1 AAATTACCATTTTACCCCCGAA-TGTCTCA
*
84489 AAATTACCATTTTACCCCTCTAAGTGTC-CA
1 AAATTACCATTTTACCCC-CGAA-TGTCTCA
*
84519 AAATTACCATTTTGCCCC
1 AAATTACCATTTTACCCC
84537 TATGTATTCA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 18 0.29
29 4 0.06
30 35 0.56
31 6 0.10
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (29 bp):
AAATTACCATTTTACCCCCGAATGTCTCA
Found at i:90170 original size:3 final size:3
Alignment explanation
Indices: 90164--90201 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
90154 AAAAAAAAAA
*
90164 AAG AAG AAG AA- AAG AAG AAG AAA AAG AAG AAAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AA
90202 AAAGGGAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:90178 original size:11 final size:10
Alignment explanation
Indices: 90163--90205 Score: 63
Period size: 9 Copynumber: 4.4 Consensus size: 10
90153 AAAAAAAAAA
90163 AAAGAAGAAG
1 AAAGAAGAAG
90173 AAAAGAAGAAG
1 -AAAGAAGAAG
90184 AAA-AAGAAG
1 AAAGAAGAAG
90193 AAAGAAGAA-
1 AAAGAAGAAG
90202 AAAG
1 AAAG
90206 GGAAAGCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.42
10 8 0.26
11 10 0.32
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:91323 original size:51 final size:50
Alignment explanation
Indices: 91256--91692 Score: 270
Period size: 50 Copynumber: 8.7 Consensus size: 50
91246 CAGTACCATG
* * * *
91256 AAGACATGAAGGGAAAGGTCTAAGTCACAATGGCAGGACCGTGTACCTCAGA
1 AAGACACGAAGGGAAAGATCTAAGTCGCAACGGCAGGACC-TGTACCTCA-A
* * *
91308 AA-ACACGAAGGGAAAGATCTAAGCCGCAACGGC-GGATCCAGTACCAC-A
1 AAGACACGAAGGGAAAGATCTAAGTCGCAACGGCAGGA-CCTGTACCTCAA
* * *
91356 AAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGCAGGACCATGTACCTCAA
1 AAGACAC-GAAGGGAAAGATCTAAGTCGCAACGGCAGGACC-TGTACCTCAA
* * * * *
91408 AAGACACGATGGGAAAGATTTAAGTCGCAACGGC-GAATCTAATA-C-CATA
1 AAGACACGAAGGGAAAGATCTAAGTCGCAACGGCAGGACCT-GTACCTCA-A
* * * * *
91457 AAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGTAAGACCATGTACCTCAA
1 AAGACAC-GAAGGGAAAGATCTAAGTCGCAACGGCAGGACC-TGTACCTCAA
* * * * * *
91509 AAGACACGAAGGGAAAGATTTAAGTCGCAATGG-TGAATCTAGTA-C-CATG
1 AAGACACGAAGGGAAAGATCTAAGTCGCAACGGCAGGACCT-GTACCTCA-A
* * * * * *
91558 AAGACATGAAGGGAAAGATCTAAGACCGCAACGG-TGGATCCAGCACCAC-A
1 AAGACACGAAGGGAAAGATCTAAG-TCGCAACGGCAGGA-CCTGTACCTCAA
* * * * *
91608 AAGATA-GAAAAGGGAAAGGTTTAAGTCGCAACGAC-GGACCGTGTACCTCAG
1 AAGACACG--AAGGGAAAGATCTAAGTCGCAACGGCAGGACC-TGTACCTCAA
* * * *
91659 AAGACAAGAAGAGAAAGATTTAAGCCGCAACGGC
1 AAGACACGAAGGGAAAGATCTAAGTCGCAACGGC
91693 GAATCTAGTA
Statistics
Matches: 296, Mismatches: 64, Indels: 52
0.72 0.16 0.13
Matches are distributed among these distances:
48 7 0.02
49 39 0.13
50 121 0.41
51 107 0.36
52 20 0.07
53 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (50 bp):
AAGACACGAAGGGAAAGATCTAAGTCGCAACGGCAGGACCTGTACCTCAA
Found at i:91379 original size:50 final size:50
Alignment explanation
Indices: 91315--91712 Score: 274
Period size: 50 Copynumber: 7.9 Consensus size: 50
91305 AGAAAACACG
*
91315 AAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGATACAA
1 AAGGGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCACAAAGATACAA
* * * *
91365 AAGGGAAAGGTCTAAGTCGCAACGGCAGGA-CCATGTACCTCAAA-AGACACG
1 AAGGGAAAGATCTAAGTCGCAACGGC-GGATCCA-GTACCACAAAGATACA-A
* * * * * *
91416 ATGGGAAAGATTTAAGTCGCAACGGCGAATCTAATACCATAAAGATACAA
1 AAGGGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCACAAAGATACAA
* ** * * *
91466 AAGGGAAAGGTCTAAGTCGCAACGGTAAGA-CCATGTACCTCAAA-AGACACG
1 AAGGGAAAGATCTAAGTCGCAACGG-CGGATCCA-GTACCACAAAGATACA-A
* * * * * ** *
91517 AAGGGAAAGATTTAAGTCGCAATGGTGAATCTAGTACCATGAAG--ACATG
1 AAGGGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCACAAAGATACA-A
* * * *
91566 AAGGGAAAGATCTAAGACCGCAACGGTGGATCCAGCACCACAAAGATAGAA
1 AAGGGAAAGATCTAAG-TCGCAACGGCGGATCCAGTACCACAAAGATACAA
* * * * *
91617 AAGGGAAAGGTTTAAGTCGCAACGACGGA-CCGTGTACCTCAGAAG--ACAA
1 AAGGGAAAGATCTAAGTCGCAACGGCGGATCC-AGTACCACA-AAGATACAA
* * * * * *
91666 GAAGAGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGAT
1 -AAGGGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCACAAAGAT
91713 TTGAAGGGGA
Statistics
Matches: 263, Mismatches: 66, Indels: 37
0.72 0.18 0.10
Matches are distributed among these distances:
49 27 0.10
50 143 0.54
51 91 0.35
52 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (50 bp):
AAGGGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCACAAAGATACAA
Found at i:91548 original size:101 final size:101
Alignment explanation
Indices: 91264--91591 Score: 446
Period size: 101 Copynumber: 3.2 Consensus size: 101
91254 TGAAGACATG
* * * *
91264 AAGGGAAAGGTCTAAGTCACAATGGCAGGACCGTGTACCTCAGAAA-ACACGAAGGGAAAGATCT
1 AAGGGAAAGGTCTAAGTCGCAACGGCAGGACCATGTACCTCA-AAAGACACGAAGGGAAAGATTT
* * * *
91328 AAGCCGCAACGGCGGATCCAGTACCACAAAGATACAA
65 AAGTCGCAACGGCGAATCTAGTACCATAAAGATACAA
*
91365 AAGGGAAAGGTCTAAGTCGCAACGGCAGGACCATGTACCTCAAAAGACACGATGGGAAAGATTTA
1 AAGGGAAAGGTCTAAGTCGCAACGGCAGGACCATGTACCTCAAAAGACACGAAGGGAAAGATTTA
*
91430 AGTCGCAACGGCGAATCTAATACCATAAAGATACAA
66 AGTCGCAACGGCGAATCTAGTACCATAAAGATACAA
* *
91466 AAGGGAAAGGTCTAAGTCGCAACGGTAAGACCATGTACCTCAAAAGACACGAAGGGAAAGATTTA
1 AAGGGAAAGGTCTAAGTCGCAACGGCAGGACCATGTACCTCAAAAGACACGAAGGGAAAGATTTA
* * * *
91531 AGTCGCAATGGTGAATCTAGTACCATGAAG--ACATG
66 AGTCGCAACGGCGAATCTAGTACCATAAAGATACA-A
* *
91566 AAGGGAAAGATCTAAGACCGCAACGG
1 AAGGGAAAGGTCTAAG-TCGCAACGG
91592 TGGATCCAGC
Statistics
Matches: 204, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
99 3 0.01
100 18 0.09
101 183 0.90
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.15
Consensus pattern (101 bp):
AAGGGAAAGGTCTAAGTCGCAACGGCAGGACCATGTACCTCAAAAGACACGAAGGGAAAGATTTA
AGTCGCAACGGCGAATCTAGTACCATAAAGATACAA
Found at i:91688 original size:150 final size:152
Alignment explanation
Indices: 91451--91725 Score: 394
Period size: 150 Copynumber: 1.8 Consensus size: 152
91441 CGAATCTAAT
* *
91451 ACCATAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGTAAGACCATGTACCTCAAAAGACAC
1 ACCACAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGTAAGACCATGTACCTCAAAAGACAA
* * * * *
91516 GAAGGGAAAGATTTAAGTCGCAATGGTGAATCTAGTACCATGAAGACATGAA-GGGAAAGATCTA
66 GAAGAGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACATGAAGGGGAAAGATCTA
91580 AGACCGCAACGGTGGATCCAGC
131 AGACCGCAACGGTGGATCCAGC
* * * * *
91602 ACCACAAAGATAGAAAAGGGAAAGGTTTAAGTCGCAAC-G-ACGGACCGTGTACCTCAGAAGACA
1 ACCACAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGTA-AGACCATGTACCTCAAAAGACA
**
91665 AGAAGAGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATTTGAAGGGGAAAG
65 AGAAGAGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACATGAAGGGGAAAG
91726 GTTTAAGTTG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
149 1 0.01
150 65 0.60
151 42 0.39
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (152 bp):
ACCACAAAGATACAAAAGGGAAAGGTCTAAGTCGCAACGGTAAGACCATGTACCTCAAAAGACAA
GAAGAGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACATGAAGGGGAAAGATCTA
AGACCGCAACGGTGGATCCAGC
Found at i:91755 original size:100 final size:101
Alignment explanation
Indices: 91557--91780 Score: 238
Period size: 100 Copynumber: 2.2 Consensus size: 101
91547 CTAGTACCAT
* * *
91557 GAAGACATGAAGGGAAAGATCTAAGACCGCAACGGTGGATCCAGCACCACAAAGATAGAAAAGGG
1 GAAGACATGAAGAGAAAGATCTAAGACCGCAACGGCGAATCCAGCACCACAAAGATAGAAAAGGG
* ***
91622 AAAGGTTTAAGTCGCAACGACGGACCGTGTACCTCA
66 AAAGGTTTAAGTCGCAACGACGAACCCAATACCTCA
* * * * * * *
91658 GAAGACAAGAAGAGAAAGATTTAAG-CCGCAACGGCGAATCTAGTACCACGAAGATTTG-AAGGG
1 GAAGACATGAAGAGAAAGATCTAAGACCGCAACGGCGAATCCAGCACCACAAAGA-TAGAAAAGG
* * * *
91721 GAAAGGTTTAAGTTGCAATGGCGAACCCAATACCTTA
65 GAAAGGTTTAAGTCGCAACGACGAACCCAATACCTCA
* *
91758 GAA-ACATGATGAGAAAGGTCTAA
1 GAAGACATGAAGAGAAAGATCTAA
91781 TCCACGACGG
Statistics
Matches: 100, Mismatches: 22, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
99 16 0.16
100 60 0.60
101 24 0.24
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.16
Consensus pattern (101 bp):
GAAGACATGAAGAGAAAGATCTAAGACCGCAACGGCGAATCCAGCACCACAAAGATAGAAAAGGG
AAAGGTTTAAGTCGCAACGACGAACCCAATACCTCA
Found at i:91984 original size:101 final size:101
Alignment explanation
Indices: 91838--92034 Score: 252
Period size: 101 Copynumber: 2.0 Consensus size: 101
91828 AACTACAATG
* * ** *
91838 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAAATAAAGCTTTAATGT-AAATTCTTATC
1 GCAAGTCTTTATCTATCTGAAGTTGCAGTAAGAGCAAAATAAAGCTTCAACATCAAA-TCCTATC
* *
91902 CTCTTGAAGTTGCAGTAAAGTTGGATTAAAAATAATA
65 CTCTTGAAGTTGCAGCAAAGTTGGAATAAAAATAATA
* * * * *
91939 GCAAGTGTTTATCTATCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATCCTATCT
1 GCAAGTCTTTATCTATCTGAAGTTGCAGTAAGAGCAAAATAAAGCTTCAACATCAAATCCTATCC
* *
92004 TCTTGAAGTTGCGGCGAAGTTGGAATAAAAA
66 TCTTGAAGTTGCAGCAAAGTTGGAATAAAAA
92035 CTACAGCAGC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 78 0.96
102 3 0.04
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (101 bp):
GCAAGTCTTTATCTATCTGAAGTTGCAGTAAGAGCAAAATAAAGCTTCAACATCAAATCCTATCC
TCTTGAAGTTGCAGCAAAGTTGGAATAAAAATAATA
Found at i:92551 original size:207 final size:207
Alignment explanation
Indices: 92187--93048 Score: 1192
Period size: 207 Copynumber: 4.2 Consensus size: 207
92177 CACAAACAGT
* * ** * *
92187 GATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAAAGT
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA--ACTCAACGCTCAAAAT
* * * * * * *
92252 GAGCTAATCTTCGAACCTCGGCTTCTTGATGAGATAATAAGAAGTAGGTCAAAGCAATAAAATGG
64 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGG
* *
92317 TTAGCTTCCTGATGAGATACTGAGAAGTGGACTAAATTTGTCTTCCTGATGAGATACAGAGAAGC
129 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
92382 GGATTGAAACAAAC
194 GGATTGAAACAAAC
* * *
92396 GATACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCAAGGCTCAAAACGA
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCAACGCTCAAAATGA
* * *
92461 GCAAATCTTCGAACCCCGGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTT
66 GCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTT
*
92526 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGG
131 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
*
92591 ATTGAAATAAAC
196 ATTGAAACAAAC
** * * *
92603 GATGCGGTTGTCTTCCTGATGAGATACTTAGAAGAAGACCAAATCAAACTC-ACGCTCGATATGA
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCAACGCTCAAAATGA
* *
92667 GCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGTAGGTCGAAGTAATAAAATGGTT
66 GCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTT
* *
92732 AGTTTCCTGATGAGATACTGAG--GTGGACCAAATTCGTCTTCATGATGAGATACAGAGAAGCGG
131 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
*
92795 ATTGAAACAAAA
196 ATTGAAACAAAC
* * * *
92807 GATGCGGTCATCTTCCAGATGAGATACTGAGAAGAAGACCAAATCAAAC-CCACGCTCGATATGA
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCAACGCTCAAAATGA
* * * *
92871 ACAAATCTTCAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTT
66 GCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTT
* * * * * * *
92936 AGCTTCCTGATGAGATACGGAGAAGTGAACCTAATCCGTCTTCCTGATGAAACACAGAGAAGTGG
131 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
** **
93001 ATCAAAACAAGT
196 ATTGAAACAAAC
* *
93013 GATGCGGTCATCTTCTTGATAAGATACTGAGAAGAA
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAA
93049 AGCTAAGTCA
Statistics
Matches: 587, Mismatches: 63, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
203 1 0.00
204 186 0.32
206 165 0.28
207 191 0.33
209 44 0.07
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (207 bp):
GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCAACGCTCAAAATGA
GCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTT
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
ATTGAAACAAAC
Found at i:92978 original size:410 final size:414
Alignment explanation
Indices: 92187--93048 Score: 1230
Period size: 410 Copynumber: 2.1 Consensus size: 414
92177 CACAAACAGT
* * *
92187 GATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAAAGT
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA-GAAACAACGCTCAAAGT
* * * *
92252 GAGCTAATCTTCGAACCTCGGCTTCTTGATGAGATAATAAGAAGTAGGTCAAAGCAATAAAATGG
65 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATAATAAGAAGTAGGTCAAAGCAATAAAATGG
* * *
92317 TTAGCTTCCTGATGAGATACTGAGAAGTGGACTAAATTTGTCTTCCTGATGAGATACAGAGAAGC
130 TTAGCTTCCTGATGAGATACTGAG-AGTGGACCAAATTCGTCTTCATGATGAGATACAGAGAAGC
* *
92382 GGATTGAAACAAACGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTC
194 GGATTGAAACAAAAGATACGGTCATCTTCCAGATGAGATACTGAGAAGAAGACCAAATCAAACTC
* * * *
92447 AAGGCTCAAAACGAGCAAATCTTCGAACCCCGGCTTCCTAATGAGATACTGAGAAGCAGGTCGAA
259 AACGCTCAAAACGAACAAATCTTCAAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAA
* * * *
92512 GCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAG
324 GCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTAATGAA
* ** *
92577 ATACAGAGAAGCGGATTGAAATAAAC
389 ACACAGAGAAGCGGATCAAAACAAAC
** * ** *
92603 GATGCGGTTGTCTTCCTGATGAGATACTTAGAAGAAGACCAAATCAA-ACTC-ACGCTCGATA-T
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAGAAACAACGCTC-AAAGT
* * *
92665 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGTAGGTCGAAGTAATAAAATGG
65 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATAATAAGAAGTAGGTCAAAGCAATAAAATGG
*
92730 TTAGTTTCCTGATGAGATACTGAG-GTGGACCAAATTCGTCTTCATGATGAGATACAGAGAAGCG
130 TTAGCTTCCTGATGAGATACTGAGAGTGGACCAAATTCGTCTTCATGATGAGATACAGAGAAGCG
* *
92794 GATTGAAACAAAAGATGCGGTCATCTTCCAGATGAGATACTGAGAAGAAGACCAAATCAAAC-CC
195 GATTGAAACAAAAGATACGGTCATCTTCCAGATGAGATACTGAGAAGAAGACCAAATCAAACTCA
* * * *
92858 ACGCTCGATATGAACAAATCTTCAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
260 ACGCTCAAAACGAACAAATCTTCAAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAG
* * *
92923 CAATAAAGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCTAATCCGTCTTCCTGATGAAA
325 CAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTAATGAAA
* **
92988 CACAGAGAAGTGGATCAAAACAAGT
390 CACAGAGAAGCGGATCAAAACAAAC
* *
93013 GATGCGGTCATCTTCTTGATAAGATACTGAGAAGAA
1 GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAA
93049 AGCTAAGTCA
Statistics
Matches: 394, Mismatches: 51, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
410 165 0.42
411 96 0.24
413 87 0.22
414 4 0.01
416 42 0.11
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (414 bp):
GATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAGAAACAACGCTCAAAGTG
AGCAAATCTTCGAACCCCAGCTTCCTGATGAGATAATAAGAAGTAGGTCAAAGCAATAAAATGGT
TAGCTTCCTGATGAGATACTGAGAGTGGACCAAATTCGTCTTCATGATGAGATACAGAGAAGCGG
ATTGAAACAAAAGATACGGTCATCTTCCAGATGAGATACTGAGAAGAAGACCAAATCAAACTCAA
CGCTCAAAACGAACAAATCTTCAAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGC
AATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTAATGAAAC
ACAGAGAAGCGGATCAAAACAAAC
Found at i:94076 original size:3 final size:3
Alignment explanation
Indices: 94068--94101 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
94058 ATTCATCTTT
94068 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
94102 ATTTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:94945 original size:30 final size:28
Alignment explanation
Indices: 94897--95104 Score: 110
Period size: 30 Copynumber: 7.2 Consensus size: 28
94887 CCCTTAAAGG
* *
94897 CCCCTAAACTATCCAAAAATTCTATTTTTGA
1 CCCCGAAACT-TCTAAAAATTC-ATTTTT-A
*
94928 CCCCGAAACTTTTAAAAATTACATTTTTA
1 CCCCGAAACTTCTAAAAATT-CATTTTTA
94957 CCCTCG-AACTTCTAAAAATTCCATTTTTAA
1 CCC-CGAAACTTCTAAAAATT-CATTTTT-A
*
94987 CCTCG--A-----AAAAATTACATTTTTTA
1 CCCCGAAACTTCTAAAAATT-CA-TTTTTA
* * * *
95010 CCCCCAAACTTCCAAAAATTCCAATGTTAA
1 CCCCGAAACTTCTAAAAATT-C-ATTTTTA
*
95040 CCCCAAAACTTCTAAAAATTACCA-TTTTA
1 CCCCGAAACTTCTAAAAATT--CATTTTTA
* * *
95069 CCCCCAAACTTCCAAAAATTCCAATTTTAA
1 CCCCGAAACTTCTAAAAATT-C-ATTTTTA
95099 CCCCGA
1 CCCCGA
95105 TACATTTAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
23 13 0.09
24 5 0.04
25 1 0.01
28 3 0.02
29 48 0.34
30 59 0.42
31 13 0.09
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.32
Consensus pattern (28 bp):
CCCCGAAACTTCTAAAAATTCATTTTTA
Found at i:94954 original size:29 final size:29
Alignment explanation
Indices: 94922--95132 Score: 129
Period size: 29 Copynumber: 7.4 Consensus size: 29
94912 AAAATTCTAT
* *
94922 TTTTGACCCCGAAACTTTTAAAAATTACA
1 TTTTAACCCCGAAACTTCTAAAAATTACA
* *
94951 TTTTTACCCTCG-AACTTCTAAAAATTCCA
1 TTTTAACCC-CGAAACTTCTAAAAATTACA
*
94980 TTTTTAACCTCG--A-----AAAAATTACA
1 -TTTTAACCCCGAAACTTCTAAAAATTACA
* * * *
95003 TTTTTTACCCCCAAACTTCCAAAAATTCCAA
1 -TTTTAACCCCGAAACTTCTAAAAATTAC-A
* *
95034 TGTTAACCCCAAAACTTCTAAAAATTACCA
1 TTTTAACCCCGAAACTTCTAAAAATTA-CA
* * *
95064 TTTT-ACCCCCAAACTTCCAAAAATTCCAA
1 TTTTAACCCCGAAACTTCTAAAAATTAC-A
*
95093 TTTTAACCCCGATACATT-T-AAAATTACCA
1 TTTTAACCCCGAAAC-TTCTAAAAATTA-CA
*
95122 TTTTACCCCCG
1 TTTTAACCCCG
95133 GATGTTCGAA
Statistics
Matches: 143, Mismatches: 24, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
23 18 0.13
25 1 0.01
28 2 0.01
29 66 0.46
30 52 0.36
31 4 0.03
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.33
Consensus pattern (29 bp):
TTTTAACCCCGAAACTTCTAAAAATTACA
Found at i:94984 original size:59 final size:59
Alignment explanation
Indices: 94897--95131 Score: 238
Period size: 59 Copynumber: 4.1 Consensus size: 59
94887 CCCTTAAAGG
* * * *
94897 CCCCTAAACTATCCAAAAATTCTATTTTTGACCCCGAAACTTTTAAAAATTA-CATTTTTA
1 CCCCCAAACT-TCCAAAAATTCCAATTTTAACCCCGAAACTTTTAAAAATTACCA-TTTTA
* * * * *
94957 CCCTCGAACTTCTAAAAATTCCATTTTTAACCTCG--A-----AAAAATTA-CATTTTTTA
1 CCCCCAAACTTCCAAAAATTCCAATTTTAACCCCGAAACTTTTAAAAATTACCA--TTTTA
* * *
95010 CCCCCAAACTTCCAAAAATTCCAATGTTAACCCCAAAACTTCTAAAAATTACCATTTTA
1 CCCCCAAACTTCCAAAAATTCCAATTTTAACCCCGAAACTTTTAAAAATTACCATTTTA
* *
95069 CCCCCAAACTTCCAAAAATTCCAATTTTAACCCCGATACATTT-AAAATTACCATTTTA
1 CCCCCAAACTTCCAAAAATTCCAATTTTAACCCCGAAACTTTTAAAAATTACCATTTTA
95127 CCCCC
1 CCCCC
95132 GGATGTTCGA
Statistics
Matches: 147, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
52 10 0.07
53 34 0.23
55 1 0.01
57 1 0.01
58 20 0.14
59 64 0.44
60 15 0.10
61 2 0.01
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (59 bp):
CCCCCAAACTTCCAAAAATTCCAATTTTAACCCCGAAACTTTTAAAAATTACCATTTTA
Found at i:95100 original size:112 final size:113
Alignment explanation
Indices: 94897--95100 Score: 286
Period size: 112 Copynumber: 1.8 Consensus size: 113
94887 CCCTTAAAGG
* * * * * * * *
94897 CCCCTAAACTATCCAAAAATTCTATTTTTGACCCCGAAACTTTTAAAAATTACATTTTTACCCTC
1 CCCCCAAACTATCCAAAAATTCCAATGTTAACCCCAAAACTTCTAAAAATTACATTTTTACCCCC
* * *
94962 GAACTTCTAAAAATTCCATTTTTAACCTCGAAAAAATTACATTTTTTA
66 AAACTTCCAAAAATTCCAATTTTAACCTCGAAAAAATTACATTTTTTA
95010 CCCCCAAACT-TCCAAAAATTCCAATGTTAACCCCAAAACTTCTAAAAATTACCA-TTTTACCCC
1 CCCCCAAACTATCCAAAAATTCCAATGTTAACCCCAAAACTTCTAAAAATTA-CATTTTTACCCC
95073 CAAACTTCCAAAAATTCCAATTTTAACC
65 CAAACTTCCAAAAATTCCAATTTTAACC
95101 CCGATACATT
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
112 68 0.86
113 11 0.14
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.32
Consensus pattern (113 bp):
CCCCCAAACTATCCAAAAATTCCAATGTTAACCCCAAAACTTCTAAAAATTACATTTTTACCCCC
AAACTTCCAAAAATTCCAATTTTAACCTCGAAAAAATTACATTTTTTA
Found at i:100242 original size:28 final size:29
Alignment explanation
Indices: 100181--100250 Score: 124
Period size: 28 Copynumber: 2.4 Consensus size: 29
100171 CCTATCTAAA
100181 ATCTTGAATATTTTAGATAAAAAAAAGAT
1 ATCTTGAATATTTTAGATAAAAAAAAGAT
*
100210 GTCTTGAATATTTTAGAT-AAAAAAAGAT
1 ATCTTGAATATTTTAGATAAAAAAAAGAT
100238 ATCTTGAATATTT
1 ATCTTGAATATTT
100251 GCTTTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (29 bp):
ATCTTGAATATTTTAGATAAAAAAAAGAT
Found at i:117612 original size:23 final size:23
Alignment explanation
Indices: 117585--117629 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
117575 ATTTACTTCG
*
117585 AAATTTCTCCAATGTGTTCAAAT
1 AAATTTCTCCAATGTCTTCAAAT
*
117608 AAATTTCTTCAATGTCTTCAAA
1 AAATTTCTCCAATGTCTTCAAA
117630 ACCGATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (23 bp):
AAATTTCTCCAATGTCTTCAAAT
Found at i:120565 original size:5 final size:5
Alignment explanation
Indices: 120555--120581 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
120545 TTCACTCAAT
120555 TCGAC TCGAC TCGAC TCGAC TCGAC TC
1 TCGAC TCGAC TCGAC TCGAC TCGAC TC
120582 AAATTTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (5 bp):
TCGAC
Found at i:123199 original size:22 final size:24
Alignment explanation
Indices: 123154--123201 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
123144 TGTTACATCA
*
123154 ATTTTTAATATTTTTTATCTTAATT
1 ATTTTTAATATTTTTTA-CATAATT
123179 ATTTTTAAT-TTTTTTA-ATAATT
1 ATTTTTAATATTTTTTACATAATT
123201 A
1 A
123202 CATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
24 7 0.32
25 9 0.41
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTTTAATATTTTTTACATAATT
Found at i:129482 original size:20 final size:20
Alignment explanation
Indices: 129453--129497 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
129443 CAGATTATAG
*
129453 ATAAATATCCTATGCAGTTT
1 ATAAACATCCTATGCAGTTT
*
129473 ATAAACATCCTGTGCAGTTT
1 ATAAACATCCTATGCAGTTT
129493 ATAAA
1 ATAAA
129498 AGATGACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (20 bp):
ATAAACATCCTATGCAGTTT
Found at i:130066 original size:9 final size:9
Alignment explanation
Indices: 130052--130082 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
130042 CGAGTTGATC
130052 CGAATAACT
1 CGAATAACT
130061 CGAATAACT
1 CGAATAACT
*
130070 CAAATAACT
1 CGAATAACT
130079 CGAA
1 CGAA
130083 CAATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.19
Consensus pattern (9 bp):
CGAATAACT
Found at i:130328 original size:58 final size:56
Alignment explanation
Indices: 130211--130336 Score: 146
Period size: 58 Copynumber: 2.2 Consensus size: 56
130201 ACATTTATAA
* * *
130211 AAATTTAATTTAATAATTATCTTAATAGTATTTTATTAATTTAATAAGATTTAATATT
1 AAATTTAATCTAATAATTATCTTAATAGTATTATATTAATTTAAT-A-ATTAAATATT
* *
130269 AAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAAT-ATTAAAGTGATT
1 AAATTTAATCTAATAATTATCTTAAT-AGTATTATATTAATTTAATAATTAAA-T-ATT
*
130327 AAGTTTAATC
1 AAATTTAATC
130337 ATAGTTAAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 35 0.59
59 18 0.31
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (56 bp):
AAATTTAATCTAATAATTATCTTAATAGTATTATATTAATTTAATAATTAAATATT
Found at i:131253 original size:18 final size:19
Alignment explanation
Indices: 131230--131267 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
131220 AGTAATCCGA
*
131230 TAAAATTTTCAAATA-ATT
1 TAAAATATTCAAATACATT
*
131248 TAAAATATTGAAATACATT
1 TAAAATATTCAAATACATT
131267 T
1 T
131268 TATATAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAATATTCAAATACATT
Found at i:132361 original size:197 final size:199
Alignment explanation
Indices: 132013--132430 Score: 581
Period size: 198 Copynumber: 2.1 Consensus size: 199
132003 TCAAGCACCC
* * *
132013 TTTGTTTTAAACAAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCAGTTCCTATTTTA
1 TTTGTTCTAAACGAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCACTTCCTATTTTA
** *
132078 TTTTGTGCAGTTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGAATTCTGCTAC
66 TCCTGTGCAGTTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTAC
* * * *
132143 CAAATTTTAATAACCTTTCAACACTAAAAAA-TAATATCTTTTAAATTACAAGTCGAAATCAATC
131 CAAATTTTAATAACCTTTCAACACTAAAAAATTAATATATTATAAACTACAAATCGAAATCAATC
132207 TCCA
196 TCCA
* *
132211 TTTGTTCTAAACGAAACTAGACTTCCGTACGGTTATAGGGATATAA-GGTTCACTTCCTATTTTA
1 TTTGTTCTAAACGAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCACTTCCTATTTTA
* * * *
132275 TCCTGTGCAGTGTTTT-GTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGGATTTTGTTG
66 TCCTGTGCAGT-TTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTA
* * * * *
132339 CCAGATTTTTATGACTTTTCAACACTAAAAAATTCATATATTATAAACTACAAATCGAAATCAAT
130 CCAAATTTTAATAACCTTTCAACACTAAAAAATTAATATATTATAAACTACAAATCGAAATCAAT
**
132404 CTCTG
195 CTCCA
* *
132409 TTTATTCTAAATGAAACTAGAC
1 TTTGTTCTAAACGAAACTAGAC
132431 AAACTCATTG
Statistics
Matches: 193, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
197 96 0.50
198 97 0.50
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (199 bp):
TTTGTTCTAAACGAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCACTTCCTATTTTA
TCCTGTGCAGTTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTAC
CAAATTTTAATAACCTTTCAACACTAAAAAATTAATATATTATAAACTACAAATCGAAATCAATC
TCCA
Found at i:132427 original size:198 final size:198
Alignment explanation
Indices: 132020--132430 Score: 574
Period size: 197 Copynumber: 2.1 Consensus size: 198
132010 CCCTTTGTTT
* * **
132020 TAAACAAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCAGTTCCTATTTTATTTTGTG
1 TAAACGAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCACTTCCTATTTTATCCTGTG
*
132085 CAGTTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGAATTCTGCTACCAAATTT
66 CAGTTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTACCAAATTT
* * * * *
132150 TAATAACCTTTCAACACTAAAAAATAATATCTTTTAAATTACAAGTCGAAATCAATCTCCATTTG
131 TAATAACCTTTCAACACTAAAAAATAATATATTATAAACTACAAATCGAAATCAATCTCCATTTA
132215 TTC
196 TTC
* *
132218 TAAACGAAACTAGACTTCCGTACGGTTATAGGGATATAA-GGTTCACTTCCTATTTTATCCTGTG
1 TAAACGAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCACTTCCTATTTTATCCTGTG
* * * * *
132282 CAGTGTTTT-GTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGGATTTTGTTGCCAGATT
66 CAGT-TTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTACCAAATT
* * * * **
132346 TTTATGACTTTTCAACACTAAAAAATTCATATATTATAAACTACAAATCGAAATCAATCTCTGTT
130 TTAATAACCTTTCAACACTAAAAAA-TAATATATTATAAACTACAAATCGAAATCAATCTCCATT
132411 TATTC
194 TATTC
*
132416 TAAATGAAACTAGAC
1 TAAACGAAACTAGAC
132431 AAACTCATTG
Statistics
Matches: 187, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
197 96 0.51
198 91 0.49
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (198 bp):
TAAACGAAACTAGACTTCCGTACGATTATAGGGATATAAGGGCTCACTTCCTATTTTATCCTGTG
CAGTTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTATTTTATAAGAATTCTGCTACCAAATTT
TAATAACCTTTCAACACTAAAAAATAATATATTATAAACTACAAATCGAAATCAATCTCCATTTA
TTC
Found at i:135640 original size:17 final size:18
Alignment explanation
Indices: 135604--135641 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
135594 CTTTTATTTT
*
135604 TTTAAAACAATATATGCA
1 TTTAAAACAATATATACA
*
135622 TTTAAAA-ACTATATACA
1 TTTAAAACAATATATACA
135639 TTT
1 TTT
135642 TATTTCATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (18 bp):
TTTAAAACAATATATACA
Found at i:135828 original size:218 final size:214
Alignment explanation
Indices: 135277--135815 Score: 676
Period size: 218 Copynumber: 2.5 Consensus size: 214
135267 CATTGAGCAC
** * * * * *
135277 TTATCGATTTTAAGTATGATACTC-ACTTATTTAGGTT-AAAAAAAAATCATACCCAACACGTTA
1 TTATCGATTTTAAACAAGATATTCGA-TTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTA
* *
135340 GGGCA-CAATTTCTCGAATTCCCTAAAATAAAAGAACATTGCCTTTATTTTTAAAACAATTTATG
65 GGGCACCACTTT-TCGAATTCCCTAAAATAAAAGAACATTGCCTTTATTTTTAAAACAATATATG
* * * * *
135404 TAAAAAAAATTATATACATTTTATTCTGTTAAAAATGTTTTGCAAAAAATGGATAAATCAATGTA
129 CAAAAAAAACTATATACATTTTATTCTATTAAAAATGCTTTGCAAAAAATGGATAAACCAATGTA
** *
135469 ATTCATGAGTAAAATTGACGA
194 ATTCACAAGTAAAATAGACGA
* * * * *
135490 TTATCGATTTTAAATAAGATATTCGATTATTCAAGTTCGAAGAAAAATCGTACCCAACACTTTAA
1 TTATCGATTTTAAACAAGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTAG
* * * *
135555 GGTACCACTTTTCGAATTTCCTAAAATCAAAGAACATTGCTTTTATTTTTTTAAAACAATATATG
66 GGCACCACTTTTCGAATTCCCTAAAATAAAAGAACATTGCCTTTA--TTTTTAAAACAATATATG
** *
135620 CATTTAAAAACTATATACATTTTATT-TCATTAAAAATGCTTTGCAAAAAGATGGATAAACCCAT
129 CA-AAAAAAACTATATACATTTTATTCT-ATTAAAAATGCTTTGCAAAAA-ATGGATAAACCAAT
*
135684 GTAATTTACAAGTAAAAATAG-CGA
191 GTAATTCACAAGT-AAAATAGACGA
*
135708 TTATCGATTTTAAAC-AGAATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGCTA
1 TTATCGATTTTAAACAAG-ATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTA
135772 GGGCACCACTTTTCGAATTCCCTAAAATAAAAGAACATTGCCTT
65 GGGCACCACTTTTCGAATTCCCTAAAATAAAAGAACATTGCCTT
135816 AATTAATTTA
Statistics
Matches: 278, Mismatches: 38, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
213 30 0.11
214 57 0.21
215 5 0.02
216 19 0.07
217 41 0.15
218 120 0.43
219 6 0.02
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (214 bp):
TTATCGATTTTAAACAAGATATTCGATTATTTAGGTTCGAAGAAAAATCGTACCCAACACGTTAG
GGCACCACTTTTCGAATTCCCTAAAATAAAAGAACATTGCCTTTATTTTTAAAACAATATATGCA
AAAAAAACTATATACATTTTATTCTATTAAAAATGCTTTGCAAAAAATGGATAAACCAATGTAAT
TCACAAGTAAAATAGACGA
Found at i:136999 original size:14 final size:14
Alignment explanation
Indices: 136967--137009 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
136957 GTAAATGGAC
*
136967 TTTGTTTTTAATTTAT
1 TTTG-TTTT-ATTTTT
136983 TTTGTTTTATTTTT
1 TTTGTTTTATTTTT
*
136997 TTTGGTTTATTTT
1 TTTGTTTTATTTT
137010 GATTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 17 0.68
15 4 0.16
16 4 0.16
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (14 bp):
TTTGTTTTATTTTT
Found at i:137200 original size:39 final size:40
Alignment explanation
Indices: 137156--137642 Score: 274
Period size: 40 Copynumber: 12.4 Consensus size: 40
137146 TCGTAACCTA
* * *
137156 TCTTCAATCTGCCCTTTGAAT-GGGTAAAAGATCGAATGG
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATGG
* * *
137195 TCTTCAATCTACCCTTTGGCTAGGGTAAGAGATTGGATGTG
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATG-G
* *
137236 T-TTCAATATGCCCTTTGGTTAGGGTAAAAGATTGGAT-G
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATGG
** * *
137274 -CTTCAATCTGCCCCATGG-TCGGGGTAAGAGATTGG-TGTG
1 TCTTCAATCTGCCCTTTGGAT-AGGGTAAAAGATTGGATG-G
* * * *
137313 TCTTCAATCTACCCTCTGGTTAGGTTAAAAGATTGGAT-G
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATGG
** *
137352 T-TTCAATCTGCCCCATGG-TCGGGGTAAAAGATTGG-TGTG
1 TCTTCAATCTGCCCTTTGGAT-AGGGTAAAAGATTGGATG-G
* * ***
137391 TCTTCAATATGCCCTCTATTTAGGGTAAAAGATTGGAT-G
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATGG
* * ** * *
137430 -CTTTAATCTACCCCATGGTTA-GGTAAGAGATTGGATGATG
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATG--G
* ** *
137470 TCTTTAATCTGCCCCATGG-TAGGGTAAGAGATTGGATGG
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATGG
* ** * ** * *
137509 -CTTCAATATGCCCCATGGTTATAGTAAAGGATTGGATAG
1 TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATGG
** * *
137548 -CTTCAATCTGCCCCATAG-TCAGGGTAAGAGATTGGATGATG
1 TCTTCAATCTGCCCTTTGGAT-AGGGTAAAAGATTGGATG--G
** * *
137589 TCTTCAATCTGCCCCATGG-TCGGGGTAAGAGATTGGAT-G
1 TCTTCAATCTGCCCTTTGGAT-AGGGTAAAAGATTGGATGG
* *
137628 ACTTCAATCTACCCT
1 TCTTCAATCTGCCCT
137643 ATGGTCATGG
Statistics
Matches: 363, Mismatches: 60, Indels: 50
0.77 0.13 0.11
Matches are distributed among these distances:
37 18 0.05
38 86 0.24
39 82 0.23
40 102 0.28
41 40 0.11
42 35 0.10
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (40 bp):
TCTTCAATCTGCCCTTTGGATAGGGTAAAAGATTGGATGG
Found at i:137300 original size:78 final size:79
Alignment explanation
Indices: 137156--137726 Score: 486
Period size: 78 Copynumber: 7.2 Consensus size: 79
137146 TCGTAACCTA
* ** * * * ** *
137156 TCTTCAATCTGCCCTTTGAAT-GGGTAAAAGATCGAATGGTCTTCAATCTACCCTTTGG-CTAGG
1 TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGAT-G-CTTCAATCTGCCCCATGGTC-GGG
137219 GTAAGAGATTGGATGTG
63 GTAAGAGATTGGATGTG
* *
137236 T-TTCAATATGCCCTTTGGTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTA
1 TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTA
137300 AGAGATTGG-TGTG
66 AGAGATTGGATGTG
* * * *
137313 TCTTCAATCTACCCTCTGGTTAGGTTAAAAGATTGGATGTTTCAATCTGCCCCATGGTCGGGGTA
1 TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTA
*
137378 AAAGATTGG-TGTG
66 AGAGATTGGATGTG
* * ** * * **
137391 TCTTCAATATGCCCTCTATTTAGGGTAAAAGATTGGATGCTTTAATCTACCCCATGGT-TAGGTA
1 TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTA
137455 AGAGATTGGATGATG
66 AGAGATTGGATG-TG
* * * * ****
137470 TCTTTAATCTGCCCCATGG-TAGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTTATAGT
1 TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGAT-GCTTCAATCTGCCCCATGGTCGGGGT
*
137534 AA-AGGATTGGAT-AG
65 AAGA-GATTGGATGTG
* * * *
137548 -CTTCAATCTGCCCCATAGTCAGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGGTCGG
1 TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATT-G--GATG-CTTCAATCTGCCCCATGGTCGG
137612 GGTAAGAGATTGGA--TG
62 GGTAAGAGATTGGATGTG
* * * * * * * *
137628 ACTTCAATCTACCCTATGGTCATGGTAAGAGACTGGATAATGTTTTCAATCTGCCTCATGGTCGG
1 TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGG---ATG-CTTCAATCTGCCCCATGGTCGG
*
137693 GGTAAGAGATT-GAT-CG
62 GGTAAGAGATTGGATGTG
* *
137709 ACTTTAATCTGCCCTATG
1 TCTTCAATCTGCCCTATG
137727 CTCGAGGTAA
Statistics
Matches: 413, Mismatches: 59, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
77 33 0.08
78 183 0.44
79 52 0.13
80 32 0.08
81 112 0.27
82 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (79 bp):
TCTTCAATCTGCCCTATGGTTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTA
AGAGATTGGATGTG
Found at i:137396 original size:118 final size:117
Alignment explanation
Indices: 137196--137704 Score: 437
Period size: 118 Copynumber: 4.3 Consensus size: 117
137186 ATCGAATGGT
** * * ** *
137196 CTTCAATCTACCCTTTGGCTAGGGTAAGAGATTGGATG-TGT-TTCAATATGCCCTTTGGTTAGG
1 CTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGA-GATGTCTTCAATCTGCCCCATGGTCAGG
* *
137259 GTAAAAGATTGGATGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGTGTG
65 GTAAAAGATTGGATGCTTCAATATGCCCCATGGTCAGGGTAAGAGATTGGT-TG
* * *
137313 TCTTCAATCTACCCTC-TGGTTAGGTTAAAAGATT-G-GATGT-TTCAATCTGCCCCATGGTCGG
1 -CTTCAATCTACCC-CATGGTTAGGGTAAGAGATTGGAGATGTCTTCAATCTGCCCCATGGTCAG
* * * *
137374 GGTAAAAGATTGGTGTGTCTTCAATATGCCCTCTAT--TTAGGGTAAAAGATTGGATG
64 GGTAAAAGATTGG-ATG-CTTCAATATGCCC-C-ATGGTCAGGGTAAGAGATTGGTTG
* *
137430 CTTTAATCTACCCCATGGTTA-GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGGT-AGG
1 CTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGA-GATGTCTTCAATCTGCCCCATGGTCAGG
* * ** *
137493 GTAAGAGATTGGATGGCTTCAATATGCCCCATGGTTATAGTAA-AGGATTGGATAG
65 GTAAAAGATTGGAT-GCTTCAATATGCCCCATGGTCAGGGTAAGA-GATTGG-TTG
* * * *
137548 CTTCAATCTGCCCCATAGTCAGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGGTCGGG
1 CTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGA-GATGTCTTCAATCTGCCCCATGGTCAGG
* * * * * *
137613 GTAAGAGATTGGATGACTTCAATCTACCCTATGGTCATGGTAAGAGACTGGATAATG
65 GTAAAAGATTGGATG-CTTCAATATGCCCCATGGTCAGGGTAAGAGATTGG-T--TG
* * * **
137670 TTTTCAATCTGCCTCATGGTCGGGGTAAGAGATTG
1 -CTTCAATCTACCCCATGGTTAGGGTAAGAGATTG
137705 ATCGACTTTA
Statistics
Matches: 325, Mismatches: 43, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
115 13 0.04
116 53 0.16
117 32 0.10
118 91 0.28
119 57 0.18
120 47 0.14
121 1 0.00
122 1 0.00
123 30 0.09
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (117 bp):
CTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGAGATGTCTTCAATCTGCCCCATGGTCAGGG
TAAAAGATTGGATGCTTCAATATGCCCCATGGTCAGGGTAAGAGATTGGTTG
Found at i:137647 original size:39 final size:39
Alignment explanation
Indices: 137216--137748 Score: 406
Period size: 39 Copynumber: 13.5 Consensus size: 39
137206 CCCTTTGGCT
** * ** *
137216 AGGGTAAGAGATTGGATGTGTTTCAATATGCCCTTTGGTT
1 AGGGTAAGAGATTGGATG-ACTTCAATCTGCCCCATGGTC
*
137256 AGGGTAAAAGATTGGATG-CTTCAATCTGCCCCATGGTC
1 AGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
* * * * *
137294 GGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTC-TGGTT
1 AGGGTAAGAGATTGG-ATGACTTCAATCTGCCC-CATGGTC
* * *
137334 AGGTTAAAAGATTGGATG-TTTCAATCTGCCCCATGGTC
1 AGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
* * * * * *
137372 GGGGTAAAAGATTGGTGTGTCTTCAATATGCCCTCTAT--TT
1 AGGGTAAGAGATTGG-ATGACTTCAATCTGCCC-C-ATGGTC
* * * *
137412 AGGGTAAAAGATTGGATG-CTTTAATCTACCCCATGGTT
1 AGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
*
137450 A-GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGGT-
1 AGGGTAAGAGATTGGATGA---CTTCAATCTGCCCCATGGTC
* * *
137490 AGGGTAAGAGATTGGATGGCTTCAATATGCCCCATGGTT
1 AGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
** *
137529 ATAGTAA-AGGATTGGAT-AGCTTCAATCTGCCCCATAGTC
1 AGGGTAAGA-GATTGGATGA-CTTCAATCTGCCCCATGGTC
137568 AGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGGTC
1 AGGGTAAGAGATTGGATGA---CTTCAATCTGCCCCATGGTC
* * *
137610 GGGGTAAGAGATTGGATGACTTCAATCTACCCTATGGTC
1 AGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
* * ** *
137649 ATGGTAAGAGACTGGATAATGTTTTCAATCTGCCTCATGGTC
1 AGGGTAAGAGATTGG---ATGACTTCAATCTGCCCCATGGTC
* * * *
137691 GGGGTAAGAGATT-GATCGACTTTAATCTGCCCTATGCTC
1 AGGGTAAGAGATTGGAT-GACTTCAATCTGCCCCATGGTC
*
137730 -GAGGTAAGAGATTGAATGA
1 AG-GGTAAGAGATTGGATGA
137749 TGTCTTTGCC
Statistics
Matches: 400, Mismatches: 65, Indels: 57
0.77 0.12 0.11
Matches are distributed among these distances:
36 2 0.00
37 17 0.04
38 90 0.22
39 110 0.28
40 76 0.19
41 37 0.09
42 68 0.17
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (39 bp):
AGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTC
Found at i:137718 original size:120 final size:118
Alignment explanation
Indices: 137216--137748 Score: 358
Period size: 120 Copynumber: 4.5 Consensus size: 118
137206 CCCTTTGGCT
* * ** ** *
137216 AGGGTAAGAGATTGGATG-TGTTTCAATATGCCCTTTGGTTAGGGTAAAAGATTGGATG-CTTCA
1 AGGGTAAGAGATTGGATGATCTTT-AATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTCA
* * *** * * * * *
137279 ATCTGCCCCATGGTCGGGGT-AAGAGATTGG-TGTGTCTTCAATCTACCCTC-TGGTT
65 ATATACCCCATGGTCATAGTAAAG-GACTGGAT-AG-CTTCAATCTGCCC-CATAGTC
* * * * * *
137334 AGGTTAAAAGATTGGATG-T-TTCAATCTGCCCCATGGTCGGGGTAAAAGATTGGTGTGTCTTCA
1 AGGGTAAGAGATTGGATGATCTTTAATCTGCCCCATGGTCGGGGTAAGAGATTGG-ATGACTTCA
* * ** * * * * * *
137397 ATATGCCCTCTAT--TTAGGGTAAAAGATTGGAT-GCTTTAATCTACCCCATGGTT
65 ATATACCC-C-ATGGTCATAGTAAAGGACTGGATAGCTTCAATCTGCCCCATAGTC
* *
137450 A-GGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGGT-AGGGTAAGAGATTGGATGGCTTC
1 AGGGTAAGAGATTGGATGA--TCTTTAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTC
* * *
137513 AATATGCCCCATGGTTATAGTAAAGGATTGGATAGCTTCAATCTGCCCCATAGTC
64 AATATACCCCATGGTCATAGTAAAGGACTGGATAGCTTCAATCTGCCCCATAGTC
*
137568 AGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTC
1 AGGGTAAGAGATTGGATGA--TCTTTAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTC
* * * * * *
137633 AATCTACCCTATGGTCATGGT-AAGAGACTGGATAATGTTTTCAATCTGCCTCATGGTC
64 AATATACCCCATGGTCATAGTAAAG-GACTGGAT-A-G-CTTCAATCTGCCCCATAGTC
* * * * *
137691 GGGGTAAGAGATT-GATCGA-CTTTAATCTGCCCTATGCTCGAGGTAAGAGATTGAATGA
1 AGGGTAAGAGATTGGAT-GATCTTTAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGA
137749 TGTCTTTGCC
Statistics
Matches: 348, Mismatches: 46, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
115 17 0.05
116 45 0.13
117 36 0.10
118 72 0.21
119 62 0.18
120 80 0.23
121 1 0.00
122 4 0.01
123 31 0.09
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (118 bp):
AGGGTAAGAGATTGGATGATCTTTAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGACTTCAA
TATACCCCATGGTCATAGTAAAGGACTGGATAGCTTCAATCTGCCCCATAGTC
Found at i:145214 original size:21 final size:21
Alignment explanation
Indices: 145163--145207 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
145153 CATAGAGACT
* *
145163 CTTCTAGCTCGGTTATTTGGG
1 CTTCTAGCTCGGCTATTGGGG
145184 CTTCTAGCTCGGCTATTGGGG
1 CTTCTAGCTCGGCTATTGGGG
145205 CTT
1 CTT
145208 TCAGCTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.22, G:0.29, T:0.40
Consensus pattern (21 bp):
CTTCTAGCTCGGCTATTGGGG
Found at i:148261 original size:26 final size:26
Alignment explanation
Indices: 148232--148284 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
148222 ACCTTGCCTT
*
148232 AATTAAT-TTTTTTAGAAAAAAAAAAC
1 AATTAATATATTTTA-AAAAAAAAAAC
* *
148258 AATTTATATATTTTAAAAAAAACAAC
1 AATTAATATATTTTAAAAAAAAAAAC
148284 A
1 A
148285 TACAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (26 bp):
AATTAATATATTTTAAAAAAAAAAAC
Found at i:151773 original size:42 final size:42
Alignment explanation
Indices: 151662--151789 Score: 154
Period size: 42 Copynumber: 3.0 Consensus size: 42
151652 TGTATAAAAG
* * *
151662 GGAAGACTCATGTCTCGGGTTGAGCATGAGGATT-TG-TATAAA
1 GGAAGACTCATGTCTCGGGATAAGAATGA-GATTATGAT-TAAA
*
151704 TGGAAGACTCATGTCTCGAGA-AGAGAATGAGATTATGATTAAA
1 -GGAAGACTCATGTCTCGGGATA-AGAATGAGATTATGATTAAA
*
151747 GGAAGACTCATGTCTCGGGATAAGAATGAGAATATGATTAAA
1 GGAAGACTCATGTCTCGGGATAAGAATGAGATTATGATTAAA
151789 G
1 G
151790 AAAGGCTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 43 0.57
43 31 0.41
44 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (42 bp):
GGAAGACTCATGTCTCGGGATAAGAATGAGATTATGATTAAA
Found at i:154025 original size:26 final size:26
Alignment explanation
Indices: 153981--154031 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
153971 AAGCTCATAA
*
153981 AAATTATAAAAAATATTAAATTTTAG
1 AAATTATAAAAAATATTAAAATTTAG
*
154007 AAATTATAAAATGAT-TTAAAATTTA
1 AAATTATAAAA-AATATTAAAATTTA
154032 TAAAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
AAATTATAAAAAATATTAAAATTTAG
Found at i:154082 original size:18 final size:18
Alignment explanation
Indices: 154007--154089 Score: 59
Period size: 18 Copynumber: 4.7 Consensus size: 18
153997 TAAATTTTAG
154007 AAATTATAAAATGATT-TA
1 AAATTATAAAAT-ATTCTA
* *
154025 AAATTTATAAAA-AATCATG
1 AAA-TTATAAAATATTC-TA
*
154044 AAATTAT--AAT-TTATAA
1 AAATTATAAAATATTCT-A
154060 AAATTATAAAATATTCTA
1 AAATTATAAAATATTCTA
*
154078 AAATTCTAAAAT
1 AAATTATAAAAT
154090 TATTATAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
15 1 0.02
16 10 0.20
17 2 0.04
18 22 0.44
19 15 0.30
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATTATAAAATATTCTA
Found at i:154896 original size:18 final size:18
Alignment explanation
Indices: 154856--154914 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
154846 TCTTAATGAT
* *
154856 TTTTATAATTTTTTTTACAA
1 TTTTA-AATTATTTTTA-TA
154876 TTTTAAATTATTTTTATA
1 TTTTAAATTATTTTTATA
* *
154894 TTTT-AGTGATTTTTATA
1 TTTTAAATTATTTTTATA
154911 TTTT
1 TTTT
154915 TAGAAATTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.43
18 5 0.14
19 10 0.29
20 5 0.14
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTAAATTATTTTTATA
Found at i:154923 original size:18 final size:17
Alignment explanation
Indices: 154885--154923 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
154875 ATTTTAAATT
**
154885 ATTTTTATATTTTAGTG
1 ATTTTTATATTTTAGAA
154902 ATTTTTATATTTTTAGAA
1 ATTTTTATA-TTTTAGAA
154920 ATTT
1 ATTT
154924 CATTCAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (17 bp):
ATTTTTATATTTTAGAA
Found at i:159550 original size:19 final size:19
Alignment explanation
Indices: 159520--159568 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
159510 TGGATTACTA
159520 TAAAAAATTAAATATT-TTT
1 TAAAAAA-TAAATATTATTT
159539 TCAAAAAATAAATATTATTT
1 T-AAAAAATAAATATTATTT
159559 T-AAAAATAAA
1 TAAAAAATAAA
159569 ATAAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.32
19 9 0.32
20 10 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAAATAAATATTATTT
Found at i:159570 original size:19 final size:19
Alignment explanation
Indices: 159522--159571 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
159512 GATTACTATA
*
159522 AAAAATTAAATATTTTTTC
1 AAAAATAAAATATTTTTTC
159541 AAAAA-ATAAATATTATTTT-
1 AAAAATA-AAATATT-TTTTC
159560 AAAAATAAAATA
1 AAAAATAAAATA
159572 AATAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATAAAATATTTTTTC
Found at i:162363 original size:274 final size:274
Alignment explanation
Indices: 161874--162425 Score: 1023
Period size: 274 Copynumber: 2.0 Consensus size: 274
161864 TAAAGAAGAA
*
161874 TTAATTCCATTTCTTCTTGGACTTTTTACAGGTTAAAACTACCCTACTACCAACTGCCTTCCCTT
1 TTAATTCCATTTCTTCTTGGACTTTTTACAGGTTAAAACTACCCTACTACCAACTGCCTTCCCTA
*
161939 CATCTATTTAATTTTTTGGTTAGTTTAAACGGATTTTTGGATAGCTTTTGAGTGCATCTATTAGT
66 CATCTATTTAATTTTTTGGTTAGTTTAAACGGATATTTGGATAGCTTTTGAGTGCATCTATTAGT
*
162004 TTTGTGCCATACAATTTGCTATTCTTTAGGTTTCTATTTGCTATCTGGGGAAAACCACTTTTCTC
131 TTCGTGCCATACAATTTGCTATTCTTTAGGTTTCTATTTGCTATCTGGGGAAAACCACTTTTCTC
*
162069 ATAGAATTTGCTGATAGTTCAATGACAGATTACTTGGTTTGATGTGCAAGGTCTTCTGTGCTGTT
196 ATAGAATTTGCTGATAGTTCAATGACAGAGTACTTGGTTTGATGTGCAAGGTCTTCTGTGCTGTT
162134 AACTAGGATTGGGT
261 AACTAGGATTGGGT
162148 TTAATTCCATTTCTTCTTGGACTTTTTACAGGTTAAAACTACCCTACTACCAACTGCCTTCCCTA
1 TTAATTCCATTTCTTCTTGGACTTTTTACAGGTTAAAACTACCCTACTACCAACTGCCTTCCCTA
* *
162213 CATCTTTTTAATTTTTTGGTTAGTTTAAATGGATATTTGGATAGCTTTTGAGTGCATCTATTAGT
66 CATCTATTTAATTTTTTGGTTAGTTTAAACGGATATTTGGATAGCTTTTGAGTGCATCTATTAGT
* *
162278 TTCGTGCCATGCAATTTGCTATTCTTTAGGTTTCTATTTTCTATCTGGGGAAAACCACTTTTCTC
131 TTCGTGCCATACAATTTGCTATTCTTTAGGTTTCTATTTGCTATCTGGGGAAAACCACTTTTCTC
*
162343 ATAGACTTTGCTGATAGTTCAATGACAGAGTACTTGGTTTGATGTGCAAGGTCTTCTGTGCTGTT
196 ATAGAATTTGCTGATAGTTCAATGACAGAGTACTTGGTTTGATGTGCAAGGTCTTCTGTGCTGTT
162408 AACTAGGATTGGGT
261 AACTAGGATTGGGT
162422 TTAA
1 TTAA
162426 CTGGATCTGC
Statistics
Matches: 269, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
274 269 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.43
Consensus pattern (274 bp):
TTAATTCCATTTCTTCTTGGACTTTTTACAGGTTAAAACTACCCTACTACCAACTGCCTTCCCTA
CATCTATTTAATTTTTTGGTTAGTTTAAACGGATATTTGGATAGCTTTTGAGTGCATCTATTAGT
TTCGTGCCATACAATTTGCTATTCTTTAGGTTTCTATTTGCTATCTGGGGAAAACCACTTTTCTC
ATAGAATTTGCTGATAGTTCAATGACAGAGTACTTGGTTTGATGTGCAAGGTCTTCTGTGCTGTT
AACTAGGATTGGGT
Found at i:169689 original size:5 final size:5
Alignment explanation
Indices: 169648--169688 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
169638 ATCCTTGAAT
* * *
169648 TTGAG TTGAC TTGAG TTGAG TTGAG TTGAG TAGAG TCGAG T
1 TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG TTGAG T
169689 CTCATGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.22, C:0.05, G:0.37, T:0.37
Consensus pattern (5 bp):
TTGAG
Found at i:177012 original size:58 final size:58
Alignment explanation
Indices: 176934--177081 Score: 163
Period size: 61 Copynumber: 2.5 Consensus size: 58
176924 ACTTGATATT
* ** *
176934 TTTTTCCTAATTTAGCACCTAAATTTTTTTT-ACCCAATTTGGTATCTGAACTTGACA
1 TTTTTCCTAATTTGGCACCTAAATTTTTTTTGACCCAATTTAATACCTGAACTTGACA
* * * *
176991 CTTTTTCCTAATTTGGTACCTACACTTTTTTTTGGACCTAATTTAATACCTGAACTTGATA
1 -TTTTTCCTAATTTGGCACCTA-AATTTTTTTT-GACCCAATTTAATACCTGAACTTGACA
* * *
177052 TTTTTCCCAATTTGACACCTAAACTTTTTT
1 TTTTTCCTAATTTGGCACCTAAATTTTTTT
177082 AAGAATCAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
58 19 0.26
59 16 0.22
60 18 0.24
61 21 0.28
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (58 bp):
TTTTTCCTAATTTGGCACCTAAATTTTTTTTGACCCAATTTAATACCTGAACTTGACA
Found at i:177081 original size:61 final size:59
Alignment explanation
Indices: 176923--177081 Score: 171
Period size: 60 Copynumber: 2.7 Consensus size: 59
176913 TTGGTTCCTA
** *
176923 AACTTGATATTTTTTTCCTAATTT-AGCACCTAAA-TTTTTTTTACCCAATTTGGTATCTG
1 AACTTGATA-TTTTTTCCTAATTTGA-CACCTAAACTTTTTTTTACCCAATTTAATACCTG
* * ** * *
176982 AACTTGACACTTTTTCCTAATTTGGTACCTACACTTTTTTTTGGACCTAATTTAATACCTG
1 AACTTGATATTTTTTCCTAATTTGACACCTAAACTTTTTTTT--ACCCAATTTAATACCTG
*
177043 AACTTGATA-TTTTTCCCAATTTGACACCTAAACTTTTTT
1 AACTTGATATTTTTTCCTAATTTGACACCTAAACTTTTTT
177082 AAGAATCAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
58 19 0.23
59 16 0.20
60 26 0.32
61 21 0.26
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (59 bp):
AACTTGATATTTTTTCCTAATTTGACACCTAAACTTTTTTTTACCCAATTTAATACCTG
Found at i:179023 original size:20 final size:20
Alignment explanation
Indices: 178995--179034 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
178985 TAATAATTTC
*
178995 TAATTTTTAAAATTTTTAAA
1 TAATATTTAAAATTTTTAAA
*
179015 TAATATTTAATATTTTTAAA
1 TAATATTTAAAATTTTTAAA
179035 AGGCTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATATTTAAAATTTTTAAA
Found at i:180279 original size:25 final size:25
Alignment explanation
Indices: 180251--180357 Score: 72
Period size: 25 Copynumber: 4.2 Consensus size: 25
180241 TTCACCTCTA
180251 AGGCTTCCCAAATAATACGCCACAT
1 AGGCTTCCCAAATAATACGCCACAT
** * * * *
180276 AGGCTTTTCAAGTAATTCGCCATAA
1 AGGCTTCCCAAATAATACGCCACAT
* * * * *
180301 AAGCTTTCCAGATAAATTCACCAC-T
1 AGGCTTCCCAAAT-AATACGCCACAT
* *
180326 AAGGTTTCCCAAATAATATGCCACAT
1 -AGGCTTCCCAAATAATACGCCACAT
180352 AGGCTT
1 AGGCTT
180358 TTCAAGTAAC
Statistics
Matches: 58, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
25 40 0.69
26 18 0.31
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (25 bp):
AGGCTTCCCAAATAATACGCCACAT
Found at i:180379 original size:76 final size:76
Alignment explanation
Indices: 180169--180383 Score: 292
Period size: 76 Copynumber: 2.8 Consensus size: 76
180159 AGAGGTCTTG
* **
180169 CCACTAAGGCTTCCCAAATAATATGCGACATAGGCTTTTCAAGTAACT-TGCTGC-AAAGACTTT
1 CCACTAAGGCTTCCCAAATAATATGCCACATAGGCTTTTCAAGTAACTCACCT-CAAAAG-CTTT
**
180232 TTAGATAAATTCA
64 CCAGATAAATTCA
* * * *
180245 CCTCTAAGGCTTCCCAAATAATACGCCACATAGGCTTTTCAAGTAATTCGCCAT-AAAAGCTTTC
1 CCACTAAGGCTTCCCAAATAATATGCCACATAGGCTTTTCAAGTAACTCACC-TCAAAAGCTTTC
180309 CAGATAAATTCA
65 CAGATAAATTCA
*
180321 CCACTAAGGTTTCCCAAATAATATGCCACATAGGCTTTTCAAGTAACTCACCTCAAAAGCTTT
1 CCACTAAGGCTTCCCAAATAATATGCCACATAGGCTTTTCAAGTAACTCACCTCAAAAGCTTT
180384 GTTTGGTTTG
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
75 1 0.01
76 115 0.94
77 5 0.04
78 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.29
Consensus pattern (76 bp):
CCACTAAGGCTTCCCAAATAATATGCCACATAGGCTTTTCAAGTAACTCACCTCAAAAGCTTTCC
AGATAAATTCA
Found at i:189605 original size:36 final size:36
Alignment explanation
Indices: 189558--189639 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 36
189548 TAGGTTGTTA
189558 AGATCCATAAAGTTGAGGTCCCAAATTGTCAAAGTT
1 AGATCCATAAAGTTGAGGTCCCAAATTGTCAAAGTT
* *
189594 AGATCCATAAAGTTGAGGTCCTAAATTGTCGAAGTT
1 AGATCCATAAAGTTGAGGTCCCAAATTGTCAAAGTT
189630 AGGATCCATA
1 A-GATCCATA
189640 CAGATGACAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
36 35 0.81
37 8 0.19
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (36 bp):
AGATCCATAAAGTTGAGGTCCCAAATTGTCAAAGTT
Found at i:190374 original size:22 final size:22
Alignment explanation
Indices: 190341--190385 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
190331 TATTTTAATA
190341 ATATTGAAATTTATAATAT-TTG
1 ATATTGAAATTT-TAATATGTTG
190363 ATATT-AATATTTTAATATGTTG
1 ATATTGAA-ATTTTAATATGTTG
190385 A
1 A
190386 AAAATATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
ATATTGAAATTTTAATATGTTG
Found at i:191065 original size:18 final size:18
Alignment explanation
Indices: 191026--191065 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
191016 TTTAATAATA
* *
191026 TTTTTATCTCAAAAGTGT
1 TTTTTATCTCAAAAATGC
191044 TTTTTATCTCAAAAATGC
1 TTTTTATCTCAAAAATGC
191062 TTTT
1 TTTT
191066 GACAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (18 bp):
TTTTTATCTCAAAAATGC
Found at i:198136 original size:9 final size:9
Alignment explanation
Indices: 198122--198147 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
198112 GAAGTATTTA
198122 AAGAAATTG
1 AAGAAATTG
198131 AAGAAATTG
1 AAGAAATTG
198140 AAGAAATT
1 AAGAAATT
198148 TTGACGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (9 bp):
AAGAAATTG
Found at i:203297 original size:18 final size:19
Alignment explanation
Indices: 203269--203308 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
203259 TGTCTGTTAG
* *
203269 TTAATTATTTATATTTATA
1 TTAATTATTTAAATTGATA
203288 TTAA-TATTTAAATTGATA
1 TTAATTATTTAAATTGATA
203306 TTA
1 TTA
203309 GGAATTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TTAATTATTTAAATTGATA
Found at i:205553 original size:7 final size:7
Alignment explanation
Indices: 205541--205569 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
205531 AAATATAATC
205541 GTGAAGT
1 GTGAAGT
205548 GTGAAGT
1 GTGAAGT
205555 GTGAAGT
1 GTGAAGT
205562 GTGAAGT
1 GTGAAGT
205569 G
1 G
205570 AAGAGAGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.45, T:0.28
Consensus pattern (7 bp):
GTGAAGT
Found at i:210608 original size:31 final size:32
Alignment explanation
Indices: 210573--210632 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
210563 TTTTTGGTCC
*
210573 AATTTGATA-CTCAAACTTGACA-CTTTTTCCT
1 AATTTGATACCT-AAACCTGACACCTTTTTCCT
*
210604 AATTTGGTACCTAAACCTGACACCTTTTT
1 AATTTGATACCTAAACCTGACACCTTTTT
210633 TAAGTTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (32 bp):
AATTTGATACCTAAACCTGACACCTTTTTCCT
Found at i:210642 original size:30 final size:30
Alignment explanation
Indices: 210585--210648 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
210575 TTTGATACTC
* *
210585 AAACTTGACACTTTTTCCTAATTTGGTACCT
1 AAACCTGACACTTTTT-CTAAGTTGGTACCT
*
210616 AAACCTGACACCTTTTT-TAAGTTGGTACTT
1 AAACCTGACA-CTTTTTCTAAGTTGGTACCT
210646 AAA
1 AAA
210649 TTTTTTGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 9 0.31
32 6 0.21
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (30 bp):
AAACCTGACACTTTTTCTAAGTTGGTACCT
Found at i:210908 original size:24 final size:26
Alignment explanation
Indices: 210853--210909 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
210843 AATTTTTAAT
*
210853 AAATTTAGGTATCAAATTGAATATAAAA
1 AAATTTAGGTACCAAATT--ATATAAAA
210881 AAATTTAGGTACCAAATT-TA-AAAA
1 AAATTTAGGTACCAAATTATATAAAA
210905 AAATT
1 AAATT
210910 GTCAAATTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 9 0.32
25 2 0.07
28 17 0.61
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (26 bp):
AAATTTAGGTACCAAATTATATAAAA
Found at i:210929 original size:60 final size:60
Alignment explanation
Indices: 210860--210974 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
210850 AATAAATTTA
* * *
210860 GGTATCAAATTGAATATAAAAAAA-TTTAGGTACCAAATTTAA-AAAAAATTGTCAAATTCG
1 GGTACCAAATAGAATAAAAAAAAAGTTTAGGTACCAAA-TTAATAAAAAA-TGTCAAATTCG
* *
210920 GGTACCAAATAGAGTAAAAAAAAAGTTTAGGTACTAAATTAATAAAAAATGTCAA
1 GGTACCAAATAGAATAAAAAAAAAGTTTAGGTACCAAATTAATAAAAAATGTCAA
210975 GTTTAAATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 30 0.62
61 18 0.38
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (60 bp):
GGTACCAAATAGAATAAAAAAAAAGTTTAGGTACCAAATTAATAAAAAATGTCAAATTCG
Found at i:210986 original size:60 final size:60
Alignment explanation
Indices: 210877--210989 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
210867 AATTGAATAT
***
210877 AAAAAAATTTAGGTACCAAATTTAAAAAAAATTGTCAAATTCGGGTACCAAATAGAGTAA
1 AAAAAAATTTAGGTACCAAATTTAAAAAAAATTGTCAAATTCAAATACCAAATAGAGTAA
* * *
210937 AAAAAAAGTTTAGGTACTAAA-TTAATAAAAAA-TGTCAAGTTTAAATACCAAAT
1 AAAAAAA-TTTAGGTACCAAATTTAA-AAAAAATTGTCAAATTCAAATACCAAAT
210990 GTTATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 27 0.60
61 18 0.40
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.27
Consensus pattern (60 bp):
AAAAAAATTTAGGTACCAAATTTAAAAAAAATTGTCAAATTCAAATACCAAATAGAGTAA
Found at i:211551 original size:12 final size:12
Alignment explanation
Indices: 211534--211570 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
211524 ATAATAATAG
211534 ATTCGATTCGAA
1 ATTCGATTCGAA
*
211546 ATTCGATTCGAT
1 ATTCGATTCGAA
*
211558 ATTCGATCCGAA
1 ATTCGATTCGAA
211570 A
1 A
211571 AATATTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (12 bp):
ATTCGATTCGAA
Found at i:212675 original size:21 final size:21
Alignment explanation
Indices: 212651--212713 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 21
212641 AAAATATTTA
*
212651 TTTTATTTTATATTTAATAAT
1 TTTTATATTATATTTAATAAT
*
212672 TTTT-TATT-TATTGAA-AAT
1 TTTTATATTATATTTAATAAT
* *
212690 TTTTA-GTTAT-TTTAATATT
1 TTTTATATTATATTTAATAAT
212709 TTTTA
1 TTTTA
212714 ATGTTTACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 13 0.38
19 14 0.41
20 3 0.09
21 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTTATATTATATTTAATAAT
Found at i:213045 original size:31 final size:31
Alignment explanation
Indices: 212988--213069 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
212978 ATGGTAATTA
* * *
212988 AATTAAATTAAATT-AATTATTATATAATTT
1 AATTAAATTAAATTAAAATGTTATATAATGT
*
213018 GATTAAATTAAATTAAAATGTTATATAATGT
1 AATTAAATTAAATTAAAATGTTATATAATGT
*
213049 AATTAAATTAAGTTAATAATG
1 AATTAAATTAAATTAA-AATG
213070 AGTCCCATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
30 13 0.30
31 27 0.61
32 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (31 bp):
AATTAAATTAAATTAAAATGTTATATAATGT
Found at i:217677 original size:23 final size:22
Alignment explanation
Indices: 217641--217693 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 22
217631 ATTCTAACAA
*
217641 CTCTCAAAACCTTACTGCTTTTCTT
1 CTCTC-AAACCTTA-T-ATTTTCTT
217666 CTCTCAAA-CTTATATTTTCTT
1 CTCTCAAACCTTATATTTTCTT
217687 CTCTCAA
1 CTCTCAA
217694 GTTTAGTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 1 0.04
23 4 0.15
24 3 0.11
25 5 0.19
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.45
Consensus pattern (22 bp):
CTCTCAAACCTTATATTTTCTT
Found at i:220909 original size:13 final size:13
Alignment explanation
Indices: 220892--220925 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
220882 TTAAATATTT
220892 ATATTAGTTTTAA
1 ATATTAGTTTTAA
* *
220905 TTATTATTTTTAA
1 ATATTAGTTTTAA
220918 ATATTAGT
1 ATATTAGT
220926 ATTGTTAAAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (13 bp):
ATATTAGTTTTAA
Found at i:221287 original size:17 final size:17
Alignment explanation
Indices: 221246--221288 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
221236 AATACTACTT
*
221246 TAATGTAAACATTAAAA
1 TAATATAAACATTAAAA
* *
221263 AAAGTATAAATATTAAAA
1 TAA-TATAAACATTAAAA
221281 TAATATAA
1 TAATATAA
221289 TACAAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
TAATATAAACATTAAAA
Found at i:221557 original size:15 final size:17
Alignment explanation
Indices: 221537--221570 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
221527 TCTCAATTGT
221537 ATAAA-TATT-GTTTTA
1 ATAAATTATTAGTTTTA
221552 ATAAATTATTAGTTTTA
1 ATAAATTATTAGTTTTA
221569 AT
1 AT
221571 GTATATTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATAAATTATTAGTTTTA
Found at i:224543 original size:231 final size:231
Alignment explanation
Indices: 224140--224603 Score: 811
Period size: 231 Copynumber: 2.0 Consensus size: 231
224130 TTTATTGAAG
224140 CTTTCTCTCTCTAGCCATATTTTCTCTCACTAAACTCATAAAACCTAAGTCTTGAAAAAATGAAA
1 CTTTCTCTCTCTAGCCATATTTTCTCTCACTAAACTCATAAAACCTAAGTCTTGAAAAAATGAAA
224205 GTGATTAAGGGATTATGCTTAAGAGGTGATTTTCTTCTTGATTTAAACAAAAGAACCAAGTATTT
66 GTGATTAAGGGATTATGCTTAAGAGGTGATTTTCTTCTTGATTTAAACAAAAGAACCAAGTATTT
* *
224270 AAGGTAGGATTAGGTTTAGATTTGAAGAAAAAGGAAAAAAGAGAAAATTTTCCCCCCTTACTATG
131 AAGATAGGATTAAGTTTAGATTTGAAGAAAAAGGAAAAAAGAGAAAATTTTCCCCCCTTACTATG
* *
224335 GGGAGGGACACTTTGTTGGGGAAGATGAGTCATCTT
196 GGGAGAGACACTTTGTTGGGGAAGATGAGTAATCTT
* * *
224371 CTTTCTCTCTCTAGCCATATTTTCTCTCACTAAACTCATAAACCCTAAGTTTTGAAAAGATGAAA
1 CTTTCTCTCTCTAGCCATATTTTCTCTCACTAAACTCATAAAACCTAAGTCTTGAAAAAATGAAA
*
224436 GTGATTAAGGGATTATGCTTAAGAGGTGATTTTCTTCTTGATTTCAACAAAAGAACCAAGTATTT
66 GTGATTAAGGGATTATGCTTAAGAGGTGATTTTCTTCTTGATTTAAACAAAAGAACCAAGTATTT
* * * *
224501 GAGATAGGATTAAGTTTAGATTTGTAGAAAAAGGAAAAAAGAGAAAGTTTTCCCCCTTTACTATG
131 AAGATAGGATTAAGTTTAGATTTGAAGAAAAAGGAAAAAAGAGAAAATTTTCCCCCCTTACTATG
*
224566 GGGAGAGACACTTTGTTGGGGAAGGTGAGTAATCTT
196 GGGAGAGACACTTTGTTGGGGAAGATGAGTAATCTT
224602 CT
1 CT
224604 CCCATTTTAA
Statistics
Matches: 220, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
231 220 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (231 bp):
CTTTCTCTCTCTAGCCATATTTTCTCTCACTAAACTCATAAAACCTAAGTCTTGAAAAAATGAAA
GTGATTAAGGGATTATGCTTAAGAGGTGATTTTCTTCTTGATTTAAACAAAAGAACCAAGTATTT
AAGATAGGATTAAGTTTAGATTTGAAGAAAAAGGAAAAAAGAGAAAATTTTCCCCCCTTACTATG
GGGAGAGACACTTTGTTGGGGAAGATGAGTAATCTT
Found at i:229236 original size:67 final size:67
Alignment explanation
Indices: 229115--229290 Score: 268
Period size: 67 Copynumber: 2.7 Consensus size: 67
229105 ATGGGTTGTA
*
229115 ATGGGGTATAATGTGT--AACCATAGCTCAACCATGGCAACATAGAGAGTCCGCTAAGAAATTAA
1 ATGGGGTATAATGTGTAAAACCATAGCTCAACTATGGCAACATAGAGAGTCCGCTAAGAAATTAA
229178 AC
66 AC
* * * *
229180 ATGGGGTATAATGTGTAAAATCATATCTCAACTATGGAAACATAGAGAG-CCTGCTAAGACATTA
1 ATGGGGTATAATGTGTAAAACCATAGCTCAACTATGGCAACATAGAGAGTCC-GCTAAGAAATTA
229244 AAC
65 AAC
*
229247 AAGGGGTATAATGTGTAAAACCATAGCTCAACTATGGCAACATA
1 ATGGGGTATAATGTGTAAAACCATAGCTCAACTATGGCAACATA
229291 TGGAATTCGT
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 16 0.16
66 2 0.02
67 81 0.82
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAAACCATAGCTCAACTATGGCAACATAGAGAGTCCGCTAAGAAATTAA
AC
Found at i:231707 original size:62 final size:62
Alignment explanation
Indices: 231610--231731 Score: 244
Period size: 62 Copynumber: 2.0 Consensus size: 62
231600 ATACATATGT
231610 ATATGTATGTATAGGTGGATATATATTTAGTACTATATTAAGATCCTACTACAAGCCATTAC
1 ATATGTATGTATAGGTGGATATATATTTAGTACTATATTAAGATCCTACTACAAGCCATTAC
231672 ATATGTATGTATAGGTGGATATATATTTAGTACTATATTAAGATCCTACTACAAGCCATT
1 ATATGTATGTATAGGTGGATATATATTTAGTACTATATTAAGATCCTACTACAAGCCATT
231732 CTTAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (62 bp):
ATATGTATGTATAGGTGGATATATATTTAGTACTATATTAAGATCCTACTACAAGCCATTAC
Found at i:231925 original size:3 final size:3
Alignment explanation
Indices: 231917--231955 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
231907 ATCGACTATG
* *
231917 TGT TGT TGT TGT TGT TGT TGC AGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
231956 CCGGGAAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.03, G:0.33, T:0.62
Consensus pattern (3 bp):
TGT
Found at i:233964 original size:13 final size:13
Alignment explanation
Indices: 233941--233973 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
233931 TGCATGTGAT
233941 ATTTT-TAAATAA
1 ATTTTATAAATAA
233953 ATTTTATAAATAA
1 ATTTTATAAATAA
*
233966 ATATTATA
1 ATTTTATA
233974 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAATAA
Found at i:238435 original size:2 final size:2
Alignment explanation
Indices: 238430--238459 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
238420 TCATTTATCA
238430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
238460 TGTAATTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:244573 original size:19 final size:19
Alignment explanation
Indices: 244549--244588 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
244539 GTTACAAACT
*
244549 AAAGTTTCCATATGGTACC
1 AAAGTTTCCATATAGTACC
*
244568 AAAGTTTCTATATAGTACC
1 AAAGTTTCCATATAGTACC
244587 AA
1 AA
244589 TTCACAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
AAAGTTTCCATATAGTACC
Found at i:245455 original size:42 final size:42
Alignment explanation
Indices: 245400--245989 Score: 692
Period size: 42 Copynumber: 14.4 Consensus size: 42
245390 CTTGTATTAA
* * *
245400 GGGTAAAAGATTGGATAATGTCTTCAATCTGCCCTATGATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
*
245442 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* *
245484 GGGTGAGAGATTGGATG--G-CTTCAATCTACCCCATGATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* *
245523 GGGTAAGAGATTGGATCATGTCTTTAATCTGCCCCATGATC-
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
*
245564 GAGTAAGAGATTGGATGA---CTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* * * * *
245603 GGGTAAGAGATTAGATGATGTCTTAAATCTGTCCAATGATTG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* *
245645 GGGTAAGAGATTGGATG--G-CTTTAATCTGCCCCATGATTG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* *
245684 GGGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATTG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* * *
245726 GGGTAAGAGATTGGATGATGTCTTTAATCTACTCCATGATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* *
245768 GGGTAAGAGATTGGATGA---CTTTAATCTGCCCCATGATTG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* *
245807 GGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATAATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* * * *
245849 GGATAAGAGA-T-CA-GATGGCTTCAATTTGCCCCATGATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* * * *
245888 GGGTAAGAGATTGAAAGATTTCTTCAATCTGCCTCATGATCG
1 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
* * * *
245930 GGATAAGAGATTTGAT-ATTATCTTCAATTTGCCCCATGATCG
1 GGGTAAGAGATTGGATGA-TGTCTTCAATCTGCCCCATGATCG
* * *
245972 AGGTAAGAAATTTGATGA
1 GGGTAAGAGATTGGATGA
245990 CTTCAATCTA
Statistics
Matches: 474, Mismatches: 56, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
38 19 0.04
39 152 0.32
40 4 0.01
41 21 0.04
42 277 0.58
43 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCG
Found at i:245520 original size:81 final size:81
Alignment explanation
Indices: 245421--246000 Score: 654
Period size: 81 Copynumber: 7.1 Consensus size: 81
245411 TGGATAATGT
* * *
245421 CTTCAATCTGCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGATCGGG
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
*
245486 GTGAGAGATTGGATGG
66 GTAAGAGATTGGATGG
* * *
245502 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATCATGTCTTTAATCTGCCCCATGATC-GA
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
*
245566 GTAAGAGATTGGATGA
66 GTAAGAGATTGGATGG
* * * * * *
245582 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGATGATGTCTTAAATCTGTCCAATGATTGGG
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
245647 GTAAGAGATTGGATGG
66 GTAAGAGATTGGATGG
* * * * *
245663 CTTTAATCTGCCCCATGATTGGGGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGATTGGG
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
245728 GTAAGAGATTGGATGATG
66 GTAAGAGATTGGATG--G
* * * *
245746 TCTTTAATCTACTCCATGATCGGGGTAAGAGATTGGATGA---CTTTAATCTGCCCCATGATTGG
1 -CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
245808 GGTAAGAGATTGGATGATG
65 GGTAAGAGATTGGATG--G
* * * * *
245827 TCTTCAATCTACCCCATAATCGGGATAAGAGA-T-CA-GATGGCTTCAATTTGCCCCATGATCGG
1 -CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
**
245889 GGTAAGAGATTGAAAGATTT
65 GGTAAGAGATTG---GATGG
* * * * * * *
245909 CTTCAATCTGCCTCATGATCGGGATAAGAGATTTGAT-ATTATCTTCAATTTGCCCCATGATCGA
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGA-TGTCTTCAATCTGCCCCATGATCGG
* * *
245973 GGTAAGAAATTTGATGA
65 GGTAAGAGATTGGATGG
245990 CTTCAATCTAC
1 CTTCAATCTAC
246001 TTTTCCTCAT
Statistics
Matches: 437, Mismatches: 48, Indels: 28
0.85 0.09 0.05
Matches are distributed among these distances:
78 2 0.00
79 1 0.00
80 71 0.16
81 288 0.66
82 1 0.00
83 3 0.01
84 71 0.16
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (81 bp):
CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGG
GTAAGAGATTGGATGG
Found at i:245994 original size:123 final size:120
Alignment explanation
Indices: 245417--246000 Score: 674
Period size: 123 Copynumber: 4.8 Consensus size: 120
245407 AGATTGGATA
* * *
245417 ATGTCTTCAATCTGCCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGAT
1 ATGTCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
* *
245482 CGGGGTGAGAGATTGGATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGG
66 CGGGGTAAGAGATTTGATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGG
*
245537 ATCATGTCTTTAATCTGCCCCATGATC-GAGTAAGAGATTGGATGA---CTTCAATCTGCCCCAT
1 ---ATGTCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCAT
* * ** * *
245598 GATCGGGGTAAGAGATTAGATGATGTCTTAAATCTGTCCAATGATTGGGGTAAGAGATTGG
63 GATCGGGGTAAGAGATT---TGATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGG
* * *
245659 ATGGCTTTAATCTGCCCCATGATTGGGGTAAGAGATTGGATGATGTCTTTAATCTGCCCCATGAT
1 ATGTCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
* * * *
245724 TGGGGTAAGAGATTGGATGATGTCTTTAATCTACTCCATGATCGGGGTAAGAGATTGG
66 CGGGGTAAGAGATT---TGATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGG
* * * *
245782 ATGACTTTAATCTGCCCCATGATTGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATAAT
1 ATGTCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
* ** * *
245847 CGGGATAAGAGATCAGATGGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGAAAG
66 CGGGGTAAGAGATTTGATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATTG---G
* * * * * * *
245905 ATTTCTTCAATCTGCCTCATGATCGGGATAAGAGATTTGAT-ATTATCTTCAATTTGCCCCATGA
1 ATGTCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA-TGTCTTCAATCTGCCCCATGA
* * *
245969 TCGAGGTAAGAAATTTGATGACTTCAATCTAC
65 TCGGGGTAAGAGATTTGATGGCTTCAATCTAC
246001 TTTTCCTCAT
Statistics
Matches: 394, Mismatches: 56, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
119 53 0.13
120 51 0.13
122 52 0.13
123 238 0.60
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (120 bp):
ATGTCTTTAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGAT
CGGGGTAAGAGATTTGATGGCTTCAATCTACCCCATGATCGGGGTAAGAGATTGG
Found at i:246225 original size:99 final size:98
Alignment explanation
Indices: 246092--246802 Score: 680
Period size: 99 Copynumber: 7.2 Consensus size: 98
246082 TTACGACTTT
* * * * *
246092 AACCTTTTCC-TCTATATCTCCATGGTACAAGATTCACCGTTGCGGCCTCAATCCTTCCCATCAT
1 AACCTTTCCCTTC-ATATCTTCATGGTAC-GGATTCGCCGTTGCGGCCTCAATCCTTCCCATCAC
* * * * **
246156 GTCTTCTAAGGTATCGAGTTCGCCATTGCGAACTC
64 ATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
* * * * * *
246191 AGCCTTTCCTTTCATATCTTCAAGGTATCGGATTCGCCGTTACGGCCTCAATCTTTTCCATCACA
1 AACCTTTCCCTTCATATCTTCATGGTA-CGGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACA
* *
246256 TCTTCTAAGGTACCGGGTTCGCCGTTACGGCCTT
65 TCTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
* * * *
246290 AACCATTCCCTTCATATCTTAATGGTACTTGATTCGCCGTTGCGGCCTCAATCCTTCCCTTCACA
1 AACCTTTCCCTTCATATCTTCATGGTAC-GGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACA
* *** * * * *
246355 TCTTCTAAGCTATAAGGTTTGCTGTTACAGCCTC
65 TCTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
* * *
246389 AACTTTTCCCTTCATAT-TGTCACGGTACTGGATTCGCCGTTGCAGCCTCAATCCTTCCCATCAC
1 AACCTTTCCCTTCATATCT-TCATGGTAC-GGATTCGCCGTTGCGGCCTCAATCCTTCCCATCAC
* * * * *
246453 ATCTTTTAAGGTACCAGGTTCGTCGTTGTGGCCTT
64 ATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
* * * * * **
246488 AACCTTTCCCTTCATATCTTCATGGTACCAGATTTGTCATTGCGACCTCAATCCTTCCTTTCACA
1 AACCTTTCCCTTCATATCTTCATGGTA-CGGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACA
*
246553 TCTTCTAAGGTACCGGGTTCGCCGTTGTGGCCTC
65 TCTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
* *
246587 AACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTACGGCCTCAATCCTTCCAATCACA
1 AACCTTTCCCTTCATATCTTCATGGTA-CGGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACA
* *
246652 TCTTCTAAGGTACCGGGTTCGCTGTTGTGGCCTC
65 TCTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
* ** * * * * *
246686 AACCTTT-CCTT-TTAT-TTCCATGGTATTAGA-TCTACCGTTACGACC-CTGATCTTTCCCATC
1 AACCTTTCCCTTCATATCTT-CATGGTA-CGGATTC-GCCGTTGCGGCCTC-AATCCTTCCCATC
** * **
246746 ATGTCTTCTAAGGTATCGGGTTCGCCGTTGCAACCTC
62 ACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
*
246783 AACCTTTCCTTTCATATCTT
1 AACCTTTCCCTTCATATCTT
246803 TATGTTTCCT
Statistics
Matches: 504, Mismatches: 96, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
96 5 0.01
97 69 0.14
98 9 0.02
99 414 0.82
100 7 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (98 bp):
AACCTTTCCCTTCATATCTTCATGGTACGGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACAT
CTTCTAAGGTACCGGGTTCGCCGTTGCGGCCTC
Found at i:246681 original size:198 final size:197
Alignment explanation
Indices: 246090--246802 Score: 758
Period size: 198 Copynumber: 3.6 Consensus size: 197
246080 TATTACGACT
* * * *
246090 TTAACCTTTTCC-TCTATATCTCCATGGTACAAGATTCACCGTTGCGGCCTCAATCCTTCCCATC
1 TTAACCTTTCCCTTC-ATATCTTCATGGTACAAGATTCGCCGTTGCGGCCTCAATCCTTCCCTTC
** * * ** * * *
246154 ATGTCTTCTAAGGTATCGAGTTCGCCATTGCGAACTCAGCCTTTCCTTTCATATCTTCAAGGTAT
65 ACATCTTCTAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAAGGTAC
* * **
246219 CGGATTCGCCGTTACGGCCTCAATCTTTTCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTAC
130 CGGATTCGCCGTTACGGCCTCAATC-CTTCCATCACATCTTCTAAGGTACCGGGTTCGCTGTTGT
246284 GGCC
194 GGCC
* * **
246288 TTAACCATTCCCTTCATATCTTAATGGTACTTGATTCGCCGTTGCGGCCTCAATCCTTCCCTTCA
1 TTAACCTTTCCCTTCATATCTTCATGGTACAAGATTCGCCGTTGCGGCCTCAATCCTTCCCTTCA
* ** * * * * * *
246353 CATCTTCTAAGCTATAAGGTTTGCTGTTACAGCCTCAACTTTTCCCTTCATAT-TGTCACGGTAC
66 CATCTTCTAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCT-TCAAGGTAC
* * * * *
246417 TGGATTCGCCGTTGCAGCCTCAATCCTTCCCATCACATCTTTTAAGGTACCAGGTTCG-TCGTTG
130 CGGATTCGCCGTTACGGCCTCAATCCTT-CCATCACATCTTCTAAGGTACCGGGTTCGCT-GTTG
246481 TGGCC
193 TGGCC
* * * * * *
246486 TTAACCTTTCCCTTCATATCTTCATGGTACCAGATTTGTCATTGCGACCTCAATCCTTCCTTTCA
1 TTAACCTTTCCCTTCATATCTTCATGGTACAAGATTCGCCGTTGCGGCCTCAATCCTTCCCTTCA
* * *
246551 CATCTTCTAAGGTACCGGGTTCGCCGTTGTGGCCTCAACCTTTCCCTTCATATCTTCATGGTACC
66 CATCTTCTAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAAGGTACC
246616 GGATTCGCCGTTACGGCCTCAATCCTTCCAATCACATCTTCTAAGGTACCGGGTTCGCTGTTGTG
131 GGATTCGCCGTTACGGCCTCAATCCTTCC-ATCACATCTTCTAAGGTACCGGGTTCGCTGTTGTG
246681 GCC
195 GCC
* * ** * * * * * *
246684 TCAACCTTT-CCTT-TTAT-TTCCATGGTATTAGA-TCTACCGTTACGACC-CTGATCTTTCCCA
1 TTAACCTTTCCCTTCATATCTT-CATGGTACAAGATTC-GCCGTTGCGGCCTC-AATCCTTCCCT
** ** *
246744 TCATGTCTTCTAAGGTATCGGGTTCGCCGTTGCAACCTCAACCTTTCCTTTCATATCTT
63 TCACATCTTCTAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTT
246803 TATGTTTCCT
Statistics
Matches: 425, Mismatches: 80, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
195 4 0.01
196 80 0.19
197 9 0.02
198 328 0.77
199 4 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.35
Consensus pattern (197 bp):
TTAACCTTTCCCTTCATATCTTCATGGTACAAGATTCGCCGTTGCGGCCTCAATCCTTCCCTTCA
CATCTTCTAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAAGGTACC
GGATTCGCCGTTACGGCCTCAATCCTTCCATCACATCTTCTAAGGTACCGGGTTCGCTGTTGTGG
CC
Found at i:247784 original size:17 final size:17
Alignment explanation
Indices: 247752--247805 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 17
247742 TGACTACACA
247752 TTTTTCTCTTTT-TTCC
1 TTTTTCTCTTTTCTTCC
*
247768 TTTTTCTTTTTTCTTCC
1 TTTTTCTCTTTTCTTCC
* *
247785 TTCTTC-CTTTTCTTTC
1 TTTTTCTCTTTTCTTCC
247801 TTTTT
1 TTTTT
247806 TGGGTGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 23 0.72
17 9 0.28
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTCTTTTCTTCC
Found at i:251563 original size:14 final size:14
Alignment explanation
Indices: 251544--251591 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
251534 ATCCTTCTTT
251544 TGACCATATATGCA
1 TGACCATATATGCA
251558 TGACCATAT-TG--
1 TGACCATATATGCA
*
251569 TCACCATATATGCA
1 TGACCATATATGCA
251583 TGACCATAT
1 TGACCATAT
251592 TGTCTTCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 8 0.28
12 2 0.07
13 2 0.07
14 17 0.59
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (14 bp):
TGACCATATATGCA
Found at i:251580 original size:25 final size:25
Alignment explanation
Indices: 251546--251595 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
251536 CCTTCTTTTG
251546 ACCATATATGCATGACCATATTGTC
1 ACCATATATGCATGACCATATTGTC
251571 ACCATATATGCATGACCATATTGTC
1 ACCATATATGCATGACCATATTGTC
251596 TTCTACCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (25 bp):
ACCATATATGCATGACCATATTGTC
Found at i:253365 original size:30 final size:29
Alignment explanation
Indices: 253331--253471 Score: 113
Period size: 30 Copynumber: 4.8 Consensus size: 29
253321 GAAAGTAAAA
*
253331 GGGTCAAAACTTAATTATTCAAAAGTTTAG
1 GGGTCAAAACTTAATT-TTTAAAAGTTTAG
* ** *
253361 GGGTCAAAA-TAGAATTTTTGGAAGTTTAA
1 GGGTCAAAACT-TAATTTTTAAAAGTTTAG
** *
253390 GGGTCAATTCATAATTTTTAGAAAGTTTAG
1 GGGTCAAAACTTAATTTTTA-AAAGTTTAG
* * * *
253420 GGGTCAAATCTTATTTTTTGGATAGTTTAG
1 GGGTCAAAACTTAATTTTT-AAAAGTTTAG
* *
253450 GGGTCAGAACATAATTTTTAAA
1 GGGTCAAAACTTAATTTTTAAA
253472 TAAAACAGGG
Statistics
Matches: 84, Mismatches: 23, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
29 25 0.30
30 59 0.70
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.38
Consensus pattern (29 bp):
GGGTCAAAACTTAATTTTTAAAAGTTTAG
Found at i:253386 original size:29 final size:29
Alignment explanation
Indices: 253353--253468 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 29
253343 AATTATTCAA
*
253353 AAGTTTAGGGGTCAAAAT-AGAATTTTTGG
1 AAGTTTAGGGGTC-AAATCATAATTTTTGG
* * *
253382 AAGTTTAAGGGTCAATTCATAATTTTTAGA
1 AAGTTTAGGGGTCAAATCATAATTTTT-GG
* *
253412 AAGTTTAGGGGTCAAATCTTATTTTTTGG
1 AAGTTTAGGGGTCAAATCATAATTTTTGG
253441 ATAGTTTAGGGGTCAGAA-CATAATTTTT
1 A-AGTTTAGGGGTCA-AATCATAATTTTT
253469 AAATAAAACA
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.04
29 22 0.31
30 45 0.62
31 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (29 bp):
AAGTTTAGGGGTCAAATCATAATTTTTGG
Found at i:253438 original size:59 final size:60
Alignment explanation
Indices: 253315--253469 Score: 156
Period size: 59 Copynumber: 2.6 Consensus size: 60
253305 TGAATCCAAT
* ** * * *
253315 TTTTTGGAAAGTAAAAGGGTCAAAACTTAATTATTCA-AAAGTTTAGGGGTCAAAATAGAA
1 TTTTTGGATAGTTTAAGGGTCAGAACATAATT-TTTAGAAAGTTTAGGGGTCAAAATAGAA
* ** *
253375 TTTTTGGA-AGTTTAAGGGTCA-ATTCATAATTTTTAGAAAGTTTAGGGGTC-AAATCTTAT
1 TTTTTGGATAGTTTAAGGGTCAGA-ACATAATTTTTAGAAAGTTTAGGGGTCAAAAT-AGAA
*
253434 TTTTTGGATAGTTTAGGGGTCAGAACATAATTTTTA
1 TTTTTGGATAGTTTAAGGGTCAGAACATAATTTTTA
253470 AATAAAACAG
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
58 8 0.10
59 40 0.50
60 31 0.39
61 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (60 bp):
TTTTTGGATAGTTTAAGGGTCAGAACATAATTTTTAGAAAGTTTAGGGGTCAAAATAGAA
Found at i:258120 original size:12 final size:12
Alignment explanation
Indices: 258087--258120 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
258077 TGAGCCTCTG
*
258087 TTCTTTCTTCTT
1 TTCTTTCTTTTT
*
258099 TTGTTTCTTTTT
1 TTCTTTCTTTTT
258111 TTCTTTCTTT
1 TTCTTTCTTT
258121 ATTCTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (12 bp):
TTCTTTCTTTTT
Found at i:258809 original size:6 final size:6
Alignment explanation
Indices: 258798--258823 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
258788 TAAAATATCC
258798 CTTTTA CTTTTA CTTTTA CTTTTA CT
1 CTTTTA CTTTTA CTTTTA CTTTTA CT
258824 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (6 bp):
CTTTTA
Found at i:265424 original size:2 final size:2
Alignment explanation
Indices: 265417--265441 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
265407 CAACTTGCAG
265417 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
265442 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:265446 original size:2 final size:2
Alignment explanation
Indices: 265441--265472 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
265431 ATATATATAT
265441 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
265473 TAGCTGTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:268066 original size:22 final size:21
Alignment explanation
Indices: 268017--268060 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
268007 AGAAAAGTTT
268017 ATAATTCAATTGCATCTAAAA
1 ATAATTCAATTGCATCTAAAA
268038 ATAATTCAATTGCATCTAAAA
1 ATAATTCAATTGCATCTAAAA
268059 AT
1 AT
268061 TTATTCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.34
Consensus pattern (21 bp):
ATAATTCAATTGCATCTAAAA
Done.