Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 188 of 226
Found at i:56742936 original size:11 final size:10
Alignment explanation
Indices: 56742922--56742986 Score: 69
Period size: 11 Copynumber: 6.1 Consensus size: 10
56742912 AAATATGGAT
56742922 TTGAGAGAAA
1 TTGAGAGAAA
*
56742932 TTTGAAAGGAAA
1 -TTGAGA-GAAA
56742944 TTGAGAGCAAA
1 TTGAGAG-AAA
56742955 TTGAGAGCAAA
1 TTGAGAG-AAA
56742966 TTGAGAGGAAA
1 TTGAGA-GAAA
56742977 TTGAGA-AAA
1 TTGAGAGAAA
56742986 T
1 T
56742987 AATTGAGAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
9 4 0.08
10 1 0.02
11 39 0.80
12 5 0.10
ACGTcount: A:0.48, C:0.03, G:0.28, T:0.22
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:56742959 original size:33 final size:33
Alignment explanation
Indices: 56742922--56742996 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
56742912 AAATATGGAT
**
56742922 TTGAGAGAAATTTGAAAGGAAATTGAGAGCA-AA
1 TTGAGAGAAA-TTGAAAGGAAATTGAGAAAATAA
*
56742955 TTGAGAGCAAATTGAGAGGAAATTGAGAAAATAA
1 TTGAGAG-AAATTGAAAGGAAATTGAGAAAATAA
56742989 TTGAGAGA
1 TTGAGAGA
56742997 GTATTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.48, C:0.03, G:0.28, T:0.21
Consensus pattern (33 bp):
TTGAGAGAAATTGAAAGGAAATTGAGAAAATAA
Found at i:56742979 original size:22 final size:22
Alignment explanation
Indices: 56742922--56742982 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
56742912 AAATATGGAT
* *
56742922 TTGAGA-GAAATTTGAAAGGAAA
1 TTGAGAGGAAA-TTGAGAGCAAA
*
56742944 TTGAGAGCAAATTGAGAGCAAA
1 TTGAGAGGAAATTGAGAGCAAA
56742966 TTGAGAGGAAATTGAGA
1 TTGAGAGGAAATTGAGA
56742983 AAATAATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.46, C:0.03, G:0.30, T:0.21
Consensus pattern (22 bp):
TTGAGAGGAAATTGAGAGCAAA
Found at i:56744252 original size:23 final size:22
Alignment explanation
Indices: 56744222--56744266 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
56744212 AAATTAAATC
56744222 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
56744245 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
56744267 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:56745098 original size:132 final size:132
Alignment explanation
Indices: 56744726--56745117 Score: 608
Period size: 131 Copynumber: 3.0 Consensus size: 132
56744716 CACTGCAACT
* * *
56744726 TCAGGGAGATAAGG-CTGGTTGCTTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGACTCACC
1 TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCC
* * * * *
56744790 GTCTTTGATCTGCTCCACTGCTGCTTAGGGAGACAAGATATATAATCTTCAACCTACTCCACTAC
65 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
56744855 TGC
130 TGC
* * * *
56744858 TCAGGGAGATAGGACTGGTGGCTAAAATCTGCTT-CCTACTATCTCGGGAAGATAAGATTCGCCA
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCG
* *
56744922 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTACTCCACTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
56744987 GC
131 GC
* *
56744989 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCGCTG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCG
*
56745054 TCTTTGATCTGCTCCACTACTTCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
56745118 AAACTCAGAG
Statistics
Matches: 235, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
131 121 0.51
132 114 0.49
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (132 bp):
TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCG
TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
GC
Found at i:56745245 original size:89 final size:89
Alignment explanation
Indices: 56745114--56745402 Score: 418
Period size: 89 Copynumber: 3.2 Consensus size: 89
56745104 ACCTACTCCA
* * * *
56745114 CTGCAAACTCAGAGAGGCAAGACTAGTGT-TTTCGATCTGCTTCACTGCCAGTACAGGAAGACAA
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTT-GATCTGCTTCGCTGCCAATACAGGAAGACAA
* * *
56745178 GATCTGCTGTTTTCAGTTTGCTCTG
65 GATCTGCTATCTTCAGTCTGCTCTG
*
56745203 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCAGCTTCGCTGCCAATACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAG
56745268 ATCTGCTATCTTCAGTCTGCTCTG
66 ATCTGCTATCTTCAGTCTGCTCTG
* * * *
56745292 CTGCAAACTCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCAATATAGGAAGCCAAG
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAG
* * *
56745357 ATCTGTTATCTTCAGTCTGTTCCG
66 ATCTGCTATCTTCAGTCTGCTCTG
*
56745381 CTGTAAACTCAGGGAGGCAAGG
1 CTGCAAACTCAGGGAGGCAAGG
56745403 ATTTGTAGCT
Statistics
Matches: 181, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
89 178 0.98
90 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (89 bp):
CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAG
ATCTGCTATCTTCAGTCTGCTCTG
Found at i:56745312 original size:45 final size:45
Alignment explanation
Indices: 56745167--56745468 Score: 135
Period size: 45 Copynumber: 6.8 Consensus size: 45
56745157 ACTGCCAGTA
* * * *
56745167 CAGGAAGACAAGATCTGCTGTTTTCAGTTTGCTCTGCTGCAAACT
1 CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
* * * * * *
56745212 CAGGGAGGCAAG-GCTAG-TGTCTT-TGATCAGCT-TCGCTGCCAA-T
1 CAGGGAGACAAGATCT-GCTATCTTCAG-TCTGCTCT-GCTGCAAACT
*
56745255 ACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
1 -CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
* * * *
56745301 CAGGGAGACAAG-GCTGGTGTCTT-TGATCTGCT-TCGCTGCCAATA-T
1 CAGGGAGACAAGATCTGCTATCTTCAG-TCTGCTCT-GCTG-CAA-ACT
* * * * * *
56745346 -AGGAAGCCAAGATCTGTTATCTTCAGTCTGTTCCGCTGTAAACT
1 CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
* * * * * * **
56745390 CAGGGAGGCAAGGATTTG-TAGCTTCAATTTGTTCCACTGC-AACTT
1 CAGGGAGACAA-GATCTGCTATCTTCAGTCTGCTCTGCTGCAAAC-T
* *
56745435 CATGGAGATAAGAT-TCGCTATCTTCAGTCTGCTC
1 CAGGGAGACAAGATCT-GCTATCTTCAGTCTGCTC
56745469 CACTACAACT
Statistics
Matches: 191, Mismatches: 44, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
43 7 0.04
44 66 0.35
45 108 0.57
46 10 0.05
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
Found at i:56745740 original size:42 final size:43
Alignment explanation
Indices: 56745409--56745803 Score: 201
Period size: 44 Copynumber: 8.9 Consensus size: 43
56745399 AAGGATTTGT
* *
56745409 AGCTTCAATTTGTTCCACTGCAACTTCATG-GAGATAAGA-TTCGC
1 AGCTTCAATCTGCTCCACTGCAACTTCA-GAGAGATAAGACTT--C
* * * * * *
56745453 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGGCTTGT
1 -AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTT-C
* * * * * * *
56745498 AACTTCAATCTACTCCACTACAACTTTAGGGAGATAAGATTATT
1 AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TC
* * * * *
56745542 GGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATTAGA-TTC
1 AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTC
* * * *
56745584 -G--TCATGATCTGCTCTACTGTAACTTCAAAGAGATAAGATCAGTAATTTAT
1 AGCTTCA--ATCTGCTCCACTGCAACTTCAGAGAGATAAGA-C------TT-C
* ** * * * *
56745634 AGCTTTAATCTATTCCACTGCAACTTTAGGGAAATAAGATTTTC
1 AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTTC
* *
56745678 TATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTC
1 -AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTC
* * *
56745722 A-CTTCAATCCGCTCCACTGCAACTTCAGAGAGATAGGACTATT
1 AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TC
* * * * *
56745765 AGCTTTAATCTACTCCAATACAACTTCAGGGAGATAAGA
1 AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA
56745804 TTTGCCATCT
Statistics
Matches: 270, Mismatches: 60, Indels: 41
0.73 0.16 0.11
Matches are distributed among these distances:
39 2 0.01
41 28 0.10
42 37 0.14
43 4 0.01
44 101 0.37
45 66 0.24
46 2 0.01
49 2 0.01
51 26 0.10
53 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTC
Found at i:56761888 original size:48 final size:48
Alignment explanation
Indices: 56761789--56761918 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 48
56761779 AGGCCTTCGG
* * *
56761789 GATGGTAGAATACT-AGAATAGAG-AGCCATCATTGCTGCACCATCCGA
1 GATGGTAGAATATTGA-AATAGAGTAACCATCATTGCTGCACCACCCGA
*
56761836 GATGGTAGAATATTGAAATAGAGTAACCATCATT-CTTG-AGCCACCCTA
1 GATGGTAGAATATTGAAATAGAGTAACCATCATTGC-TGCA-CCACCCGA
* *
56761884 GATGGTA-ATATATTG-AATAGTGTGAACCATTATTG
1 GATGGTAGA-ATATTGAAATAGAGT-AACCATCATTG
56761919 TTGGGTCACT
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
47 30 0.43
48 40 0.57
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (48 bp):
GATGGTAGAATATTGAAATAGAGTAACCATCATTGCTGCACCACCCGA
Found at i:56763491 original size:18 final size:19
Alignment explanation
Indices: 56763452--56763492 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
56763442 TAATATTAGA
*
56763452 ATATTTTAATTTTAGTACAT
1 ATATTTTAATTTTAG-AAAT
56763472 ATATTTTAATTTTA-AAAT
1 ATATTTTAATTTTAGAAAT
56763490 ATA
1 ATA
56763493 ATTATATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATATTTTAATTTTAGAAAT
Found at i:56763666 original size:22 final size:22
Alignment explanation
Indices: 56763641--56763711 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 22
56763631 ATTACATGGA
56763641 ACTATTTATTATTAATTATTAT
1 ACTATTTATTATTAATTATTAT
*
56763663 ACTAATTT-TAATTAAATTA-TAT
1 ACT-ATTTATTATT-AATTATTAT
*
56763685 AGTATTTATTATTTAATTATATAT
1 ACTATTTATTA-TTAATTAT-TAT
56763709 ACT
1 ACT
56763712 TAGTTAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
21 4 0.10
22 19 0.49
23 11 0.28
24 5 0.13
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (22 bp):
ACTATTTATTATTAATTATTAT
Found at i:56764258 original size:55 final size:55
Alignment explanation
Indices: 56764199--56764318 Score: 213
Period size: 55 Copynumber: 2.2 Consensus size: 55
56764189 ACTATTTGAT
* *
56764199 AAATAAAATTTTAAAAAATTAAAAATAAAGTATTTGGATAATGTTTAAAGAAATA
1 AAATAAAAATTTAAAAAATTAAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
*
56764254 AAATAAAAATTTAAAAAATTCAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
1 AAATAAAAATTTAAAAAATTAAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
56764309 AAATAAAAAT
1 AAATAAAAAT
56764319 AATTGAAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (55 bp):
AAATAAAAATTTAAAAAATTAAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
Found at i:56765019 original size:13 final size:13
Alignment explanation
Indices: 56765001--56765025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56764991 AAAGTATAAA
56765001 AAATTAAAATATC
1 AAATTAAAATATC
56765014 AAATTAAAATAT
1 AAATTAAAATAT
56765026 AAAAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTAAAATATC
Found at i:56765036 original size:19 final size:19
Alignment explanation
Indices: 56765000--56765037 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56764990 AAAAGTATAA
*
56765000 AAAATTAAAATATCAAATT
1 AAAATTAAAAAATCAAATT
56765019 AAAATATAAAAAAT-AAATT
1 AAAAT-TAAAAAATCAAATT
56765038 TACAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTAAAAAATCAAATT
Found at i:56765293 original size:21 final size:21
Alignment explanation
Indices: 56765269--56765309 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56765259 AAGTCGATAA
*
56765269 AATTTATGATCAAATTGATTG
1 AATTGATGATCAAATTGATTG
* *
56765290 AATTGGTGGTCAAATTGATT
1 AATTGATGATCAAATTGATT
56765310 AAACTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (21 bp):
AATTGATGATCAAATTGATTG
Found at i:56765329 original size:10 final size:9
Alignment explanation
Indices: 56765314--56765351 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
56765304 TTGATTAAAC
56765314 TAAAATTATT
1 TAAAATT-TT
56765324 TAAAATTTT
1 TAAAATTTT
56765333 T-AAATTTT
1 TAAAATTTT
56765341 TAACAATTTT
1 TAA-AATTTT
56765351 T
1 T
56765352 TAATTGAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.31
9 4 0.15
10 14 0.54
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (9 bp):
TAAAATTTT
Found at i:56765348 original size:18 final size:18
Alignment explanation
Indices: 56765316--56765356 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
56765306 GATTAAACTA
56765316 AAATTATTTAAAATTTTT
1 AAATTATTTAAAATTTTT
56765334 AAATT-TTTAACAATTTTT
1 AAATTATTTAA-AATTTTT
*
56765352 TAATT
1 AAATT
56765357 GAACTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATTATTTAAAATTTTT
Found at i:56772668 original size:26 final size:27
Alignment explanation
Indices: 56772628--56772680 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
56772618 GAAAATCAAT
56772628 CTTTTCAAGTCAGAAGGTTGAAAATGA
1 CTTTTCAAGTCAGAAGGTTGAAAATGA
* *
56772655 CTTTT-AAGTTAGAATGTTGAAAATGA
1 CTTTTCAAGTCAGAAGGTTGAAAATGA
56772681 GAGACAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (27 bp):
CTTTTCAAGTCAGAAGGTTGAAAATGA
Found at i:56772807 original size:79 final size:79
Alignment explanation
Indices: 56772712--56772869 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
56772702 ATTGGTTCAA
56772712 AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTGTAACTTTATCAAGTAATG
1 AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTGTAACTTTATCAAGTAATG
56772777 AATGGATTTTTTTT
66 AATGGATTTTTTTT
*
56772791 AATTATACAATTTTTTAAAATTGTTTTTGTTCTTTCATTTTTTTTTGTAACTTTATCAAGTAATG
1 AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTGTAACTTTATCAAGTAATG
56772856 AATGGATTTTTTTT
66 AATGGATTTTTTTT
56772870 TAAAAAAAAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.58
Consensus pattern (79 bp):
AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTGTAACTTTATCAAGTAATG
AATGGATTTTTTTT
Found at i:56776062 original size:48 final size:46
Alignment explanation
Indices: 56775989--56776079 Score: 155
Period size: 48 Copynumber: 1.9 Consensus size: 46
56775979 TACGATATCC
*
56775989 TAACAATTTTATTAAATACATCATTTTAAAAAAAATAAAAAATAATTT
1 TAACAATTTTATTAAATACACCATTTT--AAAAAATAAAAAATAATTT
56776037 TAACAATTTTATTAAATACACCATTTTAAAAAATAAAAAATAA
1 TAACAATTTTATTAAATACACCATTTTAAAAAATAAAAAATAA
56776080 AAAATAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 16 0.38
48 26 0.62
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (46 bp):
TAACAATTTTATTAAATACACCATTTTAAAAAATAAAAAATAATTT
Found at i:56776081 original size:6 final size:7
Alignment explanation
Indices: 56776063--56776087 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56776053 TACACCATTT
56776063 TAAAAAA
1 TAAAAAA
56776070 TAAAAAA
1 TAAAAAA
56776077 TAAAAAA
1 TAAAAAA
56776084 TAAA
1 TAAA
56776088 TTTTATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:56776537 original size:12 final size:12
Alignment explanation
Indices: 56776520--56776544 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56776510 TTTCTTTTAA
56776520 TCACTTGGTGAT
1 TCACTTGGTGAT
56776532 TCACTTGGTGAT
1 TCACTTGGTGAT
56776544 T
1 T
56776545 GACCTTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TCACTTGGTGAT
Found at i:56778118 original size:28 final size:27
Alignment explanation
Indices: 56778032--56778126 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 27
56778022 AAAAATTAAC
* *
56778032 GTGCTTATCATATTATTTCGCACTTCG
1 GTGCTTATCGTATTATTTTGCACTTCG
* * * *
56778059 GTGCTTATTGT-TGTAAAATTTGAACTTTG
1 GTGCTTATCGTAT-T--ATTTTGCACTTCG
56778088 GTGCTTATCGTAATTATTTTGCACTTCG
1 GTGCTTATCGT-ATTATTTTGCACTTCG
56778116 GTGCTTATCGT
1 GTGCTTATCGT
56778127 TATTTGCAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
26 1 0.02
27 10 0.19
28 21 0.40
29 19 0.36
30 1 0.02
31 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (27 bp):
GTGCTTATCGTATTATTTTGCACTTCG
Found at i:56780750 original size:27 final size:27
Alignment explanation
Indices: 56780680--56780752 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 27
56780670 AATTAAGAAT
* * * *
56780680 TAAAAATTTAA-TATTAAAT-TTATAT
1 TAAAAAATTAAGTATTGAATATAATAG
56780705 TAAAAAATT-AG--TTG-ATATAATAG
1 TAAAAAATTAAGTATTGAATATAATAG
56780728 TAAAAAATTAAGTATTGAATATAAT
1 TAAAAAATTAAGTATTGAATATAAT
56780753 TGTGTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.05
23 15 0.39
24 3 0.08
25 8 0.21
26 3 0.08
27 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (27 bp):
TAAAAAATTAAGTATTGAATATAATAG
Found at i:56788363 original size:21 final size:19
Alignment explanation
Indices: 56788338--56788377 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
56788328 CCGGCCCGAT
56788338 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
56788359 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
56788378 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:56795481 original size:18 final size:18
Alignment explanation
Indices: 56795453--56795528 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
56795443 GTCTTGATTC
56795453 AAAATATTATAAAATTATT
1 AAAA-ATTATAAAATTATT
56795472 AAAAATTATAAAATTA-T
1 AAAAATTATAAAATTATT
*
56795489 GAAAA-TAT-AAATT-TT
1 AAAAATTATAAAATTATT
* * *
56795504 TAAAATTTTAAAAATATT
1 AAAAATTATAAAATTATT
56795522 GAAAAAT
1 -AAAAAT
56795529 ATACATACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
15 10 0.21
16 5 0.11
17 9 0.19
18 14 0.30
19 9 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAATTATAAAATTATT
Found at i:56795484 original size:8 final size:8
Alignment explanation
Indices: 56795458--56795516 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
56795448 GATTCAAAAT
56795458 ATTATAAA
1 ATTATAAA
56795466 ATTATTAAAA
1 ATTA-T-AAA
56795476 ATTATAAA
1 ATTATAAA
56795484 ATTATGAAA
1 ATTAT-AAA
56795493 A-TATAAA
1 ATTATAAA
* *
56795500 TTTTTAAA
1 ATTATAAA
*
56795508 ATTTTAAA
1 ATTATAAA
56795516 A
1 A
56795517 ATATTGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
7 3 0.07
8 28 0.64
9 6 0.14
10 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
ATTATAAA
Found at i:56795507 original size:33 final size:34
Alignment explanation
Indices: 56795464--56795531 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 34
56795454 AAATATTATA
*
56795464 AAATTATTAAAAATTATAAAATTA-TG-AAAATAT
1 AAATTATT-AAAATTATAAAAATATTGAAAAATAT
* *
56795497 AAATTTTTAAAATTTTAAAAATATTGAAAAATAT
1 AAATTATTAAAATTATAAAAATATTGAAAAATAT
56795531 A
1 A
56795532 CATACTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 13 0.43
33 9 0.30
34 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (34 bp):
AAATTATTAAAATTATAAAAATATTGAAAAATAT
Found at i:56799108 original size:11 final size:11
Alignment explanation
Indices: 56799092--56799140 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
56799082 TTTTCCCACC
*
56799092 TTTTGCCACTA
1 TTTTGCTACTA
*
56799103 TTTTGCTACCA
1 TTTTGCTACTA
56799114 -TTTGACTACTA
1 TTTTG-CTACTA
*
56799125 TGTTGCTACTA
1 TTTTGCTACTA
56799136 TTTTG
1 TTTTG
56799141 TTGTTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 4 0.13
11 24 0.77
12 3 0.10
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.49
Consensus pattern (11 bp):
TTTTGCTACTA
Found at i:56808426 original size:3 final size:3
Alignment explanation
Indices: 56808418--56808443 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56808408 CTTTGTGGGA
56808418 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
56808444 AAGATCCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:56809082 original size:22 final size:19
Alignment explanation
Indices: 56809043--56809084 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
56809033 TACAAAGTTG
56809043 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
56809062 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
56809084 A
1 A
56809085 ATGATTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:56827575 original size:38 final size:38
Alignment explanation
Indices: 56827533--56827608 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
56827523 TAAAACCAAG
* * *
56827533 CTTTTTAAAAGGGTTTTTTTGAAGAAATCAACTGAAAT
1 CTTTTTAAAAAGATTTTTTTGAAGAAACCAACTGAAAT
* *
56827571 CTTTTTAAAAAGATTTTTTTTATGAAACCAACTGAAAT
1 CTTTTTAAAAAGATTTTTTTGAAGAAACCAACTGAAAT
56827609 TTATCTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (38 bp):
CTTTTTAAAAAGATTTTTTTGAAGAAACCAACTGAAAT
Found at i:56833817 original size:3 final size:3
Alignment explanation
Indices: 56833809--56833843 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
56833799 CACTTTTAGA
56833809 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
56833844 AAAAATTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:56843888 original size:13 final size:13
Alignment explanation
Indices: 56843870--56843895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56843860 TCCTCTTTTG
56843870 CAAATTCCTTACC
1 CAAATTCCTTACC
56843883 CAAATTCCTTACC
1 CAAATTCCTTACC
56843896 ACTCATATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAATTCCTTACC
Found at i:56845782 original size:26 final size:27
Alignment explanation
Indices: 56845738--56845824 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
56845728 AGAGGTCAAT
*
56845738 AAATGATCGAAATACCCCTATAAGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
*
56845765 AAATGATCGAAATACCCTTATAGGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
* *
56845792 AAATGACCGAAATACCCCTATCGGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
56845819 AAATGA
1 AAATGA
56845825 CTGTTATACC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (27 bp):
AAATGATCGAAATACCCCTATAGGGTA
Found at i:56845833 original size:27 final size:27
Alignment explanation
Indices: 56845738--56845838 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
56845728 AGAGGTCAAT
*
56845738 AAATGA-TCGAAATACCCCTATAAGGTA
1 AAATGACT-GAAATACCCCTATAGGGTA
*
56845765 AAATGA-TCGAAATACCCTTATAGGGTA
1 AAATGACT-GAAATACCCCTATAGGGTA
* *
56845792 AAATGACCGAAATACCCCTATCGGGTA
1 AAATGACTGAAATACCCCTATAGGGTA
**
56845819 AAATGACTGTTATACCCCTA
1 AAATGACTGAAATACCCCTA
56845839 GGAGATGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATGACTGAAATACCCCTATAGGGTA
Found at i:56846028 original size:26 final size:26
Alignment explanation
Indices: 56845989--56846072 Score: 114
Period size: 26 Copynumber: 3.2 Consensus size: 26
56845979 TGGAGGAAGT
* * *
56845989 ATATTGTTATTGGCAGCTTTGCTGTA
1 ATATTATTACTGGCAGCTTTGCTGCA
* *
56846015 ATATTATTACTGGCATCTTTGCTGCG
1 ATATTATTACTGGCAGCTTTGCTGCA
*
56846041 ATACTATTACTGGCAGCTTTGCTGCA
1 ATATTATTACTGGCAGCTTTGCTGCA
56846067 ATATTA
1 ATATTA
56846073 GTCTATTGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (26 bp):
ATATTATTACTGGCAGCTTTGCTGCA
Found at i:56853507 original size:27 final size:27
Alignment explanation
Indices: 56853477--56853528 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56853467 AATGACCGAA
56853477 ATACCCCCATCGAG-TAAAATGACTGTT
1 ATACCCCCA-CGAGATAAAATGACTGTT
* *
56853504 ATACCCCTAGGAGATAAAATGACTG
1 ATACCCCCACGAGATAAAATGACTG
56853529 ATATGGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (27 bp):
ATACCCCCACGAGATAAAATGACTGTT
Found at i:56853818 original size:28 final size:28
Alignment explanation
Indices: 56853773--56853834 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
56853763 CACTGTACTA
* *
56853773 TTACTGTATTAGGCTAAGGCCCACACTG
1 TTACTATATTAGGATAAGGCCCACACTG
* *
56853801 TTACTATATTGGGATAAGGTCCACACTG
1 TTACTATATTAGGATAAGGCCCACACTG
56853829 -TACTAT
1 TTACTAT
56853835 TACTGAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (28 bp):
TTACTATATTAGGATAAGGCCCACACTG
Found at i:56866090 original size:10 final size:10
Alignment explanation
Indices: 56866075--56866112 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
56866065 AAAATATGTT
56866075 TTTAAAAAAA
1 TTTAAAAAAA
56866085 TTT-AAAAAA
1 TTTAAAAAAA
*
56866094 TGATAAAAAAA
1 T-TTAAAAAAA
56866105 TTTAAAAA
1 TTTAAAAA
56866113 GACAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 7 0.29
10 10 0.42
11 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:56866219 original size:49 final size:49
Alignment explanation
Indices: 56866166--56866265 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
56866156 AGTAGAAGAG
* * *
56866166 AATTAAACATGAAGTAATTCATATATAAAATAAAACGAAACGAAATGAC
1 AATTAAACATGAAATAATTCATATAAAAAATAAAACAAAACGAAATGAC
* *
56866215 AATTAAACATGAAATAATTCATATAAAAAATAAGACAAAACGAATTGAC
1 AATTAAACATGAAATAATTCATATAAAAAATAAAACAAAACGAAATGAC
56866264 AA
1 AA
56866266 GTAGTAAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.59, C:0.10, G:0.09, T:0.22
Consensus pattern (49 bp):
AATTAAACATGAAATAATTCATATAAAAAATAAAACAAAACGAAATGAC
Found at i:56867068 original size:28 final size:27
Alignment explanation
Indices: 56867029--56867093 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
56867019 TAGTGATTTA
56867029 ATTTAA-ATATAAA-TATATATAATTATT
1 ATTTAACATATAAATTA-ATATAA-TATT
56867056 ATTTAACATATAAATTAATATAATATT
1 ATTTAACATATAAATTAATATAATATT
*
56867083 TTTATAACATA
1 ATT-TAACATA
56867094 ATATATTCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 12 0.35
28 20 0.59
29 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTTAACATATAAATTAATATAATATT
Found at i:56868958 original size:43 final size:42
Alignment explanation
Indices: 56868884--56869036 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 42
56868874 GATGTGATAT
* * *
56868884 CGTGTAAGACAATGTCTGGGACATTGGCATCGAT-TAGAGATTA
1 CGTGTAAGACCATGTCTGGGATA-TGACATCGATATA-AGATTA
* *
56868927 CGTGTAAGACCATGTCTGGGATATCGACATCG-TATATGATTT
1 CGTGTAAGACCATGTCTGGGATAT-GACATCGATATAAGATTA
* * ** *
56868969 CGTGTAAGACCCTCTCTGGGATAGTGACATCGATATTTGATAA
1 CGTGTAAGACCATGTCTGGGATA-TGACATCGATATAAGATTA
** *
56869012 CACGTAAGACCATATCTGGGATATG
1 CGTGTAAGACCATGTCTGGGATATG
56869037 GCATTGTACG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 36 0.39
43 56 0.61
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGATATGACATCGATATAAGATTA
Found at i:56871110 original size:21 final size:22
Alignment explanation
Indices: 56871084--56871125 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
56871074 AAGGGACTTT
*
56871084 ATGATGATGTTTGAC-TATGAG
1 ATGATGATGTATGACTTATGAG
56871105 ATGATGATGTATGACTTATGA
1 ATGATGATGTATGACTTATGA
56871126 TTGTGAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (22 bp):
ATGATGATGTATGACTTATGAG
Found at i:56873855 original size:13 final size:13
Alignment explanation
Indices: 56873837--56873861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56873827 ACAAACGATA
56873837 AAATTTTCACACG
1 AAATTTTCACACG
56873850 AAATTTTCACAC
1 AAATTTTCACAC
56873862 TTATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:56876449 original size:28 final size:28
Alignment explanation
Indices: 56876389--56876451 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
56876379 CTTATTGTTC
* ** *
56876389 AATTTCTTATTCTCAATTGTCAATTCTT
1 AATTTCTTATTCTAAATTCCCAATTCCT
* *
56876417 GATTTTTTATTCTAAATTCCCAATTCCT
1 AATTTCTTATTCTAAATTCCCAATTCCT
56876445 AATTTCT
1 AATTTCT
56876452 AAATCCTTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.52
Consensus pattern (28 bp):
AATTTCTTATTCTAAATTCCCAATTCCT
Found at i:56876641 original size:52 final size:52
Alignment explanation
Indices: 56876545--56876644 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
56876535 TTAGAAATGG
* * * **
56876545 TAAGAAAATATTATTTAATTATTTAATTTTATTCTTTTAATTATTATGATTT
1 TAAGAAAATATTAATAAATTATTTAATTTTAATCAGTTAATTATTATGATTT
*
56876597 TAAGAAAATATTAATAAATTATTTAATTTTAAAT-AGTTAGTTATTATG
1 TAAGAAAATATTAATAAATTATTTAATTTT-AATCAGTTAATTATTATG
56876645 TTGTTCAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 39 0.95
53 2 0.05
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (52 bp):
TAAGAAAATATTAATAAATTATTTAATTTTAATCAGTTAATTATTATGATTT
Found at i:56879616 original size:50 final size:50
Alignment explanation
Indices: 56879541--56879685 Score: 193
Period size: 40 Copynumber: 3.1 Consensus size: 50
56879531 AAATTAAAAG
56879541 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACAT-CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
* *
56879592 ATTATACATCACCGACAATGTTTTTTAGGGTAAATAACATT-AA--TAC-
1 ATTATACATCACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56879638 ---AT--A-CACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATCACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56879682 ATTA
1 ATTA
56879686 AACCAACAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
40 31 0.37
41 3 0.04
43 4 0.05
47 3 0.04
49 2 0.02
50 31 0.37
51 9 0.11
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (50 bp):
ATTATACATCACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:56879617 original size:51 final size:51
Alignment explanation
Indices: 56879541--56879796 Score: 295
Period size: 51 Copynumber: 5.0 Consensus size: 51
56879531 AAATTAAAAG
56879541 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
56879592 ATTATACAT-CACCGACAATGTTTTTTAGGGTAAATAACATT---------
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56879633 A--ATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAACA
56879694 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56879745 ATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACA
56879796 A
1 A
56879797 GTAATTTTAG
Statistics
Matches: 178, Mismatches: 2, Indels: 50
0.77 0.01 0.22
Matches are distributed among these distances:
39 6 0.03
40 20 0.11
41 1 0.01
44 3 0.02
45 1 0.01
46 1 0.01
50 32 0.18
51 74 0.42
52 6 0.03
57 1 0.01
58 1 0.01
59 3 0.02
61 1 0.01
63 28 0.16
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:56879687 original size:12 final size:12
Alignment explanation
Indices: 56879670--56879697 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56879660 GGTAAATAAC
56879670 ATTAAACCAACA
1 ATTAAACCAACA
56879682 ATTAAACCAACA
1 ATTAAACCAACA
56879694 ATTA
1 ATTA
56879698 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:56879805 original size:33 final size:34
Alignment explanation
Indices: 56879742--56879852 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
56879732 CATTAAACCA
* *
56879742 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
56879776 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
56879808 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
56879841 TCAATTATACAT
1 ACAATTATACAT
56879853 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:56883354 original size:18 final size:17
Alignment explanation
Indices: 56883326--56883360 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56883316 ATTATTAAGA
*
56883326 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
56883343 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
56883361 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:56883530 original size:121 final size:120
Alignment explanation
Indices: 56882876--56883619 Score: 1341
Period size: 120 Copynumber: 6.2 Consensus size: 120
56882866 TTTTCAAGTT
56882876 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
56882941 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
56882995 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56883060 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
56883115 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56883180 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
56883235 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56883300 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
56883355 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
56883420 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
56883476 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
56883541 TAATATAAGAATATT-ATCCAATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
56883597 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
56883620 TAAATATGAT
Statistics
Matches: 614, Mismatches: 8, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
119 98 0.16
120 338 0.55
121 178 0.29
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:56883596 original size:18 final size:17
Alignment explanation
Indices: 56883568--56883602 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56883558 CCAATTAAGA
*
56883568 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
56883585 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
56883603 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:56883816 original size:44 final size:45
Alignment explanation
Indices: 56883767--56883857 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
56883757 ACCTCTATTC
* * *
56883767 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
56883811 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
56883856 CA
1 CA
56883858 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:56883859 original size:16 final size:16
Alignment explanation
Indices: 56883838--56883906 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
56883828 GATTAGCTAT
56883838 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56883854 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
56883871 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
56883887 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
56883903 TACA
1 TACA
56883907 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56883880 original size:33 final size:32
Alignment explanation
Indices: 56883838--56883906 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
56883828 GATTAGCTAT
56883838 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
56883871 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
56883903 TACA
1 TACA
56883907 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:56886978 original size:11 final size:12
Alignment explanation
Indices: 56886956--56886984 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
56886946 ATTTTAAAAA
56886956 TTAAAAAGTATT
1 TTAAAAAGTATT
56886968 TTAAAAA-TATT
1 TTAAAAAGTATT
56886979 TTAAAA
1 TTAAAA
56886985 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TTAAAAAGTATT
Found at i:56887042 original size:18 final size:17
Alignment explanation
Indices: 56887008--56887041 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56886998 AAAAATTATT
*
56887008 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
56887025 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
56887042 AATAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:56887042 original size:40 final size:40
Alignment explanation
Indices: 56886954--56887032 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
56886944 TTATTTTAAA
56886954 AATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAT
1 AATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAT
** *
56886994 AAAAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAA
1 AATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
56887033 ATTTTAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (40 bp):
AATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAT
Found at i:56887047 original size:18 final size:17
Alignment explanation
Indices: 56887009--56887047 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
56886999 AAAATTATTT
* *
56887009 TAAAAATATTTTAAAAT
1 TAAAAAAATTTTAAAAA
56887026 TAAAAAAATTTTAAAAAA
1 TAAAAAAATTTT-AAAAA
56887044 TAAA
1 TAAA
56887048 TATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAAATTTTAAAAA
Found at i:56887054 original size:18 final size:17
Alignment explanation
Indices: 56887009--56887054 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
56886999 AAAATTATTT
*
56887009 TAAAAATATTTTAAAAT
1 TAAAAATATTTTAAAAA
*
56887026 TAAAAAAATTTTAAAAAA
1 TAAAAATATTTT-AAAAA
*
56887044 TAAATATATTT
1 TAAAAATATTT
56887055 ATTATATCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAATATTTTAAAAA
Found at i:56888701 original size:9 final size:9
Alignment explanation
Indices: 56888687--56888722 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
56888677 TCTAATGATT
56888687 TTTGAAATG
1 TTTGAAATG
56888696 TTTGAAATG
1 TTTGAAATG
56888705 TTTGAAATG
1 TTTGAAATG
56888714 TTTGAAATG
1 TTTGAAATG
56888723 AATGATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
TTTGAAATG
Found at i:56893504 original size:12 final size:12
Alignment explanation
Indices: 56893487--56893511 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56893477 GGTGTTCATT
56893487 CGGTTAACCGAC
1 CGGTTAACCGAC
56893499 CGGTTAACCGAC
1 CGGTTAACCGAC
56893511 C
1 C
56893512 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:56893688 original size:9 final size:9
Alignment explanation
Indices: 56893671--56893727 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
56893661 TTTGGTTAAA
56893671 AATTACCCG
1 AATTACCCG
*
56893680 AATTGCCCG
1 AATTACCCG
*
56893689 AATTAACCG
1 AATTACCCG
***
56893698 AATTACAAAA
1 AATTAC-CCG
*
56893708 AAATACCCG
1 AATTACCCG
56893717 AATTACCCG
1 AATTACCCG
56893726 AA
1 AA
56893728 ATTTTTTATT
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
9 30 0.86
10 5 0.14
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (9 bp):
AATTACCCG
Found at i:56894484 original size:21 final size:21
Alignment explanation
Indices: 56894460--56894499 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56894450 ATATATATTA
* *
56894460 TATAATAATAATAAATTAAAG
1 TATAATAAAAAAAAATTAAAG
56894481 TATAATAAAAAAAAATTAA
1 TATAATAAAAAAAAATTAA
56894500 GAAAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
TATAATAAAAAAAAATTAAAG
Found at i:56895284 original size:16 final size:16
Alignment explanation
Indices: 56895259--56895292 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56895249 GAATATATTT
* *
56895259 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
56895275 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
56895291 AT
1 AT
56895293 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:56899882 original size:18 final size:19
Alignment explanation
Indices: 56899856--56899893 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
56899846 TTTATAATAT
56899856 ATATGATATAAA-ATAAAA
1 ATATGATATAAATATAAAA
*
56899874 ATATTATATAAATATAAAA
1 ATATGATATAAATATAAAA
56899893 A
1 A
56899894 ATTCAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATATGATATAAATATAAAA
Found at i:56899941 original size:27 final size:28
Alignment explanation
Indices: 56899911--56899995 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 28
56899901 AAAAGGAAAA
56899911 ATAATTAAAAATTTAAAA-TTAAAATAT
1 ATAATTAAAAATTTAAAATTTAAAATAT
* *
56899938 ATAA--ATAAATTCTAAAATTTAAAAAAT
1 ATAATTAAAAATT-TAAAATTTAAAATAT
*
56899965 ATATATTAAAACCTTTACAAATTTAAAATAT
1 ATA-ATTAAAA-ATTTA-AAATTTAAAATAT
56899996 TAAAAAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
25 6 0.13
26 5 0.11
27 15 0.33
28 1 0.02
30 5 0.11
31 14 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATTAAAAATTTAAAATTTAAAATAT
Found at i:56905307 original size:31 final size:31
Alignment explanation
Indices: 56905271--56905332 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
56905261 AAATAATTTT
56905271 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
56905302 AAAGAGTTTTATTAGGATTCAATTTCTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
56905333 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:56914866 original size:89 final size:89
Alignment explanation
Indices: 56914764--56914935 Score: 224
Period size: 89 Copynumber: 1.9 Consensus size: 89
56914754 GTCATCAAAC
*
56914764 TTTTCAAAAAAAGCAATTAAGCCCTTA-CTCTTCTTTTT-CACTCAATTAGATACTTGAACTT-T
1 TTTTCAAAAAAAGCAATTAAGCCCTTACCT-TTCTTTTTACACTCAATTAGATACTTCAA-TTGT
*
56914826 CAAAATGCATTAAAAAGCCCTCAAATT
64 CAAAATGCA-TAAAAAACCCTCAAATT
* * * * * *
56914853 TTTTCAAACAAAGCAATTAAGCCCTTGCCTTTTTTTTTACATTCAATTGGGTACTTCAATTGTCA
1 TTTTCAAAAAAAGCAATTAAGCCCTTACCTTTCTTTTTACACTCAATTAGATACTTCAATTGTCA
56914918 AAATGCATAAAAAACCCT
66 AAATGCATAAAAAACCCT
56914936 TTAACCGTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
89 44 0.61
90 28 0.39
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (89 bp):
TTTTCAAAAAAAGCAATTAAGCCCTTACCTTTCTTTTTACACTCAATTAGATACTTCAATTGTCA
AAATGCATAAAAAACCCTCAAATT
Found at i:56918870 original size:17 final size:18
Alignment explanation
Indices: 56918838--56918873 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
56918828 AAAAATTCAG
*
56918838 AAAATTATACATAAAAAT
1 AAAATTATACAAAAAAAT
56918856 AAAATT-TACAAAAAAAT
1 AAAATTATACAAAAAAAT
56918873 A
1 A
56918874 CAATAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATTATACAAAAAAAT
Found at i:56918933 original size:32 final size:33
Alignment explanation
Indices: 56918897--56918964 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
56918887 ATATTAGTTG
* * *
56918897 AAATTAATAATATTATTACA-AAATATGTAAAA
1 AAATTAATAAAATTATAAAACAAATATGTAAAA
* *
56918929 AAATTTATAAAATTATAAAACAAATATTTAAAA
1 AAATTAATAAAATTATAAAACAAATATGTAAAA
56918962 AAA
1 AAA
56918965 GCTTAAAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (33 bp):
AAATTAATAAAATTATAAAACAAATATGTAAAA
Found at i:56919155 original size:20 final size:22
Alignment explanation
Indices: 56919124--56919164 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
56919114 TATTTTAGAA
56919124 TTTAATAAAAAATTA-ATATTT
1 TTTAATAAAAAATTATATATTT
56919145 TTTAA-AAAAAATTATATATT
1 TTTAATAAAAAATTATATATT
56919165 ATATATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAATAAAAAATTATATATTT
Found at i:56919429 original size:11 final size:11
Alignment explanation
Indices: 56919415--56919448 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
56919405 ACGCCCGATT
56919415 AATGGTTGGTC
1 AATGGTTGGTC
*
56919426 AAT-GCTGGTC
1 AATGGTTGGTC
56919436 AATGGTTGGTC
1 AATGGTTGGTC
56919447 AA
1 AA
56919449 CATTGATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (11 bp):
AATGGTTGGTC
Found at i:56919520 original size:13 final size:13
Alignment explanation
Indices: 56919504--56919528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56919494 AAATATTTAA
56919504 TATTTTAATTTTC
1 TATTTTAATTTTC
56919517 TATTTTAATTTT
1 TATTTTAATTTT
56919529 AATTTAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTAATTTTC
Found at i:56919546 original size:19 final size:18
Alignment explanation
Indices: 56919490--56919546 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
56919480 ATTTTTTAAT
56919490 ATTTAAATATTTAATATTTTA
1 ATTT-AATATTT--TATTTTA
**
56919511 ATTTTCTATTTTAATTTTA
1 ATTTAATATTTT-ATTTTA
56919530 ATTTAATAATTTTATTT
1 ATTTAAT-ATTTTATTT
56919547 AAATAAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 10 0.33
21 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTAATATTTTATTTTA
Found at i:56921849 original size:41 final size:41
Alignment explanation
Indices: 56921792--56921941 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
56921782 TTTAACATAT
*
56921792 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
56921833 TCACCAGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
56921874 TCACCGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGA
* *
56921915 TCACCGACACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
56921942 AAGTCTGAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.02
41 94 0.96
42 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:56921978 original size:82 final size:83
Alignment explanation
Indices: 56921790--56921966 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 83
56921780 AATTTAACAT
*
56921790 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACGTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACGTAGCCTGCTAG
**
56921855 GTTTATAACCTGATTCAG
66 ACTTATAACCTGATTCAG
* *
56921873 A-TCACCGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGATCACC-GACACTTAGCCTGCT
1 ATTCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGATCACCAG-CACGTAGCCTGCT
*
56921935 AGACTTA-AAGTCTGAATT-A-
64 AGACTTATAA-CCTG-ATTCAG
56921954 ATTCACCGGCACT
1 ATTCACCGGCACT
56921967 ACATCTGCTA
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
81 6 0.07
82 73 0.88
83 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (83 bp):
ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACGTAGCCTGCTAG
ACTTATAACCTGATTCAG
Found at i:56924005 original size:13 final size:13
Alignment explanation
Indices: 56923987--56924011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56923977 CAATCAAAGG
56923987 CACACAAAATAAA
1 CACACAAAATAAA
56924000 CACACAAAATAA
1 CACACAAAATAA
56924012 TATTAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:56924289 original size:40 final size:40
Alignment explanation
Indices: 56924153--56924289 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
56924143 CGTTTGGATA
* * *
56924153 AAAAACGCCGCTAAAAATCGAGCATTAACGGTGCTTTACA-
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-TTTTCAG
* * * * * *
56924193 TAAAACGCCACTAAATATCGAGCATTAGTGGCGCTTTAAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTCAG
***
56924233 AAAAGTACCGCTAAAAAT-GAGCATTAGCGGCGTTTTCTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTC-AG
*
56924273 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
56924290 CATAAGCCCA
Statistics
Matches: 73, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
39 19 0.26
40 54 0.74
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTCAG
Found at i:56924379 original size:41 final size:41
Alignment explanation
Indices: 56924327--56924650 Score: 461
Period size: 41 Copynumber: 7.9 Consensus size: 41
56924317 CCTTTCGGGG
* * * *
56924327 CTTTAGAGGTGTTTTTGAAAAAGCGCCGCTAATGCTCGGGA
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* *
56924368 CTTTAGCGGTGTTTTTGAAAAAGCGCTGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* *
56924409 CTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCTAGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* *
56924450 CTTTAGAGGCGTTTTTGAAAAAGCACCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
*
56924491 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-GAGA
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTG-GT
*
56924532 CTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* ** *
56924573 CTTTAGCGGCATTTTCAAAAAAGTGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* * *
56924614 CTTTAGTGGCATTTTCGAAAAAGCGCCGCTAATGCTC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
56924651 AAAAATATTT
Statistics
Matches: 256, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
40 1 0.00
41 254 0.99
42 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
Found at i:56925300 original size:13 final size:13
Alignment explanation
Indices: 56925279--56925308 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56925269 TTTAATTAGT
*
56925279 TTAGGGATTTGGG
1 TTAGAGATTTGGG
56925292 TTAGAGATTTGGG
1 TTAGAGATTTGGG
56925305 TTAG
1 TTAG
56925309 GGTTTAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (13 bp):
TTAGAGATTTGGG
Found at i:56925365 original size:21 final size:21
Alignment explanation
Indices: 56925323--56925374 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
56925313 TAGGGGTTTA
*
56925323 AAGGTTTAAGGGTTGGGATTT
1 AAGGTTTAAGGGTTGAGATTT
*
56925344 AAGGTTTAGGGGTT-AGACTTT
1 AAGGTTTAAGGGTTGAGA-TTT
* *
56925365 ATGGGTTAAG
1 AAGGTTTAAG
56925375 AGTTAGGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.25, C:0.02, G:0.37, T:0.37
Consensus pattern (21 bp):
AAGGTTTAAGGGTTGAGATTT
Found at i:56928405 original size:86 final size:86
Alignment explanation
Indices: 56928315--56928495 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
56928305 AATATAATTG
56928315 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
56928380 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
56928401 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
56928466 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
56928487 TAATT-TTAT
1 TAATTATTAT
56928496 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:56928637 original size:51 final size:51
Alignment explanation
Indices: 56928562--56928781 Score: 325
Period size: 51 Copynumber: 4.1 Consensus size: 51
56928552 TATACGTAAA
56928562 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
56928612 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
56928675 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
56928726 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
56928777 AATTA
1 AATTA
56928782 AACCAACAAT
Statistics
Matches: 157, Mismatches: 0, Indels: 25
0.86 0.00 0.14
Matches are distributed among these distances:
50 6 0.04
51 92 0.59
52 3 0.02
55 3 0.02
56 1 0.01
57 2 0.01
58 1 0.01
59 3 0.02
62 3 0.02
63 43 0.27
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:56928669 original size:12 final size:12
Alignment explanation
Indices: 56928652--56928679 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56928642 GGTAAATAAC
56928652 ATTAAACCAACA
1 ATTAAACCAACA
56928664 ATTAAACCAACA
1 ATTAAACCAACA
56928676 ATTA
1 ATTA
56928680 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:56928679 original size:63 final size:63
Alignment explanation
Indices: 56928601--56928730 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
56928591 GGTAAATAAC
56928601 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56928664 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
56928727 ATTA
1 ATTA
56928731 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:56928703 original size:114 final size:114
Alignment explanation
Indices: 56928562--56928841 Score: 537
Period size: 114 Copynumber: 2.5 Consensus size: 114
56928552 TATACGTAAA
56928562 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
56928626 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
56928675 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
56928740 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
56928789 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACAA
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACAA
56928842 GTAATTTTAG
Statistics
Matches: 165, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
113 7 0.04
114 158 0.96
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (114 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
Found at i:56928782 original size:63 final size:63
Alignment explanation
Indices: 56928715--56928841 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
56928705 GGTAAATAAC
56928715 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACA
56928778 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
56928841 A
1 A
56928842 GTAATTTTAG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 1 0.02
63 62 0.98
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
Found at i:56928783 original size:12 final size:12
Alignment explanation
Indices: 56928766--56928793 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56928756 GGTAAATAAC
56928766 ATTAAACCAACA
1 ATTAAACCAACA
56928778 ATTAAACCAACA
1 ATTAAACCAACA
56928790 ATTA
1 ATTA
56928794 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:56928839 original size:33 final size:33
Alignment explanation
Indices: 56928738--56928841 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
56928728 TTATACATAC
56928738 ACCAACAATGTTTTTTAGGGTA-AATAACATTAA
1 ACCAACAATGTTTTTTAGGG-ACAATAACATTAA
** *** *
56928771 ACCAACAA----TTAAACCAACAATTATACA-TAC
1 ACCAACAATGTTTTTTAGGGACAA-TA-ACATTAA
56928801 ACCAACAATGTTTTTTAGGGACAATAACATTAA
1 ACCAACAATGTTTTTTAGGGACAATAACATTAA
56928834 ACCAACAA
1 ACCAACAA
56928842 GTAATTTTAG
Statistics
Matches: 51, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
28 1 0.02
29 5 0.10
30 12 0.24
31 3 0.06
32 3 0.06
33 20 0.39
34 7 0.14
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (33 bp):
ACCAACAATGTTTTTTAGGGACAATAACATTAA
Found at i:56928850 original size:33 final size:34
Alignment explanation
Indices: 56928787--56928897 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
56928777 AATTAAACCA
* *
56928787 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
56928821 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
56928853 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
56928886 TCAATTATACAT
1 ACAATTATACAT
56928898 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:56932130 original size:119 final size:120
Alignment explanation
Indices: 56931915--56933005 Score: 1908
Period size: 119 Copynumber: 9.2 Consensus size: 120
56931905 ATTTCAAGTT
56931915 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56931980 TAATATAAGAATATTAATTATTAAGAA-TTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
56932034 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56932099 TAATATAAGAATA-TAATTATTAAGAA-TTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
56932152 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56932217 TAATATAAGAATATTAATTATTAAGAA-TTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
56932271 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56932336 TAATATAAGAATA-TAATTATTAAGAA--TTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
56932388 ATATATTTAATAATAATTATGTTAATTTATA-TTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
**
56932452 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
56932507 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAA
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGT-AAA
56932572 TTAATAT-AGAA-ATTAATTATTAAGAATTTTTATTAAATTATAT-TTTTAATTAAA
65 TTAATATAAGAATATTAATTATTAAGAATTTTT-TTAAATTATATATTTTAATTAAA
*
56932626 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* **
56932691 TAATATAAGAATATT-ATCCATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT-TATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
*
56932746 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56932811 TAATA-ATAGAATATTAATTATT-AGAATTTTATTAAATTATATATTTTAATT-AA
66 TAATATA-AGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
*
56932864 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56932929 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
56932984 ATATATTTAATAA-AATTATGTT
1 ATATATTTAATAATAATTATGTT
56933006 TAAATATGAT
Statistics
Matches: 945, Mismatches: 11, Indels: 32
0.96 0.01 0.03
Matches are distributed among these distances:
116 46 0.05
117 70 0.07
118 228 0.24
119 424 0.45
120 165 0.17
121 12 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTAAA
Found at i:56932330 original size:237 final size:239
Alignment explanation
Indices: 56931915--56933005 Score: 1931
Period size: 237 Copynumber: 4.6 Consensus size: 239
56931905 ATTTCAAGTT
56931915 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56931980 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAATATATTTAAT
66 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAAATATATTTAAT
56932045 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
131 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
56932110 TA-TAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
196 TATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
56932152 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56932217 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAATATATTTAAT
66 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAAATATATTTAAT
56932282 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
131 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
56932347 TA-TAATTATTAAGAA-TTT-TTAAATTATATAGTTTAATTAAA
196 TATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
56932388 ATATATTTAATAATAATTATGTTAATTTATA-TTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
56932452 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTT-TTTAAATTATATATTTTAATTAAAATATATTTAA
56932517 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAATTAATAT-AG
130 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGT-AAATTAATATAAG
*
56932581 AA-ATTAATTATTAAGAATTTTTATTAAATTATAT-TTTTAATTAAA
194 AATATTAATTATTAAGAA-TTTTATTAAATTATATAGTTTAATTAAA
*
56932626 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
56932691 TAATATAAGAATATT-ATCCATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTA
66 TAATATAAGAATATTAAT-TATTAAGAATTT-TTTAAATTATATATTTTAATTAAAATATATTTA
*
56932755 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATA-ATA
129 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATA-A
*
56932819 GAATATTAATTATT-AGAATTTTATTAAATTATATATTTTAATT-AA
193 GAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
56932864 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
56932929 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATATTTTAATTAAAATATATTTAA
56932994 TAA-AATTATGTT
130 TAATAATTATGTT
56933006 TAAATATGAT
Statistics
Matches: 832, Mismatches: 8, Indels: 28
0.96 0.01 0.03
Matches are distributed among these distances:
235 64 0.08
236 157 0.19
237 229 0.28
238 200 0.24
239 172 0.21
240 10 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (239 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAAATATATTTAAT
AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
TATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:56932418 original size:44 final size:44
Alignment explanation
Indices: 56932335--56932419 Score: 102
Period size: 42 Copynumber: 1.9 Consensus size: 44
56932325 TTTGAGTAAA
*
56932335 TTAATATAAGAATATAATTATTAAGAATTTTTAAATTATATAGT
1 TTAATATAAGAATATAATTAATAAGAATTTTTAAATTATATAGT
* * *
56932379 TTAAT-TAA-AATATATTTAATAATAATTATGTTAATTTATAT
1 TTAATATAAGAATATAATTAATAAGAATT-T-TTAAATTATAT
56932420 TTACAGTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 16 0.46
43 4 0.11
44 15 0.43
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (44 bp):
TTAATATAAGAATATAATTAATAAGAATTTTTAAATTATATAGT
Found at i:56932616 original size:16 final size:17
Alignment explanation
Indices: 56932597--56932633 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
56932587 ATTATTAAGA
*
56932597 ATTTTT-ATTAAATTAT
1 ATTTTTAATTAAAATAT
56932613 ATTTTTAATTAAAATAT
1 ATTTTTAATTAAAATAT
56932630 ATTT
1 ATTT
56932634 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTAATTAAAATAT
Found at i:56932858 original size:17 final size:17
Alignment explanation
Indices: 56932836--56932869 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56932826 AATTATTAGA
56932836 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
56932853 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
56932870 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:56932983 original size:18 final size:18
Alignment explanation
Indices: 56932955--56933002 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 18
56932945 ATTATTAAGA
56932955 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
56932972 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
56932988 A-TTTAATAAAATTAT
1 ATTTTAATTAAATTAT
56933003 GTTTAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.33
16 5 0.19
17 7 0.26
18 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:56932994 original size:15 final size:15
Alignment explanation
Indices: 56932968--56933008 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
56932958 TTATTAAATT
56932968 ATATATTTTAATTAAA
1 ATATATTTTAA-TAAA
56932984 ATATA-TTTAATAAA
1 ATATATTTTAATAAA
56932998 AT-TATGTTTAA
1 ATATAT-TTTAA
56933009 ATATGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.09
14 6 0.26
15 10 0.43
16 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATATTTTAATAAA
Found at i:56933180 original size:39 final size:42
Alignment explanation
Indices: 56933137--56933241 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 42
56933127 TTCTATTATG
*
56933137 CTATTACACCTCTATTCCATT-CAACCAA-ACACA-AGATTA
1 CTATTACACCTCTATTCCATTACAACCAACAAACAGAGATTA
* ** *
56933176 CTATTACGCCTCTATTCCATTACATTCAACAAACAGTGATTA
1 CTATTACACCTCTATTCCATTACAACCAACAAACAGAGATTA
* *
56933218 CTATTACACCTCTAATCCAATACA
1 CTATTACACCTCTATTCCATTACA
56933242 CCTCTAATCC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 20 0.36
40 5 0.09
41 4 0.07
42 26 0.47
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (42 bp):
CTATTACACCTCTATTCCATTACAACCAACAAACAGAGATTA
Found at i:56933243 original size:16 final size:16
Alignment explanation
Indices: 56933222--56933288 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
56933212 TGATTACTAT
56933222 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56933238 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
56933255 TACACCTCT-AT-CAA
1 TACACCTCTAATCCAA
*
56933269 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
56933285 TACA
1 TACA
56933289 GTACAAGCGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
14 11 0.24
15 2 0.04
16 20 0.43
17 13 0.28
ACGTcount: A:0.36, C:0.37, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56933277 original size:31 final size:32
Alignment explanation
Indices: 56933222--56933288 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 32
56933212 TGATTACTAT
56933222 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
56933255 TACACCTCT-AT-CAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
56933285 TACA
1 TACA
56933289 GTACAAGCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.24
31 14 0.42
32 2 0.06
33 9 0.27
ACGTcount: A:0.36, C:0.37, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:56933457 original size:13 final size:14
Alignment explanation
Indices: 56933439--56933469 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
56933429 TTTAAATAAT
56933439 AATAAATAT-TTTA
1 AATAAATATATTTA
56933452 AATAAATATATTTA
1 AATAAATATATTTA
56933466 AATA
1 AATA
56933470 TAGTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATAAATATATTTA
Found at i:56933459 original size:23 final size:22
Alignment explanation
Indices: 56933431--56933558 Score: 75
Period size: 23 Copynumber: 5.5 Consensus size: 22
56933421 TAATATTATT
56933431 TAAATAATAATAAATATTTTAAA
1 TAAAT-ATAATAAATATTTTAAA
* *
56933454 TAAATATATTTAAATATAGTTAAA
1 TAAATATA-ATAAATAT-TTTAAA
*
56933478 TAGAAT-TAATAAATAAGTTTAAA
1 TA-AATATAATAAAT-ATTTTAAA
*
56933501 TAAAATATATTTAAAATATAGTTTAAA
1 T-AAATATA-AT-AAATAT--TTTAAA
*
56933528 TAGAAT-TAAT-AATAAGTTTAAA
1 TA-AATATAATAAAT-ATTTTAAA
56933550 TAAA-ATAAT
1 TAAATATAAT
56933559 TTAAATAGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
21 6 0.07
22 11 0.13
23 29 0.35
24 14 0.17
25 6 0.07
26 7 0.08
27 10 0.12
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (22 bp):
TAAATATAATAAATATTTTAAA
Found at i:56933488 original size:49 final size:48
Alignment explanation
Indices: 56933448--56933634 Score: 258
Period size: 49 Copynumber: 3.8 Consensus size: 48
56933438 TAATAAATAT
56933448 TTTAAATAAATATATTTAAATATAG-TTAAATAGAATTAATAA-ATAAG
1 TTTAAATAAATATATTTAAATATAGTTTAAATAGAATTAATAATA-AAG
56933495 TTTAAATAAAATATATTTAAAATATAGTTTAAATAGAATTAATAAT-AAG
1 TTTAAAT-AAATATATTT-AAATATAGTTTAAATAGAATTAATAATAAAG
*
56933544 TTTAAATAAA-ATAATTTAAATAGATTGTTTAAATAGAATTAATAAT-AAG
1 TTTAAATAAATAT-ATTTAAAT--ATAGTTTAAATAGAATTAATAATAAAG
56933593 TTTAAATGAAATATATTTAAATATTAGTTTAAATAGAATTAA
1 TTTAAAT-AAATATATTTAAATA-TAGTTTAAATAGAATTAA
56933635 ATGAAAATAT
Statistics
Matches: 128, Mismatches: 2, Indels: 18
0.86 0.01 0.12
Matches are distributed among these distances:
47 13 0.10
48 18 0.14
49 67 0.52
50 28 0.22
51 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (48 bp):
TTTAAATAAATATATTTAAATATAGTTTAAATAGAATTAATAATAAAG
Found at i:56933528 original size:22 final size:22
Alignment explanation
Indices: 56933503--56933627 Score: 65
Period size: 22 Copynumber: 5.2 Consensus size: 22
56933493 AGTTTAAATA
56933503 AAATATATTTAAAATATAGTTT
1 AAATATATTTAAAATATAGTTT
* *
56933525 AAATAGAATTAATAATA-AGTTT
1 AAATATATTTAA-AATATAGTTT
* *
56933547 AAATAAAATAATTTAAATAGATTGTTT
1 AAAT---AT-ATTTAAA-ATATAGTTT
* *
56933574 AAATAGAATTAATAATA-AGTTT
1 AAATATATTTAA-AATATAGTTT
*
56933596 AAATGAAATATATTTAAATATTAGTTT
1 AAAT---ATAT-TTAAAATA-TAGTTT
56933623 AAATA
1 AAATA
56933628 GAATTAAATG
Statistics
Matches: 76, Mismatches: 13, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
22 27 0.36
23 11 0.14
24 3 0.04
25 8 0.11
26 10 0.13
27 17 0.22
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATATATTTAAAATATAGTTT
Found at i:56933613 original size:98 final size:96
Alignment explanation
Indices: 56933414--56933784 Score: 421
Period size: 98 Copynumber: 4.0 Consensus size: 96
56933404 AAACCATTTG
*
56933414 ATATATTT-AATATTA-TTTAAAT--AA-TAATAA-ATATTTTAAATAAATATATTTAAATATAG
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAATA-AGTTTAAATAAATATATTTAAATATAG
56933473 TTAAATAGAATTAATAAATAAGTTTAAATAAA
65 TTAAATAGAATTAATAAATAAGTTTAAATAAA
56933505 ATATATTTAAA-ATATAGTTTAAATAGAATTAATAATAAGTTTAAATAAA-ATAATTTAAATAGA
1 ATATATTTAAATAT-TAGTTTAAATAGAATTAATAATAAGTTTAAATAAATAT-ATTTAAAT--A
* *
56933568 TTGTTTAAATAGAATTAAT-AATAAGTTTAAATGAA
62 TAG-TTAAATAGAATTAATAAATAAGTTTAAATAAA
56933603 ATATATTTAAATATTAGTTTAAATAGAATT-A-AAT--G-----A-AAATATA-TTAAATATTAG
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAATAAGTTTAAATAAATATATTTAAATA-TAG
*
56933657 TTAAATAGAATTAATAAATAAGTTT-AATGAA
65 TTAAATAGAATTAATAAATAAGTTTAAATAAA
56933688 ATATATATTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAA-ATATATTAAATAT
1 ATATAT-TTAAATATTAGTTTAAATAGAATTAATAA-TAAGTTTAAATAAATATAT-TTAAATA-
56933752 TAGTTTAAATAGAATTAAT-AATATA-TTTAAATA
62 TAG-TTAAATAGAATTAATAAATA-AGTTTAAATA
56933785 TAGTTTAAAT
Statistics
Matches: 243, Mismatches: 5, Indels: 56
0.80 0.02 0.18
Matches are distributed among these distances:
85 28 0.12
86 35 0.14
87 7 0.03
88 6 0.02
89 4 0.02
91 11 0.05
92 4 0.02
93 7 0.03
94 1 0.00
95 4 0.02
96 32 0.13
97 5 0.02
98 63 0.26
99 36 0.15
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (96 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAATAAGTTTAAATAAATATATTTAAATATAGT
TAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:56933668 original size:36 final size:37
Alignment explanation
Indices: 56933594--56933670 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
56933584 AATAATAAGT
56933594 TTAAATGAAATATATTTAAATATTAGTTTAAATAGAA
1 TTAAATGAAATATATTTAAATATTAGTTTAAATAGAA
56933631 TTAAATGAAA-ATATATTAAATATTAG-TTAAATAGAA
1 TTAAATGAAATATAT-TTAAATATTAGTTTAAATAGAA
56933667 TTAA
1 TTAA
56933671 TAAATAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 18 0.46
37 21 0.54
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (37 bp):
TTAAATGAAATATATTTAAATATTAGTTTAAATAGAA
Found at i:56933709 original size:135 final size:133
Alignment explanation
Indices: 56933496--56933795 Score: 436
Period size: 135 Copynumber: 2.2 Consensus size: 133
56933486 ATAAATAAGT
56933496 TTAAATAAAATATATTTAAA-ATATAGTTTAAATAGAATTAATAATAAGTTTAAATAAAATAATT
1 TTAAATAAAATATA-TTAAATAT-TAGTTTAAATAGAATTAATAATAAGTTTAAATAAAATAATT
*
56933560 TAAATAGATTGTTTAAATAGAATTAATAA-TAAGTTTAAATGAAATATATTTAAATATTAGTTTA
64 TAAATA-ATTGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATA-TTAAATATTAGTTTA
56933624 AATAGAA
127 AATAGAA
*
56933631 TTAAATGAAAATATATTAAATATTAG-TTAAATAGAATTAATAAATAAGTTT-AATGAAATATAT
1 TTAAAT-AAAATATATTAAATATTAGTTTAAATAGAATTAAT-AATAAGTTTAAATAAAATA-AT
56933694 ATTAAAT-ATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTAAATATTAGTTT
63 -TTAAATAATT-GTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTAAATATTAGTTT
56933758 AAATAGAA
126 AAATAGAA
*
56933766 TT-AATAATATAT-TTAAATA-TAGTTTAAATA
1 TTAAATAAAATATATTAAATATTAGTTTAAATA
56933796 AAAGATTTTT
Statistics
Matches: 154, Mismatches: 3, Indels: 19
0.88 0.02 0.11
Matches are distributed among these distances:
131 3 0.02
132 14 0.09
133 6 0.04
134 29 0.19
135 68 0.44
136 34 0.22
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (133 bp):
TTAAATAAAATATATTAAATATTAGTTTAAATAGAATTAATAATAAGTTTAAATAAAATAATTTA
AATAATTGTTTAAATAGAATTAATAATTAAGTTTAAATAAAATATATTAAATATTAGTTTAAATA
GAA
Found at i:56933761 original size:12 final size:11
Alignment explanation
Indices: 56933744--56933795 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
56933734 ATAAAATATA
56933744 TTAAATATTAGT
1 TTAAATA-TAGT
* *
56933756 TTAAATAGAAT
1 TTAAATATAGT
*
56933767 TAATAATATA-T
1 TTA-AATATAGT
56933778 TTAAATATAGT
1 TTAAATATAGT
56933789 TTAAATA
1 TTAAATA
56933796 AAAGATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 6 0.18
11 15 0.45
12 12 0.36
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (11 bp):
TTAAATATAGT
Found at i:56933761 original size:86 final size:84
Alignment explanation
Indices: 56933572--56933795 Score: 239
Period size: 86 Copynumber: 2.7 Consensus size: 84
56933562 AATAGATTGT
56933572 TTAAATAGAATTA-ATAATAAGTTTAAATGAAATATATTTAAATATTAGTTTAAATAGAATTAAA
1 TTAAATAGAATTATA-AATAAGTTT-AATGAAATATATTTAAATATTAGTTTAAATAGAATTAAA
* *
56933636 TGAAAATATATTAAATATTAG
64 TGAAAATAAATAAAATATTAG
56933657 TTAAATAGAATTAATAAATAAGTTTAATGAAATATATATTAAATATTAGTTTAAATAGAATTAAT
1 TTAAATAGAATT-ATAAATAAGTTTAATGAAATATAT-TTAAATATTAGTTTAAATAGAATT-A-
* **
56933722 AATTAAGTTTAAATAAAATA-TA-
62 AATGAA-AATAAATAAAATATTAG
* * *
56933744 TTAAATATTAGTT-TAAAT-AGAATTAAT--AATATATTTAAATA-TAGTTTAAATA
1 TTAAATA-GAATTATAAATAAG-TTTAATGAAATATATTTAAATATTAGTTTAAATA
56933796 AAAGATTTTT
Statistics
Matches: 123, Mismatches: 8, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
82 11 0.09
83 7 0.06
84 7 0.06
85 26 0.21
86 44 0.36
87 9 0.07
88 10 0.08
89 9 0.07
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (84 bp):
TTAAATAGAATTATAAATAAGTTTAATGAAATATATTTAAATATTAGTTTAAATAGAATTAAATG
AAAATAAATAAAATATTAG
Found at i:56933773 original size:49 final size:50
Alignment explanation
Indices: 56933631--56933773 Score: 247
Period size: 49 Copynumber: 2.9 Consensus size: 50
56933621 TTAAATAGAA
*
56933631 TTAAATGAAAATATATTAAATATTAG-TTAAATAGAATTAATAAATAAGT
1 TTAAATGAAAATATATTAAATATTAGTTTAAATAGAATTAATAATTAAGT
56933680 TT-AATGAAATATATATTAAATATTAGTTTAAATAGAATTAATAATTAAGT
1 TTAAATGAAA-ATATATTAAATATTAGTTTAAATAGAATTAATAATTAAGT
56933730 TTAAAT-AAAATATATTAAATATTAGTTTAAATAGAATTAATAAT
1 TTAAATGAAAATATATTAAATATTAGTTTAAATAGAATTAATAAT
56933774 ATATTTAAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
48 7 0.08
49 53 0.59
50 27 0.30
51 3 0.03
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (50 bp):
TTAAATGAAAATATATTAAATATTAGTTTAAATAGAATTAATAATTAAGT
Found at i:56933780 original size:22 final size:23
Alignment explanation
Indices: 56933649--56933784 Score: 104
Period size: 23 Copynumber: 5.7 Consensus size: 23
56933639 AAATATATTA
56933649 AATATTAG-TTAAATAGAATTAAT
1 AATA-TAGTTTAAATAGAATTAAT
56933672 AA-ATAAGTTT-AAT-GAAATATATATT
1 AATAT-AGTTTAAATAG-AAT-TA-A-T
56933697 AAATATTAGTTTAAATAGAATTAAT
1 -AATA-TAGTTTAAATAGAATTAAT
* *
56933722 AAT-TAAGTTTAAATAAAATATATT
1 AATAT-AGTTTAAATAGAAT-TAAT
56933746 AAATATTAGTTTAAATAGAATTAAT
1 -AATA-TAGTTTAAATAGAATTAAT
56933771 AATATA-TTTAAATA
1 AATATAGTTTAAATA
56933785 TAGTTTAAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 33
0.72 0.03 0.25
Matches are distributed among these distances:
21 2 0.02
22 18 0.19
23 21 0.23
24 11 0.12
25 8 0.09
26 16 0.17
27 9 0.10
28 7 0.08
29 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (23 bp):
AATATAGTTTAAATAGAATTAAT
Found at i:56937808 original size:13 final size:12
Alignment explanation
Indices: 56937784--56937816 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56937774 TTATGGTTAT
56937784 TATTATAAAAAA
1 TATTATAAAAAA
56937796 TATTATAAAAAA
1 TATTATAAAAAA
*
56937808 -ATAATAAAA
1 TATTATAAAA
56937817 CATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TATTATAAAAAA
Found at i:56939833 original size:27 final size:25
Alignment explanation
Indices: 56939781--56939833 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
56939771 TAATGTATTC
* *
56939781 AAATAATGAATTAATAATATTTTAA
1 AAATAATGAATGAATAATATTATAA
*
56939806 AAATAGATGAATGGAATTATATTATAA
1 AAATA-ATGAAT-GAATAATATTATAA
56939833 A
1 A
56939834 TTAAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (25 bp):
AAATAATGAATGAATAATATTATAA
Found at i:56946328 original size:20 final size:20
Alignment explanation
Indices: 56946303--56946352 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
56946293 TGGCTTAAAA
56946303 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
56946323 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
56946340 GTGGTAGTGGATT
1 TTGGTAGTGGATT
56946353 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:56950967 original size:20 final size:20
Alignment explanation
Indices: 56950942--56950991 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
56950932 TGGCTTAAAA
56950942 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
56950962 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
56950979 GTGGTAGTGGATT
1 TTGGTAGTGGATT
56950992 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:56959113 original size:35 final size:35
Alignment explanation
Indices: 56959074--56959143 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
56959064 CAGCTAATGA
*
56959074 AATGCTTGGT-TACTTGCATGTTACAGCTGTGTTGC
1 AATGCTTGGTAT-CTTGCATGCTACAGCTGTGTTGC
* *
56959109 AATGCTTGGTATCTTGCATGCTGCTGCTGTGTTGC
1 AATGCTTGGTATCTTGCATGCTACAGCTGTGTTGC
56959144 CACCATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (35 bp):
AATGCTTGGTATCTTGCATGCTACAGCTGTGTTGC
Found at i:56960290 original size:21 final size:21
Alignment explanation
Indices: 56960264--56960319 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
56960254 AACAGCGGTG
*
56960264 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
56960285 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
56960306 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
56960320 AACAATTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Done.