Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 112 of 240
Found at i:34891528 original size:19 final size:20
Alignment explanation
Indices: 34891500--34891537 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34891490 ATTTTAGATA
34891500 AAATT-AAAAAATTATTTTG
1 AAATTAAAAAAATTATTTTG
*
34891519 AAATTTAAAAAATTATTTT
1 AAATTAAAAAAATTATTTT
34891538 AGAACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATTAAAAAAATTATTTTG
Found at i:34891548 original size:20 final size:20
Alignment explanation
Indices: 34891505--34891548 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34891495 AGATAAAATT
* *
34891505 AAAAAATTATTTTGAAATTT
1 AAAAAATTATTTTGAAACTC
34891525 AAAAAATTATTTT-AGAACTC
1 AAAAAATTATTTTGA-AACTC
34891545 AAAA
1 AAAA
34891549 TTTTCATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAAATTATTTTGAAACTC
Found at i:34893897 original size:31 final size:31
Alignment explanation
Indices: 34893859--34893921 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
34893849 CTTGAATGGT
34893859 AAGGAGCAAACAATGAAGATATATCATAGTC
1 AAGGAGCAAACAATGAAGATATATCATAGTC
34893890 AAGGAGCAAACAATGAAGATATATCATAGTC
1 AAGGAGCAAACAATGAAGATATATCATAGTC
34893921 A
1 A
34893922 GTGCTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (31 bp):
AAGGAGCAAACAATGAAGATATATCATAGTC
Found at i:34895073 original size:19 final size:19
Alignment explanation
Indices: 34895049--34895085 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
34895039 AAAGTTTTGG
34895049 TAAAAAAT-TATATTATTTA
1 TAAAAAATGT-TATTATTTA
34895068 TAAAAAATGTTATTATTT
1 TAAAAAATGTTATTATTT
34895086 TTTACTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TAAAAAATGTTATTATTTA
Found at i:34896470 original size:22 final size:23
Alignment explanation
Indices: 34896428--34896470 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34896418 ATTAAATAAC
* *
34896428 AAAAAATAAAGGGATTGAATTTT
1 AAAAAATAAAGGGACTAAATTTT
34896451 AAAAAATAAA-GGACTAAATT
1 AAAAAATAAAGGGACTAAATT
34896471 GAAACCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.58, C:0.02, G:0.14, T:0.26
Consensus pattern (23 bp):
AAAAAATAAAGGGACTAAATTTT
Found at i:34899115 original size:4 final size:4
Alignment explanation
Indices: 34899106--34899132 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
34899096 AAACTAAGTA
34899106 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
34899133 ACTTTACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:34906011 original size:50 final size:50
Alignment explanation
Indices: 34905957--34906103 Score: 125
Period size: 50 Copynumber: 2.9 Consensus size: 50
34905947 CAATCCACTT
*
34905957 CATCTTTAGGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCAATG
1 CATCTTTAAGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCAATG
* * * * **** * * * * ** *
34906007 CATCTTCATGGAGATGAGATTTGCTACTATAGTTTTGATCCTG-TTCACTG
1 CATCTTTAAGGATACGAGATTTGAGGTTGTAG-CTTCATCTTGCCCCAATG
*
34906057 CATCTTTAAGGATACGAGATTGGAGGTTGTAGCTTCATCTTGCCCCA
1 CATCTTTAAGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCA
34906104 TTACTAAACT
Statistics
Matches: 65, Mismatches: 30, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
49 7 0.11
50 51 0.78
51 7 0.11
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (50 bp):
CATCTTTAAGGATACGAGATTTGAGGTTGTAGCTTCATCTTGCCCCAATG
Found at i:34908574 original size:25 final size:25
Alignment explanation
Indices: 34908546--34908601 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
34908536 ATAACAATTA
34908546 TTATATAATATAATT-T-ACATACATT
1 TTATATAAT-TAATTATAACATACA-T
*
34908571 TTATATAATTTATTATAACATACAT
1 TTATATAATTAATTATAACATACAT
34908596 TTATAT
1 TTATAT
34908602 TAAGTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 17 0.61
26 7 0.25
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (25 bp):
TTATATAATTAATTATAACATACAT
Found at i:34920995 original size:6 final size:6
Alignment explanation
Indices: 34920980--34921015 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
34920970 TAAGAAACTG
*
34920980 CCATGA CCATGC CCATGC CCATGC CCATGC CCATGC
1 CCATGC CCATGC CCATGC CCATGC CCATGC CCATGC
34921016 TCAAACCATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.19, C:0.47, G:0.17, T:0.17
Consensus pattern (6 bp):
CCATGC
Found at i:34926288 original size:28 final size:28
Alignment explanation
Indices: 34926250--34926337 Score: 133
Period size: 27 Copynumber: 3.1 Consensus size: 28
34926240 TATTTTGACT
34926250 CCCTAACTTTTTTAAAATTACATTTTAA
1 CCCTAACTTTTTTAAAATTACATTTTAA
34926278 CCCTAAC-TTTTTAAAATTACATTTTAA
1 CCCTAACTTTTTTAAAATTACATTTTAA
* *
34926305 CCCCTAAACTTTCTTAAAATTACCTTTTAA
1 -CCCT-AACTTTTTTAAAATTACATTTTAA
34926335 CCC
1 CCC
34926338 CTAAAATTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 20 0.36
28 11 0.20
29 6 0.11
30 18 0.33
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (28 bp):
CCCTAACTTTTTTAAAATTACATTTTAA
Found at i:34926342 original size:30 final size:29
Alignment explanation
Indices: 34926234--34926341 Score: 148
Period size: 30 Copynumber: 3.7 Consensus size: 29
34926224 CAAAAGATAT
* * *
34926234 AAATTATATTTTGACTCCCTAACTTTTTTA
1 AAATTACATTTTAAC-CCCTAACTTTCTTA
34926264 AAATTACATTTTAA-CCCTAACTTT-TTA
1 AAATTACATTTTAACCCCTAACTTTCTTA
34926291 AAATTACATTTTAACCCCTAAACTTTCTTA
1 AAATTACATTTTAACCCCT-AACTTTCTTA
*
34926321 AAATTACCTTTTAACCCCTAA
1 AAATTACATTTTAACCCCTAA
34926342 AATTTCATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
27 17 0.24
28 14 0.19
29 8 0.11
30 33 0.46
ACGTcount: A:0.35, C:0.21, G:0.01, T:0.43
Consensus pattern (29 bp):
AAATTACATTTTAACCCCTAACTTTCTTA
Found at i:34926352 original size:20 final size:20
Alignment explanation
Indices: 34926319--34926358 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34926309 TAAACTTTCT
*
34926319 TAAAATTACCTTTTAACCCC
1 TAAAATTACATTTTAACCCC
* *
34926339 TAAAATTTCATTTTGACCCC
1 TAAAATTACATTTTAACCCC
34926359 AAGTTTACCT
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:0.33, C:0.28, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAAATTACATTTTAACCCC
Found at i:34926847 original size:10 final size:10
Alignment explanation
Indices: 34926828--34926894 Score: 68
Period size: 10 Copynumber: 6.7 Consensus size: 10
34926818 AGGGAAAGAA
*
34926828 AAGAAGAAAG
1 AAGAAAAAAG
34926838 AAGAAAAAAG
1 AAGAAAAAAG
34926848 --GAAAAAAG
1 AAGAAAAAAG
34926856 AAGAAAAAAGG
1 AAGAAAAAA-G
*
34926867 AAGGAAAAAG
1 AAGAAAAAAG
34926877 AAAGAATAAAA-
1 -AAGAA-AAAAG
34926888 AAGAAAA
1 AAGAAAA
34926895 GTATAAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
8 8 0.16
9 2 0.04
10 22 0.45
11 13 0.27
12 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:34926877 original size:18 final size:18
Alignment explanation
Indices: 34926826--34926879 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
34926816 AAAGGGAAAG
34926826 AAAA-GAAGAAAGAAGAA
1 AAAAGGAAGAAAGAAGAA
*
34926843 AAAAGGAAAAAAGAAGAA
1 AAAAGGAAGAAAGAAGAA
34926861 AAAAGGAAGGAAA-AAGAA
1 AAAAGGAA-GAAAGAAGAA
34926879 A
1 A
34926880 GAATAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 4 0.12
18 26 0.79
19 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAGGAAGAAAGAAGAA
Found at i:34926895 original size:15 final size:14
Alignment explanation
Indices: 34926826--34926903 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 14
34926816 AAAGGGAAAG
*
34926826 AAAAGAAGAAAGAAG
1 AAAA-AAGAAAGAAT
* *
34926841 AAAAAAGGAAAAAAG
1 AAAAAA-GAAAGAAT
* *
34926856 AAGAAAA-AAGGAAG
1 AA-AAAAGAAAGAAT
*
34926870 GAAAAAGAAAGAAT
1 AAAAAAGAAAGAAT
*
34926884 AAAAAAGAAAAGTAT
1 AAAAAAG-AAAGAAT
34926899 AAAAA
1 AAAAA
34926904 TATATAAAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.08
14 19 0.37
15 24 0.47
16 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.04
Consensus pattern (14 bp):
AAAAAAGAAAGAAT
Found at i:34927064 original size:10 final size:10
Alignment explanation
Indices: 34927044--34927077 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
34927034 TACACAGCCC
34927044 AAAAGAAAAAG
1 AAAA-AAAAAG
*
34927055 GAAAAAAAAG
1 AAAAAAAAAG
34927065 AAAAAAAAAG
1 AAAAAAAAAG
34927075 AAA
1 AAA
34927078 GAAGCCTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.86
11 3 0.14
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:34927135 original size:28 final size:28
Alignment explanation
Indices: 34927090--34927185 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
34927080 AGCCTAACAA
* * *
34927090 ACAGCAGGCTAGCGCCTGGCCCAACAGT
1 ACAGCAGGCCAGCACCTGGCCCAACAGC
* *
34927118 ACAGCAAGCCAGCACCTGGCCCAGCAGC
1 ACAGCAGGCCAGCACCTGGCCCAACAGC
* ** * * *
34927146 ACAACAGGCCAGCACCCAGCCTAGCAAC
1 ACAGCAGGCCAGCACCTGGCCCAACAGC
34927174 ACAGCAGGCCAG
1 ACAGCAGGCCAG
34927186 TCCAGCAACC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.30, C:0.40, G:0.25, T:0.05
Consensus pattern (28 bp):
ACAGCAGGCCAGCACCTGGCCCAACAGC
Found at i:34927654 original size:15 final size:17
Alignment explanation
Indices: 34927624--34927656 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
34927614 AATCATTTTT
34927624 AAATATATATATATGTA
1 AAATATATATATATGTA
34927641 AAATA-ATA-ATATGTA
1 AAATATATATATATGTA
34927656 A
1 A
34927657 TTTATCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATATATATATATGTA
Found at i:34931161 original size:4 final size:4
Alignment explanation
Indices: 34931154--34931186 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
34931144 CATTCATTGG
*
34931154 TCAT TCAT TCAT TCAT GCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
34931187 GCATGTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.48
Consensus pattern (4 bp):
TCAT
Found at i:34933670 original size:25 final size:25
Alignment explanation
Indices: 34933638--34933687 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
34933628 GTGAATGAGG
34933638 AGGAAGCACACGAATTCTTGAAGTT
1 AGGAAGCACACGAATTCTTGAAGTT
34933663 AGGAAGCACACGAATTCTTGAAGTT
1 AGGAAGCACACGAATTCTTGAAGTT
34933688 CATTAAGCAC
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:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (25 bp):
AGGAAGCACACGAATTCTTGAAGTT
Found at i:34938009 original size:76 final size:75
Alignment explanation
Indices: 34937906--34938458 Score: 658
Period size: 75 Copynumber: 7.3 Consensus size: 75
34937896 TTATTTCTTT
* **
34937906 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTGCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
34937971 CGCTAAGTTA
66 CGCTGAGGTA
* * * *
34937981 TTTTCACTTTTTGTTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
34938046 ACGCCGAGGTA
65 ACGCTGAGGTA
* * * **
34938057 TTTTTCAATTTCTATTTTTCAAAAATCAACTGATAATCCAAGAGGTGAGTTGAGCCTTAGGTCAC
1 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCAC
34938122 ACG-TCGAGGTA
65 ACGCT-GAGGTA
* *** *
34938133 TTTTTCAATTTCTATTTTTTTTTAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCG
1 -TTTTCAATTTCT-GTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCA
34938198 CACGCTGAGGTA
64 CACGCTGAGGTA
* * * * * * *
34938210 TTTTTAATTTTTGTTTTTCAAAAATCAACTCATAATTCGAGAAGTGATTTGAGCCTCGGGTTATA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
34938275 CACTGAGGTA
66 CGCTGAGGTA
* * * * * *
34938285 TTTTCAATTTCTATTTTTAAAAAATCAACTGATAATCCGAGAGGTGAGTTGAGCCTTGGATCTCA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
*
34938350 CGCTGGGGTA
66 CGCTGAGGTA
* * * * *
34938360 TTTTCAATTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCAGATCACG
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
34938425 CGCCGAGCTA
66 CGCTGAGGTA
* *
34938435 TTTTCGATTTCTATTTTTCAAAAA
1 TTTTCAATTTCTGTTTTTCAAAAA
34938459 AATAAAAATA
Statistics
Matches: 404, Mismatches: 69, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
75 207 0.51
76 134 0.33
77 62 0.15
78 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACA
CGCTGAGGTA
Found at i:34938751 original size:16 final size:16
Alignment explanation
Indices: 34938718--34938750 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34938708 TTATTTTATT
34938718 AATTTTAAATAATAAA
1 AATTTTAAATAATAAA
34938734 AATTTTAAA-AATAAA
1 AATTTTAAATAATAAA
34938749 AA
1 AA
34938751 AATATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTTTAAATAATAAA
Found at i:34938805 original size:19 final size:20
Alignment explanation
Indices: 34938781--34938823 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
34938771 CCCAACTTTT
34938781 TAAAATTACA-TTTGACCAC
1 TAAAATTACATTTTGACCAC
*
34938800 TAAAATTACATTTTGACCCC
1 TAAAATTACATTTTGACCAC
34938820 TAAA
1 TAAA
34938824 CTTTCCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAATTACATTTTGACCAC
Found at i:34939422 original size:7 final size:7
Alignment explanation
Indices: 34939379--34939451 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
34939369 AAGAAGAGGG
34939379 AAAGAAA
1 AAAGAAA
34939386 AGAAGAAA
1 A-AAGAAA
* *
34939394 GAGGAAA
1 AAAGAAA
*
34939401 AAAGGAA
1 AAAGAAA
*
34939408 AAATAAGA
1 AAAGAA-A
*
34939416 AAA-AAG
1 AAAGAAA
34939422 AAAGAAA
1 AAAGAAA
34939429 AAAG-AA
1 AAAGAAA
*
34939435 AAATAAA
1 AAAGAAA
*
34939442 AAATAAA
1 AAAGAAA
34939449 AAA
1 AAA
34939452 ATATATAAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
6 8 0.15
7 34 0.65
8 10 0.19
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:34939442 original size:11 final size:11
Alignment explanation
Indices: 34939378--34939435 Score: 57
Period size: 10 Copynumber: 5.4 Consensus size: 11
34939368 GAAGAAGAGG
34939378 GAAAGAAAAGAA
1 GAAAGAAAA-AA
**
34939390 GAAAGAGGAAA
1 GAAAGAAAAAA
*
34939401 -AAAGGAAAAA
1 GAAAGAAAAAA
*
34939411 -TAAGAAAAAA
1 GAAAGAAAAAA
34939421 GAAAGAAAAAA
1 GAAAGAAAAAA
34939432 GAAA
1 GAAA
34939436 AATAAAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
10 15 0.41
11 15 0.41
12 7 0.19
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:34939449 original size:18 final size:17
Alignment explanation
Indices: 34939398--34939452 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
34939388 AAGAAAGAGG
* *
34939398 AAAAAAGGAAAAATAAG
1 AAAAAAGAAAAAATAAA
34939415 AAAAAAGAAAGAAA-AAA
1 AAAAAAGAAA-AAATAAA
* *
34939432 GAAAAATAAAAAATAAA
1 AAAAAAGAAAAAATAAA
34939449 AAAA
1 AAAA
34939453 TATATAAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 3 0.10
17 25 0.81
18 3 0.10
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAATAAA
Found at i:34939665 original size:28 final size:28
Alignment explanation
Indices: 34939631--34939698 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
34939621 AGCCCAACAA
***
34939631 ACAGCAGGCCAGCACTTGACCAAGCAGC
1 ACAGCAGGCCAGCACCCAACCAAGCAGC
* * *
34939659 ATAGCAGGCCAACACCCAACCCAGCAGC
1 ACAGCAGGCCAGCACCCAACCAAGCAGC
34939687 ACAGCAGGCCAG
1 ACAGCAGGCCAG
34939699 TCCAACAACC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.38, G:0.24, T:0.04
Consensus pattern (28 bp):
ACAGCAGGCCAGCACCCAACCAAGCAGC
Found at i:34940598 original size:113 final size:111
Alignment explanation
Indices: 34940434--34940647 Score: 306
Period size: 113 Copynumber: 1.9 Consensus size: 111
34940424 CTAGAAAAAG
* *
34940434 GATCGGTGGTAACTCCTTTTTTTTTTAAAAATTGAGACTCTGTTTTCAAATTTTCAATAATCGCC
1 GATCGGTGGCAACTCCTTTTTTTTTTAAAAATTGAGACTCTGCTTTCAAATTTTCAATAATCGCC
*
34940499 TCGAATAGCACCTGTGCAAAATTTTAGTTCGCTACAGCAAAGGTGT
66 TCGAATAGCACCTGTGCAAAATTTTAGGTCGCTACAGCAAAGGTGT
*
34940545 GATCGGTGGCGACTCCTCTTTTTTTTTAAAAAAAATTGAGA-T-TGCTTTCAAATTTTCAATAAT
1 GATCGGTGGCAACTCCT-TTTTTTTTT---AAAAATTGAGACTCTGCTTTCAAATTTTCAATAAT
* ** *
34940608 TGCCTCGAATAGTGCTTGTGCAAAATTTTAGGTCGCTACA
62 CGCCTCGAATAGCACCTGTGCAAAATTTTAGGTCGCTACA
34940648 TTGTGTTATA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
111 15 0.16
112 9 0.10
113 55 0.60
114 1 0.01
115 11 0.12
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (111 bp):
GATCGGTGGCAACTCCTTTTTTTTTTAAAAATTGAGACTCTGCTTTCAAATTTTCAATAATCGCC
TCGAATAGCACCTGTGCAAAATTTTAGGTCGCTACAGCAAAGGTGT
Found at i:34950561 original size:28 final size:28
Alignment explanation
Indices: 34950522--34950577 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
34950512 ATGACCTTTA
34950522 TTGTTGCACCCGTCCAACGTCCCCCGGG
1 TTGTTGCACCCGTCCAACGTCCCCCGGG
*
34950550 TTGTTGCACCCGTCCAGCGTCCCCCGGG
1 TTGTTGCACCCGTCCAACGTCCCCCGGG
34950578 CCTAACAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.09, C:0.43, G:0.27, T:0.21
Consensus pattern (28 bp):
TTGTTGCACCCGTCCAACGTCCCCCGGG
Found at i:34954954 original size:17 final size:17
Alignment explanation
Indices: 34954934--34954966 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34954924 TGGCTTGCTT
34954934 ACCTAGCTGGCATACTA
1 ACCTAGCTGGCATACTA
34954951 ACCTAGCTGGCATACT
1 ACCTAGCTGGCATACT
34954967 TCACAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (17 bp):
ACCTAGCTGGCATACTA
Found at i:34958773 original size:23 final size:24
Alignment explanation
Indices: 34958746--34958794 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
34958736 CATTTAAAAA
34958746 TTGAATA-TATCACTTAAATTATT
1 TTGAATATTATCACTTAAATTATT
**
34958769 TTGAATATTTATCACTTGGATTATT
1 TTGAATA-TTATCACTTAAATTATT
34958794 T
1 T
34958795 GTACACCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
25 15 0.68
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (24 bp):
TTGAATATTATCACTTAAATTATT
Found at i:34960095 original size:17 final size:18
Alignment explanation
Indices: 34960052--34960088 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
34960042 GCTAGGTGTG
34960052 GAAAGAA-GAAAGAAAAT
1 GAAAGAATGAAAGAAAAT
34960069 GAAAGAATGAAA-AAAAT
1 GAAAGAATGAAAGAAAAT
34960086 GAA
1 GAA
34960089 TGGATGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (18 bp):
GAAAGAATGAAAGAAAAT
Found at i:34962685 original size:24 final size:24
Alignment explanation
Indices: 34962657--34962704 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
34962647 AGTCGAAGTC
34962657 AACTCGTTTGGAGCGTAGACAACT
1 AACTCGTTTGGAGCGTAGACAACT
34962681 AACTCGTTTGGAGCGTAGACAACT
1 AACTCGTTTGGAGCGTAGACAACT
34962705 TGGTCACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (24 bp):
AACTCGTTTGGAGCGTAGACAACT
Found at i:34969365 original size:24 final size:24
Alignment explanation
Indices: 34969338--34969397 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
34969328 AATAATCAAG
*
34969338 AATTATTTTGACTTTTTTCTTGAA
1 AATTACTTTGACTTTTTTCTTGAA
*
34969362 AATTAGC-TTGAC-TTTTTCTTGAG
1 AATTA-CTTTGACTTTTTTCTTGAA
34969385 AATTACTTTGACT
1 AATTACTTTGACT
34969398 AAATCTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 20 0.65
24 10 0.32
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.52
Consensus pattern (24 bp):
AATTACTTTGACTTTTTTCTTGAA
Found at i:34970834 original size:40 final size:40
Alignment explanation
Indices: 34970785--34971091 Score: 308
Period size: 40 Copynumber: 7.7 Consensus size: 40
34970775 GTGGATGCAG
* * **
34970785 AACAAGGGCACGCATGTGCATTTAATGATACCGAAGTACA
1 AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
* * * *
34970825 AATAGGGGCATGCATGTGCATTTAGTGATACCGAAGTACA
1 AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
* * * *
34970865 AATAGGGGCACGTATGTGCATTCAGGGATACCAAAGTATA
1 AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
* ** * * *
34970905 AACAAGGGCATATATGTGCATTCAGGGGTACCGATGTACA
1 AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
* * * * *
34970945 AACAGGGGCACGTATATGCATTCAGGGTTACCAAAGTAAA
1 AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
* * **
34970985 AACAGGGGCACATATGTGCATTTAGGTATACTAAAGTACA
1 AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
* * *
34971025 AACAGGGGCACATATGTACATTTAGGGGTACCGAAGTACA
1 AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
* * * *
34971065 AAAAGGGGAACATATGTGCTTTTAGGG
1 AACAGGGGCACGTATGTGCATTTAGGG
34971092 GAATTTTCTT
Statistics
Matches: 225, Mismatches: 42, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 225 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (40 bp):
AACAGGGGCACGTATGTGCATTTAGGGATACCGAAGTACA
Found at i:34972523 original size:20 final size:21
Alignment explanation
Indices: 34972493--34972535 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
34972483 GACATCTTTC
*
34972493 TTTTGTCTTTTATTTACTTAA
1 TTTTGTCTTTTATTTACTAAA
34972514 TTTT-TCTTTTATTTACTAAA
1 TTTTGTCTTTTATTTACTAAA
34972534 TT
1 TT
34972536 ACTACTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTGTCTTTTATTTACTAAA
Found at i:34991042 original size:206 final size:206
Alignment explanation
Indices: 34990668--34991081 Score: 641
Period size: 206 Copynumber: 2.0 Consensus size: 206
34990658 ATAAGCATAG
* * * *
34990668 TAAAATCCTATACAAGCACCATCAAACTCACAAGTTAGTAAGTTCATATATGATACATATGAGTT
1 TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACAAGATACATATGAGTT
* * * * *
34990733 CAATTATATCATATGTAGATTTCATATACACATCATTTAACTTATTAACCATTTCATAGGATCAT
66 CAATTATATAATAAGTACATTTCATATACACATCATGTAACTCATTAACCATTTCATAGGATCAT
* * *
34990798 AAACAATTATTCAATTGTATACATGCCTTGCCATTAACCTTTGCGTACCCGTTGAACCATCTAGG
131 AAACAATTATTAAATTGTATACATGCCTTGCAATTAACCTTTGCGTACCCGCTGAACCATCTAGG
34990863 ATTACATTGGA
196 ATTACATTGGA
*
34990874 TAAAATCTTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACAAGATACATATGAGTT
1 TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACAAGATACATATGAGTT
*
34990939 CAATTATATAATAAGTACATTTCATATGCACATCATGTAACTCATTAA-CATTTCATAGGATCAT
66 CAATTATATAATAAGTACATTTCATATACACATCATGTAACTCATTAACCATTTCATAGGATCAT
* * * * *
34991003 GAACCATTGTTAAATTTTATACATGCCTTGACAATTAACCTTTGCGTACCTGCTGAACCATCTAG
131 AAACAATTATTAAATTGTATACATGCCTTG-CAATTAACCTTTGCGTACCCGCTGAACCATCTAG
34991068 GATTACATTGGA
195 GATTACATTGGA
34991080 TA
1 TA
34991082 CTTGGGAATG
Statistics
Matches: 188, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
205 41 0.22
206 147 0.78
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (206 bp):
TAAAATCCTATACAAGAACCATCAAACTCACAAGTTAGTAAATTCATACAAGATACATATGAGTT
CAATTATATAATAAGTACATTTCATATACACATCATGTAACTCATTAACCATTTCATAGGATCAT
AAACAATTATTAAATTGTATACATGCCTTGCAATTAACCTTTGCGTACCCGCTGAACCATCTAGG
ATTACATTGGA
Found at i:34993499 original size:18 final size:18
Alignment explanation
Indices: 34993478--34993521 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
34993468 TGAAGACCTT
*
34993478 AATAGAAAATCACAAA-AA
1 AATA-AAAATAACAAAGAA
*
34993496 AATAAAAAGAACAAAGAA
1 AATAAAAATAACAAAGAA
34993514 AATAAAAA
1 AATAAAAA
34993522 ATTAATAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.09
Consensus pattern (18 bp):
AATAAAAATAACAAAGAA
Found at i:35003099 original size:17 final size:17
Alignment explanation
Indices: 35003077--35003110 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35003067 GATGCTAATG
35003077 ACTATTCCGCTCACTTT
1 ACTATTCCGCTCACTTT
35003094 ACTATTCCGCTCACTTT
1 ACTATTCCGCTCACTTT
35003111 GATTTTCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.06, T:0.41
Consensus pattern (17 bp):
ACTATTCCGCTCACTTT
Found at i:35014241 original size:43 final size:41
Alignment explanation
Indices: 35014149--35014347 Score: 204
Period size: 43 Copynumber: 4.7 Consensus size: 41
35014139 AGATTCCTCG
* * *
35014149 AGGGGTTGCTAAGTGATGATTCCCCGAAT-TATTGATTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAA
*
35014190 AGGTGGTTGCTAAGTGCTGATTCCACTGTATATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* * * *
35014234 AGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTGAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAA
* *
35014275 AGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGT-AA
* *
35014319 AGGGGTTGCTATGTGTTGATTCCCCGTAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT
35014348 CACTGAATTT
Statistics
Matches: 131, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
41 8 0.06
42 53 0.40
43 59 0.45
44 11 0.08
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTAA
Found at i:35014292 original size:85 final size:84
Alignment explanation
Indices: 35014149--35014385 Score: 330
Period size: 85 Copynumber: 2.8 Consensus size: 84
35014139 AGATTCCTCG
* * * * *
35014149 AGGGGTTGCTAAGTGATGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
**
35014214 ACTGTATATTTGATTGTGAA
65 ACCATATATTTGATTGTGAA
*
35014234 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
*
35014299 ACCATATCTTTGATTGTGAA
65 ACCATATATTTGATTGTGAA
* * * * *
35014319 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAATTTAAGGTGGTTGTTAAGTACTGAATCCA
1 AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
35014384 CC
66 CC
35014386 GAGTAACGGA
Statistics
Matches: 137, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 26 0.19
85 111 0.81
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (84 bp):
AGGGGTTGCTATGTGATGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCATATATTTGATTGTGAA
Found at i:35015759 original size:21 final size:22
Alignment explanation
Indices: 35015722--35015764 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
35015712 TAGACGAAGT
*
35015722 AAAATATTATTTAACTACATAA
1 AAAATATAATTTAACTACATAA
35015744 AAAATATAATTT-ACTACATAA
1 AAAATATAATTTAACTACATAA
35015765 TTACATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATATAATTTAACTACATAA
Found at i:35016498 original size:26 final size:26
Alignment explanation
Indices: 35016462--35016515 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
35016452 CTTTTTGGAT
35016462 TAAAGTTAGTCCCTTACCATCACCTA
1 TAAAGTTAGTCCCTTACCATCACCTA
*
35016488 TAAAGTTAGTCCCTTACCATCATCTA
1 TAAAGTTAGTCCCTTACCATCACCTA
35016514 TA
1 TA
35016516 TTTTAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (26 bp):
TAAAGTTAGTCCCTTACCATCACCTA
Found at i:35023029 original size:14 final size:14
Alignment explanation
Indices: 35022996--35023030 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35022986 AACAGATTCA
*
35022996 ACTAAACTAAAATG
1 ACTATACTAAAATG
35023010 ACTATACTAAAATG
1 ACTATACTAAAATG
*
35023024 ATTATAC
1 ACTATAC
35023031 ATACTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (14 bp):
ACTATACTAAAATG
Found at i:35023521 original size:21 final size:21
Alignment explanation
Indices: 35023481--35023522 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35023471 CCGCAGCAAT
*
35023481 TTGAGTGGGTGCTTGAGCAGC
1 TTGAGTGGGTCCTTGAGCAGC
35023502 TTGAGTGGGCTCCTTG-GCAGC
1 TTGAGTGGG-TCCTTGAGCAGC
35023523 ATTAGCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.12, C:0.19, G:0.40, T:0.29
Consensus pattern (21 bp):
TTGAGTGGGTCCTTGAGCAGC
Found at i:35030967 original size:15 final size:12
Alignment explanation
Indices: 35030932--35030959 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35030922 AAGTATGCAG
35030932 TTACGATAATAA
1 TTACGATAATAA
35030944 TTACGATAATAA
1 TTACGATAATAA
35030956 TTAC
1 TTAC
35030960 ATGAATAAAA
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:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (12 bp):
TTACGATAATAA
Found at i:35031567 original size:26 final size:26
Alignment explanation
Indices: 35031526--35031587 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
35031516 TTGAAATTCA
* *
35031526 TGTTCAAAATAACACCCAACATCGTTT
1 TGTTC-AATTAACACCCAACATCGGTT
*
35031553 TGTTCAATTAACACCCAACATTGGTT
1 TGTTCAATTAACACCCAACATCGGTT
35031579 TGTTCAATT
1 TGTTCAATT
35031588 CAATTCAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (26 bp):
TGTTCAATTAACACCCAACATCGGTT
Found at i:35032634 original size:25 final size:25
Alignment explanation
Indices: 35032600--35032650 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35032590 TTTCTAATTG
35032600 TCCAATAAGATGGAAGATGAAACCT
1 TCCAATAAGATGGAAGATGAAACCT
35032625 TCCAATAAGATGGAAGATGAAACCT
1 TCCAATAAGATGGAAGATGAAACCT
35032650 T
1 T
35032651 AGCCATTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.22
Consensus pattern (25 bp):
TCCAATAAGATGGAAGATGAAACCT
Found at i:35036636 original size:187 final size:187
Alignment explanation
Indices: 35036321--35036664 Score: 580
Period size: 187 Copynumber: 1.8 Consensus size: 187
35036311 ATCAAACATG
*
35036321 ATCAAAATGAAAGAGTTGAGAGAAGAATGTGAATGAAAAAAAATGAAATTTGAGGGATAATTATA
1 ATCAAAATGAAAGAGTTGAGAGAAGAATGTGAATGAAAAAAAATGAAATTAGAGGGATAATTATA
* * *
35036386 GGGTAAAAAAAACTTACCGTTGAAATTTTAATTTTTTTTACCGTTGGCATAGCAACGTTCAAAAA
66 GGGTAAAAAAAACTTACCGTTGAAATTTTAATTTCTTTTACCGTTAGCACAGCAACGTTCAAAAA
*
35036451 CCCGTTACTTTTTTACCATGGAAGGAATGCTTGTCTGGTTGGACACGCTTCAACACA
131 CCCGTTACTTTTTAACCATGGAAGGAATGCTTGTCTGGTTGGACACGCTTCAACACA
* * *
35036508 ATCAAAATGAGAGAGTTGAGAGAAGGATGTGAATGAAAAAAAATGAAATTAGAGGGATATTTATA
1 ATCAAAATGAAAGAGTTGAGAGAAGAATGTGAATGAAAAAAAATGAAATTAGAGGGATAATTATA
* * *
35036573 GGGTAAAAAAAGCTTACCTTTGAAATTTTAATTTCTTTTACCGTTAGCGCAGCAACGTTCAAAAA
66 GGGTAAAAAAAACTTACCGTTGAAATTTTAATTTCTTTTACCGTTAGCACAGCAACGTTCAAAAA
*
35036638 GCCGTTACTTTTTAACCATGGAAGGAA
131 CCCGTTACTTTTTAACCATGGAAGGAA
35036665 AGCGCATCTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
187 145 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (187 bp):
ATCAAAATGAAAGAGTTGAGAGAAGAATGTGAATGAAAAAAAATGAAATTAGAGGGATAATTATA
GGGTAAAAAAAACTTACCGTTGAAATTTTAATTTCTTTTACCGTTAGCACAGCAACGTTCAAAAA
CCCGTTACTTTTTAACCATGGAAGGAATGCTTGTCTGGTTGGACACGCTTCAACACA
Found at i:35038631 original size:22 final size:21
Alignment explanation
Indices: 35038603--35038668 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 21
35038593 AGTGCTTAGA
35038603 AGGCTTAGTGCCGGTGTTATTC
1 AGGCTTAGTGCC-GTGTTATTC
35038625 AGGCTTAGT---GT-TTA-TC
1 AGGCTTAGTGCCGTGTTATTC
35038641 AGGCTTAGTGCCAGTGTTATTC
1 AGGCTTAGTGCC-GTGTTATTC
*
35038663 GGGCTT
1 AGGCTT
35038669 TTTGCTAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
16 11 0.30
17 3 0.08
18 2 0.05
20 2 0.05
21 3 0.08
22 16 0.43
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.38
Consensus pattern (21 bp):
AGGCTTAGTGCCGTGTTATTC
Found at i:35038633 original size:38 final size:38
Alignment explanation
Indices: 35038576--35038668 Score: 132
Period size: 38 Copynumber: 2.4 Consensus size: 38
35038566 AATGTTGAAT
*
35038576 CAGTGTTATTCAGGTTTAGTGCTTAGAAGGCTTAGTGC
1 CAGTGTTATTCAGGCTTAGTGCTTAGAAGGCTTAGTGC
* * **
35038614 CGGTGTTATTCAGGCTTAGTGTTTATCAGGCTTAGTGC
1 CAGTGTTATTCAGGCTTAGTGCTTAGAAGGCTTAGTGC
*
35038652 CAGTGTTATTCGGGCTT
1 CAGTGTTATTCAGGCTT
35038669 TTTGCTAGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.39
Consensus pattern (38 bp):
CAGTGTTATTCAGGCTTAGTGCTTAGAAGGCTTAGTGC
Found at i:35042242 original size:16 final size:16
Alignment explanation
Indices: 35042217--35042269 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
35042207 TTGGTTCGCT
*
35042217 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
35042233 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
35042249 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
35042265 GTAAT
1 GTAAT
35042270 AGGTAATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:35042338 original size:44 final size:46
Alignment explanation
Indices: 35042249--35042339 Score: 150
Period size: 44 Copynumber: 2.0 Consensus size: 46
35042239 GAATAGAGGC
*
35042249 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
*
35042295 GTAATGGAATATAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
35042339 G
1 G
35042340 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.47
45 3 0.07
46 20 0.47
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.40
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:35042340 original size:39 final size:44
Alignment explanation
Indices: 35042249--35042355 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 44
35042239 GAATAGAGGC
*
35042249 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
*
35042295 GTAATGGAATATAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
35042335 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
35042356 ACATAAGGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 17 0.30
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 20 0.36
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:35042507 original size:16 final size:15
Alignment explanation
Indices: 35042497--35042652 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
35042487 CATAATTGTT
35042497 ATAAAATATAATTTA
1 ATAAAATATAATTTA
35042512 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
35042529 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
35042541 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
35042553 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
35042567 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
35042586 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
35042603 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
35042614 ATTAAATATAATTTA
1 ATAAAATATAATTTA
35042629 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
35042646 ATAAAAT
1 ATAAAAT
35042653 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 13 0.12
16 12 0.11
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:35042542 original size:17 final size:17
Alignment explanation
Indices: 35042502--35042535 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35042492 TTGTTATAAA
35042502 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35042519 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35042536 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35042659 original size:17 final size:17
Alignment explanation
Indices: 35042619--35042652 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35042609 TTATTATTAA
35042619 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35042636 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35042653 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35042663 original size:43 final size:43
Alignment explanation
Indices: 35042593--35042782 Score: 151
Period size: 43 Copynumber: 4.7 Consensus size: 43
35042583 TGATACTAAA
* *
35042593 ATATAATTTAA-AATAATTATTATTAAATATAATTTAATAAAAT
1 ATATAATTTAATAA-AATTGTTAATAAATATAATTTAATAAAAT
*
35042636 ATATAATTTAATAAAATTGTTAATAAATAT--TCTT-ATATGAAT
1 ATATAATTTAATAAAATTGTTAATAAATATAAT-TTAATA-AAAT
* ** *
35042678 -T-T-A-CTAATAAAA-TCATAAT--ATATAA--TACT-AAA-
1 ATATAATTTAATAAAATTGTTAATAAATATAATTTAATAAAAT
* *
35042710 ATATAATTTAACATAATTGTT-ATAAAATATAATTTAATAAAAT
1 ATATAATTTAATAAAATTGTTAAT-AAATATAATTTAATAAAAT
35042753 ATATAATTTAATAAAATTGTTAATAAATAT
1 ATATAATTTAATAAAATTGTTAATAAATAT
35042783 TCTTATATGA
Statistics
Matches: 112, Mismatches: 16, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 6 0.05
36 8 0.07
37 7 0.06
38 8 0.07
39 7 0.06
40 1 0.01
41 8 0.07
42 8 0.07
43 50 0.45
44 4 0.04
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (43 bp):
ATATAATTTAATAAAATTGTTAATAAATATAATTTAATAAAAT
Found at i:35042688 original size:117 final size:117
Alignment explanation
Indices: 35042482--35042971 Score: 786
Period size: 117 Copynumber: 4.3 Consensus size: 117
35042472 TTAATCATAT
* * * *
35042482 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
35042547 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
35042599 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
35042664 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
35042716 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
35042781 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
35042833 TTTAAAATAATTATTATTAAATAAAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
35042891 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
35042943 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
35042972 TAATCTACTT
Statistics
Matches: 356, Mismatches: 14, Indels: 14
0.93 0.04 0.04
Matches are distributed among these distances:
108 21 0.06
109 25 0.07
110 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
117 256 0.72
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:35042751 original size:15 final size:15
Alignment explanation
Indices: 35042731--35042769 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
35042721 CATAATTGTT
35042731 ATAAAATATAATTTA
1 ATAAAATATAATTTA
35042746 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
35042763 ATAAAAT
1 ATAAAAT
35042770 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:35042776 original size:17 final size:17
Alignment explanation
Indices: 35042736--35042769 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35042726 TTGTTATAAA
35042736 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35042753 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35042770 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35042841 original size:20 final size:21
Alignment explanation
Indices: 35042802--35042841 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
35042792 AATTTACTAA
*
35042802 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
35042823 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
35042842 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:35042967 original size:32 final size:32
Alignment explanation
Indices: 35042931--35042994 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
35042921 TATATAATAC
*
35042931 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
35042963 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
35042995 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:35045216 original size:28 final size:27
Alignment explanation
Indices: 35045185--35045252 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
35045175 AATTACTAAT
* * *
35045185 AAAATAATAAATAATTTCCTATGTTTA
1 AAAAAAATAAAAAAATTCCTATGTTTA
*
35045212 AAAAAAATACAAAAAATTCCTATTTTTAA
1 AAAAAAATA-AAAAAATTCCTATGTTT-A
35045241 AATAAAAATAAA
1 AA-AAAAATAAA
35045253 CATGCTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.24
28 14 0.41
29 5 0.15
30 7 0.21
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.32
Consensus pattern (27 bp):
AAAAAAATAAAAAAATTCCTATGTTTA
Found at i:35049236 original size:21 final size:22
Alignment explanation
Indices: 35049189--35049238 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
35049179 AAGCAATTTG
*
35049189 AAATTTAGTATTTGTATTTTAC
1 AAATTTAGTATTTCTATTTTAC
* * *
35049211 GAATTTAGTTTTTCT-TTTTTC
1 AAATTTAGTATTTCTATTTTAC
35049232 AAATTTA
1 AAATTTA
35049239 AAACATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (22 bp):
AAATTTAGTATTTCTATTTTAC
Found at i:35050740 original size:26 final size:26
Alignment explanation
Indices: 35050708--35050761 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
35050698 AACTGAGAGC
*
35050708 AAGCTTTAACCACTAAAGACAACAAG
1 AAGCTTTAACCACCAAAGACAACAAG
35050734 AAGCTTTAACCACCAAAGACAACAAG
1 AAGCTTTAACCACCAAAGACAACAAG
35050760 AA
1 AA
35050762 TTCATCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.52, C:0.24, G:0.11, T:0.13
Consensus pattern (26 bp):
AAGCTTTAACCACCAAAGACAACAAG
Found at i:35051814 original size:48 final size:47
Alignment explanation
Indices: 35051712--35051846 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 47
35051702 ACACAGGTGA
* *
35051712 AAGTAATAGTGTCTGGTTACCATTTGGGTTAAACCTACACAAGTAAT
1 AAGTAATAGTGTCTGGTTACCATTAGGGTTAAACCTACACAAATAAT
* *
35051759 AAATAATAGTGTCTGGTTACCAGTCAGGGTTAAACCTACACAAATAAT
1 AAGTAATAGTGTCTGGTTACCA-TTAGGGTTAAACCTACACAAATAAT
* * * * *
35051807 GAGTAATAGTTTTTGGTTACCCTTTAGGGTTGAACCTACA
1 AAGTAATAGTGTCTGGTTA-CCATTAGGGTTAAACCTACA
35051847 AGATAAATAG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
47 21 0.28
48 52 0.69
49 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (47 bp):
AAGTAATAGTGTCTGGTTACCATTAGGGTTAAACCTACACAAATAAT
Found at i:35056383 original size:138 final size:138
Alignment explanation
Indices: 35056135--35056395 Score: 359
Period size: 138 Copynumber: 1.9 Consensus size: 138
35056125 AGCTATAAAA
* *
35056135 TGGGTCTGCTCACACAAGCTGTCAGTCAGAATGTAAGCTACACGATGCTACTCACACAAGTTGTC
1 TGGGTCTGCTCACACAAGCTGTCAGTCAAAACGTAAGCTACACGATGCTACTCACACAAGTTGTC
* * *
35056200 GAGTATCCACAACTAATGCCAAACCTCAGCCATCGGTAGGACATTCAAGACTAGCACCTGAAACA
66 AAGTAACCACAACTAATGCCAAACCTCAGCCACCGGTAGGACATTCAAGACTAGCACCTGAAACA
35056265 TGGTAACC
131 TGGTAACC
* * *
35056273 TGGGTCTGCTCACACAAGCTGT-AGGTCAAAACGT-AGCTACACGGTGCTGCTCAGACAAGTTGT
1 TGGGTCTGCTCACACAAGCTGTCA-GTCAAAACGTAAGCTACACGATGCTACTCACACAAGTTGT
* * *
35056336 CAAGTAACCGCAAC-ATATGCCTGAAA-CTTAGCCACCGGTAGGACATTCAGGACTAGCACC
65 CAAGTAACCACAACTA-ATGCC--AAACCTCAGCCACCGGTAGGACATTCAAGACTAGCACC
35056396 CAAAATACGG
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
136 1 0.01
137 43 0.40
138 61 0.56
139 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (138 bp):
TGGGTCTGCTCACACAAGCTGTCAGTCAAAACGTAAGCTACACGATGCTACTCACACAAGTTGTC
AAGTAACCACAACTAATGCCAAACCTCAGCCACCGGTAGGACATTCAAGACTAGCACCTGAAACA
TGGTAACC
Found at i:35063330 original size:19 final size:20
Alignment explanation
Indices: 35063306--35063357 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
35063296 AATTTTTCCC
* *
35063306 AAATAATAATAAAATAAT-A
1 AAATAAAAATAAAACAATAA
*
35063325 AAATAAAAATAAACCAATAA
1 AAATAAAAATAAAACAATAA
35063345 AAATAAAAATAAA
1 AAATAAAAATAAA
35063358 GTTAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAAAACAATAA
Found at i:35063333 original size:6 final size:6
Alignment explanation
Indices: 35063306--35063357 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
35063296 AATTTTTCCC
*
35063306 AAATAA TAAT-A AAATAATA AAATAA AAATAA ACCAATAA AAATAA AAATAA
1 AAATAA AAATAA AAAT-A-A AAATAA AAATAA A--AATAA AAATAA AAATAA
35063357 A
1 A
35063358 GTTAAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 4 0.10
6 23 0.59
7 1 0.03
8 11 0.28
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:35067209 original size:11 final size:11
Alignment explanation
Indices: 35067195--35067224 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35067185 AAATAGAAAA
35067195 ATAATATTAAT
1 ATAATATTAAT
*
35067206 ATAATTTTAAT
1 ATAATATTAAT
35067217 ATAATATT
1 ATAATATT
35067225 CTAATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATAATATTAAT
Found at i:35067242 original size:22 final size:21
Alignment explanation
Indices: 35067193--35067242 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
35067183 AGAAATAGAA
*
35067193 AAATAATATTAATATAATTTT
1 AAATAATATTAATATAATTAT
35067214 AATATAATATTCTAATAT-ATTAT
1 AA-ATAATA-T-TAATATAATTAT
35067237 AAATAA
1 AAATAA
35067243 AATAGATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 10 0.40
23 7 0.28
24 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATATTAATATAATTAT
Found at i:35067264 original size:21 final size:21
Alignment explanation
Indices: 35067238--35067278 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35067228 ATATATTATA
35067238 AATAAAATAGATAAATAAATG
1 AATAAAATAGATAAATAAATG
*
35067259 AATAAAATATATAAATAAAT
1 AATAAAATAGATAAATAAAT
35067279 TCTAATACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (21 bp):
AATAAAATAGATAAATAAATG
Found at i:35067317 original size:14 final size:14
Alignment explanation
Indices: 35067198--35067395 Score: 69
Period size: 14 Copynumber: 14.4 Consensus size: 14
35067188 TAGAAAAATA
35067198 ATAT-TAATATAAT
1 ATATATAATATAAT
35067211 -T-T-TAATATAAT
1 ATATATAATATAAT
* *
35067222 AT-TCTAATATATT
1 ATATATAATATAAT
* *
35067235 ATAAATAAAATAGAT
1 ATATATAATATA-AT
* *
35067250 AAATA-AATGAATAAA
1 ATATATAAT--ATAAT
35067265 ATATATAA-ATAA-
1 ATATATAATATAAT
*
35067277 AT-TCTAATACTAAT
1 ATATATAATA-TAAT
*
35067291 ATATAT--TAGAAT
1 ATATATAATATAAT
35067303 ATATATAATATAAT
1 ATATATAATATAAT
* **
35067317 AGA-ATTAATATTCT
1 ATATA-TAATATAAT
* *
35067331 AACATCTAATATATATT
1 -ATATATAATATA-A-T
* *
35067348 ATATATTATATATT
1 ATATATAATATAAT
* *
35067362 ATATATTATATATT
1 ATATATAATATAAT
* *
35067376 ATATATTATATATT
1 ATATATAATATAAT
35067390 ATATAT
1 ATATAT
35067396 TATAAGCTTA
Statistics
Matches: 142, Mismatches: 25, Indels: 35
0.70 0.12 0.17
Matches are distributed among these distances:
11 14 0.10
12 15 0.11
13 20 0.14
14 59 0.42
15 19 0.13
16 14 0.10
17 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (14 bp):
ATATATAATATAAT
Found at i:35067327 original size:19 final size:20
Alignment explanation
Indices: 35067281--35067327 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 20
35067271 AAATAAATTC
35067281 TAATACTAATATATATTAGAA
1 TAATA-TAATATATATTAGAA
35067302 TATATATAATATA-A-TAGAA
1 TA-ATATAATATATATTAGAA
35067321 TTAATAT
1 -TAATAT
35067328 TCTAACATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 9 0.38
20 3 0.12
21 9 0.38
22 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
TAATATAATATATATTAGAA
Found at i:35067350 original size:7 final size:7
Alignment explanation
Indices: 35067340--35067399 Score: 120
Period size: 7 Copynumber: 8.6 Consensus size: 7
35067330 TAACATCTAA
35067340 TATATAT
1 TATATAT
35067347 TATATAT
1 TATATAT
35067354 TATATAT
1 TATATAT
35067361 TATATAT
1 TATATAT
35067368 TATATAT
1 TATATAT
35067375 TATATAT
1 TATATAT
35067382 TATATAT
1 TATATAT
35067389 TATATAT
1 TATATAT
35067396 TATA
1 TATA
35067400 AGCTTAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:35070321 original size:20 final size:20
Alignment explanation
Indices: 35070285--35070322 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35070275 GGCTTGGGCC
*
35070285 GTAATGGGCCCTATTGGGAA
1 GTAATGGGCCATATTGGGAA
*
35070305 GTAATGGGCCATGTTGGG
1 GTAATGGGCCATATTGGG
35070323 CTGAGATGGG
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:0.21, C:0.13, G:0.39, T:0.26
Consensus pattern (20 bp):
GTAATGGGCCATATTGGGAA
Found at i:35070350 original size:29 final size:28
Alignment explanation
Indices: 35070309--35070377 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
35070299 TGGGAAGTAA
*
35070309 TGGG-CCATGTTGGGCTGAG-ATGGGCCAT
1 TGGGCCCAT-TTGGGCCGAGAATGGG-CAT
35070337 GTGGGCCCATTTGGGCCGAGTAATGGGCAT
1 -TGGGCCCATTTGGGCCGAG-AATGGGCAT
35070367 TGGGCCCATTT
1 TGGGCCCATTT
35070378 ACACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 24 0.67
30 7 0.19
31 5 0.14
ACGTcount: A:0.14, C:0.20, G:0.39, T:0.26
Consensus pattern (28 bp):
TGGGCCCATTTGGGCCGAGAATGGGCAT
Found at i:35070725 original size:26 final size:26
Alignment explanation
Indices: 35070696--35070750 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
35070686 TTTGTCACAT
*
35070696 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
** *
35070722 ATACTATTTTTGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
35070748 ATA
1 ATA
35070751 TCGGTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:35070889 original size:33 final size:33
Alignment explanation
Indices: 35070847--35070918 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
35070837 TGCATTTTTG
*
35070847 CACTGTACTATTACT-ATATTGGGCTAAGGCCCA
1 CACTGTACTATTACTGA-ATAGGGCTAAGGCCCA
*
35070880 CACTGTACTATTACTGAATAGGGCTCAGGCCCA
1 CACTGTACTATTACTGAATAGGGCTAAGGCCCA
*
35070913 GACTGT
1 CACTGT
35070919 TACAGCATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (33 bp):
CACTGTACTATTACTGAATAGGGCTAAGGCCCA
Found at i:35072179 original size:21 final size:21
Alignment explanation
Indices: 35072153--35072208 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
35072143 TCATTTTCTA
*
35072153 AAACCACTTGACCTCAAGGTC
1 AAACCACTTGAACTCAAGGTC
*
35072174 AAACCACTTGAACTCAGGGTC
1 AAACCACTTGAACTCAAGGTC
35072195 AAACCACTTGAACT
1 AAACCACTTGAACT
35072209 TAATAACTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (21 bp):
AAACCACTTGAACTCAAGGTC
Found at i:35073933 original size:3 final size:3
Alignment explanation
Indices: 35073927--35074002 Score: 136
Period size: 3 Copynumber: 25.3 Consensus size: 3
35073917 TTTCTTTTTT
35073927 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
35073975 TTC TTC TTC -TC ATTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC T
35074003 ATGGTTTTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.94
4 2 0.03
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:35079256 original size:17 final size:17
Alignment explanation
Indices: 35079212--35079248 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
35079202 TATATTTTCA
*
35079212 AAATATAATTAAAAATAT
1 AAATATAAAT-AAAATAT
35079230 AAATATAAATAAAATAT
1 AAATATAAATAAAATAT
35079247 AA
1 AA
35079249 TGATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATATAAATAAAATAT
Found at i:35079263 original size:29 final size:30
Alignment explanation
Indices: 35079209--35079290 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
35079199 ACTTATATTT
* * *
35079209 TCAAAATATAATTAAAAATATAAATATAAA
1 TCAAAATATAATGATAAATTTAAATATAAA
* **
35079239 T-AAAATATAATGATAAATTTCAATATTCA
1 TCAAAATATAATGATAAATTTAAATATAAA
*
35079268 TCAATAATATTATGATAAATTTA
1 TCAA-AATATAATGATAAATTTA
35079291 CACTTTAATC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 23 0.55
30 3 0.07
31 16 0.38
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (30 bp):
TCAAAATATAATGATAAATTTAAATATAAA
Found at i:35081574 original size:3 final size:3
Alignment explanation
Indices: 35081553--35081602 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
35081543 TTAAAAATAA
*
35081553 ATT A-T ATT AATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35081598 ATT AT
1 ATT AT
35081603 GAAATAAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:35082104 original size:22 final size:22
Alignment explanation
Indices: 35082058--35082105 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
35082048 AATAAAAAGA
*
35082058 AAAAGAAACAAAAGAAGAACAG
1 AAAAGAAACAAAACAAGAACAG
35082080 AAAAGAAACAGAGAACAA-AAC-G
1 AAAAGAAACA-A-AACAAGAACAG
35082102 AAAA
1 AAAA
35082106 TAGGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.65
23 4 0.17
24 4 0.17
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAACAAGAACAG
Found at i:35082492 original size:22 final size:24
Alignment explanation
Indices: 35082464--35082507 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
35082454 TATGGCAAGA
35082464 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
35082486 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
35082508 AGCTTAGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:35083096 original size:27 final size:28
Alignment explanation
Indices: 35083038--35083096 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
35083028 ATCTAATGTC
*
35083038 TTATTAGTGTGTTTAGGAGGATATGATA
1 TTATTAGTGTGTTAAGGAGGATATGATA
* *
35083066 -TATTGGTGTGTTAAGGAGGAT-TTATA
1 TTATTAGTGTGTTAAGGAGGATATGATA
35083092 TTATT
1 TTATT
35083097 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (28 bp):
TTATTAGTGTGTTAAGGAGGATATGATA
Found at i:35084276 original size:24 final size:24
Alignment explanation
Indices: 35084230--35084276 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35084220 TCAATTTCTA
* *
35084230 AAAAGTTATTATTTCATTATATGT
1 AAAAGTTATTAATTAATTATATGT
35084254 AAAAGTTAATTAATTAATT-TATG
1 AAAAGTT-ATTAATTAATTATATG
35084277 AAGAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (24 bp):
AAAAGTTATTAATTAATTATATGT
Found at i:35085741 original size:46 final size:45
Alignment explanation
Indices: 35085679--35085766 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 45
35085669 TTTTTAATAT
* *
35085679 ATTACAATCATATATTAGCAT-TTAATTTCATTATGTATTATTTTAA
1 ATTACAATCATATATTAACATATAAATTT--TTATGTATTATTTTAA
35085725 ATTACAAT-ATATTATTAACATCATAAATTTTTATGTATTATT
1 ATTACAATCATA-TATTAACAT-ATAAATTTTTATGTATTATT
35085767 AGATTAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 3 0.08
46 28 0.76
48 6 0.16
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (45 bp):
ATTACAATCATATATTAACATATAAATTTTTATGTATTATTTTAA
Found at i:35086983 original size:19 final size:19
Alignment explanation
Indices: 35086942--35086984 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
35086932 TTTATGTACA
*
35086942 ATTTTTTTCAAGTTGAAGT
1 ATTTTTTTCAAGTTGAAAT
*
35086961 -TTTTTTTCAAGTTTAAAT
1 ATTTTTTTCAAGTTGAAAT
35086979 ATTTTT
1 ATTTTT
35086985 ACTTTTTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (19 bp):
ATTTTTTTCAAGTTGAAAT
Found at i:35090486 original size:6 final size:6
Alignment explanation
Indices: 35090475--35090501 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
35090465 TTATTCTCTC
35090475 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
35090502 AGCTAAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:35093476 original size:13 final size:13
Alignment explanation
Indices: 35093458--35093484 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35093448 AGTAAGATAT
35093458 TACTTAATAAGGG
1 TACTTAATAAGGG
35093471 TACTTAATAAGGG
1 TACTTAATAAGGG
35093484 T
1 T
35093485 GTTTTGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (13 bp):
TACTTAATAAGGG
Found at i:35097406 original size:50 final size:50
Alignment explanation
Indices: 35097279--35097463 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 50
35097269 GATAATAACA
* * ** * **
35097279 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGTTTTTTTGTA-C--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCGG
* * * * *
35097326 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCGG
* ** * *
35097376 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCGG
35097426 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAC
35097464 CTCTTTACCC
Statistics
Matches: 113, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
47 37 0.33
48 1 0.01
50 75 0.66
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:35103521 original size:25 final size:25
Alignment explanation
Indices: 35103487--35103558 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
35103477 TCTTGTACAT
* *
35103487 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGTTGTGAATCA
*
35103512 GTATGCTCACACGAGTTGTGATTCA
1 GTATGCTCACACGAGTTGTGAATCA
*
35103537 GTATGCTCACATGAGTTGTGAA
1 GTATGCTCACACGAGTTGTGAA
35103559 AATAGGCCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGTTGTGAATCA
Found at i:35110091 original size:9 final size:9
Alignment explanation
Indices: 35110074--35110110 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
35110064 TGAGTTTTCG
35110074 AATTCGAAT
1 AATTCGAAT
*
35110083 AACTCGAAT
1 AATTCGAAT
*
35110092 AATTTGAAT
1 AATTCGAAT
35110101 AATTCGAAT
1 AATTCGAAT
35110110 A
1 A
35110111 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35110195 original size:29 final size:31
Alignment explanation
Indices: 35110159--35110219 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
35110149 AAACCTTTTT
* *
35110159 ACTTTTCCCTCAAAACTTTTACACCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACACCTCTCCC
*
35110189 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACACCTCTCCC
35110220 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACACCTCTCCC
Found at i:35110358 original size:30 final size:31
Alignment explanation
Indices: 35110324--35110383 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
35110314 AAATCTTTTA
*
35110324 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
* *
35110354 TTTTCCCCTAAAAATTTTATTCCCTTCCCA
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCA
35110384 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
Found at i:35111753 original size:28 final size:28
Alignment explanation
Indices: 35111721--35111776 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
35111711 TAATATTTAA
35111721 TAGTCCATTATACACATTTCAGAAATTG
1 TAGTCCATTATACACATTTCAGAAATTG
35111749 TAGTCCATTATACACATTTCAGAAATTG
1 TAGTCCATTATACACATTTCAGAAATTG
35111777 AACTTATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (28 bp):
TAGTCCATTATACACATTTCAGAAATTG
Found at i:35112042 original size:22 final size:22
Alignment explanation
Indices: 35112017--35112058 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35112007 AACTAATTAG
* *
35112017 ATTATTAGAAAATCTTAATATT
1 ATTATGAGAAAATCTAAATATT
*
35112039 ATTATGATAAAATCTAAATA
1 ATTATGAGAAAATCTAAATA
35112059 ATAGAGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTATGAGAAAATCTAAATATT
Found at i:35113317 original size:5 final size:5
Alignment explanation
Indices: 35113309--35113334 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
35113299 TATTATATTA
35113309 TGTTT TGTTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGTTT T
35113335 TAAGGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TGTTT
Found at i:35118798 original size:14 final size:14
Alignment explanation
Indices: 35118779--35118821 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
35118769 CTAAACCCGG
35118779 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
*
35118793 CCCTAACCCTTAAA
1 CCCTAAACCTTAAA
* *
35118807 CCGTAAACCATAAA
1 CCCTAAACCTTAAA
35118821 C
1 C
35118822 AATAATCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:35119720 original size:39 final size:38
Alignment explanation
Indices: 35119671--35119805 Score: 108
Period size: 40 Copynumber: 3.4 Consensus size: 38
35119661 TGTGCTTGGG
* **
35119671 TTTTTTGCGGCGCTTTTTGGAAAACGCCGCTAATGCTTA
1 TTTTTAGCGGCG-TTTTTAAAAAACGCCGCTAATGCTTA
* * * *
35119710 TTTTTAGCGGCGTTTTCCAAAAAACACCGCTAATACTAGA
1 TTTTTAGCGGCGTTTT-TAAAAAACGCCGCTAATGCT-TA
* ** *
35119750 TCTTTAGCGGCGTTTTTCCTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTT-AAAAAACGCCGCTAATGCTT-A
* *
35119790 TTTTTGGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
35119806 GTATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
38 4 0.05
39 26 0.35
40 44 0.59
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTTAAAAAACGCCGCTAATGCTTA
Found at i:35119802 original size:40 final size:41
Alignment explanation
Indices: 35119691--35119805 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 41
35119681 CGCTTTTTGG
35119691 AAAACGCCGCTAATGCTT-ATTTTTAGCGGCG-TTTTCCAA
1 AAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCAA
* * * * *
35119730 AAAACACCGCTAATACTAGATCTTTAGCGGCGTTTTTCC-T
1 AAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCAA
* * *
35119770 AAAGCGCCGCTAATGCTTGATTTTTGGTGGCGTTTT
1 AAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTT
35119806 GTATCCAAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
39 15 0.24
40 41 0.66
41 6 0.10
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (41 bp):
AAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCAA
Found at i:35121502 original size:18 final size:19
Alignment explanation
Indices: 35121479--35121515 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
35121469 TTTTTTCTCA
35121479 CTATTATTATC-ATTTTAT
1 CTATTATTATCTATTTTAT
35121497 CTATTATTATCTATTTTAT
1 CTATTATTATCTATTTTAT
35121516 TACAAATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (19 bp):
CTATTATTATCTATTTTAT
Found at i:35133710 original size:45 final size:44
Alignment explanation
Indices: 35133608--35133966 Score: 303
Period size: 44 Copynumber: 8.0 Consensus size: 44
35133598 CAGATCCCCT
* * * *
35133608 TGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGTAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* * * * *
35133652 TGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCC
1 TGAAGTTGTAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCC
* * *
35133697 TGAAGTTGTAGTGGAACAGATT-AAGGCTACAAATTACAATCGAATCTCCC
1 TGAAGTTGTAGTGGAGCAGATTGAA-GATACAAA-T-C--T--TATCTCCC
* * * *
35133747 TGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCTC
1 TGAAGTTGTAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* * * * *
35133791 TAAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCCTATCTCTC
1 TGAAGTTGTAGTGGAGCAGATTGAAGAT-ACAAATCTTATCTCCC
* * * * * *
35133836 TAAAGTTGTAGTAGAGCATATT-AAAACTATAAACCTTATCTCCC
1 TGAAGTTGTAGTGGAGCAGATTGAAGA-TACAAATCTTATCTCCC
* * *
35133880 TGAAGATGTAGTGGAGCAGGA-TGAAGTTACTAATCTTATCTCCC
1 TGAAGTTGTAGTGGAGCA-GATTGAAGATACAAATCTTATCTCCC
* *
35133924 TGAAGATGTAGTGGAG-AGATTGAAGATACTAATCTTATCTCCC
1 TGAAGTTGTAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
35133967 CAAAGTTGCA
Statistics
Matches: 256, Mismatches: 45, Indels: 29
0.78 0.14 0.09
Matches are distributed among these distances:
42 2 0.01
43 23 0.09
44 122 0.48
45 71 0.28
46 2 0.01
48 2 0.01
49 1 0.00
50 31 0.12
51 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
TGAAGTTGTAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
Found at i:35133808 original size:139 final size:140
Alignment explanation
Indices: 35133539--35133847 Score: 462
Period size: 139 Copynumber: 2.2 Consensus size: 140
35133529 ATAGTCATCG
*
35133539 TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTATAAATTACAAGTCAGATC
1 TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAAGTCAGATC
* * *
35133604 CCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
66 CCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
35133669 AGACTAAAGA
131 AGACTAAAGA
*
35133679 TAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAA-TC-GAAT
1 TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAAGTCAG-AT
* *
35133742 CTCCC-TGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCTCTAAAGTTGCAGTGGA
65 C-CCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGA
*
35133806 GCAGACTGAAGA
129 GCAGACTAAAGA
* * * * *
35133818 TAACAAATCCTATCTCTCTAAAGTTGTAGT
1 TAGCAAATCTTATTTCCCTGAAGTTGTAGT
35133848 AGAGCATATT
Statistics
Matches: 153, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
138 1 0.01
139 94 0.61
140 58 0.38
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (140 bp):
TAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAGGCTACAAATTACAAGTCAGATC
CCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
AGACTAAAGA
Found at i:35133824 original size:95 final size:95
Alignment explanation
Indices: 35133645--35133825 Score: 224
Period size: 95 Copynumber: 1.9 Consensus size: 95
35133635 TACAAGTCTT
* * *
35133645 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATCTCCCTAAAGTTGCAGTG
* *
35133710 GAACAGATTAAGGCTACAAATTACAATCGA
66 GAACAGATGAAGGATACAAATTACAATCGA
* * * *
35133740 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATA-C-AAGTCTTATCTCTCTAAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAA-TCTTATCTCCCTAAAGTTGCAGT
*
35133803 GGAGCAGACTGAA-GATAACAAAT
65 GGAACAGA-TGAAGGAT-ACAAAT
35133826 CCTATCTCTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
93 2 0.03
94 29 0.40
95 42 0.58
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (95 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATCTCCCTAAAGTTGCAGTG
GAACAGATGAAGGATACAAATTACAATCGA
Found at i:35138148 original size:23 final size:23
Alignment explanation
Indices: 35138121--35138167 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
35138111 GAAAAATATT
35138121 AAATATATATA-TTTTTTATTTTA
1 AAATATA-ATAGTTTTTTATTTTA
35138144 AAATATAATAGTTTTTTATTTTA
1 AAATATAATAGTTTTTTATTTTA
35138167 A
1 A
35138168 GTTTATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AAATATAATAGTTTTTTATTTTA
Found at i:35138374 original size:16 final size:16
Alignment explanation
Indices: 35138353--35138394 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
35138343 AATAATTTGA
*
35138353 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
35138369 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
35138385 TAGTTTTAAT
1 TAATTTTAAT
35138395 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:35138393 original size:22 final size:23
Alignment explanation
Indices: 35138368--35138423 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
35138358 TTACTAACAA
* *
35138368 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAGTT
*
35138390 TTAATTTTATTAAAAAAATAGTT
1 TTAATTTTAATAAAAAAATAGTT
35138413 TTAATTTTAAT
1 TTAATTTTAAT
35138424 TTTAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAGTT
Found at i:35138554 original size:21 final size:19
Alignment explanation
Indices: 35138511--35138549 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35138501 TTCGACCAAT
35138511 ACATATTTCCTAAGCTTAA
1 ACATATTTCCTAAGCTTAA
35138530 ACATATTTCCTAAGCTTAA
1 ACATATTTCCTAAGCTTAA
35138549 A
1 A
35138550 AACATTAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (19 bp):
ACATATTTCCTAAGCTTAA
Found at i:35150792 original size:21 final size:21
Alignment explanation
Indices: 35150768--35150851 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
35150758 GAAGGGTCCA
*
35150768 GACCGTGTGACAGAGGTACAC
1 GACCGTGTGACAGAGATACAC
* * **
35150789 GACCGTGTGGCTGAGGCACAC
1 GACCGTGTGACAGAGATACAC
* * * *
35150810 GATCGTGTGGCTGAGAAACAC
1 GACCGTGTGACAGAGATACAC
* *
35150831 GCCCGTGTTACAGAGATACAC
1 GACCGTGTGACAGAGATACAC
35150852 AGCCATGTGG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.17
Consensus pattern (21 bp):
GACCGTGTGACAGAGATACAC
Found at i:35154019 original size:20 final size:20
Alignment explanation
Indices: 35153994--35154055 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
35153984 CCAATTTGTG
35153994 GACAAGCTACCAGTAATGCA
1 GACAAGCTACCAGTAATGCA
* **
35154014 GACAAGCTGCCAGTAATGTG
1 GACAAGCTACCAGTAATGCA
* * *
35154034 GGCAAGTTACCAGTAATACA
1 GACAAGCTACCAGTAATGCA
35154054 GA
1 GA
35154056 TAAATTGTCA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (20 bp):
GACAAGCTACCAGTAATGCA
Found at i:35156415 original size:30 final size:30
Alignment explanation
Indices: 35156372--35156451 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
35156362 AAACCTAAGC
* *
35156372 TAAGA-AAAGTAATGTATGAAGGATGAACG
1 TAAGAGAATGTAATGTATGAAGGATGAACA
* *
35156401 TAAGAGAATTTAATGTACGAAGGATGAACA
1 TAAGAGAATGTAATGTATGAAGGATGAACA
* *
35156431 TAAGAGCATGTAATGCATGAA
1 TAAGAGAATGTAATGTATGAA
35156452 ATCTACTGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 5 0.12
30 37 0.88
ACGTcount: A:0.46, C:0.06, G:0.25, T:0.23
Consensus pattern (30 bp):
TAAGAGAATGTAATGTATGAAGGATGAACA
Found at i:35160626 original size:9 final size:9
Alignment explanation
Indices: 35160614--35160644 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35160604 TTTAAGTTTT
35160614 TTTTAAATA
1 TTTTAAATA
35160623 TTTTAAATA
1 TTTTAAATA
*
35160632 TTTTAAATG
1 TTTTAAATA
35160641 TTTT
1 TTTT
35160645 TTATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTAAATA
Found at i:35163625 original size:16 final size:18
Alignment explanation
Indices: 35163590--35163626 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
35163580 GATAATGATA
35163590 ATTCATTCCAAATATTTT
1 ATTCATTCCAAATATTTT
*
35163608 ATTCA-TCC-AATTTTTT
1 ATTCATTCCAAATATTTT
35163624 ATT
1 ATT
35163627 TTCTCCCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTCATTCCAAATATTTT
Found at i:35164822 original size:13 final size:14
Alignment explanation
Indices: 35164792--35164832 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
35164782 ATCTCAGATA
35164792 CAGATAA-CAGAAT
1 CAGATAAGCAGAAT
*
35164805 CAGATAAGCAGTAT
1 CAGATAAGCAGAAT
*
35164819 -AGATATGCAGAAT
1 CAGATAAGCAGAAT
35164832 C
1 C
35164833 CTACCCCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (14 bp):
CAGATAAGCAGAAT
Found at i:35167368 original size:24 final size:24
Alignment explanation
Indices: 35167317--35167368 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
35167307 TTCATAGGTC
* * *
35167317 AAATAAATTATGCTAATAAATTCT
1 AAATAAATTATACTAATAAATACA
*
35167341 AAATATATTATACTAATAAATACA
1 AAATAAATTATACTAATAAATACA
35167365 AAAT
1 AAAT
35167369 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:35169320 original size:24 final size:24
Alignment explanation
Indices: 35169293--35169344 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
35169283 TTCGTAGGTC
*
35169293 AAATAAATTATACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
35169317 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
35169341 AAAT
1 AAAT
35169345 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Done.