Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 243 of 253
Found at i:78460837 original size:32 final size:32
Alignment explanation
Indices: 78460801--78460861 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
78460791 CCATAAACTT
* *
78460801 ATAAATTGATTACTTGAATTT-AGTAACTCATG
1 ATAAATTAATTAATTGAATTTGA-TAACTCATG
*
78460833 ATAAATTAATTAATTTAATTTGATAACTC
1 ATAAATTAATTAATTGAATTTGATAACTC
78460862 TCTCATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTGATAACTCATG
Found at i:78472509 original size:18 final size:18
Alignment explanation
Indices: 78472441--78472516 Score: 55
Period size: 18 Copynumber: 4.0 Consensus size: 18
78472431 TCCTCTAATG
* *
78472441 TAAATATAAAAAAAATGT
1 TAAATATTAAAAAAATAT
78472459 TAAGATTACTATAAAAAAAT-T
1 TAA-A-TA-T-TAAAAAAATAT
* *
78472480 TCAATAAATAAAAAAATAT
1 TAAAT-ATTAAAAAAATAT
*
78472499 TAAATATTAAAATAATAT
1 TAAATATTAAAAAAATAT
78472517 AATATAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
18 23 0.50
19 7 0.15
20 4 0.09
21 4 0.09
22 8 0.17
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
TAAATATTAAAAAAATAT
Found at i:78472512 original size:23 final size:22
Alignment explanation
Indices: 78472485--78472528 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
78472475 AAATTTCAAT
78472485 AAATAAAAAAATATTAAATATTA
1 AAATAAAAAAATA-TAAATATTA
* *
78472508 AAATAATATAATATAAATATT
1 AAATAAAAAAATATAAATATT
78472529 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATAAAAAAATATAAATATTA
Found at i:78478478 original size:21 final size:20
Alignment explanation
Indices: 78478440--78478479 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
78478430 TTTATATCTC
*
78478440 TTTCTTTCTTATTCTTGTTA
1 TTTCTATCTTATTCTTGTTA
*
78478460 TTTCTATCTTTATTTTTGTT
1 TTTCTATC-TTATTCTTGTT
78478480 TTTTTTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTCTATCTTATTCTTGTTA
Found at i:78483004 original size:19 final size:19
Alignment explanation
Indices: 78482980--78483025 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
78482970 CATGCACAGT
78482980 AAAAAAAATGCTGAAAACA
1 AAAAAAAATGCTGAAAACA
*
78482999 AAAAAAAA-GCTGAAAACG
1 AAAAAAAATGCTGAAAACA
78483017 AAAAAAAAT
1 AAAAAAAAT
78483026 AAAAAACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.72, C:0.09, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAAAAAATGCTGAAAACA
Found at i:78483180 original size:16 final size:16
Alignment explanation
Indices: 78483159--78483202 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
78483149 AGAAAATAAA
*
78483159 GAAAAAGAAGGAGAAG
1 GAAAAAGAAGGAAAAG
*
78483175 GAAAAAAGAAAGAAAAG
1 G-AAAAAGAAGGAAAAG
*
78483192 AAAAAAGAAGG
1 GAAAAAGAAGG
78483203 TATAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
GAAAAAGAAGGAAAAG
Found at i:78483182 original size:17 final size:16
Alignment explanation
Indices: 78483156--78483202 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
78483146 AGAAGAAAAT
78483156 AAAG-AAAAAGAAGGA
1 AAAGAAAAAAGAAGGA
* *
78483171 GAAGGAAAAAAGAAAGA
1 -AAAGAAAAAAGAAGGA
78483188 AAAGAAAAAAGAAGG
1 AAAGAAAAAAGAAGG
78483203 TATAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAGAAGGA
Found at i:78483188 original size:21 final size:23
Alignment explanation
Indices: 78483142--78483185 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
78483132 AAGCAGCAGC
78483142 AAGGAGAAGAAAATAAAGAAAAAG
1 AAGGAGAAGAAAATAAAG-AAAAG
*
78483166 AAGGAGAAGGAAA-AAAGAAA
1 AAGGAGAAGAAAATAAAGAAA
78483186 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 4 0.21
24 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.02
Consensus pattern (23 bp):
AAGGAGAAGAAAATAAAGAAAAG
Found at i:78483352 original size:27 final size:26
Alignment explanation
Indices: 78483296--78483354 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
78483286 GCTGTTAGTT
*
78483296 ATTATTATTGTTAGTAAAAAACCCTT
1 ATTATTATTGTTAGTAAAAAACCCTA
*
78483322 ATTATTATTGTTAGTAAAAAAATCCTA
1 ATTATTATTGTTAGT-AAAAAACCCTA
78483349 ATTATT
1 ATTATT
78483355 GTTAGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (26 bp):
ATTATTATTGTTAGTAAAAAACCCTA
Found at i:78485771 original size:8 final size:8
Alignment explanation
Indices: 78485758--78485786 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
78485748 TTATGTTTAA
78485758 TATATTAT
1 TATATTAT
78485766 TATATTAT
1 TATATTAT
78485774 TATATTAT
1 TATATTAT
78485782 TATAT
1 TATAT
78485787 AATAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:78485773 original size:5 final size:5
Alignment explanation
Indices: 78485763--78485835 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
78485753 TTTAATATAT
* * *
78485763 TATTA TATTA T-TATA TTATTA TATAA TAAATA TATTT TATGT- T-TTA
1 TATTA TATTA TAT-TA -TATTA TATTA T-ATTA TATTA TAT-TA TATTA
78485809 -ATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
78485836 AAACTAAAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
3 1 0.02
4 5 0.09
5 41 0.75
6 7 0.13
7 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:78485798 original size:16 final size:18
Alignment explanation
Indices: 78485755--78485837 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 18
78485745 TTTTTATGTT
*
78485755 TAATATATTATTATATTA
1 TAATATATTATTATAATA
*
78485773 TTATATTATTA-TATAATA
1 TAATA-TATTATTATAATA
** *
78485791 -AATATATT-TTATGTTT
1 TAATATATTATTATAATA
*
78485807 TAAT-TA-TATTATATTA
1 TAATATATTATTATAATA
*
78485823 TATTATATTA-TATAA
1 TAATATATTATTATAA
78485838 ACTAAAGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
15 1 0.02
16 19 0.39
17 12 0.24
18 12 0.24
19 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TAATATATTATTATAATA
Found at i:78486615 original size:21 final size:23
Alignment explanation
Indices: 78486556--78486621 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
78486546 GCTTTATCGA
78486556 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
78486579 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
78486601 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
78486622 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:78487800 original size:42 final size:42
Alignment explanation
Indices: 78487718--78487869 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 42
78487708 GGACGTTACA
* * * *
78487718 CTTACACATCTTCACATAAT-GATGTCATAGCCCGGTTATGGT
1 CTTACACATATTCACAT-ATCGATGCCATAGCCCAGCTATGGT
* *
78487760 CTTACACATATTCATATATCGATGCCATAACCCAGCTATGGT
1 CTTACACATATTCACATATCGATGCCATAGCCCAGCTATGGT
78487802 CTTACACGTAATCACATATCACATATCGATGCCATAGCCCAGCTATGGT
1 CTTACAC---AT---AT-TCACATATCGATGCCATAGCCCAGCTATGGT
78487851 CTTACACGA-A-TCACATATC
1 CTTACAC-ATATTCACATATC
78487870 TCACTGATGC
Statistics
Matches: 93, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
41 11 0.12
42 40 0.43
43 1 0.01
45 2 0.02
47 1 0.01
48 2 0.02
49 36 0.39
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
CTTACACATATTCACATATCGATGCCATAGCCCAGCTATGGT
Found at i:78487950 original size:47 final size:46
Alignment explanation
Indices: 78487779--78487947 Score: 194
Period size: 47 Copynumber: 3.6 Consensus size: 46
78487769 ATTCATATAT
* * *
78487779 CGATGCCATAACCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * * *
78487828 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
78487874 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATAAATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACAC-GTATCACATATCACAC
78487921 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
78487948 TACGGAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 27 0.26
47 37 0.35
48 11 0.10
49 30 0.29
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:78488014 original size:31 final size:31
Alignment explanation
Indices: 78487969--78488117 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
78487959 CTTGTCACTT
* * *
78487969 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
78488000 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCCGG-AGCTACCACTTTTCACTGATCAG
78488031 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
78488062 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
78488093 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
78488118 TGTCATTTGT
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
30 1 0.01
31 109 0.98
32 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:78492955 original size:17 final size:18
Alignment explanation
Indices: 78492929--78492971 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
78492919 ACATGCCATT
*
78492929 TGTTCCAATTTA-ATTAA
1 TGTTCTAATTTAGATTAA
78492946 TGTTCTAA-TTAGATTAA
1 TGTTCTAATTTAGATTAA
*
78492963 TGTTGTAAT
1 TGTTCTAAT
78492972 GTATTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (18 bp):
TGTTCTAATTTAGATTAA
Found at i:78493178 original size:23 final size:24
Alignment explanation
Indices: 78493123--78493179 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
78493113 AATTAAATAT
*
78493123 ATACAAAAAAATACAAACTTTTTA
1 ATACAAAAAAATACAAACTTTGTA
78493147 ATACAAAAAAATACAAACTTTGTA
1 ATACAAAAAAATACAAACTTTGTA
*
78493171 ATATAAAAA
1 ATACAAAAA
78493180 CCCAAGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (24 bp):
ATACAAAAAAATACAAACTTTGTA
Found at i:78493450 original size:33 final size:33
Alignment explanation
Indices: 78493413--78493487 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 33
78493403 GAGTACTGCA
*
78493413 GTGGATACGGGTCAGAAGTAGTGCTATAATGCG
1 GTGGATACGGGTCAGAAGAAGTGCTATAATGCG
* * * * **
78493446 GTGGACATGGGTCGGGAGAAGTGCTATGCTGCG
1 GTGGATACGGGTCAGAAGAAGTGCTATAATGCG
*
78493479 GTGGGTACG
1 GTGGATACG
78493488 ACCCAAACAT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (33 bp):
GTGGATACGGGTCAGAAGAAGTGCTATAATGCG
Found at i:78493660 original size:72 final size:72
Alignment explanation
Indices: 78493536--78493669 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
78493526 GACGAGCCTG
*
78493536 GGAAATAGTCATTGCCCGAAAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATGCGATGAC
1 GGAAATAGTCATTGCCCGAAAAATCCAGATGATAAGAAGTATCAGCCAAATGTGAATGCGATGAC
78493601 AAGCTTA
66 AAGCTTA
** *
78493608 GGAAATAGTCATTGCCCGCCAAAT-CAGGATGATAAGAAGTATCAGTCAAATGTGAATGCGAT
1 GGAAATAGTCATTGCCCGAAAAATCCA-GATGATAAGAAGTATCAGCCAAATGTGAATGCGAT
78493670 CGTTCGGACT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
71 2 0.04
72 55 0.96
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (72 bp):
GGAAATAGTCATTGCCCGAAAAATCCAGATGATAAGAAGTATCAGCCAAATGTGAATGCGATGAC
AAGCTTA
Found at i:78495641 original size:12 final size:13
Alignment explanation
Indices: 78495607--78495648 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
78495597 TTTTAAAAAA
78495607 TATATTATTTTCG
1 TATATTATTTTCG
* *
78495620 TATTTTATTTT-T
1 TATATTATTTTCG
78495632 TATATTATTTTCG
1 TATATTATTTTCG
78495645 TATA
1 TATA
78495649 CAAGTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (13 bp):
TATATTATTTTCG
Found at i:78495831 original size:151 final size:152
Alignment explanation
Indices: 78495650--78496255 Score: 1021
Period size: 151 Copynumber: 4.0 Consensus size: 152
78495640 TTTCGTATAC
* * * *
78495650 AAGTGTTTTTCTTTATATTAATTTAATAAATAACCCTAATTTT-GACACTTTCTTCGTATTTTTT
1 AAGTGCTTTT-TTTATATT-TTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTTT
* * *
78495714 TATTTCCGTATCTTA-TTTTTAAAATATATTATTTTCGTCTTTTATTTCTTTATATTATTTTAGT
63 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGT
78495778 ACATAATGTTTCAAATGTATTATTT
128 ACATAATGTTTCAAATGTATTATTT
78495803 AAGTG-TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTA
1 AAGTGCTTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTA
*
78495867 TTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAC
65 TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAC
78495932 ATAATGTTTCAAATGTATTATTT
130 ATAATGTTTCAAATGTATTATTT
*
78495955 AAGT--TTTTTTCATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTAT
1 AAGTGCTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTAT
78496017 TTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACA
66 TTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACA
78496082 TAATGTTTCAAATGTATTATTT
131 TAATGTTTCAAATGTATTATTT
*
78496104 AAGTGCTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCG-AATTTTTTAT
1 AAGTGCTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTAT
78496168 TTTCGTATATTA-TTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACA
66 TTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACA
*
78496232 TAATGTTTCAAATATATTATTT
131 TAATGTTTCAAATGTATTATTT
78496254 AA
1 AA
78496256 TACTATTTTT
Statistics
Matches: 438, Mismatches: 9, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
149 98 0.22
150 116 0.26
151 135 0.31
152 84 0.19
153 5 0.01
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (152 bp):
AAGTGCTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTAT
TTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACA
TAATGTTTCAAATGTATTATTT
Found at i:78495911 original size:16 final size:16
Alignment explanation
Indices: 78495853--78495911 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
78495843 TAGCACTTTA
*
78495853 TTCGTATTTTTTTATT
1 TTCGTATTTTATTATT
*
78495869 TTCGTATCTTATT-TT
1 TTCGTATTTTATTATT
** * *
78495884 TT-AAAATATATTATT
1 TTCGTATTTTATTATT
78495899 TTCGTATTTTATT
1 TTCGTATTTTATT
78495912 TCTTTATATT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (16 bp):
TTCGTATTTTATTATT
Found at i:78496036 original size:301 final size:299
Alignment explanation
Indices: 78495671--78496255 Score: 1032
Period size: 301 Copynumber: 1.9 Consensus size: 299
78495661 TTTATATTAA
* *
78495671 TTTAATAAATAACCCTAATTTTGACACTTTCTTCGTATTTTTTTATTTCCGTATCTTATTTTTAA
1 TTTAATAAATAACCCTAATTTTGACACTTTATTCGTATTTTTTTATTTCCGTATATTATTTTTAA
*
78495736 AATATATTATTTTCGTCTTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTAT
66 AATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTAT
*
78495801 TTAAGTG-TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTT
131 TTAAGTGCTTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCG-AATTTTT
*
78495865 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGT
194 TATTTTCGTATATTA-TTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGT
*
78495930 ACATAATGTTTCAAATGTATTATTTAAGTTTTTTTCATATTT
258 ACATAATGTTTCAAATATATTATTTAAGTTTTTTTCATATTT
* *
78495972 TTTAATAAATAACCCTGATTTT-AGCACTTTATTCGTA-TTTTTTATTTTCGTATATTATTTTTT
1 TTTAATAAATAACCCTAATTTTGA-CACTTTATTCGTATTTTTTTATTTCCGTATATTA-TTTTT
78496035 AAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATT
64 AAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATT
78496100 ATTTAAGTGCTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGAATTTTT
129 ATTTAAGTGCTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGAATTTTT
78496165 TATTTTCGTATATTATTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTA
194 TATTTTCGTATATTATTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTA
78496230 CATAATGTTTCAAATATATTATTTAA
259 CATAATGTTTCAAATATATTATTTAA
78496256 TACTATTTTT
Statistics
Matches: 273, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
299 75 0.27
300 39 0.14
301 149 0.55
302 10 0.04
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (299 bp):
TTTAATAAATAACCCTAATTTTGACACTTTATTCGTATTTTTTTATTTCCGTATATTATTTTTAA
AATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTAT
TTAAGTGCTTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGAATTTTTTA
TTTTCGTATATTATTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACA
TAATGTTTCAAATATATTATTTAAGTTTTTTTCATATTT
Found at i:78496201 original size:29 final size:28
Alignment explanation
Indices: 78496164--78496253 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
78496154 TTCGAATTTT
78496164 TTATTTTCGTATATTATTTTTAAAATATA
1 TTATTTTCGTATATTATTTTT-AAATATA
*
78496193 TTATTTTCGTATTTTATTTCTT---TATA
1 TTATTTTCGTATATTATTT-TTAAATATA
* * * *
78496219 TTATTTTAGTACATAATGTTTCAAATATA
1 TTATTTTCGTATATTAT-TTTTAAATATA
78496248 TTATTT
1 TTATTT
78496254 AATACTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
26 18 0.36
27 2 0.04
29 28 0.56
30 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (28 bp):
TTATTTTCGTATATTATTTTTAAATATA
Found at i:78496710 original size:3 final size:3
Alignment explanation
Indices: 78496702--78496747 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
78496692 GCCGGCCTCA
* * *
78496702 TTC TTC TTC TTC TTC TCC TTC TT- TTC TTT TTC TTC TTC TCC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
78496748 TGTTCTCGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:78496734 original size:23 final size:23
Alignment explanation
Indices: 78496702--78496748 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
78496692 GCCGGCCTCA
78496702 TTCTTCTTCTTCTTCTCCTTCTT
1 TTCTTCTTCTTCTTCTCCTTCTT
*
78496725 TTCTTTTTCTTCTTCTCCTTCTT
1 TTCTTCTTCTTCTTCTCCTTCTT
78496748 T
1 T
78496749 GTTCTCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TTCTTCTTCTTCTTCTCCTTCTT
Found at i:78496842 original size:19 final size:19
Alignment explanation
Indices: 78496818--78496864 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
78496808 CCCTCTGCAT
78496818 GAGGGGTCAAATCGGCCAG
1 GAGGGGTCAAATCGGCCAG
78496837 GAGGGGTCAAATCGGCCAG
1 GAGGGGTCAAATCGGCCAG
78496856 GAGGGGTCA
1 GAGGGGTCA
78496865 CTTTTTGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.26, C:0.19, G:0.45, T:0.11
Consensus pattern (19 bp):
GAGGGGTCAAATCGGCCAG
Found at i:78496953 original size:22 final size:20
Alignment explanation
Indices: 78496908--78496957 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
78496898 CCGTTTTTTT
78496908 ATTTTTTTTTTGTTTTCAGC
1 ATTTTTTTTTTGTTTTCAGC
78496928 -TTTTTGTTTTTCGTTTTCAGC
1 ATTTTT-TTTTT-GTTTTCAGC
78496949 ATTTTTTTT
1 ATTTTTTTT
78496958 ACTGTGCAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 12 0.44
22 5 0.19
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.72
Consensus pattern (20 bp):
ATTTTTTTTTTGTTTTCAGC
Found at i:78497372 original size:60 final size:60
Alignment explanation
Indices: 78497304--78497428 Score: 241
Period size: 60 Copynumber: 2.1 Consensus size: 60
78497294 TTATAAATTG
78497304 TAATTACAAAACTACATAATTTAAAAATTTAAAAATATTAATTATTATAAAAATTATACA
1 TAATTACAAAACTACATAATTTAAAAATTTAAAAATATTAATTATTATAAAAATTATACA
*
78497364 TAATTACAAAACTACATAATTTAAAATTTTAAAAATATTAATTATTATAAAAATTATACA
1 TAATTACAAAACTACATAATTTAAAAATTTAAAAATATTAATTATTATAAAAATTATACA
78497424 TAATT
1 TAATT
78497429 CTTCAGAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (60 bp):
TAATTACAAAACTACATAATTTAAAAATTTAAAAATATTAATTATTATAAAAATTATACA
Found at i:78498090 original size:22 final size:24
Alignment explanation
Indices: 78498065--78498108 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
78498055 GGTTGATTCG
*
78498065 TATC-TATT-TTTCTAATATATTA
1 TATCATATTATTTATAATATATTA
*
78498087 TATCATGTTATTTATAATATAT
1 TATCATATTATTTATAATATAT
78498109 ACAAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 3 0.17
24 11 0.61
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (24 bp):
TATCATATTATTTATAATATATTA
Found at i:78501251 original size:22 final size:22
Alignment explanation
Indices: 78501203--78501256 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
78501193 TTTTTTAAAA
* * *
78501203 AATATTTACATTATATTATTTT
1 AATATTTACATTAGAGTATATT
78501225 AATATTTACATTAGAGTAGTATT
1 AATATTTACATTAGAGTA-TATT
78501248 ATATATTTA
1 A-ATATTTA
78501257 ATATATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 16 0.59
23 4 0.15
24 7 0.26
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (22 bp):
AATATTTACATTAGAGTATATT
Found at i:78501676 original size:13 final size:13
Alignment explanation
Indices: 78501652--78501702 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
78501642 AATTCTTCAT
78501652 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
78501665 TACTTTTCAGAAG
1 TGCTTTTGAGAAG
78501678 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
78501691 TGCTTTTGAGAA
1 TGCTTTTGAGAA
78501703 ATTTGAGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:78503390 original size:12 final size:12
Alignment explanation
Indices: 78503373--78503397 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78503363 CTCTATACCT
78503373 CAAAAACTAAAG
1 CAAAAACTAAAG
78503385 CAAAAACTAAAG
1 CAAAAACTAAAG
78503397 C
1 C
78503398 TGATATACTT
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:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAAAACTAAAG
Found at i:78507315 original size:26 final size:24
Alignment explanation
Indices: 78507273--78507333 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 24
78507263 ATGTTTTCTA
*
78507273 TATTTATAATATAATATATTAAAT
1 TATTTATAACATAATATATTAAAT
*
78507297 TATTTATATACATAGATATATTATAT
1 TATTTATA-ACATA-ATATATTAAAT
* *
78507323 AATTTAAAACA
1 TATTTATAACA
78507334 CATAAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 8 0.26
25 7 0.23
26 16 0.52
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (24 bp):
TATTTATAACATAATATATTAAAT
Found at i:78507432 original size:28 final size:29
Alignment explanation
Indices: 78507401--78507464 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
78507391 ATACCATCTA
*
78507401 TTAAATTA-AAAATAATATAAATAT-ATTT
1 TTAAATTATAAAAT-ATATAAATATCATAT
* *
78507429 TTAAAGTATAAAATATATTAATATCATAT
1 TTAAATTATAAAATATATAAATATCATAT
78507458 TTAAATT
1 TTAAATT
78507465 TTACTAGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (29 bp):
TTAAATTATAAAATATATAAATATCATAT
Found at i:78507573 original size:15 final size:16
Alignment explanation
Indices: 78507541--78507573 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78507531 CCAGAGAACT
*
78507541 CTTCAAGATCACTAAC
1 CTTCAAGAACACTAAC
78507557 CTTCAAGAACA-TAAC
1 CTTCAAGAACACTAAC
78507572 CT
1 CT
78507574 ACTTTGGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.24
Consensus pattern (16 bp):
CTTCAAGAACACTAAC
Found at i:78509196 original size:30 final size:30
Alignment explanation
Indices: 78509153--78509211 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78509143 CTTAACAAGC
*
78509153 AAATGTTTCTAAAATAATAACAAAATTAAT
1 AAATGTTTCTAAAATAATAAAAAAATTAAT
78509183 AAATGTCTT-TAAAATAATAAAAAAATTAA
1 AAATGT-TTCTAAAATAATAAAAAAATTAA
78509212 CAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATGTTTCTAAAATAATAAAAAAATTAAT
Found at i:78509533 original size:27 final size:27
Alignment explanation
Indices: 78509495--78509554 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
78509485 TGCACACCTC
78509495 TAGTTTATATTATTGTGATTTTATTTT
1 TAGTTTATATTATTGTGATTTTATTTT
78509522 TAGTTTATATTATTGTGATTTTATTTT
1 TAGTTTATATTATTGTGATTTTATTTT
78509549 TAGTTT
1 TAGTTT
78509555 TTGATTTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.67
Consensus pattern (27 bp):
TAGTTTATATTATTGTGATTTTATTTT
Found at i:78509544 original size:16 final size:15
Alignment explanation
Indices: 78509498--78509546 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
78509488 ACACCTCTAG
78509498 TTTATATTATTGTGA
1 TTTATATTATTGTGA
78509513 TTT-TATT-TT-T-A
1 TTTATATTATTGTGA
78509524 GTTTATATTATTGTGA
1 -TTTATATTATTGTGA
78509540 TTT-TATT
1 TTTATATT
78509547 TTTAGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
11 1 0.03
12 4 0.14
13 6 0.21
14 10 0.34
15 7 0.24
16 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTATATTATTGTGA
Found at i:78510121 original size:12 final size:12
Alignment explanation
Indices: 78510094--78510127 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
78510084 ATTTGAATAA
*
78510094 ATTAAAAATATT
1 ATTAAAAAAATT
78510106 -TTAAAAAAATT
1 ATTAAAAAAATT
78510117 ATTAAAAAAAT
1 ATTAAAAAAAT
78510128 GTGGGATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTAAAAAAATT
Found at i:78511830 original size:51 final size:51
Alignment explanation
Indices: 78511775--78511884 Score: 202
Period size: 51 Copynumber: 2.2 Consensus size: 51
78511765 CTGATCACAT
*
78511775 TTATCACTTGTCACTGATCATATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
78511826 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
78511877 TTGTCACT
1 TTATCACT
78511885 GATCAGAAGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:78526319 original size:17 final size:16
Alignment explanation
Indices: 78526297--78526352 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
78526287 CTATATTATT
78526297 ATTATTTTTACATATAC
1 ATTATTTTTA-ATATAC
* * *
78526314 ATTATTTATATTAT-T
1 ATTATTTTTAATATAC
78526329 ATTATTTTTATATATAC
1 ATTATTTTTA-ATATAC
78526346 ATTATTT
1 ATTATTT
78526353 ATATTAAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 9 0.29
16 6 0.19
17 16 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTTTTAATATAC
Found at i:78526325 original size:32 final size:32
Alignment explanation
Indices: 78526288--78526358 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
78526278 AACACTTTCC
78526288 TATATTATTATTATTTTTACATATACATTATT
1 TATATTATTATTATTTTTACATATACATTATT
*
78526320 TATATTATTATTATTTTTATATATACATTATT
1 TATATTATTATTATTTTTACATATACATTATT
78526352 TATATTA
1 TATATTA
78526359 AGTTTTTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (32 bp):
TATATTATTATTATTTTTACATATACATTATT
Found at i:78529832 original size:31 final size:31
Alignment explanation
Indices: 78529770--78529833 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
78529760 ATTTGTCAGG
* * *
78529770 TTCTTATATTTTTTTTACTTTTTTACTTTTT
1 TTCTTATATTTTATCTACTTTTTTACATTTT
*
78529801 TTCTTATATTTTATCT-CTTTTCTTAGATTTT
1 TTCTTATATTTTATCTACTTTT-TTACATTTT
78529832 TT
1 TT
78529834 TTCTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (31 bp):
TTCTTATATTTTATCTACTTTTTTACATTTT
Found at i:78529868 original size:18 final size:18
Alignment explanation
Indices: 78529799--78529890 Score: 64
Period size: 19 Copynumber: 4.9 Consensus size: 18
78529789 TTTTTACTTT
78529799 TTTTCTTATATTT-TATCTC
1 TTTTCTTA-ATTTATAT-TC
* *
78529818 TTTTCTTAGATTTTTTTTC
1 TTTTCTTA-ATTTATATTC
*
78529837 TTTT-TTAAGTTTTATATTA
1 TTTTCTTAA--TTTATATTC
*
78529856 TTTTCTTAATTTATTTTGC
1 TTTTCTTAATTTATATT-C
*
78529875 TTAT-TTAATTTATATT
1 TTTTCTTAATTTATATT
78529891 ATTAATTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
17 1 0.02
18 21 0.36
19 31 0.53
20 6 0.10
ACGTcount: A:0.20, C:0.08, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTCTTAATTTATATTC
Found at i:78529882 original size:38 final size:36
Alignment explanation
Indices: 78529818--78529893 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 36
78529808 ATTTTATCTC
* *
78529818 TTTTCTTAGATTTTTTTTCTTTTTTAAGTTTTATATTA
1 TTTTCTTAGATTTTTTTGCTTATTTAA--TTTATATTA
78529856 TTTTCTTA-ATTTATTTTGCTTATTTAATTTATATTA
1 TTTTCTTAGATTT-TTTTGCTTATTTAATTTATATTA
78529892 TT
1 TT
78529894 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 11 0.31
37 4 0.11
38 20 0.57
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (36 bp):
TTTTCTTAGATTTTTTTGCTTATTTAATTTATATTA
Found at i:78529898 original size:18 final size:17
Alignment explanation
Indices: 78529847--78529894 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
78529837 TTTTTTAAGT
*
78529847 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
78529865 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
78529883 TTTATATTATTA
1 TTTATATTATTA
78529895 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:78529952 original size:21 final size:21
Alignment explanation
Indices: 78529896--78529969 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
78529886 ATATTATTAA
* * * *
78529896 TTTTAAAAAATTTGTAATATA
1 TTTTTAAAATTTTATAATATT
*
78529917 TATTTAAAATGTTTTATAATATT
1 TTTTTAAAA--TTTTATAATATT
*
78529940 TTTTTAAAATTTTA-ATTATT
1 TTTTTAAAATTTTATAATATT
78529960 ATTTTTAAAA
1 -TTTTTAAAA
78529970 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.12
21 21 0.49
23 17 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTATAATATT
Found at i:78529970 original size:22 final size:23
Alignment explanation
Indices: 78529883--78529971 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
78529873 GCTTATTTAA
* *
78529883 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * * *
78529906 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAA-AT
*
78529929 TTTATAATATT-TTTTT-AAAAT
1 TTTATATTATTATTTTTAAAAAT
78529950 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
78529972 ATTTTTTAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
20 5 0.10
21 10 0.19
22 17 0.33
23 19 0.37
24 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:78530359 original size:26 final size:26
Alignment explanation
Indices: 78530322--78530383 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
78530312 TTTTAAATAC
* * *
78530322 AATTTTTAAATACATTTAA-AAATTAT
1 AATTTTTTAATA-ATATAAGAAATCAT
78530348 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTTAATAATATAAGAAATCAT
*
78530374 AATATTTTAA
1 AATTTTTTAA
78530384 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTTTTAATAATATAAGAAATCAT
Found at i:78530454 original size:18 final size:18
Alignment explanation
Indices: 78530433--78530474 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
78530423 TTTTTTGAAA
*
78530433 TTTATTTT-TTTTTCTTAT
1 TTTATTTTGTTTAT-TTAT
78530451 TTTATTTTGTTTATTTAT
1 TTTATTTTGTTTATTTAT
78530469 TTTATT
1 TTTATT
78530475 ATTAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTATTTTGTTTATTTAT
Found at i:78530547 original size:20 final size:20
Alignment explanation
Indices: 78530511--78530552 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
78530501 ATTTAAAATG
78530511 TTTTATAATATATTTTTACAA
1 TTTTATAATATATTTTTA-AA
78530532 TTTTA-AATAT-TATTTTAAA
1 TTTTATAATATAT-TTTTAAA
78530551 TT
1 TT
78530553 CTTTTTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATAATATATTTTTAAA
Found at i:78530680 original size:18 final size:16
Alignment explanation
Indices: 78530657--78530693 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
78530647 GTGACTATTA
78530657 ATAAATTTAAATATAAAT
1 ATAAATTTAAA-A-AAAT
78530675 ATAAATTTAAAAAAAT
1 ATAAATTTAAAAAAAT
78530691 ATA
1 ATA
78530694 TTAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATTTAAAAAAAT
Found at i:78530694 original size:18 final size:18
Alignment explanation
Indices: 78530657--78530699 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
78530647 GTGACTATTA
*
78530657 ATAAATTTAAATATAAAT
1 ATAAATTTAAATAAAAAT
78530675 ATAAATTTAAA-AAAATAT
1 ATAAATTTAAATAAAA-AT
78530693 ATTAAAT
1 A-TAAAT
78530700 ATATATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAATTTAAATAAAAAT
Found at i:78533594 original size:24 final size:24
Alignment explanation
Indices: 78533562--78533610 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
78533552 GCTTAGTAAG
78533562 TTCATATGCAAATAATAAGTAACA
1 TTCATATGCAAATAATAAGTAACA
78533586 TTCATATGCAAATAATAAGTAACA
1 TTCATATGCAAATAATAAGTAACA
78533610 T
1 T
78533611 AACAAACAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (24 bp):
TTCATATGCAAATAATAAGTAACA
Found at i:78536485 original size:30 final size:30
Alignment explanation
Indices: 78536449--78536571 Score: 192
Period size: 30 Copynumber: 4.1 Consensus size: 30
78536439 GTCCCACAGC
*
78536449 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
78536479 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
78536509 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
78536539 AGTCCATATCACCCGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
78536569 AGT
1 AGT
78536572 CCATTTGACC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 87 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:78540058 original size:14 final size:13
Alignment explanation
Indices: 78540024--78540065 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
78540014 ACTTGAAATG
78540024 TATTTTTTA-AAA
1 TATTTTTTATAAA
*
78540036 -ATGTTTTATAATA
1 TATTTTTTATAA-A
78540049 TATTTTTTATAAA
1 TATTTTTTATAAA
78540062 TATT
1 TATT
78540066 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:78540121 original size:20 final size:18
Alignment explanation
Indices: 78540081--78540117 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
78540071 TATATTTTCA
78540081 AAATATTTTTTAAATATT
1 AAATATTTTTTAAATATT
78540099 AAATATATTTTT-AATATT
1 AAATAT-TTTTTAAATATT
78540117 A
1 A
78540118 TAAAACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATTTTTTAAATATT
Found at i:78540132 original size:48 final size:49
Alignment explanation
Indices: 78540080--78540191 Score: 133
Period size: 48 Copynumber: 2.3 Consensus size: 49
78540070 ATATATTTTC
78540080 AAAATATTTTTTAAAT-A-TTAAATATATTTTTAATATTATAAAACATTT
1 AAAATATTTTTTAAATAATTTAAA-ATATTTTTAATATTATAAAACATTT
* * **
78540128 AAAATGA--TTTAAAATAATTTAAAATATTTTTAATATTTTAAATGATTT
1 AAAAT-ATTTTTTAAATAATTTAAAATATTTTTAATATTATAAAACATTT
*
78540176 TAAATATTTTTTAAAT
1 AAAATATTTTTTAAAT
78540192 TTTACATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
47 8 0.15
48 32 0.60
49 13 0.25
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (49 bp):
AAAATATTTTTTAAATAATTTAAAATATTTTTAATATTATAAAACATTT
Found at i:78540140 original size:19 final size:19
Alignment explanation
Indices: 78540118--78540175 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
78540108 TTTAATATTA
*
78540118 TAAAACATTTAAAATGATT
1 TAAAAAATTTAAAATGATT
78540137 TAAAATAATTTAAAAT-ATT
1 TAAAA-AATTTAAAATGATT
** * *
78540156 TTTAATATTTTAAATGATT
1 TAAAAAATTTAAAATGATT
78540175 T
1 T
78540176 TAAATATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 8 0.25
19 15 0.47
20 9 0.28
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAAAAATTTAAAATGATT
Found at i:78540185 original size:19 final size:19
Alignment explanation
Indices: 78540124--78540184 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
78540114 ATTATAAAAC
*
78540124 ATTTAAAATGATTTAAAAT
1 ATTTAAAATGATTTTAAAT
*
78540143 AATTTAAAAT-ATTTTTAAT
1 -ATTTAAAATGATTTTAAAT
*
78540162 ATTTTAAATGATTTTAAAT
1 ATTTAAAATGATTTTAAAT
78540181 ATTT
1 ATTT
78540185 TTTAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.22
19 19 0.53
20 9 0.25
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTAAAATGATTTTAAAT
Found at i:78540186 original size:10 final size:9
Alignment explanation
Indices: 78540088--78540185 Score: 72
Period size: 10 Copynumber: 10.4 Consensus size: 9
78540078 TCAAAATATT
78540088 TTTTAAATA
1 TTTTAAATA
*
78540097 -TTAAATATA
1 TTTTAA-ATA
*
78540106 TTTTTAATA
1 TTTTAAATA
* *
78540115 TTATAAAACA
1 TT-TTAAATA
*
78540125 TTTAAAATGA
1 TTTTAAAT-A
*
78540135 TTTAAAATAA
1 TTTTAAAT-A
*
78540145 TTTAAAATA
1 TTTTAAATA
*
78540154 TTTTTAATA
1 TTTTAAATA
78540163 TTTTAAATGA
1 TTTTAAAT-A
78540173 TTTTAAATA
1 TTTTAAATA
78540182 TTTT
1 TTTT
78540186 TTAAATTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
8 4 0.05
9 33 0.45
10 36 0.49
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (9 bp):
TTTTAAATA
Found at i:78540927 original size:37 final size:36
Alignment explanation
Indices: 78540857--78540927 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
78540847 AAATAATTAT
*
78540857 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
* *
78540893 TTTTTAAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAATTT-TAAAAAATTAATTTCAAAAATA
78540928 TATATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:78540974 original size:21 final size:22
Alignment explanation
Indices: 78540945--78541027 Score: 57
Period size: 22 Copynumber: 3.9 Consensus size: 22
78540935 AAAGTTAAAA
78540945 AATATTTTTTTAAAAATAATTA-
1 AATA-TTTTTTAAAAATAATTAC
* *
78540967 AATA-TTTTAAAAAAT-ATTAT
1 AATATTTTTTAAAAATAATTAC
* ** *
78540987 AAAACATTTTAAATATATATTAC
1 AATATTTTTTAAAAATA-ATTAC
*
78541010 AA-ATTTTTTAAAATTAAT
1 AATATTTTTTAAAAATAAT
78541028 AATATAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
19 4 0.09
20 13 0.28
21 10 0.21
22 14 0.30
23 6 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATTTTTTAAAAATAATTAC
Found at i:78541070 original size:18 final size:18
Alignment explanation
Indices: 78541020--78541071 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
78541010 AAATTTTTTA
*
78541020 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
78541038 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
78541056 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
78541072 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:78541127 original size:8 final size:8
Alignment explanation
Indices: 78541114--78541154 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
78541104 AAATATAAGA
78541114 AAAAAAGT
1 AAAAAAGT
78541122 AAAAAAGTT
1 AAAAAAG-T
78541131 AAAAAAGT
1 AAAAAAGT
78541139 AAAAAAAAGT
1 --AAAAAAGT
78541149 AAAAAA
1 AAAAAA
78541155 AATATAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 14 0.47
9 8 0.27
10 8 0.27
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
AAAAAAGT
Found at i:78541156 original size:10 final size:9
Alignment explanation
Indices: 78541113--78541155 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
78541103 AAAATATAAG
78541113 AAAAAAAGT
1 AAAAAAAGT
78541122 -AAAAAAGT
1 AAAAAAAGT
*
78541130 TAAAAAAGT
1 AAAAAAAGT
78541139 AAAAAAAAGT
1 -AAAAAAAGT
78541149 AAAAAAA
1 AAAAAAA
78541156 ATATAAGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
10 8 0.26
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:78541706 original size:21 final size:21
Alignment explanation
Indices: 78541680--78541721 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
78541670 TAGCACTGAC
*
78541680 TCAAAGTAATATAAATGTAAA
1 TCAAAGTAATATAAACGTAAA
*
78541701 TCAAAGTCATATAAACGTAAA
1 TCAAAGTAATATAAACGTAAA
78541722 ACGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (21 bp):
TCAAAGTAATATAAACGTAAA
Found at i:78541994 original size:16 final size:16
Alignment explanation
Indices: 78541969--78542007 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
78541959 TTGGTTCGCT
78541969 GTAATAGAATAGAGGC
1 GTAATAGAATAGAGGC
*
78541985 GTAATGGAATAGAGGC
1 GTAATAGAATAGAGGC
78542001 GTAATAG
1 GTAATAG
78542008 GTAATTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.33, T:0.21
Consensus pattern (16 bp):
GTAATAGAATAGAGGC
Found at i:78542074 original size:44 final size:46
Alignment explanation
Indices: 78541985--78542075 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
78541975 GAATAGAGGC
*
78541985 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
78542031 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
78542075 G
1 G
78542076 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:78542076 original size:39 final size:44
Alignment explanation
Indices: 78541985--78542091 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
78541975 GAATAGAGGC
*
78541985 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
78542031 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
78542071 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
78542092 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:78542244 original size:16 final size:15
Alignment explanation
Indices: 78542234--78542389 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
78542224 CATAATTGTT
78542234 ATAAAATATAATTTA
1 ATAAAATATAATTTA
78542249 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
78542266 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
78542278 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
78542290 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
78542304 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
78542323 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
78542340 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
78542351 ATTAAATATAATTTA
1 ATAAAATATAATTTA
78542366 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
78542383 ATAAAAT
1 ATAAAAT
78542390 TGATAATAAA
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:78542279 original size:17 final size:17
Alignment explanation
Indices: 78542239--78542272 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
78542229 TTGTTATAAA
78542239 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78542256 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78542273 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:78542396 original size:17 final size:17
Alignment explanation
Indices: 78542356--78542389 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
78542346 TTATTATTAA
78542356 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78542373 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78542390 TGATAATAAA
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:78542425 original size:117 final size:117
Alignment explanation
Indices: 78542219--78542707 Score: 777
Period size: 117 Copynumber: 4.3 Consensus size: 117
78542209 TTAATCATAT
* * * *
78542219 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
78542284 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
78542336 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGATAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
78542401 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
78542453 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
78542518 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
78542570 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
78542628 TATTCTTATATGAATTTAC---T-AAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
78542679 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
78542708 TAATCTACTT
Statistics
Matches: 355, Mismatches: 14, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
107 19 0.05
108 27 0.08
109 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
117 255 0.72
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:78542488 original size:15 final size:15
Alignment explanation
Indices: 78542468--78542506 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
78542458 CATAATTGTT
78542468 ATAAAATATAATTTA
1 ATAAAATATAATTTA
78542483 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
78542500 ATAAAAT
1 ATAAAAT
78542507 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:78542513 original size:17 final size:17
Alignment explanation
Indices: 78542473--78542506 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
78542463 TTGTTATAAA
78542473 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78542490 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78542507 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:78542578 original size:20 final size:21
Alignment explanation
Indices: 78542539--78542578 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
78542529 AATTTACTAA
*
78542539 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
78542560 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
78542579 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:78542591 original size:26 final size:28
Alignment explanation
Indices: 78542546--78542625 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
78542536 TAATAAAATC
78542546 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
78542576 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
78542603 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
78542626 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:78542703 original size:32 final size:32
Alignment explanation
Indices: 78542667--78542730 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
78542657 TATATAATAC
*
78542667 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
78542699 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
78542731 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:78548016 original size:3 final size:3
Alignment explanation
Indices: 78548008--78548038 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
78547998 AACAAATAGG
78548008 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
78548039 TATAGGACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:78549828 original size:44 final size:44
Alignment explanation
Indices: 78549756--78550154 Score: 274
Period size: 44 Copynumber: 8.8 Consensus size: 44
78549746 ATCTGATGTG
* * * *
78549756 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTC-TTACTTCA
* *
78549800 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TAC-TAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCT-CTTA-CTTCA
* * * **
78549844 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTCTTACTTCA
* * * * *
78549888 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-TTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCT---CTTACTTCA
* * * **
78549934 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGATCTCTTACTTCA
* *
78549978 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTA
1 ATC-----TG--CT-C-C-ACTGTAACTTCAGAGAGATAAGATCTC-TTACTTCA
* *
78550032 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TAC-TAGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCT-CTTA-CTTCA
* * * **
78550076 ATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTCTTACTTCA
* *
78550120 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCT
78550155 GAAATTTTTC
Statistics
Matches: 276, Mismatches: 52, Indels: 54
0.72 0.14 0.14
Matches are distributed among these distances:
43 5 0.02
44 191 0.69
45 5 0.02
46 35 0.13
47 3 0.01
49 3 0.01
51 1 0.00
52 1 0.00
53 2 0.01
54 29 0.11
55 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTCTTACTTCA
Found at i:78550108 original size:232 final size:232
Alignment explanation
Indices: 78549696--78550202 Score: 980
Period size: 232 Copynumber: 2.2 Consensus size: 232
78549686 GAAATTTATG
* *
78549696 TTTTCAGTCTGTTCCACTGCAA-CATCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCT
1 TTTTCGGTCTGTTCCACTGTAATC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCT
78549760 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGA
65 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGA
78549825 GATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAAT
130 GATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAAT
78549890 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
195 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
78549928 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
78549993 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
66 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
78550058 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
131 ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
78550123 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
196 TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
78550160 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCT
1 TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCT
78550203 ATAATAAACC
Statistics
Matches: 272, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
232 271 1.00
233 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (232 bp):
TTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTA
CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAG
ATAGGATTACTAGCTTCAATCTACTCCGCTGTAATTTCAGAGAGATAAGATCTCTGGCTTCAATC
TGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
Found at i:78563059 original size:3 final size:3
Alignment explanation
Indices: 78563051--78563081 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
78563041 AACAAATAGG
78563051 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
78563082 TATAGGACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:78569114 original size:18 final size:19
Alignment explanation
Indices: 78569069--78569116 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
78569059 CATGATATAC
78569069 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
78569089 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
78569107 A-AACATAATA
1 ATAACATAATA
78569117 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:78569317 original size:20 final size:20
Alignment explanation
Indices: 78569281--78569318 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78569271 GGAAAATAAT
*
78569281 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
78569301 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
78569319 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:78571539 original size:23 final size:23
Alignment explanation
Indices: 78571426--78571559 Score: 71
Period size: 23 Copynumber: 5.7 Consensus size: 23
78571416 TATATATATG
* * *
78571426 TATATATAATAGTATTTAAGAATA
1 TATACATAATA-TATATAAAAATA
*
78571450 TATACATAAGATGATAT-AAAATA
1 TATACATAATAT-ATATAAAAATA
* *
78571473 CATACATGGAATAGTATA-AGAAATA
1 TATACAT--AATA-TATATAAAAATA
*** *
78571498 TATA-ACTAATGGCTTTAAAAATA
1 TATACA-TAATATATATAAAAATA
*
78571521 TATACATAATATATATAAAATACA
1 TATACATAATATATATAAAA-ATA
78571545 TATA-AT-ATATATATA
1 TATACATAATATATATA
78571560 CGTATTAGAA
Statistics
Matches: 83, Mismatches: 18, Indels: 20
0.69 0.15 0.17
Matches are distributed among these distances:
22 10 0.12
23 37 0.45
24 20 0.24
25 15 0.18
26 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
TATACATAATATATATAAAAATA
Found at i:78571542 original size:11 final size:11
Alignment explanation
Indices: 78571515--78571559 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
78571505 AATGGCTTTA
*
78571515 AAAATATATAC
1 AAAATATATAT
*
78571526 ATAATATATAT
1 AAAATATATAT
*
78571537 AAAATACATAT
1 AAAATATATAT
*
78571548 AATATATATAT
1 AAAATATATAT
78571559 A
1 A
78571560 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:78572322 original size:17 final size:17
Alignment explanation
Indices: 78572302--78572340 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
78572292 GGGAAAAATA
*
78572302 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
78572319 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
78572336 AAAAT
1 AAAAT
78572341 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:78573529 original size:79 final size:76
Alignment explanation
Indices: 78573415--78573647 Score: 231
Period size: 79 Copynumber: 3.0 Consensus size: 76
78573405 TAAACTTAAC
* ** * *
78573415 TTGAAAAGCAGATTTTGAAAATACCTC-GATATGTGA-CTCAAGGCTCAACTCACCTCTCACAAT
1 TTGAAAAACAGAAATTGAAAATACCTCAG-TGTGTGAGCTCAAGGCTCAACTCACCTCTCGCAAT
78573478 ATGAGTTGATTT
65 ATGAGTTGATTT
* * * *
78573490 TTGAAAAATATAAATTGAAAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGC
1 TTGAAAAACAGAAATTG----AAAATACCTCAGTGTGTGAGCTCAAGGCTCAACTCACCTCTCGC
78573554 AATATGAGTTGATTTTT
62 AATATGAGTTGA--TTT
* * * * * *
78573571 TTGAAAGACAGAAATTGAAAATAGCTTAGCGCGTGAGC-CAAGGCTCAACTCACCTTTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTGAGCTCAAGGCTCAACTCACCTCTCGCAATA
*
78573635 TGAGTCGATTT
66 TGAGTTGATTT
78573646 TT
1 TT
78573648 TTTGAAAGGC
Statistics
Matches: 130, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
75 17 0.13
76 2 0.02
77 44 0.34
79 45 0.35
80 5 0.04
81 17 0.13
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (76 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTGAGCTCAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTT
Found at i:78573631 original size:77 final size:78
Alignment explanation
Indices: 78573447--78573669 Score: 249
Period size: 77 Copynumber: 2.9 Consensus size: 78
78573437 ACCTCGATAT
* * * *
78573447 GTGA-CTCAAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAAATATAAATTGAA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG--
* *
78573509 AAAAAATACCTCAGTGT
64 --AAAATACCTCAGCGC
* *
78573526 GTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
* *
78573590 AATAGCTTAGCGC
66 AATACCTCAGCGC
* * *
78573603 GTGAGC-CAAGGCTCAACTCACCTTTCGCAATATGAGTCGATTTTTTTTGAAAGGCAGAAATTGA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGA
78573667 AAA
65 AAA
78573670 ACGGAAATTG
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
76 2 0.02
77 44 0.35
78 25 0.20
79 33 0.26
80 4 0.03
81 17 0.14
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (78 bp):
GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
AATACCTCAGCGC
Found at i:78573759 original size:14 final size:14
Alignment explanation
Indices: 78573740--78573774 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
78573730 GTTGATTTTT
*
78573740 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
78573754 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
78573768 TTGAAAA
1 TTGAAAA
78573775 TACCTCGGCG
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:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:78573777 original size:91 final size:90
Alignment explanation
Indices: 78573571--78573846 Score: 367
Period size: 91 Copynumber: 3.0 Consensus size: 90
78573561 GTTGATTTTT
* * * ** * *
78573571 TTGAAAGACAGAAATTGAAAATAGCTTAGCGCGTGAGCC-AAGGCTCAACTCACCTTTCGCAATA
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACC-TTCGCAATA
* *
78573635 TGAGTCGATTTTTTTTGAAAGGCAGAAA
64 TGAGTTGA-TTTTTTTGAAAGACAGAAA
*
78573663 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCT-TCGCAATAT
78573728 GAGTTGATTTTTTTGAAAGACAGAAA
65 GAGTTGATTTTTTTGAAAGACAGAAA
* * *
78573754 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGTTCAACTCGCCGTTCGCAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACC-TTCGCAATAT
*
78573819 GAGTTGATTTTTTTGACA-ACAGAAA
65 GAGTTGATTTTTTTGAAAGACAGAAA
78573844 TTG
1 TTG
78573847 TAATTACCTC
Statistics
Matches: 166, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
90 10 0.06
91 96 0.58
92 60 0.36
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (90 bp):
TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTTCGCAATATG
AGTTGATTTTTTTGAAAGACAGAAA
Found at i:78574022 original size:139 final size:138
Alignment explanation
Indices: 78573771--78574031 Score: 348
Period size: 139 Copynumber: 1.9 Consensus size: 138
78573761 ACGGAAATTG
* * * * ***
78573771 AAAATACCTCGGCGTGTGACCTGAGGTTCAACTCGCCGTTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGCGT-ACCTGAGGCTCAACTCACCGTTCGCAATACGAGTTGATTTTTGAAAC
* * * *
78573836 AACAGAAATTGTAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATTAGTTGAT
65 AACAAAAATTGTAAATACCTCAGCGTGTCCCGAGGCTCAACTAACCTCTCGCAATATTAGTTGAT
78573901 TTTTTTTTT
130 TTTTTTTTT
*
78573910 AAAATACCTCAGCGCGT-CCTGAGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTGAAAC
1 AAAATACCTCAGCGCGTACCTGAGGCTCAACTCACCGT-TCGCAATACGAGTTGATTTTTGAAAC
78573973 ATACGAAAAATTG-ACAATACCTCAGCGTGTCCCGAGGCTCAACTAACCTCTCGCAATAT
65 A-AC-AAAAATTGTA-AATACCTCAGCGTGTCCCGAGGCTCAACTAACCTCTCGCAATAT
78574032 GAATTGAATT
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
136 1 0.01
137 39 0.37
138 3 0.03
139 63 0.59
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (138 bp):
AAAATACCTCAGCGCGTACCTGAGGCTCAACTCACCGTTCGCAATACGAGTTGATTTTTGAAACA
ACAAAAATTGTAAATACCTCAGCGTGTCCCGAGGCTCAACTAACCTCTCGCAATATTAGTTGATT
TTTTTTTT
Found at i:78586216 original size:24 final size:24
Alignment explanation
Indices: 78586184--78586290 Score: 62
Period size: 24 Copynumber: 4.5 Consensus size: 24
78586174 TATATATATG
*
78586184 TATATATAATAGTATTTAAGAATA
1 TATACATAATAGTATTTAAGAATA
* *
78586208 TATACATAAGA-TGATATAA-AATA
1 TATACATAATAGT-ATTTAAGAATA
*
78586231 CATACATGGAATAGTA--TAAGAAATA
1 TATACAT--AATAGTATTTAAG-AATA
* * *
78586256 TATA-ATTAATGGTATTAAAAAATA
1 TATACA-TAATAGTATTTAAGAATA
*
78586280 TATAAATAATA
1 TATACATAATA
78586291 TATATAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
23 20 0.32
24 27 0.43
25 15 0.24
26 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (24 bp):
TATACATAATAGTATTTAAGAATA
Found at i:78586298 original size:24 final size:24
Alignment explanation
Indices: 78586245--78586316 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
78586235 CATGGAATAG
* * *
78586245 TATAAGAAATATATAATTAATGGTA
1 TATAAAAAATATATAAATAAT-ATA
78586270 T-TAAAAAATATATAAATAATATA
1 TATAAAAAATATATAAATAATATA
* *
78586293 TATAAAATACATAT-AAT-ATATA
1 TATAAAAAATATATAAATAATATA
78586315 TA
1 TA
78586317 CGTATTAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.17
23 6 0.15
24 27 0.66
25 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (24 bp):
TATAAAAAATATATAAATAATATA
Found at i:78587088 original size:17 final size:17
Alignment explanation
Indices: 78587068--78587106 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
78587058 AAATAAAATA
*
78587068 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
78587085 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
78587102 AAAAT
1 AAAAT
78587107 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:78590742 original size:18 final size:18
Alignment explanation
Indices: 78590719--78590753 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78590709 TAATATTAAC
78590719 AATTAAACTTTAAAAAAA
1 AATTAAACTTTAAAAAAA
**
78590737 AATTAATTTTTAAAAAA
1 AATTAAACTTTAAAAAA
78590754 CATATTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAAACTTTAAAAAAA
Found at i:78592544 original size:22 final size:22
Alignment explanation
Indices: 78592486--78592545 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
78592476 GTAGCAATAT
* *
78592486 AATAGCGAAATGACAACAAAAC
1 AATAGCAAAATGAGAACAAAAC
*
78592508 AGTAGCAAAATGAGAACAAAAC
1 AATAGCAAAATGAGAACAAAAC
78592530 AATAGCAACAA-GAGAA
1 AATAGCAA-AATGAGAA
78592546 AGTTTAGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 31 0.94
23 2 0.06
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (22 bp):
AATAGCAAAATGAGAACAAAAC
Found at i:78593389 original size:21 final size:23
Alignment explanation
Indices: 78593363--78593411 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
78593353 AAACTAGTTC
78593363 AAGTTTGAGGGCTCAT-AT-TTG
1 AAGTTTGAGGGCTCATGATGTTG
*
78593384 AAGTTT-AGGGTTCATGATGTTG
1 AAGTTTGAGGGCTCATGATGTTG
78593406 -AGTTTG
1 AAGTTTG
78593412 GGGTTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 3 0.12
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (23 bp):
AAGTTTGAGGGCTCATGATGTTG
Found at i:78602380 original size:73 final size:68
Alignment explanation
Indices: 78602308--78602532 Score: 246
Period size: 66 Copynumber: 3.2 Consensus size: 68
78602298 AAGTATTAAA
*
78602308 AAAAGTAAAAGAATAAATAAATAAATAAATTGATAAAACAAATATGAATAATATCGAATTTAAAT
1 AAAAGTAAAAGAATAAATAAATAAATAAATTGATAAAACAAATAT-AATAATAT-AAATTTAAAT
78602373 GTTTT
64 GTTTT
* *
78602378 AAAAGTAAAAGAATAAATAAGTAAAT--A--GATAAAATAAATATACATAATATTAAATTTAAAT
1 AAAAGTAAAAGAATAAATAAATAAATAAATTGATAAAACAAATATA-ATAATA-TAAATTTAAAT
78602439 AG-TTT
64 -GTTTT
* *
78602444 AAAAGTAAAAGAATGAAAAATAAATAAATAAATTGATAAAACAACTATAAATAATATTACATTTA
1 AAAAGTAAAAGAAT---AAATAAATAAATAAATTGATAAAACAAATAT-AATAATA-TAAATTTA
*
78602509 AAT-ATTT
61 AATGTTTT
*
78602516 GAAAGATAAAAGAATAA
1 AAAAG-TAAAAGAATAA
78602533 CGAACAAATA
Statistics
Matches: 134, Mismatches: 8, Indels: 26
0.80 0.05 0.15
Matches are distributed among these distances:
65 1 0.01
66 45 0.34
67 2 0.01
68 1 0.01
69 11 0.08
70 27 0.20
71 1 0.01
72 7 0.05
73 38 0.28
74 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (68 bp):
AAAAGTAAAAGAATAAATAAATAAATAAATTGATAAAACAAATATAATAATATAAATTTAAATGT
TTT
Found at i:78602542 original size:73 final size:73
Alignment explanation
Indices: 78602392--78602581 Score: 222
Period size: 73 Copynumber: 2.6 Consensus size: 73
78602382 GTAAAAGAAT
* * *
78602392 AAATAAGTAAATAGATAAAATAAATATACATAATATTAAATTTAAATAGTTTAAAAGTAAAAGAA
1 AAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAATAGTTTAAAAGTAAAAGAA
*
78602457 TGAAAAAT
66 TGAAAAAC
* * * *
78602465 AAATAAATAAATTGATAAAACAACTATAAATAATATTACATTTAAATA-TTTGAAAGATAAAAGA
1 AAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAATAGTTTAAAAG-TAAAAGA
*
78602529 AT-AACGAAC
65 ATGAA-AAAC
* * * * *
78602538 AAATAAATAAATAAATATAATAGATATGAATAATATTAAATTTA
1 AAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTA
78602582 GGTATTAAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
72 9 0.09
73 89 0.91
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (73 bp):
AAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAATAGTTTAAAAGTAAAAGAA
TGAAAAAC
Found at i:78604713 original size:27 final size:27
Alignment explanation
Indices: 78604647--78604724 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
78604637 CAAGAAATCC
78604647 CATGTTTAATGTCCTGGTGGACTATCTCA
1 CATGTTT-ATGTCCTGGTGGACTATCT-A
*
78604676 CAT-TTTATGTCCTAGTGGACTATCT-
1 CATGTTTATGTCCTGGTGGACTATCTA
* *
78604701 CGTGTTTACTGTCCCGGTGGACTA
1 CATGTTTA-TGTCCTGGTGGACTA
78604725 CCCCGTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.05
26 4 0.09
27 31 0.72
28 3 0.07
29 3 0.07
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
CATGTTTATGTCCTGGTGGACTATCTA
Found at i:78604735 original size:27 final size:27
Alignment explanation
Indices: 78604690--78604743 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
78604680 TTATGTCCTA
* * * *
78604690 GTGGACTATCTCGTGTTTACTGTCCCG
1 GTGGACTACCCCGTATTTACTATCCCG
78604717 GTGGACTACCCCGTATTTACTATCCCG
1 GTGGACTACCCCGTATTTACTATCCCG
78604744 ACAGGCTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (27 bp):
GTGGACTACCCCGTATTTACTATCCCG
Found at i:78606028 original size:12 final size:13
Alignment explanation
Indices: 78606013--78606041 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
78606003 TTGAATTTTA
78606013 TTAGGATTATT-T
1 TTAGGATTATTAT
78606025 TTAGGATTATTAT
1 TTAGGATTATTAT
78606038 TTAG
1 TTAG
78606042 ATTTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (13 bp):
TTAGGATTATTAT
Found at i:78609770 original size:46 final size:46
Alignment explanation
Indices: 78609710--78609856 Score: 188
Period size: 46 Copynumber: 3.2 Consensus size: 46
78609700 TTTGACGTGA
* * * *
78609710 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
78609756 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * * * *
78609802 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
78609848 TGCCATGGT
1 TGCCATGGT
78609857 CTTACACATC
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 5 0.06
46 84 0.94
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:78609856 original size:30 final size:30
Alignment explanation
Indices: 78609820--78609886 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
78609810 TATCTTTCAA
78609820 CCATGGTCTTACACATCTCATATCAGGTTG
1 CCATGGTCTTACACATCTCATATCAGGTTG
78609850 CCATGGTCTTACACATCTCATATCAGGTTG
1 CCATGGTCTTACACATCTCATATCAGGTTG
78609880 CCATGGT
1 CCATGGT
78609887 ATCTTTCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (30 bp):
CCATGGTCTTACACATCTCATATCAGGTTG
Found at i:78609900 original size:46 final size:46
Alignment explanation
Indices: 78609850--78610005 Score: 238
Period size: 46 Copynumber: 3.6 Consensus size: 46
78609840 TATCAGGTTG
*
78609850 CCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
78609896 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
*
78609942 CCATGGTCTT----A--T-ACA-CAGGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
78609980 CCATGGTCTTACACATTTCATATCAG
1 CCATGGTCTTACACATTTCATATCAG
78610006 AGAGCACACT
Statistics
Matches: 99, Mismatches: 3, Indels: 16
0.84 0.03 0.14
Matches are distributed among these distances:
38 33 0.33
39 2 0.02
40 1 0.01
42 2 0.02
44 1 0.01
45 2 0.02
46 58 0.59
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
Found at i:78609900 original size:76 final size:80
Alignment explanation
Indices: 78609791--78610005 Score: 312
Period size: 76 Copynumber: 2.7 Consensus size: 80
78609781 CTTATTCTTT
* * *
78609791 TCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGG
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
78609856 -TCTTAC-A-CA-TC
66 ATCTTACAACCAGTC
78609867 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
*
78609932 TATCTTTCAACCATGGTC
66 -ATCTTACAACCA--GTC
* *
78609950 TTATACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCATA-TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
78610006 AGAGCACACT
Statistics
Matches: 125, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
76 62 0.50
78 5 0.04
79 1 0.01
80 2 0.02
83 6 0.05
84 49 0.39
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (80 bp):
TCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
ATCTTACAACCAGTC
Found at i:78612155 original size:11 final size:11
Alignment explanation
Indices: 78612139--78612186 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
78612129 CTTTATATAC
78612139 TAATAAAATAA
1 TAATAAAATAA
78612150 TAATAAAATATA
1 TAATAAAATA-A
* *
78612162 TTATTAAAATAT
1 -TAATAAAATAA
78612174 TAATAAAATAA
1 TAATAAAATAA
78612185 TA
1 TA
78612187 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:78612169 original size:24 final size:24
Alignment explanation
Indices: 78612133--78612188 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
78612123 TTCTTTCTTT
*
78612133 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
78612157 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
78612181 ATAATATT
1 AT-ATATT
78612189 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:78613483 original size:19 final size:19
Alignment explanation
Indices: 78613461--78613548 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
78613451 TAATAATAAT
78613461 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATGTAC
*
78613480 ATAAAAATACATATATATATGTGC
1 AT-AAAAT--A-ATA-ATATGTAC
*
78613504 ATATAATAA-AAGTATGTA-
1 ATAAAATAATAA-TATGTAC
*
78613522 ATAATAATAATAATATCTAC
1 ATAA-AATAATAATATGTAC
78613542 AATAAAA
1 -ATAAAA
78613549 GAAAATATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
18 4 0.07
19 18 0.33
20 10 0.19
21 5 0.09
22 1 0.02
23 7 0.13
24 9 0.17
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAAAATAATAATATGTAC
Found at i:78613599 original size:15 final size:15
Alignment explanation
Indices: 78613561--78613599 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
78613551 AAATATTAGG
*
78613561 AAATGTACATAAAAA
1 AAATATACATAAAAA
*
78613576 ATATATACATAAAAA
1 AAATATACATAAAAA
*
78613591 AAATTTACA
1 AAATATACA
78613600 ACAATAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (15 bp):
AAATATACATAAAAA
Found at i:78613639 original size:18 final size:19
Alignment explanation
Indices: 78613618--78613653 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
78613608 ATAAATAATG
78613618 ATATGTACA-AAAATATAT
1 ATATGTACATAAAATATAT
78613636 ATATGTACATAAAATATA
1 ATATGTACATAAAATATA
78613654 CACTAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (19 bp):
ATATGTACATAAAATATAT
Found at i:78613867 original size:11 final size:11
Alignment explanation
Indices: 78613840--78613884 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
78613830 TTGCATTAAA
*
78613840 AAAATATATAC
1 AAAATATATAT
*
78613851 ATAATATATAT
1 AAAATATATAT
*
78613862 AAAATACATAT
1 AAAATATATAT
*
78613873 AATATATATAT
1 AAAATATATAT
78613884 A
1 A
78613885 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:78614388 original size:23 final size:23
Alignment explanation
Indices: 78614344--78614404 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
78614334 ATATATAAAG
78614344 AAAGAAAGAAAAACA-ACACAAAA
1 AAAGAAAGAAAAA-AGACACAAAA
**
78614367 AAAGAAAGAAAAAAGATTCAAAA
1 AAAGAAAGAAAAAAGACACAAAA
* *
78614390 GAAG-AGGAAAAAAGA
1 AAAGAAAGAAAAAAGA
78614405 AAAAATGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.74, C:0.07, G:0.16, T:0.03
Consensus pattern (23 bp):
AAAGAAAGAAAAAAGACACAAAA
Found at i:78614688 original size:19 final size:18
Alignment explanation
Indices: 78614661--78614725 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
78614651 CTAGGGTTTC
*
78614661 TTAGTTTTTTTTTTTTAGG
1 TTAGGTTTTTTTTTTT-GG
*
78614680 TTAGGTTTTTTCTTTT--
1 TTAGGTTTTTTTTTTTGG
*
78614696 TT--CTTTTTTTTTTTGGG
1 TTAGGTTTTTTTTTTT-GG
78614713 TTAGGTTTTTTTT
1 TTAGGTTTTTTTT
78614726 GGGGGAGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 10 0.28
16 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.06, C:0.03, G:0.15, T:0.75
Consensus pattern (18 bp):
TTAGGTTTTTTTTTTTGG
Found at i:78616318 original size:32 final size:32
Alignment explanation
Indices: 78616277--78616340 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
78616267 ACAAATAGAG
78616277 ATAGTCGGGTGTTACACAAAACCCAATTCAGT
1 ATAGTCGGGTGTTACACAAAACCCAATTCAGT
78616309 ATAGTCGGGTGTTACACAAAACCCAATTCAGT
1 ATAGTCGGGTGTTACACAAAACCCAATTCAGT
78616341 CTAACCCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (32 bp):
ATAGTCGGGTGTTACACAAAACCCAATTCAGT
Found at i:78619457 original size:13 final size:14
Alignment explanation
Indices: 78619439--78619468 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
78619429 TACCACACTC
78619439 GTTAGTTAA-TTTA
1 GTTAGTTAATTTTA
78619452 GTTAGTTAATTTTA
1 GTTAGTTAATTTTA
78619466 GTT
1 GTT
78619469 TTAATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
GTTAGTTAATTTTA
Done.