Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 171 of 207
Found at i:52865278 original size:6 final size:6
Alignment explanation
Indices: 52865220--52865304 Score: 71
Period size: 6 Copynumber: 13.7 Consensus size: 6
52865210 TATTTCTATT
* * * * *
52865220 TTTTTG TTTTTA TTTTTA TTTTTA TTTATG TTTTTCTG TTTTTC TTCTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTT-TG TTTTTG TT-TTTG
* * *
52865271 TTTTTG TTTTTG CTTTTG TTTTTA TTTTTA TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTT
52865305 ATTATGCACT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
6 53 0.79
7 12 0.18
8 2 0.03
ACGTcount: A:0.07, C:0.05, G:0.08, T:0.80
Consensus pattern (6 bp):
TTTTTG
Found at i:52874916 original size:7 final size:7
Alignment explanation
Indices: 52874906--52874942 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
52874896 GTTTTTGGGT
*
52874906 TTTAGGA
1 TTTAGGG
*
52874913 TTTAGTG
1 TTTAGGG
52874920 TTTAGGG
1 TTTAGGG
52874927 TTTAGGG
1 TTTAGGG
52874934 TTTAGGG
1 TTTAGGG
52874941 TT
1 TT
52874943 AAAAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:52876657 original size:9 final size:9
Alignment explanation
Indices: 52876643--52876675 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
52876633 TTAAGAAATA
52876643 TAAAATATC
1 TAAAATATC
52876652 TAAAAT-TC
1 TAAAATATC
52876660 TTAAAATATC
1 -TAAAATATC
52876670 TAAAAT
1 TAAAAT
52876676 TCGGAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAATATC
Found at i:52876666 original size:18 final size:18
Alignment explanation
Indices: 52876643--52876677 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
52876633 TTAAGAAATA
52876643 TAAAATATCTAAAATTCT
1 TAAAATATCTAAAATTCT
52876661 TAAAATATCTAAAATTC
1 TAAAATATCTAAAATTC
52876678 GGAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATATCTAAAATTCT
Found at i:52879904 original size:25 final size:25
Alignment explanation
Indices: 52879870--52879924 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
52879860 TTGAATGATA
52879870 AAGAATGAATTCCCATGACTCATTG
1 AAGAATGAATTCCCATGACTCATTG
*
52879895 AAGAATGAATTCCCATGACTCCTTG
1 AAGAATGAATTCCCATGACTCATTG
52879920 AAGAA
1 AAGAA
52879925 AATTGAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (25 bp):
AAGAATGAATTCCCATGACTCATTG
Found at i:52883411 original size:18 final size:18
Alignment explanation
Indices: 52883373--52883443 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
52883363 AAATCGGGAT
52883373 AATGATATTGAAATGGAA
1 AATGATATTGAAATGGAA
* *
52883391 AATTATATTGAAGT-GACA
1 AATGATATTGAAATGGA-A
*
52883409 AATGATA-TGGAAT-G-A
1 AATGATATTGAAATGGAA
*
52883424 AATGAAATGTGAAATGGAA
1 AATGATAT-TGAAATGGAA
52883443 A
1 A
52883444 TCAAAATGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.17
17 12 0.29
18 20 0.49
19 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.23, T:0.27
Consensus pattern (18 bp):
AATGATATTGAAATGGAA
Found at i:52884548 original size:30 final size:30
Alignment explanation
Indices: 52884514--52884573 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
52884504 CCTGGCACAT
* *
52884514 GGTCGTGTGCCATACATGGGCTTACGGCAC
1 GGTCGTGTGCCATACACGAGCTTACGGCAC
*
52884544 GGTCGTGTGCCATACACGAGCTTATGGCAC
1 GGTCGTGTGCCATACACGAGCTTACGGCAC
52884574 AACCGTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (30 bp):
GGTCGTGTGCCATACACGAGCTTACGGCAC
Found at i:52885652 original size:13 final size:13
Alignment explanation
Indices: 52885634--52885658 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52885624 TCCATTGGCT
52885634 TTTCTAATAAAGG
1 TTTCTAATAAAGG
52885647 TTTCTAATAAAG
1 TTTCTAATAAAG
52885659 CAACTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TTTCTAATAAAGG
Found at i:52886047 original size:21 final size:21
Alignment explanation
Indices: 52886023--52886068 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
52886013 ATGCATGAAT
*
52886023 TTAATTA-TTTGAAATTTACAA
1 TTAATTATTTTAAAATTT-CAA
52886044 TTAATTATTTTAAAATTTCAA
1 TTAATTATTTTAAAATTTCAA
52886065 TTAA
1 TTAA
52886069 CAAATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTATTTTAAAATTTCAA
Found at i:52890820 original size:34 final size:34
Alignment explanation
Indices: 52890769--52890888 Score: 163
Period size: 34 Copynumber: 3.5 Consensus size: 34
52890759 ACACGATTAA
52890769 CCATCCACCACACTAAATGCTCGTATGAGCTAAT
1 CCATCCACCACACTAAATGCTCGTATGAGCTAAT
*
52890803 CCATCCGA-CACATTAAATGCTCGTATGTA-CTAAT
1 CCATCC-ACCACACTAAATGCTCGTATG-AGCTAAT
* *
52890837 CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
1 CCATCCACCACACTAAATGCTCGTATGAGCTAAT
* *
52890871 CCATCCAGCACACCAAAT
1 CCATCCACCACACTAAAT
52890889 AACACTATAA
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
33 2 0.03
34 75 0.95
35 2 0.03
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.23
Consensus pattern (34 bp):
CCATCCACCACACTAAATGCTCGTATGAGCTAAT
Found at i:52898452 original size:27 final size:27
Alignment explanation
Indices: 52898398--52898465 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
52898388 AATATATAAT
*
52898398 AATTATTAAATAATTAAATTGTACTTA
1 AATTATTAAATAATTAAATTGTAATTA
* *
52898425 AATTATTAACAT-ATTGAATTTTAATT-
1 AATTATTAA-ATAATTAAATTGTAATTA
52898451 AATT-TTATAATAATT
1 AATTATTA-AATAATT
52898466 TTTTATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 5 0.14
26 8 0.23
27 20 0.57
28 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTATTAAATAATTAAATTGTAATTA
Found at i:52898466 original size:11 final size:11
Alignment explanation
Indices: 52898435--52898478 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
52898425 AATTATTAAC
52898435 ATATTGAATTTT
1 ATATT-AATTTT
52898447 A-ATTAATTTT
1 ATATTAATTTT
*
52898457 ATAATAATTTT
1 ATATTAATTTT
*
52898468 TTATTAATTTT
1 ATATTAATTTT
52898479 GATTTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 7 0.25
11 20 0.71
12 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:52906795 original size:25 final size:26
Alignment explanation
Indices: 52906742--52906795 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
52906732 TTCTCCTGAA
* *
52906742 TTTCAATTTTATTTAATTATTTAATT
1 TTTCAATTTTATTGAATTAGTTAATT
52906768 TTTCAA-TTTATTGAATT-GTTAATAT
1 TTTCAATTTTATTGAATTAGTTAAT-T
52906793 TTT
1 TTT
52906796 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTAGTTAATT
Found at i:52912864 original size:16 final size:16
Alignment explanation
Indices: 52912843--52912881 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
52912833 TGTTTCGATA
*
52912843 GTTTGATAGTATGAAT
1 GTTTGATAGTATAAAT
52912859 GTTTGATAGTATAAAT
1 GTTTGATAGTATAAAT
52912875 GTTTGAT
1 GTTTGAT
52912882 TGAGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (16 bp):
GTTTGATAGTATAAAT
Found at i:52920071 original size:19 final size:19
Alignment explanation
Indices: 52920047--52920110 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
52920037 TTTTAAAAAC
*
52920047 ATTTTTACAACTTTTTAAT
1 ATTTTTACAAATTTTTAAT
* *
52920066 ATTTTTAATAAATTTTAAAT
1 ATTTTT-ACAAATTTTTAAT
*
52920086 A-TTTTACAATTTTTATAAT
1 ATTTTTACAAATTTT-TAAT
52920105 -TTTTTA
1 ATTTTTA
52920111 AGTTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 7 0.19
19 18 0.50
20 11 0.31
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTACAAATTTTTAAT
Found at i:52920202 original size:19 final size:19
Alignment explanation
Indices: 52920178--52920239 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 19
52920168 TTGTAATTTG
52920178 TATTTTTGT-AATTTTTATA
1 TATTTTT-TAAATTTTTATA
*
52920197 TATTTTTTAAGATTTTAGATA
1 TATTTTTTAA-ATTTT-TATA
*
52920218 TATTTTTCTGAATTTTT-TA
1 TATTTTT-TAAATTTTTATA
52920237 TAT
1 TAT
52920240 AATTGTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.36
20 5 0.14
21 15 0.42
22 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (19 bp):
TATTTTTTAAATTTTTATA
Found at i:52920239 original size:21 final size:21
Alignment explanation
Indices: 52920189--52920240 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
52920179 ATTTTTGTAA
52920189 TTTTTATATATTTTTTAAGAT
1 TTTTTATATATTTTTTAAGAT
** *
52920210 TTTAGATATATTTTTCTGA-AT
1 TTTTTATATATTTTT-TAAGAT
52920231 TTTTTATATA
1 TTTTTATATA
52920241 ATTGTTCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (21 bp):
TTTTTATATATTTTTTAAGAT
Found at i:52924480 original size:5 final size:5
Alignment explanation
Indices: 52924470--52924497 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
52924460 TTTGCACCCA
52924470 AAACC AAACC AAACC AAACC AAACC AAA
1 AAACC AAACC AAACC AAACC AAACC AAA
52924498 ACCTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:52930537 original size:36 final size:37
Alignment explanation
Indices: 52930485--52930554 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
52930475 TTATATATGT
* *
52930485 ATTATTATTTATTAGCATGATTATTAT-TTTATTCTC
1 ATTATCATTTACTAGCATGATTATTATATTTATTCTC
* *
52930521 ATTATCATTTACTAGCATGGTTATTTTATTTATT
1 ATTATCATTTACTAGCATGATTATTATATTTATT
52930555 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 23 0.79
37 6 0.21
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (37 bp):
ATTATCATTTACTAGCATGATTATTATATTTATTCTC
Found at i:52936323 original size:17 final size:17
Alignment explanation
Indices: 52936301--52936337 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
52936291 CCAAGGCGCA
52936301 CAACCACCATACCGAAT
1 CAACCACCATACCGAAT
* *
52936318 CAACCATCATACTGAAT
1 CAACCACCATACCGAAT
52936335 CAA
1 CAA
52936338 ATCTTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.16
Consensus pattern (17 bp):
CAACCACCATACCGAAT
Found at i:52937953 original size:40 final size:41
Alignment explanation
Indices: 52937909--52938142 Score: 173
Period size: 43 Copynumber: 5.6 Consensus size: 41
52937899 ACAAATGCCT
52937909 CTAAAGGTTATGTTCTTTAGCGGCGCTACAAAAAAAA-CCG
1 CTAAAGGTTATGTTCTTTAGCGGCGCTACAAAAAAAACCCG
*
52937949 CTAAAGGTTATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCG
1 CTAAAGGTTATGTTCTTTAGCGGCGCTACAAAAAAAAC-CCG
* * * * * *
52937991 CAAAAGGTCATGTTCTTTAGCGGCACTGCTACAACAAACGCCG
1 CTAAAGGTTATGTTCTTTAGCGGCGCTAC-AAAAAAAAC-CCG
* *** ** * * **
52938034 CGAAAGAACATGACCTTTAGCGGCGCATACCAACAAATGCCG
1 CTAAAGGTTATGTTCTTTAGCGGCGC-TACAAAAAAAACCCG
* * * * *** *
52938076 CTAAAGCTCATGTTCTTTAGCAGCGCTTTCTCCACAAACGCCG
1 CTAAAGGTTATGTTCTTTAGCGGCGC-TACAAAAAAAAC-CCG
*
52938119 CTAAAGGTCATGTTCTTTAGCGGC
1 CTAAAGGTTATGTTCTTTAGCGGC
52938143 AATTTTTTCC
Statistics
Matches: 152, Mismatches: 37, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
40 36 0.24
42 55 0.36
43 59 0.39
44 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (41 bp):
CTAAAGGTTATGTTCTTTAGCGGCGCTACAAAAAAAACCCG
Found at i:52937997 original size:42 final size:42
Alignment explanation
Indices: 52937898--52938142 Score: 235
Period size: 42 Copynumber: 5.8 Consensus size: 42
52937888 CGTTTACAGA
* * *
52937898 AACAAATGCCTCTAAAGGTTATGTTCTTTAGCGGCGC-T-AC
1 AACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCAC
* ** * *
52937938 AAAAAAAACCGCTAAAGGTTATGTTCTTTAGCGGCGCTTCAA
1 AACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCAC
* * * *
52937980 AAAAAACGCCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTAC
1 AACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTC-AC
* ** ** *
52938023 AACAAACGCCGCGAAAGAACATGACCTTTAGCGGCGCAT-ACC
1 AACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCA-C
* * * *
52938065 AACAAATGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCTC
1 AACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTCAC
*
52938108 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
1 AACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
52938143 AATTTTTTCC
Statistics
Matches: 165, Mismatches: 34, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
40 33 0.20
41 2 0.01
42 66 0.40
43 64 0.39
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
AACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCAC
Found at i:52938137 original size:85 final size:85
Alignment explanation
Indices: 52937946--52938142 Score: 218
Period size: 85 Copynumber: 2.3 Consensus size: 85
52937936 ACAAAAAAAA
* * *
52937946 CCGCTAAAGGTTATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCGCAAAAGGTCATGTTCTTTAG
1 CCGCTAAAGGTCATGTTCTTTAGCGGCGCTACAAAAAAAACGCCGCAAAAGCTCATGTTCTTTAG
*
52938011 CGGCACTGCTACAACAAACG
66 CAGCACTGCTACAACAAACG
* ** ** * * * *
52938031 CCGCGAAAGAACATGACCTTTAGCGGCGCATAC-CAACAAATGCCGCTAAAGCTCATGTTCTTTA
1 CCGCTAAAGGTCATGTTCTTTAGCGGCGC-TACAAAAAAAACGCCGCAAAAGCTCATGTTCTTTA
* * *
52938095 GCAGCGCTTTCT-CCACAAACG
65 GCAGCAC-TGCTACAACAAACG
52938116 CCGCTAAAGGTCATGTTCTTTAGCGGC
1 CCGCTAAAGGTCATGTTCTTTAGCGGC
52938143 AATTTTTTCC
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
85 84 0.94
86 5 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (85 bp):
CCGCTAAAGGTCATGTTCTTTAGCGGCGCTACAAAAAAAACGCCGCAAAAGCTCATGTTCTTTAG
CAGCACTGCTACAACAAACG
Found at i:52938600 original size:21 final size:21
Alignment explanation
Indices: 52938576--52938626 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
52938566 TTCTTTTGAA
* *
52938576 CCTCTGCTTCTCTCGTTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
52938597 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
52938618 CCTCTGCTT
1 CCTCTGCTT
52938627 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:52944817 original size:46 final size:47
Alignment explanation
Indices: 52944768--52945043 Score: 217
Period size: 46 Copynumber: 5.6 Consensus size: 47
52944758 TGGTAGCTTT
52944768 AGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTC
1 AGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT-A-A---TC
* * *
52944820 GGCTATACTTATCTGATCAAGTGATAAAGT-GATAAGTGAT-AGCT--TC
1 AGCTACACTTATCTGATCAAGTGA-CAAGTGGA-AAGTGATAAG-TAATC
* *
52944866 GGCTATACTTATCTGATCAAGTGACAAAGT-GATAAGTGAT-AGCT--TC
1 AGCTACACTTATCTGATCAAGTGAC-AAGTGGA-AAGTGATAAG-TAATC
52944912 AGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTC
1 AGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT-A-A---TC
* * *
52944964 GGCTACACTTATCTGATCAAGTGACAAGTGACAAAGTGATAAGTGATAGCTTT
1 AGCTACACTTATCTGATCAAGTGACAAGTG-GAAAGTGATAAGT-A-A---TC
*
52945017 AGCTACACTTATCTGATCAAGAGACAA
1 AGCTACACTTATCTGATCAAGTGACAA
52945044 AGTGATAAGT
Statistics
Matches: 199, Mismatches: 11, Indels: 27
0.84 0.05 0.11
Matches are distributed among these distances:
45 12 0.06
46 73 0.37
52 57 0.29
53 57 0.29
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (47 bp):
AGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATC
Found at i:52944853 original size:98 final size:97
Alignment explanation
Indices: 52944733--52945054 Score: 438
Period size: 98 Copynumber: 3.3 Consensus size: 97
52944723 TTTGAGTACT
* **
52944733 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-
* * *
52944798 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
52944831 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
52944891 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
52944923 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
52944988 CAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTG--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
52945028 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
52945055 GCTACACTTA
Statistics
Matches: 200, Mismatches: 11, Indels: 25
0.85 0.05 0.11
Matches are distributed among these distances:
92 41 0.20
95 1 0.00
96 1 0.00
98 101 0.50
99 13 0.06
102 1 0.00
105 42 0.21
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:52945062 original size:37 final size:37
Alignment explanation
Indices: 52945018--52945163 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
52945008 GATAGCTTTA
*
52945018 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
52945055 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
52945092 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
52945129 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
52945164 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:52947318 original size:20 final size:21
Alignment explanation
Indices: 52947295--52947392 Score: 102
Period size: 20 Copynumber: 5.0 Consensus size: 21
52947285 TAGAAATTTT
52947295 ATCTTAATATTATATAA-TTA
1 ATCTTAATATTATATAAGTTA
52947315 ATCTTAATATTATATAAGTT-
1 ATCTTAATATTATATAAGTTA
* * * *
52947335 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAAGTTA
52947352 ATCTTAATATTATATAAG-TA
1 ATCTTAATATTATATAAGTTA
*
52947372 ATCTTAATATCATATAAGTTA
1 ATCTTAATATTATATAAGTTA
52947393 TATTAATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.06
17 7 0.11
18 2 0.03
19 2 0.03
20 42 0.67
21 6 0.10
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
ATCTTAATATTATATAAGTTA
Found at i:52947322 original size:57 final size:57
Alignment explanation
Indices: 52947261--52947380 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 57
52947251 AAATTAGAAA
* *
52947261 TTAATAGTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAATTAATC
1 TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
* * *
52947318 TTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
1 TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
52947375 TTAATA
1 TTAATA
52947381 TCATATAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (57 bp):
TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
Found at i:52947341 original size:25 final size:20
Alignment explanation
Indices: 52947295--52947411 Score: 93
Period size: 20 Copynumber: 6.0 Consensus size: 20
52947285 TAGAAATTTT
52947295 ATCTTAATATTATATAATTA
1 ATCTTAATATTATATAATTA
52947315 ATCTTAATATTATATAAGTT-
1 ATCTTAATATTATATAA-TTA
* * *
52947335 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAA-TTA
*
52947352 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAATTA
*
52947372 ATCTTAATATCATATAAGTT-
1 ATCTTAATATTATATAA-TTA
* * *
52947392 ATATTAATTTTATGTAATTA
1 ATCTTAATATTATATAATTA
52947412 GAAATTGATG
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
16 4 0.05
17 7 0.09
18 2 0.03
19 4 0.05
20 54 0.71
21 5 0.07
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (20 bp):
ATCTTAATATTATATAATTA
Found at i:52947381 original size:57 final size:57
Alignment explanation
Indices: 52947274--52947393 Score: 222
Period size: 57 Copynumber: 2.1 Consensus size: 57
52947264 ATAGTAAACG
* *
52947274 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAATTAATCTTAATATTATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
52947331 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
52947388 AGTTAT
1 AGTTAT
52947394 ATTAATTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (57 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
Found at i:52948259 original size:13 final size:13
Alignment explanation
Indices: 52948241--52948275 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
52948231 CTAAATAAAC
52948241 TTCATTCAGAAAA
1 TTCATTCAGAAAA
52948254 TTCATTCAGAAAA
1 TTCATTCAGAAAA
52948267 TTCATTCAG
1 TTCATTCAG
52948276 CAATTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (13 bp):
TTCATTCAGAAAA
Found at i:52949625 original size:15 final size:16
Alignment explanation
Indices: 52949595--52949630 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
52949585 ATTTTTTTAA
*
52949595 ATATTAATTTATATTT
1 ATATTAATTTACATTT
52949611 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
52949626 ATATT
1 ATATT
52949631 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:52949806 original size:21 final size:21
Alignment explanation
Indices: 52949756--52949830 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
52949746 TGTAAGCCTT
* *
52949756 AACCGTAAATCATAAACCCCA
1 AACCGTAAACCCTAAACCCCA
**
52949777 AACTATAAACCCTAAACCCCA
1 AACCGTAAACCCTAAACCCCA
* * *
52949798 AACCGTAAACCTTAAATCCTA
1 AACCGTAAACCCTAAACCCCA
*
52949819 AACCTTAAACCC
1 AACCGTAAACCC
52949831 ATCAATTAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.17
Consensus pattern (21 bp):
AACCGTAAACCCTAAACCCCA
Found at i:52949807 original size:7 final size:7
Alignment explanation
Indices: 52949768--52949830 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
52949758 CCGTAAATCA
52949768 TAAACCC
1 TAAACCC
* **
52949775 CAAACTA
1 TAAACCC
52949782 TAAACCC
1 TAAACCC
52949789 TAAACCC
1 TAAACCC
* *
52949796 CAAACCG
1 TAAACCC
*
52949803 TAAACCT
1 TAAACCC
*
52949810 TAAATCC
1 TAAACCC
*
52949817 TAAACCT
1 TAAACCC
52949824 TAAACCC
1 TAAACCC
52949831 ATCAATTAAT
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:52949933 original size:21 final size:21
Alignment explanation
Indices: 52949909--52949984 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
52949899 ACTGTAAATC
52949909 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCATAAACA
*
52949930 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCATAAACA
* * *
52949952 --ACAACCACCAAATCATAAACT
1 TTA-AACC-CTAAACCATAAACA
52949973 TTAAACCCTAAA
1 TTAAACCCTAAA
52949985 ATCTAAACCG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 17 0.39
23 1 0.02
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
TTAAACCCTAAACCATAAACA
Found at i:52949945 original size:22 final size:21
Alignment explanation
Indices: 52949909--52949951 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
52949899 ACTGTAAATC
*
52949909 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCACAAACA
52949930 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCACAAACA
52949952 ACAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.16
Consensus pattern (21 bp):
TTAAACCCTAAACCACAAACA
Found at i:52950973 original size:227 final size:229
Alignment explanation
Indices: 52950692--52951143 Score: 633
Period size: 227 Copynumber: 2.0 Consensus size: 229
52950682 GCTGAAGACC
* *
52950692 AAACGCTGCGCTTCGGTTAAGATATTTTACAGCGCTTTTTATATTGCGCCGCTAACACTGTGATT
1 AAACGCTGCGCTTCGGTTAAGATATTTTACAGCGCTTTTTATATAGCACCGCTAACACTGTGATT
* * *
52950757 TAGCGGCGAGTTTCATAAGCGCCACTAATTCTAATATGCCTGAAGACC-AAACGTTGCGTTTTGG
66 TAGCGGCGAGTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGTAGCGTTTTGG
* * *
52950821 TTAAGATATTTTGCGATGCTTTTTATATAGCGCCGCTAATACTGTGCTTTTG-GGCG-TTTTTCA
131 TTAAGATATTTTGCGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGCA
**
52950884 TAAGCGCCACTAATTCTGGTATACCTCAAGACAA
196 TAAGCGCCACTAATTCTAATATACCTCAAGACAA
* * * * * * *
52950918 AAACGCTGCGTTTTTGGTTAAGATATTTTTCGGCGCTATTTT-TATAGCACCGCTAATAGTGTGC
1 AAACGCTGCG-CTTCGGTTAAGATATTTTACAGCGCT-TTTTATATAGCACCGCTAACACTGTGA
* ** * *
52950982 TTTAGTGGCGTTTTTCGTAAGCGCCACTAATTCTGATATACCTCAAGACCAAAACGTAGCGTTTT
64 TTTAGCGGCGAGTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGTAGCGTTTT
* * *
52951047 GGTTAAGATATTTTGCGGCGCTTTTTATATTGCGCCGCTAATACTGTTCTTTAGCGGCGCTTTTG
129 GGTTAAGATATTTTGCGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTG
52951112 CATAAGCGCCACTAATTCTAATATACCTCAAG
194 CATAAGCGCCACTAATTCTAATATACCTCAAG
52951144 CTCGTACGCT
Statistics
Matches: 196, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
226 10 0.05
227 82 0.42
228 66 0.34
229 4 0.02
230 34 0.17
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (229 bp):
AAACGCTGCGCTTCGGTTAAGATATTTTACAGCGCTTTTTATATAGCACCGCTAACACTGTGATT
TAGCGGCGAGTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGTAGCGTTTTGG
TTAAGATATTTTGCGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGCA
TAAGCGCCACTAATTCTAATATACCTCAAGACAA
Found at i:52951180 original size:114 final size:113
Alignment explanation
Indices: 52950686--52951183 Score: 601
Period size: 114 Copynumber: 4.4 Consensus size: 113
52950676 TCTATAGCTG
* * * * * *
52950686 AAGACCAAACGCTGCGCTTCGGTTAAGATATTTTACAGCGCTTTTTATATTGCGCCGCTAACACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
* ** * *
52950751 GTGATTTAGCGGCGAGTTTCATAAGCGCCACTAATTCTAATATGCCTG
66 GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* **
52950799 AAGACCAAACGTTGCGTTTTGGTTAAGATATTTTGCGATGCTTTTTATATAGCGCCGCTAATACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
* **
52950864 GTGCTTTTG-GGCGTTTTTCATAAGCGCCACTAATTCTGGTATACCTC
66 GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* * *
52950911 AAGACAAAAACGCTGCGTTTTTGGTTAAGATATTTTTCGGCGCTATTTT-TATAGCACCGCTAAT
1 AAGAC-CAAACGCTGCG-TTTTGGTTAAGATATTTTGCGGCGCT-TTTTATATAGCGCCGCTAAT
* * * *
52950975 AGTGTGCTTTAGTGGCGTTTTTCGTAAGCGCCACTAATTCTGATATACCTC
63 ACTGTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
*
52951026 AAGACCAAAACG-TAGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTGCGCCGCTAATA
1 AAGACC-AAACGCT-GCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATA
* *
52951090 CTGTTCTTTAGCGGCGCTTTTGCATAAGCGCCACTAATTCTAATATACCTC
64 CTGTGCTTTAGCGGCG-TTTTTCATAAGCGCCACTAATTCTAATATACCTC
** * * *
52951141 AAG-CTCGTACGCTGCGCTTTGTTTAACAT-TTTCTGCGGCGCTT
1 AAGAC-CAAACGCTGCGTTTTGGTTAAGATATTT-TGCGGCGCTT
52951184 ACAAATAAAC
Statistics
Matches: 332, Mismatches: 42, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
112 37 0.11
113 79 0.24
114 127 0.38
115 89 0.27
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (113 bp):
AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
Found at i:52954603 original size:43 final size:43
Alignment explanation
Indices: 52954537--52954821 Score: 282
Period size: 43 Copynumber: 6.7 Consensus size: 43
52954527 TTTTAAAAAT
* * *
52954537 AAACGCCGCTATAGACCATGACCTTTAGCAGTGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCAC
* * *
52954580 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTT-GCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCAC
* ** *
52954622 AAGCGCCATTATAGATC-GAGATCTTTAG-AGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGCA-GCGCTTTTCCCAC
* *
52954665 AAACGCCGCTATAGATC-GAGACCTTTAG-TGACACTTTTCCCAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGCAG-CGCTTTTCCCAC
* *
52954708 AAACGTCGCTATAGATCATGACCTTTAGCGGAGC-CTTTT-CCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGC--AGCGCTTTTCCCAC
* *
52954751 AAACGCCGCTATAGCTCAAGACCTTTAGC-GACGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCAG-CGCTTTTCCCAC
* *
52954794 AAACGCCGCTATAGAACA-AACCTTTAGC
1 AAACGCCGCTATAGATCAGGACCTTTAGC
52954822 GACGCTTCTC
Statistics
Matches: 203, Mismatches: 28, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
42 47 0.23
43 146 0.72
44 5 0.02
45 1 0.00
46 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCCCAC
Found at i:52954760 original size:86 final size:84
Alignment explanation
Indices: 52954537--52954822 Score: 333
Period size: 86 Copynumber: 3.3 Consensus size: 84
52954527 TTTTAAAAAT
* * * *
52954537 AAACGCCGCTATAGACCATGACCTTTAGCAGTGCTTTTCCCACAAACGCCGCTAAAGATCAGGAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGAGCTTTTCCCACAAACGCCGCTATAGATCA-GAC
* *
52954602 CTTTAGCGGCGCTTTT-GCAC
64 CTTTAGCGACGCTTTTCCCAC
* ** * * *
52954622 AAGCGCCATTATAGATCGAGATCTTTAGAGGCGCTTTTCCCACAAACGCCGCTATAGATCGAGAC
1 AAACGCCGCTATAGATC-AGACCTTTAGCGGAGCTTTTCCCACAAACGCCGCTATAGATC-AGAC
* *
52954687 CTTTAGTGACACTTTTCCCAC
64 CTTTAGCGACGCTTTTCCCAC
* *
52954708 AAACGTCGCTATAGATCATGACCTTTAGCGGAGCCTTTT-CCACAAACGCCGCTATAGCTCAAGA
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGAG-CTTTTCCCACAAACGCCGCTATAGATC-AGA
52954772 CCTTTAGCGACGCTTTTCCCAC
63 CCTTTAGCGACGCTTTTCCCAC
* *
52954794 AAACGCCGCTATAGAACAAACCTTTAGCG
1 AAACGCCGCTATAGATCAGACCTTTAGCG
52954823 ACGCTTCTCG
Statistics
Matches: 169, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
85 76 0.45
86 88 0.52
87 5 0.03
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (84 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGGAGCTTTTCCCACAAACGCCGCTATAGATCAGACCT
TTAGCGACGCTTTTCCCAC
Found at i:52954807 original size:129 final size:128
Alignment explanation
Indices: 52954570--52954848 Score: 353
Period size: 128 Copynumber: 2.2 Consensus size: 128
52954560 TTTAGCAGTG
* * * *
52954570 CTTTTCCCACAAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTGCACAAGCGCCATTATA
1 CTTTTCCCACAAACGCCGCTAAAGATCAGGACCTTTAGCGGAGCTTTTCCACAAACGCCACTATA
* * *
52954635 GATCGAGATCTTTAGAGGCGCTTTTCCCACAAACGCCGCTATAGATCGAGACCTTTAGTGACA
66 GATCAAGACCTTTAGAGACGCTTTTCCCACAAACGCCGCTATAGATCGAGACCTTTAGTGACA
* * * *
52954698 CTTTTCCCACAAACGTCGCTATAGATCATGACCTTTAGCGGAGCCTTTTCCACAAACGCCGCTAT
1 CTTTTCCCACAAACGCCGCTAAAGATCAGGACCTTTAGCGGAG-CTTTTCCACAAACGCCACTAT
* * * * * *
52954763 AGCTCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGAAC-AAACCTTTAGCGACG
65 AGATCAAGACCTTTAGAGACGCTTTTCCCACAAACGCCGCTATAGATCGAGACCTTTAGTGACA
* * * *
52954826 CTTCTCGCAAAAACGCCACTAAA
1 CTTTTCCCACAAACGCCGCTAAA
52954849 AACATAACAT
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
128 68 0.54
129 59 0.46
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (128 bp):
CTTTTCCCACAAACGCCGCTAAAGATCAGGACCTTTAGCGGAGCTTTTCCACAAACGCCACTATA
GATCAAGACCTTTAGAGACGCTTTTCCCACAAACGCCGCTATAGATCGAGACCTTTAGTGACA
Found at i:52956117 original size:22 final size:22
Alignment explanation
Indices: 52956086--52956129 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52956076 TACACCAAAA
*
52956086 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
*
52956108 TAGGCCTTTAGCGGTGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
52956130 AGCGCCGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:52956304 original size:43 final size:43
Alignment explanation
Indices: 52956251--52956376 Score: 171
Period size: 44 Copynumber: 2.9 Consensus size: 43
52956241 CGCTTTAGTG
* *
52956251 GAAGCGCCGCTAAAGATCAGGGTCTTTAGTGGCGTTTTTACGA
1 GAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTTTACGA
* * *
52956294 GAAGTGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGA
1 GAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCG-TTTTTACGA
* * *
52956338 CAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTTT
1 GAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTTT
52956377 CCCTAAAACG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 34 0.47
44 38 0.53
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTTTACGA
Found at i:52956411 original size:43 final size:43
Alignment explanation
Indices: 52956360--52956566 Score: 172
Period size: 43 Copynumber: 4.8 Consensus size: 43
52956350 AAGATTAGGG
*
52956360 TCTTTAGCGGCGCTTTTCCCTAAAACGCCGC-AAACGACCCTGA
1 TCTTTAGCGGCGCTTTTACCTAAAACGCCGCTAAA-GACCCTGA
* ** * * *
52956403 TCTATAGCGGCGCTTCGACC-ACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTTTTACCTA-AAACGCCGCTAAAGACCCTGA
* * * **
52956446 TCTTTAGCGGTGC--TTCCCCACAAACGCCGCTAAAGACAATGA
1 TCTTTAGCGGCGCTTTTACCTA-AAACGCCGCTAAAGACCCTGA
* * * * *
52956488 TCTTTAGGGGCGCTTTT-TCTGCAAACGCCGCGAAAGACCCTTA
1 TCTTTAGCGGCGCTTTTACCT-AAAACGCCGCTAAAGACCCTGA
* *
52956531 TCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAG
1 TCTTTAGCGGCGCTTTTACCTAAAACGCCGCTAAAG
52956567 GCCAACACCT
Statistics
Matches: 125, Mismatches: 32, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
41 2 0.02
42 30 0.24
43 87 0.70
44 6 0.05
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTTACCTAAAACGCCGCTAAAGACCCTGA
Found at i:52956579 original size:128 final size:128
Alignment explanation
Indices: 52956337--52956580 Score: 296
Period size: 128 Copynumber: 1.9 Consensus size: 128
52956327 GTTTTTTGCG
* ** *
52956337 ACAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTTTCCCTAAAACGCCGCAAACGACCCTG
1 ACAAACGCCGCTAAAGACAAGGATCTTTAGCGGCGCTTTTCCCTAAAACGCCGCAAACGACCCTG
* * *
52956402 ATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGTGCTTCCCC
66 ATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGTGCTTCCCC
* * * *
52956465 ACAAACGCCGCTAAAGACAATGATCTTTAGGGGCGCTTTT-TCTGCAAACGCCGCGAAA-GACCC
1 ACAAACGCCGCTAAAGACAAGGATCTTTAGCGGCGCTTTTCCCT-AAAACGCCGC-AAACGACCC
* * ** *
52956528 TTATCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAG-GCCAACACCTTTAG
64 TGATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAA-ACCTTTAG
52956581 TGGCGTTTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
127 5 0.05
128 89 0.92
129 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (128 bp):
ACAAACGCCGCTAAAGACAAGGATCTTTAGCGGCGCTTTTCCCTAAAACGCCGCAAACGACCCTG
ATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGTGCTTCCCC
Found at i:52956942 original size:21 final size:21
Alignment explanation
Indices: 52956916--52957008 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
52956906 ATTGACGCTG
52956916 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTACAGC
**
52956937 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTACAGC
*
52956958 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTACAGC
* * * * *
52956979 CTGTACTTCTCTCGCCACCGC
1 CTCTGCTTCCCTCGCTACAGC
*
52957000 TTCTGCTTC
1 CTCTGCTTC
52957009 TCTTGCTGCC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.06, C:0.45, G:0.15, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACAGC
Found at i:52957076 original size:66 final size:66
Alignment explanation
Indices: 52957004--52957145 Score: 207
Period size: 66 Copynumber: 2.2 Consensus size: 66
52956994 CACCGCTTCT
*
52957004 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
*
52957067 TTA
64 TCA
* * *
52957070 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
52957135 A
66 A
52957136 GCTTCTCTCG
1 GCTTCTCTCG
52957146 ATGTTGCCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:52957161 original size:66 final size:65
Alignment explanation
Indices: 52957004--52957169 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 65
52956994 CACCGCTTCT
* * * * * *
52957004 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGAACCTC
52957069 A
65 A
* * *
52957070 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
52957134 CA
64 CA
* *
52957136 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTG
52957170 TAATTTGCTC
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 83 0.93
67 4 0.04
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.41
Consensus pattern (65 bp):
GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
Found at i:52962583 original size:9 final size:9
Alignment explanation
Indices: 52962566--52963166 Score: 197
Period size: 9 Copynumber: 67.8 Consensus size: 9
52962556 TAAGTATAAT
*
52962566 TAAGCTATG
1 TAAGTTATG
52962575 TAAGTTATG
1 TAAGTTATG
52962584 T-A-TTATG
1 TAAGTTATG
52962591 TAAGTTAT-
1 TAAGTTATG
*
52962599 TTA-TTATG
1 TAAGTTATG
* *
52962607 AAAATTATG
1 TAAGTTATG
*
52962616 TAAGTTGTG
1 TAAGTTATG
52962625 T-A-TTATG
1 TAAGTTATG
*
52962632 -AA--AAT-
1 TAAGTTATG
* *
52962637 TATGCTATG
1 TAAGTTATG
52962646 TAAGTTATG
1 TAAGTTATG
* *
52962655 TAAGTCATA
1 TAAGTTATG
52962664 TAAGTTATG
1 TAAGTTATG
52962673 T-A-TTATG
1 TAAGTTATG
52962680 TAAGTTATG
1 TAAGTTATG
52962689 TAAGTTAT-
1 TAAGTTATG
*
52962697 TTA-TTATG
1 TAAGTTATG
* * *
52962705 AAAATTAAG
1 TAAGTTATG
52962714 TAAGTTATG
1 TAAGTTATG
*
52962723 TAATTTATG
1 TAAGTTATG
*
52962732 -AA-TAAT-
1 TAAGTTATG
***
52962738 TAAAAAATG
1 TAAGTTATG
52962747 TAAGTTATG
1 TAAGTTATG
52962756 TAAG-T-TG
1 TAAGTTATG
52962763 TAAGTTATG
1 TAAGTTATG
*
52962772 TAATTTATG
1 TAAGTTATG
*
52962781 TATTGCATTAATG
1 TA-AG--TT-ATG
52962794 TAAGTTATG
1 TAAGTTATG
*
52962803 TAATTTATG
1 TAAGTTATG
*
52962812 -AA-TAAT-
1 TAAGTTATG
*** *
52962818 TAAAAAAAAG
1 T-AAGTTATG
52962828 TAAGTTATG
1 TAAGTTATG
52962837 TAAG-T-TG
1 TAAGTTATG
52962844 TAAGTTATG
1 TAAGTTATG
52962853 TAAGTTATG
1 TAAGTTATG
*
52962862 TATA-ATAT-
1 TA-AGTTATG
52962870 TAA-TTAAT-
1 TAAGTT-ATG
52962878 TAAGTTATG
1 TAAGTTATG
*
52962887 TAATTTATG
1 TAAGTTATG
*
52962896 TATTGCATTAATG
1 TA-AG--TT-ATG
52962909 TAAGTTATG
1 TAAGTTATG
*
52962918 TAACTTATG
1 TAAGTTATG
*
52962927 TATAATATTAATG
1 --TAA-GTT-ATG
*
52962940 CAAGTTATG
1 TAAGTTATG
*
52962949 TAATTTATG
1 TAAGTTATG
*
52962958 TATAATATTAATG
1 --TAA-GTT-ATG
52962971 TAAGTTATG
1 TAAGTTATG
*
52962980 TAATTTATG
1 TAAGTTATG
*
52962989 TATA-ATAT-
1 TA-AGTTATG
52962997 TAA-TTAAT-
1 TAAGTT-ATG
52963005 TAAGTTATG
1 TAAGTTATG
* *
52963014 TCATTTATG
1 TAAGTTATG
*
52963023 TATA-ATAT-
1 TA-AGTTATG
52963031 TAA-TTAAT-
1 TAAGTT-ATG
52963039 TAAGTTATG
1 TAAGTTATG
*
52963048 TAATTTATG
1 TAAGTTATG
*
52963057 TATAATATTAATG
1 --TAA-GTT-ATG
52963070 TAAGTTATG
1 TAAGTTATG
*
52963079 TAATTTATG
1 TAAGTTATG
*
52963088 TTTAATATTAATG
1 --TAA-GTT-ATG
52963101 TAAGTTATG
1 TAAGTTATG
52963110 TAAG-T-TG
1 TAAGTTATG
52963117 TAAGTTATG
1 TAAGTTATG
*
52963126 TAAGTTATA
1 TAAGTTATG
*
52963135 TATA-ATAT-
1 TA-AGTTATG
52963143 TAA-TTAAT-
1 TAAGTT-ATG
52963151 TAAGTTATG
1 TAAGTTATG
52963160 TAAGTTA
1 TAAGTTA
52963167 ACTATTTTAA
Statistics
Matches: 453, Mismatches: 73, Indels: 132
0.69 0.11 0.20
Matches are distributed among these distances:
6 3 0.01
7 59 0.13
8 64 0.14
9 251 0.55
10 17 0.04
11 23 0.05
12 14 0.03
13 22 0.05
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:52962592 original size:16 final size:16
Alignment explanation
Indices: 52962571--52962690 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
52962561 ATAATTAAGC
52962571 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
52962587 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
52962603 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
52962612 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
52962628 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
52962642 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
52962660 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
52962676 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
52962691 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:52962613 original size:25 final size:25
Alignment explanation
Indices: 52962585--52962739 Score: 129
Period size: 25 Copynumber: 6.2 Consensus size: 25
52962575 TAAGTTATGT
52962585 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
52962610 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
52962635 ATTATGCTATG-TA---AGTTATGTAA
1 ATTATG-TAAGTTATTTA-TTATGAAA
* * * * *
52962658 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
52962683 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
52962708 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTAT-TTA-TTATGAA-A
52962736 ATTA
1 ATTA
52962740 AAAAATGTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
22 4 0.04
23 12 0.11
25 71 0.68
26 6 0.06
27 7 0.07
28 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:52962717 original size:34 final size:35
Alignment explanation
Indices: 52962611--52962761 Score: 118
Period size: 34 Copynumber: 4.3 Consensus size: 35
52962601 ATTATGAAAA
* *
52962611 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTA----ATGTAAG
*
52962650 TTATGTAAGTCATAT-AAGTTATG--TATT-ATGTAAG
1 TTATGTAAGT--TATGAA-TTATGAAAATTAATGTAAG
**
52962684 TTATGTAAGTTATTTATTATGAAAATTAA-GTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * *
52962718 TTATGTAATTTATGAATAATTAAAA--AATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
52962751 TTATGTAAGTT
1 TTATGTAAGTT
52962762 GTAAGTTATG
Statistics
Matches: 93, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
32 10 0.11
33 16 0.17
34 45 0.48
35 1 0.01
39 13 0.14
40 1 0.01
41 7 0.08
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (35 bp):
TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
Found at i:52962773 original size:25 final size:26
Alignment explanation
Indices: 52962566--52962782 Score: 106
Period size: 25 Copynumber: 8.8 Consensus size: 26
52962556 TAAGTATAAT
* *
52962566 TAAGCTATGTAAGTTATGT-ATTATG
1 TAAGTTATGTAAGTTATGTAAGTATG
* * *
52962591 TAAGTTAT-TTA-TTATGAAAATTATG
1 TAAGTTATGTAAGTTATG-TAAGTATG
* *
52962616 TAAGTTGTGT-A-TTATG-AA-AAT-
1 TAAGTTATGTAAGTTATGTAAGTATG
* * *
52962637 TATGCTATGTAAGTTATGTAAGTCATA
1 TAAGTTATGTAAGTTATGTAAGT-ATG
52962664 TAAGTTATGT-A-TTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGTAAG-TATG
* * * *
52962689 TAAGTTAT-TTA-TTATGAAAATTAAG
1 TAAGTTATGTAAGTTATG-TAAGTATG
*
52962714 TAAGTTATGTAATTTATG-AA-TAAT-
1 TAAGTTATGTAAGTTATGTAAGT-ATG
***
52962738 TAAAAAATGTAAGTTATGTAAGT-TG
1 TAAGTTATGTAAGTTATGTAAGTATG
*
52962763 TAAGTTATGTAATTTATGTA
1 TAAGTTATGTAAGTTATGTA
52962783 TTGCATTAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
21 7 0.05
22 3 0.02
23 12 0.08
24 21 0.14
25 83 0.56
26 10 0.07
27 13 0.09
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (26 bp):
TAAGTTATGTAAGTTATGTAAGTATG
Found at i:52962796 original size:31 final size:31
Alignment explanation
Indices: 52962761--52963112 Score: 326
Period size: 31 Copynumber: 11.5 Consensus size: 31
52962751 TTATGTAAGT
**
52962761 TGTAAGTTATGTAATTTATGTATTGCATTAA
1 TGTAAGTTATGTAATTTATGTATTAAATTAA
**
52962792 TGTAAGTTATGTAATTTATGAATAATTAAAAAAA
1 TGTAAGTTATGTAATTTATG--T-ATTAAATTAA
* * *
52962826 AGTAAGTTATGTAA-GT-TG---TAAGTT-A
1 TGTAAGTTATGTAATTTATGTATTAAATTAA
*
52962851 TGTAAGTTATGT-A--TA-ATATT-AATTAA
1 TGTAAGTTATGTAATTTATGTATTAAATTAA
**
52962877 T-TAAGTTATGTAATTTATGTATTGCATTAA
1 TGTAAGTTATGTAATTTATGTATTAAATTAA
*
52962907 TGTAAGTTATGTAACTTATGTA-TAATATTAA
1 TGTAAGTTATGTAATTTATGTATTAA-ATTAA
*
52962938 TGCAAGTTATGTAATTTATGTA-TAATATTAA
1 TGTAAGTTATGTAATTTATGTATTAA-ATTAA
52962969 TGTAAGTTATGTAATTTATGTATAATATTAATTAA
1 TGTAAGTTATGTAATTTATGTAT--TA--AATTAA
*
52963004 T-TAAGTTATGTCATTTATGTATAATATTAATTAA
1 TGTAAGTTATGTAATTTATGTAT--TA--AATTAA
52963038 T-TAAGTTATGTAATTTATGTA-TAATATTAA
1 TGTAAGTTATGTAATTTATGTATTAA-ATTAA
52963068 TGTAAGTTATGTAATTTATGT-TTAATATTAA
1 TGTAAGTTATGTAATTTATGTATTAA-ATTAA
52963099 TGTAAGTTATGTAA
1 TGTAAGTTATGTAA
52963113 GTTGTAAGTT
Statistics
Matches: 276, Mismatches: 22, Indels: 46
0.80 0.06 0.13
Matches are distributed among these distances:
23 1 0.00
24 1 0.00
25 25 0.09
26 7 0.03
28 2 0.01
29 5 0.02
30 13 0.05
31 138 0.50
32 2 0.01
33 2 0.01
34 73 0.26
35 6 0.02
36 1 0.00
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (31 bp):
TGTAAGTTATGTAATTTATGTATTAAATTAA
Found at i:52962848 original size:16 final size:16
Alignment explanation
Indices: 52962827--52962858 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52962817 TTAAAAAAAA
52962827 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
52962843 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
52962859 ATGTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:52963120 original size:16 final size:16
Alignment explanation
Indices: 52963099--52963131 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52963089 TTAATATTAA
52963099 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
52963115 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
52963131 T
1 T
52963132 ATATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:52963124 original size:47 final size:49
Alignment explanation
Indices: 52963068--52963165 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 49
52963058 ATAATATTAA
* * *
52963068 TGTAAGTTATGTAATTTATGTTTAATATTAA-T-GTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
*
52963115 TGTAAGTTATGTAAGTTATATATAATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATT-AGTAAGTTATGTAAGT
52963165 T
1 T
52963166 AACTATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 28 0.64
48 1 0.02
50 15 0.34
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
Found at i:52963251 original size:16 final size:16
Alignment explanation
Indices: 52963230--52963262 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52963220 AACTCAATTA
52963230 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
52963246 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
52963262 T
1 T
52963263 CTACAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:52964196 original size:33 final size:33
Alignment explanation
Indices: 52964159--52964221 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
52964149 GAAAAATAAT
**
52964159 AATTAAACTATACAACTAAAATATAACCAAAAA
1 AATTAAACTATACAAAAAAAATATAACCAAAAA
52964192 AATTAAACTATACAAAAAAAATATAACCAA
1 AATTAAACTATACAAAAAAAATATAACCAA
52964222 CTTAAAGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (33 bp):
AATTAAACTATACAAAAAAAATATAACCAAAAA
Found at i:52964203 original size:20 final size:19
Alignment explanation
Indices: 52964175--52964213 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
52964165 ACTATACAAC
*
52964175 TAAAATATAACCAAAAAAAT
1 TAAAATAT-ACAAAAAAAAT
*
52964195 TAAACTATACAAAAAAAAT
1 TAAAATATACAAAAAAAAT
52964214 ATAACCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAATATACAAAAAAAAT
Found at i:52965646 original size:22 final size:22
Alignment explanation
Indices: 52965605--52965658 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
52965595 TTGTATTTTC
* *
52965605 ATTAAAATTTTTAGTAAATAATT
1 ATTAAAGTTTTAAGTAAAT-ATT
52965628 ATTAAAGTTTTAAGT-AATATT
1 ATTAAAGTTTTAAGTAAATATT
*
52965649 -TAAAAGTTTT
1 ATTAAAGTTTT
52965659 TGATAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 3 0.11
22 3 0.11
23 13 0.46
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTAAAGTTTTAAGTAAATATT
Found at i:52967214 original size:41 final size:41
Alignment explanation
Indices: 52967160--52967629 Score: 644
Period size: 41 Copynumber: 11.5 Consensus size: 41
52967150 GCGCTTCCTT
*
52967160 AAAAACGCCGCTAAAGGTA-C-GAGCATTAGCGGCTCTTATTA
1 AAAAACGCCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTA
*
52967201 AAAAACGCCGCTAAAGACCTGAGCATTAGCGACGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
*
52967242 AAAAACGCCGCTAAAGACCTGAG-AGTTAGCAGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCA-TTAGCGGCGCTTATTA
* **
52967283 GAAAACGCCGCTAAAGACCTGAAAATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * * *
52967324 AAAAACGCCGCTAAAGACCTGAGCACTAGCAGCGCCTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* * *
52967365 AAAAACGCCGCTAGATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* *
52967406 AAAAACGCCGCTAAAGACCTGAGCATTAGCAGCGAC-TATTT
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCG-CTTATTA
* *
52967447 AAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* *
52967488 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* *
52967529 AAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
*
52967570 AAAAACGCCTCTAAAGACCTGAGCATTAGCGGCGCTT-TTCA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATT-A
* *
52967611 GAAAATGCCGCTAAAGACC
1 AAAAACGCCGCTAAAGACC
52967630 CCAAAAACTC
Statistics
Matches: 386, Mismatches: 36, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.00
40 6 0.02
41 377 0.98
42 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
Found at i:52968188 original size:5 final size:5
Alignment explanation
Indices: 52968178--52968203 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
52968168 ACTTGGTTTG
52968178 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
52968204 CAAATTTAAA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:52969339 original size:35 final size:36
Alignment explanation
Indices: 52969256--52969344 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 36
52969246 TTTTGAACAC
52969256 AAAT-TATTTTATTTAAACTAATATTTAAACTTATT
1 AAATATATTTTATTTAAACTAATATTTAAACTTATT
* * *
52969291 CATTA-ATTCTATTTAAACTAATATTTAAA-TGT-TT
1 AAATATATTTTATTTAAACTAATATTTAAACT-TATT
52969325 AAATATATTTTATTTAAACT
1 AAATATATTTTATTTAAACT
52969345 TATTTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
34 6 0.13
35 39 0.87
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.51
Consensus pattern (36 bp):
AAATATATTTTATTTAAACTAATATTTAAACTTATT
Found at i:52969461 original size:58 final size:58
Alignment explanation
Indices: 52969277--52969436 Score: 293
Period size: 58 Copynumber: 2.8 Consensus size: 58
52969267 TTTAAACTAA
*
52969277 TATTTAAACTTATTCATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
52969335 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
* *
52969393 TATTTAAATTTATTTATTAATTCTATTTAACCTAATATTTAAAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAAT
52969437 ATATCAAATG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 99 1.00
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.53
Consensus pattern (58 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
Found at i:52969730 original size:14 final size:14
Alignment explanation
Indices: 52969711--52969751 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
52969701 AACCTTAAAT
52969711 CCCTAACTCTTAAC
1 CCCTAACTCTTAAC
52969725 CCCTAACATC-TAAC
1 CCCTAAC-TCTTAAC
*
52969739 CCCTAACCCTTAA
1 CCCTAACTCTTAA
52969752 ACCATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.88
15 2 0.08
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACTCTTAAC
Found at i:52970022 original size:15 final size:14
Alignment explanation
Indices: 52969989--52970027 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
52969979 CCTAACTCTT
52969989 AACCCCTAACGTCA
1 AACCCCTAACGTCA
*
52970003 AACCCCTAATGTCTA
1 AACCCCTAACGTC-A
*
52970018 AACCCATAAC
1 AACCCCTAAC
52970028 CCCTAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.38, C:0.38, G:0.05, T:0.18
Consensus pattern (14 bp):
AACCCCTAACGTCA
Found at i:52970073 original size:14 final size:14
Alignment explanation
Indices: 52970056--52970082 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52970046 AACCCTTAAA
52970056 CCATAATCCCTAAT
1 CCATAATCCCTAAT
52970070 CCATAATCCCTAA
1 CCATAATCCCTAA
52970083 ACCTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:52981402 original size:15 final size:15
Alignment explanation
Indices: 52981383--52981420 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
52981373 TAATTAAGGT
52981383 TTAATTAAATAATT-
1 TTAATTAAATAATTA
*
52981397 TATAATTAATTAATTA
1 T-TAATTAAATAATTA
52981413 TTAATTAA
1 TTAATTAA
52981421 GGTATATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAAATAATTA
Found at i:52984570 original size:16 final size:14
Alignment explanation
Indices: 52984541--52984574 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
52984531 TTAGCTTATT
52984541 AAATATAAATAAAA
1 AAATATAAATAAAA
* *
52984555 AAATATAAACATAA
1 AAATATAAATAAAA
52984569 AAATAT
1 AAATAT
52984575 TACAAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATATAAATAAAA
Found at i:52985162 original size:32 final size:34
Alignment explanation
Indices: 52985125--52985198 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
52985115 CTATGTTATA
* *
52985125 GTTTATGCTAATT-ATATTTTTATTATAA-GGAT
1 GTTTATGCTAATTGATATTATTATAATAAGGGAT
*
52985157 TTTTATGCTAATTGGATATTATTATAATAAGGGAT
1 GTTTATGCTAATT-GATATTATTATAATAAGGGAT
52985192 GTTTATG
1 GTTTATG
52985199 GGATTGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 12 0.34
34 13 0.37
35 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (34 bp):
GTTTATGCTAATTGATATTATTATAATAAGGGAT
Found at i:53002080 original size:35 final size:35
Alignment explanation
Indices: 53002029--53002228 Score: 113
Period size: 35 Copynumber: 5.6 Consensus size: 35
53002019 AGAGTTCATC
* * *
53002029 GATTTACAATCGCAACTTCATTGAAACAGCTCGTT
1 GATTTACGATCACAACTTCATTTAAACAGCTCGTT
* **
53002064 GATTTACGATCACAACTGTCATTTTTTAA-AGCTCACT
1 GATTTACGATCACAACT-TCA--TTTAAACAGCTCGTT
* * * *
53002101 AATTTACGATCATGAACACTTCA-TT-AAGAGTTCGTT
1 GATTTACGATCA--CA-ACTTCATTTAAACAGCTCGTT
** * * **
53002137 GATTTACGATTGCAACTCCATTTAAACAGTTCACT
1 GATTTACGATCACAACTTCATTTAAACAGCTCGTT
*
53002172 GATTTATGATCACAACTTTCATTTTTCAAAC--CTCGTT
1 GATTTACGATCACAAC-TTCA--TTT-AAACAGCTCGTT
*
53002209 GATTTACGATCACAGCTTCA
1 GATTTACGATCACAACTTCA
53002229 GTTCATTAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
33 5 0.04
34 3 0.02
35 38 0.31
36 26 0.21
37 34 0.27
38 7 0.06
39 8 0.06
40 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (35 bp):
GATTTACGATCACAACTTCATTTAAACAGCTCGTT
Found at i:53002183 original size:108 final size:108
Alignment explanation
Indices: 53001992--53002220 Score: 305
Period size: 108 Copynumber: 2.1 Consensus size: 108
53001982 TTCACTTTAT
* *
53001992 TAATTTACAATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCGCAACTTCATTGAAACA
1 TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCGCAACTCCATTGAAACA
** * *
53002057 GCTCGTTGATTTACGATCACAACTGTCATTTTTTAAAGCTCAC
66 GCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
* * * * *
53002100 TAATTTACGATCATGAACACTTCATTAAGAGTTCGTTGATTTACGATTGCAACTCCATTTAAACA
1 TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCGCAACTCCATTGAAACA
* * * **
53002165 GTTCACTGATTTATGATCACAACTTTCATTTTTCAAACCTCGT
66 GCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
*
53002208 TGATTTACGATCA
1 TAATTTACGATCA
53002221 CAGCTTCAGT
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 104 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (108 bp):
TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCGCAACTCCATTGAAACA
GCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
Found at i:53002410 original size:36 final size:36
Alignment explanation
Indices: 53002363--53002454 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
53002353 TCACAACTTC
* *
53002363 AGTTCATTGATTTATAATCATAAATAATTCATTAAA
1 AGTTCGTTGATTTATAATCATAAACAATTCATTAAA
* *
53002399 AGTTCGTTGATTTA-AGATCATGAACAATTCATTAAG
1 AGTTCGTTGATTTATA-ATCATAAACAATTCATTAAA
*
53002435 AGTTCGTTGATTTATGATCA
1 AGTTCGTTGATTTATAATCA
53002455 CAACTCCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (36 bp):
AGTTCGTTGATTTATAATCATAAACAATTCATTAAA
Found at i:53002411 original size:135 final size:135
Alignment explanation
Indices: 53002100--53002412 Score: 401
Period size: 135 Copynumber: 2.3 Consensus size: 135
53002090 TAAAGCTCAC
* * * * *
53002100 TAATTTACGATCATGAACACTTCATTAAGAGTTCGTTGATTTACGATTGCAACTCCATTTAAACA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
* ** * * * *
53002165 GTTCACTGATTTATGATCACAACTTTCATTTTTCAAACCTCGTTGATTTACGATCACAGCTTCAG
66 GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
53002230 TTCAT
131 TTCAT
* * * *** *
53002235 TAATTTACAATCATGACCACTTCATTAAGAGTTCACCGATTTACAATCGCAACTCCATTTAAATA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
* *
53002300 GTTCACAGATTTACAATCAAAACTGTAATTTTTTAAAGCTCGTTGATTTACGATCACAACTTCAG
66 GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
53002365 TTCAT
131 TTCAT
* * * *
53002370 TGATTTATAATCATAAATAATTCATTAAAAGTTCGTTGATTTA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTA
53002413 AGATCATGAA
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
135 151 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (135 bp):
TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
TTCAT
Found at i:53003614 original size:25 final size:25
Alignment explanation
Indices: 53003585--53003634 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
53003575 TAACTTTTTT
53003585 TTTATTTACCAAAATATATAAAAAA
1 TTTATTTACCAAAATATATAAAAAA
53003610 TTTATTTACCAAAATATATAAAAAA
1 TTTATTTACCAAAATATATAAAAAA
53003635 ACAAAAAAAA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (25 bp):
TTTATTTACCAAAATATATAAAAAA
Found at i:53003713 original size:27 final size:27
Alignment explanation
Indices: 53003683--53003776 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 27
53003673 CGCCAATGGG
*
53003683 ATTGGCGGCACCAAAT-GTGCCAAAACC
1 ATTGGCGGCACC-AATGGTGCCAATACC
*
53003710 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAATGGTGCCAATACC
* *
53003737 ATTGGTGGCACCAATGGTGCC-ATACTA
1 ATTGGCGGCACCAATGGTGCCAATAC-C
53003764 ATTGGCGGCACCA
1 ATTGGCGGCACCA
53003777 CTCGTATTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 6 0.10
27 53 0.90
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.19
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:53003872 original size:11 final size:11
Alignment explanation
Indices: 53003856--53003892 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
53003846 GTTGGCGCGG
53003856 AAAAGAAGAGA
1 AAAAGAAGAGA
53003867 AAAAG-AGAGA
1 AAAAGAAGAGA
*
53003877 AAAAGAGGAGA
1 AAAAGAAGAGA
53003888 AAAAG
1 AAAAG
53003893 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:53003956 original size:19 final size:21
Alignment explanation
Indices: 53003918--53003956 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
53003908 AATAATTGAT
*
53003918 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
53003939 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
53003957 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:53004038 original size:3 final size:3
Alignment explanation
Indices: 53004032--53004063 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
53004022 ATTATTATTA
53004032 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
53004064 AGTATTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:53004282 original size:26 final size:26
Alignment explanation
Indices: 53004253--53004305 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
53004243 TTTTAGTGTG
*
53004253 TATTATTTTGAGTATAAAATTATTAA
1 TATTATTTTGAGTATAAAATTAATAA
53004279 TATTATTTTGAGTATAAAATTAATAA
1 TATTATTTTGAGTATAAAATTAATAA
53004305 T
1 T
53004306 TTTAGTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TATTATTTTGAGTATAAAATTAATAA
Found at i:53005831 original size:27 final size:27
Alignment explanation
Indices: 53005793--53005868 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
53005783 TATTATTAAC
53005793 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
53005820 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
53005847 TGGTGCCGCCAATCCCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
53005869 GTGACCAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.14, C:0.30, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:53005940 original size:26 final size:26
Alignment explanation
Indices: 53005910--53005961 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
53005900 TTTTTTTGTT
53005910 TTTTTGGATATATTTTGGTAAATAAA
1 TTTTTGGATATATTTTGGTAAATAAA
**
53005936 TTTTTTTATATATTTTGGTAAATAAA
1 TTTTTGGATATATTTTGGTAAATAAA
53005962 AAAGTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (26 bp):
TTTTTGGATATATTTTGGTAAATAAA
Found at i:53018487 original size:64 final size:64
Alignment explanation
Indices: 53018419--53018760 Score: 179
Period size: 64 Copynumber: 5.2 Consensus size: 64
53018409 GTTAAGCTTC
53018419 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
1 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
* * * * * *
53018483 GCTGATTTTATATCACTACTCTAAATAGCTCGTT-GATTTAATATTGCAGCTG--ATATC--AT-
1 GCTGATTTAATATCGCAAC-CT--A-AGTTCATTCGATTTAATA-T-CA--TGAAAAATCTTATC
*
53018542 TAAGGTTCA
58 TGA-GTT-A
* * ** * *
53018551 -CTAATTTAATATCGCAACCTAAGTTCTTTTAATTTAATATCATGAACAATCTTATCTGAGTGA
1 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
* * * * * *
53018614 ACTGATTTAATATCGCTACTCTAA--ACAACTAGCTGATTTAATATC-TCAATTGATATCGTTA-
1 GCTGATTTAATATCGCAAC-CTAAGTTC-A-T-TC-GATTTAATATCATGAA---AAATC-TTAT
* *
53018675 -AG-GTTC
57 CTGAGTTA
* * * * *
53018681 GCTAATTTAATATCACAACCTAAGTTCATTTGATTTAATATCATGAACAATATTATCTGAGTTA
1 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
*
53018745 GTTGATTTAATATCGC
1 GCTGATTTAATATCGC
53018761 TACTCTAAAC
Statistics
Matches: 199, Mismatches: 47, Indels: 64
0.64 0.15 0.21
Matches are distributed among these distances:
60 2 0.01
61 3 0.02
62 7 0.04
63 10 0.05
64 72 0.36
65 12 0.06
66 12 0.06
67 57 0.29
68 10 0.05
69 9 0.05
70 3 0.02
71 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (64 bp):
GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
Found at i:53018563 original size:131 final size:131
Alignment explanation
Indices: 53018345--53018821 Score: 616
Period size: 131 Copynumber: 3.6 Consensus size: 131
53018335 TAATTATCTT
* * * ** *
53018345 TGAGCTAGCTGATTTAATACCGCTACTCTAAATAGCTCGCTGATTTAATATCACAGCTAATAAT-
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATTGCAGCTGAT-ATC
* * * * * *
53018409 GTTAAGCTTCGCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTA
65 ATTAAGGTTCACTAATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTA
53018474 TC
130 TC
* * * *
53018476 TGAGTTAGCTGATTTTATATCACTACTCTAAATAGCTCGTTGATTTAATATTGCAGCTGATATCA
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATTGCAGCTGATATCA
* *
53018541 TTAAGGTTCACTAATTTAATATCGCAACCTAAGTTCTTTTAATTTAATATCATGAACAATCTTAT
66 TTAAGGTTCACTAATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTAT
53018606 C
131 C
* * * * **
53018607 TGAGTGAACTGATTTAATATCGCTACTCTAAACAACTAGCTGATTTAATATCT-CAATTGATATC
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATAT-TGCAGCTGATATC
* * * *
53018671 GTTAAGGTTCGCTAATTTAATATCACAACCTAAGTTCATTTGATTTAATATCATGAACAATATTA
65 ATTAAGGTTCACTAATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTA
53018736 TC
130 TC
* * * * *
53018738 TGAGTTAGTTGATTTAATATCGCTACTCTAAACAGCTTGTTGATTTAAGATTGTAGCTGATATCA
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATTGCAGCTGATATCA
*
53018803 TTAAGGTTCACTGATTTAA
66 TTAAGGTTCACTAATTTAA
53018822 GACAACCTCT
Statistics
Matches: 298, Mismatches: 45, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
130 3 0.01
131 294 0.99
132 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (131 bp):
TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATTGCAGCTGATATCA
TTAAGGTTCACTAATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTAT
C
Found at i:53020773 original size:2 final size:2
Alignment explanation
Indices: 53020766--53020795 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
53020756 CTACATAATC
53020766 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53020796 TATCTTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53025704 original size:30 final size:29
Alignment explanation
Indices: 53025665--53025722 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
53025655 AAATTAGATA
*
53025665 TTTTTTTTATAA-ATTAATATCATTTTATG
1 TTTTTTTTATAATATTAA-ATAATTTTATG
53025694 TTTTCTTTTATAATATTAAATAATTTTAT
1 TTTT-TTTTATAATATTAAATAATTTTAT
53025723 ACATATTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 5 0.19
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTTTTTATAATATTAAATAATTTTATG
Found at i:53037999 original size:19 final size:20
Alignment explanation
Indices: 53037972--53038009 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
53037962 TATAAATTAT
53037972 TAAACTATTGAT-TTATATA
1 TAAACTATTGATATTATATA
*
53037991 TAAATTATTGATATTATAT
1 TAAACTATTGATATTATAT
53038010 GGAGCGGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TAAACTATTGATATTATATA
Found at i:53039047 original size:30 final size:31
Alignment explanation
Indices: 53039011--53039089 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
53039001 ACTTAACTAA
* * *
53039011 AAAAGTTATAATTT-GGTTATTGAACTATTC
1 AAAAGTTATAATTTAAGTCACTGAACTATTC
* *
53039041 AAAAGTTTTCATTTAAGTCACTGAACTATTC
1 AAAAGTTATAATTTAAGTCACTGAACTATTC
* *
53039072 AAAAGTTTTTATTTAAGT
1 AAAAGTTATAATTTAAGT
53039090 TATTGATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.29
31 30 0.71
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (31 bp):
AAAAGTTATAATTTAAGTCACTGAACTATTC
Found at i:53039068 original size:31 final size:31
Alignment explanation
Indices: 53039031--53039089 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
53039021 ATTTGGTTAT
53039031 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
*
53039062 TGAACTATTCAAAAGTTTTTATTTAAGT
1 TGAACTATTCAAAAGTTTTCATTTAAGT
53039090 TATTGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTCAC
Found at i:53040191 original size:20 final size:21
Alignment explanation
Indices: 53040157--53040207 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
53040147 TTTTTAAAAA
** *
53040157 CTTTTTCCATTTTTTTC-TTT
1 CTTTTTCCAGGTTTTCCTTTT
53040177 CTTTTTCCAGGTTTTCCTTTT
1 CTTTTTCCAGGTTTTCCTTTT
53040198 CTTCTTTCCA
1 CTT-TTTCCA
53040208 ATTTCCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.54
21 6 0.23
22 6 0.23
ACGTcount: A:0.06, C:0.25, G:0.04, T:0.65
Consensus pattern (21 bp):
CTTTTTCCAGGTTTTCCTTTT
Found at i:53043036 original size:17 final size:17
Alignment explanation
Indices: 53043010--53043049 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
53043000 TGTCTCTCTC
*
53043010 ACAATTTAAACATTCTT
1 ACAATGTAAACATTCTT
53043027 ACAATGTAAACATTCTT
1 ACAATGTAAACATTCTT
53043044 ACAATG
1 ACAATG
53043050 CGCTTATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (17 bp):
ACAATGTAAACATTCTT
Found at i:53047715 original size:5 final size:5
Alignment explanation
Indices: 53047707--53047738 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
53047697 TTTCGGCTCA
53047707 TTTAT TTTAT TTTAT TTTAT TTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
53047739 TAAAGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:53047910 original size:22 final size:22
Alignment explanation
Indices: 53047884--53047933 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
53047874 CACCGCGGAT
53047884 GGCGGCGCCGTCACCGGCAACC
1 GGCGGCGCCGTCACCGGCAACC
*
53047906 GGCGGCGTCGTCACCGGCAACC
1 GGCGGCGCCGTCACCGGCAACC
53047928 GGCGGC
1 GGCGGC
53047934 TGCCACAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.12, C:0.42, G:0.40, T:0.06
Consensus pattern (22 bp):
GGCGGCGCCGTCACCGGCAACC
Found at i:53048714 original size:3 final size:3
Alignment explanation
Indices: 53048706--53048737 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
53048696 TCACATTTTA
*
53048706 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
53048738 GTATATATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:53052239 original size:20 final size:19
Alignment explanation
Indices: 53052190--53052227 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
53052180 GATAAAAGAA
*
53052190 ATAAAAAAGTATTAAATTT
1 ATAAAAAAATATTAAATTT
53052209 ATAAAAAAATATTAAATTT
1 ATAAAAAAATATTAAATTT
53052228 TAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAAAAAAATATTAAATTT
Found at i:53052242 original size:56 final size:54
Alignment explanation
Indices: 53052207--53052348 Score: 133
Period size: 56 Copynumber: 2.5 Consensus size: 54
53052197 AGTATTAAAT
*
53052207 TTATAAAAAAATATTAAATTTTAATTAAAAATAAAAAATAGAAAAAAACATAAAAA
1 TTATAAAAAAATATAAAATTTT-A-TAAAAATAAAAAATAGAAAAAAACATAAAAA
* * * * * *
53052263 TTATAAAAAATTGTAAAATTTTATAAAAATAGTAAAAAATTA-TAAAATATATAGAAA
1 TTATAAAAAAATATAAAATTTTAT-AAAA-A-TAAAAAA-TAGAAAAAAACATAAAAA
*
53052320 TATAGAAAAAAATTATAAAATTTTATAAA
1 T-TATAAAAAAA-TATAAAATTTTATAAA
53052349 GTTGTAAGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
54 1 0.01
55 5 0.07
56 20 0.29
57 19 0.27
58 13 0.19
59 12 0.17
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (54 bp):
TTATAAAAAAATATAAAATTTTATAAAAATAAAAAATAGAAAAAAACATAAAAA
Found at i:53052261 original size:19 final size:18
Alignment explanation
Indices: 53052233--53052272 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
53052223 AATTTTAATT
53052233 AAAAATAAAAAATAGAAA
1 AAAAATAAAAAATAGAAA
* *
53052251 AAAACATAAAAATTATAAA
1 AAAA-ATAAAAAATAGAAA
53052270 AAA
1 AAA
53052273 TTGTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAAATAGAAA
Found at i:53052271 original size:10 final size:10
Alignment explanation
Indices: 53052237--53052411 Score: 63
Period size: 10 Copynumber: 18.2 Consensus size: 10
53052227 TTAATTAAAA
53052237 ATAAAAAA-T
1 ATAAAAAATT
* **
53052246 AGAAAAAAAC
1 ATAAAAAATT
53052256 AT-AAAAATT
1 ATAAAAAATT
53052265 ATAAAAAATT
1 ATAAAAAATT
* **
53052275 GTAAAATTTT
1 ATAAAAAATT
53052285 AT-AAAAA-T
1 ATAAAAAATT
53052293 AGTAAAAAATT
1 A-TAAAAAATT
*
53052304 ATAAAATA-T
1 ATAAAAAATT
*
53052313 AT-AGAAATAT
1 ATAAAAAAT-T
*
53052323 AGAAAAAAATT
1 A-TAAAAAATT
53052334 AT--AAAATT
1 ATAAAAAATT
* * *
53052342 TTATAAAGTT
1 ATAAAAAATT
*
53052352 GTAAGAAAATT
1 ATAA-AAAATT
53052363 AT-AAAAATGT
1 ATAAAAAAT-T
*
53052373 A-AAGAAA-T
1 ATAAAAAATT
53052381 AT--AAAATT
1 ATAAAAAATT
53052389 CATAAAAAAATT
1 -AT-AAAAAATT
53052401 AT-AAAAATT
1 ATAAAAAATT
53052410 AT
1 AT
53052412 CATACCAAAA
Statistics
Matches: 121, Mismatches: 25, Indels: 40
0.65 0.13 0.22
Matches are distributed among these distances:
7 3 0.02
8 15 0.12
9 37 0.31
10 43 0.36
11 12 0.10
12 11 0.09
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:53052288 original size:29 final size:30
Alignment explanation
Indices: 53052256--53052368 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 30
53052246 AGAAAAAAAC
*
53052256 ATAAAAATTA-TAAAAAATTGTAAAATTTT
1 ATAAAAATTAGTAAAAAATTATAAAATTTT
*
53052285 ATAAAAA-TAGTAAAAAATTATAAAA-TAT
1 ATAAAAATTAGTAAAAAATTATAAAATTTT
* *
53052313 ATAGAAATATAGAAAAAAATTATAAAATTTT
1 ATAAAAAT-TAGTAAAAAATTATAAAATTTT
*
53052344 AT-AAAGTT-GTAAGAAAATTATAAAA
1 ATAAAAATTAGTAA-AAAATTATAAAA
53052369 ATGTAAAGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
28 13 0.18
29 34 0.48
30 20 0.28
31 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (30 bp):
ATAAAAATTAGTAAAAAATTATAAAATTTT
Found at i:53052330 original size:30 final size:28
Alignment explanation
Indices: 53052267--53052340 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 28
53052257 TAAAAATTAT
* * *
53052267 AAAAAATTGTAAAATTTTATAAAAATAGT
1 AAAAAATTATAAAA-TATATAAAAATAGA
53052296 AAAAAATTATAAAATATATAGAAATATAGA
1 AAAAAATTATAAAATATATA-AAA-ATAGA
53052326 AAAAAATTATAAAAT
1 AAAAAATTATAAAAT
53052341 TTTATAAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.12
29 16 0.40
30 19 0.47
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAAAATTATAAAATATATAAAAATAGA
Found at i:53052339 original size:59 final size:60
Alignment explanation
Indices: 53052267--53052383 Score: 166
Period size: 59 Copynumber: 2.0 Consensus size: 60
53052257 TAAAAATTAT
* *
53052267 AAAAAATTGTAAAATTTTATAAAAATAGTAA-AAAATTAT-AAAATATATAGAAATATAGA
1 AAAAAATTATAAAATTTTAT-AAAATAGTAAGAAAATTATAAAAATATAAAGAAATATAGA
* * *
53052326 AAAAAATTATAAAATTTTATAAAGTTGTAAGAAAATTATAAAAATGTAAAGAAATATA
1 AAAAAATTATAAAATTTTATAAAATAGTAAGAAAATTATAAAAATATAAAGAAATATA
53052384 AAATTCATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
58 8 0.16
59 27 0.53
60 16 0.31
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (60 bp):
AAAAAATTATAAAATTTTATAAAATAGTAAGAAAATTATAAAAATATAAAGAAATATAGA
Found at i:53052373 original size:19 final size:18
Alignment explanation
Indices: 53052258--53052408 Score: 81
Period size: 19 Copynumber: 7.8 Consensus size: 18
53052248 AAAAAAACAT
53052258 AAAAATTATAAAAAATTGTA
1 AAAAATTAT-AAAAA-TGTA
**
53052278 AAATTTTATAAAAATAGTA
1 AAAAATTATAAAAAT-GTA
*
53052297 AAAAATTATAAAATATATA
1 AAAAATTATAAAA-ATGTA
* * *
53052316 GAAATATAGAAAAAAAT-TA
1 -AAAAAT-TATAAAAATGTA
* **
53052335 TAAAATTTTATAAAGTTGTA
1 -AAAA-ATTATAAAAATGTA
53052355 AGAAAATTATAAAAATGTA
1 A-AAAATTATAAAAATGTA
* *
53052374 AAGAAA-TATAAAATTCATAA
1 AA-AAATTATAAAAAT-GT-A
53052394 AAAAATTATAAAAAT
1 AAAAATTATAAAAAT
53052409 TATCATACCA
Statistics
Matches: 99, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
18 10 0.10
19 51 0.52
20 33 0.33
21 5 0.05
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (18 bp):
AAAAATTATAAAAATGTA
Found at i:53052399 original size:59 final size:59
Alignment explanation
Indices: 53052277--53052408 Score: 137
Period size: 59 Copynumber: 2.3 Consensus size: 59
53052267 AAAAAATTGT
* * *
53052277 AAAATTTTATAAAAATAGTAAAAAATTATAAAATATATAGAAATATAGAAAAAAATTAT
1 AAAATTTTATAAAAATAGTAAAAAATTATAAAATATAAAGAAATATAGAAAAAAATAAA
* * * ***
53052336 AAAATTTTAT-AAAGTTGTAAGAAAATTATAAAAATGTAAAGAAATATA-AAATTCATAAA
1 AAAATTTTATAAAAATAGTAA-AAAATTAT-AAAATATAAAGAAATATAGAAAAAAATAAA
53052395 AAAA--TTATAAAAAT
1 AAAATTTTATAAAAAT
53052409 TATCATACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
57 4 0.07
58 12 0.20
59 28 0.47
60 16 0.27
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (59 bp):
AAAATTTTATAAAAATAGTAAAAAATTATAAAATATAAAGAAATATAGAAAAAAATAAA
Found at i:53052633 original size:29 final size:28
Alignment explanation
Indices: 53052579--53052636 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
53052569 TTTTTGATGC
* *
53052579 ATTTTATATTTTTTATGATTTTTATAAA
1 ATTTTATATTTTTTAAGATTTCTATAAA
53052607 ATTTTATATTTTTTTACAG-TTTCTATAAA
1 ATTTTATA-TTTTTTA-AGATTTCTATAAA
53052636 A
1 A
53052637 AATTTCTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 17 0.65
30 1 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
ATTTTATATTTTTTAAGATTTCTATAAA
Found at i:53054210 original size:20 final size:20
Alignment explanation
Indices: 53054187--53054227 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
53054177 ATTTAACAGA
53054187 AGAATTTTAATGATAATAGC
1 AGAATTTTAATGATAATAGC
53054207 AGAATTTTAATGATAATAGC
1 AGAATTTTAATGATAATAGC
53054227 A
1 A
53054228 ATTGAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (20 bp):
AGAATTTTAATGATAATAGC
Found at i:53066271 original size:27 final size:28
Alignment explanation
Indices: 53066221--53066274 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
53066211 TTATAGAAAA
* *
53066221 TATAAAAATTTATTGACAGTTAAATTAT
1 TATAAAAATTAATGGACAGTTAAATTAT
*
53066249 TATAAAAATTAATGGAGAG-TAAATTA
1 TATAAAAATTAATGGACAGTTAAATTA
53066275 CTGATATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (28 bp):
TATAAAAATTAATGGACAGTTAAATTAT
Found at i:53068999 original size:54 final size:54
Alignment explanation
Indices: 53068930--53069032 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
53068920 AAATTGGGAC
* * *
53068930 ACACGACTGTGTCCCAGCTCATGTCTCTGCCCATGTAACTCTCTGACTTGAGAT
1 ACACGACTGTATCCCAGCTCATGTCTCTGACCATGTAACTCACTGACTTGAGAT
* * *
53068984 ACACGGCTGTATCCCAGCTCGTGTCTCTGACCGTGTAACTCACTGACTT
1 ACACGACTGTATCCCAGCTCATGTCTCTGACCATGTAACTCACTGACTT
53069033 AGGTCACATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (54 bp):
ACACGACTGTATCCCAGCTCATGTCTCTGACCATGTAACTCACTGACTTGAGAT
Found at i:53081921 original size:64 final size:61
Alignment explanation
Indices: 53081762--53081996 Score: 176
Period size: 64 Copynumber: 3.8 Consensus size: 61
53081752 CTGTGTGATC
* * * **
53081762 CTAAATCACAAACAGTAAGGCACACGGCCTGGACACACGTCCGTGTCTCTGGCCTATGTGGCCT
1 CTAAATCACAAACAGTAAGTCACACGGCCTGGACACATG-CCGTGTCTCTGGCCT-CGT-ATCT
* * *
53081826 CT--A--ACAAACAGTTAGTCATACGGCCTCGACACATGCCTGTGTCTCTGGCCTGCGTAATCT
1 CTAAATCACAAACAGTAAGTCACACGGCCTGGACACATGCC-GTGTCTCTGGCCT-CGT-ATCT
* * * * *
53081886 CTAAATCACAAATAGTTAGTCACACGGCCTAGACACACAT-CCATGTATCTGGCC-CGTATGGCC
1 CTAAATCACAAACAGTAAGTCACACGGCCT-G-GACACATGCCGTGTCTCTGGCCTCGTAT---C
53081949 T
61 T
* * *
53081950 CTAAATCACAAATAGTAAGTCATACGGCCTGGACACACTCCCGTGTC
1 CTAAATCACAAACAGTAAGTCACACGGCCTGGACACA-TGCCGTGTC
53081997 CTTAGCCCGT
Statistics
Matches: 138, Mismatches: 21, Indels: 24
0.75 0.11 0.13
Matches are distributed among these distances:
59 2 0.01
60 46 0.33
61 2 0.01
62 10 0.07
63 2 0.01
64 68 0.49
65 2 0.01
66 6 0.04
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (61 bp):
CTAAATCACAAACAGTAAGTCACACGGCCTGGACACATGCCGTGTCTCTGGCCTCGTATCT
Found at i:53093694 original size:43 final size:42
Alignment explanation
Indices: 53093637--53093722 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
53093627 AAGGCACATA
* * * *
53093637 GAAAAGAGGAATCAGCAGTTCTTTTAATGTCGTCCCTTGCAT
1 GAAAAGAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
53093679 GAAAAGGAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
1 GAAAA-GAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
53093722 G
1 G
53093723 CTTTCTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
GAAAAGAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
Found at i:53098592 original size:13 final size:13
Alignment explanation
Indices: 53098574--53098598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53098564 TCCAGCAACT
53098574 ATGAATTTATTTC
1 ATGAATTTATTTC
53098587 ATGAATTTATTT
1 ATGAATTTATTT
53098599 GATGTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:53098809 original size:50 final size:50
Alignment explanation
Indices: 53098697--53098995 Score: 391
Period size: 50 Copynumber: 5.8 Consensus size: 50
53098687 ATTTGGGTAA
* * * *
53098697 AGAGATCCCATATAAGACCATGTCTAGGACATGACATTGGCATCCTTGAGATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ACG
*
53098753 ATAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
*
53098803 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
53098853 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * * *
53098903 AGAGGTCCCCTGTAAGACCATGTCTGGGACATTGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** *
53098953 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
53098996 TGTAATGATC
Statistics
Matches: 221, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
50 145 0.66
51 34 0.15
53 3 0.01
55 2 0.01
56 37 0.17
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:53113416 original size:55 final size:56
Alignment explanation
Indices: 53113357--53113485 Score: 124
Period size: 55 Copynumber: 2.3 Consensus size: 56
53113347 AAGATTATTA
*
53113357 ATATAAATAATAAATAATT-TAAA-ATTATTATTATTAAATATAATTTAACAAAAAT-
1 ATATAAATAATAAATAATTCTAAATATAATTATTATTAAAT-TAATTT-ACAAAAATC
* * * *
53113412 ATATAATTTAAT-AA-AATTCTAAATATAATTATTCTTATATTAATTTACTAAAATC
1 ATATAA-ATAATAAATAATTCTAAATATAATTATTATTAAATTAATTTACAAAAATC
*
53113467 ATAATATATAATAATATAA
1 AT-ATAAATAATAA-ATAA
53113486 AAATATTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
54 11 0.19
55 24 0.41
56 21 0.36
57 1 0.02
58 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (56 bp):
ATATAAATAATAAATAATTCTAAATATAATTATTATTAAATTAATTTACAAAAATC
Found at i:53117597 original size:24 final size:24
Alignment explanation
Indices: 53117547--53117598 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
53117537 TTTCTAGAAG
* *
53117547 ATTTAGTATTTATTAGTATATTAT
1 ATTTAGCATTTATTAGCATATTAT
53117571 ATTTAGCATTTATTAGCATACTT-T
1 ATTTAGCATTTATTAGCATA-TTAT
53117595 ATTT
1 ATTT
53117599 GGCCTACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATATTAT
Found at i:53119236 original size:24 final size:24
Alignment explanation
Indices: 53119208--53119256 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
53119198 CTAGAAGATC
*
53119208 TAGTATTTATTAGTATAATATATT
1 TAGTATTTATTAGCATAATATATT
*
53119232 TAGTATTTATTAGCATAATTTATT
1 TAGTATTTATTAGCATAATATATT
53119256 T
1 T
53119257 TACCTATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (24 bp):
TAGTATTTATTAGCATAATATATT
Found at i:53119752 original size:20 final size:20
Alignment explanation
Indices: 53119727--53119766 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53119717 CGTAAAATGA
*
53119727 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
53119747 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
53119767 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:53119756 original size:34 final size:35
Alignment explanation
Indices: 53119712--53119778 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53119702 CAGTAAAATA
* *
53119712 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
53119746 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
53119779 CTGCTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:53121794 original size:17 final size:17
Alignment explanation
Indices: 53121772--53121805 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53121762 ATCCACTAAT
*
53121772 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
53121789 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
53121806 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:53126434 original size:17 final size:17
Alignment explanation
Indices: 53126409--53126442 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53126399 ATCCACTAAT
* *
53126409 CCACTACCACCAACAAC
1 CCACCACCAACAACAAC
53126426 CCACCACCAACAACAAC
1 CCACCACCAACAACAAC
53126443 AATCCACTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.53, G:0.00, T:0.03
Consensus pattern (17 bp):
CCACCACCAACAACAAC
Done.