Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002702.1 Hibiscus syriacus cultivar Beakdansim tig00005578_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 162557
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:7700 original size:98 final size:101
Alignment explanation
Indices: 7581--7775 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 101
7571 GAAATTTCAC
*
7581 CTAATGCGAAACTGGATCCAATTTTTAAGTTAAAACTCACATTTAATCCGACACAATT-TATAAA
1 CTAATGCGAAACTGAATCCAATTTTTAAGTTAAAACTCACATTTAATCCGACACAATTATATAAA
*
7645 A-TCATTTTTATTTGGTTAAATAAGAATTTAGTCGT
66 ATTCATTTTTATTTGGTAAAATAAGAATTTAGTCGT
*
7680 CTAAT-CGAAACTGAATCCAATTTTTAAGTTAAAACTCACATTTGATCCGACACAATTATATAAA
1 CTAATGCGAAACTGAATCCAATTTTTAAGTTAAAACTCACATTTAATCCGACACAATTATATAAA
7744 ATTTCATTTTTATTTGGTAAAATAAGAATTTA
66 A-TTCATTTTTATTTGGTAAAATAAGAATTTA
7776 ATTGGAAAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
98 50 0.56
99 12 0.13
101 28 0.31
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (101 bp):
CTAATGCGAAACTGAATCCAATTTTTAAGTTAAAACTCACATTTAATCCGACACAATTATATAAA
ATTCATTTTTATTTGGTAAAATAAGAATTTAGTCGT
Found at i:10938 original size:17 final size:16
Alignment explanation
Indices: 10918--10949 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10908 TTCAATTAAA
10918 AATTATAAATAGTTTTT
1 AATTATAAAT-GTTTTT
10935 AATTATAAATGTTTT
1 AATTATAAATGTTTT
10950 GTTGAGTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
AATTATAAATGTTTTT
Found at i:12143 original size:17 final size:17
Alignment explanation
Indices: 12118--12152 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12108 AGTAGTTAAA
12118 TTGAATGATGAATGATG
1 TTGAATGATGAATGATG
*
12135 TTGAGTGATGAATGATG
1 TTGAATGATGAATGATG
12152 T
1 T
12153 AATTTACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (17 bp):
TTGAATGATGAATGATG
Found at i:14447 original size:23 final size:23
Alignment explanation
Indices: 14417--14461 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
14407 GTCGAGGGTT
14417 CTATGTGGTCATTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
*
14440 CTATGTGGTCCTTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
14462 TGTGAGGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:17084 original size:28 final size:30
Alignment explanation
Indices: 17028--17091 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
17018 TCGGGTTGGG
*
17028 TATATATTTAAATTATATATAAATATTATA
1 TATATATTTAAATTAAATATAAATATTATA
* *
17058 TATATTTTTAATTTAAAT-TAAAT-TTAT-
1 TATATATTTAAATTAAATATAAATATTATA
17085 TA-ATATT
1 TATATATT
17092 ATATATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 4 0.13
27 2 0.07
28 4 0.13
29 5 0.17
30 15 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TATATATTTAAATTAAATATAAATATTATA
Found at i:18693 original size:48 final size:48
Alignment explanation
Indices: 18641--18750 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
18631 TATAAGAAAA
*
18641 GGTGGTGGACATGGAAAGGGTGAG-GGACTTAGTGGTGGAATTGGCAAG
1 GGTGGTGGACATGGAAAGGGTG-GTGGACTTAGTGGAGGAATTGGCAAG
* * * * *
18689 GGTGGAGGA-ATCAGAAAGGGTGGTTGTCTTGGTGGAGGAATTGGCAAG
1 GGTGGTGGACAT-GGAAAGGGTGGTGGACTTAGTGGAGGAATTGGCAAG
18737 GGTGGTGGACATGG
1 GGTGGTGGACATGG
18751 CGGTGGCATC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
47 3 0.06
48 46 0.90
49 2 0.04
ACGTcount: A:0.24, C:0.06, G:0.48, T:0.22
Consensus pattern (48 bp):
GGTGGTGGACATGGAAAGGGTGGTGGACTTAGTGGAGGAATTGGCAAG
Found at i:19100 original size:13 final size:13
Alignment explanation
Indices: 19082--19125 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
19072 AGCTCGACTG
19082 AAGCTCAAATCTC
1 AAGCTCAAATCTC
* *
19095 AAGCTC-AATTTT
1 AAGCTCAAATCTC
19107 AAGCTCAAATCTC
1 AAGCTCAAATCTC
19120 AAGCTC
1 AAGCTC
19126 GATTTTGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (13 bp):
AAGCTCAAATCTC
Found at i:19112 original size:12 final size:12
Alignment explanation
Indices: 19095--19186 Score: 64
Period size: 11 Copynumber: 7.8 Consensus size: 12
19085 CTCAAATCTC
19095 AAGCTCAATTTT
1 AAGCTCAATTTT
* *
19107 AAGCTCAAATCTC
1 AAGCTC-AATTTT
*
19120 AAGCTCGATTTT
1 AAGCTCAATTTT
* *
19132 GAGCTCAA-TTC
1 AAGCTCAATTTT
*
19143 AAGCTCGATTTT
1 AAGCTCAATTTT
* * *
19155 GAGCTCTA-TTC
1 AAGCTCAATTTT
*
19166 AAGCTCGA-TTT
1 AAGCTCAATTTT
19177 AAGCTCAATT
1 AAGCTCAATT
19187 GCTAACCACG
Statistics
Matches: 59, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
11 25 0.42
12 24 0.41
13 10 0.17
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (12 bp):
AAGCTCAATTTT
Found at i:19148 original size:23 final size:23
Alignment explanation
Indices: 19082--19186 Score: 131
Period size: 23 Copynumber: 4.4 Consensus size: 23
19072 AGCTCGACTG
*
19082 AAGCTCAAATCTCAAGCTCAATTTT
1 AAGCTC-AAT-TCAAGCTCGATTTT
19107 AAGCTCAAATCTCAAGCTCGATTTT
1 AAGCTC-AAT-TCAAGCTCGATTTT
*
19132 GAGCTCAATTCAAGCTCGATTTT
1 AAGCTCAATTCAAGCTCGATTTT
* *
19155 GAGCTCTATTCAAGCTCGA-TTT
1 AAGCTCAATTCAAGCTCGATTTT
19177 AAGCTCAATT
1 AAGCTCAATT
19187 GCTAACCACG
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
22 11 0.15
23 32 0.43
24 3 0.04
25 29 0.39
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (23 bp):
AAGCTCAATTCAAGCTCGATTTT
Found at i:21451 original size:11 final size:11
Alignment explanation
Indices: 21435--21462 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21425 AAGCCTTGAT
21435 CGAGTCGATCG
1 CGAGTCGATCG
21446 CGAGTCGATCG
1 CGAGTCGATCG
21457 CGAGTC
1 CGAGTC
21463 TCGAGTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.18
Consensus pattern (11 bp):
CGAGTCGATCG
Found at i:23024 original size:24 final size:25
Alignment explanation
Indices: 22992--23041 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22982 TGCCGGATAC
22992 ATACACATCC-ACACTCAAACCCGA
1 ATACACATCCGACACTCAAACCCGA
* *
23016 ATACACATCCGACACTCGAACTCGA
1 ATACACATCCGACACTCAAACCCGA
23041 A
1 A
23042 AGCGCCCCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.14
Consensus pattern (25 bp):
ATACACATCCGACACTCAAACCCGA
Found at i:23156 original size:43 final size:44
Alignment explanation
Indices: 23016--23173 Score: 221
Period size: 44 Copynumber: 3.6 Consensus size: 44
23006 TCAAACCCGA
* *
23016 ATACACATCCGACACTCGAACTCGAA-AGCGCCCCTGTTGGATAC
1 ATACACATCCGACACCCGAACCCGAATA-CGCCCCTGTTGGATAC
* * * *
23060 ATACACATCTGATACTCGAACCCGAATACACCCCTGTTGGATAC
1 ATACACATCCGACACCCGAACCCGAATACGCCCCTGTTGGATAC
* *
23104 ATACACATCCGACACCCAAACCCCAATACGCCCCTG-TGGATAC
1 ATACACATCCGACACCCGAACCCGAATACGCCCCTGTTGGATAC
23147 ATACACATCCGACACCCGAACCCGAAT
1 ATACACATCCGACACCCGAACCCGAAT
23174 TCGGATAACA
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 32 0.32
44 68 0.67
45 1 0.01
ACGTcount: A:0.32, C:0.37, G:0.14, T:0.17
Consensus pattern (44 bp):
ATACACATCCGACACCCGAACCCGAATACGCCCCTGTTGGATAC
Found at i:41297 original size:5 final size:5
Alignment explanation
Indices: 41284--41327 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
41274 GCCGTCCGTC
*
41284 CGGCT CGGCA CGGCA CGGCA CGGCA CGGCA CGGCA CGGCA CGGC
1 CGGCA CGGCA CGGCA CGGCA CGGCA CGGCA CGGCA CGGCA CGGC
41328 CGTGGTCGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.16, C:0.41, G:0.41, T:0.02
Consensus pattern (5 bp):
CGGCA
Found at i:41339 original size:6 final size:6
Alignment explanation
Indices: 41328--41393 Score: 132
Period size: 6 Copynumber: 11.0 Consensus size: 6
41318 ACGGCACGGC
41328 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
41376 CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT
41394 AATGGTAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
CGTGGT
Found at i:41399 original size:6 final size:6
Alignment explanation
Indices: 41390--41414 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41380 GTCGTGGTCG
41390 TGGTAA TGGTAA TGGTAA TGGTAA T
1 TGGTAA TGGTAA TGGTAA TGGTAA T
41415 ACGTGTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (6 bp):
TGGTAA
Found at i:47214 original size:6 final size:6
Alignment explanation
Indices: 47203--47248 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
47193 GCTCGGCTCA
47203 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGT
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGT
47249 AATACGTGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (6 bp):
TGGTCG
Found at i:47539 original size:22 final size:22
Alignment explanation
Indices: 47514--47568 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
47504 CTGTTAATAT
* *
47514 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
47536 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
47558 CGGGAGTTATA
1 CAGGAGTTATA
47569 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:48464 original size:86 final size:86
Alignment explanation
Indices: 48319--48488 Score: 277
Period size: 86 Copynumber: 2.0 Consensus size: 86
48309 TTCAAACATT
* * *
48319 TATAGTAATAACGATCGGCACCTGTTTAGATTGGTATGAGTATGACACAAGATCAAAGCCTATAA
1 TATAGTAATAACGATCAGCACCTGTTTAGATTGGTACGAGTACGACACAAGATCAAAGCCTATAA
48384 TAGCACAGAAATACATTCATA
66 TAGCACAGAAATACATTCATA
* * *
48405 TATAGTAATAACGATTAGTACCTGTTTAGATTGGTACGAGTGCGACACAAGATCAAAGCCTATAA
1 TATAGTAATAACGATCAGCACCTGTTTAGATTGGTACGAGTACGACACAAGATCAAAGCCTATAA
*
48470 TAGCTCAGAAATACATTCA
66 TAGCACAGAAATACATTCA
48489 ACATTAAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (86 bp):
TATAGTAATAACGATCAGCACCTGTTTAGATTGGTACGAGTACGACACAAGATCAAAGCCTATAA
TAGCACAGAAATACATTCATA
Found at i:60352 original size:25 final size:25
Alignment explanation
Indices: 60323--60372 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
60313 TTATTAAAAA
60323 ATATTAATTTATTAAATATATTCTC
1 ATATTAATTTATTAAATATATTCTC
60348 ATATTAATTTATTAAATATATTCTC
1 ATATTAATTTATTAAATATATTCTC
60373 GTGAGATTGT
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATTAATTTATTAAATATATTCTC
Found at i:64803 original size:59 final size:59
Alignment explanation
Indices: 64735--65028 Score: 498
Period size: 59 Copynumber: 5.0 Consensus size: 59
64725 TTAAAGGGTC
* *
64735 CCCCTACTATACGATGTTACTTTTTTAAGTTCATTGACTATTAAAAGTTACAAAATGAT
1 CCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGAT
* *
64794 CCCCTACTATACGATGTTACTTTTTTAAGTGCCTTGACTATTAAAAGTTACAAAATGGT
1 CCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGAT
* * * *
64853 CCCCCTACTATACGATGTTACTTTTTTAAGTCCCTTAACTATTAAAAGTTACGAAATGGT
1 -CCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGAT
64913 CCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGAT
1 CCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGAT
*
64972 CCCCCACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATG
1 CCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATG
65029 GTCACCCGAC
Statistics
Matches: 223, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
59 167 0.75
60 56 0.25
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (59 bp):
CCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGAT
Found at i:65041 original size:119 final size:119
Alignment explanation
Indices: 64733--65041 Score: 521
Period size: 119 Copynumber: 2.6 Consensus size: 119
64723 AATTAAAGGG
* * *
64733 TCCCCCTACTATACGATGTTACTTTTTTAAGTTCATTGACTATTAAAAGTTACAAAATGATCCCC
1 TCCCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGGTCCCC
* *
64798 TACTATACGATGTTACTTTTTTAAGTGCCTTGACTATTAAAAGTTACAAAATGG
66 TACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGA
* * *
64852 TCCCCCTACTATACGATGTTACTTTTTTAAGTCCCTTAACTATTAAAAGTTACGAAATGGTCCCC
1 TCCCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGGTCCCC
64917 TACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGA
66 TACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGA
64971 TCCCCC-ACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGGTCACC
1 TCCCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGGTC-CC
*
65035 CGACTAT
65 CTACTAT
65042 TCTTTGTGTT
Statistics
Matches: 178, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 52 0.29
119 126 0.71
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (119 bp):
TCCCCCTACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGGTCCCC
TACTATACGATGTTACTTTTTTAAGTACCTTGACTATTAAAAGTTACAAAATGA
Found at i:68251 original size:19 final size:19
Alignment explanation
Indices: 68209--68252 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
68199 TATGCATTGG
*
68209 GCTATGAATTTGAAAATAA
1 GCTATGAATATGAAAATAA
* * *
68228 ACTATGAATATGACAGTAA
1 GCTATGAATATGAAAATAA
68247 GCTATG
1 GCTATG
68253 CAAATCTGTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (19 bp):
GCTATGAATATGAAAATAA
Found at i:71205 original size:18 final size:17
Alignment explanation
Indices: 71173--71207 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71163 CACGTGAGGA
71173 TTATTTTCTTCTTATTT
1 TTATTTTCTTCTTATTT
*
71190 TTATTTATCTTTTTATTT
1 TTATTT-TCTTCTTATTT
71208 ACTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTCTTCTTATTT
Found at i:72783 original size:21 final size:21
Alignment explanation
Indices: 72740--72784 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
72730 GATTTCTGGG
* * *
72740 CAAGGGGAATCGGTACCGATT
1 CAAGGGGAACCGATACCCATT
*
72761 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
72782 CAA
1 CAA
72785 ACGAACAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:73582 original size:31 final size:31
Alignment explanation
Indices: 73460--73571 Score: 188
Period size: 31 Copynumber: 3.6 Consensus size: 31
73450 AGGGTCGAGG
73460 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
73491 GTTTACCTATGTTTTTCGGGACATATTGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
73522 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
73553 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
73572 AATCTATGGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:77489 original size:62 final size:62
Alignment explanation
Indices: 77369--77493 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 62
77359 AGGGTCGAGG
* * * *
77369 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCAGAACATATGGACT
*
77431 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTTAGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCAGAA-CATATGGACT
77493 G
1 G
77494 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 56 0.98
63 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCAGAACATATGGACT
Found at i:77493 original size:31 final size:31
Alignment explanation
Indices: 77369--77477 Score: 200
Period size: 31 Copynumber: 3.5 Consensus size: 31
77359 AGGGTCGAGG
77369 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
77400 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
77431 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
77462 GATTACCTAGGTTCTT
1 GTTTACCTATGTTCTT
77478 TAGAATCTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:87188 original size:17 final size:16
Alignment explanation
Indices: 87157--87190 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
87147 CACGTGAGGA
87157 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
87173 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
87190 T
1 T
87191 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:88169 original size:18 final size:19
Alignment explanation
Indices: 88143--88200 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
88133 TTGAGGGATT
88143 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* ***
88162 AT-AGTGGTTCTTCTAAAC
1 ATCAGTGGTCCTTCGGGAC
88180 TATCAGTGGTCCTTCGGGAC
1 -ATCAGTGGTCCTTCGGGAC
88200 A
1 A
88201 AATATTCAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
18 12 0.41
19 5 0.17
20 12 0.41
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:94228 original size:21 final size:21
Alignment explanation
Indices: 94199--94240 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
94189 TTCTGGGTTG
*
94199 TGTGCATCGATGCACATTCAA
1 TGTGCATCGATGCACACTCAA
*
94220 TGTGTATCGATGCACACTCAA
1 TGTGCATCGATGCACACTCAA
94241 ATAAATGAAC
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:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (21 bp):
TGTGCATCGATGCACACTCAA
Found at i:94288 original size:19 final size:19
Alignment explanation
Indices: 94264--94315 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
94254 GAATGCAATT
*
94264 AGTGCATCAATGCAT-AGG
1 AGTGCATCGATGCATAAGG
94282 AAGTGCATCGATGCATAAGG
1 -AGTGCATCGATGCATAAGG
94302 AGTGCATCGATGCA
1 AGTGCATCGATGCA
94316 CCTGCTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 28 0.90
20 3 0.10
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:94975 original size:18 final size:19
Alignment explanation
Indices: 94949--95006 Score: 82
Period size: 18 Copynumber: 3.1 Consensus size: 19
94939 TCGAGGGATT
94949 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* *
94968 AT-AGTGGTTCTTCGGAAC
1 ATCAGTGGTCCTTCGGGAC
94986 TATCAGTGGTCCTTCGGGAC
1 -ATCAGTGGTCCTTCGGGAC
95006 A
1 A
95007 AATATTCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 14 0.42
19 5 0.15
20 14 0.42
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:97026 original size:23 final size:23
Alignment explanation
Indices: 97000--97060 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
96990 CTCGTATAAA
*
97000 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
97023 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
97046 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
97061 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:100980 original size:23 final size:23
Alignment explanation
Indices: 100954--100997 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
100944 CACCACATCT
*
100954 CGTATAAATACACCGAAGTGCAA
1 CGTAGAAATACACCGAAGTGCAA
* *
100977 CGTAGAATTGCACCGAAGTGC
1 CGTAGAAATACACCGAAGTGC
100998 CGCATAGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCAA
Found at i:101005 original size:23 final size:23
Alignment explanation
Indices: 100964--101022 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
100954 CGTATAAATA
* *
100964 CACCGAAGTGCAACGTAGAATTG
1 CACCGAAGTGCCACATAGAATTG
*
100987 CACCGAAGTGCCGCATAGAATTG
1 CACCGAAGTGCCACATAGAATTG
*
101010 CACCGTAGTGCCA
1 CACCGAAGTGCCA
101023 TATAATAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTG
Found at i:106012 original size:23 final size:23
Alignment explanation
Indices: 105986--106044 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
105976 CTCGTATAAA
*
105986 TGCACCGAAGTGCAACGTAGAAT
1 TGCACCGAAGTGCAACATAGAAT
**
106009 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCAACATAGAAT
*
106032 TGCACCGTAGTGC
1 TGCACCGAAGTGC
106045 CATATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCAACATAGAAT
Found at i:108840 original size:19 final size:19
Alignment explanation
Indices: 108816--108889 Score: 82
Period size: 19 Copynumber: 4.1 Consensus size: 19
108806 TATGCATTGG
*
108816 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
108835 GCTATGAATCTGACAGTAA
1 GCTATGAATCTGAAAATAA
**
108854 GCTATGAGCCTGAAAATAA
1 GCTATGAATCTGAAAATAA
108873 G-T-T-AATCTGAAAATAA
1 GCTATGAATCTGAAAATAA
108889 G
1 G
108890 TTCTGATTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
16 12 0.26
17 1 0.02
18 1 0.02
19 32 0.70
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:108966 original size:12 final size:11
Alignment explanation
Indices: 108931--108970 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
108921 GAAAATATTT
108931 ATATGAACATGGA
1 ATATGAA-AT-GA
108944 ATATGAAATGA
1 ATATGAAATGA
108955 ATATGTAAATGA
1 ATATG-AAATGA
108967 ATAT
1 ATAT
108971 CAAAGTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.27
12 12 0.46
13 7 0.27
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (11 bp):
ATATGAAATGA
Found at i:111779 original size:21 final size:21
Alignment explanation
Indices: 111755--111802 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
111745 AGGATTTAAC
*
111755 GTTTATAATTTAGAGTTTAGG
1 GTTTAGAATTTAGAGTTTAGG
** *
111776 GTTTAGGGTTTAGGGTTTAGG
1 GTTTAGAATTTAGAGTTTAGG
111797 GTTTAG
1 GTTTAG
111803 GGATGAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (21 bp):
GTTTAGAATTTAGAGTTTAGG
Found at i:111823 original size:7 final size:7
Alignment explanation
Indices: 111763--111804 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
111753 ACGTTTATAA
*
111763 TTTAGAG
1 TTTAGGG
111770 TTTAGGG
1 TTTAGGG
111777 TTTAGGG
1 TTTAGGG
111784 TTTAGGG
1 TTTAGGG
111791 TTTAGGG
1 TTTAGGG
111798 TTTAGGG
1 TTTAGGG
111805 ATGAGTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:121589 original size:2 final size:2
Alignment explanation
Indices: 121582--121614 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
121572 TAATCAAACT
121582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121615 TAACTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123739 original size:20 final size:21
Alignment explanation
Indices: 123714--123754 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
123704 TATTTATTAT
**
123714 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
123734 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
123755 GAAAAATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:123803 original size:19 final size:19
Alignment explanation
Indices: 123782--123817 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
123772 AATATATTTA
123782 AAAACA-ATAAAATAAATT
1 AAAACATATAAAATAAATT
123800 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
123818 GACTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAACATATAAAATAAATT
Found at i:125200 original size:3 final size:3
Alignment explanation
Indices: 125192--125271 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
125182 AATATATATT
125192 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
125240 TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
125272 TGGATAAAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:125553 original size:117 final size:111
Alignment explanation
Indices: 125406--128045 Score: 2561
Period size: 113 Copynumber: 23.4 Consensus size: 111
125396 ATTGAATAAA
* ** *
125406 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCT-CTGGCAAAGATGATCCATC
* *
125470 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
63 AAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
125519 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT-GCAATGTTGATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCT--CTGGCAAAGATGATCCA
* * *
125583 TCCAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
61 TCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
125634 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACTTGGCAAAGATAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCT-C-TGGCAAAGATGATCCA
* * * *
125699 TCAACTTGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
61 TCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
125751 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACATGGCAAAGATAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCT-C-TGGCAAAGATGATCCA
* *
125816 TCAACTTGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
61 TCAA-ATGATGAATTCAAG-CAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
125868 TTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATGATCCACCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC--TCTGGCAAAGATGATCCATCA
*
125933 AATGATGAATTCATA-TAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 AATGATGAATTCA-AGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
125981 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCTCTGGCAAAGATGATCCATCA
* * **
126046 GATGATGGATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 AATGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
** *
126095 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCT-CTGGCAAAGATGATCCATC
* *
126160 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
63 AAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
126209 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT-GCAATGTTGATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCT--CTGGCAAAGATGATCCA
* * *
126273 TCCAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
61 TCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
126324 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACTTGGCAAAGATAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCT-C-TGGCAAAGATGATCCA
* * * *
126389 TCAACTTGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
61 TCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
126441 TTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACATGGCAAAGATAATCCA
1 TTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTCT-C-TGGCAAAGATGATCCA
* * *
126506 TCAACTTGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTTTCATTATGAAC
61 TCAA-ATGATGAATTCAAG-CAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
126558 TTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATGATCCACCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC--TCTGGCAAAGATGATCCATCA
*
126623 AATGATGAATTCATA-TAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 AATGATGAATTCA-AGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
126671 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCTCTGGCAAAGATGATCCATCA
* * **
126736 GATGATGGATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 AATGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
126785 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCTCTGGCAAAGATGATCCATCA
*
126850 AGTGATGAATTC-AGACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 AATGATGAATTCAAG-CAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
126898 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGCAAAAATAATACATCAA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCTCTGGCAAAGATGATCCATCAA
*
126963 ATGATGAATTC-AGATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 ATGATGAATTCAAG-CAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
127010 TTCTTCTTCCTCCTTCAGATGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCA
1 TTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAA-C-TCTCTGGCAAAGATGATCCA
* **
127075 TCAATTTGATGAATTCAAATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
61 TCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
127127 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAATGTTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCTCTGGCAAAGATGATCCATCA
* * * * *
127192 AATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTTC-TT-TGGGA-
64 AATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTC-TCATTAT-GAAC
* * * * ** * * ** * *
127239 TTAATTCTT-C-TCATT---ATGAATTTTTC-CACTGGGGA-----TGACAATTTAT-CTCCTTC
1 TT-CTTCTTCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTCTCTGGCAA-AGATGATCCATC
* * * * ** *
127292 -TATAATGCAA-TCTAGCAAA-GAGTTGAAAAAATTCTTCTTTTTCA-GATGAG
63 AAATGATG-AATTCAAGCAAAAG-GTTGAACAAATTCTTCTCATT-ATGA--AC
* * ** * * * ** *** * *
127342 TTCTTC-TCATT-AT--GAACACTTCTGGC-AATGT-TG-A-T-GAT-G-ATCTAT-CTCCTTC-
1 TTCTTCTTCCTTCTTCAGATGAGTTCT-TCTCAT-TATGAACTCTCTGGCAAAGATGATCCATCA
** * * *
127394 TGTGATAGAATT-ATGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64 AATGAT-GAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *** * * *
127442 TTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTTTAACAAGTTGATCTATCGA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTGGCA-AAGATGATCCATCAA
* * * *
127507 GTGATGAATTCGAGCGAAAA-GTTGAGCAAGTTCTTCTCATTATGAAC
65 ATGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * ** * * *
127554 TTCTTC-ACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC--TCTGGCAAAGATGATCCATCA
* *
127618 AATGATGAATTCAAGCGAAAA-ATTGAACAAGTTCTTCTCATTATGAAC
64 AATGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
127666 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC--TCTGGCAAAGATGATCCATCA
* * *
127731 AATGATGAATTTAAGCGAAAA-TTTGAACAAGTTCTTCTCATTATGAAC
64 AATGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * *** * *
127779 TTCTTCTTTCGTCTTCATATTAGTTCTTCTCATTATGAACTCTCTCTAACAAGTTGATCCATCGA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTGGCA-AAGATGATCCATCAA
* * *
127844 GTGATGAATTCGAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAAC
65 ATGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * ** * * *
127891 TTCTTC-ACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGTTGATCCATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC--TCTGGCAAAGATGATCCATCA
*
127955 AATGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAAC
64 AATGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
128003 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT
128046 TCCGGAAATG
Statistics
Matches: 2205, Mismatches: 229, Indels: 188
0.84 0.09 0.07
Matches are distributed among these distances:
99 1 0.00
100 35 0.02
101 18 0.01
102 52 0.02
103 12 0.01
104 12 0.01
105 2 0.00
106 1 0.00
107 1 0.00
108 5 0.00
109 10 0.00
110 1 0.00
111 74 0.03
112 318 0.14
113 516 0.23
114 370 0.17
115 282 0.13
116 56 0.03
117 434 0.20
118 1 0.00
119 1 0.00
120 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (111 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTGGCAAAGATGATCCATCAAA
TGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:126122 original size:114 final size:112
Alignment explanation
Indices: 125406--127229 Score: 2188
Period size: 117 Copynumber: 15.9 Consensus size: 112
125396 ATTGAATAAA
* ** *
125406 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATC
* *
125470 AAATGATGAATTCAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 -AATGATGAATTC-AGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
125519 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CT-GCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCC
* *
125582 ATCCAATGATGAATTCAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 AT-CAATGATGAATTC-AGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
125634 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACT-TGGCAAAGATAATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCC
* *
125698 ATCAACTTGATGAATTCAGGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAA--TGATGAATTCA-GCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
125751 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC--TCTACATGGCAAAGATAATC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTCT-C-TGGAAAAGATGATC
*
125814 CATCAACTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
61 CATCAA--TGATGAATTCAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* **** *
125868 TTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATGATCCACCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATC-
*
125933 AATGATGAATTCA-TATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 AATGATGAATTCAGCA-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
125981 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
* *
126046 GATGATGGATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 -ATGAT-GAATTCAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
** *
126095 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATC
* *
126160 AAATGATGAATTCAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 -AATGATGAATTC-AGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
126209 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CT-GCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCC
* *
126272 ATCCAATGATGAATTCAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 AT-CAATGATGAATTC-AGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
126324 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACT-TGGCAAAGATAATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCC
* *
126388 ATCAACTTGATGAATTCAGGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAA--TGATGAATTCA-GCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
126441 TTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAAC--TCTACATGGCAAAGATAATC
1 TTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTTTCT-C-TGGAAAAGATGATC
* *
126504 CATCAACTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTTTCATTATGAAC
61 CATCAA--TGATGAATTCAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* **** *
126558 TTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATGATCCACCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATC-
*
126623 AATGATGAATTCA-TATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 AATGATGAATTCAGCA-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
126671 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
* *
126736 GATGATGGATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 -ATGAT-GAATTCAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
126785 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAA-ATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAAGATGATCCATC
126849 AAGTGATGAATTCAG-ACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 AA-TGATGAATTCAGCA-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
126898 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGCAAAA-ATAATACATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAAGATGATCCATC
126961 AAATGATGAATTCAG-ATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 -AATGATGAATTCAGCA-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
127010 TTCTTCTTCCTCCTTCAGATGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTAATCCA
1 TTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCA
*
127075 TCAATTTGATGAATTCA-AATAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 TCAA--TGATGAATTCAGCA-AAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
127127 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAATGTTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATC-
* * *
127192 AATGATGAATTTAAACAAAAA-GTTGAACAAGTTCTTCT
65 AATGATGAA-TTCAGCAAAAAGGTTGAACAAATTCTTCT
127230 TCTTTGGGAT
Statistics
Matches: 1560, Mismatches: 87, Indels: 128
0.88 0.05 0.07
Matches are distributed among these distances:
112 87 0.06
113 319 0.20
114 374 0.24
115 293 0.19
116 51 0.03
117 428 0.27
118 4 0.00
119 1 0.00
120 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (112 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
ATGATGAATTCAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:126736 original size:690 final size:682
Alignment explanation
Indices: 125406--128080 Score: 3239
Period size: 690 Copynumber: 3.9 Consensus size: 682
125396 ATTGAATAAA
* *
125406 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGGGAAGATGATCCATC
125470 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
125535 AGATGACGAGTTCTTCTCATTATGAACTCTACCT-GCAATGTTGATCCATCCAATGATGAATTCA
130 AGAT-ACGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCCAATGATGAATTCA
125599 AGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
194 AGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
*
125664 TCTCATTATGAACTCTACTTGGCAAAGATAATCCATCAACTTGATGAATTCAGGCAAAAGATTGA
259 TCTCATTATGAACTCTACTTGGCAAAGATAATCCATCAACTTGATGAATTCAAGCAAAAGATTGA
*
125729 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC
324 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--ATGATGAGTTCTTCTCATTATGAAC
125794 TCTACATGGCAAAGATAATCCATCAACTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTC
387 TCT-C-TGGCAAAGATAATCCATCAA-TTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTC
125859 ATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGAT
449 ATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACT--AAAAGAT
*
125924 GATCCACCAAATGATGAATTCATATAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
512 GATCCACCAAATGATGAATTCATAGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
125989 CCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGATGATGG
577 CCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGATGATGG
126054 ATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
642 ATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
126095 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGGGAAGATGATCCATC
126160 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
126225 AGATGACGAGTTCTTCTCATTATGAACTCTACCT-GCAATGTTGATCCATCCAATGATGAATTCA
130 AGAT-ACGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCCAATGATGAATTCA
126289 AGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
194 AGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
*
126354 TCTCATTATGAACTCTACTTGGCAAAGATAATCCATCAACTTGATGAATTCAGGCAAAAGATTGA
259 TCTCATTATGAACTCTACTTGGCAAAGATAATCCATCAACTTGATGAATTCAAGCAAAAGATTGA
126419 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAAC
324 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--ATGATGAGTTCTTCTCATTATGAAC
*
126484 TCTACATGGCAAAGATAATCCATCAACTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTTTC
387 TCT-C-TGGCAAAGATAATCCATCAA-TTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTC
126549 ATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGAT
449 ATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACT--AAAAGAT
*
126614 GATCCACCAAATGATGAATTCATATAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
512 GATCCACCAAATGATGAATTCATAGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT
126679 CCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGATGATGG
577 CCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGATGATGG
126744 ATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
642 ATTTGAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
** * *
126785 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGGGAAGATGATCCATCA
* * *
126850 AGTGATGAATTC-AGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
66 AATGATGAATTCAAG-CAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* *** * * *
126914 AGAT--GAGTTCTTCTCATTATGAACT-T-CTCTGGCAAAAATAATACATCAAATGATGAATTC-
130 AGATACGAGTTCTTCTCATTATGAACTCTAC-CTAGCAATGTTGATCCATCCAATGATGAATTCA
* * * * *
126974 AGATAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGATGAGTTC
194 AG-CAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTC
* * * * ** *
127039 TTCTCATTATGAAC-CTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGGTT
258 TTCTCATTATGAACTCTACT-TGGCAAAGATAATCCATCAACTTGATGAATTCAAGCAAAAGATT
*
127103 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAAC
322 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAAC
* * * * * * *
127167 TTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTA-AACAAAAAGTTGAACAAGTTCTTCTT
387 --TCTCTGGCAAAGATAATCCATCAATTGATGAATTCAGAA-AAAAGGTTGAACAAATTCTTC-T
* * * * * ** * ***
127231 C-TT-TGGGA-TTAATTCTT-C-TCATT---ATGAATTTTTC-CACTGGGGA-T-G-AC-AATTT
448 CATTAT-GAACTT-TTTCTTCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTCGAACTAAAAG
* ** * * *
127283 AT-CTCCTTC-TATAATGCAA-TC-TAGCAAAGAGTTG----AA--------A--A--AA-TTCT
510 ATGATCCACCAAATGATG-AATTCATAGAAAAG-GTTGAACAAATTCTTCTCATTATGAACTTCT
* * *
127327 TC-T--TT-TTCAGATGAGTTCTTCTCATTATGAACACTTCTGGCAATGTTGATGATGATCT-AT
573 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTCT--C--TG--GA--A-AAGCTGA-
* * * * * *
127387 CTCCTTCTG-TGATAGAATT-ATGC-AAAAGATTGAACAAGTTCTTCTCATTATGAAC
627 -TCCATCAGATGATGGATTTGA-GCAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * **** * * *
127442 TTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCT-TTAACAAGTTGATCTATCG
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGGGAAGATGATCCATCA
* * * * *
127506 AGTGATGAATTCGAGCGAAAAG-TTGAGCAAGTTCTTCTCATTATGAACTTCTTC-ACTTTCTTC
66 AATGATGAATTCAAGC-AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * * * *
127569 A-A-ATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGATCCATCGAATGATGAATTCAA
130 AGATACGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCCAATGATGAATTCAA
127632 GCGAAAA-ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCT
195 GC-AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
* * * * * * *
127693 TCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAA--TGATGAATTTAAGCGAAAA-TTT
259 TCTCATTATGAACTCTACTTGGCAAAGATAATCCATC-AACTTGATGAATTCAAGC-AAAAGATT
* * *
127755 GAACAAGTTCTTCTCATTATGAACTTCTTCTTTCGTCTTCAT-ATTAGTTCTTCTCATTATGAAC
322 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAAC
*** * * * * ** *
127819 TCTCTCTAACAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAA-GTTGAACAAGTTCTTCTCA
387 TCTCTGGCA-AAGATAATCCATCAATTGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTCTCA
* * * * * *
127883 TTATGAACTTCTTC-ACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGTTG
450 TTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTAA-AA-GATG
* * *
127947 ATCCATCGAATGATGAATTCA-AGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
513 ATCCACCAAATGATGAATTCATA--GAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
* * * *
128010 TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTC-C-GGAAATGTTGATCCAT-TGAATGA
576 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAG-ATGA
128072 TGGATTTGA
639 TGGATTTGA
128081 ATCTTTGCTA
Statistics
Matches: 1750, Mismatches: 146, Indels: 195
0.84 0.07 0.09
Matches are distributed among these distances:
648 27 0.02
649 6 0.00
650 8 0.00
651 49 0.03
652 88 0.05
653 43 0.02
654 14 0.01
655 37 0.02
656 122 0.07
657 92 0.05
658 14 0.01
659 8 0.00
661 1 0.00
662 7 0.00
663 12 0.01
665 6 0.00
667 1 0.00
668 6 0.00
669 11 0.01
670 6 0.00
671 6 0.00
672 4 0.00
673 9 0.01
674 5 0.00
675 2 0.00
676 3 0.00
677 6 0.00
678 10 0.01
679 2 0.00
680 8 0.00
681 10 0.01
682 37 0.02
683 44 0.03
684 33 0.02
685 12 0.01
686 191 0.11
688 2 0.00
689 83 0.05
690 725 0.41
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (682 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGGGAAGATGATCCATCA
AATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATACGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTGATCCATCCAATGATGAATTCAAG
CAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
TCATTATGAACTCTACTTGGCAAAGATAATCCATCAACTTGATGAATTCAAGCAAAAGATTGAAC
AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATGATGAGTTCTTCTCATTATGAACTCTC
TGGCAAAGATAATCCATCAATTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTAAAAGATGATCCACCA
AATGATGAATTCATAGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
AAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:127544 original size:112 final size:113
Alignment explanation
Indices: 127410--128073 Score: 957
Period size: 112 Copynumber: 5.9 Consensus size: 113
127400 AGAATTATGC
127410 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
127475 TATGAACTC-TCTTTAACAA-GTTGATCTATCGAGTGATGAATTCGAGCG
65 TATGAACTCGAC-CTAACAATGTTGATCCATCGAATGATGAATTCAAGCG
* ** *
127523 AAAAGTTGAGCAAGTTCTTCTCATTATGAACTTCTTCACT-TTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
*
127587 ATGAACTCGACCTAACAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTAACAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
127635 AAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
** * *
127700 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTTAAGCG
66 ATGAACTCGACCTAACAATGTTGATCCATCGAATGATGAATTCAAGCG
* * * *
127748 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCGTCTTCATATTAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
* * *
127813 ATGAACTC-TCTCTAACAA-GTTGATCCATCGAGTGATGAATTCGAGCG
66 ATGAACTCGAC-CTAACAATGTTGATCCATCGAATGATGAATTCAAGCG
** *
127860 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCACT-TTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
127924 ATGAACTCGACCTAACAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTAACAATGTTGATCCATCGAATGATGAATTCAAGCG
127972 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TTCTTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTC-TTCTTCAGATGAGTTCTTCTCAT
** ** *
128036 TATGAACTCTTCCGGA-AATGTTGATCCATTGAATGATG
65 TATGAACTCGACCTAACAATGTTGATCCATCGAATGATG
128074 GATTTGAATC
Statistics
Matches: 496, Mismatches: 47, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
111 74 0.15
112 242 0.49
113 180 0.36
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTAACAATGTTGATCCATCGAATGATGAATTCAAGCG
Found at i:128031 original size:337 final size:336
Alignment explanation
Indices: 127416--128078 Score: 1182
Period size: 337 Copynumber: 2.0 Consensus size: 336
127406 ATGCAAAAGA
*
127416 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCGTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
127481 CTCTCTTTAACAAGTTGATCTATCGAGTGATGAATTCGAGCGAAAAGTTGAGCAAGTTCTTCTCA
66 CTCTCTCTAACAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCA
127546 TTATGAACTTCTTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGA
131 TTATGAACTTCTTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGA
127611 TCCATCGAATGATGAATTCAAGCGAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
196 TCCATCGAATGATGAATTCAAGCGAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
*
127676 TTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAAT
261 TTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC-GGAAATGCTGATCCATCGAATGATGAAT
127741 TTAAGCGAAAAT
325 TTAAGCGAAAAT
* *
127753 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCGTCTTCATATTAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCGTCTTCAGATGAGTTCTTCTCATTATGAA
127818 CTCTCTCTAACAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCA
66 CTCTCTCTAACAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCA
*
127883 TTATGAACTTCTTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGTTGA
131 TTATGAACTTCTTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGA
* *
127948 TCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCT
196 TCCATCGAATGATGAATTCAAGCGAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
** * * *
128013 TTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCGGAAATGTTGATCCATTGAATGATGGATT
261 TTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCGGAAATGCTGATCCATCGAATGATGAATT
128078 T
326 T
128079 GAATCTTTGC
Statistics
Matches: 311, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
336 26 0.08
337 285 0.92
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (336 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCGTCTTCAGATGAGTTCTTCTCATTATGAA
CTCTCTCTAACAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAAGTTGAACAAGTTCTTCTCA
TTATGAACTTCTTCACTTTCTTCAAATGAGTTCTTCTCATTATGAACTCGACCTAACAATGCTGA
TCCATCGAATGATGAATTCAAGCGAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
TTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCGGAAATGCTGATCCATCGAATGATGAATT
TAAGCGAAAAT
Found at i:128507 original size:22 final size:22
Alignment explanation
Indices: 128482--128555 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
128472 AATAAAGCTT
* *
128482 TCATATTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
*
128504 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
128526 TCATCTTTGAAGAGAGAATCTT
1 TCATCTTTGAAAAGAGAATCTA
128548 TCATCTTT
1 TCATCTTT
128556 AAAGAGTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:128560 original size:22 final size:22
Alignment explanation
Indices: 128479--128561 Score: 98
Period size: 22 Copynumber: 3.8 Consensus size: 22
128469 TCCAATAAAG
*
128479 CTTTCATATTTGAAA-AGAGAAT
1 CTTTCATCTTT-AAAGAGAGAAT
*
128501 -TTATCATCTTTAAAAAGAGAAT
1 CTT-TCATCTTTAAAGAGAGAAT
* *
128523 CTATCATCTTTGAAGAGAGAAT
1 CTTTCATCTTTAAAGAGAGAAT
128545 CTTTCATCTTTAAAGAG
1 CTTTCATCTTTAAAGAG
128562 TGTAGATGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.10
22 46 0.88
23 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (22 bp):
CTTTCATCTTTAAAGAGAGAAT
Found at i:135795 original size:14 final size:14
Alignment explanation
Indices: 135761--135814 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
135751 TTGTGCAATA
* *
135761 CAAATGCAAAGATG
1 CAAATGTAAATATG
135775 CCAAATGTAAATATG
1 -CAAATGTAAATATG
135790 CAAATGTAAA-ATTG
1 CAAATGTAAATA-TG
*
135804 TAAATGTAAAT
1 CAAATGTAAAT
135815 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 1 0.03
14 21 0.62
15 12 0.35
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:137483 original size:28 final size:28
Alignment explanation
Indices: 137395--137483 Score: 64
Period size: 28 Copynumber: 3.2 Consensus size: 28
137385 ACCTTTGACA
*
137395 GAAAAATAAAT-AATGAAATAAA-ATACTT
1 GAAAAATAAATAAAT-AAATAAATA-ATTT
*
137423 G-CAAATAAAATAAA-ACATATAAAT-ATTAT
1 GAAAAAT-AAATAAATA-A-ATAAATAATT-T
137452 -AAAAATAAATAAATAAATAAATAATTT
1 GAAAAATAAATAAATAAATAAATAATTT
137479 GAAAA
1 GAAAA
137484 GAAAGAATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 20
0.68 0.04 0.28
Matches are distributed among these distances:
27 12 0.25
28 23 0.48
29 13 0.27
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.26
Consensus pattern (28 bp):
GAAAAATAAATAAATAAATAAATAATTT
Found at i:138185 original size:20 final size:21
Alignment explanation
Indices: 138160--138200 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
138150 TATTTTATAT
**
138160 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
138180 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
138201 GAAAAATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:138251 original size:18 final size:18
Alignment explanation
Indices: 138228--138262 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
138218 CAATATATTA
138228 AAAACA-ATAAAATAAATT
1 AAAACATAT-AAATAAATT
138246 AAAACATATAAATAAAT
1 AAAACATATAAATAAAT
138263 GACTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAACATATAAATAAATT
Found at i:139641 original size:3 final size:3
Alignment explanation
Indices: 139633--139721 Score: 151
Period size: 3 Copynumber: 29.7 Consensus size: 3
139623 AATATATATT
* *
139633 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
139681 TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
139722 TGGATAAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:139853 original size:30 final size:29
Alignment explanation
Indices: 139817--139889 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
139807 TATTTATATT
*
139817 TATATTTTATTCTTATTTTAACTTATAAAA
1 TATATTTTATTCTTATATTAACTT-TAAAA
139847 TATATTTTAATT-TTATATTAACTTTAAAA
1 TATATTTT-ATTCTTATATTAACTTTAAAA
*
139876 -ATAATTTATTCTTA
1 TATATTTTATTCTTA
139890 CCTTAGCTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 3 0.08
28 9 0.23
29 5 0.13
30 19 0.49
31 3 0.08
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (29 bp):
TATATTTTATTCTTATATTAACTTTAAAA
Found at i:139954 original size:29 final size:29
Alignment explanation
Indices: 139921--140040 Score: 97
Period size: 29 Copynumber: 4.3 Consensus size: 29
139911 TATTCTTATA
* * * * *
139921 ATATTTTAACATTTAGATAAAAATAAAGT
1 ATATTTTAAAATTAAAACAAAAATAAAAT
139950 ATATTTTAAAATTAAAACAAAAATAAAAT
1 ATATTTTAAAATTAAAACAAAAATAAAAT
* * *
139979 ATGTTTT----TTAAAATAAAAATAATAT
1 ATATTTTAAAATTAAAACAAAAATAAAAT
* * *
140004 ATATTTT-AAATAAAAATAAGAATAAAAT
1 ATATTTTAAAATTAAAACAAAAATAAAAT
140032 ATATATTTA
1 ATAT-TTTA
140041 TGTTAAAATA
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
25 22 0.30
28 19 0.26
29 33 0.45
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (29 bp):
ATATTTTAAAATTAAAACAAAAATAAAAT
Found at i:140010 original size:23 final size:23
Alignment explanation
Indices: 139961--140022 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
139951 TATTTTAAAA
* * *
139961 TTAAAACAAAAATAAAATATGTTTT
1 TTAAAATAAAAAT--AATATATATT
139986 TTAAAATAAAAATAATATATATT
1 TTAAAATAAAAATAATATATATT
140009 TT-AAATAAAAATAA
1 TTAAAATAAAAATAA
140023 GAATAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.35
23 10 0.29
25 12 0.35
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TTAAAATAAAAATAATATATATT
Found at i:140048 original size:30 final size:27
Alignment explanation
Indices: 139937--140040 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 27
139927 TAACATTTAG
* *
139937 ATAAAAATAAAGTATATTTTAAAATTAAA
1 ATAAGAATAAAATATATTTT-AAA-TAAA
* * * *
139966 ACAAAAATAAAATATGTTTT--TTAAA
1 ATAAGAATAAAATATATTTTAAATAAA
* *
139991 ATAAAAATAATATATATTTTAAATAAAA
1 ATAAGAATAAAATATATTTTAAAT-AAA
140019 ATAAGAATAAAATATATATTTA
1 ATAAGAATAAAATATAT-TTTA
140041 TGTTAAAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
25 21 0.34
27 1 0.02
28 18 0.30
29 21 0.34
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (27 bp):
ATAAGAATAAAATATATTTTAAATAAA
Found at i:140113 original size:30 final size:30
Alignment explanation
Indices: 140060--140136 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
140050 AAGGATAAGT
**
140060 TATATTTAATAATTTAAGGTAAGACTAGAA
1 TATATTTAATAATTTAAGGTAAGAAAAGAA
** *
140090 TATATTTAATAATTTAATTTAAGAAAATAA
1 TATATTTAATAATTTAAGGTAAGAAAAGAA
* *
140120 TATATGTAATAAGTTAA
1 TATATTTAATAATTTAA
140137 AATAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.40
Consensus pattern (30 bp):
TATATTTAATAATTTAAGGTAAGAAAAGAA
Found at i:140174 original size:32 final size:32
Alignment explanation
Indices: 140130--140234 Score: 121
Period size: 32 Copynumber: 3.4 Consensus size: 32
140120 TATATGTAAT
*
140130 AAGTTAAAATAAAAAATAAGATATATTTTTAA
1 AAGTTAAAATAAAAAATAAAATATATTTTTAA
*
140162 AAGTTAATATAAAAAATAAAATATATTTTT--
1 AAGTTAAAATAAAAAATAAAATATATTTTTAA
** * *
140192 AAGTTATGAT-AAGATTAAAATATATTTTT--
1 AAGTTAAAATAAAAAATAAAATATATTTTTAA
140221 AAGTTAAAATAAAA
1 AAGTTAAAATAAAA
140235 GTACGATATA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 25 0.40
30 10 0.16
32 28 0.44
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (32 bp):
AAGTTAAAATAAAAAATAAAATATATTTTTAA
Found at i:145674 original size:40 final size:40
Alignment explanation
Indices: 145630--145716 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
145620 ATATATATAT
*
145630 ATATATATAAAGAAACATGTAGCTTAACCATTATTCTTAA
1 ATATATATAAAGAAACATGTAGCATAACCATTATTCTTAA
*
145670 ATATATATAAAGAAACATGTAGCATAATCATTATTCTTAA
1 ATATATATAAAGAAACATGTAGCATAACCATTATTCTTAA
145710 ATATATA
1 ATATATA
145717 AATGTCAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (40 bp):
ATATATATAAAGAAACATGTAGCATAACCATTATTCTTAA
Found at i:145842 original size:21 final size:21
Alignment explanation
Indices: 145818--145866 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
145808 TTGACCGTTG
145818 TAGTGGTGACGTGGCAGTTCA
1 TAGTGGTGACGTGGCAGTTCA
*
145839 TAGTGGTGACGTGGCAGTTTA
1 TAGTGGTGACGTGGCAGTTCA
145860 TAGTGGT
1 TAGTGGT
145867 TGATAATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.10, G:0.39, T:0.33
Consensus pattern (21 bp):
TAGTGGTGACGTGGCAGTTCA
Found at i:148451 original size:80 final size:80
Alignment explanation
Indices: 148314--148475 Score: 297
Period size: 80 Copynumber: 2.0 Consensus size: 80
148304 GTGTCTTTTC
*
148314 TGAAAAAGTTGAAGTCGTATAGTGTTTCCGATGCCCCCTCTTTGACAATGTAACAATAATCATAA
1 TGAAAAAGTTGAAGTCGCATAGTGTTTCCGATGCCCCCTCTTTGACAATGTAACAATAATCATAA
148379 ATCAAAAAAATAATA
66 ATCAAAAAAATAATA
* *
148394 TGAAAAAGTTGAAGTCGCATGGTGTTTCCGATGCCCCCTCTTTGACAATGTAGCAATAATCATAA
1 TGAAAAAGTTGAAGTCGCATAGTGTTTCCGATGCCCCCTCTTTGACAATGTAACAATAATCATAA
148459 ATCAAAAAAATAATA
66 ATCAAAAAAATAATA
148474 TG
1 TG
148476 GTAGGGTGTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (80 bp):
TGAAAAAGTTGAAGTCGCATAGTGTTTCCGATGCCCCCTCTTTGACAATGTAACAATAATCATAA
ATCAAAAAAATAATA
Found at i:153551 original size:35 final size:35
Alignment explanation
Indices: 153486--153560 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
153476 TTTCAATGAA
* *
153486 CTTAACGAGCAACGGGACAAGCAACAAGCATTGAT
1 CTTAACGAGCAACGGGACAAGCAACAAGCATCGAG
** *
153521 CTTAACGAGCAACGAGGTGAA-CAACGAGCATCGAG
1 CTTAACGAGCAACG-GGACAAGCAACAAGCATCGAG
153556 CTTAA
1 CTTAA
153561 TGAGTTACGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 30 0.88
36 4 0.12
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.15
Consensus pattern (35 bp):
CTTAACGAGCAACGGGACAAGCAACAAGCATCGAG
Found at i:157158 original size:16 final size:16
Alignment explanation
Indices: 157137--157169 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
157127 ATGTAGTTTA
157137 ATTTTTGTTTTATTTT
1 ATTTTTGTTTTATTTT
157153 ATTTTTGTTTTATTTT
1 ATTTTTGTTTTATTTT
157169 A
1 A
157170 GTATCCGTCG
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:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (16 bp):
ATTTTTGTTTTATTTT
Found at i:157312 original size:16 final size:15
Alignment explanation
Indices: 157285--157314 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
157275 TTAACGGGAT
157285 ACTAAAATAAATAAA
1 ACTAAAATAAATAAA
157300 ACTAAATATAAATAA
1 ACTAAA-ATAAATAA
157315 TTTTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
ACTAAAATAAATAAA
Found at i:157348 original size:21 final size:21
Alignment explanation
Indices: 157324--157368 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
157314 ATTTTATAAA
*
157324 AAAATTAA-AATATTAAATATT
1 AAAATTAATAAT-TTAAATACT
157345 AAAATTAATAATTTAAATACT
1 AAAATTAATAATTTAAATACT
157366 AAA
1 AAA
157369 CACGTAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTAATAATTTAAATACT
Found at i:157938 original size:22 final size:22
Alignment explanation
Indices: 157910--157954 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
157900 TCATGGCGTT
157910 TGTTCACAAAAACACTGCTAAA
1 TGTTCACAAAAACACTGCTAAA
*
157932 TGTTCACAAAAACGCTGCTAAA
1 TGTTCACAAAAACACTGCTAAA
157954 T
1 T
157955 CTTTAGCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
TGTTCACAAAAACACTGCTAAA
Done.