Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 38
Found at i:7465050 original size:18 final size:18
Alignment explanation
Indices: 7465027--7465094 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
7465017 ACTGAATATT
7465027 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
7465045 TGTCCCGGAGGACTACTGA
1 TGTCCCGAAGGACCACT-A
* *
7465064 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
7465083 TGTCCCGAAGGA
1 TGTCCCGAAGGA
7465095 TAACTGATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 25 0.62
19 2 0.05
20 13 0.32
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:7465073 original size:38 final size:38
Alignment explanation
Indices: 7465026--7465102 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
7465016 CACTGAATAT
* *
7465026 TTGTCCCGAAGGACCACTATGTCCCGGAGGACT-ACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGA-TAACTGA
*
7465064 TTGTTCCGAAGAACCACTATGTCCCGAAGGATAACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGATAACTGA
7465102 T
1 T
7465103 AATCCCTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGGATAACTGA
Found at i:7470774 original size:22 final size:22
Alignment explanation
Indices: 7470746--7470827 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
7470736 GCATGTGAAG
7470746 TATGTCCCGAAGGACCTATGCA
1 TATGTCCCGAAGGACCTATGCA
7470768 TATGTCCC----GACCTATGCA
1 TATGTCCCGAAGGACCTATGCA
* * *
7470786 TATGTCCCGAATGACCTCTGTA
1 TATGTCCCGAAGGACCTATGCA
*
7470808 TATGTCCCGAAGGACTTATG
1 TATGTCCCGAAGGACCTATG
7470828 AAACCCTAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
18 18 0.35
22 33 0.65
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (22 bp):
TATGTCCCGAAGGACCTATGCA
Found at i:7470781 original size:18 final size:18
Alignment explanation
Indices: 7470758--7470795 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
7470748 TGTCCCGAAG
7470758 GACCTATGCATATGTCCC
1 GACCTATGCATATGTCCC
7470776 GACCTATGCATATGTCCC
1 GACCTATGCATATGTCCC
7470794 GA
1 GA
7470796 ATGACCTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (18 bp):
GACCTATGCATATGTCCC
Found at i:7471624 original size:2 final size:2
Alignment explanation
Indices: 7471617--7471678 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
7471607 CTATGTTCAC
7471617 AT AT AT AT AT AT 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 AT AT AT AT AT AT
7471659 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
7471679 CAATTAATTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7473852 original size:17 final size:17
Alignment explanation
Indices: 7473819--7473893 Score: 82
Period size: 18 Copynumber: 4.3 Consensus size: 17
7473809 ATAGAAAAAT
*
7473819 AAAATGAAAACGAAGAAA
1 AAAATGAAAATG-AGAAA
7473837 AAAATGAAAATGAGAAA
1 AAAATGAAAATGAGAAA
7473854 GAAAA-G-AAATAGAGAAA
1 -AAAATGAAAAT-GAGAAA
*
7473871 AAAATGAGAAATGAAAAA
1 AAAATGA-AAATGAGAAA
7473889 AAAAT
1 AAAAT
7473894 TCACTTGTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.16
17 13 0.26
18 25 0.50
19 4 0.08
ACGTcount: A:0.72, C:0.01, G:0.17, T:0.09
Consensus pattern (17 bp):
AAAATGAAAATGAGAAA
Found at i:7473886 original size:16 final size:15
Alignment explanation
Indices: 7473843--7473890 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
7473833 GAAAAAAATG
7473843 AAAATGAGAAAGAAA
1 AAAATGAGAAAGAAA
7473858 AGAAAT-AG--AGAAA
1 A-AAATGAGAAAGAAA
7473871 AAAATGAGAAATGAAA
1 AAAATGAGAAA-GAAA
7473887 AAAA
1 AAAA
7473891 AATTCACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.14
13 8 0.29
15 4 0.14
16 12 0.43
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (15 bp):
AAAATGAGAAAGAAA
Found at i:7476374 original size:45 final size:45
Alignment explanation
Indices: 7476324--7476465 Score: 114
Period size: 45 Copynumber: 3.2 Consensus size: 45
7476314 TTAAATGATT
7476324 TTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAG
1 TTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAG
*** * ** * ** **
7476369 TTAAAGAAAACAGTT-T-GGATTTTGATTCTAAG-AGTTAA-G-TGATT
1 TTAAAG-AATTGGTTGTAAGA-AATGA-T-GAAGAACCTAAGGATGAAG
7476413 TTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAG
1 TTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAG
7476458 TTAAAGAA
1 TTAAAGAA
7476466 AACAGTTTGG
Statistics
Matches: 66, Mismatches: 22, Indels: 18
0.62 0.21 0.17
Matches are distributed among these distances:
42 3 0.05
43 10 0.15
44 16 0.24
45 24 0.36
46 10 0.15
47 3 0.05
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.29
Consensus pattern (45 bp):
TTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAG
Found at i:7476460 original size:89 final size:89
Alignment explanation
Indices: 7476309--7476486 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
7476299 ATGGGTTTTG
7476309 AAGAGTTAAATGATTTTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAGTTAAA
1 AAGAGTTAAATGATTTTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAGTTAAA
7476374 GAAAACAGTTTGGATTTTGATTCT
66 GAAAACAGTTTGGATTTTGATTCT
*
7476398 AAGAGTTAAGTGATTTTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAGTTAAA
1 AAGAGTTAAATGATTTTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAGTTAAA
7476463 GAAAACAGTTTGGATTTTGATTCT
66 GAAAACAGTTTGGATTTTGATTCT
7476487 GTCAGTAGGT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.31
Consensus pattern (89 bp):
AAGAGTTAAATGATTTTAAAGAATTGGTTGTAAGAAATGATGAAGAACCTAAGGATGAAGTTAAA
GAAAACAGTTTGGATTTTGATTCT
Found at i:7477951 original size:47 final size:45
Alignment explanation
Indices: 7477857--7477982 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
7477847 GTAACCATGC
* * *
7477857 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
* * *
7477901 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATAGGAA
*
7477948 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
7477983 AGATTTTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 22 0.31
45 11 0.15
46 1 0.01
47 38 0.53
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
Found at i:7480779 original size:16 final size:16
Alignment explanation
Indices: 7480760--7480792 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7480750 GTAATTTCGA
7480760 TTATGTTTAAT-TTAAT
1 TTAT-TTTAATATTAAT
7480776 TTATTTTAATATTAAT
1 TTATTTTAATATTAAT
7480792 T
1 T
7480793 CTCTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTATTTTAATATTAAT
Found at i:7484135 original size:12 final size:12
Alignment explanation
Indices: 7484090--7484141 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
7484080 TTACTTGCAA
7484090 CACATATTCATA-
1 CACAT-TTCATAT
*
7484102 CACATGTCAATATT
1 CACATTTC-ATA-T
7484116 CACATTTCATAT
1 CACATTTCATAT
*
7484128 CACTTTTCATAT
1 CACATTTCATAT
7484140 CA
1 CA
7484142 ATTGCACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.06
12 22 0.65
13 3 0.09
14 7 0.21
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (12 bp):
CACATTTCATAT
Found at i:7488077 original size:28 final size:28
Alignment explanation
Indices: 7488024--7488082 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7488014 AAAGTAAAAG
* *
7488024 AAAGATAAAGTAATGAAAAGTAAATAAA
1 AAAGATAAAATAATGAAAAATAAATAAA
*
7488052 AAAGAGTAAAATAATTAAAAAT-AATAAA
1 AAAGA-TAAAATAATGAAAAATAAATAAA
7488080 AAA
1 AAA
7488083 CCGAAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (28 bp):
AAAGATAAAATAATGAAAAATAAATAAA
Found at i:7488249 original size:2 final size:2
Alignment explanation
Indices: 7488244--7488281 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7488234 AAAAACTTAA
*
7488244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7488282 TAATGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7488532 original size:29 final size:30
Alignment explanation
Indices: 7488484--7488546 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
7488474 TAAAGGGGGT
*
7488484 CAAATTAAAGCTTTAAAAAAACGTGGGGAC
1 CAAATTAAAGCTTTAAAAAAACATGGGGAC
*
7488514 CAAATTAAAGCTTT-AAAAAATATGGGGAC
1 CAAATTAAAGCTTTAAAAAAACATGGGGAC
7488543 CAAA
1 CAAA
7488547 ATTGTAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
CAAATTAAAGCTTTAAAAAAACATGGGGAC
Found at i:7488549 original size:30 final size:29
Alignment explanation
Indices: 7488484--7488546 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 29
7488474 TAAAGGGGGT
7488484 CAAATTAAAGCTTTAAAAAAACGTGGGGAC
1 CAAATTAAAGCTTTAAAAAAAC-TGGGGAC
7488514 CAAATTAAAGCTTTAAAAAATA-TGGGGAC
1 CAAATTAAAGCTTTAAAAAA-ACTGGGGAC
7488543 CAAA
1 CAAA
7488547 ATTGTAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 11 0.34
30 20 0.62
31 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (29 bp):
CAAATTAAAGCTTTAAAAAAACTGGGGAC
Found at i:7491257 original size:67 final size:66
Alignment explanation
Indices: 7491186--7491369 Score: 213
Period size: 61 Copynumber: 2.8 Consensus size: 66
7491176 CCTTATTTTC
7491186 TTTTCTTTTCTTTTTCTTTTTTCAATTTATGGCGCCCTTTCGGGTTTTCACCCTAAACGTTTTTC
1 TTTTCTTTTCTTTTTCTTTTTTCAATTTA-GGCGCCCTTTCGGGTTTTCACCCTAAACGTTTTT-
7491251 T-T
64 TAT
* *
7491253 TTTTC---TC-TTTTC--TTTTCAATTTAAGGCGCCCTTTCAGGTTTTTACCCTAAACGTTTTTT
1 TTTTCTTTTCTTTTTCTTTTTTCAATTT-AGGCGCCCTTTCGGGTTTTCACCCTAAACGTTTTTT
7491312 AT
65 AT
* * * *
7491314 TTTCTCTTTTCTTTTTCTTTTTT-AACTTAGGACGCCCTCTCGTGTTTTCATCCTAA
1 TTT-TCTTTTCTTTTTCTTTTTTCAATTTAGG-CGCCCTTTCGGGTTTTCACCCTAA
7491370 GCGAAGTATT
Statistics
Matches: 99, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
60 1 0.01
61 46 0.46
62 3 0.03
63 5 0.05
64 2 0.02
65 2 0.02
66 8 0.08
67 28 0.28
68 4 0.04
ACGTcount: A:0.13, C:0.23, G:0.10, T:0.54
Consensus pattern (66 bp):
TTTTCTTTTCTTTTTCTTTTTTCAATTTAGGCGCCCTTTCGGGTTTTCACCCTAAACGTTTTTTA
T
Found at i:7494416 original size:23 final size:23
Alignment explanation
Indices: 7494384--7494427 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
7494374 GCTTCTTGAT
7494384 TTCTTCTTTGATCTTAAGGAGTC
1 TTCTTCTTTGATCTTAAGGAGTC
*
7494407 TTCTTTTTTGATCTTAAGGAG
1 TTCTTCTTTGATCTTAAGGAG
7494428 CATCTCAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (23 bp):
TTCTTCTTTGATCTTAAGGAGTC
Found at i:7498653 original size:90 final size:90
Alignment explanation
Indices: 7498532--7498709 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
7498522 TAATCCCGAA
* * * * *
7498532 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
7498597 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
7498622 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
7498687 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
7498710 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:7500866 original size:20 final size:20
Alignment explanation
Indices: 7500823--7500866 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7500813 ATTCATTGTT
* **
7500823 TCAATTCATTCTTCGCAGTT
1 TCAATTCATTCTTCACAGCA
7500843 TCAATTCATTCTTCACAGCA
1 TCAATTCATTCTTCACAGCA
7500863 TCAA
1 TCAA
7500867 ACTCTTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (20 bp):
TCAATTCATTCTTCACAGCA
Found at i:7501346 original size:63 final size:63
Alignment explanation
Indices: 7501247--7501373 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
7501237 GAGAATGTCA
7501247 CTGTGGGTCAACCAAGGGGCTCTCCAAGCAATATCTCGATCCTGAAGATGTGTGAAGACTATC
1 CTGTGGGTCAACCAAGGGGCTCTCCAAGCAATATCTCGATCCTGAAGATGTGTGAAGACTATC
*
7501310 CTGTGGGTCAACGAAGGGGCTCTCCAAGCAATATCTCGATCCTGAAGATGTGTGAAGACTATC
1 CTGTGGGTCAACCAAGGGGCTCTCCAAGCAATATCTCGATCCTGAAGATGTGTGAAGACTATC
7501373 C
1 C
7501374 ATTTTTCCTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (63 bp):
CTGTGGGTCAACCAAGGGGCTCTCCAAGCAATATCTCGATCCTGAAGATGTGTGAAGACTATC
Found at i:7503194 original size:24 final size:23
Alignment explanation
Indices: 7503151--7503195 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
7503141 CAAGGAAAGC
*
7503151 AAAAGAAATAATATAAAGTAATG
1 AAAAGAAATAATAAAAAGTAATG
7503174 AAAAGTAAATAA-AAAAGAGTAA
1 AAAAG-AAATAATAAAA-AGTAA
7503196 AATAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (23 bp):
AAAAGAAATAATAAAAAGTAATG
Found at i:7504626 original size:5 final size:5
Alignment explanation
Indices: 7504573--7504619 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
7504563 TAAAACAGAA
* *
7504573 ATAA- ATAAT ATAAT AT-AT ATAAT ATATGT TTAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATA
7504620 TATTATAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 8 0.22
5 25 0.69
6 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:7505191 original size:18 final size:19
Alignment explanation
Indices: 7505168--7505208 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
7505158 ATAAAAAGAG
7505168 TAAAATAATAAAAT-AAAA-
1 TAAAATAA-AAAATGAAAAC
7505186 TAAAATAAAAAATGAAAAC
1 TAAAATAAAAAATGAAAAC
7505205 TAAA
1 TAAA
7505209 CAAATTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 12 0.57
19 4 0.19
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
TAAAATAAAAAATGAAAAC
Found at i:7510000 original size:23 final size:23
Alignment explanation
Indices: 7509969--7510023 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
7509959 TTTTATTCTT
7509969 CATTATTTATTATTCATTCTTTA
1 CATTATTTATTATTCATTCTTTA
* *
7509992 CATTCTTTATTCTTCATTCTTTA
1 CATTATTTATTATTCATTCTTTA
7510015 CATCTATTT
1 CAT-TATTT
7510024 TATAAATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.22, C:0.18, G:0.00, T:0.60
Consensus pattern (23 bp):
CATTATTTATTATTCATTCTTTA
Found at i:7510009 original size:14 final size:14
Alignment explanation
Indices: 7509960--7510014 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
7509950 ACCTTTATAT
*
7509960 TTTATTCTTCATTA
1 TTTATTCTTCATTC
*
7509974 TTTATTATTCATTC
1 TTTATTCTTCATTC
7509988 TTTA-----CATTC
1 TTTATTCTTCATTC
7509997 TTTATTCTTCATTC
1 TTTATTCTTCATTC
7510011 TTTA
1 TTTA
7510015 CATCTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
9 9 0.26
14 25 0.74
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATTCTTCATTC
Found at i:7511613 original size:23 final size:23
Alignment explanation
Indices: 7511572--7511627 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
7511562 ATATACACAC
* *
7511572 ACATATATACAAGTATAACATAT
1 ACATACATATAAGTATAACATAT
* *
7511595 ATATACATATAAGTTTAACATAT
1 ACATACATATAAGTATAACATAT
*
7511618 GCATACATAT
1 ACATACATAT
7511628 TTATAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.34
Consensus pattern (23 bp):
ACATACATATAAGTATAACATAT
Found at i:7511683 original size:2 final size:2
Alignment explanation
Indices: 7511667--7511949 Score: 111
Period size: 2 Copynumber: 145.0 Consensus size: 2
7511657 GTTATCATAC
* * *
7511667 AT AT AT CAT AC AT AT AT A- AC AT AT ACG AT AT A- AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* *
7511709 AT AT AT AT AT AT -T AT AT -T TT AT A- AT TT AT AT ACT -T AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * * *
7511749 GT AT AGT TT AT AT -T AT AT AT AT AGT TT AT AT AT AT GT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * * *
7511792 ACT AT AT AGT TT AT AT AT -T AT AT A- AT TT AT AT AGT TT AA AT
1 A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
7511833 AT -T TT AT AT AT AT AT AT AT AT -T AT GT AT TT AT AT GT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
7511874 TT AT AT AT A- AT AA AT -T AT -T AT AT AT AT GT -T AT A- AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
7511912 A- AT GT AT ACT -T AT AT AT -T AT AT A- AGT AT AT AT TT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
7511950 TGTATGCATA
Statistics
Matches: 208, Mismatches: 40, Indels: 66
0.66 0.13 0.21
Matches are distributed among these distances:
1 20 0.10
2 173 0.83
3 15 0.07
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7511689 original size:13 final size:11
Alignment explanation
Indices: 7511659--7511691 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7511649 ATTTTTGTGT
7511659 TATCATACATA
1 TATCATACATA
7511670 TATCATACATA
1 TATCATACATA
7511681 TAT-A-ACATA
1 TATCATACATA
7511690 TA
1 TA
7511692 CGATATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.32
10 1 0.05
11 14 0.64
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (11 bp):
TATCATACATA
Found at i:7511798 original size:73 final size:70
Alignment explanation
Indices: 7511700--7511889 Score: 184
Period size: 72 Copynumber: 2.8 Consensus size: 70
7511690 TACGATATAA
* * * *
7511700 TATATATATATATATATATAT-TATAT-T-TTATA-ATTTATATACT-TAT-A-CTGTATAGTTT
1 TATATATATATATATATATATGTATATATACTATATATTTATATATTATATAATTTATATAGTTT
7511758 -ATAT
66 AATAT
*
7511762 TATATATATAGTTTATATATATGTATATATACTATATAGTTTATATATTATATAATTTATATAGT
1 TATATATATA-TATATATATATGTATATATACTATATA-TTTATATATTATATAATTTATATAGT
7511827 TTAAATAT
64 TT-AATAT
* * * *
7511835 TTTATATATATATATATATTATGTATTTATA-TGTATACTTTATATATAATA-AATT
1 TATATATATATATATATA-TATGTATATATACTATATA-TTTATATATTATATAATT
7511890 ATTATATATA
Statistics
Matches: 105, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
62 10 0.10
63 10 0.10
64 5 0.05
65 1 0.01
66 4 0.04
67 1 0.01
68 9 0.09
69 3 0.03
70 1 0.01
71 13 0.12
72 24 0.23
73 24 0.23
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (70 bp):
TATATATATATATATATATATGTATATATACTATATATTTATATATTATATAATTTATATAGTTT
AATAT
Found at i:7511813 original size:75 final size:70
Alignment explanation
Indices: 7511700--7511949 Score: 192
Period size: 73 Copynumber: 3.5 Consensus size: 70
7511690 TACGATATAA
* * * *
7511700 TATATATATATATATATATAT-TATAT-T-T-TATAATTTATATACT-TAT-A-CTGTATAGTTT
1 TATATATATATATATATATATGTATATATATATATACTTTATATATTATATAATTTATATAGTTT
7511758 -ATAT
66 AATAT
* *
7511762 TATATATATAGTTTATATATATGTATATATACTATATAGTTTATATATTATATAATTTATATAGT
1 TATATATATA-TATATATATATGTATATATA-TATATACTTTATATATTATATAATTTATATAGT
7511827 TTAAATAT
64 TT-AATAT
* * * * *
7511835 TTTATATATATATATATATTATGTATTTATATGTATACTTTATATATAATAAATTATTATATATA
1 TATATATATATATATATA-TATGTATATATATATATACTTTATATAT--TATATAATT-TATATA
7511900 TGTTATAAGTAT
62 -GTT-TAA-TAT
* * * *
7511912 AATGTATACTTATATATTATATAAGTATATATTTATAT
1 TATATATA--TATATA-TATATATGTATATATATATAT
7511950 TGTATGCATA
Statistics
Matches: 148, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
62 10 0.07
63 10 0.07
64 5 0.03
65 1 0.01
67 1 0.01
68 13 0.09
69 3 0.02
70 1 0.01
71 9 0.06
72 21 0.14
73 24 0.16
74 7 0.05
75 6 0.04
76 5 0.03
77 9 0.06
79 19 0.13
80 4 0.03
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (70 bp):
TATATATATATATATATATATGTATATATATATATACTTTATATATTATATAATTTATATAGTTT
AATAT
Found at i:7513667 original size:30 final size:30
Alignment explanation
Indices: 7513604--7513667 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
7513594 TATTTAAAGT
** *
7513604 TATTTTTTGGGTCAAAATATGTACCTTAAG
1 TATTTTTTGGGTCAAAATAAATACCTCAAG
*
7513634 TATTTTTTTGGTCAAAATAAATA-CTCAAGG
1 TATTTTTTGGGTCAAAATAAATACCTCAA-G
7513664 TATT
1 TATT
7513668 CATTTTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (30 bp):
TATTTTTTGGGTCAAAATAAATACCTCAAG
Found at i:7513791 original size:28 final size:28
Alignment explanation
Indices: 7513745--7513802 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
7513735 GAAAAAATTG
7513745 AATACTTTAGATACCTATTTTGACCAAA
1 AATACTTTAGATACCTATTTTGACCAAA
* * *
7513773 AATATTTTAGGTACTTATTTTGACCAAA
1 AATACTTTAGATACCTATTTTGACCAAA
7513801 AA
1 AA
7513803 GATAAGTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (28 bp):
AATACTTTAGATACCTATTTTGACCAAA
Found at i:7514024 original size:13 final size:12
Alignment explanation
Indices: 7514001--7514034 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
7513991 TTGATTGTAG
7514001 TTATAATTTTAT
1 TTATAATTTTAT
7514013 TTATATATTTTAT
1 TTATA-ATTTTAT
7514026 TTATGAATT
1 TTAT-AATT
7514035 ATGATAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 14 0.70
14 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
TTATAATTTTAT
Found at i:7522052 original size:16 final size:16
Alignment explanation
Indices: 7522031--7522064 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7522021 GATCCCTTGC
7522031 AACTGAACATGAGAAA
1 AACTGAACATGAGAAA
7522047 AACTGAACATGAGAAA
1 AACTGAACATGAGAAA
7522063 AA
1 AA
7522065 AGATGCTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.12
Consensus pattern (16 bp):
AACTGAACATGAGAAA
Found at i:7537370 original size:57 final size:57
Alignment explanation
Indices: 7537282--7537397 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
7537272 GATGGAACTA
7537282 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGAT
1 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGAT
7537339 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGAT
1 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGAT
7537396 CC
1 CC
7537398 TTCAGGTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (57 bp):
CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGAT
Found at i:7540417 original size:20 final size:20
Alignment explanation
Indices: 7540369--7540430 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
7540359 AACTTAAGTC
*
7540369 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
7540389 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
7540407 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
7540426 AAAAT
1 AAAAT
7540431 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:7540464 original size:28 final size:24
Alignment explanation
Indices: 7540426--7540515 Score: 85
Period size: 25 Copynumber: 3.5 Consensus size: 24
7540416 TATATGATAT
7540426 AAAATTAAATATCTATAATATAATATTAA
1 AAAATT-AATAT-T-TAAT-TAAT-TTAA
*
7540455 AAAATTAATATTTAATTTATTTAA
1 AAAATTAATATTTAATTAATTTAA
7540479 AAAATTAAT-TTTAAAATT-ATTTAAA
1 AAAATTAATATTT--AATTAATTT-AA
7540504 AAAATTAATATT
1 AAAATTAATATT
7540516 AAAATTAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
23 3 0.05
24 17 0.30
25 18 0.32
26 6 0.11
27 1 0.02
28 5 0.09
29 6 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAATTAATATTTAATTAATTTAA
Found at i:7540489 original size:13 final size:13
Alignment explanation
Indices: 7540468--7540519 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
7540458 ATTAATATTT
*
7540468 AATTTATTTAAAA
1 AATTAATTTAAAA
*
7540481 AATTAATTT-TAA
1 AATTAATTTAAAA
7540493 AATT-ATTTAAAAA
1 AATTAATTT-AAAA
7540506 AATTAATATTAAAA
1 AATTAAT-TTAAAA
7540520 TTAAAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.12
12 6 0.19
13 14 0.44
14 6 0.19
15 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATTAATTTAAAA
Found at i:7540522 original size:25 final size:24
Alignment explanation
Indices: 7540451--7540522 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
7540441 TAATATAATA
* *
7540451 TTAAAAAATTAATATTTAATTTAT
1 TTAAAAAATTAATATTAAAATTAT
*
7540475 TTAAAAAATTAATTTTAAAATTAT
1 TTAAAAAATTAATATTAAAATTAT
7540499 TTAAAAAAATTAATATTAAAATTA
1 TT-AAAAAATTAATATTAAAATTA
7540523 AAATCAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 23 0.53
25 20 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAAAAAATTAATATTAAAATTAT
Found at i:7540549 original size:12 final size:12
Alignment explanation
Indices: 7540504--7540554 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
7540494 ATTATTTAAA
7540504 AAAATT-AATATT
1 AAAATTAAATA-T
7540516 AAAATTAAA-AT
1 AAAATTAAATAT
*
7540527 CAAA-TATAATAT
1 AAAATTA-AATAT
7540539 AAAATTAAATAT
1 AAAATTAAATAT
7540551 AAAA
1 AAAA
7540555 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:7547655 original size:33 final size:33
Alignment explanation
Indices: 7547612--7547678 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
7547602 AATTTTGAGC
* * *
7547612 AGAGATTATTTTGTAATCATCTTAAATTATTGA
1 AGAGACTATTTTATAATCATCTTAAACTATTGA
7547645 AGAGACTATTTTATAATCATCTTAAACTATTGA
1 AGAGACTATTTTATAATCATCTTAAACTATTGA
7547678 A
1 A
7547679 AAAGATTCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (33 bp):
AGAGACTATTTTATAATCATCTTAAACTATTGA
Found at i:7552902 original size:104 final size:105
Alignment explanation
Indices: 7552670--7552948 Score: 332
Period size: 104 Copynumber: 2.6 Consensus size: 105
7552660 AACTAAGGTT
*
7552670 GAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATT-GGACAAG-TCTTTCTCATTATGAAC
1 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCT--TTAGGACGAGTTC-TTCTCATTATGAAC
* * * *
7552733 CCTCCACTGGAAATCTTGAGTCACCTCCTTCTGCAGTGGACTTGGAAG
60 CCT--TCTGAAAATCTTGAGTCACCTCCTTCTGCAGTGAACTTGAAAG
*
7552781 GAACACGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTCT
* * ** *
7552846 GAAAATGTTG-GTTCACC-CCTTTTGTGGTGAATTTGAAAG
66 GAAAATCTTGAG-TCACCTCCTTCTGCAGTGAACTTGAAAG
* *
7552885 GAACAAGTTCTTCTCATTTTGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTC
7552949 ATTGGAAATG
Statistics
Matches: 151, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
104 78 0.52
105 15 0.10
106 2 0.01
107 23 0.15
108 5 0.03
109 4 0.03
110 1 0.01
111 23 0.15
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (105 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTCT
GAAAATCTTGAGTCACCTCCTTCTGCAGTGAACTTGAAAG
Found at i:7553405 original size:133 final size:135
Alignment explanation
Indices: 7552885--7553487 Score: 857
Period size: 136 Copynumber: 4.5 Consensus size: 135
7552875 AATTTGAAAG
* * * *
7552885 GAACAAGTTCTTCTCATTTTGAAC-T-TTCT--C-CTTTAGGACGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGA-TAGTTCTTCTCATTATGAACT
* * * *
7552945 CTTC-ATTGGAAATGTCGATCCCTCAAGCGAGGCATCACTGATTCGAAAT-TCCGTGAATCGAGT
65 C-TCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTCGAAATGT-CATGAATCGAGT
7553008 GATAGGTC
128 GATAGGTC
* *
7553016 GAACAAGCTCTTCTCATTATAAACTTCTTCTTCCTCTTTCGGATAAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGAT-AGTTCTTCTCATTATGAACT
* * * *
7553081 CTCCATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTAATTCGAAATATCGTGAATCGAGTGA
65 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
7553146 TAGGTC
130 TAGGTC
* ** *
7553152 AAACAATTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGAT-AGTTCTTCTCATTATGAACT
* * *
7553217 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTTATTCGAAATGCCATGAATCGAGTGA
65 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
7553282 TAGGTC
130 TAGGTC
*
7553288 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGAT-G-TGTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATAGTTCTTCTCATTATGAACTC
*
7553351 TCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
66 TCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGAT
7553416 AGGTC
131 AGGTC
*
7553421 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTT-GGATGGGTTCTTCTCATTATGAAC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT-TTCGGAT-AGTTCTTCTCATTATGAAC
7553485 TCT
64 TCT
7553488 GTACTGGAAA
Statistics
Matches: 430, Mismatches: 30, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
131 21 0.05
132 1 0.00
133 130 0.30
134 3 0.01
135 4 0.01
136 270 0.63
137 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATAGTTCTTCTCATTATGAACTC
TCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGAT
AGGTC
Found at i:7553473 original size:269 final size:269
Alignment explanation
Indices: 7552885--7553487 Score: 912
Period size: 269 Copynumber: 2.2 Consensus size: 269
7552875 AATTTGAAAG
* *
7552885 GAACAAGTTCTTCTCATTTTGAAC-T-TTCT-CCT-TTAGGACGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTAGGATGAGTTCTTCTCATTATGAACTC
* * *
7552946 TTCATTGGAAATGTCGATCCCTCAAGCGAGGCATCACTGATTCGAAATTCCGTGAATCGAGTGAT
66 -TCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATGCCATGAATCGAGTGAT
*
7553011 AGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTTCCTCTTTCGGATAAGTTCTTCTCATTAT
130 AGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTTTCGGAT-AGTTCTTCTCATTAT
* *
7553076 GAACTCTCCATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTAATTCGAAATATCGTGAATCG
194 GAACTCTCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTAATTCGAAATATCATGAATCG
7553141 AGTGATAGGTC
259 AGTGATAGGTC
* * *
7553152 AAACAATTTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCT-TAGGATGAGTTCTTCTCATTATGAACT
* ** *
7553217 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTTATTCGAAATGCCATGAATCGAGTGA
65 CTC-ATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATGCCATGAATCGAGTGA
* *
7553282 TAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGAT-G-TGTTCTCATTAT
129 TAGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTTTCGGATAGTTCTTCTCATTAT
* * *
7553345 GAACTCTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCATGAATCG
194 GAACTCTCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTAATTCGAAATATCATGAATCG
7553410 AGTGATAGGTC
259 AGTGATAGGTC
* * *
7553421 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGGGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCT-TAGGATGAGTTCTTCTCATTATGAACT
7553486 CT
65 CT
7553488 GTACTGGAAA
Statistics
Matches: 304, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
267 21 0.07
268 1 0.00
269 147 0.48
270 4 0.01
271 3 0.01
272 128 0.42
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (269 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTAGGATGAGTTCTTCTCATTATGAACTC
TCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATGCCATGAATCGAGTGATA
GGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTTTCGGATAGTTCTTCTCATTATGA
ACTCTCAATTGGAAATGTCAATCCCTCAAGTGAGGCGTCACTAATTCGAAATATCATGAATCGAG
TGATAGGTC
Found at i:7553888 original size:76 final size:72
Alignment explanation
Indices: 7553788--7553958 Score: 216
Period size: 76 Copynumber: 2.3 Consensus size: 72
7553778 TTTTATTTTG
* * * * *
7553788 AAGGAAAATTATCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGTGAGATTCAAT
1 AAGGGAAATTGTCTCAAGCGAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGGGAGA--CAAA
*
7553853 TTCTTGTTTC
64 AT-TTGTTTC
* **
7553863 AAGGGAAAGTTGTCTCAAGCGAGACGAATTTGGTTTTAAGAAAAACCATCTCAAGGGAGACAAAA
1 AAGGGAAA-TTGTCTCAAGCGAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGGGAGACAAAA
7553928 TTTGTTTC
65 TTTGTTTC
*
7553936 AAGGGAAACTGTCTCAAGCGAGA
1 AAGGGAAATTGTCTCAAGCGAGA
7553959 TAAAATCTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
72 14 0.16
73 15 0.18
74 4 0.05
75 7 0.08
76 45 0.53
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (72 bp):
AAGGGAAATTGTCTCAAGCGAGACGAAGTAAGTTTTAAGAAAAACCATCTCAAGGGAGACAAAAT
TTGTTTC
Found at i:7553917 original size:36 final size:36
Alignment explanation
Indices: 7553875--7554262 Score: 121
Period size: 40 Copynumber: 9.9 Consensus size: 36
7553865 GGGAAAGTTG
* *
7553875 TCTCAAGCGAGAC-GAATTTGGTTTTAAGAAAAACCA
1 TCTCAAGCGAGACAAAATTT-GTTTCAAGAAAAACCA
* ** **
7553911 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTG
1 TCTCAAGCGAGACAAAATTTGTTTCAAGAAAAACCA
* ** *
7553947 TCTCAAGCGAGATAAAATCTTTTGTTTCAAGGGAAACTA
1 TCTCAAGCGAGACAAAA---TTTGTTTCAAGAAAAACCA
* * *
7553986 TCTAAAGCGAGATAAAATCTTCTGTTTCAAGGAAAAACAA
1 TCTCAAGCGAGACAAAA--TT-TGTTTCAA-GAAAAACCA
** * * *
7554026 TCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAA
1 TCTCAAGCGAGACAAAA--TT-TGTTTCAA-GAAAAACCA
** * * *
7554066 TCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAA
1 TCTCAAGCGAGACAAAA--TT-TGTTTCAA-GAAAAACCA
** * * *
7554106 TCTTGAGTGAGATAAAATCTTCTGTTTCAAGAAAAACAA
1 TCTCAAGCGAGACAAAA--TT-TGTTTCAAGAAAAACCA
** * * *
7554145 TCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAA
1 TCTCAAGCGAGACAAAA--TT-TGTTTCAA-GAAAAACCA
* * * *
7554185 TCTTAAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAA
1 TCTCAAGCGAGACAAAA--TT-TGTTTCAA-GAAAAACCA
** *
7554225 TCTTGAGCGAGATAAAATCTTTTGTTTCAAGGAAAAAC
1 TCTCAAGCGAGACAAAA---TTTGTTTCAA-GAAAAAC
7554263 AATATTGAAC
Statistics
Matches: 320, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
36 38 0.12
37 5 0.02
38 2 0.01
39 81 0.25
40 192 0.60
41 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTTGTTTCAAGAAAAACCA
Found at i:7554045 original size:40 final size:40
Alignment explanation
Indices: 7553955--7554405 Score: 726
Period size: 40 Copynumber: 11.3 Consensus size: 40
7553945 TGTCTCAAGC
* * * ** *
7553955 GAGATAAAATCTTTTGTTTCAAGG-GAAACTATCTAAAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
7553994 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
7554034 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
7554074 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
7554114 GAGATAAAATCTTCTGTTTCAA-GAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
7554153 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
7554193 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * **
7554233 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATATTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* **
7554273 GAGATAAAATCTTCTGTTTCAAGGAAAAGCAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * *
7554313 GAGATAAAATCTTCTATTTCAAGGAAAAGCAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
7554353 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
7554393 GAGATAAAATCTT
1 GAGATAAAATCTT
7554406 TGGTATTAAA
Statistics
Matches: 390, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 62 0.16
40 328 0.84
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
Found at i:7554136 original size:159 final size:159
Alignment explanation
Indices: 7553954--7554405 Score: 726
Period size: 159 Copynumber: 2.8 Consensus size: 159
7553944 CTGTCTCAAG
* * *
7553954 CGAGATAAAATCTTTTGTTTCAAGGGAAACTATCTAAAGCGAGATAAAATCTTCTGTTTCAAGGA
1 CGAGATAAAATCTTCTGTTTCAAGGAAAACAATCTAAAGCGAGATAAAATCTTCTGTTTCAAGGA
7554019 AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAAT
66 AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAAT
* *
7554084 CTTCTGTTTCAAGGAAAAACAATCTTGAG
131 CTTCTGTTTCAAGGAAAAACAATATTGAA
* * ** *
7554113 TGAGATAAAATCTTCTGTTTCAAGAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGA
1 CGAGATAAAATCTTCTGTTTCAAGGAAAACAATCTAAAGCGAGATAAAATCTTCTGTTTCAAGGA
* *
7554178 AAAACAATCTTAAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGCGAGATAAAAT
66 AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAAT
*
7554243 CTTTTGTTTCAAGGAAAAACAATATTGAA
131 CTTCTGTTTCAAGGAAAAACAATATTGAA
* *
7554272 CGAGATAAAATCTTCTGTTTCAAGGAAAAGCAATCTTGAA-CGAGATAAAATCTTCTATTTCAAG
1 CGAGATAAAATCTTCTGTTTCAAGGAAAA-CAATC-TAAAGCGAGATAAAATCTTCTGTTTCAAG
* *
7554336 GAAAAGCAATCTTGAATGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAA
64 GAAAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAA
7554401 ATCTT
129 ATCTT
7554406 TGGTATTAAA
Statistics
Matches: 268, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
159 173 0.65
160 93 0.35
161 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (159 bp):
CGAGATAAAATCTTCTGTTTCAAGGAAAACAATCTAAAGCGAGATAAAATCTTCTGTTTCAAGGA
AAAACAATCTTGAGTGAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAGATAAAAT
CTTCTGTTTCAAGGAAAAACAATATTGAA
Found at i:7554186 original size:23 final size:23
Alignment explanation
Indices: 7554160--7554228 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
7554150 AGTGAGATAA
7554160 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
** * *
7554183 AATCTTAAG--T-GA-G-ATAA-
1 AATCTTCTGTTTCAAGGAAAAAC
7554200 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
7554223 AATCTT
1 AATCTT
7554229 GAGCGAGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 7 0.22
18 3 0.09
19 2 0.06
20 2 0.06
21 2 0.06
22 3 0.09
23 13 0.41
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (23 bp):
AATCTTCTGTTTCAAGGAAAAAC
Found at i:7557253 original size:23 final size:23
Alignment explanation
Indices: 7557227--7557271 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7557217 CACCACAGCT
*
7557227 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
7557250 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
7557272 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:7557489 original size:149 final size:149
Alignment explanation
Indices: 7557239--7557553 Score: 542
Period size: 149 Copynumber: 2.1 Consensus size: 149
7557229 TATAATTGCA
7557239 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
7557303 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* *
7557368 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
* **
7557388 CCGAAGGACCGCGTAGAATTGCAGCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
7557453 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
* *
7557518 CAAAGAATATACATTTGTC
131 CAAAGAATATACATATATC
*
7557537 CCGAAGGATCGCGTAGA
1 CCGAAGGACCGCGTAGA
7557554 CCCTCGACTC
Statistics
Matches: 157, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 1 0.01
149 156 0.99
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:7557673 original size:14 final size:14
Alignment explanation
Indices: 7557654--7557681 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7557644 AACTTGTAAT
7557654 TCACGTATCACATA
1 TCACGTATCACATA
7557668 TCACGTATCACATA
1 TCACGTATCACATA
7557682 GCTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCACGTATCACATA
Found at i:7559083 original size:21 final size:21
Alignment explanation
Indices: 7559059--7559103 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7559049 TGTTGTTCGT
* *
7559059 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
7559080 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
7559101 TTG
1 TTG
7559104 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:7562262 original size:23 final size:23
Alignment explanation
Indices: 7562236--7562280 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7562226 CACCACAGCT
*
7562236 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
7562259 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
7562281 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:7562498 original size:149 final size:149
Alignment explanation
Indices: 7562248--7562562 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
7562238 TATAATTGCA
7562248 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTA
7562312 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* *
7562377 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
**
7562397 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
*
7562462 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACATATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
7562527 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
7562546 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
7562563 CCCTCGACTC
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:7562682 original size:14 final size:14
Alignment explanation
Indices: 7562663--7562690 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7562653 AACTTGTAAT
7562663 TCACGTATCACATA
1 TCACGTATCACATA
7562677 TCACGTATCACATA
1 TCACGTATCACATA
7562691 ACTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCACGTATCACATA
Found at i:7564088 original size:21 final size:21
Alignment explanation
Indices: 7564064--7564108 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7564054 TGTTGTTCGT
* *
7564064 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
7564085 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
7564106 TTG
1 TTG
7564109 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:7570758 original size:17 final size:18
Alignment explanation
Indices: 7570719--7570760 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7570709 AAGTAGTGTT
*
7570719 CTTGAAAGAAAAATGAAT
1 CTTGAAAGAAAAATGAAG
* *
7570737 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATGAAG
7570754 CTTGAAA
1 CTTGAAA
7570761 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATGAAG
Found at i:7584333 original size:28 final size:28
Alignment explanation
Indices: 7584280--7584351 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
7584270 TGGAGAAATT
* * *
7584280 AGAAATATTACAAACACCTTTTTTTAGC
1 AGAAATATTACAAACACATCTATTTAGC
* *
7584308 AGAAATATTACAAATACATCTATTTA-A
1 AGAAATATTACAAACACATCTATTTAGC
*
7584335 AAACAATATTACAAACA
1 AGA-AATATTACAAACA
7584352 TATGCACAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (28 bp):
AGAAATATTACAAACACATCTATTTAGC
Found at i:7584459 original size:2 final size:2
Alignment explanation
Indices: 7584448--7584476 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7584438 AAATTTTGAA
7584448 AT AT -T 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
7584477 TATTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7584505 original size:9 final size:9
Alignment explanation
Indices: 7584484--7584519 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
7584474 TATTATTAAT
7584484 AAAATAT-A
1 AAAATATAA
7584492 AAAATATAA
1 AAAATATAA
7584501 AAAATATAA
1 AAAATATAA
7584510 AAAAT-TAA
1 AAAATATAA
7584518 AA
1 AA
7584520 TTTTTCAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATATAA
Found at i:7584518 original size:17 final size:16
Alignment explanation
Indices: 7584478--7584519 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 16
7584468 TATATATATT
7584478 ATTAATAAAATATAAAA
1 ATTAA-AAAATATAAAA
7584495 ATATAAAAAATATAAAAA
1 AT-TAAAAAATAT-AAAA
7584513 ATTAAAA
1 ATTAAAA
7584520 TTTTTCAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTAAAAAATATAAAA
Found at i:7586685 original size:37 final size:38
Alignment explanation
Indices: 7586644--7586779 Score: 181
Period size: 37 Copynumber: 3.7 Consensus size: 38
7586634 ATTCTAATCG
*
7586644 AATATAAATTCAT-AATAATATATTCATATTTTAATTT
1 AATATAAATTCATAAATAATATATTCATATTTTAATTA
* * *
7586681 AATATAAATTCGT-AATAATACATTCATATTTTAATTG
1 AATATAAATTCATAAATAATATATTCATATTTTAATTA
*
7586718 AATATAAATTCATAAATAATATAATT-ATA-TTTGATTA
1 AATATAAATTCATAAATAATAT-ATTCATATTTTAATTA
*
7586755 AATATAAATTTATAAATAATATATT
1 AATATAAATTCATAAATAATATATT
7586780 TTTAGTTTAA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.03
37 73 0.82
38 10 0.11
39 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (38 bp):
AATATAAATTCATAAATAATATATTCATATTTTAATTA
Found at i:7586777 original size:17 final size:17
Alignment explanation
Indices: 7586718--7586777 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
7586708 ATTTTAATTG
*
7586718 AATATAAATTCATAAAT
1 AATATAAATTTATAAAT
* *
7586735 AATAT-AATTATATTTGATT
1 AATATAAATT-TA--TAAAT
7586754 AAATATAAATTTATAAAT
1 -AATATAAATTTATAAAT
7586772 AATATA
1 AATATA
7586778 TTTTTAGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 4 0.12
17 12 0.36
18 3 0.09
19 3 0.09
20 7 0.21
21 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATATAAATTTATAAAT
Found at i:7586789 original size:75 final size:74
Alignment explanation
Indices: 7586638--7586795 Score: 194
Period size: 74 Copynumber: 2.1 Consensus size: 74
7586628 TAGCGTATTC
* * *
7586638 TAATCGAATATAAATTCATAATAATATATTCATATTTTAATTTAATATAAATTCGTAATAATACA
1 TAATTGAATATAAATTCATAATAATATATTCATATTTTAATTAAATATAAATTCATAATAATACA
*
7586703 TTCATATTT
66 TTCATAGTT
* *
7586712 TAATTGAATATAAATTCATAAATAATATAATT-ATA-TTTGATTAAATATAAATTTATAAATAAT
1 TAATTGAATATAAATTCAT-AATAATAT-ATTCATATTTTAATTAAATATAAATTCAT-AATAAT
* **
7586775 ATATTTTTAGTT
63 ACATTCATAGTT
7586787 TAATTGAAT
1 TAATTGAAT
7586796 TCATCAATGA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
74 35 0.49
75 34 0.47
76 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (74 bp):
TAATTGAATATAAATTCATAATAATATATTCATATTTTAATTAAATATAAATTCATAATAATACA
TTCATAGTT
Found at i:7590841 original size:20 final size:20
Alignment explanation
Indices: 7590818--7590877 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
7590808 GAACTGAATC
*
7590818 ACTCTAACATGAACCAAACT
1 ACTCTAACATGAACTAAACT
** * *
7590838 ACTCTAACCCGAACTGAACG
1 ACTCTAACATGAACTAAACT
7590858 ACTCTAACATGAACTAAACT
1 ACTCTAACATGAACTAAACT
7590878 GTTCTAATCC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.30, G:0.08, T:0.20
Consensus pattern (20 bp):
ACTCTAACATGAACTAAACT
Found at i:7590883 original size:20 final size:20
Alignment explanation
Indices: 7590819--7590884 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
7590809 AACTGAATCA
* *
7590819 CTCTAACATGAACCAAACTA
1 CTCTAACATGAACTAAACTG
** *
7590839 CTCTAACCCGAACTGAAC-G
1 CTCTAACATGAACTAAACTG
7590858 ACTCTAACATGAACTAAACTG
1 -CTCTAACATGAACTAAACTG
*
7590879 TTCTAA
1 CTCTAA
7590885 TCCAAACCAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.29, G:0.09, T:0.23
Consensus pattern (20 bp):
CTCTAACATGAACTAAACTG
Found at i:7591000 original size:20 final size:20
Alignment explanation
Indices: 7590957--7591000 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
7590947 TTTAACTCGA
**
7590957 ACTTTTAACCATTGGCATTG
1 ACTTTTAACCATTGAAATTG
* *
7590977 ACTTTTGACCATTGAAATTT
1 ACTTTTAACCATTGAAATTG
7590997 ACTT
1 ACTT
7591001 AGACAATTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (20 bp):
ACTTTTAACCATTGAAATTG
Found at i:7594956 original size:126 final size:128
Alignment explanation
Indices: 7594729--7594986 Score: 502
Period size: 126 Copynumber: 2.0 Consensus size: 128
7594719 TAAATAGTCT
7594729 AATCTAGATATCAAGAAACAATAGAAGGACTATACAAGTGTGCCTATTCCAAGACTTGTGTCTAT
1 AATCTAGATATCAAGAAACAATAGAAGGACTATACAAGTGTGCCTATTCCAAGACTTGTGTCTAT
7594794 TCTAGATATAAAGGGCAAAAGGATGTAATACATAAAAGAGTTAATCACGAAGATGATATGTCG
66 TCTAGATATAAAGGGCAAAAGGATGTAATACATAAAAGAGTTAATCACGAAGATGATATGTCG
7594857 AATCTAGATATCAAG-AA-AATAGAAGGACTATACAAGTGTGCCTATTCCAAGACTTGTGTCTAT
1 AATCTAGATATCAAGAAACAATAGAAGGACTATACAAGTGTGCCTATTCCAAGACTTGTGTCTAT
7594920 TCTAGATATAAAGGGCAAAAGGATGTAATACATAAAAGAGTTAATCACGAAGATGATATGTCG
66 TCTAGATATAAAGGGCAAAAGGATGTAATACATAAAAGAGTTAATCACGAAGATGATATGTCG
7594983 AATC
1 AATC
7594987 ATAATTTCTT
Statistics
Matches: 130, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
126 113 0.87
127 2 0.02
128 15 0.12
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (128 bp):
AATCTAGATATCAAGAAACAATAGAAGGACTATACAAGTGTGCCTATTCCAAGACTTGTGTCTAT
TCTAGATATAAAGGGCAAAAGGATGTAATACATAAAAGAGTTAATCACGAAGATGATATGTCG
Found at i:7596258 original size:34 final size:34
Alignment explanation
Indices: 7596220--7596291 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
7596210 CGCTTACCTT
*
7596220 TATTCTTTTCGATATCTTGAGTTCGCTTTTAGTC
1 TATTCTTTTCGACATCTTGAGTTCGCTTTTAGTC
*
7596254 TATTCTTTTCGACATCTTGAGTTCGTTTTTAGTC
1 TATTCTTTTCGACATCTTGAGTTCGCTTTTAGTC
7596288 TATT
1 TATT
7596292 TTGCCAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.15, C:0.17, G:0.14, T:0.54
Consensus pattern (34 bp):
TATTCTTTTCGACATCTTGAGTTCGCTTTTAGTC
Found at i:7597254 original size:13 final size:13
Alignment explanation
Indices: 7597236--7597262 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7597226 CATTGGGAGC
7597236 TCTTAAAATAATA
1 TCTTAAAATAATA
7597249 TCTTAAAATAATA
1 TCTTAAAATAATA
7597262 T
1 T
7597263 ATCCAAGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TCTTAAAATAATA
Found at i:7598223 original size:18 final size:20
Alignment explanation
Indices: 7598174--7598223 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
7598164 CTCCTATGAG
7598174 GAGTATCAATACTCCACACTT
1 GAGTATCAATACTCCACAC-T
7598195 G-GTAT-ATATACTCC-CA-T
1 GAGTATCA-ATACTCCACACT
7598212 GAGTATCAATAC
1 GAGTATCAATAC
7598224 AAAAATGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
17 2 0.08
18 8 0.31
19 4 0.15
20 11 0.42
21 1 0.04
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (20 bp):
GAGTATCAATACTCCACACT
Found at i:7604158 original size:8 final size:8
Alignment explanation
Indices: 7604145--7604286 Score: 275
Period size: 8 Copynumber: 17.6 Consensus size: 8
7604135 ATGAGGCAAC
7604145 TAAAAAAT
1 TAAAAAAT
7604153 TAAAAAAT
1 TAAAAAAT
7604161 TAAAAAAT
1 TAAAAAAT
7604169 TAAAAAAT
1 TAAAAAAT
7604177 TAAAAAAT
1 TAAAAAAT
7604185 TAAAAAAT
1 TAAAAAAT
7604193 TAAAAAAT
1 TAAAAAAT
7604201 TAAAAAAT
1 TAAAAAAT
7604209 TAAAAAAT
1 TAAAAAAT
7604217 TAAAAAAT
1 TAAAAAAT
7604225 TAAAAAAT
1 TAAAAAAT
7604233 TAAAAAAT
1 TAAAAAAT
7604241 TAAAAAAT
1 TAAAAAAT
7604249 TAAAAAAT
1 TAAAAAAT
7604257 TAAAAAAT
1 TAAAAAAT
7604265 TAAAAAAAT
1 T-AAAAAAT
7604274 TAAAAAAT
1 TAAAAAAT
7604282 TAAAA
1 TAAAA
7604287 TTAAAAATAG
Statistics
Matches: 133, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
8 125 0.94
9 8 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAAAT
Found at i:7604344 original size:20 final size:20
Alignment explanation
Indices: 7604312--7604360 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 20
7604302 AATATCGAAC
7604312 AAAATTGAATTAAAAA-AAATT
1 AAAATT-AATTAAAAATAAA-T
7604333 AAAATTAATTAAAAATAAAT
1 AAAATTAATTAAAAATAAAT
7604353 AAAATTAA
1 AAAATTAA
7604361 ATATGGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATTAATTAAAAATAAAT
Found at i:7609323 original size:203 final size:200
Alignment explanation
Indices: 7608909--7609321 Score: 601
Period size: 203 Copynumber: 2.1 Consensus size: 200
7608899 ATAAAGTTTC
*
7608909 ACCCGACCCGACTCGAAATAATAAAAAAATATTTTTATTCAATAAAAATAGTGACTTAATTGGAA
1 ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAATAGTGACTTAATTGGAA
* * *
7608974 AAAATATATATAGAGGGTTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTT
66 AAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATT
* *
7609039 TTGGGTCGGGTCAGGTCAGGTATTTTTCACCCTAAACTCGAACTCGACCCGACCCGAAAATCACA
131 TT--GTCGGGTCAGG--AGGTATTTTTCACCCGAAACTCGAACTCGACCCAACCCGAAAATCACA
7609104 CTTAAAAAA
192 CTTAAAAAA
*
7609113 ACCCGACCCGACCCGAAATAATAAAAAATTATTTTTA-TCAATAAAAACT-GTGACTTAATT-GA
1 ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAA-TAGTGACTTAATTGGA
*
7609175 AAAAATTATATATAGAGGGGTATTATTATAATTATTCCTAAATATATATGGTAAAATTATATATA
65 AAAAA-TATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATA
* * * *
7609240 TTTT-T-GGGT-A-G-GGTATTTTTCACCCGAAACTTGACCTCGACCCAACCCTAATATCACACT
129 TTTTGTCGGGTCAGGAGGTATTTTTCACCCGAAACTCGAACTCGACCCAACCCGAAAATCACACT
7609300 TAAAAAA
194 TAAAAAA
7609307 A-CCGACCCGACCCGA
1 ACCCGACCCGACCCGA
7609322 CCAAAATAAA
Statistics
Matches: 195, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
193 14 0.07
194 51 0.26
197 1 0.01
198 1 0.01
199 4 0.02
200 1 0.01
202 7 0.04
203 80 0.41
204 36 0.18
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (200 bp):
ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAATAGTGACTTAATTGGAA
AAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATT
TTGTCGGGTCAGGAGGTATTTTTCACCCGAAACTCGAACTCGACCCAACCCGAAAATCACACTTA
AAAAA
Found at i:7612421 original size:14 final size:16
Alignment explanation
Indices: 7612396--7612456 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 16
7612386 AAGTCAAGAA
7612396 ATCAATCAATT-GAAC
1 ATCAATCAATTGGAAC
7612411 ATCAA-CAATTGGAAC
1 ATCAATCAATTGGAAC
*
7612426 AAGTCAAATGCAATTGTAAC
1 -A-TC-AAT-CAATTGGAAC
*
7612446 ATCAATTAATT
1 ATCAATCAATT
7612457 CATTAATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
14 5 0.13
15 9 0.24
16 5 0.13
17 5 0.13
18 4 0.11
19 1 0.03
20 9 0.24
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (16 bp):
ATCAATCAATTGGAAC
Found at i:7620648 original size:26 final size:26
Alignment explanation
Indices: 7620590--7620653 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
7620580 TGGCATATTT
7620590 AAAAA-AAAAGCTTGAAAATAAAAGA
1 AAAAAGAAAAGCTTGAAAATAAAAGA
*
7620615 AAAAAGAAAA-CTTGAAAAATAAAATA
1 AAAAAGAAAAGCTTG-AAAATAAAAGA
*
7620641 AAAGAG-AAAGCTT
1 AAAAAGAAAAGCTT
7620654 TAATAAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 12 0.35
26 22 0.65
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (26 bp):
AAAAAGAAAAGCTTGAAAATAAAAGA
Found at i:7620891 original size:26 final size:26
Alignment explanation
Indices: 7620855--7620907 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
7620845 CTAGAAGGCA
* *
7620855 CGCTGAGTAGATATTCTAGAAACTGC
1 CGCTGACTAGACATTCTAGAAACTGC
*
7620881 CGCTGACTAGACCTTCTAGAAACTGC
1 CGCTGACTAGACATTCTAGAAACTGC
7620907 C
1 C
7620908 ACGTCAGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (26 bp):
CGCTGACTAGACATTCTAGAAACTGC
Found at i:7635425 original size:10 final size:10
Alignment explanation
Indices: 7635389--7635418 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7635379 AGGCCTTAGA
*
7635389 AAAATTTCCC
1 AAAATTTTCC
7635399 AAAATTTTCC
1 AAAATTTTCC
7635409 AAAATTTTCC
1 AAAATTTTCC
7635419 CTAATTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTTTCC
Found at i:7645895 original size:41 final size:41
Alignment explanation
Indices: 7645806--7645886 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
7645796 TACATACAAG
* * * * *
7645806 TACTTTACTGGCGTTTTTAAACAAACGCCACCACAGAATCC
1 TACTTTAGTAGCGTTTCTAAACAAACGCCACAAAAGAATCC
*
7645847 TACTTTAGTAGCGTTTCTAAACAAACGCCGCAAAAGAATC
1 TACTTTAGTAGCGTTTCTAAACAAACGCCACAAAAGAATC
7645887 ATTATTTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
TACTTTAGTAGCGTTTCTAAACAAACGCCACAAAAGAATCC
Found at i:7647084 original size:21 final size:21
Alignment explanation
Indices: 7647058--7647100 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7647048 TAAGTTCTGC
7647058 ATGTTTATTTGATAATTACAA
1 ATGTTTATTTGATAATTACAA
7647079 ATGTTTATTTGATAATTACAA
1 ATGTTTATTTGATAATTACAA
7647100 A
1 A
7647101 GAATTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (21 bp):
ATGTTTATTTGATAATTACAA
Found at i:7647684 original size:15 final size:17
Alignment explanation
Indices: 7647664--7647700 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
7647654 ATCATCAATA
7647664 TAAAATATAAAA-AA-T
1 TAAAATATAAAATAATT
7647679 TAAAATATAAAATAATT
1 TAAAATATAAAATAATT
7647696 TAAAA
1 TAAAA
7647701 ATTTTAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATAAAATAATT
Found at i:7653135 original size:21 final size:21
Alignment explanation
Indices: 7653109--7653167 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
7653099 TGATTTCTTA
7653109 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
* *
7653130 TTATGGATTTCAACTTTTTTG
1 TTATGGATTTCAAGTTTGTTG
* *
7653151 ATATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
7653168 ATTGGATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:7654677 original size:23 final size:22
Alignment explanation
Indices: 7654635--7654677 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7654625 TTAATCTGAA
*
7654635 AAAAATTAACTAGATAAATAAT
1 AAAAATTAACTACATAAATAAT
*
7654657 AAAAATTAAACTACATTAATA
1 AAAAATT-AACTACATAAATA
7654678 TCATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAATTAACTACATAAATAAT
Found at i:7655892 original size:37 final size:36
Alignment explanation
Indices: 7655850--7656289 Score: 571
Period size: 37 Copynumber: 12.2 Consensus size: 36
7655840 TTTTTGAAAA
* *
7655850 TTTGAAAACATTTTGAAAATAAATATAATATATAGTT
1 TTTGAAAACATTTTGAAAATATATATATTATATAG-T
*
7655887 TTTGAAAACAATTTTGAAAGTATATATATTATATAG-
1 TTTGAAAAC-ATTTTGAAAATATATATATTATATAGT
*
7655923 --T-------TTTTAAAAATATATATATTATATAGT
1 TTTGAAAACATTTTGAAAATATATATATTATATAGT
7655950 TTTGAAAACATTTTTGAAAATATATATATTATATAGT
1 TTTGAAAACA-TTTTGAAAATATATATATTATATAGT
*
7655987 TTTGAAAACATTTTGAAAAATATATATAATATATAGT
1 TTTGAAAACATTTTG-AAAATATATATATTATATAGT
*
7656024 TTTGAAAATATTTTTGAAAATATATATATTATATAGT
1 TTTGAAAACA-TTTTGAAAATATATATATTATATAGT
7656061 TTTGAAAACATTTTGAAAATATATATATTATATAGT
1 TTTGAAAACATTTTGAAAATATATATATTATATAGT
7656097 TTTGAAAACATTTTGAAAAATATATATATTATATAGT
1 TTTGAAAACATTTTG-AAAATATATATATTATATAGT
*
7656134 TTTGAAAATATTTTTG-AAA-ATATATATTATATAGT
1 TTTGAAAACA-TTTTGAAAATATATATATTATATAGT
* *
7656169 TTTGAAAACATTTTGAAAACATATATAATATATAGT
1 TTTGAAAACATTTTGAAAATATATATATTATATAGT
*
7656205 TTTGAAAACATTTATGAAAATATATATAATATATAGTTT
1 TTTGAAAACATTT-TGAAAATATATATATTATATAG--T
** *
7656244 TTATGAAAACATTTTTTAAATATATATAATATATATGT
1 TT-TGAAAACATTTTGAAAATATATATATTATATA-GT
7656282 TTTGAAAA
1 TTTGAAAA
7656290 TGTTTTTGAC
Statistics
Matches: 364, Mismatches: 16, Indels: 46
0.85 0.04 0.11
Matches are distributed among these distances:
26 23 0.06
29 1 0.00
34 6 0.02
35 28 0.08
36 77 0.21
37 159 0.44
38 36 0.10
39 22 0.06
40 12 0.03
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTGAAAACATTTTGAAAATATATATATTATATAGT
Found at i:7655921 original size:100 final size:96
Alignment explanation
Indices: 7655808--7656154 Score: 275
Period size: 110 Copynumber: 3.4 Consensus size: 96
7655798 GCTTATTTAG
7655808 TATATATTAATATAGTAGAGTTTTCGAAAATATTTTTGAAAATTTGAAAACA-TTTTGAAAATAA
1 TATATATT-ATATAGTA-AGTTTT-GAAAATATTTTTGAAAATTTGAAAACATTTTTGAAAATAA
*
7655872 ATATAATATATAGTTTTTGAAAACAATTTTGAAAGTA
63 ATATAATATATAG-TTTTGAAAAC-ATTTTGAAA-AA
* *
7655909 TATATATTATATAGT---TTTTAAAAATATATATATT-ATATAGTTTTGAAAACATTTTTGAAAA
1 TATATATTATATAGTAAGTTTTGAAAATAT-T-T-TTGA-A-A-ATTTGAAAACATTTTTGAAAA
* *
7655970 TATATATATTATATAGTTTTGAAAACATTTTGAAAAA
60 TAAATATAATATATAGTTTTGAAAACATTTTGAAAAA
* * *
7656007 TATATATAATATA-T-AGTTTTGAAAATATTTTTGAAAATATAT-ATATTATATAGTTTTGAAAA
1 TATATATTATATAGTAAGTTTTGAAAATATTTTTGAAAAT-T-TGA-A--A-ACATTTTTG-AAA
7656069 CATTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAAA
59 -A---T---AA-ATATA-A-TATATAGTTTTGAAAACATTTTGAAAAA
7656117 TATATA-TAT-TA-TATAGTTTTGAAAATATTTTTGAAAAT
1 TATATATTATATAGTA-AGTTTTGAAAATATTTTTGAAAAT
7656155 ATATATTATA
Statistics
Matches: 204, Mismatches: 13, Indels: 49
0.77 0.05 0.18
Matches are distributed among these distances:
94 1 0.00
95 10 0.05
96 10 0.05
97 5 0.02
98 18 0.09
99 28 0.14
100 30 0.15
101 32 0.16
104 1 0.00
107 1 0.00
108 8 0.04
109 2 0.01
110 58 0.28
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (96 bp):
TATATATTATATAGTAAGTTTTGAAAATATTTTTGAAAATTTGAAAACATTTTTGAAAATAAATA
TAATATATAGTTTTGAAAACATTTTGAAAAA
Found at i:7655935 original size:24 final size:26
Alignment explanation
Indices: 7655898--7655957 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
7655888 TTGAAAACAA
*
7655898 TTTTG-AAAGTATATATATTATATAG
1 TTTTGAAAAATATATATATTATATAG
*
7655923 TTTTTAAAAATATATATATTATATAG
1 TTTTGAAAAATATATATATTATATAG
7655949 TTTTGAAAA
1 TTTTGAAAA
7655958 CATTTTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (26 bp):
TTTTGAAAAATATATATATTATATAG
Found at i:7656097 original size:147 final size:144
Alignment explanation
Indices: 7655924--7656298 Score: 549
Period size: 147 Copynumber: 2.6 Consensus size: 144
7655914 ATTATATAGT
*
7655924 TTTTAAAAATATATATATTATATAGTTTTGAAAACATTTTTGAAAATATATATATTATATAGTTT
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTTGAAAATATATATATTATATAGTTT
* * *
7655989 TGAAAACA-TTTTGAAAAATATATATAATATATAGTTTTGAAAATATTTTTGAAAATATATATAT
66 TGAAAACATTTTTG-AAAATATATAT--TATATAGTTTTGAAAACA-TTTTGAAAACATATATAA
7656053 TATATAGTTTTGAAAACA
127 TATATAGTTTTGAAAACA
7656071 TTTTGAAAATATATATATTATATAGTTTTGAAAACA-TTTTGAAAAATATATATATTATATAGTT
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTTG-AAAATATATATATTATATAGTT
*
7656135 TTGAAAATATTTTTGAAAATATATATTATATAGTTTTGAAAACATTTTGAAAACATATATAATAT
65 TTGAAAACATTTTTGAAAATATATATTATATAGTTTTGAAAACATTTTGAAAACATATATAATAT
7656200 ATAGTTTTGAAAACA
130 ATAGTTTTGAAAACA
* * *
7656215 TTTATGAAAATATATATAATATATAGTTTTTATGAAAACATTTTT-TAAATATATATAATATATA
1 TTT-TGAAAATATATATATTATATAG--TTT-TGAAAACATTTTTGAAAATATATATATTATATA
**
7656279 TGTTTTGAAAATGTTTTTGA
62 -GTTTTGAAAACATTTTTGA
7656299 CAAACAAAAT
Statistics
Matches: 211, Mismatches: 9, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
144 37 0.18
145 38 0.18
146 5 0.02
147 96 0.45
148 31 0.15
149 4 0.02
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (144 bp):
TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTTGAAAATATATATATTATATAGTTT
TGAAAACATTTTTGAAAATATATATTATATAGTTTTGAAAACATTTTGAAAACATATATAATATA
TAGTTTTGAAAACA
Found at i:7656117 original size:110 final size:110
Alignment explanation
Indices: 7655923--7656289 Score: 589
Period size: 108 Copynumber: 3.3 Consensus size: 110
7655913 TATTATATAG
*
7655923 TTTTTAAAAATATATATATTATATAGTTTTGAAAACATTTTTGAAAATATATATATTATATAGTT
1 TTTTTGAAAATATATATATTATATAGTTTTGAAAACA-TTTTGAAAATATATATATTATATAGTT
7655988 TTGAAAACATTTTGAAAAATATATATAATATATAGTTTTGAAAATA
65 TTGAAAACATTTTGAAAAATATATATAATATATAGTTTTGAAAATA
7656034 TTTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATATTATATAGTTT
1 TTTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATATTATATAGTTT
*
7656099 TGAAAACATTTTGAAAAATATATATATTATATAGTTTTGAAAATA
66 TGAAAACATTTTGAAAAATATATATAATATATAGTTTTGAAAATA
* *
7656144 TTTTTG-AAA-ATATATATTATATAGTTTTGAAAACATTTTGAAAACATATATAATATATAGTTT
1 TTTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATATTATATAGTTT
*
7656207 TGAAAACATTTATG-AAAATATATATAATATATAGTTTTTATGAAAACA
66 TGAAAACATTT-TGAAAAATATATATAATATATAG--TTT-TGAAAATA
* *
7656255 TTTTT-TAAATATATATAATATATATGTTTTGAAAA
1 TTTTTGAAAATATATATATTATATA-GTTTTGAAAA
7656290 TGTTTTTGAC
Statistics
Matches: 242, Mismatches: 7, Indels: 12
0.93 0.03 0.05
Matches are distributed among these distances:
108 82 0.34
109 5 0.02
110 81 0.33
111 51 0.21
112 13 0.05
113 10 0.04
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (110 bp):
TTTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATATTATATAGTTT
TGAAAACATTTTGAAAAATATATATAATATATAGTTTTGAAAATA
Found at i:7657053 original size:18 final size:17
Alignment explanation
Indices: 7657012--7657054 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7657002 TTTCTTCATC
*
7657012 TTATTTTTTATTTTATT
1 TTATTTTTTATTTTATA
7657029 TTATTTTTCTATTTTA-A
1 TTATTTTT-TATTTTATA
7657046 -TATTTTTTA
1 TTATTTTTTA
7657055 ACTTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 7 0.29
17 8 0.33
18 7 0.29
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTTTATTTTATA
Found at i:7663475 original size:19 final size:20
Alignment explanation
Indices: 7663440--7663479 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
7663430 TAGTATAGTT
*
7663440 TTTGAAAATATTTTTGAAAA
1 TTTGAAAACATTTTTGAAAA
7663460 TTTGAAAACA-TTTTGAAAA
1 TTTGAAAACATTTTTGAAAA
7663479 T
1 T
7663480 AAATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTGAAAACATTTTTGAAAA
Found at i:7663502 original size:37 final size:36
Alignment explanation
Indices: 7663460--7663715 Score: 309
Period size: 37 Copynumber: 7.2 Consensus size: 36
7663450 TTTTTGAAAA
*
7663460 TTTGAAAACATTTTGAAAATAAATATAATATATAGTT
1 TTTGAAAACATTTTGAAAATATATATAATATATAG-T
* *
7663497 TTTGAAAACATTTTTGAATATATATATATTATATAGT
1 TTTGAAAACA-TTTTGAAAATATATATAATATATAGT
7663534 TTTGAAAACATTTTGAAAAATATATATAATATATAGT
1 TTTGAAAACATTTTG-AAAATATATATAATATATAGT
7663571 TTTG-AAA-A---T----ATATATAT--TATATAGT
1 TTTGAAAACATTTTGAAAATATATATAATATATAGT
7663596 TTTGAAAACATTTTGAAAAATATATATAATATATAGT
1 TTTGAAAACATTTTG-AAAATATATATAATATATAGT
*
7663633 TTTGAAAACATTTTCGAAAATATATATATTATATAGT
1 TTTGAAAACATTTT-GAAAATATATATAATATATAGT
*
7663670 TTTGAAAACATTTTGAATATATATATATATAATTTATAGT
1 TTTGAAAACATTTTG-A-A-A-ATATATATAATATATAGT
7663710 TTTGAA
1 TTTGAA
7663716 TAGTATATAG
Statistics
Matches: 192, Mismatches: 8, Indels: 35
0.82 0.03 0.15
Matches are distributed among these distances:
25 12 0.06
26 3 0.02
27 9 0.05
30 1 0.01
32 1 0.01
35 9 0.05
36 9 0.05
37 101 0.53
38 24 0.12
39 1 0.01
40 22 0.11
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (36 bp):
TTTGAAAACATTTTGAAAATATATATAATATATAGT
Found at i:7663582 original size:62 final size:62
Alignment explanation
Indices: 7663508--7663766 Score: 284
Period size: 62 Copynumber: 4.1 Consensus size: 62
7663498 TTGAAAACAT
*
7663508 TTTTGAATATATATATATTATATAGTTTTGAAAACATTTTGAAAAATATATATAATATATAG
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAAATATATATAATATATAG
7663570 TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAAATATATATAATATATAGTTT
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAAATATATATAATATATA----
7663635 TG
62 -G
7663637 AAAACATTTTCGAAAATATATATATTATATAGTTTTGAAAACATTTTGAATATATATATATATAA
1 ------TTTT-GAAAATATATATATTATATAGTTTTGAAAACATTTTGAA-A-A-ATATATATAA
*
7663702 TTTATAG
56 TATATAG
*
7663709 TTTTG-------A-ATAGTATATAGTTTTGAAAACATTTTTG-AAAATATATATAATATATAG
1 TTTTGAAAATATATATATTATATAGTTTTGAAAACA-TTTTGAAAAATATATATAATATATAG
7663763 TTTT
1 TTTT
7663767 TTTTAAACAT
Statistics
Matches: 177, Mismatches: 4, Indels: 40
0.80 0.02 0.18
Matches are distributed among these distances:
54 20 0.11
55 1 0.01
56 1 0.01
57 22 0.12
58 6 0.03
62 60 0.34
65 1 0.01
66 4 0.02
67 1 0.01
72 1 0.01
73 4 0.02
74 39 0.22
75 1 0.01
76 1 0.01
77 15 0.08
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (62 bp):
TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAAATATATATAATATATAG
Found at i:7663583 original size:25 final size:25
Alignment explanation
Indices: 7663544--7663603 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
7663534 TTTGAAAACA
7663544 TTTTGAAAAATATATATAATATATAG
1 TTTTG-AAAATATATATAATATATAG
*
7663570 TTTTGAAAATATATATATTATATAG
1 TTTTGAAAATATATATAATATATAG
7663595 TTTTGAAAA
1 TTTTGAAAA
7663604 CATTTTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 28 0.85
26 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTTGAAAATATATATAATATATAG
Found at i:7663654 original size:99 final size:100
Alignment explanation
Indices: 7663470--7663677 Score: 332
Period size: 99 Copynumber: 2.1 Consensus size: 100
7663460 TTTGAAAACA
* *
7663470 TTTTGAAAATAAATATAATATATAGTTTTTGAAAACATTTTTGAATATATATATATTATATAGTT
1 TTTTGAAAATAAATATAATATATAGTTTTTGAAAACATTTTTGAAAATATATATAATATATAGTT
7663535 TTGAAAACATTTTGAAAAATATATATAATATATAG
66 TTGAAAACATTTTGAAAAATATATATAATATATAG
* *
7663570 TTTTGAAAATATATATATTATATAG-TTTTGAAAACA-TTTTGAAAAATATATATAATATATAGT
1 TTTTGAAAATAAATATAATATATAGTTTTTGAAAACATTTTTG-AAAATATATATAATATATAGT
*
7663633 TTTGAAAACATTTTCG-AAAATATATATATTATATAG
65 TTTGAAAACATTTT-GAAAAATATATATAATATATAG
7663669 TTTTGAAAA
1 TTTTGAAAA
7663678 CATTTTGAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
98 5 0.05
99 72 0.71
100 24 0.24
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (100 bp):
TTTTGAAAATAAATATAATATATAGTTTTTGAAAACATTTTTGAAAATATATATAATATATAGTT
TTGAAAACATTTTGAAAAATATATATAATATATAG
Found at i:7663747 original size:94 final size:92
Alignment explanation
Indices: 7663625--7663808 Score: 264
Period size: 94 Copynumber: 2.0 Consensus size: 92
7663615 ATATATATAA
*
7663625 TATATAGTTTTGAAAACATTTTCGAAAATATATATATTATATAG-TTTTGAAAACATTTTGAATA
1 TATATAGTTTTGAAAACATTTTCGAAAATATATATAATATATAGTTTTTGAAAACATTTT--ATA
*
7663689 TATATATATATAATTTAT-AGTTTTGAATAG
64 -A-ATATATATAATATATAAGTTTTGAATAG
* **
7663719 TATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTTTTAAACATTTTATAA
1 TATATAGTTTTGAAAACATTTTCGAAAATATATATAATATATAG-TTTTTGAAAACATTTTATAA
7663784 ATATATATAATATATAAGTTTTGAA
65 ATATATATAATATATAAGTTTTGAA
7663809 AACGTTTTTG
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
92 14 0.17
93 10 0.12
94 45 0.55
96 13 0.16
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (92 bp):
TATATAGTTTTGAAAACATTTTCGAAAATATATATAATATATAGTTTTTGAAAACATTTTATAAA
TATATATAATATATAAGTTTTGAATAG
Found at i:7663827 original size:20 final size:20
Alignment explanation
Indices: 7663802--7663861 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
7663792 AATATATAAG
7663802 TTTTGAAAACGTTTTTGAAA
1 TTTTGAAAACGTTTTTGAAA
*
7663822 TTTTGAAAACGATTTTGAAA
1 TTTTGAAAACGTTTTTGAAA
*
7663842 TTTTGAAAACGTTTTAGAAA
1 TTTTGAAAACGTTTTTGAAA
7663862 ATATATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (20 bp):
TTTTGAAAACGTTTTTGAAA
Found at i:7663838 original size:96 final size:92
Alignment explanation
Indices: 7663625--7663841 Score: 242
Period size: 94 Copynumber: 2.3 Consensus size: 92
7663615 ATATATATAA
* *
7663625 TATATAGTTTTGAAAACATTTTCGAAAATATATATATTATATAGTTTTGAAAACATTTTGAATAT
1 TATATAATTTTGAAAACATTTT-GAAAATATATATAATATATAGTTTTGAAAACATTTT-AATAT
* *
7663690 ATATATATATAATTTATAGTTTTGAATAG
64 ATATATATATAATATATAGTTTTGAAAAG
* **
7663719 TATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTTTTAAACATTTT-ATA
1 TATATAATTTTGAAAACA-TTTTGAAAATATATATAATATATAG--TTTTGAAAACATTTTAATA
7663783 -A-ATATATATAATATATAAGTTTTGAAAACG
63 TATATATATATAATATAT-AGTTTTGAAAA-G
* *
7663813 TTTTTGAAATTTTGAAAACGATTTTGAAA
1 TATAT--AATTTTGAAAAC-ATTTTGAAA
7663842 TTTTGAAAAC
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
92 14 0.13
93 11 0.10
94 45 0.42
95 4 0.04
96 32 0.30
97 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (92 bp):
TATATAATTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTAATATAT
ATATATATAATATATAGTTTTGAAAAG
Found at i:7663927 original size:7 final size:7
Alignment explanation
Indices: 7663891--7663950 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
7663881 TTTTAAAAAC
7663891 TTTATT-
1 TTTATTA
*
7663897 TTTATTC
1 TTTATTA
7663904 TTT-TTA
1 TTTATTA
*
7663910 ATTATTTA
1 TTTA-TTA
7663918 TTTATTA
1 TTTATTA
7663925 TTTATTA
1 TTTATTA
*
7663932 TTCATT-
1 TTTATTA
7663938 TTTATTTA
1 TTTA-TTA
7663946 TTTAT
1 TTTAT
7663951 CTTGTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
6 13 0.30
7 21 0.48
8 10 0.23
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:7666799 original size:29 final size:29
Alignment explanation
Indices: 7666745--7666848 Score: 131
Period size: 29 Copynumber: 3.7 Consensus size: 29
7666735 TGGTATTTTT
7666745 GTAAATATTATT-AAAAAATGTTAGTTTC
1 GTAAATATTATTAAAAAAATGTTAGTTTC
7666773 GTAAATATTATTAAAAAAATGTTAGTTTC
1 GTAAATATTATTAAAAAAATGTTAGTTTC
* * * * **
7666802 GCAAATACTGTTAAGAAGGTGTTAGTTTC
1 GTAAATATTATTAAAAAAATGTTAGTTTC
*
7666831 GTAAATATT-TCAAAAAAA
1 GTAAATATTATTAAAAAAA
7666849 GTAATATTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
28 17 0.27
29 46 0.73
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (29 bp):
GTAAATATTATTAAAAAAATGTTAGTTTC
Found at i:7666884 original size:28 final size:28
Alignment explanation
Indices: 7666844--7667033 Score: 265
Period size: 28 Copynumber: 6.8 Consensus size: 28
7666834 AATATTTCAA
*
7666844 AAAAAGTAATATTTTGGTAATTATTTCG
1 AAAAAGTGATATTTTGGTAATTATTTCG
*
7666872 AAAAAGTGATATTTTGGTAATTATGTCG
1 AAAAAGTGATATTTTGGTAATTATTTCG
* *
7666900 AAAAAAATGATATTTTGGTAATTATTTCA
1 -AAAAAGTGATATTTTGGTAATTATTTCG
7666929 AAAAAGTGATATTTTGGTAATTATTTCG
1 AAAAAGTGATATTTTGGTAATTATTTCG
* *
7666957 AAAAAATAATATTTTGGTAATTATTTCG
1 AAAAAGTGATATTTTGGTAATTATTTCG
* *
7666985 AAAAAGTGATATTTTTGTAATTATTT-A
1 AAAAAGTGATATTTTGGTAATTATTTCG
* *
7667012 AAAAAGGTGTTATTTTCGTAAT
1 AAAAA-GTGATATTTTGGTAAT
7667034 AGTTGACTAT
Statistics
Matches: 145, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
27 5 0.03
28 115 0.79
29 25 0.17
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (28 bp):
AAAAAGTGATATTTTGGTAATTATTTCG
Found at i:7671200 original size:29 final size:29
Alignment explanation
Indices: 7671146--7671249 Score: 131
Period size: 29 Copynumber: 3.7 Consensus size: 29
7671136 TGGTATTTTT
7671146 GTAAATATTGTT-AAAAAATGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
*
7671174 GTAAATATTATTAAAAAAATGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
* * **
7671203 GTAAATACTGTTAAGAAGGTGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
* *
7671232 GAAAATATT-TTGAAAAAA
1 GTAAATATTGTTAAAAAAA
7671250 GTAATATTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
28 16 0.25
29 47 0.75
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (29 bp):
GTAAATATTGTTAAAAAAATGTTAGTTTC
Found at i:7671284 original size:28 final size:28
Alignment explanation
Indices: 7671244--7671394 Score: 147
Period size: 29 Copynumber: 5.6 Consensus size: 28
7671234 AAATATTTTG
*
7671244 AAAAAAGTAATATTTTGGTAATTATTTC
1 AAAAAAGTGATATTTTGGTAATTATTTC
*
7671272 GAAAAAGTGATA------T--TTATTTC
1 AAAAAAGTGATATTTTGGTAATTATTTC
*
7671292 GAAAAAAATGATATTTTGGTAATTATTTC
1 -AAAAAAGTGATATTTTGGTAATTATTTC
* *
7671321 AAAAAAAATAATATTTTGGTAATTATTTC
1 -AAAAAAGTGATATTTTGGTAATTATTTC
* *
7671350 AAAAAAGTGATATTTTTGTAATTATTTA
1 AAAAAAGTGATATTTTGGTAATTATTTC
*
7671378 AAAAAAGGTGTTATTTT
1 AAAAAA-GTGATATTTT
7671395 CTTAATAATT
Statistics
Matches: 102, Mismatches: 11, Indels: 19
0.77 0.08 0.14
Matches are distributed among these distances:
20 7 0.07
21 10 0.10
22 1 0.01
27 1 0.01
28 40 0.39
29 43 0.42
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (28 bp):
AAAAAAGTGATATTTTGGTAATTATTTC
Found at i:7671290 original size:20 final size:21
Alignment explanation
Indices: 7671265--7671307 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7671255 ATTTTGGTAA
*
7671265 TTATTTCG-AAAAAGTGATAT
1 TTATTTCGAAAAAAATGATAT
7671285 TTATTTCGAAAAAAATGATAT
1 TTATTTCGAAAAAAATGATAT
7671306 TT
1 TT
7671308 TGGTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (21 bp):
TTATTTCGAAAAAAATGATAT
Found at i:7671392 original size:29 final size:28
Alignment explanation
Indices: 7671293--7671394 Score: 134
Period size: 28 Copynumber: 3.6 Consensus size: 28
7671283 ATTTATTTCG
7671293 AAAAAAA-TGATATTTTGGTAATTATTT
1 AAAAAAAGTGATATTTTGGTAATTATTT
* *
7671320 CAAAAAAAATAATATTTTGGTAATTATTT
1 -AAAAAAAGTGATATTTTGGTAATTATTT
* *
7671349 CAAAAAAGTGATATTTTTGTAATTATTT
1 AAAAAAAGTGATATTTTGGTAATTATTT
*
7671377 AAAAAAAGGTGTTATTTT
1 AAAAAAA-GTGATATTTT
7671395 CTTAATAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
28 37 0.57
29 28 0.43
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (28 bp):
AAAAAAAGTGATATTTTGGTAATTATTT
Found at i:7675297 original size:29 final size:29
Alignment explanation
Indices: 7675264--7675359 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
7675254 TGGTATTTTT
7675264 GTAAATATTGTTAAAAAAATGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
*
7675293 GTAAATATTATTAAAAAAATGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
* * **
7675322 GTAAATACTGTTAAGAAGGTGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAGTTTC
7675351 GTAAATATT
1 GTAAATATT
7675360 TCGAAAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.41
Consensus pattern (29 bp):
GTAAATATTGTTAAAAAAATGTTAGTTTC
Found at i:7675383 original size:29 final size:29
Alignment explanation
Indices: 7675351--7675556 Score: 269
Period size: 28 Copynumber: 7.2 Consensus size: 29
7675341 TGTTAGTTTC
* *
7675351 GTAAATATTTCGAAAAAAGTAATATTTTG
1 GTAATTATTTCGAAAAAAGTGATATTTTG
7675380 GTAATTATTTCG-AAAAAGTGATATTTTG
1 GTAATTATTTCGAAAAAAGTGATATTTTG
*
7675408 GTAATTATTTCGAAAAAAATGATATTTTG
1 GTAATTATTTCGAAAAAAGTGATATTTTG
7675437 GTAATTATTTCG-AAAAAGTGATATTTTG
1 GTAATTATTTCGAAAAAAGTGATATTTTG
* *
7675465 CTAATTATTTCGAAAAAAAAT-ATTATTTTG
1 GTAATTATTTCG-AAAAAAGTGA-TATTTTG
*
7675495 GTAATTATTTCG-AAAAAGTGATATTTTT
1 GTAATTATTTCGAAAAAAGTGATATTTTG
* * *
7675523 GTAATTATTT-AAAAAAAGGTGTTATTTTC
1 GTAATTATTTCGAAAAAA-GTGATATTTTG
7675552 GTAAT
1 GTAAT
7675557 AGTTGACTAT
Statistics
Matches: 158, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
28 80 0.51
29 54 0.34
30 24 0.15
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (29 bp):
GTAATTATTTCGAAAAAAGTGATATTTTG
Found at i:7675417 original size:57 final size:57
Alignment explanation
Indices: 7675351--7675539 Score: 301
Period size: 57 Copynumber: 3.3 Consensus size: 57
7675341 TGTTAGTTTC
* *
7675351 GTAAATATTTCGAAAAAAGTAATATTTTGGTAATTATTTCGAAAAAGTGATATTTTG
1 GTAATTATTTCGAAAAAAATAATATTTTGGTAATTATTTCGAAAAAGTGATATTTTG
*
7675408 GTAATTATTTCGAAAAAAATGATATTTTGGTAATTATTTCGAAAAAGTGATATTTTG
1 GTAATTATTTCGAAAAAAATAATATTTTGGTAATTATTTCGAAAAAGTGATATTTTG
* * *
7675465 CTAATTATTTCGAAAAAAAATATTATTTTGGTAATTATTTCGAAAAAGTGATATTTTT
1 GTAATTATTTCG-AAAAAAATAATATTTTGGTAATTATTTCGAAAAAGTGATATTTTG
7675523 GTAATTATTT--AAAAAAA
1 GTAATTATTTCGAAAAAAA
7675540 GGTGTTATTT
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
55 7 0.06
57 65 0.53
58 51 0.41
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (57 bp):
GTAATTATTTCGAAAAAAATAATATTTTGGTAATTATTTCGAAAAAGTGATATTTTG
Found at i:7689260 original size:22 final size:22
Alignment explanation
Indices: 7689235--7689309 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
7689225 GAATCGATAC
7689235 CCCCCTTGAAGGGGAACCGATT
1 CCCCCTTGAAGGGGAACCGATT
*
7689257 CCCCCTTTGAAGGGGAACTGATT
1 CCCCC-TTGAAGGGGAACCGATT
* * *
7689280 CCCCCCT-ATAGGGGAATCGATA
1 CCCCCTTGA-AGGGGAACCGATT
7689302 CCCCCTTG
1 CCCCCTTG
7689310 GGGTTCTGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.02
22 22 0.50
23 21 0.48
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.21
Consensus pattern (22 bp):
CCCCCTTGAAGGGGAACCGATT
Found at i:7689306 original size:23 final size:23
Alignment explanation
Indices: 7689225--7689306 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
7689215 AGTGCAGAGA
7689225 GAATCGATACCCCCCTTGAAGGG
1 GAATCGATACCCCCCTTGAAGGG
* * *
7689248 GAACCGATTCCCCCTTTGAAGGG
1 GAATCGATACCCCCCTTGAAGGG
*
7689271 GAA-CTGATTCCCCCC-T-ATAGGG
1 GAATC-GATACCCCCCTTGA-AGGG
7689293 GAATCGATACCCCC
1 GAATCGATACCCCC
7689307 TTGGGGTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.02
22 17 0.33
23 33 0.65
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (23 bp):
GAATCGATACCCCCCTTGAAGGG
Found at i:7695165 original size:368 final size:368
Alignment explanation
Indices: 7694488--7695223 Score: 1463
Period size: 368 Copynumber: 2.0 Consensus size: 368
7694478 AGATGGTTAA
7694488 TTTGTTGTAAATAATTGTTTTAATCAATTGTAGCTAGATAGTTCAACATATATATATGATTTACT
1 TTTGTTGTAAATAATTGTTTTAATCAATTGTAGCTAGATAGTTCAACATATATATATGATTTACT
7694553 TTTGTAAAGTAATGAGATACACGAGGTATTTCTCATATGAATAATCGTCATTTCACAAGTTTAAC
66 TTTGTAAAGTAATGAGATACACGAGGTATTTCTCATATGAATAATCGTCATTTCACAAGTTTAAC
7694618 ATGGTATTAGAACTAAGTTTCAGTTTGTTATTCTTTTTGCTTTTTCTATTTTCGACCCATTTACC
131 ATGGTATTAGAACTAAGTTTCAGTTTGTTATTCTTTTTGCTTTTTCTATTTTCGACCCATTTACC
7694683 TTAATTTGGTGTTTTCAGTTTTTCCTCTAACCGGATTTCTTTCGTTTTCCCCAATTCTCTCTGCT
196 TTAATTTGGTGTTTTCAGTTTTTCCTCTAACCGGATTTCTTTCGTTTTCCCCAATTCTCTCTGCT
7694748 TTTTCCCTCTCGATTTTCTTTTTTCATCAACTCTCAATCAAGCCTGCTACTGATGAGATGGTTGA
261 TTTTCCCTCTCGATTTTCTTTTTTCATCAACTCTCAATCAAGCCTGCTACTGATGAGATGGTTGA
7694813 TTTTGCTCATGTTTTATATCTACACCCCTCAGATATTCCTGTT
326 TTTTGCTCATGTTTTATATCTACACCCCTCAGATATTCCTGTT
7694856 TTTGTTGTAAATAATTGTTTTAATCAATTGTAGCTAGATAGTTCAACATATATATATGATTTACT
1 TTTGTTGTAAATAATTGTTTTAATCAATTGTAGCTAGATAGTTCAACATATATATATGATTTACT
7694921 TTTGTAAAGTAATGAGATACACGAGGTATTTCTCATATGAATAATCGTCATTTCACAAGTTTAAC
66 TTTGTAAAGTAATGAGATACACGAGGTATTTCTCATATGAATAATCGTCATTTCACAAGTTTAAC
7694986 ATGGTATTAGAACTAAGTTTCAGTTTGTTATTCTTTTTGCTTTTTCTATTTTCGACCCATTTACC
131 ATGGTATTAGAACTAAGTTTCAGTTTGTTATTCTTTTTGCTTTTTCTATTTTCGACCCATTTACC
*
7695051 TTAATTTGGTGTTTTCAGTTTTTCCTCTAACCGGATTTCTTTCGTTTTCCCCAATTCTCTCTGGT
196 TTAATTTGGTGTTTTCAGTTTTTCCTCTAACCGGATTTCTTTCGTTTTCCCCAATTCTCTCTGCT
7695116 TTTTCCCTCTCGATTTTCTTTTTTCATCAACTCTCAATCAAGCCTGCTACTGATGAGATGGTTGA
261 TTTTCCCTCTCGATTTTCTTTTTTCATCAACTCTCAATCAAGCCTGCTACTGATGAGATGGTTGA
7695181 TTTTGCTCATGTTTTATATCTACACCCCTCAGATATTCCTGTT
326 TTTTGCTCATGTTTTATATCTACACCCCTCAGATATTCCTGTT
7695224 CTCATGTTGG
Statistics
Matches: 367, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
368 367 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (368 bp):
TTTGTTGTAAATAATTGTTTTAATCAATTGTAGCTAGATAGTTCAACATATATATATGATTTACT
TTTGTAAAGTAATGAGATACACGAGGTATTTCTCATATGAATAATCGTCATTTCACAAGTTTAAC
ATGGTATTAGAACTAAGTTTCAGTTTGTTATTCTTTTTGCTTTTTCTATTTTCGACCCATTTACC
TTAATTTGGTGTTTTCAGTTTTTCCTCTAACCGGATTTCTTTCGTTTTCCCCAATTCTCTCTGCT
TTTTCCCTCTCGATTTTCTTTTTTCATCAACTCTCAATCAAGCCTGCTACTGATGAGATGGTTGA
TTTTGCTCATGTTTTATATCTACACCCCTCAGATATTCCTGTT
Found at i:7698071 original size:3 final size:3
Alignment explanation
Indices: 7698063--7698141 Score: 95
Period size: 3 Copynumber: 26.3 Consensus size: 3
7698053 CTTGGATCCA
* * * * *
7698063 TAT TAT TAT TAT TGT TGT TGT TGT AAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
7698111 TAT TAG TAT TAT TAG TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7698142 CCCTAATTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7698289 original size:3 final size:3
Alignment explanation
Indices: 7698281--7698310 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
7698271 CTTTTATTCT
7698281 TTA TTA TTA TTA TTA TTA TTA TTAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT
7698311 TTTTTCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7700246 original size:19 final size:19
Alignment explanation
Indices: 7700180--7700249 Score: 80
Period size: 16 Copynumber: 4.0 Consensus size: 19
7700170 TTTAGTTAAA
7700180 GTCAAAGTCAACA--CT-G
1 GTCAAAGTCAACAGTCTAG
*
7700196 GTCAAAGTCGAC--TCTA-
1 GTCAAAGTCAACAGTCTAG
7700212 GTCAAAGTCAACAGTCTAG
1 GTCAAAGTCAACAGTCTAG
*
7700231 GTCAAAGTCAATAGTCTAG
1 GTCAAAGTCAACAGTCTAG
7700250 ATTGGTTCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
16 24 0.52
18 4 0.09
19 18 0.39
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (19 bp):
GTCAAAGTCAACAGTCTAG
Found at i:7705612 original size:30 final size:30
Alignment explanation
Indices: 7705589--7705673 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
7705579 ATGTGAGTAT
7705589 GTTATATGTGAATGTGTTCTATGTGAAAAG
1 GTTATATGTGAATGTGTTCTATGTGAAAAG
*
7705619 GTTATATGTGAATGTGTTCTACGTGAAAAG
1 GTTATATGTGAATGTGTTCTATGTGAAAAG
* *
7705649 GTTCTATGTGAATGTGTGCTATGTG
1 GTTATATGTGAATGTGTTCTATGTG
7705674 GATAAAAGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.26, C:0.06, G:0.28, T:0.40
Consensus pattern (30 bp):
GTTATATGTGAATGTGTTCTATGTGAAAAG
Found at i:7705670 original size:15 final size:15
Alignment explanation
Indices: 7705578--7705673 Score: 88
Period size: 15 Copynumber: 6.4 Consensus size: 15
7705568 CTTTTATTAG
* * *
7705578 TATGTGAGTATGTTA
1 TATGTGAATGTGTTC
7705593 TATGTGAATGTGTTC
1 TATGTGAATGTGTTC
* *
7705608 TATGTGAAAAG-GTTA
1 TATGTG-AATGTGTTC
7705623 TATGTGAATGTGTTC
1 TATGTGAATGTGTTC
* *
7705638 TACGTGAAAAG-GTTC
1 TATGTG-AATGTGTTC
*
7705653 TATGTGAATGTGTGC
1 TATGTGAATGTGTTC
7705668 TATGTG
1 TATGTG
7705674 GATAAAAGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
14 6 0.09
15 53 0.82
16 6 0.09
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.41
Consensus pattern (15 bp):
TATGTGAATGTGTTC
Found at i:7705837 original size:24 final size:24
Alignment explanation
Indices: 7705779--7705874 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
7705769 GAGCTGATGG
*
7705779 TTCTACGTGGTCCTTC-GGA-ATAA
1 TTCTACGCGGTCCTTCGGGACA-AA
* *
7705802 TTCTATGTGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
*
7705826 TTCTACGCGGTCCTTTGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
*
7705850 TTCTACGCGGTCCTTTGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
7705874 T
1 T
7705875 ATATGTGGCA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 15 0.22
24 51 0.76
25 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:7705906 original size:24 final size:24
Alignment explanation
Indices: 7705879--7705929 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
7705869 ACAAATATAT
* *
7705879 GTGGCACTTCGGTTCATATTCTAC
1 GTGGCACTTCGGTGCACATTCTAC
7705903 GTGGCACTTCGGTGCACATTCTAC
1 GTGGCACTTCGGTGCACATTCTAC
7705927 GTG
1 GTG
7705930 ACAGTTTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (24 bp):
GTGGCACTTCGGTGCACATTCTAC
Found at i:7714127 original size:29 final size:30
Alignment explanation
Indices: 7714095--7714161 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
7714085 ACCCTAAATT
* *
7714095 ATAAACTCTAAACCCTAAACCAT-AACCCC
1 ATAAACTCTAAACCATAAACCATAAAACCC
* * *
7714124 ATAACCTTTAAACCATAAACCTTAAAACCC
1 ATAAACTCTAAACCATAAACCATAAAACCC
7714154 -TAAACTCT
1 ATAAACTCT
7714162 GACTTGAGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (30 bp):
ATAAACTCTAAACCATAAACCATAAAACCC
Done.