Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 25
Found at i:4544712 original size:16 final size:17
Alignment explanation
Indices: 4544681--4544717 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
4544671 TATGCTAATA
4544681 TTCTCCTATCTTTCTTC
1 TTCTCCTATCTTTCTTC
*
4544698 TTCTCCT-TTTTTCTTC
1 TTCTCCTATCTTTCTTC
4544714 TTCT
1 TTCT
4544718 TCATTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTCCTATCTTTCTTC
Found at i:4564414 original size:66 final size:66
Alignment explanation
Indices: 4564307--4564431 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
4564297 GTCCCTTTTT
* *
4564307 TTCTTCTGGTTGGTGGGTGCAGCTTCTCTCCCACGTTCCTCAGTAACAGTCGACTCGTTGGTGCT
1 TTCTTCGGGTTGGTGGGTGCAGCTTCTCTCCCACGTCCCTCAGTAACAGTCGACTCGTTGGTGCT
4564372 C
66 C
* * * *
4564373 TTCTTCGGGTTGGTGGGTGCAGTTTCTTTCCCACGTCCCTCATTAGCAGTCGACTCGTT
1 TTCTTCGGGTTGGTGGGTGCAGCTTCTCTCCCACGTCCCTCAGTAACAGTCGACTCGTT
4564432 CGAGTTCCCG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.10, C:0.28, G:0.26, T:0.36
Consensus pattern (66 bp):
TTCTTCGGGTTGGTGGGTGCAGCTTCTCTCCCACGTCCCTCAGTAACAGTCGACTCGTTGGTGCT
C
Found at i:4566582 original size:22 final size:21
Alignment explanation
Indices: 4566550--4566591 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4566540 CATTATTTTA
* *
4566550 TTGTTGTATGTTGATGACATGC
1 TTGTTGCATGTTCA-GACATGC
4566572 TTGTTGCATGTTCAGACATG
1 TTGTTGCATGTTCAGACATG
4566592 TAAGAGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.43
Consensus pattern (21 bp):
TTGTTGCATGTTCAGACATGC
Found at i:4566756 original size:17 final size:17
Alignment explanation
Indices: 4566734--4566767 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4566724 AGTACATCAA
*
4566734 CAAAGTACTGTCCAGGT
1 CAAAGTACTATCCAGGT
4566751 CAAAGTACTATCCAGGT
1 CAAAGTACTATCCAGGT
4566768 TCAACATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (17 bp):
CAAAGTACTATCCAGGT
Found at i:4579252 original size:2 final size:2
Alignment explanation
Indices: 4579247--4579283 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4579237 ATTATTCTTT
4579247 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4579284 GTAATTATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4580548 original size:10 final size:10
Alignment explanation
Indices: 4580527--4580561 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4580517 TTCCTTTACC
4580527 ATTTATTTTTT
1 ATTTA-TTTTT
4580538 ATTTATTTTT
1 ATTTATTTTT
*
4580548 ATTTATTTCT
1 ATTTATTTTT
4580558 ATTT
1 ATTT
4580562 TACTAACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:4583397 original size:20 final size:21
Alignment explanation
Indices: 4583360--4583398 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4583350 GACTTTGATG
*
4583360 TGGAAGATAAAGCCAAAAAGA
1 TGGAAGATAAAGACAAAAAGA
*
4583381 TGGAAGA-AAAGATAAAAA
1 TGGAAGATAAAGACAAAAA
4583399 TATTAGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.62, C:0.05, G:0.23, T:0.10
Consensus pattern (21 bp):
TGGAAGATAAAGACAAAAAGA
Found at i:4589990 original size:1 final size:1
Alignment explanation
Indices: 4589984--4590036 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
4589974 TCCTAAGTTG
* * * * * *
4589984 AAAAAAAAAAGAAAAAAAAGAAAAAAGAAAAAAAGAAAAAAAAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4590037 TAAAGTGGGT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:4590000 original size:8 final size:8
Alignment explanation
Indices: 4589987--4590031 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
4589977 TAAGTTGAAA
4589987 AAAAAAAG
1 AAAAAAAG
4589995 AAAAAAA-
1 AAAAAAAG
4590002 AGAAAAAAG
1 A-AAAAAAG
4590011 AAAAAAAG
1 AAAAAAAG
4590019 AAAAAAAAG
1 -AAAAAAAG
4590028 AAAA
1 AAAA
4590032 GAAAATAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.03
8 24 0.71
9 9 0.26
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4590041 original size:9 final size:9
Alignment explanation
Indices: 4589986--4590036 Score: 72
Period size: 9 Copynumber: 5.9 Consensus size: 9
4589976 CTAAGTTGAA
4589986 AAAAAAAAG
1 AAAAAAAAG
4589995 AAAAAAAAG
1 AAAAAAAAG
4590004 --AAAAAAG
1 AAAAAAAAG
4590011 -AAAAAAAG
1 AAAAAAAAG
4590019 AAAAAAAAG
1 AAAAAAAAG
4590028 AAAAGAAAA
1 AAAA-AAAA
4590037 TAAAGTGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.18
8 7 0.18
9 21 0.54
10 4 0.10
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4590940 original size:105 final size:105
Alignment explanation
Indices: 4590758--4591521 Score: 1268
Period size: 105 Copynumber: 7.4 Consensus size: 105
4590748 AGGTTTTACC
*
4590758 CAGAGCCAATTTCAACTTAACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
4590823 ACGAAGGGACCGCTGGTTGTCAACAAACATCTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
4590863 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
4590928 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
4590968 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
4591033 ACGAAGGGACCGCTGGTTGTCAACAAACGTTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
4591073 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
4591138 ACGAAGGGACCGCTAGTTGTCACCAAACGTTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
4591178 CAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
4591243 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
4591283 CAGAGCCAA--T---C-T-----C-AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
4591336 ATGAAAGGACCGCTGATTGTCAACAAATATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
*
4591376 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
4591441 ACGAAGGGACCGCTGGTTGTCAAACACACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTC-AACAAACATTTCTCAATTT
4591482 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
4591522 GGAACAATAC
Statistics
Matches: 622, Mismatches: 22, Indels: 29
0.92 0.03 0.04
Matches are distributed among these distances:
93 84 0.14
94 1 0.00
95 1 0.00
98 1 0.00
99 2 0.00
100 1 0.00
103 1 0.00
104 1 0.00
105 474 0.76
106 56 0.09
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:4591368 original size:93 final size:93
Alignment explanation
Indices: 4591203--4591496 Score: 383
Period size: 93 Copynumber: 3.0 Consensus size: 93
4591193 CTTCACAACG
*
4591203 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
4591268 AACATTTCTCCAATTCAGAGCCAATCTC
66 AACATTTCTCCAATTCAGAGCCAATCTC
* * *
4591296 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAAGGACCGCTGATTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
*
4591361 AATATTTCTCCAATTCAGAGCCAATTTCAACTTCACAAC
66 AACATTTCTCCAATTCAGAGCCAA--T---C-T-----C
*
4591400 GAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAA
1 -AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-AA
* *
4591465 CACACATTTCT-CAATTTCAGAGCCAATTTC
64 CAAACATTTCTCCAA-TTCAGAGCCAATCTC
4591495 AA
1 AA
4591497 CTTCACAACG
Statistics
Matches: 175, Mismatches: 12, Indels: 27
0.82 0.06 0.13
Matches are distributed among these distances:
93 84 0.48
94 2 0.01
95 2 0.01
98 1 0.01
99 1 0.01
100 1 0.01
104 2 0.01
105 60 0.34
106 22 0.13
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (93 bp):
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
AACATTTCTCCAATTCAGAGCCAATCTC
Found at i:4593158 original size:22 final size:21
Alignment explanation
Indices: 4593132--4593184 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
4593122 TTTTTTATTT
4593132 TATTATATT-TTATTATCATATA
1 TATTATATTCTT-TTAT-ATATA
4593154 TATTATTATTCTTTTATATATA
1 TATTA-TATTCTTTTATATATA
4593176 TATATATAT
1 TAT-TATAT
4593185 ATATATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 16 0.57
23 10 0.36
24 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATATTCTTTTATATATA
Found at i:4598795 original size:16 final size:15
Alignment explanation
Indices: 4598774--4598803 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4598764 CGAGTATCGA
4598774 CTGATTTTGTGAAAAC
1 CTGATTTTGT-AAAAC
4598790 CTGATTTTGTAAAA
1 CTGATTTTGTAAAA
4598804 GAAATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (15 bp):
CTGATTTTGTAAAAC
Found at i:4607508 original size:23 final size:23
Alignment explanation
Indices: 4607482--4607550 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
4607472 CACCACAGCT
*
4607482 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
4607505 CGTAGAATTACACCGGAA-TGCCG
1 CGTAGAATTGCACC-GAAGTGCCA
* *
4607528 TGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
4607551 TATAATAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 2 0.05
23 32 0.86
24 3 0.08
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:4607737 original size:103 final size:103
Alignment explanation
Indices: 4607566--4607778 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
4607556 TAATGTCCAT
* * *
4607566 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCATAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
4607631 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
4607669 AAGGACCACATATCATTCCATAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCATAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
4607734 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
4607772 AAAGACC
1 AAGGACC
4607779 GCGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCATAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:4609177 original size:22 final size:20
Alignment explanation
Indices: 4609152--4609207 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
4609142 TTCGCTTGAG
*
4609152 GGGTATCGATTCCCTATTGAAT
1 GGGTACCGATTCCC--TTGAAT
*
4609174 GGGTACCAATTCCCTTGAAT
1 GGGTACCGATTCCCTTGAAT
4609194 GGGTACCGATTCCC
1 GGGTACCGATTCCC
4609208 CTTGCCCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
22 12 0.39
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (20 bp):
GGGTACCGATTCCCTTGAAT
Found at i:4610137 original size:16 final size:16
Alignment explanation
Indices: 4610098--4610140 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4610088 AACATCAGTT
*
4610098 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
4610114 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
4610131 CTTATCAATC
1 CTTATCAATC
4610141 TTTAATTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:4610766 original size:18 final size:18
Alignment explanation
Indices: 4610745--4610783 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4610735 TCCCTTCTAA
* *
4610745 CTTAACTTCATATTTATT
1 CTTAACTCCATATTTAAT
*
4610763 CTTAACTCCTTATTTAAT
1 CTTAACTCCATATTTAAT
4610781 CTT
1 CTT
4610784 CCAGTACCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.54
Consensus pattern (18 bp):
CTTAACTCCATATTTAAT
Found at i:4612856 original size:23 final size:23
Alignment explanation
Indices: 4612813--4612881 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
4612803 CACCACAGCT
* *
4612813 CGTATAATTGCACC-GACGTGCCA
1 CGTAGAATTGTACCGGA-GTGCCA
*
4612836 CGTAGAATTGTACCGGAGTGCCG
1 CGTAGAATTGTACCGGAGTGCCA
* * *
4612859 TGTAGAATTATACCGTAGTGCCA
1 CGTAGAATTGTACCGGAGTGCCA
4612882 TATAATAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 36 0.95
24 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (23 bp):
CGTAGAATTGTACCGGAGTGCCA
Found at i:4613064 original size:100 final size:102
Alignment explanation
Indices: 4612897--4613098 Score: 347
Period size: 101 Copynumber: 2.0 Consensus size: 102
4612887 TAATGTCTAT
*
4612897 AAGGACCACATATCATTCCTTAAGAATCATACACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATACACATATACTAAGGATCAAGTATGTGTCTCACCA
4612962 GACTTC-CACATGTTCC-AAGAATACATATATGTCCC
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCC
* *
4612997 AAGGACCACCATATCATTCCTTAAGAATCATATACATATGC-AAGGATCAAGTATGTGTCTCACC
1 AAGGACCA-CATATCATTCCTTAAGAATCATACACATATACTAAGGATCAAGTATGTGTCTCACC
4613061 AGACTTCACACATGTTCCAAAGAATACATATATGTCCC
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCC
4613099 GAAAGACCGC
Statistics
Matches: 96, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
100 37 0.39
101 40 0.42
102 19 0.20
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (102 bp):
AAGGACCACATATCATTCCTTAAGAATCATACACATATACTAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCC
Found at i:4614365 original size:22 final size:21
Alignment explanation
Indices: 4614340--4614399 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
4614330 TTCGCTTGAG
*
4614340 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
4614362 GGGTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
4614382 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
4614400 CTCAGAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 17 0.47
21 9 0.25
22 10 0.28
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:4615330 original size:16 final size:16
Alignment explanation
Indices: 4615291--4615333 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4615281 AGCATCAGTT
*
4615291 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
4615307 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
4615324 CTTATCAATC
1 CTTATCAATC
4615334 TTTAATCACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:4619864 original size:36 final size:36
Alignment explanation
Indices: 4619770--4619943 Score: 190
Period size: 36 Copynumber: 4.8 Consensus size: 36
4619760 AAATCTTCTA
* *
4619770 TTTCGAGGGAAACTATCTCAAGCGAG-ATAAAATCTTCTG
1 TTTCAAGGGAAACTATCTCAAGGGAGAAT-AAA--TT-TG
* * *
4619809 TTTCTAGGGAAACTATCTCAAGCGAGAATAAATTTA
1 TTTCAAGGGAAACTATCTCAAGGGAGAATAAATTTG
*
4619845 TTTCAAGGGAAACTGTCTCAAGGGAGACA-AAATTTG
1 TTTCAAGGGAAACTATCTCAAGGGAGA-ATAAATTTG
* * * *
4619881 TTTCAAGGGAGACTATCTCGAGGGAGAAAAAAATTG
1 TTTCAAGGGAAACTATCTCAAGGGAGAATAAATTTG
*
4619917 TTTCAAGGGAAACTGTCTCAAGGGAGA
1 TTTCAAGGGAAACTATCTCAAGGGAGA
4619944 CTATCTCGAG
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
35 1 0.01
36 85 0.71
37 3 0.03
39 28 0.24
40 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGGGAGAATAAATTTG
Found at i:4619921 original size:72 final size:74
Alignment explanation
Indices: 4619768--4619944 Score: 232
Period size: 72 Copynumber: 2.4 Consensus size: 74
4619758 AAAAATCTTC
* * * * *
4619768 TATTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCTAGGGAAACTATCTCAAGCG
1 TATTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-CTTCTGTTTCAAGGGAAACTATCTCAAGCG
* *
4619833 AGAATAAATT
65 AGAAAAAAAT
* * *
4619843 TATTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TT-TGTTTCAAGGGAGACTATCTCGAGGGA
1 TATTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTTCTGTTTCAAGGGAAACTATCTCAAGCGA
4619906 GAAAAAAAT
66 GAAAAAAAT
*
4619915 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC
1 TATTTCAAGGGAAACTGTCTCAAGGGAGAC
4619945 TATCTCGAGG
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
72 59 0.65
73 2 0.02
75 30 0.33
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (74 bp):
TATTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTTCTGTTTCAAGGGAAACTATCTCAAGCGA
GAAAAAAAT
Found at i:4619943 original size:51 final size:55
Alignment explanation
Indices: 4619883--4619999 Score: 188
Period size: 55 Copynumber: 2.2 Consensus size: 55
4619873 AAAATTTGTT
*
4619883 TCAAGGGAGACTATCTCGAGGGAG-AAAAAA-A-T-TGTTTCAAGGGAAACTGTC
1 TCAAGGGAGACTATCTCGAGGGAGAAAAAAATATTCTGTTTCAAGGGAAACTATC
*
4619934 TCAAGGGAGACTATCTCGAGGGAGAAAAAAATATTCTGTTTCGAGGGAAACTATC
1 TCAAGGGAGACTATCTCGAGGGAGAAAAAAATATTCTGTTTCAAGGGAAACTATC
4619989 TCAAGGGAGAC
1 TCAAGGGAGAC
4620000 AAGATTTGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
51 24 0.40
52 6 0.10
53 1 0.02
54 1 0.02
55 28 0.47
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (55 bp):
TCAAGGGAGACTATCTCGAGGGAGAAAAAAATATTCTGTTTCAAGGGAAACTATC
Found at i:4619957 original size:15 final size:15
Alignment explanation
Indices: 4619919--4619958 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4619909 AAAAATTGTT
* *
4619919 TCAAGGGAAACTGTC
1 TCAAGGGAGACTATC
4619934 TCAAGGGAGACTATC
1 TCAAGGGAGACTATC
*
4619949 TCGAGGGAGA
1 TCAAGGGAGA
4619959 AAAAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (15 bp):
TCAAGGGAGACTATC
Found at i:4619998 original size:91 final size:87
Alignment explanation
Indices: 4619847--4620035 Score: 234
Period size: 91 Copynumber: 2.1 Consensus size: 87
4619837 TAAATTTATT
* * * * *
4619847 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAGACTATCTCGAGGGAGAAAAA
1 TCAAGGGAGACTATCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGAAAAA
4619912 AATTGTTTCAAGGGAAACTGTC
66 AATTGTTTCAAGGGAAACTGTC
* *
4619934 TCAAGGGAGACTATCTCGAGGGAGAAAAAAATATTCTGTTTCGAGGGAAACTATCTCAAGGGAGA
1 TCAAGGGAGACTATCTCAAGGGAG--AAAAA-ATT-TGTTTCAAGGGAAACTATCTCAAGGGAGA
* * * *
4619999 CAAGATTTGTTTCAAGGGAAATTGTC
62 AAAAAATTGTTTCAAGGGAAACTGTC
*
4620025 TCAAGAGAGAC
1 TCAAGGGAGAC
4620036 AAAATCTTCT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
87 21 0.24
89 4 0.05
90 3 0.03
91 58 0.67
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (87 bp):
TCAAGGGAGACTATCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGAAAAA
AATTGTTTCAAGGGAAACTGTC
Found at i:4620017 original size:36 final size:37
Alignment explanation
Indices: 4619929--4620037 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 37
4619919 TCAAGGGAAA
* * * * *
4619929 CTGTCTCAAGGGAGACTATCTCGAGGGAGAAAAAAATATT
1 CTGTTTCAAGGGAAACTATCTCAAGGGAG---ACAAGATT
*
4619969 CTGTTTCGAGGGAAACTATCTCAAGGGAGACAAGATT
1 CTGTTTCAAGGGAAACTATCTCAAGGGAGACAAGATT
* * *
4620006 -TGTTTCAAGGGAAATTGTCTCAAGAGAGACAA
1 CTGTTTCAAGGGAAACTATCTCAAGGGAGACAA
4620038 AATCTTCTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
36 28 0.47
37 6 0.10
40 25 0.42
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.24
Consensus pattern (37 bp):
CTGTTTCAAGGGAAACTATCTCAAGGGAGACAAGATT
Found at i:4620174 original size:76 final size:75
Alignment explanation
Indices: 4620017--4620355 Score: 338
Period size: 76 Copynumber: 4.6 Consensus size: 75
4620007 GTTTCAAGGG
* * *
4620017 AAATTGTCTCAAGAGAGACAAAATCTT-CTTT---AAAAACAATCTTGAGTAAAATGAAATGTTC
1 AAATTGTCTCAAGCGAGAC-AAATCTTATTTTAAGAAAAACAATTTTGAGTAAAATGAAATG-TC
*
4620078 TTTTT-TAGTAA
64 TTTTTCGAGTAA
** * * * * *
4620089 AAACCGTCTCAAGCGAGACACATCTTGTTTTAAGAAAAATAATTTTGCGTAAAAT-AAATCTTCT
1 AAATTGTCTCAAGCGAGACAAATCTTATTTTAAGAAAAACAATTTTGAGTAAAATGAAAT-GTCT
4620153 TATTTCGAGTAA
65 T-TTTCGAGTAA
* * * * * *
4620165 AAAATGTCTCAAGCGAGACAAATATTACTTTAGGAAAAAC-A-TGT-AGTGAAATGAAATGTCTT
1 AAATTGTCTCAAGCGAGACAAATCTTATTTTAAGAAAAACAATTTTGAGTAAAATGAAATGTCTT
* *
4620227 GTTTTGAATAA
66 -TTTCGAGTAA
* * *
4620238 AAATTGTCTTAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTGAAATGAAATGTCTT
1 AAATTGTCTCAAGCGAGACAAATCTTATTTTAAGAAAAACAATTTTGAGTAAAATGAAATGTCTT
*
4620303 CTTTCAAGTAA
66 -TTTCGAGTAA
*
4620314 AAATTGTCTCAAGTGAGACAAAT-TTATTTTAAGAAAAACAAT
1 AAATTGTCTCAAGCGAGACAAATCTTATTTTAAGAAAAACAAT
4620356 ATCAAGTGAG
Statistics
Matches: 217, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
71 6 0.03
72 19 0.09
73 52 0.24
74 15 0.07
75 42 0.19
76 83 0.38
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (75 bp):
AAATTGTCTCAAGCGAGACAAATCTTATTTTAAGAAAAACAATTTTGAGTAAAATGAAATGTCTT
TTTCGAGTAA
Found at i:4620313 original size:149 final size:147
Alignment explanation
Indices: 4620021--4620353 Score: 397
Period size: 149 Copynumber: 2.2 Consensus size: 147
4620011 CAAGGGAAAT
* * *
4620021 TGTCTCAAGAGAGACAAAATCTT-CTTTAA-AAACAATCTTG-AGTAAAATGAAATGTTCTTTTT
1 TGTCTCAAGCGAGAC-AAAT-TTACTTTAAGAAA-AA-CATGTAGTGAAATGAAATGTTCTTTTT
* * * *
4620083 TAGTAAAAACCGTCTCAAGCGAGACACATCTTGTTTTAAGAAAAATAATTTTGCGTAAAATAAAT
62 TAATAAAAACCGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTAAAATAAAT
* *
4620148 CTTCTTATTTCGAGTAAAAAA
127 CGTCTTATTTCAAGTAAAAAA
*
4620169 TGTCTCAAGCGAGACAAATATTACTTTAGGAAAAACATGTAGTGAAATGAAATG-TCTTGTTTTG
1 TGTCTCAAGCGAGACAAAT-TTACTTTAAGAAAAACATGTAGTGAAATGAAATGTTCTT-TTTT-
** * *
4620233 AATAAAAATTGTCTTAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTGAAATGAAAT
63 AATAAAAACCGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTAAAAT-AAAT
* *
4620298 -GTCTTCTTTCAAGTAAAAAT
127 CGTCTTATTTCAAGTAAAAAA
* *
4620318 TGTCTCAAGTGAGACAAATTTATTTTAAGAAAAACA
1 TGTCTCAAGCGAGACAAATTTACTTTAAGAAAAACA
4620354 ATATCAAGTG
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
147 13 0.08
148 53 0.33
149 89 0.56
150 4 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (147 bp):
TGTCTCAAGCGAGACAAATTTACTTTAAGAAAAACATGTAGTGAAATGAAATGTTCTTTTTTAAT
AAAAACCGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTAAAATAAATCGTC
TTATTTCAAGTAAAAAA
Found at i:4620395 original size:149 final size:149
Alignment explanation
Indices: 4620086--4620414 Score: 366
Period size: 149 Copynumber: 2.2 Consensus size: 149
4620076 TCTTTTTTAG
* * * * *
4620086 TAAAAACCGTCTCAAGCGAGACACATCTTGTTTTAAGAAAAATAATTTTGCGTAAAATAAATCTT
1 TAAAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTAAAATAAATCGT
* * *
4620151 CTTATTTCGAGTAAAAAATGTCTCAAGCGAGACAAATATTACTTTAGGAAAAACATGTAGTGAAA
66 CTTATTTCAAGTAAAAAATGTCTCAAGCGAGACAAATATTACTTTAAGAAAAACATATAGTGAAA
* * *
4620216 TGAAATGTCTTGTTTTGAA
131 TGAAATCTCTTGTATTAAA
* * *
4620235 TAAAAATTGTCTTAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTGAAATGAAAT-G
1 TAAAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTAAAAT-AAATCG
* * * *
4620299 TCTTCTTTCAAGTAAAAATTGTCTCAAGTGAGACAAAT-TTATTTTAAGAAAAACAATATCAAGT
65 TCTTATTTCAAGTAAAAAATGTCTCAAGCGAGACAAATATTACTTTAAGAAAAAC-ATAT--AGT
*
4620363 GAGAT-AAATC-CTCTGTATTAAA
127 GAAATGAAATCTCT-TGTATTAAA
* * *
4620385 T-GAGACTGTCTCAAGTGAGAC-AAT-TTGTTT
1 TAAAAACTGTCTCAAGCGAGACAAATCTTGTTT
4620415 GGAAGTGTTG
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
147 6 0.04
148 17 0.11
149 105 0.70
150 16 0.11
151 7 0.05
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (149 bp):
TAAAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATTTTGAGTAAAATAAATCGT
CTTATTTCAAGTAAAAAATGTCTCAAGCGAGACAAATATTACTTTAAGAAAAACATATAGTGAAA
TGAAATCTCTTGTATTAAA
Found at i:4622974 original size:111 final size:111
Alignment explanation
Indices: 4622780--4623004 Score: 450
Period size: 111 Copynumber: 2.0 Consensus size: 111
4622770 GTAAAAGGGT
4622780 TGGACCTGTGCGGCTACGTCACGTCATCTCTAGGCATATTGTCGGAAAGTCTCATTATTTCTCTT
1 TGGACCTGTGCGGCTACGTCACGTCATCTCTAGGCATATTGTCGGAAAGTCTCATTATTTCTCTT
4622845 TTCCATATTCTGAAGAGTCCACCGATCAGGCACCATATCAGTAACA
66 TTCCATATTCTGAAGAGTCCACCGATCAGGCACCATATCAGTAACA
4622891 TGGACCTGTGCGGCTACGTCACGTCATCTCTAGGCATATTGTCGGAAAGTCTCATTATTTCTCTT
1 TGGACCTGTGCGGCTACGTCACGTCATCTCTAGGCATATTGTCGGAAAGTCTCATTATTTCTCTT
4622956 TTCCATATTCTGAAGAGTCCACCGATCAGGCACCATATCAGTAACA
66 TTCCATATTCTGAAGAGTCCACCGATCAGGCACCATATCAGTAACA
4623002 TGG
1 TGG
4623005 CGATACTTTT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (111 bp):
TGGACCTGTGCGGCTACGTCACGTCATCTCTAGGCATATTGTCGGAAAGTCTCATTATTTCTCTT
TTCCATATTCTGAAGAGTCCACCGATCAGGCACCATATCAGTAACA
Found at i:4623742 original size:13 final size:13
Alignment explanation
Indices: 4623724--4623756 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
4623714 CAGCCTCAAT
4623724 CTTCTCAAATTTA
1 CTTCTCAAATTTA
4623737 CTTCTCAAATTTA
1 CTTCTCAAATTTA
4623750 CTTCTCA
1 CTTCTCA
4623757 TTTCTGCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (13 bp):
CTTCTCAAATTTA
Found at i:4645622 original size:15 final size:15
Alignment explanation
Indices: 4645602--4645633 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4645592 TTCTTCATTG
4645602 AGTCTAGAGCTTTCT
1 AGTCTAGAGCTTTCT
4645617 AGTCTAGAGCTTTCT
1 AGTCTAGAGCTTTCT
4645632 AG
1 AG
4645634 GTTTGATTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (15 bp):
AGTCTAGAGCTTTCT
Found at i:4647876 original size:45 final size:43
Alignment explanation
Indices: 4647808--4647924 Score: 143
Period size: 42 Copynumber: 2.7 Consensus size: 43
4647798 CATTTTCCCC
*
4647808 TTTTATTCCAAA-TTCAAAACATAGAAAAAAAATGCATT-AATTGT
1 TTTTATTCCAAATTTC-AAACATAGAAAAAAAA-CCATTCAA-TGT
4647852 TTTTCATTCCAAATTTCAAACATAG--AAAAAACCATTCAATGTT
1 TTTT-ATTCCAAATTTCAAACATAGAAAAAAAACCATTCAATG-T
*
4647895 TTTTATTCCAAATTTAAAACATAGAAAAAA
1 TTTTATTCCAAATTTCAAACATAGAAAAAA
4647925 CAATTAGAGT
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
42 25 0.38
43 13 0.20
44 8 0.12
45 16 0.25
46 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (43 bp):
TTTTATTCCAAATTTCAAACATAGAAAAAAAACCATTCAATGT
Found at i:4648585 original size:12 final size:12
Alignment explanation
Indices: 4648564--4648665 Score: 84
Period size: 12 Copynumber: 8.5 Consensus size: 12
4648554 TTCACGAACA
4648564 AACTCGTTTATG
1 AACTCGTTTATG
*
4648576 AACTCATTTAT-
1 AACTCGTTTATG
4648587 AAGCTCGTTTATG
1 AA-CTCGTTTATG
* *
4648600 AGCTCATTTAT-
1 AACTCGTTTATG
4648611 AAGCTCGTTTATG
1 AA-CTCGTTTATG
* * *
4648624 AGCTTGTTT-TC
1 AACTCGTTTATG
4648635 AAGCTCGTTTATG
1 AA-CTCGTTTATG
* *
4648648 AGCTCGTTTATC
1 AACTCGTTTATG
4648660 AACTCG
1 AACTCG
4648666 ATCCTATATG
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
11 5 0.07
12 60 0.87
13 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (12 bp):
AACTCGTTTATG
Found at i:4648665 original size:24 final size:24
Alignment explanation
Indices: 4648566--4648658 Score: 134
Period size: 24 Copynumber: 3.9 Consensus size: 24
4648556 CACGAACAAA
*
4648566 CTCGTTTATGAACTCATTTATAAG
1 CTCGTTTATGAGCTCATTTATAAG
4648590 CTCGTTTATGAGCTCATTTATAAG
1 CTCGTTTATGAGCTCATTTATAAG
**
4648614 CTCGTTTATGAGCTTGTTT-TCAAG
1 CTCGTTTATGAGCTCATTTAT-AAG
*
4648638 CTCGTTTATGAGCTCGTTTAT
1 CTCGTTTATGAGCTCATTTAT
4648659 CAACTCGATC
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 61 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (24 bp):
CTCGTTTATGAGCTCATTTATAAG
Found at i:4661150 original size:58 final size:59
Alignment explanation
Indices: 4661041--4661161 Score: 163
Period size: 58 Copynumber: 2.1 Consensus size: 59
4661031 TCGAATCACT
* * * * *
4661041 ATCACTAATCTTATTCAGTCATCATCCATAGTCATAACCATTAGTAGTCTCATTTAGTC
1 ATCAATAATCTCATTCAGTCATCATCCATAATCACAACCATTAGTAATCTCATTTAGTC
* * *
4661100 ATCAATAATCTCATTTAGTCATC-TTCATAATCACAATCATTAGTAATCTCATTTAGTC
1 ATCAATAATCTCATTCAGTCATCATCCATAATCACAACCATTAGTAATCTCATTTAGTC
4661158 ATCA
1 ATCA
4661162 TCATTCGTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
58 34 0.63
59 20 0.37
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (59 bp):
ATCAATAATCTCATTCAGTCATCATCCATAATCACAACCATTAGTAATCTCATTTAGTC
Found at i:4673955 original size:2 final size:2
Alignment explanation
Indices: 4673948--4673992 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
4673938 TTGATTGGAA
4673948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4673989 -T AT A
1 AT AT A
4673993 ATTTTTAGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4675642 original size:2 final size:2
Alignment explanation
Indices: 4675635--4675665 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4675625 GGTGCATGAA
*
4675635 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4675666 AACTAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4688875 original size:50 final size:50
Alignment explanation
Indices: 4688820--4688938 Score: 113
Period size: 50 Copynumber: 2.4 Consensus size: 50
4688810 ATTTTTTTAA
4688820 AAAATTATTTATTATAAATATTAAATATAAT-AAATAATATTATTTATCA-T
1 AAAATTATTTATTATAAATATTAAAT-TAATAAAATAAT-TTATTTATCATT
* * * *
4688870 AAAATTTAATT-TTAGT-AATTTTAAATTATTAAAATAATTTATTTATTATT
1 AAAA-TTATTTATTA-TAAATATTAAATTAATAAAATAATTTATTTATCATT
4688920 AAAA-TATTATATTAATAAA
1 AAAATTATT-TATT-ATAAA
4688939 AATATTAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
48 3 0.05
49 13 0.23
50 31 0.55
51 9 0.16
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (50 bp):
AAAATTATTTATTATAAATATTAAATTAATAAAATAATTTATTTATCATT
Found at i:4689068 original size:23 final size:23
Alignment explanation
Indices: 4689019--4689069 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4689009 GTGTTATATT
**
4689019 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
4689042 ATATTTTAAATATTTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
4689065 ATATT
1 ATATT
4689070 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:4689125 original size:19 final size:19
Alignment explanation
Indices: 4689057--4689137 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
4689047 TTAAATATTT
4689057 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
4689076 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
4689095 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
4689115 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
4689133 -TATTA
1 TTATTA
4689138 TTTCTATGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:4689234 original size:23 final size:22
Alignment explanation
Indices: 4689204--4689280 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
4689194 AAAATAAAAA
4689204 TATAATATCTTATATTATATTAT
1 TATAATATCTTATATTAT-TTAT
*
4689227 TATAATATCTTATATTATTATAA
1 TATAATATCTTATATTATT-TAT
* *
4689250 TATAATATAATT-GATTATTTTAT
1 TATAATAT-CTTATATTA-TTTAT
4689273 TATAATAT
1 TATAATAT
4689281 TAAAAATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.02
23 42 0.89
24 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.55
Consensus pattern (22 bp):
TATAATATCTTATATTATTTAT
Found at i:4689258 original size:18 final size:18
Alignment explanation
Indices: 4689156--4689301 Score: 70
Period size: 18 Copynumber: 8.1 Consensus size: 18
4689146 AGATTAATAA
*
4689156 ATAATATAA-ATTTTATT
1 ATAATATAATATATTATT
*
4689173 AATAATTTATTATATATTATT
1 -ATAA--TATAATATATTATT
* * *
4689194 AAAATA-AAAATA-TAAT
1 ATAATATAATATATTATT
** *
4689210 ATCTTATATTATATTATT
1 ATAATATAATATATTATT
**
4689228 ATAATATCTTATATTATT
1 ATAATATAATATATTATT
4689246 ATAATATAATATAATTGATT
1 ATAATATAATAT-ATT-ATT
* * *
4689266 AT--TTTATTATAATATT
1 ATAATATAATATATTATT
*
4689282 AAAAATATAATAT-TTATT
1 -ATAATATAATATATTATT
4689300 AT
1 AT
4689302 TAGGAATATT
Statistics
Matches: 93, Mismatches: 25, Indels: 21
0.67 0.18 0.15
Matches are distributed among these distances:
16 9 0.10
17 12 0.13
18 44 0.47
19 9 0.10
20 12 0.13
21 7 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (18 bp):
ATAATATAATATATTATT
Found at i:4689258 original size:28 final size:28
Alignment explanation
Indices: 4689185--4689280 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
4689175 TAATTTATTA
* *
4689185 TATATTATTAAAATAAAAATATAATATCT
1 TATATTATTATAAT-ATAATATAATATCT
4689214 TATATTA-TAT--TAT--TATAATATCT
1 TATATTATTATAATATAATATAATATCT
*
4689237 TATATTATTATAATATAATATAAT-TGAT
1 TATATTATTATAATATAATATAATAT-CT
*
4689265 TATTTTATTATAATAT
1 TATATTATTATAATAT
4689281 TAAAAATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
23 17 0.30
24 3 0.05
25 1 0.02
26 4 0.07
27 1 0.02
28 24 0.42
29 7 0.12
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (28 bp):
TATATTATTATAATATAATATAATATCT
Found at i:4691628 original size:2 final size:2
Alignment explanation
Indices: 4691621--4691700 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
4691611 CATCATGTTA
4691621 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
4691663 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
4691701 TTTTGTATAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4691765 original size:17 final size:17
Alignment explanation
Indices: 4691729--4691767 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4691719 ATAAATAAAA
* *
4691729 TTGATTTGGTATTAATT
1 TTGATTTGATATTAACT
*
4691746 TTGATTTGATATTGACT
1 TTGATTTGATATTAACT
4691763 TTGAT
1 TTGAT
4691768 AATTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (17 bp):
TTGATTTGATATTAACT
Found at i:4691925 original size:30 final size:30
Alignment explanation
Indices: 4691891--4691949 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
4691881 GCTTGGTTTG
*
4691891 ATATTAGTTTTAATCATTAATATTGATTTA
1 ATATTAATTTTAATCATTAATATTGATTTA
** * *
4691921 ATATTAATTTTGGTCATTTATTTTGATTT
1 ATATTAATTTTAATCATTAATATTGATTT
4691950 GTGTTAAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
ATATTAATTTTAATCATTAATATTGATTTA
Found at i:4692092 original size:2 final size:2
Alignment explanation
Indices: 4692085--4692147 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
4692075 ACAAGTATCC
4692085 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4692127 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
4692148 TTTTGTATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4692165 original size:447 final size:447
Alignment explanation
Indices: 4691638--4692534 Score: 1776
Period size: 447 Copynumber: 2.0 Consensus size: 447
4691628 TATATATATA
4691638 TATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTT
1 TATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTT
4691703 TTGTATATGGAAGGACATAAATAAAATTGATTTGGTATTAATTTTGATTTGATATTGACTTTGAT
66 TTGTATATGGAAGGACATAAATAAAATTGATTTGGTATTAATTTTGATTTGATATTGACTTTGAT
4691768 AATTAATTTTTAATTATTTAACGATAAATTTTGATTGGTATTAATTTGGATATTTTTTTAATTTG
131 AATTAATTTTTAATTATTTAACGATAAATTTTGATTGGTATTAATTTGGATATTTTTTTAATTTG
4691833 ACATTAACATTGATCATTATTCTTGATAATATTAATTTGGATGCCTAAGCTTGGTTTGATATTAG
196 ACATTAACATTGATCATTATTCTTGATAATATTAATTTGGATGCCTAAGCTTGGTTTGATATTAG
4691898 TTTTAATCATTAATATTGATTTAATATTAATTTTGGTCATTTATTTTGATTTGTGTTAAGCAAAA
261 TTTTAATCATTAATATTGATTTAATATTAATTTTGGTCATTTATTTTGATTTGTGTTAAGCAAAA
4691963 AGAATTATGAGAGTGTGGTACAGATGTGTGAATACGTGATGTTGAGTTTGTTATATTGTGGGTCT
326 AGAATTATGAGAGTGTGGTACAGATGTGTGAATACGTGATGTTGAGTTTGTTATATTGTGGGTCT
*
4692028 CTTTGTACGCTAGCTGGAGTACGATTATGCGGTGAGAGGAGTATTCGACAAGTATCC
391 CTTTGTACGCTAGCTGGAGTACGATTATGCGATGAGAGGAGTATTCGACAAGTATCC
4692085 TATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTT
1 TATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTT
4692150 TTGTATATGGAAGGACATAAATAAAATTGATTTGGTATTAATTTTGATTTGATATTGACTTTGAT
66 TTGTATATGGAAGGACATAAATAAAATTGATTTGGTATTAATTTTGATTTGATATTGACTTTGAT
*
4692215 AATTAATTTTTAATTATTTAACTATAAATTTTGATTGGTATTAATTTGGATATTTTTTTAATTTG
131 AATTAATTTTTAATTATTTAACGATAAATTTTGATTGGTATTAATTTGGATATTTTTTTAATTTG
4692280 ACATTAACATTGATCATTATTCTTGATAATATTAATTTGGATGCCTAAGCTTGGTTTGATATTAG
196 ACATTAACATTGATCATTATTCTTGATAATATTAATTTGGATGCCTAAGCTTGGTTTGATATTAG
4692345 TTTTAATCATTAATATTGATTTAATATTAATTTTGGTCATTTATTTTGATTTGTGTTAAGCAAAA
261 TTTTAATCATTAATATTGATTTAATATTAATTTTGGTCATTTATTTTGATTTGTGTTAAGCAAAA
4692410 AGAATTATGAGAGTGTGGTACAGATGTGTGAATACGTGATGTTGAGTTTGTTATATTGTGGGTCT
326 AGAATTATGAGAGTGTGGTACAGATGTGTGAATACGTGATGTTGAGTTTGTTATATTGTGGGTCT
4692475 CTTTGTACGCTAGCTGGAGTACGATTATGCGATGAGAGGAGTATTCGACAAGTATCC
391 CTTTGTACGCTAGCTGGAGTACGATTATGCGATGAGAGGAGTATTCGACAAGTATCC
4692532 TAT
1 TAT
4692535 CAAGTCTATA
Statistics
Matches: 448, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
447 448 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (447 bp):
TATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTT
TTGTATATGGAAGGACATAAATAAAATTGATTTGGTATTAATTTTGATTTGATATTGACTTTGAT
AATTAATTTTTAATTATTTAACGATAAATTTTGATTGGTATTAATTTGGATATTTTTTTAATTTG
ACATTAACATTGATCATTATTCTTGATAATATTAATTTGGATGCCTAAGCTTGGTTTGATATTAG
TTTTAATCATTAATATTGATTTAATATTAATTTTGGTCATTTATTTTGATTTGTGTTAAGCAAAA
AGAATTATGAGAGTGTGGTACAGATGTGTGAATACGTGATGTTGAGTTTGTTATATTGTGGGTCT
CTTTGTACGCTAGCTGGAGTACGATTATGCGATGAGAGGAGTATTCGACAAGTATCC
Found at i:4692212 original size:17 final size:17
Alignment explanation
Indices: 4692176--4692214 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4692166 ATAAATAAAA
* *
4692176 TTGATTTGGTATTAATT
1 TTGATTTGATATTAACT
*
4692193 TTGATTTGATATTGACT
1 TTGATTTGATATTAACT
4692210 TTGAT
1 TTGAT
4692215 AATTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (17 bp):
TTGATTTGATATTAACT
Found at i:4692372 original size:30 final size:30
Alignment explanation
Indices: 4692338--4692396 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
4692328 GCTTGGTTTG
*
4692338 ATATTAGTTTTAATCATTAATATTGATTTA
1 ATATTAATTTTAATCATTAATATTGATTTA
** * *
4692368 ATATTAATTTTGGTCATTTATTTTGATTT
1 ATATTAATTTTAATCATTAATATTGATTT
4692397 GTGTTAAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
ATATTAATTTTAATCATTAATATTGATTTA
Found at i:4696799 original size:22 final size:22
Alignment explanation
Indices: 4696774--4696818 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4696764 GAGAATGATG
* *
4696774 TTTCTTTGTGTGTATTTTCGGA
1 TTTCGTTGTGTGCATTTTCGGA
*
4696796 TTTCGTTGTGTGCGTTTTCGGA
1 TTTCGTTGTGTGCATTTTCGGA
4696818 T
1 T
4696819 GTGAATTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.07, C:0.11, G:0.27, T:0.56
Consensus pattern (22 bp):
TTTCGTTGTGTGCATTTTCGGA
Found at i:4702212 original size:14 final size:14
Alignment explanation
Indices: 4702193--4702219 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4702183 TTTGGTCAAA
4702193 AATGGCAAATGGGG
1 AATGGCAAATGGGG
4702207 AATGGCAAATGGG
1 AATGGCAAATGGG
4702220 CGGCTAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.41, T:0.15
Consensus pattern (14 bp):
AATGGCAAATGGGG
Found at i:4702783 original size:30 final size:30
Alignment explanation
Indices: 4702701--4702792 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 30
4702691 AGATTCCAAC
* *
4702701 AACTTGAAATTAATTTTAACCATGGATTTT
1 AACTTGAAATTAATTTTAATCATTGATTTT
* * * **
4702731 AATTTGAAACTGATTTCGATCATTGATTTT
1 AACTTGAAATTAATTTTAATCATTGATTTT
* *
4702761 CACTTGAAATTAATTTTTATCATT-AGTTTT
1 AACTTGAAATTAATTTTAATCATTGA-TTTT
4702791 AA
1 AA
4702793 ATTAGATTGA
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (30 bp):
AACTTGAAATTAATTTTAATCATTGATTTT
Found at i:4706595 original size:42 final size:41
Alignment explanation
Indices: 4706549--4706926 Score: 201
Period size: 41 Copynumber: 9.2 Consensus size: 41
4706539 TAAAAACAAT
* *
4706549 GCAATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGCC
1 GCAATAGA-TTAACATATAGTGGCGTTTTTACAACAAACGCC
** **** * * ** *
4706591 GCAATAGGGTGGTTTATTGCGATGTTTTT-TAACAAACGCC
1 GCAATAGATTAACATATAGTGGCGTTTTTACAACAAACGCC
* * *
4706631 GCAATAGAGTGGTAA-AT-TAGCGGCGTTTATACCACAAACGCC
1 GCAATAGA-T--TAACATATAGTGGCGTTTTTACAACAAACGCC
* *
4706673 GTAATAGATTAACATATAGTGGCG-TTTTAGCCA-AAACGCC
1 GCAATAGATTAACATATAGTGGCGTTTTTA-CAACAAACGCC
* * *
4706713 GCAATAGATCGGTAA-AT-TAGCGGCGTTTATACCACAAACGCC
1 GCAATAGAT---TAACATATAGTGGCGTTTTTACAACAAACGCC
* * *
4706755 GTAATAGATTACACATATAGTGGCATTTATT-CTTA-AAACGCC
1 GCAATAGATTA-ACATATAGTGGCGTTT-TTAC-AACAAACGCC
* * * *
4706797 GTAATAG-TGATAATAAATAGTGGCGTTTTTA-GACAAACGCC
1 GCAATAGAT--TAACATATAGTGGCGTTTTTACAACAAACGCC
* *
4706838 GCAATAGTATTAATCA-ATAGTGGCGTTTTTAGAA-AAACGCT
1 GCAATAG-ATTAA-CATATAGTGGCGTTTTTACAACAAACGCC
* *
4706879 GCAATAGTTTTAATCA-ATAGTGGCGTTTTT-TAACAAACGCC
1 GCAATAG-ATTAA-CATATAGTGGCGTTTTTACAACAAACGCC
*
4706920 ACAATAG
1 GCAATAG
4706927 TGCAATCAAT
Statistics
Matches: 267, Mismatches: 43, Indels: 53
0.74 0.12 0.15
Matches are distributed among these distances:
39 5 0.02
40 42 0.16
41 127 0.48
42 84 0.31
43 9 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (41 bp):
GCAATAGATTAACATATAGTGGCGTTTTTACAACAAACGCC
Found at i:4706700 original size:82 final size:82
Alignment explanation
Indices: 4706616--4706885 Score: 293
Period size: 82 Copynumber: 3.3 Consensus size: 82
4706606 ATTGCGATGT
4706616 TTTTTA-ACAAACGCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCACAAACGCCGTAATAG
1 TTTTTAGACAAACGCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCACAAACGCCGTAATAG
4706680 ATTAACATATAGTGGCG
66 ATTAACATATAGTGGCG
*
4706697 -TTTTAGCCAAAACGCCGCAATAGA-TCGGTAAATTAGCGGCGTTTATACCACAAACGCCGTAAT
1 TTTTTAGAC-AAACGCCGCAATAGAGT-GGTAAATTAGCGGCGTTTATACCACAAACGCCGTAAT
*
4706760 AGATTACACATATAGTGGCA
64 AGATTA-ACATATAGTGGCG
** * * ** * * * *
4706780 TTTATTCTTA-AAACGCCGTAATAGTGATAATAAA-TAGTGGCGTTTTTA-GACAAACGCCGCAA
1 TTT-TT-AGACAAACGCCGCAATAGAG-TGGTAAATTAGCGGCGTTTATACCACAAACGCCGTAA
4706842 TAGTATTAATCA-ATAGTGGCG
63 TAG-ATTAA-CATATAGTGGCG
* *
4706863 TTTTTAGAAAAACGCTGCAATAG
1 TTTTTAGACAAACGCCGCAATAG
4706886 TTTTAATCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 23
0.80 0.09 0.12
Matches are distributed among these distances:
80 5 0.03
81 3 0.02
82 72 0.45
83 39 0.25
84 33 0.21
85 6 0.04
86 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (82 bp):
TTTTTAGACAAACGCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCACAAACGCCGTAATAG
ATTAACATATAGTGGCG
Found at i:4706738 original size:41 final size:41
Alignment explanation
Indices: 4706566--4706763 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 41
4706556 AGTTGACATA
* * * **
4706566 TAGCGGCGTTTTTACAACAAACGCCGCAATAGGGTGGTTTAT
1 TAGCGGCGTTTATACCACAAACGCCGCAATA-GATGGTAAAT
** *
4706608 T-GCGATGTTTTTTA--ACAAACGCCGCAATAGAGTGGTAAAT
1 TAGCGGCG-TTTATACCACAAACGCCGCAATAGA-TGGTAAAT
*
4706648 TAGCGGCGTTTATACCACAAACGCCGTAATAGAT--TAACAT
1 TAGCGGCGTTTATACCACAAACGCCGCAATAGATGGTAA-AT
*
4706688 ATAGTGGCGTTT-TAGCCA-AAACGCCGCAATAGATCGGTAAAT
1 -TAGCGGCGTTTATA-CCACAAACGCCGCAATAGAT-GGTAAAT
*
4706730 TAGCGGCGTTTATACCACAAACGCCGTAATAGAT
1 TAGCGGCGTTTATACCACAAACGCCGCAATAGAT
4706764 TACACATATA
Statistics
Matches: 130, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
39 4 0.03
40 46 0.35
41 35 0.27
42 42 0.32
43 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (41 bp):
TAGCGGCGTTTATACCACAAACGCCGCAATAGATGGTAAAT
Found at i:4706845 original size:41 final size:41
Alignment explanation
Indices: 4706790--4706948 Score: 198
Period size: 41 Copynumber: 3.9 Consensus size: 41
4706780 TTTATTCTTA
* *
4706790 AAACGCCGTAATAGTGATAATAAATAGTGGCGTTTTTAGAC
1 AAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGAC
*
4706831 AAACGCCGCAATAGT-ATTAATCAATAGTGGCGTTTTTAGAA
1 AAACGCCGCAATAGTGA-TAATCAATAGTGGCGTTTTTAGAC
* **
4706872 AAACGCTGCAATAGTTTTAATCAATAGTGGCGTTTTTTA-AC
1 AAACGCCGCAATAGTGATAATCAATAGTGGCG-TTTTTAGAC
* * *
4706913 AAACGCCACAATAGTG-CAATCAATAGTGGCATTTTT
1 AAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTT
4706949 TGTATAAGCG
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
39 5 0.05
40 14 0.13
41 79 0.76
42 6 0.06
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (41 bp):
AAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAGAC
Found at i:4706903 original size:82 final size:79
Alignment explanation
Indices: 4706616--4706948 Score: 239
Period size: 82 Copynumber: 4.1 Consensus size: 79
4706606 ATTGCGATGT
* * * * * *
4706616 TTTTTA-ACAAACGCCGCAATAGAGTGGTAA-ATTAGCGGCGTTTATACCACAAACGCCGTAATA
1 TTTTTAGAAAAACGCCGCAAT--AGTGATAATAATAGTGGCGTTTTTA--ACAAACGCCGCAATA
4706679 GATTAACATATAGTGGC-
62 GATTAACATATAGTGGCA
* * * * * * *
4706696 GTTTTAGCCAAAACGCCGCAATAGATCGGTAA-ATTAGCGGCGTTTATACCACAAACGCCGTAAT
1 TTTTTAG-AAAAACGCCGCAATAG-T-GATAATAATAGTGGCGTTTTTA--ACAAACGCCGCAAT
4706760 AGATTACACATATAGTGGCA
61 AGATTA-ACATATAGTGGCA
*** *
4706780 TTTATTCTTAAAACGCCGTAATAGTGATAATAAATAGTGGCGTTTTTAGACAAACGCCGCAATAG
1 TTT-TTAGAAAAACGCCGCAATAGTGATAAT-AATAGTGGCGTTTTTA-ACAAACGCCGCAATAG
*
4706845 TATTAATCA-ATAGTGGCG
63 -ATTAA-CATATAGTGGCA
* ** *
4706863 TTTTTAGAAAAACGCTGCAATAGTTTTAATCAATAGTGGCGTTTTTTAACAAACGCCACAATAG-
1 TTTTTAGAAAAACGCCGCAATAGTGATAAT-AATAGTGGCG-TTTTTAACAAACGCCGCAATAGA
*
4706927 TGCAATCA-ATAGTGGCA
64 T-TAA-CATATAGTGGCA
4706944 TTTTT
1 TTTTT
4706949 TGTATAAGCG
Statistics
Matches: 214, Mismatches: 26, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
80 8 0.04
81 19 0.09
82 104 0.49
83 46 0.21
84 35 0.16
85 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (79 bp):
TTTTTAGAAAAACGCCGCAATAGTGATAATAATAGTGGCGTTTTTAACAAACGCCGCAATAGATT
AACATATAGTGGCA
Found at i:4706949 original size:41 final size:39
Alignment explanation
Indices: 4706771--4706964 Score: 149
Period size: 41 Copynumber: 4.7 Consensus size: 39
4706761 GATTACACAT
* *
4706771 ATAGTGGCATTTATTCTT-AAAACGCCGTAATAGTGATAATAA
1 ATAGTGGC-TTT-TT-TTAAAAACGCCGCAATAGTG-TAATCA
* *
4706813 ATAGTGGC-GTTTTTAGACAAACGCCGCAATAGTATTAATCA
1 ATAGTGGCTTTTTTTA-A-AAACGCCGCAATAGT-GTAATCA
** * *
4706854 ATAGTGGCGTTTTTAGAAAAACGCTGCAATAGTTTTAATCA
1 ATAGTGGC-TTTTTTTAAAAACGCCGCAATAG-TGTAATCA
* * *
4706895 ATAGTGGCGTTTTTTAACAAACGCCACAATAGTGCAATCA
1 ATAGTGGCTTTTTTTAA-AAACGCCGCAATAGTGTAATCA
* *
4706935 ATAGTGGCATTTTTTGTATAAGCGCCGCAA
1 ATAGTGGC-TTTTTT-TAAAAACGCCGCAA
4706965 AATGTTAAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 22 0.18
41 81 0.66
42 12 0.10
43 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (39 bp):
ATAGTGGCTTTTTTTAAAAACGCCGCAATAGTGTAATCA
Found at i:4706981 original size:82 final size:81
Alignment explanation
Indices: 4706812--4706981 Score: 184
Period size: 82 Copynumber: 2.1 Consensus size: 81
4706802 AGTGATAATA
* ** *
4706812 AATAGTGGCGTTTTTAGACAAACGCCGCAATAGTATTAATCAATAGTGGCGTTTTTAGAAAAACG
1 AATAGTGGCGTTTTTAGACAAACGCCACAATAGTAGCAATCAATAGTGGCATTTTTAGAAAAACG
* * *
4706877 CTGCAATAGTTTTAAT
66 CCGCAAAAGTTTAAAT
* *
4706893 CAATAGTGGCGTTTTTTA-ACAAACGCCACAATAGT-GCAATCAATAGTGGCATTTTTTGTATAA
1 -AATAGTGGCG-TTTTTAGACAAACGCCACAATAGTAGCAATCAATAGTGGCATTTTTAG-AAAA
*
4706956 GCGCCGCAAAA-TGTTAAAT
63 ACGCCGCAAAAGT-TTAAAT
4706975 ATATAGT
1 A-ATAGT
4706982 CCTTCTTTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
81 21 0.28
82 47 0.64
83 6 0.08
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (81 bp):
AATAGTGGCGTTTTTAGACAAACGCCACAATAGTAGCAATCAATAGTGGCATTTTTAGAAAAACG
CCGCAAAAGTTTAAAT
Found at i:4708526 original size:42 final size:42
Alignment explanation
Indices: 4708338--4708745 Score: 463
Period size: 41 Copynumber: 9.8 Consensus size: 42
4708328 TTTTTCCAAT
* * * * *
4708338 AAACGCCGCTATAG-GTACGTACTTTAGTGCCATTTT-TATAT
1 AAACGCCGCTATAGACT-CGTACTTTAGTGGCGTTTTGAATAC
* * *
4708379 AAACGCCGCTATAGAATCATACTTTAGTGGCGTTTT-TATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
4708420 AAACGCCGCTATATACTAGTACTTTAGTGGCGTTTCT--ATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTT-TGAATAC
* * * *
4708461 AAACGCCACTATATACTCATACTTTAGTGGCGTTTTGAATCC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
4708503 AAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * * *
4708545 AAACGCCGCTAAATACTCGTACTTTAGTAGCGTTTT-TATAT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * *
4708586 AAACGCCGCTATAGAGTAGTACTTTAGTGGCATTTT-TATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
*
4708627 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * *
4708669 AAACACCGCTATAGACTTGTACTTTTGTGGCGTTTTGAATAC
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
*
4708711 AAACGTCGCTA-ATGACTCGTACTTTAGTGGCGTTT
1 AAACGCCGCTATA-GACTCGTACTTTAGTGGCGTTT
4708746 GTATTTCCAA
Statistics
Matches: 318, Mismatches: 43, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
40 1 0.00
41 171 0.54
42 146 0.46
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (42 bp):
AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
Found at i:4708592 original size:166 final size:166
Alignment explanation
Indices: 4708355--4708745 Score: 543
Period size: 166 Copynumber: 2.4 Consensus size: 166
4708345 GCTATAGGTA
* * * * * * * *
4708355 CGTACTTTAGTGCCATTTT-TATATAAACGCCGCTATAGAATCATACTTTAGTGGCGTTTTTATA
1 CGTACTTTAGTGGCGTTTTGAATACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTATA
* * *
4708419 CAAACGCCGCTATATACTAGTACTTTAGTGGCGTTTCTATACAAACGCCACTATATACTCATACT
66 CAAACGCCGCTATAGACTAGTACTTTAGTGGCATTTCTATACAAACGCCACTATAGACTCATACT
*
4708484 TTAGTGGCGTTTTGAATCCAAACGCCGCTATAAACT
131 TTAGTGGCGTTTTGAATCCAAACACCGCTATAAACT
* *
4708520 CGTACTTTAGTGGCGTTTTGAATGCAAACGCCGCTAAATACTCGTACTTTAGTAGCGTTTTTATA
1 CGTACTTTAGTGGCGTTTTGAATACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTATA
* * * * *
4708585 TAAACGCCGCTATAGAGTAGTACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTCGTACT
66 CAAACGCCGCTATAGACTAGTACTTTAGTGGCATTTCTATACAAACGCCACTATAGACTCATACT
* *
4708650 TTAGTGGCGTTTTGAATGCAAACACCGCTATAGACT
131 TTAGTGGCGTTTTGAATCCAAACACCGCTATAAACT
* * *
4708686 TGTACTTTTGTGGCGTTTTGAATACAAACGTCGCT-AATGACTCGTACTTTAGTGGCGTTT
1 CGTACTTTAGTGGCGTTTTGAATACAAACGCCGCTAAAT-ACTCGTACTTTAGTGGCGTTT
4708746 GTATTTCCAA
Statistics
Matches: 198, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
165 20 0.10
166 178 0.90
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (166 bp):
CGTACTTTAGTGGCGTTTTGAATACAAACGCCGCTAAATACTCGTACTTTAGTGGCGTTTTTATA
CAAACGCCGCTATAGACTAGTACTTTAGTGGCATTTCTATACAAACGCCACTATAGACTCATACT
TTAGTGGCGTTTTGAATCCAAACACCGCTATAAACT
Found at i:4709076 original size:41 final size:42
Alignment explanation
Indices: 4709030--4709141 Score: 133
Period size: 41 Copynumber: 2.7 Consensus size: 42
4709020 CTATAGCGGC
*
4709030 ATTTTTCAACAAATGCCGCAATAGAGTAGTCATTTGCAGTG-
1 ATTTTTCAACAAATGCCGCAATAGAGTAGTCATCTGCAGTGA
* * *
4709071 -TTTTTTATACAAATGCCGCAATAGGGT--TCATCTGTAGTGA
1 ATTTTTCA-ACAAATGCCGCAATAGAGTAGTCATCTGCAGTGA
*
4709111 CATTTTTCAACAAACGCCGCAATAGAGTAGT
1 -ATTTTTCAACAAATGCCGCAATAGAGTAGT
4709142 ACTTTAGCGG
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
39 10 0.17
40 6 0.10
41 35 0.60
42 6 0.10
43 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (42 bp):
ATTTTTCAACAAATGCCGCAATAGAGTAGTCATCTGCAGTGA
Found at i:4709191 original size:82 final size:81
Alignment explanation
Indices: 4708968--4709216 Score: 270
Period size: 82 Copynumber: 3.0 Consensus size: 81
4708958 AATGAGGTGG
* *
4708968 ATAGAGTAGTACTTTAGCGGCGTTTTTAAATAAACGCCGTAATAGAGTTCATCTATAGCGGCATT
1 ATAGAGTAGTACTTTAGCGGCGTTTTTAAA-AAACGCCGCAATAGAGTTCATCTATAGTGGCATT
*
4709033 TTTCAACAAATGCCGCA
65 TTTCAACAAACGCCGCA
* * * * * * *
4709050 ATAGAGTAGT-CATTT-GCAGTGTTTTTTATACAAATGCCGCAATAGGGTTCATCTGTAGTGACA
1 ATAGAGTAGTAC-TTTAGCGGCG-TTTTTA-AAAAACGCCGCAATAGAGTTCATCTATAGTGGCA
4709113 TTTTTCAACAAACGCCGCA
63 TTTTTCAACAAACGCCGCA
* * * * *
4709132 ATAGAGTAGTACTTTAGCGGCGTTTATAGAAAAACGCCGCAATA-AATATAATCTTTAGTGGCGT
1 ATAGAGTAGTACTTTAGCGGCGTTTTTA-AAAAACGCCGCAATAGAGT-TCATCTATAGTGGC-A
4709196 TTGTTTCAACAAACGCCGCA
63 TT-TTTCAACAAACGCCGCA
4709216 A
1 A
4709217 CATAATTGTA
Statistics
Matches: 137, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
81 6 0.04
82 105 0.77
83 8 0.06
84 18 0.13
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (81 bp):
ATAGAGTAGTACTTTAGCGGCGTTTTTAAAAAACGCCGCAATAGAGTTCATCTATAGTGGCATTT
TTCAACAAACGCCGCA
Found at i:4712021 original size:48 final size:49
Alignment explanation
Indices: 4711966--4712067 Score: 197
Period size: 48 Copynumber: 2.1 Consensus size: 49
4711956 CCTTCAGTTT
4711966 AGAATATGTTCAAGCTTCCTATATACATATTCTTCAAAATAAAAATGC-
1 AGAATATGTTCAAGCTTCCTATATACATATTCTTCAAAATAAAAATGCA
4712014 AGAATATGTTCAAGCTTCCTATATACATATTCTTCAAAATAAAAATGCA
1 AGAATATGTTCAAGCTTCCTATATACATATTCTTCAAAATAAAAATGCA
4712063 AGAAT
1 AGAAT
4712068 TTCACTCTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 48 0.91
49 5 0.09
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (49 bp):
AGAATATGTTCAAGCTTCCTATATACATATTCTTCAAAATAAAAATGCA
Found at i:4715811 original size:21 final size:21
Alignment explanation
Indices: 4715793--4715874 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
4715783 ATGAAGCAAG
4715793 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
* *
4715814 AGAAGCA-ACCAGAGCAGCAGC
1 GGAAGCAGA-GAGAGCAGCAGC
* * *
4715835 GGAAGCAGAGAAAGAAGTAGC
1 GGAAGCAGAGAGAGCAGCAGC
* * *
4715856 GGTAGCACAGAGAGAAGCA
1 GGAAGCAGAGAGAGCAGCA
4715875 ACATATTAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.37, T:0.02
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:4716369 original size:43 final size:43
Alignment explanation
Indices: 4716312--4716705 Score: 370
Period size: 43 Copynumber: 9.2 Consensus size: 43
4716302 AAAATCAATG
* * * * *
4716312 CCTACTGCGACGTTTGTGAGAAAAACGCCGCAAAACATCAAAA
1 CCTATTGCGGCGTTTGTGAGAAAAACGCCGCTAAATATCAACA
* * * * * * *
4716355 CCTACTGCGGCGTTTGTG-GGAAAATGCCGCAAAACATTAAAA
1 CCTATTGCGGCGTTTGTGAGAAAAACGCCGCTAAATATCAACA
* * * *
4716397 CCTATTGCAGTGTTTGTG-GAAAAACGCCGCAAAACATCAACA
1 CCTATTGCGGCGTTTGTGAGAAAAACGCCGCTAAATATCAACA
* * *
4716439 CCTATTGCGGCGTTT-TAGATAAAAACGCCGCTAAACATCAAAA
1 CCTATTGCGGCGTTTGT-GAGAAAAACGCCGCTAAATATCAACA
* *
4716482 CCTATTGCGGCGTTTGTCTA-AAAAACGCCGCTAAATATTAACA
1 CCTATTGCGGCGTTTGT-GAGAAAAACGCCGCTAAATATCAACA
* * * * *
4716525 CCTATTACGGCATTT-TTATGACAAACGCCACTAAATATCAACA
1 CCTATTGCGGCGTTTGTGA-GAAAAACGCCGCTAAATATCAACA
* * * * *
4716568 CCTATTACGGCGTTTGTCAGAAAAACGCTGCTAAATATTAATA
1 CCTATTGCGGCGTTTGTGAGAAAAACGCCGCTAAATATCAACA
* * *
4716611 CATATTGCGGCGTTTGTCTA-AAAAACCCCGCTAAATATCAACA
1 CCTATTGCGGCGTTTGT-GAGAAAAACGCCGCTAAATATCAACA
* *
4716654 CCTATTGAGGCGTTTGTCTA-AAAAACGCCGCTAAATATCAACA
1 CCTATTGCGGCGTTTGT-GAGAAAAACGCCGCTAAATATCAACA
4716697 CCTATTGCG
1 CCTATTGCG
4716706 TTGTTTTTTG
Statistics
Matches: 300, Mismatches: 44, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
41 3 0.01
42 71 0.24
43 221 0.74
44 5 0.02
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
CCTATTGCGGCGTTTGTGAGAAAAACGCCGCTAAATATCAACA
Found at i:4716601 original size:129 final size:127
Alignment explanation
Indices: 4716322--4716702 Score: 419
Period size: 129 Copynumber: 3.0 Consensus size: 127
4716312 CCTACTGCGA
* * *** * *
4716322 CGTTTGTGAGAAAAACGCCGCAAAACATCAAAACCTACTGCGGCGTTTGT-GGGAAAATGCCGCA
1 CGTTTGT-AGAAAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTGTCTAAAAAACGCCGCT
* * * * * * *
4716386 AAACATTAAAACCTATT--GCAGTGTTTGTGGAAAAACGCCGCAAAACATCAACACCTATTGCGG
65 AAATATTAACACCTATTAGGCA-TTTTTAT-GAAAAACGCCGCTAAATATCAACACCTATTACGG
4716449 CGTTT-TAGATAAAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTGTCTAAAAAACGCCGC
1 CGTTTGTAG--AAAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTGTCTAAAAAACGCCGC
* *
4716513 TAAATATTAACACCTATTACGGCATTTTTATGACAAACGCCACTAAATATCAACACCTATTACGG
64 TAAATATTAACACCTATTA-GGCATTTTTATGAAAAACGCCGCTAAATATCAACACCTATTACGG
* * * * * *
4716578 CGTTTGTCAGAAAAACGCTGCTAAATATTAATACATATTGCGGCGTTTGTCTAAAAAACCCCGCT
1 CGTTTGT-AGAAAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTGTCTAAAAAACGCCGCT
* * * * *
4716643 AAATATCAACACCTATTGAGGCGTTTGTCTAAAAAACGCCGCTAAATATCAACACCTATT
65 AAATATTAACACCTATT-AGGCATTTTTATGAAAAACGCCGCTAAATATCAACACCTATT
4716703 GCGTTGTTTT
Statistics
Matches: 216, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
125 2 0.01
126 1 0.00
127 43 0.20
128 24 0.11
129 134 0.62
130 7 0.03
131 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (127 bp):
CGTTTGTAGAAAAACGCCGCTAAACATCAAAACCTATTGCGGCGTTTGTCTAAAAAACGCCGCTA
AATATTAACACCTATTAGGCATTTTTATGAAAAACGCCGCTAAATATCAACACCTATTACGG
Found at i:4719226 original size:29 final size:29
Alignment explanation
Indices: 4719192--4719250 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4719182 CCTAAATTAA
4719192 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
4719221 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
4719250 T
1 T
4719251 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:4723897 original size:29 final size:29
Alignment explanation
Indices: 4723864--4723922 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
4723854 CTAAATAAGT
4723864 TCACACCTAAATTA-ATTTGATGTCATTGC
1 TCACACC-AAATTAGATTTGATGTCATTGC
* * *
4723893 TCACATCAATTTAGTTTTGATGTCATTGC
1 TCACACCAAATTAGATTTGATGTCATTGC
4723922 T
1 T
4723923 TACATCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (29 bp):
TCACACCAAATTAGATTTGATGTCATTGC
Found at i:4723927 original size:29 final size:29
Alignment explanation
Indices: 4723879--4723937 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4723869 CCTAAATTAA
4723879 TTTGATGTCATTGCTCACATCAATTTAGT
1 TTTGATGTCATTGCTCACATCAATTTAGT
*
4723908 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTCACATCAATTTAGT
4723937 T
1 T
4723938 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTGATGTCATTGCTCACATCAATTTAGT
Found at i:4729846 original size:2 final size:2
Alignment explanation
Indices: 4729839--4729871 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4729829 AAAATATACA
4729839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4729872 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4745504 original size:61 final size:63
Alignment explanation
Indices: 4745376--4745506 Score: 142
Period size: 61 Copynumber: 2.1 Consensus size: 63
4745366 TAATATGACT
* ** * *
4745376 CTTAGGTAGGCCCTACGGCCCTGAGATCATTCTCGGGTAGGCCCTGTGGCCCTAATATGTGTT
1 CTTAGGTAGGCCCTACGGCCCCGAGATCATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGTC
** * * *
4745439 CTTAGGTAGGCCCTGTGGCCCCGA-A-CTTTCTTGGGTAGGCTCTCAGGCCCTAAGATGT-TCC
1 CTTAGGTAGGCCCTACGGCCCCGAGATCATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT-C
4745500 CTTAGGT
1 CTTAGGT
4745507 TAACTCTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
60 1 0.02
61 34 0.60
62 1 0.02
63 21 0.37
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (63 bp):
CTTAGGTAGGCCCTACGGCCCCGAGATCATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGTC
Found at i:4753284 original size:37 final size:36
Alignment explanation
Indices: 4753214--4753285 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
4753204 TGGAAAATAG
* *
4753214 TTATATATTTTCTTTAAAAATTTAAATTCATAAAAT
1 TTATATATTTTCTTTAAAAATTAAAAATCATAAAAT
*
4753250 TTATATAATTTTTTTTACAAAATTAAAAAT-ATAAAA
1 TTATAT-ATTTTCTTTA-AAAATTAAAAATCATAAAA
4753286 AGGTTTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 15 0.48
38 10 0.32
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
TTATATATTTTCTTTAAAAATTAAAAATCATAAAAT
Found at i:4753614 original size:20 final size:20
Alignment explanation
Indices: 4753589--4753626 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4753579 TGGTTCATGA
4753589 AATGTAAGATTACCAGTGGG
1 AATGTAAGATTACCAGTGGG
4753609 AATGTAAGATTACCAGTG
1 AATGTAAGATTACCAGTG
4753627 AATATGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
AATGTAAGATTACCAGTGGG
Found at i:4757189 original size:17 final size:18
Alignment explanation
Indices: 4757167--4757200 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4757157 TTCATTAATT
4757167 ATATAAAAA-TATTTAAG
1 ATATAAAAAGTATTTAAG
4757184 ATATAAAAAGTATTTAA
1 ATATAAAAAGTATTTAA
4757201 ATAAAGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATAAAAAGTATTTAAG
Found at i:4758361 original size:9 final size:9
Alignment explanation
Indices: 4758349--4758382 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4758339 TAATATTTTG
4758349 TATTTAATT
1 TATTTAATT
*
4758358 TATTTAA-G
1 TATTTAATT
4758366 TATTTAATT
1 TATTTAATT
4758375 TATTTAAT
1 TATTTAAT
4758383 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:4758388 original size:17 final size:17
Alignment explanation
Indices: 4758348--4758386 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4758338 TTAATATTTT
4758348 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
4758365 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
4758382 -TATTT
1 GTATTT
4758387 TACTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:4766748 original size:16 final size:16
Alignment explanation
Indices: 4766727--4766766 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4766717 AACTCGTCAC
*
4766727 CTCGAGGTGATGAGTT
1 CTCGAGGTGACGAGTT
4766743 CTCGAGGTGACGAGTT
1 CTCGAGGTGACGAGTT
*
4766759 CTCCAGGT
1 CTCGAGGT
4766767 TAATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (16 bp):
CTCGAGGTGACGAGTT
Found at i:4768213 original size:9 final size:9
Alignment explanation
Indices: 4768167--4768246 Score: 52
Period size: 10 Copynumber: 8.3 Consensus size: 9
4768157 GCTGCTGGAA
4768167 ACCGGTTTG
1 ACCGGTTTG
* *
4768176 ACCGCTTTTCA
1 ACCG-GTTT-G
*
4768187 ACTGGTTCTG
1 ACCGGTT-TG
*
4768197 AGCGGTTTG
1 ACCGGTTTG
*
4768206 ACCGGTTTTA
1 ACCGG-TTTG
*
4768216 ACCGGTTCG
1 ACCGGTTTG
4768225 AACCGGTTTG
1 -ACCGGTTTG
*
4768235 ACCGGTCTG
1 ACCGGTTTG
4768244 ACC
1 ACC
4768247 CGACCCGACC
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
9 23 0.43
10 26 0.49
11 4 0.08
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4768221 original size:19 final size:18
Alignment explanation
Indices: 4768199--4768246 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
4768189 TGGTTCTGAG
4768199 CGGTTTGACCGGTTTTAAC
1 CGGTTTGACCGG-TTTAAC
* *
4768218 CGGTTCGAACCGGTTTGAC
1 CGGTTTG-ACCGGTTTAAC
*
4768237 CGGTCTGACC
1 CGGTTTGACC
4768247 CGACCCGACC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (18 bp):
CGGTTTGACCGGTTTAAC
Found at i:4768232 original size:29 final size:31
Alignment explanation
Indices: 4768166--4768240 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
4768156 GGCTGCTGGA
* *
4768166 AACCGGTTTGACCGCTTTTCAACTGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
*
4768197 -AGCGGTTTGACCGGTTTT-AACCGGTTC-G
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
4768225 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
4768241 CTGACCCGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 22 0.56
30 16 0.41
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCTG
Found at i:4768269 original size:22 final size:22
Alignment explanation
Indices: 4768243--4768285 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4768233 TGACCGGTCT
4768243 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
4768265 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
4768286 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:4769242 original size:32 final size:31
Alignment explanation
Indices: 4769168--4769252 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
4769158 CTAATGTGAC
* *
4769168 TCTTAGGTAGGCTCTACGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATTAT
** * *
4769199 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-TAT
*
4769231 TCTTAGGTAGGCCCCACGGCCC
1 TCTTAGGTAGGCCCTACGGCCC
4769253 CGAAATCTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
31 23 0.53
32 20 0.47
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.26
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATTAT
Found at i:4769270 original size:63 final size:63
Alignment explanation
Indices: 4769168--4769291 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
4769158 CTAATGTGAC
* * * * *
4769168 TCTTAGGTAGGCTCTACGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGACCCTAAGATGTGT
* *
4769231 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGACCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGACCCTAAGATGT
4769292 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGACCCTAAGATGTGT
Found at i:4775494 original size:9 final size:9
Alignment explanation
Indices: 4775480--4775578 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
4775470 GCTGCTGGAA
4775480 ACCGGTTTG
1 ACCGGTTTG
*
4775489 ACCGGTTTTCA
1 ACCGG-TTT-G
4775500 ACCGGTTCTG
1 ACCGGTT-TG
4775510 ACCGGTTTG
1 ACCGGTTTG
*
4775519 ACCGGTTTCA
1 ACCGGTTT-G
*
4775529 ACCGGTTCG
1 ACCGGTTTG
4775538 AACCGGTTTG
1 -ACCGGTTTG
*
4775548 ACCGGTCTG
1 ACCGGTTTG
*
4775557 AATCGGTTTG
1 -ACCGGTTTG
*
4775567 ACCGGTCTG
1 ACCGGTTTG
4775576 ACC
1 ACC
4775579 CGACCCGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.47
11 6 0.08
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4775524 original size:19 final size:19
Alignment explanation
Indices: 4775480--4775578 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
4775470 GCTGCTGGAA
* *
4775480 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
4775500 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
4775519 ACCGGTTTCAACCGGTTC-G
1 ACCGGTTT-GACCGGTTCTG
4775538 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
*
4775557 AATCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
4775576 ACC
1 ACC
4775579 CGACCCGACC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.57
20 16 0.23
21 9 0.13
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:4775542 original size:29 final size:30
Alignment explanation
Indices: 4775479--4775578 Score: 127
Period size: 29 Copynumber: 3.4 Consensus size: 30
4775469 GGCTGCTGGA
4775479 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
4775510 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
4775538 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
4775567 -ACCGGTCTGACC
1 AACCGGTTTGACC
4775579 CGACCCGACC
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.59
30 14 0.22
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:4775596 original size:17 final size:17
Alignment explanation
Indices: 4775574--4775634 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
4775564 TTGACCGGTC
4775574 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
4775591 TGACCCGACCTGACCCGACCGT
1 TGA--C--CC-GACCCGACCGT
4775613 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
4775630 TGACC
1 TGACC
4775635 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 19 0.49
18 2 0.05
19 1 0.03
20 1 0.03
21 2 0.05
22 14 0.36
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:4775605 original size:22 final size:22
Alignment explanation
Indices: 4775575--4775641 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
4775565 TGACCGGTCT
4775575 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
4775597 GACCTGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
4775619 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
4775642 GTTGACTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 29 0.73
24 11 0.28
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:4775634 original size:12 final size:12
Alignment explanation
Indices: 4775580--4775622 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
4775570 GGTCTGACCC
4775580 GACCCGACCGTT
1 GACCCGACCGTT
4775592 GACCCGACC--T
1 GACCCGACCGTT
4775602 GACCCGACCGTT
1 GACCCGACCGTT
4775614 GACCCGACC
1 GACCCGACC
4775623 CGACCGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.34
12 19 0.66
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.12
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:4776601 original size:32 final size:31
Alignment explanation
Indices: 4776517--4776593 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
4776507 CTAATGTGAC
* *
4776517 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
4776548 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
4776580 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
4776594 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:4776619 original size:63 final size:63
Alignment explanation
Indices: 4776517--4776640 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
4776507 CTAATGTGAC
* ** * * *
4776517 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGACCCTAAGATGTGT
* *
4776580 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGACCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGACCCTAAGATGT
4776641 TCCCTTAGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.94
64 2 0.04
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGACCCTAAGATGTGT
Found at i:4780045 original size:31 final size:31
Alignment explanation
Indices: 4780007--4780120 Score: 185
Period size: 31 Copynumber: 3.7 Consensus size: 31
4779997 AGAGTCGAGG
4780007 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4780038 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4780069 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
4780100 GCTTACCTA-GATTCTTCGGGA
1 GTTTACCTATG-TTCTTCGGGA
4780121 TCTATAGACT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
30 1 0.01
31 76 0.99
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:4780084 original size:62 final size:62
Alignment explanation
Indices: 4780008--4780130 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
4779998 GAGTCGAGGG
*
4780008 TTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATG-TTCTTCGGGA-CATATAGACTA
1 TTTACCTATGTTCTTCGGGACATATGGACTGCTTACCTA-GATTCTTCGGGATC-TATAGACTA
4780070 TTTACCTATGTTCTTCGGGACATATGGACTGCTTACCTAGATTCTTCGGGATCTATAGACT
1 TTTACCTATGTTCTTCGGGACATATGGACTGCTTACCTAGATTCTTCGGGATCTATAGACT
4780131 GGTTCTTCGG
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
61 1 0.02
62 56 0.97
63 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (62 bp):
TTTACCTATGTTCTTCGGGACATATGGACTGCTTACCTAGATTCTTCGGGATCTATAGACTA
Found at i:4780757 original size:31 final size:31
Alignment explanation
Indices: 4780666--4780757 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
4780656 AGTCGAGGGT
* *
4780666 TTACCTATGTTCTTCGGGACATATAAACTGT
1 TTACCTATGTTCTTCGGGACATATAGACTGA
*
4780697 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATAGACTGA
4780728 TTACCTA-GATTCTTCGGGATC-TATAGACTG
1 TTACCTATG-TTCTTCGGGA-CATATAGACTG
4780758 GTTCTTCGGG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.02
31 53 0.96
32 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATAGACTGA
Found at i:4781560 original size:20 final size:20
Alignment explanation
Indices: 4781535--4781575 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4781525 AAGAGACGTA
4781535 ACCATCTATTCTTCACAAAC
1 ACCATCTATTCTTCACAAAC
4781555 ACCATCTATTCTTCACAAAC
1 ACCATCTATTCTTCACAAAC
4781575 A
1 A
4781576 TTGCATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (20 bp):
ACCATCTATTCTTCACAAAC
Found at i:4788239 original size:2 final size:2
Alignment explanation
Indices: 4788232--4788311 Score: 115
Period size: 2 Copynumber: 39.5 Consensus size: 2
4788222 TGCTATAACA
* * *
4788232 AT AT AT AT AC AT AT AT AC AT AT AT AC 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
*
4788274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
4788312 GTTTCCTTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 67 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4789579 original size:17 final size:18
Alignment explanation
Indices: 4789547--4789583 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4789537 CCGAACCCGA
4789547 CCCAAACCCATCCCTAAT
1 CCCAAACCCATCCCTAAT
*
4789565 CCCAAGCCC-TCCCTAAT
1 CCCAAACCCATCCCTAAT
4789582 CC
1 CC
4789584 TATCATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.27, C:0.54, G:0.03, T:0.16
Consensus pattern (18 bp):
CCCAAACCCATCCCTAAT
Found at i:4790881 original size:2 final size:2
Alignment explanation
Indices: 4790870--4790904 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4790860 ATGTTTCAAT
4790870 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4790905 AATTTGATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4791911 original size:12 final size:12
Alignment explanation
Indices: 4791894--4791924 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4791884 CATTGGCATG
4791894 TTTAAATTCAAA
1 TTTAAATTCAAA
4791906 TTTAAATTCAAA
1 TTTAAATTCAAA
4791918 TTTAAAT
1 TTTAAAT
4791925 AATAATAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAATTCAAA
Found at i:4792455 original size:17 final size:16
Alignment explanation
Indices: 4792422--4792470 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
4792412 TTTATAAAAT
*
4792422 TTAAAAAAAAATT-AA
1 TTAAAAAAAATTTAAA
4792437 TTAAAAAAATATTTAAA
1 TTAAAAAAA-ATTTAAA
*
4792454 TTATATAAAAATTTAAA
1 TTA-AAAAAAATTTAAA
4792471 ATTTTCAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 9 0.31
16 3 0.10
17 12 0.41
18 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAAAAATTTAAA
Found at i:4799263 original size:12 final size:12
Alignment explanation
Indices: 4799246--4799270 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4799236 TAGAGTTGAT
4799246 AAGTTAAATTTG
1 AAGTTAAATTTG
4799258 AAGTTAAATTTG
1 AAGTTAAATTTG
4799270 A
1 A
4799271 CTTTTCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AAGTTAAATTTG
Found at i:4800334 original size:32 final size:31
Alignment explanation
Indices: 4800293--4800399 Score: 110
Period size: 31 Copynumber: 3.4 Consensus size: 31
4800283 AGTCGAGGGT
*
4800293 TTACCTATGTTCTAAGGAACATATGGACAGAA
1 TTACCTATGTTCTAAAGAACATATGGACAG-A
***
4800325 TTACCTATG-TCTTTCGAGACATATGGACAG-
1 TTACCTATGTTCTAAAGA-ACATATGGACAGA
* *
4800355 TATACATATGTTCTAAAGAACATATGGACAGT
1 T-TACCTATGTTCTAAAGAACATATGGACAGA
*
4800387 TTACCTAGGTTCT
1 TTACCTATGTTCT
4800400 TCGGGACCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
30 1 0.02
31 34 0.55
32 27 0.44
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (31 bp):
TTACCTATGTTCTAAAGAACATATGGACAGA
Found at i:4807472 original size:20 final size:21
Alignment explanation
Indices: 4807426--4807486 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
4807416 TTCCCCTGTG
4807426 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
4807449 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
4807469 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
4807487 TGCACCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:4813243 original size:21 final size:21
Alignment explanation
Indices: 4813219--4813258 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4813209 TATACAAGGA
4813219 GGAATCGGTACCCCCTGAGGG
1 GGAATCGGTACCCCCTGAGGG
* *
4813240 GGAATCGGTTCCCTCTGAG
1 GGAATCGGTACCCCCTGAG
4813259 CATACTGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (21 bp):
GGAATCGGTACCCCCTGAGGG
Found at i:4814911 original size:31 final size:31
Alignment explanation
Indices: 4814873--4814931 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4814863 GAGTCGAGGG
*
4814873 TTTACCTATGTTCTACGGAACATATGGACAA
1 TTTACCTAGGTTCTACGGAACATATGGACAA
* * *
4814904 TTTACCTAGGTTCTTCGGGACCTATGGA
1 TTTACCTAGGTTCTACGGAACATATGGA
4814932 TAGTTGCCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (31 bp):
TTTACCTAGGTTCTACGGAACATATGGACAA
Found at i:4816036 original size:21 final size:21
Alignment explanation
Indices: 4816010--4816121 Score: 68
Period size: 21 Copynumber: 5.3 Consensus size: 21
4816000 AGCAGAAAAT
*
4816010 GAAGCAAGGGAAGTAGAGAGA
1 GAAGCAAGGGAAGCAGAGAGA
* * **
4816031 GCAGC-AGTAGAAGCAGCCAGA
1 GAAGCAAG-GGAAGCAGAGAGA
*
4816052 GCAA-CAATGGAAGCAGAGAGA
1 G-AAGCAAGGGAAGCAGAGAGA
* * * *
4816073 GAAGCAACGGTAGTACAGAGA
1 GAAGCAAGGGAAGCAGAGAGA
* *
4816094 GAAGC-AGCGGCAGCACAGAGA
1 GAAGCAAG-GGAAGCAGAGAGA
4816115 GAAGCAA
1 GAAGCAA
4816122 CATATCAGCA
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
20 5 0.07
21 60 0.88
22 3 0.04
ACGTcount: A:0.44, C:0.16, G:0.36, T:0.04
Consensus pattern (21 bp):
GAAGCAAGGGAAGCAGAGAGA
Found at i:4816633 original size:43 final size:43
Alignment explanation
Indices: 4816546--4816746 Score: 215
Period size: 43 Copynumber: 4.7 Consensus size: 43
4816536 TTTGTATCCT
* * * * * ** *
4816546 AAAAATGCCGCGAAATATCAATACATATTGTGGCATTTTCGAG
1 AAAAATGCCGCTAAATCTCAACACTTATTGCGGTGTTTTTGAG
**
4816589 AAAAACACCGCTAAATCTCAACACTTATTGCGGTGTTTTTGAG
1 AAAAATGCCGCTAAATCTCAACACTTATTGCGGTGTTTTTGAG
* * * *
4816632 AAAAATGCCGCTAAATCTCAATACTTATTGCGGAGTTTGTGAT
1 AAAAATGCCGCTAAATCTCAACACTTATTGCGGTGTTTTTGAG
* * *
4816675 AAAAATGCCGCTAAATCTCAACACCTATTGCGGTGTTTATGGG
1 AAAAATGCCGCTAAATCTCAACACTTATTGCGGTGTTTTTGAG
* *
4816718 AAAAATGTCGCTAAA-CATCAACACCTATT
1 AAAAATGCCGCTAAATC-TCAACACTTATT
4816747 ACGACAAACG
Statistics
Matches: 134, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
42 1 0.01
43 133 0.99
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (43 bp):
AAAAATGCCGCTAAATCTCAACACTTATTGCGGTGTTTTTGAG
Found at i:4816691 original size:86 final size:86
Alignment explanation
Indices: 4816546--4816738 Score: 246
Period size: 86 Copynumber: 2.2 Consensus size: 86
4816536 TTTGTATCCT
* *
4816546 AAAAATGCCGCGAAATATCAATACATATTGTGGCATTTTCGAGAAAAACACCGCTAAATCTCAAC
1 AAAAATGCCGCTAAATATCAATACATATTGCGGCATTTTCGAGAAAAACACCGCTAAATCTCAAC
* *
4816611 ACTTATTGCGGTGTTTTTGAG
66 ACCTATTGCGGTGTTTATGAG
* * * **
4816632 AAAAATGCCGCTAAATCTCAATACTTATTGCGG-AGTTTGT-GATAAAAATGCCGCTAAATCTCA
1 AAAAATGCCGCTAAATATCAATACATATTGCGGCA-TTT-TCGAGAAAAACACCGCTAAATCTCA
*
4816695 ACACCTATTGCGGTGTTTATGGG
64 ACACCTATTGCGGTGTTTATGAG
* *
4816718 AAAAATGTCGCTAAACATCAA
1 AAAAATGCCGCTAAATATCAA
4816739 CACCTATTAC
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 90 0.98
87 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (86 bp):
AAAAATGCCGCTAAATATCAATACATATTGCGGCATTTTCGAGAAAAACACCGCTAAATCTCAAC
ACCTATTGCGGTGTTTATGAG
Found at i:4819098 original size:18 final size:19
Alignment explanation
Indices: 4819072--4819112 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4819062 GGAAAAAGCA
*
4819072 GAAATAGAATCAT-AAAAG
1 GAAAAAGAATCATGAAAAG
*
4819090 GAAAAAGAATGATGAAAAG
1 GAAAAAGAATCATGAAAAG
4819109 GAAA
1 GAAA
4819113 CTAATCTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.63, C:0.02, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAAAAGAATCATGAAAAG
Found at i:4822632 original size:245 final size:243
Alignment explanation
Indices: 4822204--4822677 Score: 840
Period size: 245 Copynumber: 1.9 Consensus size: 243
4822194 TAAATACATA
4822204 TATAGATAAAATGATGGCATAATATTGATTATGTTTAATATTTCTTAATTTAAAGAAATTTATTG
1 TATAGATAAAATGATGGCATAATATTGATTATGTTTAATATTTCTTAATTTAAAGAAATTTATTG
**
4822269 TTATAAAAATATATATTTTAAATATTTGCCAAGAGTTAAAAAAGTAGTAATAGTTTATAGGTTAA
66 TTATAAAAATATATATTTTAAATATTTGCCAAGAGTTAAAAAAGTAGTAATAACTTATAGGTTAA
* *
4822334 AATATATAGATGATCCCTCAATTATAGAGTGTTGTTTTGTTGAGTCACTTACTATTAAAAATAAC
131 AATATATAGATGATCCCTCAATTATAGAGTATTGTTTTATTGAGTCACTTACTATTAAAAATAAC
*
4822399 AAAATGATTATTTGATGTAAGATGTTACTTTGTTTAAAATATTATTTT
196 AAAATGATTATTTGATGTAAGATATTACTTTGTTTAAAATATTATTTT
*
4822447 TATAGATAAAATGATGGCATAATATTGATTATGTTTAATATTTCTTAATTTAAAGAAATTTATTT
1 TATAGATAAAATGATGGCATAATATTGATTATGTTTAATATTTCTTAATTTAAAGAAATTTATTG
* * * *
4822512 TTATAAAAAAATATTTTTTTTTAATATTTGCCGAGAGTTAAAAAAGTAGTAATAACTTATAGGTT
66 TTAT--AAAAATATATATTTTAAATATTTGCCAAGAGTTAAAAAAGTAGTAATAACTTATAGGTT
4822577 AAAATATATAGATGATCCCTCAATTATAGAGTATTGTTTTATTGAGTCACTTACTATTAAAAATA
129 AAAATATATAGATGATCCCTCAATTATAGAGTATTGTTTTATTGAGTCACTTACTATTAAAAATA
4822642 ACAAAATGATTATTTGATGTAAGATATTACTTTGTT
194 ACAAAATGATTATTTGATGTAAGATATTACTTTGTT
4822678 CAGCCACCTG
Statistics
Matches: 219, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
243 68 0.31
245 151 0.69
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (243 bp):
TATAGATAAAATGATGGCATAATATTGATTATGTTTAATATTTCTTAATTTAAAGAAATTTATTG
TTATAAAAATATATATTTTAAATATTTGCCAAGAGTTAAAAAAGTAGTAATAACTTATAGGTTAA
AATATATAGATGATCCCTCAATTATAGAGTATTGTTTTATTGAGTCACTTACTATTAAAAATAAC
AAAATGATTATTTGATGTAAGATATTACTTTGTTTAAAATATTATTTT
Found at i:4823144 original size:170 final size:170
Alignment explanation
Indices: 4822862--4823205 Score: 670
Period size: 170 Copynumber: 2.0 Consensus size: 170
4822852 TCGTTTATAT
4822862 TATGTTGTCGAGCCGGCGCTTAAAATATTATATTGTCAAGTCAGTGCTTCAAAGCATCGACGATA
1 TATGTTGTCGAGCCGGCGCTTAAAATATTATATTGTCAAGTCAGTGCTTCAAAGCATCGACGATA
4822927 TTAGTAGACATTACTAAAATATGATTTTATCATATCATAATCAACAAGTTAACATCAAACTCAGT
66 TTAGTAGACATTACTAAAATATGATTTTATCATATCATAATCAACAAGTTAACATCAAACTCAGT
4822992 CGACCGTCAATTTTTAACGAAAAATGATGAGTATAAAATA
131 CGACCGTCAATTTTTAACGAAAAATGATGAGTATAAAATA
4823032 TATGTTGTCGAGCCGGCGCTTAAAATATTATATTGTCAAGTCAGTGCTTCAAAGCATCGACGATA
1 TATGTTGTCGAGCCGGCGCTTAAAATATTATATTGTCAAGTCAGTGCTTCAAAGCATCGACGATA
* *
4823097 TTAGTATACATTACTAAAATATGATTTTATCATATCCTAATCAACAAGTTAACATCAAACTCAGT
66 TTAGTAGACATTACTAAAATATGATTTTATCATATCATAATCAACAAGTTAACATCAAACTCAGT
4823162 CGACCGTCAATTTTTAACGAAAAATGATGAGTATAAAATA
131 CGACCGTCAATTTTTAACGAAAAATGATGAGTATAAAATA
4823202 TATG
1 TATG
4823206 AATAGTCGAG
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 172 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (170 bp):
TATGTTGTCGAGCCGGCGCTTAAAATATTATATTGTCAAGTCAGTGCTTCAAAGCATCGACGATA
TTAGTAGACATTACTAAAATATGATTTTATCATATCATAATCAACAAGTTAACATCAAACTCAGT
CGACCGTCAATTTTTAACGAAAAATGATGAGTATAAAATA
Found at i:4825335 original size:2 final size:2
Alignment explanation
Indices: 4825328--4825358 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4825318 CCAAGTAAGT
4825328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4825359 CGATGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4827551 original size:15 final size:14
Alignment explanation
Indices: 4827531--4827561 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4827521 ATATCACCTC
4827531 GGCCTGTGTATCATG
1 GGCCTGTGTATC-TG
4827546 GGCCTGTGTATCTG
1 GGCCTGTGTATCTG
4827560 GG
1 GG
4827562 TCTCTCAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.10, C:0.19, G:0.39, T:0.32
Consensus pattern (14 bp):
GGCCTGTGTATCTG
Found at i:4831389 original size:226 final size:229
Alignment explanation
Indices: 4830994--4831450 Score: 893
Period size: 226 Copynumber: 2.0 Consensus size: 229
4830984 ATGGTTGAGA
4830994 TCGAAAAGAAAGTTTATGAGCTTGAAAGGGTCTTAAATGAGGGAAGCATTGGCATCCAAACACCT
1 TCGAAAAGAAAGTTTATGAGCTTGAAAGGGTCTTAAATGAGGGAAGCATTGGCATCCAAACACCT
4831059 TGAGCTCATCATAGTTTGGCTTCTTCCCAAATAGCTTTTCACTAAGGGAGAGCCCTTGCAAAACC
66 TGAGCTCATCATAGTTTGGCTTCTTCCCAAATAGCTTTTCACTAAGGGAGAGCCCTTGCAAAACC
4831124 TTAGTAGGCAGTTTGTTTATTAACTGAGCAGCAGAAATAATTGCATATGACCAAAA-TTCAGTGG
131 TTAGTAGGCAGTTTGTTTATTAACTGAGCAGCAGAAATAATTGCATATGACCAAAACTTCAGTGG
4831188 TAGTGCTGCCTGTGCCAGTAATACAAGAGCC-TC
196 TAGTGCTGCCTGTGCCAGTAATACAAGAGCCATC
4831221 TCGAAAAGAAAGTTTATGAGCTTGAAAGGGTCTTAAATG-GGGAAGCATTGGCATCCAAACACCT
1 TCGAAAAGAAAGTTTATGAGCTTGAAAGGGTCTTAAATGAGGGAAGCATTGGCATCCAAACACCT
4831285 TGAGCTCATCATAGTTTGGCTTCTTCCCAAATAGCTTTTCACTAAGGGAGAGCCCTTGCAAAACC
66 TGAGCTCATCATAGTTTGGCTTCTTCCCAAATAGCTTTTCACTAAGGGAGAGCCCTTGCAAAACC
4831350 TTAGTAGGCAGTTTGTTTATTAACTGAGCAGCAGAAATAATTGCATATGACCAAAACTTCAGTGG
131 TTAGTAGGCAGTTTGTTTATTAACTGAGCAGCAGAAATAATTGCATATGACCAAAACTTCAGTGG
4831415 TAGTGCTGCCTGTGCCAGTAATACAAGAGCCATC
196 TAGTGCTGCCTGTGCCAGTAATACAAGAGCCATC
4831449 TC
1 TC
4831451 AACCAAATGC
Statistics
Matches: 228, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
226 146 0.64
227 78 0.34
228 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (229 bp):
TCGAAAAGAAAGTTTATGAGCTTGAAAGGGTCTTAAATGAGGGAAGCATTGGCATCCAAACACCT
TGAGCTCATCATAGTTTGGCTTCTTCCCAAATAGCTTTTCACTAAGGGAGAGCCCTTGCAAAACC
TTAGTAGGCAGTTTGTTTATTAACTGAGCAGCAGAAATAATTGCATATGACCAAAACTTCAGTGG
TAGTGCTGCCTGTGCCAGTAATACAAGAGCCATC
Done.