Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 73
Found at i:6679978 original size:15 final size:16
Alignment explanation
Indices: 6679960--6679992 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6679950 AGAAAAAAAG
6679960 AAAAAATGAGAGA-TA
1 AAAAAATGAGAGACTA
*
6679975 AAAAAATGTGAGACTA
1 AAAAAATGAGAGACTA
6679991 AA
1 AA
6679993 GACTTTGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.15
Consensus pattern (16 bp):
AAAAAATGAGAGACTA
Found at i:6683859 original size:45 final size:45
Alignment explanation
Indices: 6683795--6684212 Score: 685
Period size: 45 Copynumber: 9.3 Consensus size: 45
6683785 TTTATTGGTT
*
6683795 AATAAATGGTAAGTATATTGTTAAAATAAGCTTACGAGCTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
**
6683840 AATAAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
**
6683885 AATAAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
** * *
6683930 AATAAATGACAAATATATTGGTAAAAGAAGCTTACGAGCTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
6683975 AATAAATGGTAAGTATATTGGTAAAATAACCTTACGAGCTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
* *
6684020 AATAAATGGTAAGTATATTGGTAAAATAAGATTACGAGGTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
6684065 AATAAATGGTTAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
6684110 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
*
6684155 AATAAATGGTAAGTATATTGGTAAAATAAGCTTATGAGCTTATAGG
1 AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT-GG
*
6684201 -ATAAATGATAAG
1 AATAAATGGTAAG
6684213 AAATTTATAT
Statistics
Matches: 353, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 351 0.99
46 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.31
Consensus pattern (45 bp):
AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
Found at i:6683867 original size:24 final size:24
Alignment explanation
Indices: 6683840--6683913 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
6683830 GAGCTTATGG
6683840 AATAAATGACAAGTATATTGGTAA
1 AATAAATGACAAGTATATTGGTAA
* * *
6683864 AATAAGCTTACGAGCT-TA-TGG---
1 AATAA-ATGACAAG-TATATTGGTAA
6683885 AATAAATGACAAGTATATTGGTAA
1 AATAAATGACAAGTATATTGGTAA
6683909 AATAA
1 AATAA
6683914 GCTTACGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 1 0.03
20 7 0.19
21 8 0.22
24 13 0.35
25 7 0.19
26 1 0.03
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (24 bp):
AATAAATGACAAGTATATTGGTAA
Found at i:6684644 original size:12 final size:12
Alignment explanation
Indices: 6684624--6684662 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6684614 ATTGTTGAAA
*
6684624 TTACTGTAGCAG
1 TTACTGTAGAAG
*
6684636 TTACCGTAGAAG
1 TTACTGTAGAAG
*
6684648 TTACTGTAGTAG
1 TTACTGTAGAAG
6684660 TTA
1 TTA
6684663 ACAGTAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TTACTGTAGAAG
Found at i:6690329 original size:33 final size:32
Alignment explanation
Indices: 6690244--6690339 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 32
6690234 TATTTTTTTT
*
6690244 AAAAACAATCCCACATGGCTAAGAAACATAG-
1 AAAAACAATCCCACATAGCTAAGAAACATAGA
* * *
6690275 AAGAGC-ATCCCA-AAAGTCTAAGAAACATAGA
1 AAAAACAATCCCACATAG-CTAAGAAACATAGA
*
6690306 ACAAAACAATCCCACATTGCTAAGAAACATAGA
1 A-AAAACAATCCCACATAGCTAAGAAACATAGA
6690339 A
1 A
6690340 GAGCATCACA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
29 2 0.04
30 19 0.37
31 5 0.10
32 3 0.06
33 21 0.40
34 2 0.04
ACGTcount: A:0.52, C:0.22, G:0.12, T:0.14
Consensus pattern (32 bp):
AAAAACAATCCCACATAGCTAAGAAACATAGA
Found at i:6691529 original size:20 final size:20
Alignment explanation
Indices: 6691504--6691556 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
6691494 GACCAACAAA
6691504 TTCGCAACGCGAACTCCAAT
1 TTCGCAACGCGAACTCCAAT
* **
6691524 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ACTCCAAT
6691544 TTCGCAACGCGAA
1 TTCGCAACGCGAA
6691557 TATGTAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCGAACTCCAAT
Found at i:6691786 original size:14 final size:15
Alignment explanation
Indices: 6691767--6691804 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6691757 TCCCCATCTC
6691767 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
6691781 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
6691797 TAATTTTT
1 TAATTTTT
6691805 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:6692379 original size:12 final size:12
Alignment explanation
Indices: 6692358--6692391 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6692348 ACCACATTTC
*
6692358 CAATACCAAACA
1 CAATATCAAACA
6692370 CAATATCAAACA
1 CAATATCAAACA
*
6692382 CAATCTCAAA
1 CAATATCAAA
6692392 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:6694845 original size:18 final size:18
Alignment explanation
Indices: 6694822--6694858 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6694812 CAAGCAAAAG
* *
6694822 AAAATCAAATTCGCAATC
1 AAAATCAAAATCCCAATC
6694840 AAAATCAAAATCCCAATC
1 AAAATCAAAATCCCAATC
6694858 A
1 A
6694859 CAACCGACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.24, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAATCAAAATCCCAATC
Found at i:6695224 original size:20 final size:20
Alignment explanation
Indices: 6695182--6695226 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6695172 TCGCAAACCA
*
6695182 AATTTGACTTTCACGTTGCG
1 AATTTGACTTTCACGTTACG
* *
6695202 AATTTGACTTTCGCGTTATG
1 AATTTGACTTTCACGTTACG
6695222 AATTT
1 AATTT
6695227 TACTATCGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (20 bp):
AATTTGACTTTCACGTTACG
Found at i:6695269 original size:20 final size:19
Alignment explanation
Indices: 6695244--6695313 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
6695234 GCAACGCTTA
6695244 TTTCGCGTTGCGAATTTACC
1 TTTCGCGTTGCGAATTTA-C
*
6695264 TTTCGCGTTACGAATTTTAC
1 TTTCGCGTTGCGAA-TTTAC
* *
6695284 TTTCGCATTGCAAATTTGAC
1 TTTCGCGTTGCGAATTT-AC
*
6695304 TATCGCGTTG
1 TTTCGCGTTG
6695314 TACATTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.07
20 35 0.83
21 4 0.10
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGCGAATTTAC
Found at i:6695741 original size:24 final size:25
Alignment explanation
Indices: 6695714--6695768 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
6695704 TTTCAAATTC
* *
6695714 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTAGAGTTTGA
*
6695738 ATTT-AAATTTCAATTAGAGTTTGA
1 ATTTCAAATGTCAATTAGAGTTTGA
6695762 ATTTCAA
1 ATTTCAA
6695769 TATAAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 20 0.77
25 2 0.08
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTTCAAATGTCAATTAGAGTTTGA
Found at i:6695776 original size:24 final size:24
Alignment explanation
Indices: 6695725--6695776 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6695715 TTTCATATGT
* * *
6695725 AATTGGAGTTTGAATTTAAATTTC
1 AATTAGAGTTTGAATTTAAATATA
*
6695749 AATTAGAGTTTGAATTTCAATATA
1 AATTAGAGTTTGAATTTAAATATA
6695773 AATT
1 AATT
6695777 TCGGCTCCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (24 bp):
AATTAGAGTTTGAATTTAAATATA
Found at i:6696123 original size:39 final size:39
Alignment explanation
Indices: 6696080--6696166 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
6696070 TCTGATGCTC
6696080 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
6696119 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
6696158 ATCAAAATC
1 ATCAAAATC
6696167 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:6698065 original size:21 final size:21
Alignment explanation
Indices: 6698041--6698133 Score: 91
Period size: 21 Copynumber: 4.4 Consensus size: 21
6698031 GCGGGCGGGA
*
6698041 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
6698062 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
6698083 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
**
6698104 CCTCTTGAACGAT-AGGAGACG
1 CCTCTTGAACGATGA-GAGGGG
6698125 CCTCTTGAA
1 CCTCTTGAA
6698134 TAATGATAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.03
21 55 0.95
22 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:6698573 original size:21 final size:21
Alignment explanation
Indices: 6698501--6698596 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
6698491 AAAAATCCAC
* *
6698501 CTCACCACGTAAAG-ATCAAA
1 CTCATCACGTAAAGCACCAAA
** *
6698521 CCTCATCACGCCATGCACCAATA
1 -CTCATCACGTAAAGCACCAA-A
* *
6698544 -TCTTCACGTAAAGTACCAAA
1 CTCATCACGTAAAGCACCAAA
* * *
6698564 CTCATGACGTAAAGCACCGAC
1 CTCATCACGTAAAGCACCAAA
6698585 CTCATCACGTAA
1 CTCATCACGTAA
6698597 TTTCCCTAAC
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
20 1 0.02
21 50 0.89
22 4 0.07
23 1 0.02
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.19
Consensus pattern (21 bp):
CTCATCACGTAAAGCACCAAA
Found at i:6700748 original size:20 final size:20
Alignment explanation
Indices: 6700723--6700803 Score: 112
Period size: 20 Copynumber: 4.1 Consensus size: 20
6700713 GCGTAAAAAC
6700723 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
6700743 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
6700763 ATTTGACTTT-GTGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
6700782 ATTTAAC-TTCTGCGTTGCGA
1 ATTTGACTTTC-GCGTTGCGA
6700802 AT
1 AT
6700804 ATGGAAAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
20 38 0.70
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:6700784 original size:39 final size:40
Alignment explanation
Indices: 6700723--6700803 Score: 121
Period size: 39 Copynumber: 2.0 Consensus size: 40
6700713 GCGTAAAAAC
*
6700723 ATTTGACTTTCGCGTTGCGAATTTGACTATC-GCGTTGCGA
1 ATTTGACTTTCGCGTTGCGAATTTAACT-TCTGCGTTGCGA
*
6700763 ATTTGACTTT-GTGTTGCGAATTTAACTTCTGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGAATTTAACTTCTGCGTTGCGA
6700802 AT
1 AT
6700804 ATGGAAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.05
39 26 0.68
40 10 0.26
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (40 bp):
ATTTGACTTTCGCGTTGCGAATTTAACTTCTGCGTTGCGA
Found at i:6700824 original size:21 final size:21
Alignment explanation
Indices: 6700798--6700843 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6700788 CTTCTGCGTT
6700798 GCGAATATGGAAAATCGCAAC
1 GCGAATATGGAAAATCGCAAC
* *
6700819 GCGAATTTGGAAAATCGCAAT
1 GCGAATATGGAAAATCGCAAC
6700840 GCGA
1 GCGA
6700844 TTTACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATATGGAAAATCGCAAC
Found at i:6701011 original size:15 final size:16
Alignment explanation
Indices: 6700991--6701021 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6700981 TTTTCTCTTA
6700991 TTTGAATTCC-TAAAG
1 TTTGAATTCCTTAAAG
6701006 TTTGAATTCCTTAAAG
1 TTTGAATTCCTTAAAG
6701022 AATGGTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
TTTGAATTCCTTAAAG
Found at i:6708465 original size:17 final size:17
Alignment explanation
Indices: 6708443--6708478 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6708433 GTTTGATATA
6708443 ATTAGAATAATATATTT
1 ATTAGAATAATATATTT
*
6708460 ATTAGAATTATATATTT
1 ATTAGAATAATATATTT
6708477 AT
1 AT
6708479 GTTTCAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTAGAATAATATATTT
Found at i:6709099 original size:42 final size:42
Alignment explanation
Indices: 6709053--6709155 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
6709043 TGCCCAACCT
* * * *
6709053 ACCAGTTCAGATGCCATCTCTGTAAGGGTATA-TGCCTAGCCC
1 ACCAGTTCATATGCCATCTCCGTAAGGGTATACGGCC-AGACC
* * *
6709095 ACCAGTTGATATGTCATCTCCGTAGGGGTATACGGCCAGACC
1 ACCAGTTCATATGCCATCTCCGTAAGGGTATACGGCCAGACC
6709137 ACCAGTTCATATGCCATCT
1 ACCAGTTCATATGCCATCT
6709156 TCGCAGGGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (42 bp):
ACCAGTTCATATGCCATCTCCGTAAGGGTATACGGCCAGACC
Found at i:6709228 original size:21 final size:21
Alignment explanation
Indices: 6709159--6709228 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
6709149 GCCATCTTCG
* *
6709159 CAGGGATACATTCCTAGCCCA
1 CAGGGTTACATACCTAGCCCA
* * * *
6709180 CAGGGGTACATACCCAACCCG
1 CAGGGTTACATACCTAGCCCA
* *
6709201 CAAGGTTACATGCCTAGCCCA
1 CAGGGTTACATACCTAGCCCA
6709222 CAGGGTT
1 CAGGGTT
6709229 TTATGACACC
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (21 bp):
CAGGGTTACATACCTAGCCCA
Found at i:6709982 original size:21 final size:21
Alignment explanation
Indices: 6709956--6709997 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6709946 TTTTTAACTT
6709956 TAAATAATAATTAATATATTC
1 TAAATAATAATTAATATATTC
*
6709977 TAAATAATATTTAATATATTC
1 TAAATAATAATTAATATATTC
6709998 GAATGACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATAATAATTAATATATTC
Found at i:6710292 original size:137 final size:135
Alignment explanation
Indices: 6710089--6710415 Score: 467
Period size: 136 Copynumber: 2.4 Consensus size: 135
6710079 ATAACGAATA
* * *
6710089 ATAGGTGATGACATGAATAGTGCCCCATCGGGGGACATCACATATAATAGGACAATTATAACATA
1 ATAGGTGTTGATATGAATAGTGCCCC-TCGGGGGACATCACACATAATAGGACAATTATAACATA
* *
6710154 TTCTCTGACAAAAAGGAAAG-GGACATCCCACAAGAAGTGCTTTCACCACATTGTTGCGTCCCCT
65 TTCTCTGA-AAAAAGGAAAGACG-CATCCCACAAGAAGCGCTTTCACCACATTGTTGCGTCCCCT
6710218 CAAACATG
128 CAAACATG
*
6710226 ATAGGTGTTGATATGAATAGTGCCCCGTCGGGGGACATCACACATAATAGGGCAATTATAACATA
1 ATAGGTGTTGATATGAATAGTGCCCC-TCGGGGGACATCACACATAATAGGACAATTATAACATA
*
6710291 TTCTCTGAAAAAAGGAAAGACGCTTCCCACAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCA
65 TTCTCTGAAAAAAGGAAAGACGCATCCCACAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCA
6710356 AACATG
130 AACATG
* * * * * * * *
6710362 ATATGTGGTTTATGTGAATACTTCCCCACAGGGGACATCACACATAGTAGGACA
1 ATAGGT-GTTGATATGAATAGTGCCCCTCGGGGGACATCACACATAATAGGACA
6710416 TATTCTAAAA
Statistics
Matches: 171, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
136 86 0.50
137 85 0.50
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (135 bp):
ATAGGTGTTGATATGAATAGTGCCCCTCGGGGGACATCACACATAATAGGACAATTATAACATAT
TCTCTGAAAAAAGGAAAGACGCATCCCACAAGAAGCGCTTTCACCACATTGTTGCGTCCCCTCAA
ACATG
Found at i:6713626 original size:5 final size:5
Alignment explanation
Indices: 6713612--6713665 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
6713602 GTCCGTCCGT
* * * * *
6713612 CTCGT CTCGG CTCGG CACAG CACGG CTCGG CTCGG CTCGG CTCGG CTTGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
6713662 CTCG
1 CTCG
6713666 TGGTCGTGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.06, C:0.39, G:0.35, T:0.20
Consensus pattern (5 bp):
CTCGG
Found at i:6713674 original size:6 final size:6
Alignment explanation
Indices: 6713663--6713729 Score: 89
Period size: 6 Copynumber: 11.2 Consensus size: 6
6713653 TCGGCTTGGC
** * *
6713663 TCGTGG TCGTGG TCGTGG TCGTGG TCAAGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
6713711 TCGTGG TCATGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG T
6713730 AATACGTGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.07, C:0.16, G:0.46, T:0.30
Consensus pattern (6 bp):
TCGTGG
Found at i:6713707 original size:30 final size:30
Alignment explanation
Indices: 6713667--6713725 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
6713657 CTTGGCTCGT
*
6713667 GGTCGTGGTCGTGGTCGTGGTCAAGGTCGA
1 GGTCGAGGTCGTGGTCGTGGTCAAGGTCGA
*
6713697 GGTCGAGGTCGTGGTCGTGGTCATGGTCG
1 GGTCGAGGTCGTGGTCGTGGTCAAGGTCG
6713726 TGGTAATACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.08, C:0.17, G:0.47, T:0.27
Consensus pattern (30 bp):
GGTCGAGGTCGTGGTCGTGGTCAAGGTCGA
Found at i:6719217 original size:2 final size:2
Alignment explanation
Indices: 6719212--6719238 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6719202 TATACTTTTG
6719212 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 T
6719239 CTTACATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6719647 original size:6 final size:6
Alignment explanation
Indices: 6719636--6719690 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
6719626 TCGGCTCGGC
* * *
6719636 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TTGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
6719684 TCGTGG T
1 TCGTGG T
6719691 AATACGTGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.04, C:0.15, G:0.49, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:6721113 original size:23 final size:23
Alignment explanation
Indices: 6721078--6721134 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
6721068 ATCAAATACA
* *
6721078 ATAACATATTAGGTAACGCTTAT
1 ATAATATAATAGGTAACGCTTAT
*
6721101 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAACGCTTAT
*
6721124 ATAATAAAATA
1 ATAATATAATA
6721135 AGTTAATTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (23 bp):
ATAATATAATAGGTAACGCTTAT
Found at i:6721357 original size:135 final size:135
Alignment explanation
Indices: 6721101--6721574 Score: 493
Period size: 135 Copynumber: 3.3 Consensus size: 135
6721091 TAACGCTTAT
* * *
6721101 ATAATATAATAGGTAGCGCTTATATAATAAAATAAGTTAATTACTTAATTTGTTAGTACAACATA
1 ATAACATATTAGGTAACGCTTATATAATAAAATAAGTTAATTACTTAATTTGTTAGTACAACATA
* *
6721166 TTAGGTAAACGCCTAAAATGTTACCAAGGATAAGATAACCGGTTAATTACTGGAAACATTATCAA
66 TTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAA
6721231 GCACA
131 GCACA
* * *
6721236 ATAACATATTAGGTAACGTTTATATAATAAAATAAGTTAATTATTTAATTTGTTATTACAACATA
1 ATAACATATTAGGTAACGCTTATATAATAAAATAAGTTAATTACTTAATTTGTTAGTACAACATA
* *
6721301 TTAGGTAAACGCCTAAAATGTTACCAATGATAACATAACCGGTTAATTACTAGAAACATTATTAA
66 TTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAA
6721366 GCACA
131 GCACA
* *
6721371 ATAACATATTAGGTAGA-GCTTATATAATGTAATAGGTAGAGTTTATATAATAAAATAAGTTAAT
1 ATAACATATTAGGTA-ACGCTTATATAA--TAA-A-ATA-AG----T-TAAT----T-ACTT---
* **** * *
6721435 TACTTAATTTGTTATTACAACATATTAGGTAAATTTTTAAAATGTTACCAAGGATAATATAATCG
47 -----AATTTGTTAGTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCG
* *
6721500 GTTAATTACTGGAAACATTATCAAGCATA
107 GTTAATTACTAGAAACATTATCAAGCACA
* * * *
6721529 ATAACATATTAGGTAGCGCTTATGTAACAAAAT-AGGTAATTACTTA
1 ATAACATATTAGGTAACGCTTATATAATAAAATAAGTTAATTACTTA
6721575 CTTAATTTGT
Statistics
Matches: 285, Mismatches: 29, Indels: 51
0.78 0.08 0.14
Matches are distributed among these distances:
134 1 0.00
135 149 0.52
136 1 0.00
137 3 0.01
138 1 0.00
139 2 0.01
140 2 0.01
142 3 0.01
143 1 0.00
144 1 0.00
145 4 0.01
147 4 0.01
149 1 0.00
150 3 0.01
152 2 0.01
154 1 0.00
155 1 0.00
156 2 0.01
158 103 0.36
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (135 bp):
ATAACATATTAGGTAACGCTTATATAATAAAATAAGTTAATTACTTAATTTGTTAGTACAACATA
TTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAA
GCACA
Found at i:6721397 original size:23 final size:23
Alignment explanation
Indices: 6721371--6721420 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6721361 ATTAAGCACA
*
6721371 ATAACATATTAGGTAGAGCTTAT
1 ATAACATAATAGGTAGAGCTTAT
** *
6721394 ATAATGTAATAGGTAGAGTTTAT
1 ATAACATAATAGGTAGAGCTTAT
6721417 ATAA
1 ATAA
6721421 TAAAATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGGTAGAGCTTAT
Found at i:6721427 original size:23 final size:23
Alignment explanation
Indices: 6721380--6721427 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
6721370 AATAACATAT
**
6721380 TAGGTAGAGCTTATATAATGTAA
1 TAGGTAGAGCTTATATAATAAAA
*
6721403 TAGGTAGAGTTTATATAATAAAA
1 TAGGTAGAGCTTATATAATAAAA
6721426 TA
1 TA
6721428 AGTTAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGAGCTTATATAATAAAA
Found at i:6721533 original size:158 final size:158
Alignment explanation
Indices: 6721245--6721551 Score: 490
Period size: 158 Copynumber: 1.9 Consensus size: 158
6721235 AATAACATAT
*
6721245 TAGGTAACGTTTATATAATAAAATAAGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAA
1 TAGGTAACGTTTATATAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAA
* *
6721310 CGCCTAAAATGTTACCAATGATAACATAACCGGTTAATTACTAGAAACATTATTAAGCACAATAA
66 CGCCTAAAATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCACAATAA
6721375 CATATTAGGTAGAGCTTATATAATGTAA
131 CATATTAGGTAGAGCTTATATAATGTAA
6721403 TAGGTAGA-GTTTATATAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAA
1 TAGGTA-ACGTTTATATAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAA
**** * * * *
6721467 ATTTTTAAAATGTTACCAAGGATAATATAATCGGTTAATTACTGGAAACATTATCAAGCATAATA
65 ACGCCTAAAATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCACAATA
*
6721532 ACATATTAGGTAGCGCTTAT
130 ACATATTAGGTAGAGCTTAT
6721552 GTAACAAAAT
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
158 135 0.99
159 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.36
Consensus pattern (158 bp):
TAGGTAACGTTTATATAATAAAATAAGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAA
CGCCTAAAATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCACAATAA
CATATTAGGTAGAGCTTATATAATGTAA
Found at i:6721718 original size:74 final size:73
Alignment explanation
Indices: 6721635--6721870 Score: 307
Period size: 73 Copynumber: 3.2 Consensus size: 73
6721625 AAAATTTAAA
* *
6721635 CTACCTATTACATTAAAATACATACCATTTTTTTTAAGGTTGTTAATAATGTAAATGATAAAAAA
1 CTACCTATTACATTAAAATACCTACCATTTTTTTGAAGGTTGTTAATAATGTAAATGAT-AAAAA
6721700 AAATAGGCG
65 AAATAGGCG
* ** * *
6721709 CTACCTATTACATTAAAACACCTACCGGTTTTTTGAAGGTTGATAATAATGTAAA-CAGTAAAAA
1 CTACCTATTACATTAAAATACCTACCATTTTTTTGAAGGTTGTTAATAATGTAAATGA-TAAAAA
*
6721773 AAATA-GTG
65 AAATAGGCG
* * * *
6721781 CTACCTATTATATTAAAATACCTACCGATATTTTTGAAGGTTGTTAATAATGTAAATGGT-GAAA
1 CTACCTATTACATTAAAATACCTACC-ATTTTTTTGAAGGTTGTTAATAATGTAAATGATAAAAA
6721845 AAATAGGCG
65 AAATAGGCG
*
6721854 CAACCTATTACATTAAA
1 CTACCTATTACATTAAA
6721871 CTACTTATCG
Statistics
Matches: 138, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
72 34 0.25
73 54 0.39
74 50 0.36
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (73 bp):
CTACCTATTACATTAAAATACCTACCATTTTTTTGAAGGTTGTTAATAATGTAAATGATAAAAAA
AATAGGCG
Found at i:6722042 original size:20 final size:20
Alignment explanation
Indices: 6722017--6722067 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
6722007 CAGGTAAAAA
6722017 TATGACAAAACCAGTTTCAT
1 TATGACAAAACCAGTTTCAT
6722037 TATGACAAAACCAGTTTCAT
1 TATGACAAAACCAGTTTCAT
6722057 TATGACAAAAC
1 TATGACAAAAC
6722068 AGGTAAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (20 bp):
TATGACAAAACCAGTTTCAT
Found at i:6722218 original size:21 final size:21
Alignment explanation
Indices: 6722188--6722243 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
6722178 TATGTTGAAA
6722188 GTATCGATACTTTATAAAAAT
1 GTATCGATACTTTATAAAAAT
*
6722209 GTATCAATACTTTATAAAAAT
1 GTATCGATACTTTATAAAAAT
6722230 GTATCGATACTTTA
1 GTATCGATACTTTA
6722244 CAATATAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (21 bp):
GTATCGATACTTTATAAAAAT
Found at i:6722366 original size:114 final size:112
Alignment explanation
Indices: 6722037--6722552 Score: 598
Period size: 114 Copynumber: 4.6 Consensus size: 112
6722027 CCAGTTTCAT
* *
6722037 TATGACAAAACCAGTTTCATTATGACAAAACAGGTAAAGAGATACCTGATATGTTGAAAGTATCG
1 TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGATACCTTATATGTTGAAAGTATCG
*
6722102 ATACTTTATAAAAATGTATTGATACTTTACAATATAACATGTAAAAA
66 ATACTTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAA
* * ** * * * * **
6722149 TATGACAAAACC--TGTAAAGA-GCTACCTGATA-TGTTGAAAGTATCGATA-CTT-TA--TAAA
1 TATGACAAAACCAGTTTCATTATG--A-C-AAAACCGGT-AAAG-A--GATACCTTATATGTTGA
* *
6722206 AATGTATCAATACTTTATAAAAATGTATCGATACTTTACAATATAACAAGTAAAAA
58 AA-GTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAA
* * * *
6722262 TATGACAAAACCAGTTTTATTATGACAAAACCGGTAAAGAGCTACTTTATATGTTGAAAGTATTG
1 TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGATACCTTATATGTTGAAAGTATCG
*
6722327 ATCCTTTTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAA
66 ATAC--TTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAA
* * *
6722376 TATGACAAAACCAATTTCATTATGACAAAACCGATAAAGAGCTACCTTATATGTTGAAAGTATCG
1 TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGATACCTTATATGTTGAAAGTATCG
* * *
6722441 ATCATTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAT
66 AT-A-CTTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAA
* * *
6722490 TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGTTACCTGATATATTGAAAGTAT
1 TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGATACCTTATATGTTGAAAGTAT
6722553 ATATATTTTT
Statistics
Matches: 339, Mismatches: 44, Indels: 40
0.80 0.10 0.09
Matches are distributed among these distances:
109 4 0.01
110 6 0.02
111 4 0.01
112 32 0.09
113 75 0.22
114 207 0.61
115 6 0.02
116 5 0.01
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (112 bp):
TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGATACCTTATATGTTGAAAGTATCG
ATACTTTATAAAAATGTATCGATACTTTACAATATAACATGTAAAAA
Found at i:6726692 original size:40 final size:40
Alignment explanation
Indices: 6726635--6726796 Score: 290
Period size: 40 Copynumber: 4.0 Consensus size: 40
6726625 TGCAGGTTTA
*
6726635 TAATACACTTCGATGTATATGGTGGGCACGACCTTTTGTG
1 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
6726675 TAATACACTTC-AGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGA-TGTATATGGTGGGCACGACCTTATGTG
*
6726715 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
6726755 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
6726795 TA
1 TA
6726797 TCACTACGGT
Statistics
Matches: 117, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
39 1 0.01
40 116 0.99
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
Found at i:6726973 original size:25 final size:25
Alignment explanation
Indices: 6726945--6727018 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
6726935 TATATTGGTA
6726945 AAATAAGCTTACGAGCTTATTGAAT
1 AAATAAGCTTACGAGCTTATTGAAT
* *
6726970 AAAT--G-ATA--AG-TATATTG-GT
1 AAATAAGCTTACGAGCT-TATTGAAT
6726989 AACATAAGCTTACGAGCTTATTGAAT
1 AA-ATAAGCTTACGAGCTTATTGAAT
6727015 AAAT
1 AAAT
6727019 GGTAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
19 4 0.11
20 9 0.25
22 3 0.08
23 3 0.08
25 13 0.36
26 4 0.11
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.32
Consensus pattern (25 bp):
AAATAAGCTTACGAGCTTATTGAAT
Found at i:6726986 original size:45 final size:45
Alignment explanation
Indices: 6726901--6727062 Score: 213
Period size: 44 Copynumber: 3.6 Consensus size: 45
6726891 GAAACCATGC
* * *
6726901 AAATAAACTAACGAGCTTATGGAA-AAATGACAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTA
*
6726945 AAATAAGCTTACGAGCTTATTGAATAAATGATAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTA
* * * *
6726990 ACATAAGCTTACGAGCTTATTGAATAAATGGTAA--ATAGTTAGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATA-TTGGTA
*
6727034 AAATAAGCTTACGAGCTTATGGGATAAAT
1 AAATAAGCTTACGAGCTTATGGAATAAAT
6727063 AGTAAATATT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
43 3 0.03
44 52 0.49
45 51 0.48
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTATATTGGTA
Found at i:6727483 original size:21 final size:21
Alignment explanation
Indices: 6727459--6727503 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
6727449 TTTTGGAAAT
*
6727459 CACTGTAGCAGTGCA-CTGATA
1 CACTGTAGCAATGCATC-GATA
6727480 CACTGTAGCAATGCATCGATA
1 CACTGTAGCAATGCATCGATA
6727501 CAC
1 CAC
6727504 ATTTTAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (21 bp):
CACTGTAGCAATGCATCGATA
Found at i:6727604 original size:13 final size:13
Alignment explanation
Indices: 6727571--6727604 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6727561 ATCGATACAA
*
6727571 TGTTCACGGGTAC
1 TGTTCACTGGTAC
*
6727584 TGTTCACTGTTAC
1 TGTTCACTGGTAC
6727597 TGTTCACT
1 TGTTCACT
6727605 ATTCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.41
Consensus pattern (13 bp):
TGTTCACTGGTAC
Found at i:6728085 original size:126 final size:126
Alignment explanation
Indices: 6727895--6728964 Score: 460
Period size: 126 Copynumber: 8.6 Consensus size: 126
6727885 ATAGACGAGT
* * * * *
6727895 GAAACCACCATATTGATCCACTTCCTTCTATGATGGACGGACAAAGGATTACGCTGATCTAACTA
1 GAAACCACCATGTTGATCCACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACTA
* * * * * * *
6727960 CTATTATGTTGGACAAGTAAAAATGGCTACGCTGATCCAACGCATTCCTCGATGGATGA-AA
66 CTATT-TGTTGGACAAGCAAAAATGACTACACTAATCCAACCCATTACTCGATGGAAGAGAA
* * * * *
6728021 GAAACCGCCATGTTGATCCACCTCTTTCTGTGATGGATGAACAAAAGATTACGCTGACCCAACTA
1 GAAACCACCATGTTGATCCACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACTA
* ** * * * * * *
6728086 CTAGTTGTTATACGAGCGAAAATGACTACATTAATCCAACCCCTTATTCGATGGAAGAGCA
66 CTATTTGTTGGACAAGCAAAAATGACTACACTAATCCAACCCATTACTCGATGGAAGAGAA
* ** *
6728147 -AAACCATCATGTTGAT-CATCCTCCTTCTACAATGGACAAACAAAGGATTACGCTGACCCAACT
1 GAAACCACCATGTTGATCCA-CCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACT
* * ** * * * * *
6728210 ACTATTTTGTTGGACAAAAG-AAGAATGAATACTAAGAA-CTAACCCCTTATTTGATGGAATA-A
65 ACTA-TTTGTTGGAC--AAGCAAAAATGACTAC-ACTAATCCAACCCATTACTCGATGGAAGAGA
6728272 CA
126 -A
* * * * * **
6728274 -AAATCGCCATGTTGATCCACCTCCTTATGTAATGGACGAACAAAGGATTACATTGACCCAACTA
1 GAAACCACCATGTTGATCCACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACTA
* * * * * * * **** * * * * *
6728338 CTAATATGCTAGACGAGCGAAAATTATTGTGTTGATCCAACCTC-TTATTCAATGGACGAG-T
66 CT-ATTTGTTGGACAAGCAAAAATGACTACACTAATCCAACC-CATTACTCGATGGAAGAGAA
* * * *
6728399 GAAACCACCATGTTGATCTACCTTCTT-T-TGCTATGGACAAACAAA-G-----G--GACCTAAC
1 GAAACCACCATGTTGATCCACCTCCTTCTATG--ATGGACGAACAAAGGATTACGCTGACCCAAC
* * ** * * ** *
6728454 TACTAATATGCTGGACGAA-CGGAAATGACTACACTGATCCAACCCCTT-CTTTAGTGGACGA-A
64 TACT-ATTTGTTGGAC-AAGCAAAAATGACTACACTAATCCAACCCATTACTCGA-TGGAAGAGA
6728516 TA
126 -A
* * * * ** * *
6728518 -AAAGCACCATGTAGA-CCTACCTCCTTTTTTGATGGACGAGTAAAGGATTATGTTGACCCAACT
1 GAAACCACCATGTTGATCC-ACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACT
* * * ** ** * ** *
6728581 AATGTTGTGCTGGATGAGCAAAAATGACTACGTTGATCCAACCCCCT-CTTCGAT---AGACAA
65 ACTATT-TGTTGGACAAGCAAAAATGACTACACTAATCCAACCCATTAC-TCGATGGAAGAGAA
* * * *
6728641 TCGAAACCGCCATGTTGATCCACCTCCTTCTTTGATGGACGAACAAAGGATTACACTGATCCAAC
1 --GAAACCACCATGTTGATCCACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAAC
* * ** * * ** ** *
6728706 TACTATTGTGCTGGACGAGCGGAAATGACTAAACTGATCCAACCCCCT-CTTCGATATATA-AGC
64 TACTATT-TGTTGGACAAGCAAAAATGACTACACTAATCCAACCCATTAC-TCGATGGA-AGAGA
6728769 A
126 A
* ** ** * * * * * *
6728770 -AAACCACCATATTGATTAACCTTTTTTTATGATGGATGAATAAGGGATTACACTGATCCAACTA
1 GAAACCACCATGTTGATCCACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACTA
* * * ** * * * * * *
6728834 CTGGTGTGTTGGACAAGCGAAAATGACTACGTTGATCCAA-TCTTTTCTTCGATGGATGAG-T
66 CT-ATTTGTTGGACAAGCAAAAATGACTACACTAATCCAACCCATTAC-TCGATGGAAGAGAA
* * * * *
6728895 GAAACAACCATGTTGATCCACCTCCTTTTGTGATGGACGAACAAAGGATTACCCTGACCTAACTA
1 GAAACCACCATGTTGATCCACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACTA
6728960 CTATT
66 CTATT
6728965 GTGATAGACG
Statistics
Matches: 716, Mismatches: 180, Indels: 97
0.72 0.18 0.10
Matches are distributed among these distances:
117 4 0.01
118 79 0.11
119 3 0.00
120 2 0.00
123 3 0.00
124 5 0.01
125 104 0.15
126 408 0.57
127 97 0.14
128 8 0.01
129 2 0.00
130 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (126 bp):
GAAACCACCATGTTGATCCACCTCCTTCTATGATGGACGAACAAAGGATTACGCTGACCCAACTA
CTATTTGTTGGACAAGCAAAAATGACTACACTAATCCAACCCATTACTCGATGGAAGAGAA
Found at i:6732360 original size:54 final size:54
Alignment explanation
Indices: 6732248--6733829 Score: 2095
Period size: 54 Copynumber: 29.3 Consensus size: 54
6732238 ACTCTACAGT
* * ** ** * *
6732248 TTGCACACGTAGTGCCTATACGGTAATTCAAAAACTTATTAT-AATTTACGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTT-CGTGGG
* * * * *
6732302 TTGCATACATAGTGTCTAAACGGTTGTTCATCAATATATGATGAATTTTGTGGA
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* *
6732356 TTGCACACATAGTTCCTAAATGGTTGTTCATCAACATATGATGAA-TTCTGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTC-GTGGG
* * *
6732410 ATGCACACATAGTGCCTAGAA-GGTAGTTCATCAACATATGATGAATTCCGTGGG
1 TTGCACACATAGTGCCTA-AACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * *** *
6732464 TTTCACACATAGTACCTAAACAAATGTTCATCTACATATGATGAA-TTCTGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTC-GTGGG
* * * **
6732518 TTGCACACATAGTTCCTAAACGGTTATTCATCAATATATGATGAATTTTATGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * *
6732572 TTGCACACATAGTGCCTAAATGGTTGTTCATCAATATATGATGAATTCCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
** *
6732626 TTGCACACATAGTGCCTAAATTGTTGTTCATCAACATATGATGAATTACGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* *
6732680 TTGTACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * * * * *
6732734 TTGCACACATAGTGCCTCAATGGTTTTTCATCAACATATGATGAAATCCATGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * ** *
6732788 TTGCACACATAGTGCCTAAACGATTTTTCATCAGTATATGATGAATTTCATGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * **
6732842 TTGTACACATAATGCCTAAACAATTGTTCATCAACATATGATGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * *
6732896 TTTCACACGTAGTGCCTAAACGGTTGTTGATCAACATATGATGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * * * *
6732950 TTGCACACATAGTACCAAAACAGTTGTTCATCAACATATGATGAA-TCCGTGGA
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * * *
6733003 TTGCACACATAGTGCCCAAACGGTTGTTCATCAACATATGATAAATTTCATGTG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* ** *
6733057 TTGCACACATAATGCCTAAA-GGATTGTTTGTCAACATATGACGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGG-TTGTTCATCAACATATGATGAATTTCGTGGG
* *
6733111 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATAAATTTTGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* *
6733165 TTGCACACATAGTGCCTAAACGGTTGTTCATTAACATATGATGAATTTTGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * * *
6733219 TTGTACACATAGTGTCTAAACGGTTGTTCACCAACATATAATGAA-TTCTGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTC-GTGGG
* *
6733273 TTGCACACATAGTGCCTAAACGGTTATTAATCAACATATGATGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * * *
6733327 TTGCATACATAGCGCCTAAACGGTTGTTCATCAACATATGATGAATTAT-GTAGA
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATT-TCGTGGG
* * * *
6733381 TTGCACACATAGTGCCTAAATGGTTGTTCATAAACATATGATGAATTCCATGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* *
6733435 TTGCACACATAGTGCCTAAATGGTTGTTCATCAATATATGATGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * * *
6733489 TTACACACATAGTGCCTAAACGGTTGTTCATCAATATATTATGAATTCCGT-GG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * *
6733542 TTGCACACATAGTGCCTAAATGGTTGTTCATCAACATATGATGAATTTTGTGGA
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
6733596 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * *
6733650 TTGCACACATAGTGCCTAAATGGTTGTTCATTAATATATGATGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
* * *
6733704 TTGCACACATAGTGCCTAAACGGTTGTACATCAATATATTATGAATTTCGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
*
6733758 TTGCACACATAGTGCCTAAACGGTTGTTCAT-AACCATATGATGAATTTTGTGGG
1 TTGCACACATAGTGCCTAAACGGTTGTTCATCAA-CATATGATGAATTTCGTGGG
*
6733812 TTGAACACATAGTGCCTA
1 TTGCACACATAGTGCCTA
6733830 TAGAACACAT
Statistics
Matches: 1341, Mismatches: 171, Indels: 32
0.87 0.11 0.02
Matches are distributed among these distances:
53 106 0.08
54 1218 0.91
55 17 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (54 bp):
TTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTTCGTGGG
Found at i:6732743 original size:27 final size:27
Alignment explanation
Indices: 6732607--6732744 Score: 67
Period size: 27 Copynumber: 5.1 Consensus size: 27
6732597 GTTCATCAAT
6732607 ATATGATGAATTCCGTGGGTTGCACAC
1 ATATGATGAATTCCGTGGGTTGCACAC
* * *
6732634 ATAGTGCCTAAATT--GT-TGTT-CATCAAC
1 ATA-TG-ATGAATTCCGTGGGTTGCA-C-AC
* *
6732661 ATATGATGAATTACGTGGGTTGTACAC
1 ATATGATGAATTCCGTGGGTTGCACAC
* * * *
6732688 ATAGTGCCT-AA-ACGGT-TGTT-CATCAAC
1 ATA-TG-ATGAATTCCGTGGGTTGCA-C-AC
6732715 ATATGATGAATTCCGTGGGTTGCACAC
1 ATATGATGAATTCCGTGGGTTGCACAC
6732742 ATA
1 ATA
6732745 GTGCCTCAAT
Statistics
Matches: 78, Mismatches: 17, Indels: 32
0.61 0.13 0.25
Matches are distributed among these distances:
25 9 0.12
26 14 0.18
27 32 0.41
28 14 0.18
29 9 0.12
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (27 bp):
ATATGATGAATTCCGTGGGTTGCACAC
Found at i:6733837 original size:18 final size:18
Alignment explanation
Indices: 6733814--6733878 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
6733804 TTTGTGGGTT
6733814 GAACACATAGTGCCTATA
1 GAACACATAGTGCCTATA
*
6733832 GAACACATGGTGCCTATA
1 GAACACATAGTGCCTATA
*
6733850 GTACACATAGTGCCTATA
1 GAACACATAGTGCCTATA
*
6733868 GTACACATAGT
1 GAACACATAGT
6733879 ACTGATATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (18 bp):
GAACACATAGTGCCTATA
Found at i:6734334 original size:19 final size:20
Alignment explanation
Indices: 6734289--6734337 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6734279 GTAATCAATG
*
6734289 GTATCGATACCTTCTCCCTA
1 GTATCGATACCCTCTCCCTA
* *
6734309 GTGTCGATACCCTCT-CTTA
1 GTATCGATACCCTCTCCCTA
6734328 GTATCGATAC
1 GTATCGATAC
6734338 TAATTGCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (20 bp):
GTATCGATACCCTCTCCCTA
Found at i:6739357 original size:54 final size:54
Alignment explanation
Indices: 6739292--6739690 Score: 600
Period size: 54 Copynumber: 7.4 Consensus size: 54
6739282 TTATAATTTA
* * *
6739292 CGTGGGCTGCACACATAGTGCCTAAACGGTTGTTCGTCAATATATGATGAATTC
1 CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTC
** ** *
6739346 TATGGGTTGCACACATAAAGCCTAAACGGTTGTTCATCAATATATGATGAATTC
1 CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTC
* *
6739400 CGTGGGTTGCACACACAGTGCCTAAATGGTTGTTCATCAACATATGATGAATTC
1 CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTC
** *
6739454 TATGGGTTGCACACATAGTGCCTAAACGATTGTTCATCAACATATGATGAATTC
1 CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTC
** * *
6739508 CGTGTATTGCACACATAGTGCCTAAACAGTTGGTCATCAACATATGATGAATTC
1 CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTC
*
6739562 CGTGGGTTGCACACATAGTGCCTAAACAGTTGTTCATCAACATATGATGAATTC
1 CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTC
* *
6739616 CGTGGATTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATAAATGAATTC
1 CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATAT-GATGAATTC
*
6739671 CGTGGGTTACACACATAGTG
1 CGTGGGTTGCACACATAGTG
6739691 TCTATAATAC
Statistics
Matches: 311, Mismatches: 33, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
54 285 0.92
55 26 0.08
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (54 bp):
CGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTC
Found at i:6743143 original size:63 final size:63
Alignment explanation
Indices: 6743043--6743168 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
6743033 CCCCTTACTG
*
6743043 CCCATTATAAGGGAAAATAAGTTAATTTATTCTTTACATGTTTTATCTTTTAGTTTATTTCCT
1 CCCATTATAAGGGAAAATAAGTTAATTTATTCGTTACATGTTTTATCTTTTAGTTTATTTCCT
6743106 CCCATTATAAGGGAAAATAAGTTAATTTATTCGTTACATGTTTTATCTTTTAGTTTATTTCCT
1 CCCATTATAAGGGAAAATAAGTTAATTTATTCGTTACATGTTTTATCTTTTAGTTTATTTCCT
6743169 TACCCTTGTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (63 bp):
CCCATTATAAGGGAAAATAAGTTAATTTATTCGTTACATGTTTTATCTTTTAGTTTATTTCCT
Found at i:6745258 original size:21 final size:21
Alignment explanation
Indices: 6745230--6745317 Score: 122
Period size: 21 Copynumber: 4.2 Consensus size: 21
6745220 TTTTAGAGAA
*
6745230 ACTTACCAAGGTACTTCACCT
1 ACTTACCAAGGTACTTCATCT
*
6745251 ATTTACCAAGGTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
*
6745272 ACTTACCAATGTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
* * *
6745293 ACTTACAAAGGTAATTCATAT
1 ACTTACCAAGGTACTTCATCT
6745314 ACTT
1 ACTT
6745318 CCACTTTTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (21 bp):
ACTTACCAAGGTACTTCATCT
Found at i:6745454 original size:114 final size:114
Alignment explanation
Indices: 6745313--6745526 Score: 281
Period size: 114 Copynumber: 1.9 Consensus size: 114
6745303 GTAATTCATA
* * *
6745313 TACTTCCACTTTTCTTCTACTCCACCTTTTACC-ATGAATACTGAATCAGGCAATGACATCAATG
1 TACTTCCACTTTTCTTCTACTCCACCTTCTACCAATG-ATACTAAATCAGACAATGACATCAATG
* *
6745377 AATATGATGCTAGTAA-CATTGT-AATATAAGATACCCAATTCAATTAATC
65 AATACGATGCTAG-AAGCATTGTAAATAGAAGATACCCAATTCAATTAATC
** * * **
6745426 TACTTCCACTTCTTCTTCTACTTGACCTTCTACCAATGATACTAAATTAGATAATGACATTGATG
1 TACTTCCACTT-TTCTTCTACTCCACCTTCTACCAATGATACTAAATCAGACAATGACATCAATG
6745491 AATACGATGCTAGAAGCATTGTAAATAGAAGATACC
65 AATACGATGCTAGAAGCATTGTAAATAGAAGATACC
6745527 AATCTTCCCT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
113 13 0.15
114 58 0.67
115 15 0.17
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (114 bp):
TACTTCCACTTTTCTTCTACTCCACCTTCTACCAATGATACTAAATCAGACAATGACATCAATGA
ATACGATGCTAGAAGCATTGTAAATAGAAGATACCCAATTCAATTAATC
Found at i:6755604 original size:30 final size:30
Alignment explanation
Indices: 6755535--6755592 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6755525 AATTTAAGGA
6755535 AAAATGTTTTTGGACTTGAATTGAATTTGC
1 AAAATGTTTTTGGACTTGAATTGAATTTGC
*
6755565 AAAATGTTTTTGGATTTGAATTGAATTT
1 AAAATGTTTTTGGACTTGAATTGAATTT
6755593 ATTCAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTGC
Found at i:6755799 original size:21 final size:21
Alignment explanation
Indices: 6755773--6755890 Score: 152
Period size: 21 Copynumber: 5.7 Consensus size: 21
6755763 ATGCAATTAG
6755773 TGCATCGATGCATCCTTTCCA
1 TGCATCGATGCATCCTTTCCA
*
6755794 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTTCCA
*
6755815 TGAATCGATGCATCC-TTCCA
1 TGCATCGATGCATCCTTTCCA
* *
6755835 TGCATCCATGCATCCTTGCCA
1 TGCATCGATGCATCCTTTCCA
*
6755856 TGAATCGATGCA-CCTTGAT-CA
1 TGCATCGATGCATCCTT--TCCA
6755877 TGCATCGATGCATC
1 TGCATCGATGCATC
6755891 ATGTTATGGG
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.25
21 61 0.73
22 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (21 bp):
TGCATCGATGCATCCTTTCCA
Found at i:6755839 original size:62 final size:62
Alignment explanation
Indices: 6755773--6755890 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
6755763 ATGCAATTAG
* * *
6755773 TGCATCGATGCATCCTTTCCATGCATCGATGCATCCTTG-CCATGAATCGATGCATCCTTCCA
1 TGCATCCATGCATCCTTGCCATGAATCGATGCA-CCTTGACCATGAATCGATGCATCCTTCCA
* *
6755835 TGCATCCATGCATCCTTGCCATGAATCGATGCACCTTGATCATGCATCGATGCATC
1 TGCATCCATGCATCCTTGCCATGAATCGATGCACCTTGACCATGAATCGATGCATC
6755891 ATGTTATGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 5 0.10
62 45 0.90
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (62 bp):
TGCATCCATGCATCCTTGCCATGAATCGATGCACCTTGACCATGAATCGATGCATCCTTCCA
Found at i:6755846 original size:41 final size:41
Alignment explanation
Indices: 6755776--6755890 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
6755766 CAATTAGTGC
6755776 ATCGATGCATCCTTTCCATGCATCGATGCATCCTTGCCATGA
1 ATCGATGCATCC-TTCCATGCATCGATGCATCCTTGCCATGA
*
6755818 ATCGATGCATCCTTCCATGCATCCATGCATCCTTGCCATGA
1 ATCGATGCATCCTTCCATGCATCGATGCATCCTTGCCATGA
*
6755859 ATCGATGCA-CCTTGATCATGCATCGATGCATC
1 ATCGATGCATCCTT--CCATGCATCGATGCATC
6755891 ATGTTATGGG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 4 0.06
41 37 0.54
42 27 0.40
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (41 bp):
ATCGATGCATCCTTCCATGCATCGATGCATCCTTGCCATGA
Found at i:6756211 original size:34 final size:32
Alignment explanation
Indices: 6756172--6756241 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
6756162 TTTTGTAAAG
* *
6756172 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
6756206 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
6756238 GGGA
1 GGGA
6756242 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:6757103 original size:19 final size:20
Alignment explanation
Indices: 6757079--6757126 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
6757069 AACGATTTTC
6757079 TTTTGAAAACAAAAAT-AAA
1 TTTTGAAAACAAAAATGAAA
* *
6757098 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
6757118 TTTTGAAAA
1 TTTTGAAAA
6757127 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:6758433 original size:30 final size:30
Alignment explanation
Indices: 6758397--6758456 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
6758387 ACAATTTAAG
*
6758397 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTATTGGACTTGAATTGAATTT
*
6758427 GCAAAATGTTATTGGATTTGAATTGAATTT
1 GCAAAATGTTATTGGACTTGAATTGAATTT
6758457 ATTCAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (30 bp):
GCAAAATGTTATTGGACTTGAATTGAATTT
Found at i:6758663 original size:21 final size:21
Alignment explanation
Indices: 6758637--6758712 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
6758627 ATGCAATTAG
*
6758637 TGCATCGATGCATCCTTTCCA
1 TGCATCGATGCATCCTTGCCA
6758658 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
6758679 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
6758699 TGCATCCATGCATC
1 TGCATCGATGCATC
6758713 AAGGCTGCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 18 0.34
21 35 0.66
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:6761540 original size:27 final size:28
Alignment explanation
Indices: 6761507--6761559 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
6761497 AATTAATATT
*
6761507 AAATAAAAAATGAAA-TAAGATAAAACA
1 AAATAAAAAATGAAATTAAAATAAAACA
*
6761534 AAATAAAAAATTAAATTAAAATAAAA
1 AAATAAAAAATGAAATTAAAATAAAA
6761560 TTAAAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (28 bp):
AAATAAAAAATGAAATTAAAATAAAACA
Found at i:6763096 original size:60 final size:60
Alignment explanation
Indices: 6762970--6763083 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
6762960 GACTATTTTA
*
6762970 TAACTTTTAATAGTTGAGGAACTCAACAAAACAATACTCTATAGTTAGGGGACCATTACG
1 TAACTTTTAATAGTTGAAGAACTCAACAAAACAATACTCTATAGTTAGGGGACCATTACG
* ** * *
6763030 TAACTTTTAATAGTTGGAAG-ACTCGACAAAGTAATGCTCTATATTTAGGGGACC
1 TAACTTTTAATAGTT-GAAGAACTCAACAAAACAATACTCTATAGTTAGGGGACC
6763084 GTTCATGTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (60 bp):
TAACTTTTAATAGTTGAAGAACTCAACAAAACAATACTCTATAGTTAGGGGACCATTACG
Found at i:6764448 original size:20 final size:20
Alignment explanation
Indices: 6764423--6764463 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6764413 TGGTATACTT
6764423 ATATATGCACACTCGTAATG
1 ATATATGCACACTCGTAATG
6764443 ATATATGCACACTCGTAATG
1 ATATATGCACACTCGTAATG
6764463 A
1 A
6764464 CTATCAAATA
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:0.20, G:0.15, T:0.29
Consensus pattern (20 bp):
ATATATGCACACTCGTAATG
Found at i:6765129 original size:60 final size:60
Alignment explanation
Indices: 6765001--6765144 Score: 148
Period size: 60 Copynumber: 2.4 Consensus size: 60
6764991 GACCTTATTT
* * ** * * * *
6765001 TAAATTGGT-CTTAAATTTTTTAATATTTTAATTTCATCTCCGAATCATGACTCTCATTC
1 TAAATTAGTCCTTAAATTTTTGAATATTCCAATTTCATATCCGAAACACGACTATCATTC
**
6765060 TAACCTAGTCCTTAAATTTTTGAATATTCCAATTTCATATCC-AAACGACGACTATCATTC
1 TAAATTAGTCCTTAAATTTTTGAATATTCCAATTTCATATCCGAAAC-ACGACTATCATTC
** *
6765120 TAAATTAGTCCCCAAACTTTTGAAT
1 TAAATTAGTCCTTAAATTTTTGAAT
6765145 CCTCCTATTT
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
59 9 0.13
60 59 0.87
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (60 bp):
TAAATTAGTCCTTAAATTTTTGAATATTCCAATTTCATATCCGAAACACGACTATCATTC
Found at i:6765412 original size:39 final size:39
Alignment explanation
Indices: 6765362--6765468 Score: 153
Period size: 39 Copynumber: 2.7 Consensus size: 39
6765352 ATTAAAATGT
* *
6765362 TTAAAATTTTAAGAACTAATTTAAAATGATAGTCAAT-A
1 TTAAAAGTTTAAGGACTAATTTAAAATGATAGTCAATAA
* *
6765400 TTCAAAAGTTTAAGGAGTAATTTAAAATGATGGTCAATAA
1 TT-AAAAGTTTAAGGACTAATTTAAAATGATAGTCAATAA
*
6765440 TTAAAAGTTTAAGGACTAACTTAAAATGA
1 TTAAAAGTTTAAGGACTAATTTAAAATGA
6765469 AAATCATAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.03
39 56 0.92
40 3 0.05
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.34
Consensus pattern (39 bp):
TTAAAAGTTTAAGGACTAATTTAAAATGATAGTCAATAA
Found at i:6768103 original size:18 final size:18
Alignment explanation
Indices: 6768080--6768132 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
6768070 TGACCGGTCA
*
6768080 CGACCCGACCCGTTTACC
1 CGACCCGACCCGTTGACC
6768098 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
* *
6768116 CGAGCCGA-TCGTTGACC
1 CGACCCGACCCGTTGACC
6768133 GTTGTCCGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 8 0.25
18 24 0.75
ACGTcount: A:0.17, C:0.45, G:0.23, T:0.15
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:6768182 original size:29 final size:29
Alignment explanation
Indices: 6768140--6768279 Score: 235
Period size: 29 Copynumber: 4.8 Consensus size: 29
6768130 ACCGTTGTCC
6768140 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
6768169 GGTGCTATTCTGGTAAAAAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
6768198 TGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
6768227 GGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* *
6768256 GGTGCTATTCTAGTAATTAATTCG
1 GGTGCTATTCTGGTAAATAATTCG
6768280 AAATGGGTGC
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 103 1.00
ACGTcount: A:0.22, C:0.10, G:0.23, T:0.45
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:6768289 original size:58 final size:58
Alignment explanation
Indices: 6768140--6768303 Score: 238
Period size: 58 Copynumber: 2.8 Consensus size: 58
6768130 ACCGTTGTCC
* *
6768140 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAAAAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTTTGGTAAATAATTCGGTTTT
*
6768198 TGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTTTGGTAAATAATTCGGTTTT
* * *** * *
6768256 GGTGCTATTCTAGTAATTAATTCGAAATGGGTGCTATATTGGTAAATA
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTTTGGTAAATA
6768304 TTTTAAAAAG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 95 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.43
Consensus pattern (58 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTTTGGTAAATAATTCGGTTTT
Found at i:6768290 original size:87 final size:87
Alignment explanation
Indices: 6768140--6768303 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 87
6768130 ACCGTTGTCC
* *** **
6768140 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAAAAATTCGGTTTTTGTGCTA
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAAAAAATTCGAAATGGGTGCTA
6768205 T-TCTGGTAAATAATTCGGTTTT
66 TAT-TGGTAAATAATTCGGTTTT
* **
6768227 GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAATTAATTCGAAATGGGTGCTA
1 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAAAAAATTCGAAATGGGTGCTA
6768292 TATTGGTAAATA
66 TATTGGTAAATA
6768304 TTTTAAAAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 66 0.99
88 1 0.01
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.43
Consensus pattern (87 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAAAAAATTCGAAATGGGTGCTA
TATTGGTAAATAATTCGGTTTT
Found at i:6768300 original size:29 final size:28
Alignment explanation
Indices: 6768140--6768323 Score: 98
Period size: 29 Copynumber: 6.4 Consensus size: 28
6768130 ACCGTTGTCC
*** *
6768140 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATT-TGGTAAATAATTCGAAATG
* *** *
6768169 GGTGCTATTCTGGTAAAAAATTCGGTTTT
1 GGTGCTATT-TGGTAAATAATTCGAAATG
* *** *
6768198 TGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATT-TGGTAAATAATTCGAAATG
*** *
6768227 GGTGCTATTTTGGTAAATAATTCGGTTTT
1 GGTGCTA-TTTGGTAAATAATTCGAAATG
* *
6768256 GGTGCTATTCTAGTAATTAATTCGAAATG
1 GGTGCTATT-TGGTAAATAATTCGAAATG
* ** *
6768285 GGTGCTATATTGGTAAATATTTTAAAAAG
1 GGTGCTAT-TTGGTAAATAATTCGAAATG
6768314 GGTGCTATTT
1 GGTGCTATTT
6768324 ATGTAAAATG
Statistics
Matches: 136, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
28 4 0.03
29 129 0.95
30 3 0.02
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (28 bp):
GGTGCTATTTGGTAAATAATTCGAAATG
Found at i:6768318 original size:87 final size:87
Alignment explanation
Indices: 6768140--6768323 Score: 199
Period size: 87 Copynumber: 2.1 Consensus size: 87
6768130 ACCGTTGTCC
* * *** **
6768140 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAAAAAATTCGGTTTTTGTGCTA
1 GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAAAAAATTCGAAATGGGTGCTA
******
6768205 TTCTGGTAAATAATTCGGTTTT
66 TTCTGGTAAATAATTCAAAAAG
**
6768227 GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAATTAATTCGAAATGGGTGCTA
1 GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAAAAAATTCGAAATGGGTGCTA
* *
6768292 TAT-TGGTAAATATTTTAAAAAG
66 T-TCTGGTAAATAATTCAAAAAG
6768314 GGTGCTATTT
1 GGTGCTATTT
6768324 ATGTAAAATG
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 78 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (87 bp):
GGTGCTATTTTGGTAAATAATTCGGTTTTGGTGCTATTCTAGTAAAAAATTCGAAATGGGTGCTA
TTCTGGTAAATAATTCAAAAAG
Found at i:6775627 original size:29 final size:29
Alignment explanation
Indices: 6775585--6775743 Score: 210
Period size: 29 Copynumber: 5.5 Consensus size: 29
6775575 TGACCGGTGT
6775585 TATTCTGGTAAATAATTCGGTTTTAGTGC
1 TATTCTGGTAAATAATTCGGTTTTAGTGC
*
6775614 TATTCTGGTAAATAATTCGGTTTTAGTTC
1 TATTCTGGTAAATAATTCGGTTTTAGTGC
* *
6775643 TATTCTGGTAAATAATTCAGTTTTGGTGC
1 TATTCTGGTAAATAATTCGGTTTTAGTGC
* *
6775672 TATTTTGGTAAATAATTCGGTTTTTGTGC
1 TATTCTGGTAAATAATTCGGTTTTAGTGC
* * *** *
6775701 TATTCTAGTAATTAATTCGAAATGAGTGC
1 TATTCTGGTAAATAATTCGGTTTTAGTGC
*
6775730 TATTTTGGTAAATA
1 TATTCTGGTAAATA
6775744 TTTTAAAAAG
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 112 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (29 bp):
TATTCTGGTAAATAATTCGGTTTTAGTGC
Found at i:6775770 original size:87 final size:87
Alignment explanation
Indices: 6775580--6775763 Score: 206
Period size: 87 Copynumber: 2.1 Consensus size: 87
6775570 ACCGTTGACC
* * * *** * *
6775580 GGTGTTATTCTGGTAAATAATTCGGTTTTAGTGCTATTCTGGTAAATAATTCGGTTTTAGTTCTA
1 GGTGCTATTTTGGTAAATAATTCGGTTTTAGTGCTATTCTAGTAAATAATTCGAAATGAGTGCTA
*****
6775645 TTCTGGTAAATAATTCAGTTTT
66 TTCTGGTAAATAATTCAAAAAG
* *
6775667 GGTGCTATTTTGGTAAATAATTCGGTTTTTGTGCTATTCTAGTAATTAATTCGAAATGAGTGCTA
1 GGTGCTATTTTGGTAAATAATTCGGTTTTAGTGCTATTCTAGTAAATAATTCGAAATGAGTGCTA
* * *
6775732 TTTTGGTAAATATTTTAAAAAG
66 TTCTGGTAAATAATTCAAAAAG
6775754 GGTGCTATTT
1 GGTGCTATTT
6775764 GTGTAAAATG
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (87 bp):
GGTGCTATTTTGGTAAATAATTCGGTTTTAGTGCTATTCTAGTAAATAATTCGAAATGAGTGCTA
TTCTGGTAAATAATTCAAAAAG
Found at i:6783677 original size:10 final size:10
Alignment explanation
Indices: 6783662--6783708 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
6783652 TTTGTTTTTC
6783662 AAAAAAAACAA
1 AAAAAAAAC-A
6783673 AAAAAAAACA
1 AAAAAAAACA
**
6783683 AAAAAAGGC-
1 AAAAAAAACA
6783692 -AAAAAAACA
1 AAAAAAAACA
6783701 AAAAAAAA
1 AAAAAAAA
6783709 GCCAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
8 6 0.20
10 15 0.50
11 9 0.30
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:6783696 original size:11 final size:9
Alignment explanation
Indices: 6783661--6783707 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
6783651 ATTTGTTTTT
6783661 CAAAAAAAA
1 CAAAAAAAA
6783670 CAAAAAAAAAA
1 C--AAAAAAAA
*
6783681 CAAAAAAAGG
1 CAAAAAAA-A
6783691 C-AAAAAAA
1 CAAAAAAAA
6783699 CAAAAAAAA
1 CAAAAAAAA
6783708 AGCCAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 1 0.03
9 21 0.66
10 1 0.03
11 9 0.28
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:6783708 original size:11 final size:11
Alignment explanation
Indices: 6783662--6783688 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6783652 TTTGTTTTTC
6783662 AAAAAAAACAA
1 AAAAAAAACAA
6783673 AAAAAAAACAA
1 AAAAAAAACAA
6783684 AAAAA
1 AAAAA
6783689 GGCAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:6790609 original size:3 final size:3
Alignment explanation
Indices: 6790601--6790651 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
6790591 GTGTTTTTTA
* ** *
6790601 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CGT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6790649 TAT
1 TAT
6790652 AATGTTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6790641 original size:24 final size:23
Alignment explanation
Indices: 6790609--6790672 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
6790599 TATATTATTA
*
6790609 TTATTATTATTATTATTATCATCG
1 TTATTATTATTATTATTATAAT-G
*
6790633 TTATTATTAATATTATTATAATG
1 TTATTATTATTATTATTATAATG
*
6790656 TTATT-TT-TTATTTTTAT
1 TTATTATTATTATTATTAT
6790673 TTACAAGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 8 0.22
22 2 0.06
23 6 0.17
24 20 0.56
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (23 bp):
TTATTATTATTATTATTATAATG
Found at i:6790983 original size:6 final size:6
Alignment explanation
Indices: 6790967--6791001 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
6790957 CAATAAGGTA
6790967 AAAAAGT AAAAA- AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
6791002 AAGAAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:6790983 original size:12 final size:11
Alignment explanation
Indices: 6790966--6791008 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
6790956 GCAATAAGGT
*
6790966 AAAAAAGTAAA
1 AAAAAAATAAA
6790977 AAAAAAATAAA
1 AAAAAAATAAA
6790988 AATAAAAATAAA
1 AA-AAAAATAAA
6791000 AAAAGAAAT
1 AAAA-AAAT
6791009 CATTTCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:6792519 original size:2 final size:2
Alignment explanation
Indices: 6792512--6792557 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
6792502 AGTAGGGTCA
*
6792512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6792554 AT AT
1 AT AT
6792558 TTAAATTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6792807 original size:22 final size:23
Alignment explanation
Indices: 6792777--6792831 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
6792767 TTAACTTTTA
*
6792777 TTAATATATTATT-ATGATAATT
1 TTAAAATATTATTAATGATAATT
* *
6792799 TTAAAATA-TATTAATTATACTT
1 TTAAAATATTATTAATGATAATT
6792821 TTAAAATATTA
1 TTAAAATATTA
6792832 ATTTAACCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 22 0.79
23 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAAATATTATTAATGATAATT
Found at i:6794154 original size:16 final size:16
Alignment explanation
Indices: 6794117--6794155 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6794107 CAAATGAAAG
*
6794117 CATGCAAAGCAGATAC
1 CATGCAAAGCAGATAA
*
6794133 CGTGCAAAGCAGATAA
1 CATGCAAAGCAGATAA
6794149 CATGCAA
1 CATGCAA
6794156 TTAGGATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.13
Consensus pattern (16 bp):
CATGCAAAGCAGATAA
Found at i:6795975 original size:17 final size:17
Alignment explanation
Indices: 6795931--6795975 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
6795921 AGAGCAAAAA
* *
6795931 AAAAAGAGATAAGATAG
1 AAAAAGAGAAAAGAAAG
6795948 AAAAAGA-AAAAGAAAG
1 AAAAAGAGAAAAGAAAG
*
6795964 AAAAATAGAAAA
1 AAAAAGAGAAAA
6795976 AGTAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (17 bp):
AAAAAGAGAAAAGAAAG
Found at i:6795986 original size:19 final size:18
Alignment explanation
Indices: 6795948--6796042 Score: 58
Period size: 19 Copynumber: 5.4 Consensus size: 18
6795938 GATAAGATAG
6795948 AAAA-AGAAAAAGAAAGA
1 AAAATAGAAAAAGAAAGA
*
6795965 AAAATAGAAAAAGTAAATA
1 AAAATAGAAAAAG-AAAGA
** **
6795984 AAAATTCAAAAGAGAGTGA
1 AAAATAGAAAA-AGAAAGA
*
6796003 GAAA-AGCAAAAAG-AAG-
1 AAAATAG-AAAAAGAAAGA
*
6796019 AAAATA-AGAAAGAAA-A
1 AAAATAGAAAAAGAAAGA
6796035 AAAATAGA
1 AAAATAGA
6796043 TCAAGTACTT
Statistics
Matches: 57, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
15 5 0.09
16 11 0.19
17 7 0.12
18 10 0.18
19 22 0.39
20 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (18 bp):
AAAATAGAAAAAGAAAGA
Found at i:6797305 original size:17 final size:17
Alignment explanation
Indices: 6797279--6797316 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6797269 TCATGAGGTT
6797279 AAGACCCAACAAAAATA
1 AAGACCCAACAAAAATA
* *
6797296 AAGACTCAACAAAGATA
1 AAGACCCAACAAAAATA
6797313 AAGA
1 AAGA
6797317 AGCAAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.18, G:0.11, T:0.08
Consensus pattern (17 bp):
AAGACCCAACAAAAATA
Found at i:6797846 original size:79 final size:79
Alignment explanation
Indices: 6797710--6798247 Score: 565
Period size: 79 Copynumber: 6.8 Consensus size: 79
6797700 TAGGTAGAAA
* *
6797710 AAGTTCATAATGAGAAAAACTTGTT-AACCTTTGA-TCGATTCCATCATAGAAAGAGGTGGAT-A
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTT-ACTCGATTCCATCATAGAAGGAGGTGGATCA
6797772 ACAATTTCCAATGACA-
65 AC-ATTTCCAATGA-AG
* *
6797788 AAATTTATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATCATAGAAGGAGGTGGATCAA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATCATAGAAGGAGGTGGATCAA
* *
6797853 TATTTCGAA-GAAG
66 CATTTCCAATGAAG
* * *
6797866 AAGTTCATAATTAGAAGAACTTGTTTAACATTTACTCGATTCCATCATAGAAGGAGGTGGATCAA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATCATAGAAGGAGGTGGATCAA
6797931 CATTTCCAATGAAG
66 CATTTCCAATGAAG
* * * * *
6797945 AGGTTCATAGTGAGAAGAACTTGTTCAACCTTCACTCGATTCCATCACAGAAAGAGGTGGATCAA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATCATAGAAGGAGGTGGATCAA
* *
6798010 CATTTCAAATGAAT
66 CATTTCCAATGAAG
* * ** * * * *
6798024 AAATTAATAAT--G-AGAACTTGTTCAATTTTTTCTCGAATCCTTCGTAGAAGGAGGTGGATCAA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATCATAGAAGGAGGTGGATCAA
*
6798086 CATTTCCAGTGAAG
66 CATTTCCAATGAAG
* * * * * *
6798100 AAGTTCATAATGAGAAGAACTTGCTCAACCTTT-GTCTGATTCCATCATGGAATGAGTTAGATCA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTC-GATTCCATCATAGAAGGAGGTGGATCA
*
6798164 ACATTCTCAAAATG-AG
65 ACATT-TC-CAATGAAG
* * *** * * * * *
6798180 AAGTTCGTAATGAGAAGAATTTGCAAAAGCATTCACTCGATTCCATCACATAAGGAGTTGGATCA
1 AAGTTCATAATGAGAAGAACTTGTTCAA-CCTTTACTCGATTCCATCATAGAAGGAGGTGGATCA
6798245 ACA
65 ACA
6798248 CCAACACTAC
Statistics
Matches: 381, Mismatches: 66, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
76 61 0.16
77 2 0.01
78 95 0.25
79 160 0.42
80 30 0.08
81 31 0.08
82 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (79 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATCATAGAAGGAGGTGGATCAA
CATTTCCAATGAAG
Found at i:6797961 original size:157 final size:156
Alignment explanation
Indices: 6797705--6798247 Score: 571
Period size: 155 Copynumber: 3.5 Consensus size: 156
6797695 TCGATTAGGT
* * * *
6797705 AGAAAAAGTTCATAATGAGAAAAACTTG-TTAACCTTTGA-TCGATTCCATCATAGAAAGAGGTG
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTTAACATTT-ACTCGATTCCATCATAGAAGGAGGTG
* *
6797768 GAT-AACAATTTCCAATGACA-AAATTTATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCC
65 GATCAAC-ATTTCCAATGA-AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCC
* *
6797831 ATCATAGAAGGAGGTGGATCAATATTTCGA
128 ATCATAGAAAGAGGTGGATCAACATTTC-A
*
6797861 AGAAGAAGTTCATAATTAGAAGAACTTGTTTAACATTTACTCGATTCCATCATAGAAGGAGGTGG
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTTAACATTTACTCGATTCCATCATAGAAGGAGGTGG
* * *
6797926 ATCAACATTTCCAATGAAGAGGTTCATAGTGAGAAGAACTTGTTCAACCTTCACTCGATTCCATC
66 ATCAACATTTCCAATGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATC
*
6797991 ACAGAAAGAGGTGGATCAACATTTCAA
131 ATAGAAAGAGGTGGATCAACATTTC-A
* * * * ** * * * *
6798018 ATGAATAAATTAATAAT--G-AGAACTTGTTCAATTTTTTCTCGAATCCTTCGTAGAAGGAGGTG
1 A-GAAGAAGTTCATAATGAGAAGAACTTGTTTAACATTTACTCGATTCCATCATAGAAGGAGGTG
* * *
6798080 GATCAACATTTCCAGTGAAGAAGTTCATAATGAGAAGAACTTGCTCAACCTTT-GTCTGATTCCA
65 GATCAACATTTCCAATGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTC-GATTCCA
* * * *
6798144 TCATGGAATGAGTTAGATCAACATTCTCA
129 TCATAGAAAGAGGTGGATCAACATT-TCA
* * * *** * * * *
6798173 AAATGAGAAGTTCGTAATGAGAAGAATTTGCAAAAGCATTCACTCGATTCCATCACATAAGGAGT
1 AGA--AGAAGTTCATAATGAGAAGAACTTGTTTAA-CATTTACTCGATTCCATCATAGAAGGAGG
6798238 TGGATCAACA
63 TGGATCAACA
6798248 CCAACACTAC
Statistics
Matches: 320, Mismatches: 54, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
154 3 0.01
155 114 0.36
156 39 0.12
157 110 0.34
158 16 0.05
159 9 0.03
160 29 0.09
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (156 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTTAACATTTACTCGATTCCATCATAGAAGGAGGTGG
ATCAACATTTCCAATGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATC
ATAGAAAGAGGTGGATCAACATTTCA
Found at i:6798107 original size:155 final size:157
Alignment explanation
Indices: 6797716--6798131 Score: 513
Period size: 157 Copynumber: 2.7 Consensus size: 157
6797706 GAAAAAGTTC
* * * * *
6797716 ATAATGAGAAAAACTTGTT-AACCTTTGA-TCGATTCCATCATAGAAAGAGGTGGAT-AACAATT
1 ATAATTAGAAGAACTTGTTCAACATTT-ACTCGAATCCATCATAGAAGGAGGTGGATCAAC-ATT
* * * * *
6797778 TCCAATGACA-AAATTTATAATGAGAAGAACTTGTTCAACCTTTACTCGATTCCATCATAGAAGG
64 TCCAATGA-AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTCACTCGATTCCATCACAGAAAG
* * * *
6797842 AGGTGGATCAATATTTCGAAGAAGAAGTTC
128 AGGTGGATCAACATTTCAAAGAAGAAATTA
* *
6797872 ATAATTAGAAGAACTTGTTTAACATTTACTCGATTCCATCATAGAAGGAGGTGGATCAACATTTC
1 ATAATTAGAAGAACTTGTTCAACATTTACTCGAATCCATCATAGAAGGAGGTGGATCAACATTTC
* *
6797937 CAATGAAGAGGTTCATAGTGAGAAGAACTTGTTCAACCTTCACTCGATTCCATCACAGAAAGAGG
66 CAATGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTCACTCGATTCCATCACAGAAAGAGG
*
6798002 TGGATCAACATTTCAAATGAATAAATTA
131 TGGATCAACATTTCAAA-GAAGAAATTA
** * * *
6798030 ATAA-T-G-AGAACTTGTTCAATTTTTTCTCGAATCCTTCGTAGAAGGAGGTGGATCAACATTTC
1 ATAATTAGAAGAACTTGTTCAACATTTACTCGAATCCATCATAGAAGGAGGTGGATCAACATTTC
* *
6798092 CAGTGAAGAAGTTCATAATGAGAAGAACTTGCTCAACCTT
66 CAATGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
6798132 TGTCTGATTC
Statistics
Matches: 228, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
155 85 0.37
156 20 0.09
157 109 0.48
158 14 0.06
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (157 bp):
ATAATTAGAAGAACTTGTTCAACATTTACTCGAATCCATCATAGAAGGAGGTGGATCAACATTTC
CAATGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTCACTCGATTCCATCACAGAAAGAGG
TGGATCAACATTTCAAAGAAGAAATTA
Found at i:6800478 original size:131 final size:129
Alignment explanation
Indices: 6800306--6800618 Score: 414
Period size: 131 Copynumber: 2.4 Consensus size: 129
6800296 CCTTTCGTAC
* * *
6800306 CTTAAAGCAGTCATTTATTGTTCCAATCGAAAT-AAAGAGATATGACTATTCCATCTTAAAAATC
1 CTTAAAGCA-TCATTTATTGCTCCAATCGAAATGAAA-AGATATTACTATTCCATCTCAAAAATC
** * * * *
6800370 AATATT-AATTTGAGAGAAAACGGTAATATTGAATTATTTCCAATCGATAATAAATGCCCTCTCA
64 AATATTGAA-TCAAGAGAAAACGATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCA
6800434 TGG
128 T-G
* *
6800437 CTTAAAGCATCCATTTATTGCTCCAATCGAAATGAAAAGATATTACTCTTCCGTCTCAAAAATCA
1 CTTAAAGCAT-CATTTATTGCTCCAATCGAAATGAAAAGATATTACTATTCCATCTCAAAAATCA
6800502 ATATTGAATCAAGAGAAAACGATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATG
65 ATATTGAATCAAGAGAAAACGATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATG
* * * *
6800567 CGTTAAAGCAATCATTTATTACCCCAACCAAAATGAAAAGATATTACTATTC
1 C-TTAAAGC-ATCATTTATTGCTCCAATCGAAATGAAAAGATATTACTATTC
6800619 TCAATATCGA
Statistics
Matches: 161, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
130 3 0.02
131 151 0.94
132 7 0.04
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (129 bp):
CTTAAAGCATCATTTATTGCTCCAATCGAAATGAAAAGATATTACTATTCCATCTCAAAAATCAA
TATTGAATCAAGAGAAAACGATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATG
Found at i:6801733 original size:2 final size:2
Alignment explanation
Indices: 6801726--6801773 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6801716 CCGTTTCATG
6801726 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
6801768 AT AT AT
1 AT AT AT
6801774 CATTACACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6803871 original size:191 final size:191
Alignment explanation
Indices: 6803479--6803871 Score: 538
Period size: 191 Copynumber: 2.1 Consensus size: 191
6803469 AAGAATCAAG
* * *
6803479 CTCGAAAGACTTACTGATGGCCCAAAGGACTTACAAAATTTGGGAATAGTTTACTAGGTAAGAAA
1 CTCGAAAGACTCACTGATGGCCCAAAGAACTTACAAAATTTGGAAATAGTTTACTAGGTAAGAAA
** * * * *
6803544 TTTTTCTTCCTTTTAAAAAAAATCAATTTTCATATTTAAATGAGAAACTTTTCTCCTTTTTCGAA
66 CGTTTCTTACTTTTAAAAAAAATCAATTTTCATATTTAAATGAGAAACATTTCTCATTTTTAGAA
* * * *
6803609 AGACATGTGGAAACATCTTTCCCGAAGGTCTTATGGATGTCCCGAAGGACTTATCATCACT
131 AGACATGCGAAAACATCTTGCCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCACT
* ** * *
6803670 CTCAAAAGACTCACTGATGGCCTGAAGAACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAA
1 CTCGAAAGACTCACTGATGGCCCAAAGAACTTACAAAATTTGGAAATAGTTTACTAGGTAAGAAA
* *
6803735 CGTTTCTTACTTTT-CAAAAATTCCAATTTTCATATTTAAATGAGAAACATTTCTCATTTTTAGA
66 CGTTTCTTACTTTTAAAAAAAAT-CAATTTTCATATTTAAATGAGAAACATTTCTCATTTTTAGA
* * * *
6803799 GAGACGTGCGAAAACATCTTGCCCGAAGGTCTTATGGATGACCCTAAGGACTTATCATC-TT
130 AAGACATGCGAAAACATCTTGCCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCACT
6803860 CCTCGAAAGACT
1 -CTCGAAAGACT
6803872 TAAAAATGAC
Statistics
Matches: 175, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
190 7 0.04
191 168 0.96
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (191 bp):
CTCGAAAGACTCACTGATGGCCCAAAGAACTTACAAAATTTGGAAATAGTTTACTAGGTAAGAAA
CGTTTCTTACTTTTAAAAAAAATCAATTTTCATATTTAAATGAGAAACATTTCTCATTTTTAGAA
AGACATGCGAAAACATCTTGCCCGAAGGTCTTATGGATGACCCGAAGGACTTATCATCACT
Found at i:6804489 original size:234 final size:232
Alignment explanation
Indices: 6803670--6804747 Score: 1231
Period size: 233 Copynumber: 4.7 Consensus size: 232
6803660 TATCATCACT
* * * * *
6803670 CTCAAAAGACTCACTGATGGCCTGAAGAACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAA
1 CTCAAAAGACTTACTGATGGCCCGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAA
* * ** * * *
6803735 CGTTTCTTACTTTTCAAAAATTCCAATTTTCATATTTAAATGAGAAACATTTCTCATTTTTAGAG
66 CTTTTCTTACTTTTCAAAATTTTAAATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCGAG
* * * * * *
6803800 AGACGTGCGAAAACATCTTGCCCGAAGGTCTTATGGATGACCCTAAGGACTTATCATCTTCCTCG
131 AGACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATG-GCCTAAGGACTTATCATCTTGCTCA
* * *
6803865 AAAGACTTAAAAATGA-CCTGAAGGATTTAAGCATCAGG
195 AAAGACTTATAGATGATCC-GAAGGATTTAAGCATCATG
* * * * * * *
6803903 CTCGAAAGACTTACTGATGGCCCGAGGAACTTACTAATTTTGGAAACAATTTACTTGTTAAGAGA
1 CTCAAAAGACTTACTGATGGCCCGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAA
* * * *
6803968 CTTTCCTTACTTTTCAACAATTTT-AACTTTCAGATTTAAATGAGAAACTTTTCTCATTTCTCGA
66 CTTTTCTTACTTTTCAA-AATTTTAAATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCGA
* *
6804032 GAGAC--------ACATCCTGCCCAAAGGTCTTATGGA-----T---GACTTATCATCTTGCTTA
130 GAGACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCTAAGGACTTATCATCTTGCTCA
* * * *
6804081 AAAGACTTACAGATGATCTGAATGATTTAAGAATCATG
195 AAAGACTTATAGATGATCCGAAGGATTTAAGCATCATG
* * * *
6804119 CTAAAAAAACTTACTGATGGCCCGAGGGACTTACTAATTTAGGAAATAGTTTACTAGTTAAGAAA
1 CTCAAAAGACTTACTGATGGCCCGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAA
* * * * * *
6804184 CTTTCCTTACTTTTGAAAATTTTAAAATTTCATATTTAAATGAGAAGCGATTCTCATTTTTCGAG
66 CTTTTCTTACTTTTCAAAATTTTAAATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCGAG
* * *
6804249 AGACATGTGAAAACATCCTGCCCGAAGGTCTTTTGGATGGCCTGAAAGACTTATAATCTTGCTCA
131 AGACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCT-AAGGACTTATCATCTTGCTC-
*
6804314 AAAAGACTTATAGATGATCCGAATGATTTAAGCATCATG
194 AAAAGACTTATAGATGATCCGAAGGATTTAAGCATCATG
** * * * *
6804353 CTTGAAAGACATATTGATAGCTCGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAA
1 CTCAAAAGACTTACTGATGGCCCGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAA
* * * * *
6804418 CTTTTCTTACTTTTCAAAATTTTCAATTTTTAGATTTAACTAAGAAACTTTTCTCATTTTTCGAG
66 CTTTTCTTACTTTTCAAAATTTTAAATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCGAG
* * *
6804483 AGACATGTGAAAACATCCTGCTCGAAGGTCTTATGGATGGCCCTAAGGACTTATCATATTGCTCG
131 AGACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGG-CCTAAGGACTTATCATCTTGCTCA
* * * **
6804548 AAAGGCTCATAGATGACCCGAAGGATTTACTCATCATG
195 AAAGACTTATAGATGATCCGAAGGATTTAAGCATCATG
* * * * *
6804586 CTCAAAAGACTTATTAATGGCCCGAATGG-CTTGCCAATTTTGGAAATAGTTTACTAGGTAAGAA
1 CTCAAAAGACTTACTGATGGCCCG-AGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAA
*
6804650 ACTTTTCTTACTTTTCAAAAATTTAAATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCGA
65 ACTTTTCTTACTTTTCAAAATTTTAAATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCGA
* ** *
6804715 GAAACATGTGAAAACATTATGCCCAAAGGTCTT
130 GAGACATGTGAAAACATCCTGCCCGAAGGTCTT
6804748 GTAGATACCT
Statistics
Matches: 717, Mismatches: 105, Indels: 46
0.83 0.12 0.05
Matches are distributed among these distances:
215 6 0.01
216 156 0.22
217 1 0.00
219 1 0.00
224 23 0.03
225 23 0.03
229 1 0.00
233 295 0.41
234 208 0.29
235 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (232 bp):
CTCAAAAGACTTACTGATGGCCCGAGGGACTTACTAATTTTGGAAATAGTTTACTAGGTAAGAAA
CTTTTCTTACTTTTCAAAATTTTAAATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCGAG
AGACATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCTAAGGACTTATCATCTTGCTCAA
AAGACTTATAGATGATCCGAAGGATTTAAGCATCATG
Found at i:6804572 original size:41 final size:42
Alignment explanation
Indices: 6804501--6804581 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 42
6804491 GAAAACATCC
* * * *
6804501 TGCTCGAAGGTCTTATGGATGGCCCTAAGGACTTA-TCATAT
1 TGCTCGAAGGTCTCATAGATGACCCGAAGGACTTACTCATAT
*
6804542 TGCTCGAAAGG-CTCATAGATGACCCGAAGGATTTACTCAT
1 TGCTCG-AAGGTCTCATAGATGACCCGAAGGACTTACTCAT
6804582 CATGCTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
41 25 0.76
42 8 0.24
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (42 bp):
TGCTCGAAGGTCTCATAGATGACCCGAAGGACTTACTCATAT
Found at i:6814272 original size:12 final size:12
Alignment explanation
Indices: 6814255--6814287 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
6814245 ACCCTCCCTC
6814255 ATTGAGAGATAG
1 ATTGAGAGATAG
6814267 ATTGAGAGATAG
1 ATTGAGAGATAG
6814279 ATTGAGAGA
1 ATTGAGAGA
6814288 AAATCCTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.24
Consensus pattern (12 bp):
ATTGAGAGATAG
Found at i:6818512 original size:39 final size:39
Alignment explanation
Indices: 6818469--6818562 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
6818459 ATTAATAAAT
* * * *
6818469 TTAATAATGATCATTGGATTAATAAATTTATTTTTTATA
1 TTAATTATGATCATTAGATTAATAAATTTAATTTCTATA
6818508 TTAATTATGATCATTAGATTAATAAATTTAATTTCTATA
1 TTAATTATGATCATTAGATTAATAAATTTAATTTCTATA
*
6818547 TTAATTATGATTATTA
1 TTAATTATGATCATTA
6818563 TGTTAGAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.51
Consensus pattern (39 bp):
TTAATTATGATCATTAGATTAATAAATTTAATTTCTATA
Found at i:6818607 original size:17 final size:16
Alignment explanation
Indices: 6818585--6818618 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6818575 AATTATAAAC
6818585 AATAAATTGATTAATTA
1 AATAAATT-ATTAATTA
*
6818602 AATAAATTATTTATTA
1 AATAAATTATTAATTA
6818618 A
1 A
6818619 TTATTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AATAAATTATTAATTA
Found at i:6819358 original size:30 final size:31
Alignment explanation
Indices: 6819290--6819358 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
6819280 GAAAAAGTTT
* *
6819290 AAATAGTTTAGGTATCTATTTTGACTAAAAA
1 AAATACTTTAAGTATCTATTTTGACTAAAAA
* *
6819321 ATA-ACTTTAAGTATTTATTTTGA-TAAAAA
1 AAATACTTTAAGTATCTATTTTGACTAAAAA
6819350 AAATACTTT
1 AAATACTTT
6819359 TGGAAGTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 8 0.25
30 22 0.69
31 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (31 bp):
AAATACTTTAAGTATCTATTTTGACTAAAAA
Found at i:6820173 original size:4 final size:4
Alignment explanation
Indices: 6820166--6820228 Score: 67
Period size: 4 Copynumber: 16.0 Consensus size: 4
6820156 CCATTTATTA
* * *
6820166 ATGT ATGT ATGT ATGT ATTT ATGT ATGT -TTT GATGC ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT
*
6820214 ATAT ATGT ATG- ATGT
1 ATGT ATGT ATGT ATGT
6820229 GAGTCACACC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 5 0.10
4 42 0.88
5 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.22, T:0.51
Consensus pattern (4 bp):
ATGT
Found at i:6820640 original size:11 final size:11
Alignment explanation
Indices: 6820624--6820657 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
6820614 GAGAGTGAGG
6820624 ACCTCATGTAT
1 ACCTCATGTAT
6820635 ACCTCATGTAT
1 ACCTCATGTAT
6820646 ACCTCATGTAT
1 ACCTCATGTAT
6820657 A
1 A
6820658 ATTACCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (11 bp):
ACCTCATGTAT
Found at i:6826189 original size:44 final size:44
Alignment explanation
Indices: 6826118--6826380 Score: 337
Period size: 44 Copynumber: 6.0 Consensus size: 44
6826108 TTGTTCTAAA
* * * * * *
6826118 ATAAATAAAAATGCATAATAGTTCATTATTGTCAAAAAGGTGCC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGCC
** * * **
6826162 ATAAATGAAAAACCATAACAATGCATTATTAGCAGAAATGTATC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGCC
* *
6826206 ATAAATAAAAATGCATAATAGTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGCC
*
6826250 ATAAATGAAAATGCATAACAATGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGCC
* * * *
6826294 ATAAATGAAAATGCATAACGGTGCATTATTGGCATAAATATGTC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGCC
* *
6826338 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGC
6826381 TTCTCATGGT
Statistics
Matches: 187, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 187 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATGTGCC
Found at i:6839078 original size:20 final size:21
Alignment explanation
Indices: 6839008--6839062 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
6838998 CAGTTTCTAA
6839008 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGAATATCCAG
6839029 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGAATATCCAG
6839050 ATTCGCAACGCGA
1 ATTCGCAACGCGA
6839063 TTTTAAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (21 bp):
ATTCGCAACGCGAATATCCAG
Found at i:6839083 original size:20 final size:20
Alignment explanation
Indices: 6839048--6839086 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6839038 GCGAATATCC
*
6839048 AGATTCGCAACGCGATTTTA
1 AGATTCGCAACACGATTTTA
6839068 AGATTCGCAACACGATTTT
1 AGATTCGCAACACGATTTT
6839087 GAAAAATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (20 bp):
AGATTCGCAACACGATTTTA
Found at i:6839161 original size:44 final size:41
Alignment explanation
Indices: 6839084--6839165 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
6839074 GCAACACGAT
* *
6839084 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
6839125 TTTGAAAAACATGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTG-AAAA-ATG-TGTTGCGATAGTGAAAAAGTGTTGCGA
6839166 TAGTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 4 0.11
42 4 0.11
43 3 0.08
44 25 0.69
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
Found at i:6839175 original size:19 final size:20
Alignment explanation
Indices: 6839086--6839176 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
6839076 AACACGATTT
6839086 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
6839106 T-TAAAATGTGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
6839125 TTTGAAAAACATGTTGTTGCGATAG
1 --TG-AAAA-ATG-TGTTGCGATAG
6839150 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
6839169 TGAAAAAT
1 TGAAAAAT
6839177 TCAAATAAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 34 0.57
20 2 0.03
21 2 0.03
22 4 0.07
23 5 0.08
24 3 0.05
25 10 0.17
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:6841189 original size:42 final size:42
Alignment explanation
Indices: 6841098--6841190 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
6841088 GGCGTTTCAG
* * * * *
6841098 CTCAAATGCCTCAATATAGTGGTAATATAGTGGCATTTATAC
1 CTCAAATGCCGCAATAGAATGATAATATAGCGGCATTTATAC
** *
6841140 CGAAAATGCCGCAATAGAATGATAA-ATTAGCGGCGTTTATAC
1 CTCAAATGCCGCAATAGAATGATAATA-TAGCGGCATTTATAC
6841182 CTCAAATGC
1 CTCAAATGC
6841191 TGGAATAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (42 bp):
CTCAAATGCCGCAATAGAATGATAATATAGCGGCATTTATAC
Found at i:6841252 original size:13 final size:13
Alignment explanation
Indices: 6841234--6841283 Score: 91
Period size: 13 Copynumber: 3.8 Consensus size: 13
6841224 CAAATGCCAT
6841234 AATAGTGTTAATC
1 AATAGTGTTAATC
6841247 AATAGTGTTAATC
1 AATAGTGTTAATC
6841260 AATAGTGTTAATC
1 AATAGTGTTAATC
*
6841273 AATAATGTTAA
1 AATAGTGTTAA
6841284 ATATATGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (13 bp):
AATAGTGTTAATC
Found at i:6851604 original size:19 final size:19
Alignment explanation
Indices: 6851576--6851612 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6851566 ATATTAACCA
*
6851576 GTCCGAACCGGTCTGACCG
1 GTCCGAACCGATCTGACCG
*
6851595 GTCCGCACCGATCTGACC
1 GTCCGAACCGATCTGACC
6851613 TGACTCGACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.41, G:0.27, T:0.16
Consensus pattern (19 bp):
GTCCGAACCGATCTGACCG
Found at i:6851652 original size:18 final size:18
Alignment explanation
Indices: 6851608--6851670 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
6851598 CGCACCGATC
* *
6851608 TGACCTGACTCGACCCGT
1 TGACCCGACCCGACCCGT
6851626 TGA-CCGACCCGACCCGT
1 TGACCCGACCCGACCCGT
*
6851643 TGACCCGACCCGACCCAT
1 TGACCCGACCCGACCCGT
*
6851661 TGACCTGACC
1 TGACCCGACC
6851671 TGGTGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.38
18 25 0.62
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.16
Consensus pattern (18 bp):
TGACCCGACCCGACCCGT
Found at i:6851728 original size:29 final size:29
Alignment explanation
Indices: 6851674--6851807 Score: 137
Period size: 30 Copynumber: 4.6 Consensus size: 29
6851664 CCTGACCTGG
*
6851674 TGATATTTTGGGAATT-TTTTTAAAAACAA
1 TGATATTTTGGTAATTATTTTT-AAAACAA
* *
6851703 TGACATTCTGGTAATTATTTTTAAAACAA
1 TGATATTTTGGTAATTATTTTTAAAACAA
* ** *
6851732 TGATATTTTTGGGAATTATTAGTAAAACGA
1 TGATA-TTTTGGTAATTATTTTTAAAACAA
*
6851762 TGATATTTTGGTAATTATTTTTAATAA-AGG
1 TGATATTTTGGTAATTATTTTTAA-AACA-A
*
6851792 TGATATTTTTGTAATT
1 TGATATTTTGGTAATT
6851808 TTCGAATGTG
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
29 40 0.47
30 46 0.53
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (29 bp):
TGATATTTTGGTAATTATTTTTAAAACAA
Found at i:6851774 original size:59 final size:60
Alignment explanation
Indices: 6851674--6851802 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 60
6851664 CCTGACCTGG
**
6851674 TGATA-TTTTGGGAATTTTTTTAAAAACAATGACATTCTGGTAATTATTTTTAA-AACA-A
1 TGATATTTTTGGGAATTTTAGTAAAAACAATGACATTCTGGTAATTATTTTTAATAA-AGA
* * * *
6851732 TGATATTTTTGGGAATTATTAGT-AAAACGATGATATTTTGGTAATTATTTTTAATAAAGG
1 TGATATTTTTGGGAATT-TTAGTAAAAACAATGACATTCTGGTAATTATTTTTAATAAAGA
6851792 TGATATTTTTG
1 TGATATTTTTG
6851803 TAATTTTCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 5 0.08
59 40 0.66
60 16 0.26
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.46
Consensus pattern (60 bp):
TGATATTTTTGGGAATTTTAGTAAAAACAATGACATTCTGGTAATTATTTTTAATAAAGA
Found at i:6859243 original size:30 final size:32
Alignment explanation
Indices: 6859189--6859250 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
6859179 CATTTTGGGA
* *
6859189 ATTTTTAGTAAAACGGTGATATTTTGGTAATT
1 ATTTTTAATAAAACGGTAATATTTTGGTAATT
*
6859221 ATTTTTAAT-AAA-GGTAATATTTTTGTAATT
1 ATTTTTAATAAAACGGTAATATTTTGGTAATT
6859251 TTCGAATGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 16 0.59
31 3 0.11
32 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.50
Consensus pattern (32 bp):
ATTTTTAATAAAACGGTAATATTTTGGTAATT
Found at i:6863489 original size:43 final size:44
Alignment explanation
Indices: 6863250--6863558 Score: 235
Period size: 43 Copynumber: 7.1 Consensus size: 44
6863240 TATTTAGCGA
* * *
6863250 CGTTTGTAACA-AAAAACGCCGC-AATATATC-ATACAT-TTAGTGG
1 CGTTTGT-ACAGAAAAACGCCGCTAA-ATATCAAAACCTATT-GCGG
* * * *
6863293 CGTTTGTATCAG-AAAACGCCGCAAAATGTTAATACCTATTGCGG
1 CGTTTGTA-CAGAAAAACGCCGCTAAATATCAAAACCTATTGCGG
* **** * * * *
6863337 CGTTTATTGTTACAAACGCCGCTATATA-C-CAACCTTTTGCGG
1 CGTTTGTACAGAAAAACGCCGCTAAATATCAAAACCTATTGCGG
* * * * * *
6863379 CGTTTGTATCATAAAAGCGCTGCTATATA-CTAGACCT-TTAGCGG
1 CGTTTGTA-CAGAAAAACGCCGCTAAATATCAAAACCTATT-GCGG
**
6863423 CGTTTGTATCCTAAAAACGCCGCTAAATATCAAAACCTATTGCGG
1 CGTTTGTA-CAGAAAAACGCCGCTAAATATCAAAACCTATTGCGG
*
6863468 CGTTTGTA-AGAAAAACGCCGCTAAATCTCAAAACCTATTGCGG
1 CGTTTGTACAGAAAAACGCCGCTAAATATCAAAACCTATTGCGG
* *
6863511 CGTTTGTA-AGAAAAACGCCGCTAAATATCAGAACATATTGCGG
1 CGTTTGTACAGAAAAACGCCGCTAAATATCAAAACCTATTGCGG
6863554 CGTTT
1 CGTTT
6863559 TTCGTTAACA
Statistics
Matches: 217, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
42 17 0.08
43 117 0.54
44 61 0.28
45 20 0.09
46 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
CGTTTGTACAGAAAAACGCCGCTAAATATCAAAACCTATTGCGG
Found at i:6869331 original size:15 final size:15
Alignment explanation
Indices: 6869311--6869340 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6869301 GAGCACCATT
*
6869311 AATTTAATTTATAAA
1 AATTTAAATTATAAA
6869326 AATTTAAATTATAAA
1 AATTTAAATTATAAA
6869341 TAACTCAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTAAATTATAAA
Found at i:6869416 original size:23 final size:23
Alignment explanation
Indices: 6869358--6869416 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
6869348 ACGTATAATT
6869358 ATAAATTAGTTAACAATTTAAAG
1 ATAAATTAGTTAACAATTTAAAG
*
6869381 ATAAACTAGTTAACAATTTAAAG
1 ATAAATTAGTTAACAATTTAAAG
*
6869404 ATAAATTATTTAA
1 ATAAATTAGTTAA
6869417 AATAAACGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAAATTAGTTAACAATTTAAAG
Found at i:6871464 original size:2 final size:2
Alignment explanation
Indices: 6871459--6871552 Score: 66
Period size: 2 Copynumber: 46.0 Consensus size: 2
6871449 TATTTGCATT
* * * * *
6871459 TA TA TA TA TA TA CA TA TA GA CTA TA GA T- TG TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
** *
6871501 TA CTA TA GG T- TA TA TA TA TA TA TA TA TA TA TA GTT 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
6871544 CTA TA TA TA
1 -TA TA TA TA
6871553 GTTTACATGT
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
1 2 0.03
2 64 0.89
3 6 0.08
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6871498 original size:26 final size:23
Alignment explanation
Indices: 6871463--6871603 Score: 102
Period size: 24 Copynumber: 6.2 Consensus size: 23
6871453 TGCATTTATA
6871463 TATATATACATATAGACTATAGATT
1 TATATATACATATA-ACTATAG-TT
6871488 GTATATATACATAT-ACTATAGGTT
1 -TATATATACATATAACTATA-GTT
*
6871512 ATATATATATATATATA-TATAGTT
1 -TATATATACATATA-ACTATAGTT
6871536 TATATATAC-TAT-A-TATAGTT
1 TATATATACATATAACTATAGTT
* *
6871556 TACATGTATACATAT-ACTATAGGT
1 T--ATATATACATATAACTATAGTT
* *
6871580 TACATAT--AT-TAACTATTGTT
1 TATATATACATATAACTATAGTT
6871600 TATA
1 TATA
6871604 GACTATAGGT
Statistics
Matches: 97, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.01
20 21 0.22
22 14 0.14
23 12 0.12
24 30 0.31
25 5 0.05
26 14 0.14
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (23 bp):
TATATATACATATAACTATAGTT
Found at i:6871550 original size:20 final size:19
Alignment explanation
Indices: 6871517--6871571 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
6871507 AGGTTATATA
6871517 TATATATATATATATAGTT
1 TATATATATATATATAGTT
6871536 TATATATACTATATATAGTT
1 TATATATA-TATATATAGTT
* * *
6871556 TACATGTATACATATA
1 TATATATATATATATA
6871572 CTATAGGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
TATATATATATATATAGTT
Found at i:6871565 original size:24 final size:23
Alignment explanation
Indices: 6871493--6871601 Score: 72
Period size: 20 Copynumber: 4.9 Consensus size: 23
6871483 AGATTGTATA
* *
6871493 TATACATATACTATAGGTTATATAT
1 TATATATATACTATA-GTT-TACAT
6871518 ATATATATATA-TATAGTTT--A-
1 -TATATATATACTATAGTTTACAT
6871538 TATATACTATA-TATAGTTTACAT
1 TATATA-TATACTATAGTTTACAT
* *
6871561 GTATACATATACTATAGGTTACA-
1 -TATATATATACTATAGTTTACAT
*
6871584 TATAT-TA-ACTATTGTTTA
1 TATATATATACTATAGTTTA
6871602 TAGACTATAG
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
19 6 0.08
20 21 0.30
21 3 0.04
22 5 0.07
23 5 0.07
24 18 0.25
25 4 0.06
26 9 0.13
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (23 bp):
TATATATATACTATAGTTTACAT
Done.