Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 33
Found at i:5753771 original size:38 final size:37
Alignment explanation
Indices: 5753729--5753916 Score: 157
Period size: 38 Copynumber: 4.9 Consensus size: 37
5753719 TGAAAACACG
5753729 GTTTTGAAAACATATAATATATAATTTTCTTAAAAATT
1 GTTTTGAAAACATATAATATATAATTTT-TTAAAAATT
* * * * *
5753767 GTTTTTAAAAAATATATATAATATAGTCTTTGAAAACATAT
1 GTTTTGAAAACATATA-AT-ATATAATTTTTTAAAA-AT-T
* * *
5753808 -TATTGAAAACATATAATATATAGTTTTTTAAAAAGAT
1 GTTTTGAAAACATATAATATATAATTTTTTAAAAA-TT
* * *
5753845 -TTTTGAAAACATAAAATATATAATTTTTAAAAAATG
1 GTTTTGAAAACATATAATATATAATTTTTTAAAAATT
* *
5753881 GTTTTTGGAAAACATAT-ATAATATAGTTTTTGAAAA
1 G-TTTT-GAAAACATATAAT-ATATAATTTTTTAAAA
5753917 TATATAGTAT
Statistics
Matches: 121, Mismatches: 20, Indels: 17
0.77 0.13 0.11
Matches are distributed among these distances:
37 32 0.26
38 34 0.28
39 32 0.26
40 22 0.18
41 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (37 bp):
GTTTTGAAAACATATAATATATAATTTTTTAAAAATT
Found at i:5753864 original size:78 final size:80
Alignment explanation
Indices: 5753699--5753866 Score: 204
Period size: 78 Copynumber: 2.1 Consensus size: 80
5753689 ATAGTTTTTG
* *
5753699 AAAATATATAGTATAGTTTTTGAAAACACGGTTTTGAAAACATATAATATATAATTTTCTTAAAA
1 AAAATATATAGTATAGTCTTTGAAAACACGATTTTGAAAACATATAATATATAATTTTCTTAAAA
5753764 ATTGTTTTTAAAAAAT
66 A-TGTTTTTAAAAAAT
* * *
5753780 ---ATATATAATATAGTCTTTGAAAACA-TATTATTGAAAACATATAATATATAGTTTT-TTAAA
1 AAAATATATAGTATAGTCTTTGAAAACACGATT-TTGAAAACATATAATATATAATTTTCTTAAA
*
5753840 AA-GATTTTTGAAAACAT
65 AATG-TTTTT-AAAAAAT
5753857 AAAATATATA
1 AAAATATATA
5753867 ATTTTTAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
75 1 0.01
76 5 0.07
77 15 0.20
78 47 0.63
80 7 0.09
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (80 bp):
AAAATATATAGTATAGTCTTTGAAAACACGATTTTGAAAACATATAATATATAATTTTCTTAAAA
ATGTTTTTAAAAAAT
Found at i:5753917 original size:38 final size:38
Alignment explanation
Indices: 5753702--5753917 Score: 167
Period size: 39 Copynumber: 5.6 Consensus size: 38
5753692 GTTTTTGAAA
*
5753702 ATATATAGTATAGTTTTTGAAAACACGG-TTTTGAAAACAT
1 ATATATA-TATAGTTTTTG-AAA-ATGGTTTTTGAAAACAT
* * * *
5753742 ATA-ATATATAATTTTCTTAAAAATTGTTTTT-AAAAAAT
1 ATATATATAT-AGTTT-TTGAAAATGGTTTTTGAAAACAT
* * *
5753780 ATATATAATATAGTCTTTGAAAACAT-ATTATTGAAAACAT
1 ATATAT-ATATAGTTTTTG-AAA-ATGGTTTTTGAAAACAT
* * *
5753820 ATA-ATATATAGTTTTTTAAAAAGATTTTTGAAAACAT
1 ATATATATATAGTTTTTGAAAATGGTTTTTGAAAACAT
* * *
5753857 A-AAATATATAATTTTTAAAAAATGGTTTTTGGAAAACAT
1 ATATATATATAGTTTTT-GAAAATGGTTTTT-GAAAACAT
5753896 ATATA-ATATAGTTTTTGAAAAT
1 ATATATATATAGTTTTTGAAAAT
5753918 ATATAGTATA
Statistics
Matches: 141, Mismatches: 22, Indels: 28
0.74 0.12 0.15
Matches are distributed among these distances:
36 2 0.01
37 29 0.21
38 41 0.29
39 47 0.33
40 22 0.16
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (38 bp):
ATATATATATAGTTTTTGAAAATGGTTTTTGAAAACAT
Found at i:5753922 original size:22 final size:22
Alignment explanation
Indices: 5753894--5754058 Score: 118
Period size: 22 Copynumber: 7.2 Consensus size: 22
5753884 TTTGGAAAAC
5753894 ATATATAATATAGTTTTTGAAA
1 ATATATAATATAGTTTTTGAAA
* *
5753916 ATATATAGTATAGTTTTTGATA
1 ATATATAATATAGTTTTTGAAA
* * *
5753938 ACATATTATATAGTTTTTAAAAAAA
1 ATATATAATATAGTTTTT---GAAA
*
5753963 ACATATAATATATAGTTTTTGAAA
1 ATATAT-A-ATATAGTTTTTGAAA
* *
5753987 ATATATAGTATAGTTTTTAAAA
1 ATATATAATATAGTTTTTGAAA
** *
5754009 ACT-TATTGTTATAGAATTTTGAAA
1 A-TATA-TAATATAG-TTTTTGAAA
* * *
5754033 ACATATTATAT-GATTTTGAAA
1 ATATATAATATAGTTTTTGAAA
5754054 ATATA
1 ATATA
5754059 ATATATTATA
Statistics
Matches: 114, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
21 13 0.11
22 52 0.46
23 12 0.11
24 18 0.16
25 8 0.07
27 11 0.10
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (22 bp):
ATATATAATATAGTTTTTGAAA
Found at i:5753974 original size:27 final size:25
Alignment explanation
Indices: 5753937--5753987 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
5753927 AGTTTTTGAT
5753937 AACATATTATATAGTTTTTAAAAAA
1 AACATATTATATAGTTTTTAAAAAA
*
5753962 AACATATAATATATAGTTTTTGAAAA
1 AACATAT--TATATAGTTTTTAAAAA
5753988 TATATAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (25 bp):
AACATATTATATAGTTTTTAAAAAA
Found at i:5753977 original size:49 final size:49
Alignment explanation
Indices: 5753916--5754009 Score: 140
Period size: 49 Copynumber: 1.9 Consensus size: 49
5753906 GTTTTTGAAA
5753916 ATATATAGTATAGTTTTTGATAACATAT-TA-TATAGTTTTTAAAAAAAAC
1 ATATATAGTATAGTTTTTGA-AA-ATATATAGTATAGTTTTTAAAAAAAAC
5753965 ATATAATA-TATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAA
1 ATAT-ATAGTATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAA
5754010 CTTATTGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
47 4 0.10
48 4 0.10
49 31 0.74
50 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.44
Consensus pattern (49 bp):
ATATATAGTATAGTTTTTGAAAATATATAGTATAGTTTTTAAAAAAAAC
Found at i:5754048 original size:21 final size:21
Alignment explanation
Indices: 5754024--5754064 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5754014 TTGTTATAGA
*
5754024 ATTTTGAAAACATATTATATG
1 ATTTTGAAAACATAATATATG
*
5754045 ATTTTGAAAATATAATATAT
1 ATTTTGAAAACATAATATAT
5754065 TATATAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
ATTTTGAAAACATAATATATG
Found at i:5754062 original size:19 final size:21
Alignment explanation
Indices: 5754024--5754062 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
5754014 TTGTTATAGA
*
5754024 ATTTTGAAAACATATTATATG
1 ATTTTGAAAACATATAATATG
5754045 ATTTTG-AAA-ATATAATAT
1 ATTTTGAAAACATATAATAT
5754063 ATTATATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (21 bp):
ATTTTGAAAACATATAATATG
Found at i:5754116 original size:24 final size:24
Alignment explanation
Indices: 5754087--5754139 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 24
5754077 TCTTTTAAAG
*
5754087 TATATATATATATATATTATTTATTT
1 TATATAT-TATAT-TATTATTAATTT
5754113 TATATATTATATTATTATTAATTT
1 TATATATTATATTATTATTAATTT
5754137 TAT
1 TAT
5754140 TTTTTTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 14 0.54
25 5 0.19
26 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATATTATATTATTATTAATTT
Found at i:5754351 original size:17 final size:17
Alignment explanation
Indices: 5754318--5754351 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5754308 GCTAGGGTTT
*
5754318 CATGAACCCTAAAGTAA
1 CATGAACCATAAAGTAA
*
5754335 CATGAACCATAAGGTAA
1 CATGAACCATAAAGTAA
5754352 ACTTCAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.18
Consensus pattern (17 bp):
CATGAACCATAAAGTAA
Found at i:5758128 original size:13 final size:13
Alignment explanation
Indices: 5758087--5758132 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
5758077 CTAAACTTAA
5758087 AATTAA-TCAATC
1 AATTAATTCAATC
* **
5758099 AATTAATTAAAAA
1 AATTAATTCAATC
5758112 AATTAATTCAATC
1 AATTAATTCAATC
5758125 AATTAATT
1 AATTAATT
5758133 GAGTTAAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (13 bp):
AATTAATTCAATC
Found at i:5759657 original size:3 final size:3
Alignment explanation
Indices: 5759649--5759714 Score: 71
Period size: 3 Copynumber: 21.0 Consensus size: 3
5759639 TTTTACTTAA
* *
5759649 ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT -TAT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT
5759695 ATAT ATAT ATT ATT ATT ATT
1 AT-T AT-T ATT ATT ATT ATT
5759715 TAATAAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 1 0.02
3 44 0.80
4 9 0.16
5 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:5759677 original size:18 final size:18
Alignment explanation
Indices: 5759654--5759726 Score: 68
Period size: 18 Copynumber: 4.3 Consensus size: 18
5759644 CTTAAATTAT
5759654 TATTATTATTATTATAAA
1 TATTATTATTATTATAAA
*
5759672 TATTATTATTATTAT--T
1 TATTATTATTATTATAAA
*
5759688 TA-TA-T-TTA-TATATA
1 TATTATTATTATTATAAA
5759702 TATTATTATTATTTAATAAA
1 TATTATTATTA-TT-ATAAA
5759722 TATTA
1 TATTA
5759727 CAAACCCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
12 3 0.07
13 3 0.07
14 3 0.07
15 4 0.09
16 3 0.07
17 3 0.07
18 15 0.34
19 1 0.02
20 9 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTATAAA
Found at i:5759681 original size:24 final size:24
Alignment explanation
Indices: 5759649--5759726 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
5759639 TTTTACTTAA
5759649 ATTATTATTATTATTATTATAAAT
1 ATTATTATTATTATTATTATAAAT
* *
5759673 ATTATTATTATTATTTATATTTATAT
1 ATTATTATTATTA-TTAT-TATAAAT
*
5759699 ATATATTATTATTATT-TAATAAAT
1 AT-TATTATTATTATTATTATAAAT
5759723 ATTA
1 ATTA
5759727 CAAACCCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.04
24 19 0.41
25 5 0.11
26 9 0.20
27 11 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATTATTATTATTATTATAAAT
Found at i:5759685 original size:30 final size:30
Alignment explanation
Indices: 5759649--5759714 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
5759639 TTTTACTTAA
*
5759649 ATTATTATTA-TTAT-TAT-TATAAATATT
1 ATTATTATTATTTATATTTATATAAATATT
*
5759676 ATTATTATTATTTATATTTATATATATATT
1 ATTATTATTATTTATATTTATATAAATATT
5759706 ATTATTATT
1 ATTATTATT
5759715 TAATAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.29
28 4 0.12
29 2 0.06
30 18 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTATTATTATTTATATTTATATAAATATT
Found at i:5761462 original size:18 final size:17
Alignment explanation
Indices: 5761437--5761475 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
5761427 ATATTTTATT
5761437 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
5761454 TATATTTTTTTATATAAT
1 TATA-TTTTATATATAAA
5761472 TATA
1 TATA
5761476 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:5761475 original size:26 final size:26
Alignment explanation
Indices: 5761423--5761475 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5761413 TTCTAAATAA
**
5761423 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATTTTATTTATATAATATAT
*
5761449 ATAAATATATTTTTTTATATAAT-TAT
1 ATAAATAT-TTTATTTATATAATATAT
5761475 A
1 A
5761476 ACTTTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAAATATTTTATTTATATAATATAT
Found at i:5771575 original size:20 final size:21
Alignment explanation
Indices: 5771525--5771599 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 21
5771515 ATCTACACTC
*
5771525 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATT-TCTT
5771547 TTCAAAGATGATAGATTT-TT
1 TTCAAAGATGATAGATTTCTT
* *
5771567 TTAAAAGATGACAGATTTTCTT
1 TTCAAAGATGATAGA-TTTCTT
5771589 TTCAAAGATGA
1 TTCAAAGATGA
5771600 AAGCTTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.30
21 4 0.09
22 29 0.62
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (21 bp):
TTCAAAGATGATAGATTTCTT
Found at i:5772427 original size:77 final size:77
Alignment explanation
Indices: 5772310--5772480 Score: 317
Period size: 77 Copynumber: 2.2 Consensus size: 77
5772300 AGTCTTGCAA
*
5772310 TGCATGATGTTTTC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
1 TGCATGATGTTTTCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
5772374 TAAGCCCTTCAG
66 TAAGCCCTTCAG
*
5772386 TGCATTATGTTTTCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
1 TGCATGATGTTTTCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
5772451 TAAGCCCTTCAG
66 TAAGCCCTTCAG
5772463 TGCATGATGTTTTCAAAA
1 TGCATGATGTTTTCAAAA
5772481 CCTTCGGGTC
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 13 0.14
77 78 0.86
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (77 bp):
TGCATGATGTTTTCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTG
TAAGCCCTTCAG
Found at i:5772475 original size:45 final size:45
Alignment explanation
Indices: 5772422--5772535 Score: 201
Period size: 45 Copynumber: 2.5 Consensus size: 45
5772412 GGGAGCTTTT
5772422 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
5772467 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
5772512 TGATGTTTCCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
5772536 AGCTTTCTGA
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
45 54 0.82
46 4 0.06
47 8 0.12
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:5772554 original size:76 final size:76
Alignment explanation
Indices: 5772467--5772685 Score: 379
Period size: 76 Copynumber: 2.9 Consensus size: 76
5772457 CTTCAGTGCA
*
5772467 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
5772532 CGGGAGCTTTC
66 CGGGAGCTTTC
*
5772543 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
5772608 CGGGAGCTTTT
66 CGGGAGCTTTC
* *
5772619 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
5772682 CGGG
66 CGGG
5772686 TCATCTGTAA
Statistics
Matches: 137, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
74 8 0.06
75 4 0.03
76 125 0.91
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (76 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTC
Found at i:5772583 original size:121 final size:122
Alignment explanation
Indices: 5772345--5772611 Score: 446
Period size: 121 Copynumber: 2.2 Consensus size: 122
5772335 GGGAGCTTTT
*
5772345 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATTATGTTTTCAAAAAAACCT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAAACCT
*
5772410 TCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
66 TCGGGAGCTTTCTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
5772467 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTCCAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAAACCT
* *
5772531 TCGGGAGCTTTCTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
66 TCGGGAGCTTTCTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
5772588 TGATGTTTCCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
5772612 AGCTTTTTGA
Statistics
Matches: 136, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
121 75 0.55
122 53 0.39
123 8 0.06
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (122 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAAACCT
TCGGGAGCTTTCTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:5772668 original size:45 final size:45
Alignment explanation
Indices: 5772619--5772732 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
5772609 GGGAGCTTTT
* *
5772619 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
5772664 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
5772709 TGATGTTTCTAAAAAGCCTTCGGG
1 TGATGTTT-TCAAAA-CCTTCGGG
5772733 AGCTTTTTGA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
45 51 0.80
46 5 0.08
47 8 0.12
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:5772668 original size:121 final size:121
Alignment explanation
Indices: 5772543--5772808 Score: 460
Period size: 121 Copynumber: 2.2 Consensus size: 121
5772533 GGGAGCTTTC
*
5772543 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
5772608 CGGGAGCTTTTTGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
5772664 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCTAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
5772729 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
5772785 TGATGTTTCCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
5772809 AGCTTTTTGA
Statistics
Matches: 136, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
121 125 0.92
123 11 0.08
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (121 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:5772694 original size:197 final size:197
Alignment explanation
Indices: 5772310--5772884 Score: 1006
Period size: 197 Copynumber: 2.9 Consensus size: 197
5772300 AGTCTTGCAA
* *
5772310 TGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGT
1 TGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGT
* * * * *
5772375 AAGCCCTTCAGTGCATTATGTTTTCAAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAACCTT
66 AAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTT
5772440 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTT
130 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTT
5772505 CAG
195 CAG
*
5772508 TGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTCTGATGTTTTCAAAGCCTTCGGGTCATCTGT
1 TGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGT
*
5772573 AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTT
66 AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
5772638 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTC
131 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTC
5772703 AG
196 AG
*
5772705 TGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGT
1 TGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGT
5772770 AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
66 AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
* * *
5772835 GGATCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
131 GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
5772885 AGCTTTTTGA
Statistics
Matches: 360, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
197 268 0.74
198 84 0.23
199 8 0.02
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (197 bp):
TGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGT
AAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTC
AG
Found at i:5772744 original size:76 final size:76
Alignment explanation
Indices: 5772664--5772993 Score: 572
Period size: 76 Copynumber: 4.3 Consensus size: 76
5772654 CTTCAGTGCA
* *
5772664 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCTAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
5772729 CGGGAGCTTTT
66 CGGGAGCTTTT
*
5772740 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
5772805 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
5772816 TGATGTTTTCAAAGCCTTCGGATCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
5772881 CGGGAGCTTTT
66 CGGGAGCTTTT
*
5772892 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTGCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
5772957 TGGGAGCTTTT
66 CGGGAGCTTTT
*
5772968 TGATGTTTTCAAA-CCCTCAGGGTCAT
1 TGATGTTTTCAAAGCCTTC-GGGTCAT
5772994 TCATAAGACC
Statistics
Matches: 244, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
75 4 0.02
76 240 0.98
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTT
Found at i:5773159 original size:3 final size:3
Alignment explanation
Indices: 5773151--5773216 Score: 71
Period size: 3 Copynumber: 21.0 Consensus size: 3
5773141 TTTTACTTAA
* *
5773151 ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT -TAT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT
5773197 ATAT ATAT ATT ATT ATT ATT
1 AT-T AT-T ATT ATT ATT ATT
5773217 TAATAAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 1 0.02
3 44 0.80
4 9 0.16
5 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:5773179 original size:18 final size:18
Alignment explanation
Indices: 5773156--5773228 Score: 68
Period size: 18 Copynumber: 4.3 Consensus size: 18
5773146 CTTAAATTAT
5773156 TATTATTATTATTATAAA
1 TATTATTATTATTATAAA
*
5773174 TATTATTATTATTAT--T
1 TATTATTATTATTATAAA
*
5773190 TA-TA-T-TTA-TATATA
1 TATTATTATTATTATAAA
5773204 TATTATTATTATTTAATAAA
1 TATTATTATTA-TT-ATAAA
5773224 TATTA
1 TATTA
5773229 CAAACCCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
12 3 0.07
13 3 0.07
14 3 0.07
15 4 0.09
16 3 0.07
17 3 0.07
18 15 0.34
19 1 0.02
20 9 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTATAAA
Found at i:5773183 original size:24 final size:24
Alignment explanation
Indices: 5773151--5773228 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
5773141 TTTTACTTAA
5773151 ATTATTATTATTATTATTATAAAT
1 ATTATTATTATTATTATTATAAAT
* *
5773175 ATTATTATTATTATTTATATTTATAT
1 ATTATTATTATTA-TTAT-TATAAAT
*
5773201 ATATATTATTATTATT-TAATAAAT
1 AT-TATTATTATTATTATTATAAAT
5773225 ATTA
1 ATTA
5773229 CAAACCCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.04
24 19 0.41
25 5 0.11
26 9 0.20
27 11 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATTATTATTATTATTATAAAT
Found at i:5773187 original size:30 final size:30
Alignment explanation
Indices: 5773151--5773216 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
5773141 TTTTACTTAA
*
5773151 ATTATTATTA-TTAT-TAT-TATAAATATT
1 ATTATTATTATTTATATTTATATAAATATT
*
5773178 ATTATTATTATTTATATTTATATATATATT
1 ATTATTATTATTTATATTTATATAAATATT
5773208 ATTATTATT
1 ATTATTATT
5773217 TAATAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.29
28 4 0.12
29 2 0.06
30 18 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTATTATTATTTATATTTATATAAATATT
Found at i:5774591 original size:21 final size:21
Alignment explanation
Indices: 5774565--5774643 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
5774555 TTTTATTTCC
*
5774565 TTTTATTTTAATCATTATTTA
1 TTTTATTTTAATTATTATTTA
5774586 TTTTATTATT-ATTATTATTTA
1 TTTTATT-TTAATTATTATTTA
5774607 -TTT-TTTTAATTATTATTTAA
1 TTTTATTTTAATTATTATTT-A
*
5774627 TTATTATTATTATTTAT
1 TT-TTATT-TTAATTAT
5774644 AAAAATAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.04
19 12 0.24
20 4 0.08
21 18 0.37
22 4 0.08
23 2 0.04
24 7 0.14
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATTTTAATTATTATTTA
Found at i:5774596 original size:3 final size:3
Alignment explanation
Indices: 5774578--5774640 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
5774568 TATTTTAATC
*
5774578 ATT ATTT ATT -TT ATT ATT ATT ATT ATTT ATT -TT TTT AATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT -ATT ATT ATT
*
5774624 -TA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
5774641 TATAAAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
2 5 0.10
3 38 0.75
4 8 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:5774666 original size:22 final size:24
Alignment explanation
Indices: 5774641--5774689 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
5774631 TATTATTATT
5774641 TATAAAAATA-AATAAATAA-ATA
1 TATAAAAATATAATAAATAATATA
* *
5774663 TATATATATATAATAAATAATATA
1 TATAAAAATATAATAAATAATATA
5774687 TAT
1 TAT
5774690 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 9 0.39
24 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATAAAAATATAATAAATAATATA
Found at i:5774965 original size:17 final size:17
Alignment explanation
Indices: 5774943--5774980 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5774933 ATATTTTATT
5774943 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
5774960 TATATTTTTTATATAAT
1 TATATTTTATATATAAA
5774977 TATA
1 TATA
5774981 ACTTTGAAAT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:5775891 original size:14 final size:14
Alignment explanation
Indices: 5775872--5775899 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5775862 GTTTGTTTTA
5775872 CAGAAAATAAATTT
1 CAGAAAATAAATTT
5775886 CAGAAAATAAATTT
1 CAGAAAATAAATTT
5775900 TTTAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
CAGAAAATAAATTT
Found at i:5776392 original size:21 final size:21
Alignment explanation
Indices: 5776350--5776409 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
5776340 TTTTATGAAT
* *
5776350 TTAATAAAAATATTA-ATTTTA
1 TTAAT-AATATATTATATATTA
*
5776371 TTAATAATTTATTATATATTA
1 TTAATAATATATTATATATTA
*
5776392 TTAATAATATAATATATA
1 TTAATAATATATTATATA
5776410 ACATACAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATAATATATTATATATTA
Found at i:5807035 original size:22 final size:22
Alignment explanation
Indices: 5806983--5807035 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
5806973 TCAGGAGTTA
** *
5806983 CGGGAGTTATTTGATTTAATTC
1 CGGGAGTTACATGATATAATTC
*
5807005 CTGGG-GTTACATGATATAATTT
1 C-GGGAGTTACATGATATAATTC
5807027 CGGGAGTTA
1 CGGGAGTTA
5807036 TAACAGCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.40
Consensus pattern (22 bp):
CGGGAGTTACATGATATAATTC
Found at i:5807966 original size:20 final size:21
Alignment explanation
Indices: 5807929--5807967 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
5807919 TAATATGATT
*
5807929 AATTTTTAAATATTATAATAA
1 AATTTTTAAATATGATAATAA
*
5807950 AATTTTT-ATTATGATAAT
1 AATTTTTAAATATGATAAT
5807968 TACATTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AATTTTTAAATATGATAATAA
Found at i:5808008 original size:13 final size:13
Alignment explanation
Indices: 5807992--5808018 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5807982 GATTTATTAT
5807992 ATAAAATTATTTA
1 ATAAAATTATTTA
5808005 ATAAAATTATTTA
1 ATAAAATTATTTA
5808018 A
1 A
5808019 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:5808017 original size:30 final size:29
Alignment explanation
Indices: 5807939--5808017 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 29
5807929 AATTTTTAAA
5807939 TATTATAATAAAATT-TTTATTATGATAAT
1 TATT-TAATAAAATTATTTATTATGATAAT
* *
5807968 TACATTAAT-AAATAGATTTATTAT-ATAAAAT
1 TA-TTTAATAAAAT-TATTTATTATGAT--AAT
5807999 TATTTAATAAAATTATTTA
1 TATTTAATAAAATTATTTA
5808018 AATGTAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
28 4 0.10
29 8 0.20
30 19 0.47
31 9 0.22
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (29 bp):
TATTTAATAAAATTATTTATTATGATAAT
Found at i:5808028 original size:15 final size:14
Alignment explanation
Indices: 5807992--5808034 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
5807982 GATTTATTAT
5807992 ATAAAATTATTT-A
1 ATAAAATTATTTAA
5808005 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
5808019 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
5808034 A
1 A
5808035 ACACGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:5808114 original size:23 final size:24
Alignment explanation
Indices: 5808074--5808127 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
5808064 CAATGATTAA
5808074 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
5808098 ATGTAAATT-ATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
5808121 ATGTAAA
1 ATGTAAA
5808128 GAAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAGTTTAATTT
Found at i:5809735 original size:6 final size:6
Alignment explanation
Indices: 5809726--5809787 Score: 88
Period size: 6 Copynumber: 10.3 Consensus size: 6
5809716 TTCGAGTTCA
* * *
5809726 GGTTTG GGTTTG GGTTTG GGTTTT GGTGTG GGTTTG GGTTTG GGTTTA
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG
*
5809774 GGTTTG GGGTTG GG
1 GGTTTG GGTTTG GG
5809788 ATTAAGGTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.02, C:0.00, G:0.52, T:0.47
Consensus pattern (6 bp):
GGTTTG
Found at i:5810531 original size:6 final size:6
Alignment explanation
Indices: 5810520--5810619 Score: 89
Period size: 6 Copynumber: 18.3 Consensus size: 6
5810510 ACTATTTATA
5810520 ATTAAT ATTAAT A-TAA- ATTATAT ATT-AT AATTAAT ATTAAT A-T-A-
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT
*
5810564 ATTAAT ATTAAT ATTAAT A-T-A- ATTAAT ATTAAT ATTAA- CTT-AT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
5810607 ATTAAT A-TAAT AT
1 ATTAAT ATTAAT AT
5810620 AGTTTATAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 28
0.72 0.02 0.26
Matches are distributed among these distances:
3 2 0.03
4 6 0.08
5 20 0.26
6 45 0.58
7 5 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTAAT
Found at i:5810544 original size:50 final size:48
Alignment explanation
Indices: 5810490--5810596 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 48
5810480 ATTTCATCCC
* *
5810490 TATATAATTTATATTAATAAACTATTTATAATTAATATTAATATAAATTATA
1 TATATAATTAATATTAATAAA--ATTAAT-ATTAATATTAATAT-AATTATA
*
5810542 TATTATAATTAATATTAATATAATTAATATTAATATTAATATAATTA-A
1 TA-TATAATTAATATTAATAAAATTAATATTAATATTAATATAATTATA
5810590 TAT-TAAT
1 TATATAAT
5810597 ATTAACTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
46 4 0.08
47 1 0.02
48 3 0.06
49 5 0.10
50 14 0.27
51 5 0.10
52 2 0.04
53 17 0.33
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (48 bp):
TATATAATTAATATTAATAAAATTAATATTAATATTAATATAATTATA
Found at i:5810573 original size:21 final size:21
Alignment explanation
Indices: 5810516--5810650 Score: 134
Period size: 21 Copynumber: 6.2 Consensus size: 21
5810506 ATAAACTATT
*
5810516 TATAATTAATATTAATATAAA
1 TATAATTAATATTAATATTAA
5810537 TTATATATT-ATAATTAATATTAA
1 -TATA-ATTAAT-ATTAATATTAA
5810560 TATAATTAATATTAATATTAA
1 TATAATTAATATTAATATTAA
5810581 TATAATTAATATTAATATTAA
1 TATAATTAATATTAATATTAA
*
5810602 CT-TATATTAATA-TAATA-TAGTT
1 -TATA-ATTAATATTAATATTA--A
**
5810624 TATAATTTGTAATTAATATTAA
1 TATAATTAAT-ATTAATATTAA
5810646 TATAA
1 TATAA
5810651 AATATAGTCT
Statistics
Matches: 97, Mismatches: 5, Indels: 22
0.78 0.04 0.18
Matches are distributed among these distances:
20 2 0.02
21 47 0.48
22 28 0.29
23 18 0.19
24 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (21 bp):
TATAATTAATATTAATATTAA
Found at i:5810593 original size:65 final size:65
Alignment explanation
Indices: 5810516--5810780 Score: 187
Period size: 65 Copynumber: 4.0 Consensus size: 65
5810506 ATAAACTATT
*
5810516 TATAATTAATATTAATA-TAAATTATA-TATTATAATTAATA-TTAATATAATTAAT-ATTAATA
1 TATAATTAATATTAATATTAAATTATATTAATATAA-T-ATAGTT--TATAATTAATAATTAATA
5810577 TTAA
62 TTAA
* **
5810581 TATAATTAATATTAATATTAACTTATATTAATATAATATAGTTTATAATTTGTAATTAATATTAA
1 TATAATTAATATTAATATTAAATTATATTAATATAATATAGTTTATAATTAATAATTAATATTAA
* * * *
5810646 TATAA--AATA-TAGTCTATAAAATTAATATTAATATAAACTATATTTTATAAATT-ATATAGT-
1 TATAATTAATATTA--ATATTAAATT-ATATTAATAT-AA-TATAGTTTAT-AATTAATA-ATTA
*
5810706 ATAGTTTA
59 ATA-TTAA
* * *
5810714 TA-AATT-ATAGTTAATA-TAACTTATATTAATATAGTATATGGTTTATAGACT-ATAATTAATA
1 TATAATTAATA-TTAATATTAAATTATATTAATATA--ATATAGTTTATA-ATTAATAATTAATA
5810775 TTAA
62 TTAA
5810779 TA
1 TA
5810781 ATGTATACTG
Statistics
Matches: 161, Mismatches: 19, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
62 2 0.01
63 4 0.02
64 15 0.09
65 55 0.34
66 39 0.24
67 28 0.17
68 16 0.10
70 2 0.01
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (65 bp):
TATAATTAATATTAATATTAAATTATATTAATATAATATAGTTTATAATTAATAATTAATATTAA
Found at i:5810610 original size:16 final size:16
Alignment explanation
Indices: 5810518--5810648 Score: 94
Period size: 15 Copynumber: 8.0 Consensus size: 16
5810508 AAACTATTTA
5810518 TAATTAATATTAATAT
1 TAATTAATATTAATAT
* *
5810534 AAATT-ATA-TATTA-
1 TAATTAATATTAATAT
5810547 TAATTAATATTAATA-
1 TAATTAATATTAATAT
5810562 TAATTAATATTAATATTAAT
1 TAATTAATATT-A-A-T-AT
5810582 ATAATTAATATTAATAT
1 -TAATTAATATTAATAT
5810599 TAACTT-ATATTAATA-
1 TAA-TTAATATTAATAT
* * *
5810614 TAATATAGTTTATAATTT
1 TAAT-TAATAT-TAATAT
5810632 GTAATTAATATTAATAT
1 -TAATTAATATTAATAT
5810649 AAAATATAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
13 4 0.04
14 8 0.09
15 22 0.24
16 19 0.21
17 14 0.15
18 6 0.07
19 6 0.07
20 1 0.01
21 11 0.12
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATTAATATTAATAT
Found at i:5810672 original size:31 final size:31
Alignment explanation
Indices: 5810634--5810696 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
5810624 TATAATTTGT
5810634 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAAATATAGTCTATAA
* * *
5810665 AATTAATATTAATATAAACTATATTTTATAA
1 AATTAATATTAATATAAAATATAGTCTATAA
5810696 A
1 A
5810697 TTATATAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (31 bp):
AATTAATATTAATATAAAATATAGTCTATAA
Found at i:5810737 original size:16 final size:15
Alignment explanation
Indices: 5810712--5810746 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
5810702 TAGTATAGTT
5810712 TATAAATTATAGTTAA
1 TATAAATTATA-TTAA
*
5810728 TATAACTTATATTAA
1 TATAAATTATATTAA
5810743 TATA
1 TATA
5810747 GTATATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (15 bp):
TATAAATTATATTAA
Found at i:5810795 original size:24 final size:24
Alignment explanation
Indices: 5810768--5810827 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
5810758 ATAGACTATA
* *
5810768 ATTAATATTAATAAT-GTATACTGT
1 ATTAATATTAATAATAGT-TAATAT
* *
5810792 ATTAATATAAATTATAGTTAATAT
1 ATTAATATTAATAATAGTTAATAT
5810816 ATTAATATTAAT
1 ATTAATATTAAT
5810828 GTAAACTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (24 bp):
ATTAATATTAATAATAGTTAATAT
Found at i:5810906 original size:36 final size:36
Alignment explanation
Indices: 5810820--5810908 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
5810810 TAATATATTA
* * * *
5810820 ATATTAATGTAAACTATAGTTTATAAACTATCTACT
1 ATATTAATATAAATTATAATTTATAAACTATATACT
*
5810856 ATATTAATACAAATTATAATTTATAAACTATATACT
1 ATATTAATATAAATTATAATTTATAAACTATATACT
5810892 ATATTAATATAAATTAT
1 ATATTAATATAAATTAT
5810909 GGTTAAGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (36 bp):
ATATTAATATAAATTATAATTTATAAACTATATACT
Found at i:5810983 original size:21 final size:21
Alignment explanation
Indices: 5810959--5810999 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5810949 TAATATAAAA
* *
5810959 TATAGTTTATAAATTATATAC
1 TATAGGTTATAAACTATATAC
5810980 TATAGGTTATAAACTATATA
1 TATAGGTTATAAACTATATA
5811000 GTACAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
TATAGGTTATAAACTATATAC
Found at i:5811052 original size:20 final size:19
Alignment explanation
Indices: 5811037--5811185 Score: 108
Period size: 20 Copynumber: 7.4 Consensus size: 19
5811027 AATTATATGT
5811037 TACATATATAGTTTATATAA
1 TACATATATAGTTTATAT-A
* *
5811057 TATATAAATAGATTGTATATA
1 TACATATATAG-TT-TATATA
5811078 TACATATCCTATAGGTTATATATA
1 TACATA---TATA-GTT-TATATA
*
5811102 TATATATATAGTTTATATA
1 TACATATATAGTTTATATA
*
5811121 TACTATATATAGTTTATACA
1 TAC-ATATATAGTTTATATA
* *
5811141 TACATGTACTA---TA-ATT
1 TACATATA-TAGTTTATATA
5811157 TACATATATAGTTTACATATA
1 TACATATATAGTTT--ATATA
5811178 TACATATA
1 TACATATA
5811186 CTATAGGTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.02
16 8 0.08
17 2 0.02
18 1 0.01
19 12 0.12
20 33 0.32
21 22 0.22
22 5 0.05
24 16 0.16
25 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.44
Consensus pattern (19 bp):
TACATATATAGTTTATATA
Found at i:5811127 original size:24 final size:23
Alignment explanation
Indices: 5811040--5811131 Score: 86
Period size: 22 Copynumber: 4.1 Consensus size: 23
5811030 TATATGTTAC
5811040 ATATATAGTTTATATA-ATATAT
1 ATATATAGTTTATATATATATAT
* * *
5811062 A-A-ATAGATTGTATATATACAT
1 ATATATAGTTTATATATATATAT
* *
5811083 ATCCTATAG-GT-TATATATATAT
1 AT-ATATAGTTTATATATATATAT
5811105 ATATATAGTTTATATATACTATAT
1 ATATATAGTTTATATATA-TATAT
5811129 ATA
1 ATA
5811132 GTTTATACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
20 10 0.18
21 12 0.22
22 14 0.25
23 7 0.13
24 12 0.22
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (23 bp):
ATATATAGTTTATATATATATAT
Found at i:5811165 original size:65 final size:65
Alignment explanation
Indices: 5811023--5811166 Score: 161
Period size: 63 Copynumber: 2.3 Consensus size: 65
5811013 AACTATTGTT
* * * * *
5811023 TATAAATTATATGT-TACATATATAGTTTATATAATATATAAATAGATTGTATATATACATATCC
1 TATAAGTTATATATATATATATATAGTTTATATAATATATAAATAGATTGTATACATACATATAC
* * *
5811087 TATAGGTTATATATATATATATATAGTTTATAT-ATACTATATATAG-TT-TATACATACATGTA
1 TATAAGTTATATATATATATATATAGTTTATATAATA-TATAAATAGATTGTATACATACATATA
5811149 C
65 C
* *
5811150 TATAATTTACATATATA
1 TATAAGTTATATATATA
5811167 GTTTACATAT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
63 26 0.39
64 16 0.24
65 25 0.37
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (65 bp):
TATAAGTTATATATATATATATATAGTTTATATAATATATAAATAGATTGTATACATACATATAC
Found at i:5811171 original size:35 final size:36
Alignment explanation
Indices: 5811125--5811202 Score: 104
Period size: 37 Copynumber: 2.2 Consensus size: 36
5811115 TATATATACT
* *
5811125 ATATATAGTTT-ATACATACATGTACTATAATTTAC
1 ATATATAGTTTAATACATACATATACTATAAGTTAC
* *
5811160 ATATATAGTTTACATATATACATATACTATAGGTTAC
1 ATATATAGTTTA-ATACATACATATACTATAAGTTAC
5811197 ATATAT
1 ATATAT
5811203 TAACTATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 11 0.30
37 26 0.70
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.42
Consensus pattern (36 bp):
ATATATAGTTTAATACATACATATACTATAAGTTAC
Found at i:5811340 original size:21 final size:21
Alignment explanation
Indices: 5811316--5811356 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5811306 TAGTTTATAA
* *
5811316 AGTTTAGGGTTTAGGTTTTAG
1 AGTTTAGGATTTAGGATTTAG
*
5811337 AGTTTATGATTTAGGATTTA
1 AGTTTAGGATTTAGGATTTA
5811357 ATGCTTTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (21 bp):
AGTTTAGGATTTAGGATTTAG
Found at i:5811547 original size:80 final size:80
Alignment explanation
Indices: 5811411--5811604 Score: 263
Period size: 80 Copynumber: 2.4 Consensus size: 80
5811401 TATACTTTAT
* *
5811411 TACTTTATATAGTTTATTCATAGTGT--TTCTATATATATATACACGTACTATATTAATATAAAT
1 TACTTTATATAGTTTATACATA-TATAATT-TATATATATATACAC-TACTATATTAATATAAAT
5811474 TATAATTTATAAACTACA
63 TATAATTTATAAACTACA
*
5811492 TACTTTATATAGTTTTATACATATATAATTTATATATATATATA-TACTATATTAATATAAATTA
1 TACTTTATATAG-TTTATACATATATAATTTATATATATATACACTACTATATTAATATAAATTA
* *
5811556 TAGTTTATAAACTATA
65 TAATTTATAAACTACA
*
5811572 TACTTTTTATAGTTTATAC--ATATAATTTATATA
1 TACTTTATATAGTTTATACATATATAATTTATATA
5811605 CATAGTTCAT
Statistics
Matches: 104, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
77 14 0.13
79 7 0.07
80 45 0.43
81 14 0.13
82 22 0.21
83 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (80 bp):
TACTTTATATAGTTTATACATATATAATTTATATATATATACACTACTATATTAATATAAATTAT
AATTTATAAACTACA
Found at i:5811557 original size:15 final size:17
Alignment explanation
Indices: 5811507--5811557 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
5811497 TATATAGTTT
* *
5811507 TATACATATATAATTTA
1 TATATATATATAAATTA
* *
5811524 TATATATATATATACTA
1 TATATATATATAAATTA
5811541 TAT-TA-ATATAAATTA
1 TATATATATATAAATTA
5811556 TA
1 TA
5811558 GTTTATAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 10 0.36
16 2 0.07
17 16 0.57
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATATAAATTA
Found at i:5811682 original size:11 final size:11
Alignment explanation
Indices: 5811658--5811736 Score: 74
Period size: 11 Copynumber: 7.3 Consensus size: 11
5811648 TTATATAGTG
* *
5811658 TATAATATAAA
1 TATAATTTATA
5811669 TATAATTTATA
1 TATAATTTATA
*
5811680 TATAGTTTATA
1 TATAATTTATA
*
5811691 TATAGTTTATA
1 TATAATTTATA
*
5811702 TATAAACTTATA
1 TAT-AATTTATA
5811714 T-T-ATATTA-A
1 TATAAT-TTATA
5811723 TATAATTTATA
1 TATAATTTATA
5811734 TAT
1 TAT
5811737 TTTAATACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
9 3 0.05
10 7 0.12
11 40 0.70
12 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (11 bp):
TATAATTTATA
Found at i:5811701 original size:29 final size:29
Alignment explanation
Indices: 5811629--5811706 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 29
5811619 ACATTATTTA
*
5811629 TATATATAGCTTATAATAATTATATAGTG
1 TATATATAGATTATAATAATTATATAGTG
* * *
5811658 TATAATATA-AATATAAT-TTATATATAGTT
1 TAT-ATATAGATTATAATAAT-TATATAGTG
*
5811687 TATATATAGTTTATATATAA
1 TATATATAGATTATA-ATAA
5811707 ACTTATATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
28 6 0.16
29 24 0.65
30 7 0.19
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.47
Consensus pattern (29 bp):
TATATATAGATTATAATAATTATATAGTG
Found at i:5811872 original size:11 final size:11
Alignment explanation
Indices: 5811828--5811886 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
5811818 TTTAATGTAA
*
5811828 ACTATTTATAT
1 ACTATATATAT
5811839 ACTAATATATATGT
1 ACT-ATATATA--T
5811853 ACT-TA-ATAT
1 ACTATATATAT
5811862 ACTATATATAT
1 ACTATATATAT
5811873 AAACTATATATAT
1 --ACTATATATAT
5811886 A
1 A
5811887 AATCTTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
9 4 0.10
10 2 0.05
11 11 0.28
12 8 0.20
13 11 0.28
14 4 0.10
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (11 bp):
ACTATATATAT
Found at i:5811878 original size:13 final size:13
Alignment explanation
Indices: 5811862--5811916 Score: 58
Period size: 13 Copynumber: 4.1 Consensus size: 13
5811852 TACTTAATAT
5811862 ACTATATATATAA
1 ACTATATATATAA
5811875 ACTATATATATAA
1 ACTATATATATAA
*
5811888 ATCTTATATAATATAT
1 A-C-TATAT-ATATAA
*
5811904 A-TAAATATATAA
1 ACTATATATATAA
5811916 A
1 A
5811917 TTACATAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.17
13 18 0.50
14 1 0.03
15 5 0.14
16 6 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (13 bp):
ACTATATATATAA
Found at i:5811947 original size:11 final size:11
Alignment explanation
Indices: 5811932--5811967 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
5811922 TAATTTATTA
5811932 ATAAACTACAT
1 ATAAACTACAT
*
5811943 GTAAACTACAT
1 ATAAACTACAT
*
5811954 ATAAACTATAT
1 ATAAACTACAT
5811965 ATA
1 ATA
5811968 TTATATGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (11 bp):
ATAAACTACAT
Found at i:5815549 original size:21 final size:20
Alignment explanation
Indices: 5815519--5815580 Score: 97
Period size: 20 Copynumber: 3.0 Consensus size: 20
5815509 GATTGCAAAC
*
5815519 TTGTAAGAGTTTGGAAACTT
1 TTGTAAGAGTTTTGAAACTT
*
5815539 TTGTAAAGAGTTTTGAAATTT
1 TTGT-AAGAGTTTTGAAACTT
5815560 TTGTAAGAGTTTTGAAACTT
1 TTGTAAGAGTTTTGAAACTT
5815580 T
1 T
5815581 GCACCTTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 20 0.53
21 18 0.47
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (20 bp):
TTGTAAGAGTTTTGAAACTT
Found at i:5823023 original size:20 final size:21
Alignment explanation
Indices: 5822998--5823048 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
5822988 GAAATCCCTT
*
5822998 TGAAAATACATGAT-TTTTAA
1 TGAAAATACATGATACTTTAA
5823018 TGAAAATACA--ATACTTTAA
1 TGAAAATACATGATACTTTAA
*
5823037 TGAAAATGCATG
1 TGAAAATACATG
5823049 CTCTTGGCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.08
19 14 0.54
20 10 0.38
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGATACTTTAA
Found at i:5826639 original size:17 final size:17
Alignment explanation
Indices: 5826617--5826649 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5826607 TGAGATTATA
5826617 ATATTAT-TTTTCATATT
1 ATATTATATTTT-ATATT
5826634 ATATTATATTTTATAT
1 ATATTATATTTTATAT
5826650 AAATAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:5831075 original size:41 final size:41
Alignment explanation
Indices: 5831024--5831118 Score: 97
Period size: 41 Copynumber: 2.3 Consensus size: 41
5831014 GTTTTCTTAA
*
5831024 AAAAATGCCGCAAAAAAGTAG-TAATTTAGCGGT-GTTTTGA-
1 AAAAACGCCGCAAAAAAGTAGAT-ATTTAG-GGTAGTTTTGAT
* * * *
5831064 AACAAACGCCGCGAAAGAGTAGATATTTAGTGTAGTTTTTAT
1 AA-AAACGCCGCAAAAAAGTAGATATTTAGGGTAGTTTTGAT
5831106 AAAAACGCCGCAA
1 AAAAACGCCGCAA
5831119 CAGGTTTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
40 4 0.09
41 38 0.84
42 3 0.07
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAACGCCGCAAAAAAGTAGATATTTAGGGTAGTTTTGAT
Found at i:5831666 original size:22 final size:22
Alignment explanation
Indices: 5831636--5831677 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5831626 GTTTTGCCTG
5831636 TTTCAAATAGAAAAATAATAGC
1 TTTCAAATAGAAAAATAATAGC
* *
5831658 TTTCGAATAGGAAAATAATA
1 TTTCAAATAGAAAAATAATA
5831678 TTTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (22 bp):
TTTCAAATAGAAAAATAATAGC
Found at i:5832824 original size:40 final size:40
Alignment explanation
Indices: 5832696--5832827 Score: 106
Period size: 42 Copynumber: 3.2 Consensus size: 40
5832686 GTACATTAAC
* * *
5832696 GGCGTTTTAATACAAATGTCGTAATAGGGTGAAATCTATAGT
1 GGCGTTTT-ATACAAACGTCATAATA-GGTGTAATCTATAGT
* * ** * *
5832738 GGCGTTTTATCAACAAACGCTGTAAAATAATTGT-A-CTTTAGG
1 GGCGTTTTAT--ACAAACG-T-CATAATAGGTGTAATCTATAGT
*
5832780 GGCGTTTTATAGAAACGTCATAATAGGTGTAATCTATAGT
1 GGCGTTTTATACAAACGTCATAATAGGTGTAATCTATAGT
5832820 GGCGTTTT
1 GGCGTTTT
5832828 TTAGACAAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
38 8 0.12
39 2 0.03
40 19 0.28
41 2 0.03
42 23 0.34
43 7 0.10
44 3 0.04
45 4 0.06
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (40 bp):
GGCGTTTTATACAAACGTCATAATAGGTGTAATCTATAGT
Found at i:5832854 original size:82 final size:84
Alignment explanation
Indices: 5832635--5832873 Score: 270
Period size: 84 Copynumber: 2.9 Consensus size: 84
5832625 CAAACGCCGC
* * * * *
5832635 AATATGGT-TAATATATAGTGGCGTTTTATCAACAAACGCTGATATATAATTGTACATTAACGGC
1 AATAGGGTGTAATCTATAGTGGCGTTTTATCAACAAACGCTGTTAAATAATTGTACATTAGCGGC
* *
5832699 GTTTTAATACAAATGTCGT
66 GTTTTAATACAAACGTCAT
* * * *
5832718 AATAGGGTGAAATCTATAGTGGCGTTTTATCAACAAACGCTGTAAAATAATTGTACTTTAGGGGC
1 AATAGGGTGTAATCTATAGTGGCGTTTTATCAACAAACGCTGTTAAATAATTGTACATTAGCGGC
*
5832783 GTTTT-ATAGAAACGTCAT
66 GTTTTAATACAAACGTCAT
* * * * * *
5832801 AATA-GGTGTAATCTATAGTGGCGTTTT-TTAGACAAACGCCGTTACATAGTTGTACGTTAGCAG
1 AATAGGGTGTAATCTATAGTGGCGTTTTATCA-ACAAACGCTGTTAAATAATTGTACATTAGCGG
*
5832864 CGTTTGAATA
65 CGTTTTAATA
5832874 TAAAAGCCGC
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
81 2 0.02
82 52 0.40
83 24 0.18
84 53 0.40
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.34
Consensus pattern (84 bp):
AATAGGGTGTAATCTATAGTGGCGTTTTATCAACAAACGCTGTTAAATAATTGTACATTAGCGGC
GTTTTAATACAAACGTCAT
Found at i:5841527 original size:198 final size:199
Alignment explanation
Indices: 5841187--5841584 Score: 780
Period size: 198 Copynumber: 2.0 Consensus size: 199
5841177 CCCACCAAAT
5841187 ATTTTGGATCCAGTTCATCATAGTACATGTCATCACAGTCTCAATCTTCCCAATTAGAAGTTAGT
1 ATTTTGGATCCAGTTCATCATAGTACA-GTCATCACAGTCTCAATCTTCCCAATTAGAAGTTAGT
5841252 CGTTTAAAACAAAAGTTGGCTGAGATGGATCAACAAATGGCTAACATGAAAGCGGAAAATAAAGC
65 CGTTTAAAACAAAAGTTGGCTGAGATGGATCAACAAATGGCTAACATGAAAGCGGAAAATAAAGC
5841317 AAGGGAAGCAGAGAGAGCAGCAGCAGAATCAGCCAGAGCAGCAGTAGGAGCAGAGAAAGAAGCAG
130 AAGGGAAGCAGAGAGAGCAGCAGCAGAATCAGCCAGAGCAGCAGTAGGAGCAGAGAAAGAAGCAG
5841382 CATCA
195 CATCA
5841387 ATTTTGGATCCAGTTCATCATAGTACA-TCATCACAGTCTCAATCTTCCCAATTAGAAGTTAGTC
1 ATTTTGGATCCAGTTCATCATAGTACAGTCATCACAGTCTCAATCTTCCCAATTAGAAGTTAGTC
5841451 GTTTAAAACAAAAGTTGGCTGAGATGGATCAACAAATGGCTAACATGAAAGCGGAAAATAAAGCA
66 GTTTAAAACAAAAGTTGGCTGAGATGGATCAACAAATGGCTAACATGAAAGCGGAAAATAAAGCA
5841516 AGGGAAGCAGAGAGAGCAGCAGCAGAATCAGCCAGAGCAGCAGTAGGAGCAGAGAAAGAAGCAGC
131 AGGGAAGCAGAGAGAGCAGCAGCAGAATCAGCCAGAGCAGCAGTAGGAGCAGAGAAAGAAGCAGC
5841581 ATCA
196 ATCA
5841585 GCACAGAGAG
Statistics
Matches: 198, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
198 171 0.86
200 27 0.14
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (199 bp):
ATTTTGGATCCAGTTCATCATAGTACAGTCATCACAGTCTCAATCTTCCCAATTAGAAGTTAGTC
GTTTAAAACAAAAGTTGGCTGAGATGGATCAACAAATGGCTAACATGAAAGCGGAAAATAAAGCA
AGGGAAGCAGAGAGAGCAGCAGCAGAATCAGCCAGAGCAGCAGTAGGAGCAGAGAAAGAAGCAGC
ATCA
Found at i:5841587 original size:21 final size:21
Alignment explanation
Indices: 5841563--5841624 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
5841553 CAGCAGTAGG
* *
5841563 AGCAGAGAAAGAAGCAGCATC
1 AGCACAGAGAGAAGCAGCATC
* * **
5841584 AGCACAGAGAGAAGTAACGGC
1 AGCACAGAGAGAAGCAGCATC
5841605 AGCACAGAGAGAAGCAGCAT
1 AGCACAGAGAGAAGCAGCAT
5841625 ATCAACAGAG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.45, C:0.19, G:0.31, T:0.05
Consensus pattern (21 bp):
AGCACAGAGAGAAGCAGCATC
Found at i:5842019 original size:44 final size:44
Alignment explanation
Indices: 5841939--5842115 Score: 225
Period size: 44 Copynumber: 4.1 Consensus size: 44
5841929 TTTTGTGTTA
* * *
5841939 TTTAGCGGCATTTGTA---AAAAAACGCCGCAATATACCATACA
1 TTTAGCGGCATTTGTATCCTAAAAACGCCGCTATATACCATACC
* * *
5841980 TTTAGCGGCATTTGTATCCTAAAAACGTCACTATATACCAGACC
1 TTTAGCGGCATTTGTATCCTAAAAACGCCGCTATATACCATACC
* * *
5842024 TTTAGCGGCGTTTGTATCCTAAAAACGTCGTTATATACCATACC
1 TTTAGCGGCATTTGTATCCTAAAAACGCCGCTATATACCATACC
* * *
5842068 TTTAGTGGCGTTTATATCCTAAAAACGCCGCTATATACCATACC
1 TTTAGCGGCATTTGTATCCTAAAAACGCCGCTATATACCATACC
5842112 TTTA
1 TTTA
5842116 TATGCGTTGA
Statistics
Matches: 119, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 16 0.13
44 103 0.87
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (44 bp):
TTTAGCGGCATTTGTATCCTAAAAACGCCGCTATATACCATACC
Found at i:5842136 original size:44 final size:44
Alignment explanation
Indices: 5841954--5842142 Score: 132
Period size: 44 Copynumber: 4.3 Consensus size: 44
5841944 CGGCATTTGT
* * * * *
5841954 AAAAAAACGCCGCAATATACCATACATTTAGCGGCATTTG-TATC
1 AAAAAAACGCCGCTATATACCATACCTTTAGTGGC-GTTGATATA
** * * * * *
5841998 CTAAAAACGTCACTATATACCAGACCTTTAGCGGCGTTTG-TATC
1 AAAAAAACGCCGCTATATACCATACCTTTAGTGGCG-TTGATATA
** * * * *
5842042 CTAAAAACGTCGTTATATACCATACCTTTAGTGGCGTTTATATC
1 AAAAAAACGCCGCTATATACCATACCTTTAGTGGCGTTGATATA
** *
5842086 CTAAAAACGCCGCTATATACCATACCTTTA-TATGCGTTGATATA
1 AAAAAAACGCCGCTATATACCATACCTTTAGT-GGCGTTGATATA
*
5842130 AAAAAAACACCGC
1 AAAAAAACGCCGC
5842143 GAAATCTCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.02
44 118 0.98
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (44 bp):
AAAAAAACGCCGCTATATACCATACCTTTAGTGGCGTTGATATA
Found at i:5842136 original size:88 final size:88
Alignment explanation
Indices: 5841954--5842142 Score: 209
Period size: 88 Copynumber: 2.1 Consensus size: 88
5841944 CGGCATTTGT
* *
5841954 AAAAAAACGCCGCAATATACCATACATTTAGCGGCATTTGTATCCTAAAAACGTCACTATATACC
1 AAAAAAACGCCGCAATATACCATACATTTAGCGGCATTTATATCCTAAAAACGCCACTATATACC
* *
5842019 AGACCTTTAGCGGCGTTTGTATC
66 AGACCTTTAGAGGCGTTTGTATA
** * ** * * * *
5842042 CTAAAAACGTCGTTATATACCATACCTTTAGTGGCGTTTATATCCTAAAAACGCCGCTATATACC
1 AAAAAAACGCCGCAATATACCATACATTTAGCGGCATTTATATCCTAAAAACGCCACTATATACC
* * *
5842107 ATACCTTTATATGCG-TTGATATA
66 AGACCTTTAGAGGCGTTTG-TATA
*
5842130 AAAAAAACACCGC
1 AAAAAAACGCCGC
5842143 GAAATCTCAA
Statistics
Matches: 79, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
87 3 0.04
88 76 0.96
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (88 bp):
AAAAAAACGCCGCAATATACCATACATTTAGCGGCATTTATATCCTAAAAACGCCACTATATACC
AGACCTTTAGAGGCGTTTGTATA
Found at i:5842253 original size:42 final size:43
Alignment explanation
Indices: 5842132--5842254 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
5842122 TTGATATAAA
* * *
5842132 AAAAACACCGCGAAATCTCAACACTTATTGCGGCGTTTGTGAT
1 AAAAACACCGCTAAATATCAAAACTTATTGCGGCGTTTGTGAT
* *
5842175 AAAAACGCCGCTAAATATCAAAACTTATTGCAGCGTTTGTTGA-
1 AAAAACACCGCTAAATATCAAAACTTATTGCGGCGTTTG-TGAT
* * ***
5842218 ACAAACACCGC-AATTATCGTTACTTATTGCGGCGTTT
1 AAAAACACCGCTAAATATCAAAACTTATTGCGGCGTTT
5842255 TTCGTTAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
42 21 0.31
43 43 0.64
44 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
AAAAACACCGCTAAATATCAAAACTTATTGCGGCGTTTGTGAT
Found at i:5842300 original size:15 final size:15
Alignment explanation
Indices: 5842280--5842309 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5842270 CGCAAACTTT
5842280 AGCGGCGCTATTTGC
1 AGCGGCGCTATTTGC
*
5842295 AGCGGCGCTTTTTGC
1 AGCGGCGCTATTTGC
5842310 GGCGTTTGTC
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:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (15 bp):
AGCGGCGCTATTTGC
Found at i:5844289 original size:10 final size:10
Alignment explanation
Indices: 5844255--5844295 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
5844245 CTTGCAATTT
5844255 TCATATTAAAC
1 TCATATT-AAC
*
5844266 -CATATAAAC
1 TCATATTAAC
5844275 T-ATATTAAC
1 TCATATTAAC
5844284 TCATATTAAC
1 TCATATTAAC
5844294 TC
1 TC
5844296 GTACTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 11 0.42
10 15 0.58
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
TCATATTAAC
Found at i:5847006 original size:86 final size:86
Alignment explanation
Indices: 5846856--5847023 Score: 255
Period size: 86 Copynumber: 2.0 Consensus size: 86
5846846 GCGGTGGAGC
* ** *
5846856 TTTTCGAAACGAGCATGGGGACTGGATCGAAGGATTTTCAAGAAATATCGGTTGCGCAACCATCT
1 TTTTCGAAACGAGCATGGGGACTGAATCGAAGGATTTTCAAGAAATATCGACTGCACAACCATCT
5846921 TACAAGCTGAACTTTGGCCTA
66 TACAAGCTGAACTTTGGCCTA
* * *
5846942 TTTTCGAAACGAGCATGGGGATTGAATCGAAGGATTTTCAAGAAATATCGACTGCACTATCATCT
1 TTTTCGAAACGAGCATGGGGACTGAATCGAAGGATTTTCAAGAAATATCGACTGCACAACCATCT
* *
5847007 TACGAGCTGAATTTTGG
66 TACAAGCTGAACTTTGG
5847024 TCGATCCTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (86 bp):
TTTTCGAAACGAGCATGGGGACTGAATCGAAGGATTTTCAAGAAATATCGACTGCACAACCATCT
TACAAGCTGAACTTTGGCCTA
Found at i:5857817 original size:32 final size:32
Alignment explanation
Indices: 5857781--5857842 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
5857771 AAATACGACA
5857781 CTAATACTCA-TATGCATTATCTGAATGCAAGC
1 CTAATACT-ATTATGCATTATCTGAATGCAAGC
**
5857813 CTAATTGTATTATGCATTATCTGAATGCAA
1 CTAATACTATTATGCATTATCTGAATGCAA
5857843 CATTGACTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
CTAATACTATTATGCATTATCTGAATGCAAGC
Found at i:5862030 original size:3 final size:3
Alignment explanation
Indices: 5862011--5862124 Score: 171
Period size: 3 Copynumber: 38.7 Consensus size: 3
5862001 TTAATATATT
*
5862011 TAA TAA TAG TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* *
5862056 TAA TAA TAA TAA TAA TAA TGA TAA TAG TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5862103 TAA T-A TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
5862125 TGGATAAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
2 6 0.06
3 92 0.91
4 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5862960 original size:114 final size:113
Alignment explanation
Indices: 5862439--5863208 Score: 1283
Period size: 113 Copynumber: 6.8 Consensus size: 113
5862429 GAATTATGCC
* * *
5862439 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
5862503 TATGAA-CTTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGT
5862550 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * **
5862615 TATGAACTTTTTCTGGAAAAAATGTTCCATCAAGTGATGAATTCAGGT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGT
*
5862663 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
5862728 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTCAGGT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGT
5862776 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
5862841 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAA-GTGATGAATTCAGGT
* *
5862890 AAAAGGTTGAATAAATTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
5862955 TATGAACCTTCTTTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAA-GTGATGAATTCAGGT
*
5863004 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
5863069 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGT
* *
5863117 AAAAGGTTGACCAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
5863182 TATGAACCTTCTCTGGAAAAGATAATC
66 TATGAACCTTCTCTGGAAAAGATAATC
5863209 TTTCAAATGA
Statistics
Matches: 622, Mismatches: 34, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
111 4 0.01
112 63 0.10
113 337 0.54
114 218 0.35
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACCTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGT
Found at i:5863070 original size:341 final size:339
Alignment explanation
Indices: 5862439--5863208 Score: 1357
Period size: 341 Copynumber: 2.3 Consensus size: 339
5862429 GAATTATGCC
* * *
5862439 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
5862503 TATGAA-CTTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGTAAAAGGTTGAACAAATT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATT
* *
5862567 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
131 ATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGA
**
5862632 AAAAATGTTCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATTCTTCTCATTATGAACTT
196 AAAAATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATTCTTCTCATTATGAACTT
5862697 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAG
261 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAG
*
5862762 TGATGGATTCAGGT
326 TGATGAATTCAGGT
5862776 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
5862841 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAATAAAT
66 TATGAACCTTCTCTGGAAAAGATAATCCATCAA-TTGATGAATTCAGGTAAAAGGTTGAACAAAT
5862906 TATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTT-TG
130 TATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTTCTG
* *
5862970 GAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAATAAATTCTTCTCATTATGAA
194 GAAAAAATAATCCATCAA-GTGATGAATTCAGGTAAAAGGTTGAATAAATTCTTCTCATTATGAA
5863035 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATC
258 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATC
5863100 AAGTGATGAATTCAGGT
323 AAGTGATGAATTCAGGT
* *
5863117 AAAAGGTTGACCAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
5863182 TATGAACCTTCTCTGGAAAAGATAATC
66 TATGAACCTTCTCTGGAAAAGATAATC
5863209 TTTCAAATGA
Statistics
Matches: 413, Mismatches: 15, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
337 4 0.01
338 63 0.15
339 25 0.06
340 100 0.24
341 221 0.54
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (339 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACCTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATT
ATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGA
AAAAATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAG
TGATGAATTCAGGT
Found at i:5864003 original size:50 final size:50
Alignment explanation
Indices: 5863940--5864042 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
5863930 TCAATGATTG
*
5863940 ATTCTGTCCAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
*
5863990 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
5864040 ATT
1 ATT
5864043 AGCAAATTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (50 bp):
ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
Found at i:5864107 original size:133 final size:133
Alignment explanation
Indices: 5863869--5864125 Score: 480
Period size: 133 Copynumber: 1.9 Consensus size: 133
5863859 CTTACCAAAA
5863869 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
*
5863934 TGATTGATTCTGTCCAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
66 TGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
5863999 AAC
131 AAC
5864002 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
*
5864067 TGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
66 TGATTGATTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
5864126 AGCAAATTCA
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
132 2 0.02
133 119 0.98
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (133 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
TGATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
AAC
Found at i:5864130 original size:83 final size:83
Alignment explanation
Indices: 5863990--5864185 Score: 349
Period size: 83 Copynumber: 2.4 Consensus size: 83
5863980 AGAAGATGCT
*
5863990 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATC
1 ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATC
5864055 TTCCAAATTCAATGATTG
66 TTCCAAATTCAATGATTG
*
5864073 GTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCAT
1 ATTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCAT
5864137 CTTCCAAATTCAATGATTG
65 CTTCCAAATTCAATGATTG
*
5864156 ATTCTGTCCAACCATATCAGATAACTCAAA
1 ATTCTGTCCAACCAGATCAGATAACTCAAA
5864186 AATTCATCTT
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
82 1 0.01
83 104 0.97
84 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (83 bp):
ATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATC
TTCCAAATTCAATGATTG
Found at i:5864196 original size:56 final size:56
Alignment explanation
Indices: 5864129--5864241 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
5864119 TGCTATTAGC
*
5864129 AAATTCATCTTCCAAATTCAATGATTGATTCTGTCCAACCATATCAGATAACTCAA
1 AAATTCATCTTCCAAATTCAATGATTGATTCTGTCCAACCAGATCAGATAACTCAA
* *
5864185 AAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAA
1 AAATTCATCTTCCAAATTCAATGATTGATTCTGTCCAACCAGATCAGATAACTCAA
5864241 A
1 A
5864242 GAACACTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (56 bp):
AAATTCATCTTCCAAATTCAATGATTGATTCTGTCCAACCAGATCAGATAACTCAA
Found at i:5864226 original size:139 final size:138
Alignment explanation
Indices: 5864046--5864323 Score: 488
Period size: 139 Copynumber: 2.0 Consensus size: 138
5864036 TGCTATTAGC
5864046 AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
*
5864111 CCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATTGATTCTGTCC-AACCATATCA
66 CCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGA-TGATTCTG-CCAAACCAGATCA
5864175 GATAACTCAA
129 GATAACTCAA
*
5864185 AAATTCATCTTCTAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAAAGAACACT
1 AAATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACT
*
5864249 TCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATGGTTCTGCCAAACCAGATCAG
65 TCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATGATTCTGCCAAACCAGATCAG
5864314 ATAACTCAA
130 ATAACTCAA
5864323 A
1 A
5864324 GAACACTTCC
Statistics
Matches: 134, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
137 2 0.01
138 27 0.20
139 103 0.77
140 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (138 bp):
AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
CCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATGATTCTGCCAAACCAGATCAGA
TAACTCAA
Found at i:5864323 original size:82 final size:83
Alignment explanation
Indices: 5864185--5864590 Score: 727
Period size: 82 Copynumber: 5.0 Consensus size: 83
5864175 GATAACTCAA
*
5864185 AAATTCATCTTCTAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAAAGAACACT
1 AAATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACT
5864249 TCCAGAAGATGCTATTAGC
65 TCCAGAAGATGCTATTAGC
5864268 AAATTCATCTTCCAAATTCAATGA-TGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
5864332 CCAGAAGATGCTATTAGC
66 CCAGAAGATGCTATTAGC
*
5864350 AAATTCATCTTCCAAATTCAA-GATTGGTTCTGCCAAACCATATCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
5864414 CCAGAAGATGCTATTAGC
66 CCAGAAGATGCTATTAGC
*
5864432 AAATTCATCTTCTAAATTCAATGA-T-G-T-TGCCAAACCAGATCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
5864493 CCAGAAGATGCTATTAGC
66 CCAGAAGATGCTATTAGC
5864511 AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
5864576 CCAGAAGATGCTATT
66 CCAGAAGATGCTATT
5864591 CTGTCTAACC
Statistics
Matches: 311, Mismatches: 5, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
79 74 0.24
80 2 0.01
81 6 0.02
82 155 0.50
83 74 0.24
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
AAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTT
CCAGAAGATGCTATTAGC
Found at i:5864601 original size:50 final size:50
Alignment explanation
Indices: 5864547--5864689 Score: 250
Period size: 50 Copynumber: 2.9 Consensus size: 50
5864537 GGTTCTGCCA
5864547 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
* *
5864597 AACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTTTTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
* *
5864647 AACCAGATCAGATAACTCTAAGAACACTTCCAAAAGATGCTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
5864690 GAGTCTCTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 87 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.24
Consensus pattern (50 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
Found at i:5865491 original size:16 final size:17
Alignment explanation
Indices: 5865448--5865492 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
5865438 AATAGAAAAG
*
5865448 AATAAATTGAATTTCCA
1 AATAAATTGAATCTCCA
*
5865465 AAAATAATTGAATCT-CA
1 AATA-AATTGAATCTCCA
5865482 AATAAATTGAA
1 AATAAATTGAA
5865493 CTTGAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.29
17 8 0.33
18 9 0.38
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCCA
Found at i:5865843 original size:16 final size:16
Alignment explanation
Indices: 5865815--5865857 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
5865805 TGACCCTTTC
5865815 TTTT-TTCTCTTTTTT
1 TTTTATTCTCTTTTTT
*
5865830 TTTTATTTTCTTTTTT
1 TTTTATTCTCTTTTTT
5865846 TTTTATTCTCTT
1 TTTTATTCTCTT
5865858 CAAGCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTCTCTTTTTT
Found at i:5876430 original size:17 final size:17
Alignment explanation
Indices: 5876390--5876431 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
5876380 CTACTTGCAA
*
5876390 ATAAAACATATAAATATT
1 ATAAAA-ATATAAATATC
5876408 ATAAAAATAATAAATA-C
1 ATAAAAAT-ATAAATATC
5876425 ATAAAAA
1 ATAAAAA
5876432 ATTTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATATAAATATC
Found at i:5878594 original size:3 final size:3
Alignment explanation
Indices: 5878586--5878671 Score: 127
Period size: 3 Copynumber: 28.7 Consensus size: 3
5878576 TAATATAAAT
* *
5878586 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** *
5878634 TAA TAA TAA GGA TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5878672 TGGATAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5879605 original size:25 final size:25
Alignment explanation
Indices: 5879571--5879620 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
5879561 TTTCGGGATC
5879571 AACACAATGTGGGTGTGATTGATTG
1 AACACAATGTGGGTGTGATTGATTG
5879596 AACACAATGTGGGTGTGATTGATTG
1 AACACAATGTGGGTGTGATTGATTG
5879621 CTAACATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (25 bp):
AACACAATGTGGGTGTGATTGATTG
Found at i:5880597 original size:15 final size:15
Alignment explanation
Indices: 5880577--5880606 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5880567 ATAATTATGG
5880577 AAAATATTAATTTAT
1 AAAATATTAATTTAT
*
5880592 AAAATATTTATTTAT
1 AAAATATTAATTTAT
5880607 TTAGAAATAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATATTAATTTAT
Found at i:5880698 original size:20 final size:19
Alignment explanation
Indices: 5880662--5880712 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
5880652 TTTCTTCAAT
5880662 ATTAAAAAATAAATATATA
1 ATTAAAAAATAAATATATA
*
5880681 ATTAAAATAATTAATATATGA
1 ATTAAAA-AATAAATATAT-A
*
5880702 TTTAAAAAATA
1 ATTAAAAAATA
5880713 GGATATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.26
20 13 0.48
21 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTAAAAAATAAATATATA
Found at i:5880922 original size:15 final size:14
Alignment explanation
Indices: 5880892--5880989 Score: 60
Period size: 15 Copynumber: 7.0 Consensus size: 14
5880882 TATTTATATA
*
5880892 AATAATAATAAGAAT
1 AATAA-AATAATAAT
5880907 AATAAAAGTAATAAT
1 AATAAAA-TAATAAT
5880922 AATAAAATAAT-AT
1 AATAAAATAATAAT
**
5880935 TGT-AAATAATAATT
1 AATAAAATAATAA-T
*
5880949 AA-AAAAT-ATAGT
1 AATAAAATAATAAT
* *
5880961 ATTAAAATATAAAAT
1 AATAAAATA-ATAAT
* *
5880976 ATTAAAAAAATAAT
1 AATAAAATAATAAT
5880990 CAAAAATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
12 9 0.14
13 12 0.18
14 15 0.23
15 29 0.45
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:5880942 original size:23 final size:23
Alignment explanation
Indices: 5880886--5880961 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
5880876 TATATTTATT
5880886 TATA-TAAATAATAATAAGAATAA
1 TATAGTAAATAATAATAA-AATAA
*
5880909 TAAAAGT-AATAATAATAAAATAA
1 T-ATAGTAAATAATAATAAAATAA
*
5880932 TATTGTAAATAATAATTAAAA-AA
1 TATAGTAAATAATAA-TAAAATAA
5880955 TATAGTA
1 TATAGTA
5880962 TTAAAATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 3 0.07
23 23 0.51
24 18 0.40
25 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (23 bp):
TATAGTAAATAATAATAAAATAA
Found at i:5880947 original size:3 final size:3
Alignment explanation
Indices: 5880892--5880933 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
5880882 TATTTATATA
*
5880892 AAT AAT AAT AAG AAT AAT AA- AAGT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A
5880934 TTGTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:5882192 original size:3 final size:3
Alignment explanation
Indices: 5882178--5882257 Score: 119
Period size: 3 Copynumber: 27.0 Consensus size: 3
5882168 TTTGTATCTG
*
5882178 TAA TAA -AA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
5882225 TAA TAG TAA TAA TAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
5882258 AAAAAACCAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
2 3 0.04
3 66 0.94
4 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5882877 original size:13 final size:13
Alignment explanation
Indices: 5882840--5882879 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
5882830 TCGATATTGA
5882840 AAAATAAATA-TT
1 AAAATAAATATTT
*
5882852 AAAATAATTTATTT
1 AAAATAA-ATATTT
5882866 AAAATAAATATTT
1 AAAATAAATATTT
5882879 A
1 A
5882880 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:5883735 original size:11 final size:11
Alignment explanation
Indices: 5883719--5883743 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5883709 GAACTTTTGA
5883719 TTCCACGGTGG
1 TTCCACGGTGG
5883730 TTCCACGGTGG
1 TTCCACGGTGG
5883741 TTC
1 TTC
5883744 GGCATCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.32, T:0.32
Consensus pattern (11 bp):
TTCCACGGTGG
Found at i:5884353 original size:3 final size:3
Alignment explanation
Indices: 5884347--5884390 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
5884337 ATTTATTATT
*
5884347 TAA TAA TAA TATA TCA TAA TAA TAA TAA TAA T-A TAAA TAA TAA T
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T
5884391 CAAATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 30 0.83
4 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5884397 original size:15 final size:15
Alignment explanation
Indices: 5884351--5884398 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
5884341 ATTATTTAAT
5884351 AATAATATATCATAAT-
1 AATAATA-ATCA-AATA
5884367 AATAATAAT-AATATA
1 AATAATAATCAA-ATA
5884382 AATAATAATCAAATA
1 AATAATAATCAAATA
5884397 AA
1 AA
5884399 AAAACTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 3 0.10
15 16 0.55
16 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAATCAAATA
Found at i:5889033 original size:33 final size:33
Alignment explanation
Indices: 5888961--5889033 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
5888951 CATGGCCACT
* *
5888961 CGCTTTGATCACGTTCTTCATGAGGTTGATACC
1 CGCTTTGATCAAGTTCTTCATCAGGTTGATACC
** * *
5888994 TACTTTGATCAAGTTCTTTATCATGTTGATACC
1 CGCTTTGATCAAGTTCTTCATCAGGTTGATACC
5889027 CGCTTTG
1 CGCTTTG
5889034 GTGCCGTGGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (33 bp):
CGCTTTGATCAAGTTCTTCATCAGGTTGATACC
Found at i:5893897 original size:20 final size:23
Alignment explanation
Indices: 5893866--5893911 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
5893856 ATATATATAA
5893866 TTTTAGTAATTTA-A-ATTTTAT
1 TTTTAGTAATTTATATATTTTAT
5893887 TTTTAGT-ATTTATATATTTTAT
1 TTTTAGTAATTTATATATTTTAT
5893909 TTT
1 TTT
5893912 AAATAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.22
21 8 0.35
22 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTAGTAATTTATATATTTTAT
Found at i:5893912 original size:21 final size:22
Alignment explanation
Indices: 5893856--5893912 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
5893846 AGTGTTTTTA
* *
5893856 ATATATATAATTTTAGTAATTT
1 ATATATTTTATTTTAGTAATTT
5893878 A-A-ATTTTATTTTTAGT-ATTT
1 ATATATTTTA-TTTTAGTAATTT
5893898 ATATATTTTATTTTA
1 ATATATTTTATTTTA
5893913 AATAGTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 9 0.30
21 14 0.47
22 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
ATATATTTTATTTTAGTAATTT
Found at i:5894607 original size:18 final size:19
Alignment explanation
Indices: 5894563--5894607 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
5894553 ACTTTCGTTA
*
5894563 TATTATTTTTATTTGTAAC
1 TATTATTTTAATTTGTAAC
5894582 TATT-TTTTAATTTG-AA-
1 TATTATTTTAATTTGTAAC
5894598 TATTTATTTT
1 TA-TTATTTT
5894608 TTATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 2 0.09
17 4 0.17
18 13 0.57
19 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TATTATTTTAATTTGTAAC
Found at i:5902485 original size:30 final size:30
Alignment explanation
Indices: 5902416--5902493 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
5902406 ATGAACCTTT
* *
5902416 TTTTCTCAAATTGGTATCTGAAATTGGAAA
1 TTTTCTCAAATTGGTACCTGAAATTAGAAA
*
5902446 TAATTCTCAAATTGGTACCT-AAACTTAGAAA
1 T-TTTCTCAAATTGGTACCTGAAA-TTAGAAA
5902477 TTTTCTCAAATTGGTAC
1 TTTTCTCAAATTGGTAC
5902494 TTGATGGTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 19 0.45
31 23 0.55
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (30 bp):
TTTTCTCAAATTGGTACCTGAAATTAGAAA
Found at i:5912067 original size:27 final size:26
Alignment explanation
Indices: 5912035--5912086 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
5912025 CAAGGAATAA
5912035 AAAGAAAAAAA-ATAGAATAAGATAAAT
1 AAAGAAAAAAAGATA-AATAA-ATAAAT
5912062 AAAGAAAAAAAGATAAATAAATAAA
1 AAAGAAAAAAAGATAAATAAATAAA
5912087 GATAAAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 5 0.21
27 16 0.67
28 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (26 bp):
AAAGAAAAAAAGATAAATAAATAAAT
Found at i:5912076 original size:18 final size:20
Alignment explanation
Indices: 5912053--5912098 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
5912043 AAAATAGAAT
5912053 AAGATAAATAAAGAAA-A-A
1 AAGATAAATAAAGAAAGATA
*
5912071 AAGATAAATAAATAAAGATA
1 AAGATAAATAAAGAAAGATA
5912091 AAGATAAA
1 AAGATAAA
5912099 GGAAATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
20 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (20 bp):
AAGATAAATAAAGAAAGATA
Found at i:5912077 original size:14 final size:14
Alignment explanation
Indices: 5912060--5912094 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5912050 AATAAGATAA
5912060 ATAAAGAAAAAAAG
1 ATAAAGAAAAAAAG
* *
5912074 ATAAATAAATAAAG
1 ATAAAGAAAAAAAG
5912088 ATAAAGA
1 ATAAAGA
5912095 TAAAGGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (14 bp):
ATAAAGAAAAAAAG
Found at i:5912113 original size:21 final size:20
Alignment explanation
Indices: 5912053--5912106 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
5912043 AAAATAGAAT
* *
5912053 AAGATAAATAAAGAAA-A-A
1 AAGATAAAGAAATAAAGATA
*
5912071 AAGATAAATAAATAAAGATA
1 AAGATAAAGAAATAAAGATA
5912091 AAGATAAAGGAAATAA
1 AAGATAAA-GAAATAA
5912107 CAATAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 15 0.48
19 1 0.03
20 9 0.29
21 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (20 bp):
AAGATAAAGAAATAAAGATA
Found at i:5914334 original size:100 final size:97
Alignment explanation
Indices: 5914196--5914399 Score: 300
Period size: 100 Copynumber: 2.1 Consensus size: 97
5914186 CTGGAACTGG
* *
5914196 GAAATTGTTTGTTGACAGTCAGCCGCCCATTCACCGTGAAGTTGAGCTTGTGTTGTCTTGAGTCT
1 GAAATTGTTTGTTGACAATCAGCCGCCCATTCACCGTGAAGTTGAGCTTGTGTTGTCTTGAGTCC
*
5914261 AATATTCTTCGTTGTGAAGTTGAAATTGACTCT
66 AATATCCTTC-TTGTGAAGTTGAAATTGACTCT
* ** *
5914294 GAAAGTTGTTTGTTTGACAATCAGTCGCCCATTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGGT
1 GAAA-TTGTTTG-TTGACAATCAGCCGCCCATTCACCGTGAAGTTGAGCTTGTGTTGTCTTGAGT
**
5914359 CCAATATCCTTCTTGTGAAGTTGAAATTGGTTCT
64 CCAATATCCTTCTTGTGAAGTTGAAATTGACTCT
5914393 GAAATTG
1 GAAATTG
5914400 GGAAGCCCCT
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 7 0.07
99 31 0.33
100 57 0.60
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (97 bp):
GAAATTGTTTGTTGACAATCAGCCGCCCATTCACCGTGAAGTTGAGCTTGTGTTGTCTTGAGTCC
AATATCCTTCTTGTGAAGTTGAAATTGACTCT
Found at i:5915539 original size:14 final size:14
Alignment explanation
Indices: 5915510--5915547 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
5915500 ATCCACCTTA
5915510 TTTT-TCTTTTCTT
1 TTTTCTCTTTTCTT
5915523 TTTTCTCTTGTTC-T
1 TTTTCTCTT-TTCTT
5915537 TTTTCTCTTTT
1 TTTTCTCTTTT
5915548 TTCAATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.26
14 14 0.61
15 3 0.13
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTCTCTTTTCTT
Found at i:5925332 original size:4 final size:4
Alignment explanation
Indices: 5925323--5925366 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
5925313 AAAAAGAGAA
*
5925323 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AGT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
5925367 TCAAAAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 2 0.05
4 35 0.95
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:5925479 original size:20 final size:20
Alignment explanation
Indices: 5925437--5925513 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
5925427 AAAATAGAAT
**
5925437 AAGATAAATAAAGGGAAAA-A
1 AAGATAAATAAA-TAAAAATA
5925457 AAGATAAATAAATAAAAATA
1 AAGATAAATAAATAAAAATA
* *
5925477 AAGATAAAGGAAATAACAATA
1 AAGATAAA-TAAATAAAAATA
* *
5925498 AA-ATGAATAAACAAAA
1 AAGATAAATAAATAAAA
5925514 CGAAGAAAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
19 10 0.21
20 25 0.53
21 12 0.26
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.14
Consensus pattern (20 bp):
AAGATAAATAAATAAAAATA
Done.