Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_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: 3563405
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 16
Found at i:1014439 original size:39 final size:39
Alignment explanation
Indices: 1014391--1014473 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
1014381 TCTTTTGGTT
* *
1014391 GAAATGAAAATCACAACGAGAGAA-TGAAAATCACAACGC
1 GAAACGAAAATCACAACGAGA-AACCGAAAATCACAACGC
* * *
1014430 GAAACGAAAATCGCAACGCGAAACCGAAAATCGCAACGC
1 GAAACGAAAATCACAACGAGAAACCGAAAATCACAACGC
1014469 GAAAC
1 GAAAC
1014474 TATAATCGCG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.51, C:0.23, G:0.19, T:0.07
Consensus pattern (39 bp):
GAAACGAAAATCACAACGAGAAACCGAAAATCACAACGC
Found at i:1014482 original size:19 final size:19
Alignment explanation
Indices: 1014391--1014473 Score: 103
Period size: 20 Copynumber: 4.3 Consensus size: 19
1014381 TCTTTTGGTT
* * *
1014391 GAAATGAAAATCACAACGA
1 GAAACGAAAATCGCAACGC
* *
1014410 GAGAATGAAAATCACAACGC
1 GA-AACGAAAATCGCAACGC
1014430 GAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
1014449 GAAACCGAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
1014469 GAAAC
1 GAAAC
1014474 TATAATCGCG
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 22 0.37
20 37 0.63
ACGTcount: A:0.51, C:0.23, G:0.19, T:0.07
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:1014501 original size:19 final size:19
Alignment explanation
Indices: 1014479--1014528 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1014469 GAAACTATAA
1014479 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTAATT
**
1014498 TCGCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTAATT
1014517 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1014529 AGTCATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.10, C:0.20, G:0.26, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAATT
Found at i:1015070 original size:21 final size:21
Alignment explanation
Indices: 1015011--1015071 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
1015001 CTCGAGAGTC
1015011 CCCTCCCACCGTTCAAGAGGT
1 CCCTCCCACCGTTCAAGAGGT
* ** * *
1015032 CACTGTCATCGTTGAAGAGGT
1 CCCTCCCACCGTTCAAGAGGT
*
1015053 CCCTCCCACCATTCAAGAG
1 CCCTCCCACCGTTCAAGAG
1015072 CCCGATTCAC
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (21 bp):
CCCTCCCACCGTTCAAGAGGT
Found at i:1016442 original size:14 final size:14
Alignment explanation
Indices: 1016423--1016458 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1016413 ATTGTTTAAT
1016423 TGATTTGTAAAAAA
1 TGATTTGTAAAAAA
**
1016437 TGATTTGTAAAAGT
1 TGATTTGTAAAAAA
1016451 TGATTTGT
1 TGATTTGT
1016459 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAAA
Found at i:1016590 original size:19 final size:19
Alignment explanation
Indices: 1016568--1016616 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
1016558 AATGACTATC
*
1016568 GCAATGCGAAATGAAAATA
1 GCAACGCGAAATGAAAATA
* *
1016587 GCAACGCTAAATGAAAATC
1 GCAACGCGAAATGAAAATA
1016606 GCAACGCGAAA
1 GCAACGCGAAA
1016617 CTAAATTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.12
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATA
Found at i:1016669 original size:33 final size:33
Alignment explanation
Indices: 1016626--1016752 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
1016616 ACTAAATTCG
** *
1016626 CGTTGCGATTTTCATTTCGTTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
1016659 AGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
1016692 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1016725 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1016753 AGTCATTTCC
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:1016685 original size:19 final size:18
Alignment explanation
Indices: 1016661--1016772 Score: 87
Period size: 19 Copynumber: 6.4 Consensus size: 18
1016651 GATTCCCTAG
1016661 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
1016679 ATTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
1016694 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
1016712 GTTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
1016727 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
**
1016745 ATTGCGATAGTCATTTCCGC
1 -TTGCGATTTTCATTT-CGC
1016765 GTTGCGAT
1 -TTGCGAT
1016773 AGACATTAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
14 12 0.16
16 14 0.19
17 14 0.19
19 25 0.33
20 10 0.13
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:1016699 original size:14 final size:14
Alignment explanation
Indices: 1016680--1016734 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1016670 TCATTTCGCA
1016680 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
1016694 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
1016713 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
1016727 TTGCGATT
1 TTGCGATT
1016735 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:1019320 original size:24 final size:24
Alignment explanation
Indices: 1019286--1019339 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1019276 CTGAAAAATC
1019286 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1019310 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1019334 ATCAAA
1 ATCAAA
1019340 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1019353 original size:24 final size:24
Alignment explanation
Indices: 1019286--1019353 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1019276 CTGAAAAATC
* * *
1019286 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1019310 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1019334 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1019354 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1020216 original size:20 final size:20
Alignment explanation
Indices: 1020202--1020449 Score: 277
Period size: 20 Copynumber: 12.2 Consensus size: 20
1020192 GAATCTCGTC
1020202 GCGATTACGTAAATCGCAAT
1 GCGATTACGTAAATCGCAAT
1020222 GCGATTACGTAAATCG-AAGT
1 GCGATTACGTAAATCGCAA-T
* *
1020242 GCGAATTAAGAAAATCGCAAT
1 GCG-ATTACGTAAATCGCAAT
1020263 GCGATTACGTAAATCGCAAT
1 GCGATTACGTAAATCGCAAT
*
1020283 GCGATTACGTAAATTGCAAT
1 GCGATTACGTAAATCGCAAT
1020303 GCGATTACGTAAATCGCAAT
1 GCGATTACGTAAATCGCAAT
1020323 GCGATTACGTAAATCGCAAT
1 GCGATTACGTAAATCGCAAT
* *
1020343 GCGAATTAGGAAAATCGCAAT
1 GCG-ATTACGTAAATCGCAAT
* * *
1020364 GCGATTATGT-ATTCGCATT
1 GCGATTACGTAAATCGCAAT
* *
1020383 GCGATTTACGT-ATTCGCATT
1 GCGA-TTACGTAAATCGCAAT
* * *
1020403 GCGAATTAGGAAAATCGCAAC
1 GCG-ATTACGTAAATCGCAAT
** *
1020424 GCGAATTTGGGAAATCGCAAT
1 GCG-ATTACGTAAATCGCAAT
1020445 GCGAT
1 GCGAT
1020450 AGTCAGAATC
Statistics
Matches: 200, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.06
20 124 0.62
21 61 0.31
22 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (20 bp):
GCGATTACGTAAATCGCAAT
Found at i:1020287 original size:81 final size:81
Alignment explanation
Indices: 1020202--1020449 Score: 306
Period size: 81 Copynumber: 3.1 Consensus size: 81
1020192 GAATCTCGTC
1020202 GCGATTACGTAAATCGCAATGCGATTACGTAAATCGAAGTGCGAATTAAGAAAATCGCAATGCG-
1 GCGATTACGTAAATCGCAATGCGATTACGTAAATCGAA-TGCGAATTAAGAAAATCGCAATGCGA
* *
1020266 ATTACGTAAATCGCAAT
65 ATTAGGAAAATCGCAAT
* * *
1020283 GCGATTACGTAAATTGCAATGCGATTACGTAAATCGCAATGCG-ATTACGTAAATCGCAATGCGA
1 GCGATTACGTAAATCGCAATGCGATTACGTAAATCG-AATGCGAATTAAGAAAATCGCAATGCGA
1020347 ATTAGGAAAATCGCAAT
65 ATTAGGAAAATCGCAAT
* * * * * * *
1020364 GCGATTATGT-ATTCGCATTGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAATCGCAACGCG
1 GCGATTACGTAAATCGCAATGCGA-TTACGTAAATCG-AATGCGAATTAAGAAAATCGCAATGCG
* *
1020427 AATTTGGGAAATCGCAAT
64 AATTAGGAAAATCGCAAT
1020445 GCGAT
1 GCGAT
1020450 AGTCAGAATC
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
80 38 0.26
81 107 0.73
82 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (81 bp):
GCGATTACGTAAATCGCAATGCGATTACGTAAATCGAATGCGAATTAAGAAAATCGCAATGCGAA
TTAGGAAAATCGCAAT
Found at i:1020315 original size:101 final size:101
Alignment explanation
Indices: 1020202--1020448 Score: 322
Period size: 101 Copynumber: 2.4 Consensus size: 101
1020192 GAATCTCGTC
1020202 GCGATTACGTAAATCGCAATGCGATTACGTAAATCG-AAGTGCGAATTAAGAAAATCGCAATGCG
1 GCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAA-TGCGAATTAAGAAAATCGCAATGCG
1020266 ATTACGTAAATCGCAATGCGA-TTACGTAAATTGCAAT
65 ATTACGT-AATCGCAATGCGATTTACGTAAATTGCAAT
*
1020303 GCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGA
1 GCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAAGAAAATCGCAATGCGA
* * * *
1020368 TTATGTATTCGCATTGCGATTTACGT--ATTCGCATT
66 TTACGTAATCGCAATGCGATTTACGTAAATT-GCAAT
* * * ** *
1020403 GCGAATTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAATGCGA
1 GCG-ATTACGTAAATCGCAATGCG-ATTACGTAAATCGCAATGCGA
1020449 TAGTCAGAAT
Statistics
Matches: 130, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
99 3 0.02
100 18 0.14
101 89 0.68
102 20 0.15
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (101 bp):
GCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAAGAAAATCGCAATGCGA
TTACGTAATCGCAATGCGATTTACGTAAATTGCAAT
Found at i:1021889 original size:14 final size:13
Alignment explanation
Indices: 1021849--1021890 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
1021839 ATAAGTGCAT
1021849 TTCTTACTTTTCA
1 TTCTTACTTTTCA
* *
1021862 TCCTTAC-CTTCA
1 TTCTTACTTTTCA
1021874 TTCTTACTTTTTCA
1 TTCTTAC-TTTTCA
1021888 TTC
1 TTC
1021891 AAGTTTTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (13 bp):
TTCTTACTTTTCA
Found at i:1027134 original size:17 final size:17
Alignment explanation
Indices: 1027108--1027146 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1027098 TATTCGGACA
*
1027108 CACTCGTATCCGATACT
1 CACTCATATCCGATACT
1027125 CACTCATATCCGATACT
1 CACTCATATCCGATACT
1027142 CACTC
1 CACTC
1027147 GAACTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.38, G:0.08, T:0.28
Consensus pattern (17 bp):
CACTCATATCCGATACT
Found at i:1030471 original size:18 final size:20
Alignment explanation
Indices: 1030442--1030479 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1030432 TATATATGTG
1030442 AATATATATTTAA-ATAAAA
1 AATATATATTTAATATAAAA
1030461 AATAT-TATTTAATATAAAA
1 AATATATATTTAATATAAAA
1030480 TTGTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATATATATTTAATATAAAA
Found at i:1032173 original size:2 final size:2
Alignment explanation
Indices: 1032166--1032204 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1032156 ATAAAAATGA
1032166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1032205 ATTTAACAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1032931 original size:20 final size:20
Alignment explanation
Indices: 1032905--1032960 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1032895 GGCCTGGCAA
1032905 TGAACCGGCTGAAAACC-AG
1 TGAACCGGCTGAAAACCGAG
*
1032924 TAGAACCGGCTGAAAACCGGGG
1 T-GAACCGGCTGAAAACC-GAG
1032946 TGAACCGGCTGAAAA
1 TGAACCGGCTGAAAA
1032961 TCAGCAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.48
21 14 0.42
22 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.30, T:0.11
Consensus pattern (20 bp):
TGAACCGGCTGAAAACCGAG
Found at i:1034431 original size:111 final size:111
Alignment explanation
Indices: 1034234--1034447 Score: 383
Period size: 111 Copynumber: 1.9 Consensus size: 111
1034224 ATATATATCT
* *
1034234 ACACTTTGCTGATACGGTAACAATTTAACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGT
1 ACACTTTGCTGATACGGTAACAATTTAACGTTTTAATTTAATTTAAATTATTAGAAATAATTAGT
*
1034299 TGATTTATTTAATGCACGATTATTAGATTAAGAATTAAATATCTCG
66 TGATTCATTTAATGCACGATTATTAGATTAAGAATTAAATATCTCG
*
1034345 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGAAATAATTAGT
1 ACACTTTGCTGATACGGTAACAATTTAACGTTTTAATTTAATTTAAATTATTAGAAATAATTAGT
*
1034410 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TGATTCATTTAATGCACGATTATTAGATTAAGAATTAA
1034448 TTTTTGTAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 98 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (111 bp):
ACACTTTGCTGATACGGTAACAATTTAACGTTTTAATTTAATTTAAATTATTAGAAATAATTAGT
TGATTCATTTAATGCACGATTATTAGATTAAGAATTAAATATCTCG
Found at i:1035876 original size:17 final size:17
Alignment explanation
Indices: 1035849--1035887 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1035839 AATTTACAAT
1035849 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
1035865 TAATTATAAATAATATC
1 TAATTATAAATAATATC
1035882 TAATTA
1 TAATTA
1035888 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:1036490 original size:17 final size:18
Alignment explanation
Indices: 1036463--1036511 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
1036453 CAGCCACCGT
*
1036463 AGCCTTATATGATGCCGC
1 AGCCATATATGATGCCGC
* *
1036481 A-CCATATATGATACTGC
1 AGCCATATATGATGCCGC
1036498 AGCCATATATGATG
1 AGCCATATATGATG
1036512 TTGCCATCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (18 bp):
AGCCATATATGATGCCGC
Found at i:1036505 original size:18 final size:18
Alignment explanation
Indices: 1036458--1036510 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
1036448 CCCAGCAGCC
* *
1036458 ACCGTAGCCTTATATGAT
1 ACCGCAGCCATATATGAT
*
1036476 GCCGCA-CCATATATGAT
1 ACCGCAGCCATATATGAT
*
1036493 ACTGCAGCCATATATGAT
1 ACCGCAGCCATATATGAT
1036511 GTTGCCATCG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (18 bp):
ACCGCAGCCATATATGAT
Found at i:1036869 original size:21 final size:21
Alignment explanation
Indices: 1036845--1036884 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1036835 ACCTGCTCAG
*
1036845 GACGACGACGATGACGATGGT
1 GACGACGACGACGACGATGGT
1036866 GACGACGACGACGACGATG
1 GACGACGACGACGACGATG
1036885 ATGATGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.38, T:0.10
Consensus pattern (21 bp):
GACGACGACGACGACGATGGT
Found at i:1036897 original size:21 final size:21
Alignment explanation
Indices: 1036845--1036897 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1036835 ACCTGCTCAG
* * *
1036845 GACGACGACGATGACGATGGT
1 GACGACAACGACGACGATGAT
*
1036866 GACGACGACGACGACGATGAT
1 GACGACAACGACGACGATGAT
*
1036887 GATGACAACGA
1 GACGACAACGA
1036898 GGAGTCAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.34, T:0.11
Consensus pattern (21 bp):
GACGACAACGACGACGATGAT
Found at i:1041450 original size:21 final size:21
Alignment explanation
Indices: 1041420--1041520 Score: 93
Period size: 21 Copynumber: 4.8 Consensus size: 21
1041410 GATTTACATA
*
1041420 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
1041441 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
1041464 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
1041483 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
1041506 TT--TGTTGCGATAGTC
1 TTCGCGTTGCGATAGTC
1041521 TAAAATCGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
19 13 0.20
21 34 0.52
23 19 0.29
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1041465 original size:23 final size:23
Alignment explanation
Indices: 1041435--1041507 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
1041425 ATTGCGATAG
1041435 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
*
1041458 TCCAAGTT--CGTTGCGA--TAG
1 TCCAAGTTCGCGTTGCGATTTAT
*
1041477 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
1041500 TCCAAGTT
1 TCCAAGTT
1041508 TGTTGCGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 9 0.21
21 16 0.38
23 17 0.40
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (23 bp):
TCCAAGTTCGCGTTGCGATTTAT
Found at i:1041477 original size:42 final size:42
Alignment explanation
Indices: 1041426--1041520 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
1041416 CATATTCGCA
1041426 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
1041468 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTTG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1041510 TTGCGATAGTC
1 TTGCGATAGTC
1041521 TAAAATCGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:1042290 original size:21 final size:21
Alignment explanation
Indices: 1042266--1042340 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
1042256 AATTTGGAAA
1042266 ATCGCAACT-CGAACTTCGACT
1 ATCGCAA-TGCGAACTTCGACT
*
1042287 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
1042308 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
1042329 ATCGCATTGCGA
1 ATCGCAATGCGA
1042341 TTTACATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 1 0.02
21 49 0.98
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:1042313 original size:42 final size:42
Alignment explanation
Indices: 1042243--1042340 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
1042233 TGCGATTTTG
*
1042243 GACTATCGCAA--CGAATTTGGAAAATCGCAACT-CGAACTTC
1 GACTATCGCAATGCGAACTTGGAAAATCGCAA-TGCGAACTTC
**
1042283 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACTTC
1 GACTATCGCAATGCGAACTTGGAAAATCGCAATGCGAACTTC
*
1042325 GACTATCGCATTGCGA
1 GACTATCGCAATGCGA
1042341 TTTACATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 11 0.22
41 1 0.02
42 39 0.76
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
GACTATCGCAATGCGAACTTGGAAAATCGCAATGCGAACTTC
Found at i:1042375 original size:21 final size:21
Alignment explanation
Indices: 1042349--1042408 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
1042339 GATTTACATA
1042349 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
*
1042370 TTCGCATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTCGAAG
1042391 TTCGCATTGCGATAGTCG
1 TTCGCATTGCGATAGTCG
1042409 TGATTTACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:1042446 original size:21 final size:21
Alignment explanation
Indices: 1042420--1042473 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1042410 GATTTACATA
1042420 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
1042441 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
1042462 TTCGCGTTGCGA
1 TTCGCATTGCGA
1042474 ATTATCGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:1042455 original size:71 final size:71
Alignment explanation
Indices: 1042339--1042473 Score: 243
Period size: 71 Copynumber: 1.9 Consensus size: 71
1042329 ATCGCATTGC
* *
1042339 GATTTACATATTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCTAAGTTCGCATTGCGAT
1 GATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGAT
1042404 AGTCGT
66 AGTCGT
*
1042410 GATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
1 GATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGA
1042474 ATTATCGATC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (71 bp):
GATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGAT
AGTCGT
Found at i:1043763 original size:129 final size:131
Alignment explanation
Indices: 1043612--1043865 Score: 444
Period size: 129 Copynumber: 2.0 Consensus size: 131
1043602 AAAATGATTT
1043612 TTTTTTCAACTTGACTCGAATTGATTTCGAATTGTAGTTTTATAAACTCGATTC-G-AAAAAAAT
1 TTTTTTCAACTTGACTCGAATTGATTTCGAATTGTAGTTTTATAAACTCGATTCGGAAAAAAAAT
*
1043675 CAAGTTCAAATCTATTTTAAAATT-TTTCTTAATGTATTAGATCATACACAAGGCAATATCTTAA
66 CAAGTTCAAATCGATTTT-AAATTGTTTCTTAATGTA-TAGATCATACACAAGGCAATATCTTAA
1043739 TGA
129 TGA
*
1043742 TTTTTT-AACTTGACTCGAATTGATTTCGAATTGTAGTTTTATAAACTCGGTTCGGAAAAAAAAT
1 TTTTTTCAACTTGACTCGAATTGATTTCGAATTGTAGTTTTATAAACTCGATTCGGAAAAAAAAT
1043806 CAAGTTCAAATCGATTTTAAATTGTTTCTTAATGTATAGATCATACACAAGGCAATATCT
66 CAAGTTCAAATCGATTTTAAATTGTTTCTTAATGTATAGATCATACACAAGGCAATATCT
1043866 GTTAAAAAAT
Statistics
Matches: 119, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
129 46 0.39
130 36 0.30
131 37 0.31
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (131 bp):
TTTTTTCAACTTGACTCGAATTGATTTCGAATTGTAGTTTTATAAACTCGATTCGGAAAAAAAAT
CAAGTTCAAATCGATTTTAAATTGTTTCTTAATGTATAGATCATACACAAGGCAATATCTTAATG
A
Found at i:1049742 original size:2 final size:2
Alignment explanation
Indices: 1049735--1049768 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1049725 ACCATATAAC
1049735 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
1049769 CATGTCATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1050109 original size:29 final size:30
Alignment explanation
Indices: 1050067--1050148 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
1050057 CCCGAATGAC
1050067 CTATCCAGAGGTCACAAAG-ACCCCGACAA
1 CTATCCAGAGGTCACAAAGAACCCCGACAA
* * * *
1050096 CTATCTAGATGTCATAAAGAACCTCGACAA
1 CTATCCAGAGGTCACAAAGAACCCCGACAA
* * **
1050126 CTGTCCATAGGTTTCAAAGAACC
1 CTATCCAGAGGTCACAAAGAACC
1050149 TAGGTAAACT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGACAA
Found at i:1050162 original size:31 final size:31
Alignment explanation
Indices: 1050124--1050188 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
1050114 GAACCTCGAC
* *
1050124 AACTGTCCATAGGTTTC-AAAGAACCTAGGTA
1 AACTGTCCATAGGTCTCGAAAG-ACATAGGTA
*
1050155 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCTCGAAAGACATAGGTA
1050186 AAC
1 AAC
1050189 CCTCGACTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCTCGAAAGACATAGGTA
Found at i:1051440 original size:20 final size:22
Alignment explanation
Indices: 1051415--1051472 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
1051405 TTCCCCTTGA
1051415 AGTGCATCGATGCATAC-T-AC
1 AGTGCATCGATGCATACTTAAC
*
1051435 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATAC-TTAAC
1051458 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1051473 CTACCTATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (22 bp):
AGTGCATCGATGCATACTTAAC
Found at i:1051538 original size:64 final size:63
Alignment explanation
Indices: 1051459--1051600 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 63
1051449 TTCTTTAACA
*
1051459 TGTGCATCGATGCACTACC-TATGCATCGATACACAAATTACCTTCGATGTTTTCATT-TTAAAG
1 TGTGCATCGATGCACT-CCTTATGCATCGATACACAAATTACATTCGATG-TTTC-TTCTTAAAG
1051522 G
63 G
* * * * *
1051523 -GATGCATCGATGCACTCCTTATGCATCGATGCACTATTTGCATTCGATGTTTCTTCTTTAAGG
1 TG-TGCATCGATGCACTCCTTATGCATCGATACACAAATTACATTCGATGTTTCTTCTTAAAGG
1051586 TGTGCATCGATGCAC
1 TGTGCATCGATGCAC
1051601 ATTCAATGTG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
62 2 0.03
63 26 0.38
64 40 0.59
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (63 bp):
TGTGCATCGATGCACTCCTTATGCATCGATACACAAATTACATTCGATGTTTCTTCTTAAAGG
Found at i:1051571 original size:18 final size:19
Alignment explanation
Indices: 1051524--1051571 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1051514 TTTTAAAGGG
*
1051524 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCATT
1051543 ATGCATCGATGCACT-ATT
1 ATGCATCGATGCACTCATT
1051561 -TGCATTCGATG
1 ATGCA-TCGATG
1051572 TTTCTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 8 0.30
19 15 0.56
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (19 bp):
ATGCATCGATGCACTCATT
Found at i:1056930 original size:16 final size:15
Alignment explanation
Indices: 1056911--1056942 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1056901 TTTTTTATTG
1056911 TAATAATTAAGAAAAA
1 TAATAATTAA-AAAAA
1056927 TAATAATTAAAAAAA
1 TAATAATTAAAAAAA
1056942 T
1 T
1056943 TGTTGCGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TAATAATTAAAAAAA
Found at i:1060183 original size:117 final size:117
Alignment explanation
Indices: 1060053--1060285 Score: 317
Period size: 117 Copynumber: 2.0 Consensus size: 117
1060043 CATTAATTTA
* * *
1060053 ATTTATTCATAATAAACAC-TAACAAAATAATATTAATTATTAAA-AATATGATTATTATCTTTA
1 ATTTATTCATAATAAACACTTAAC-AAATAATATCAATGATTAAAGAA-ATGATTATTATATTTA
* * * *
1060116 GAGGTCTTGGGTTTGAGCATTACATATATATGGATGTTTGAATTTTCATTTTTT
64 GAGGTCTTGGGTTTGAGCATTACATATACATGGATATTTAAACTTTCATTTTTT
* ** * *
1060170 ATTTATTCATAATAAATACTTTTCAAATGATATCAATGGTTAAAGAAATGATTATTATATTTAGA
1 ATTTATTCATAATAAACACTTAACAAATAATATCAATGATTAAAGAAATGATTATTATATTTAGA
*
1060235 GGTCTTGGGTTTGAGCATTACATATACATTGATATTTAAACTTTCATTTTT
66 GGTCTTGGGTTTGAGCATTACATATACATGGATATTTAAACTTTCATTTTT
1060286 AAATAGTTGA
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
117 97 0.96
118 4 0.04
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (117 bp):
ATTTATTCATAATAAACACTTAACAAATAATATCAATGATTAAAGAAATGATTATTATATTTAGA
GGTCTTGGGTTTGAGCATTACATATACATGGATATTTAAACTTTCATTTTTT
Found at i:1060689 original size:18 final size:18
Alignment explanation
Indices: 1060666--1060716 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
1060656 CGCGAATCCA
*
1060666 CCATCGTCTCCACCTCCG
1 CCATCGTCACCACCTCCG
*
1060684 CCATCGTCACCACCACCG
1 CCATCGTCACCACCTCCG
*
1060702 CCGTCGTCACCACCT
1 CCATCGTCACCACCT
1060717 TCCGTGACCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.55, G:0.12, T:0.18
Consensus pattern (18 bp):
CCATCGTCACCACCTCCG
Found at i:1064010 original size:20 final size:20
Alignment explanation
Indices: 1063991--1064027 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1063981 TGATATTGAT
*
1063991 TATTTTT-ATAATTTAATGA
1 TATTTTTAAAAATTTAATGA
1064010 TATTTTTAAAAATTTAAT
1 TATTTTTAAAAATTTAAT
1064028 TTTTGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTTAAAAATTTAATGA
Found at i:1071238 original size:76 final size:76
Alignment explanation
Indices: 1071112--1071332 Score: 406
Period size: 76 Copynumber: 2.9 Consensus size: 76
1071102 TGGCCATCCA
*
1071112 GTTAGCAAATAATGGTGTTAAGCCAATCATATGAACAGGAAAAGCACAGATAACCAAATACCGTA
1 GTTAGCAAATAATGGCGTTAAGCCAATCATATGAACAGGAAAAGCACAGATAACCAAATACCGTA
1071177 GTGATGTTCCG
66 GTGATGTTCCG
1071188 GTTAGCAAATAATGGCGTTAAGCCAATCATATGAACAGGAAAAGCACAGATAACCAAATACCGTA
1 GTTAGCAAATAATGGCGTTAAGCCAATCATATGAACAGGAAAAGCACAGATAACCAAATACCGTA
1071253 GTGATGTTCCG
66 GTGATGTTCCG
* * *
1071264 GTTAGCAAATAATGGCGTTAAGCCAATCGTATGAATAGGAAAAGCACAGATAACCAAATACTGTA
1 GTTAGCAAATAATGGCGTTAAGCCAATCATATGAACAGGAAAAGCACAGATAACCAAATACCGTA
1071329 GTGA
66 GTGA
1071333 ATTGTAACAT
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 141 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (76 bp):
GTTAGCAAATAATGGCGTTAAGCCAATCATATGAACAGGAAAAGCACAGATAACCAAATACCGTA
GTGATGTTCCG
Found at i:1075130 original size:28 final size:28
Alignment explanation
Indices: 1075085--1075141 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1075075 ACGTCGTTGG
*
1075085 TTTCAAACACTCACTCGACGACATAATA
1 TTTCAAACACTAACTCGACGACATAATA
* * *
1075113 TTTCAAATACTAATTCGACGATATAATA
1 TTTCAAACACTAACTCGACGACATAATA
1075141 T
1 T
1075142 AAATGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (28 bp):
TTTCAAACACTAACTCGACGACATAATA
Found at i:1076391 original size:16 final size:16
Alignment explanation
Indices: 1076368--1076407 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
1076358 TCTACTATGA
*
1076368 TTAATTTCAATTTTAG
1 TTAATTTCAATTTGAG
*
1076384 TTAGTTTCAATTTGAG
1 TTAATTTCAATTTGAG
1076400 TTAATTTC
1 TTAATTTC
1076408 GATTCAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (16 bp):
TTAATTTCAATTTGAG
Found at i:1079832 original size:229 final size:226
Alignment explanation
Indices: 1079427--1079875 Score: 765
Period size: 229 Copynumber: 2.0 Consensus size: 226
1079417 GTAAATTATC
* *
1079427 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
**
1079492 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
1079557 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
130 TGTATAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
1079622 AAACATAAATTACATAACTTTCAAAAAAGTATA
195 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
1079655 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTAAATTA-TTTG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATT--ATTACTTTA
*
1079719 GTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
63 GTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
1079784 TTTGTATAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
128 TTTGTATAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
*
1079849 TTAAACATAAATTACATAACTTTAAAA
193 TGAAACATAAATTACATAACTTTAAAA
1079876 GCAGTTTTAA
Statistics
Matches: 209, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
228 40 0.19
229 165 0.79
231 4 0.02
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTT
GTATAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:1079964 original size:20 final size:20
Alignment explanation
Indices: 1079941--1079983 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
1079931 CGATATACCA
1079941 GGTAA-AAATATGATAAAACC
1 GGTAACAAA-ATGATAAAACC
1079961 GGTAACAAAATGATAAAACC
1 GGTAACAAAATGATAAAACC
1079981 GGT
1 GGT
1079984 CAATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.19
Consensus pattern (20 bp):
GGTAACAAAATGATAAAACC
Found at i:1080136 original size:19 final size:20
Alignment explanation
Indices: 1080105--1080150 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1080095 CGATATAACA
1080105 GGTAAAAATATGAT-AAACC
1 GGTAAAAATATGATAAAACC
1080124 GGTAACAAA-ATGATAAAACC
1 GGTAA-AAATATGATAAAACC
1080144 GGTAAAA
1 GGTAAAA
1080151 TGATACCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (20 bp):
GGTAAAAATATGATAAAACC
Found at i:1082424 original size:21 final size:22
Alignment explanation
Indices: 1082377--1082417 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1082367 AAGACAATCA
*
1082377 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGATC
*
1082399 A-AGTCGTAGAGAAACTCGA
1 AGAGTCGAAGAGAAACTCGA
1082418 GAGAGTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.41, C:0.15, G:0.27, T:0.17
Consensus pattern (22 bp):
AGAGTCGAAGAGAAACTCGATC
Found at i:1082517 original size:33 final size:33
Alignment explanation
Indices: 1082475--1082540 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1082465 AAATAGATGG
*
1082475 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1082508 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1082541 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1084355 original size:19 final size:19
Alignment explanation
Indices: 1084331--1084379 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1084321 AATGTCGAGT
1084331 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1084350 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1084369 TATTTTTGTAT
1 TAATTTTGTAT
1084380 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1085016 original size:199 final size:199
Alignment explanation
Indices: 1084498--1085867 Score: 2627
Period size: 199 Copynumber: 6.9 Consensus size: 199
1084488 CAATATGGCC
* * *
1084498 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
1084563 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
1084628 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
1084693 ATTAAA
194 ATTAAA
*
1084699 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAATC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1084764 C-AAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1084828 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1084893 TAAA
196 TAAA
1084897 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1084962 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085027 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1085092 TAAA
196 TAAA
1085096 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085161 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085226 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1085291 TAAA
196 TAAA
1085295 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085360 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085425 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1085490 TAAA
196 TAAA
1085494 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085558 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085623 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
**
1085688 GGAA
196 TAAA
1085692 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085757 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085822 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1085868 CTAATTTAAA
Statistics
Matches: 1158, Mismatches: 9, Indels: 6
0.99 0.01 0.01
Matches are distributed among these distances:
198 392 0.34
199 708 0.61
200 24 0.02
201 34 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
TAAA
Found at i:1085278 original size:397 final size:398
Alignment explanation
Indices: 1084498--1085867 Score: 2627
Period size: 397 Copynumber: 3.4 Consensus size: 398
1084488 CAATATGGCC
* * *
1084498 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
1084563 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
1084628 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
1084693 ATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
194 ATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
* *
1084758 CGAATCC-AAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
259 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
1084822 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
324 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
1084887 ATGAATTAAA
389 ATGAATTAAA
1084897 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1084962 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085027 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1085092 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
1085157 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
1085222 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
1085287 GAATTAAA
391 GAATTAAA
1085295 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085360 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085425 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1085490 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
196 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
1085554 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
1085619 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
**
1085684 GAATGGAA
391 GAATTAAA
1085692 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085757 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085822 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1085868 CTAATTTAAA
Statistics
Matches: 960, Mismatches: 10, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
397 538 0.56
398 388 0.40
399 34 0.04
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (398 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
GAATTAAA
Found at i:1085667 original size:596 final size:596
Alignment explanation
Indices: 1084498--1085867 Score: 2625
Period size: 596 Copynumber: 2.3 Consensus size: 596
1084488 CAATATGGCC
* * *
1084498 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
1084563 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
1084628 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
1084693 ATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
194 ATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
*
1084758 CGAATCCAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
259 CGAACCCAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
1084823 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAA
1084888 TGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
389 TGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
1084953 CATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
454 CATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
1085018 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCC
519 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCC
*
1085083 AGAATGAATTAAA
584 AGAATGAATGAAA
1085096 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085161 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085226 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1085291 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
1085356 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCC-AAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
1085421 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
1085486 GAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATC
390 GAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
*
1085550 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
455 ATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
1085615 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCA
520 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCA
*
1085680 GAATGAATGGAA
585 GAATGAATGAAA
1085692 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1085757 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1085822 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1085868 CTAATTTAAA
Statistics
Matches: 762, Mismatches: 9, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
596 538 0.71
597 190 0.25
598 34 0.04
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (596 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
AATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
TCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAG
AATGAATGAAA
Found at i:1087346 original size:6 final size:6
Alignment explanation
Indices: 1087322--1087410 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
1087312 AGCGGTCGCA
* * * * * *
1087322 GAAGAT GAAGTT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** *
1087370 GAAGCT GGCGAT GAAGAT GATGACGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GA
1087411 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 58 0.91
8 1 0.02
9 5 0.08
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:1087357 original size:3 final size:3
Alignment explanation
Indices: 1087337--1087414 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
1087327 TGAAGTTGAC
* * * * * ** *
1087337 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
1087385 GAT GAT GAC GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1087415 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:1087358 original size:18 final size:18
Alignment explanation
Indices: 1087322--1087414 Score: 69
Period size: 18 Copynumber: 5.0 Consensus size: 18
1087312 AGCGGTCGCA
* *
1087322 GAAGATGAAGTTGACGAT
1 GAAGATGAAGATGATGAT
*
1087340 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
1087358 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
**
1087376 GGCGATGAAGATGATGACGAT
1 GAAGATGAAGATGAT---GAT
*
1087397 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
1087415 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
18 44 0.75
21 15 0.25
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:1089189 original size:184 final size:184
Alignment explanation
Indices: 1088880--1089223 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
1088870 CTTTCAACAT
* *
1088880 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
* *
1088945 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
1089010 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
** * * *
1089064 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
1089129 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
1089194 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACCATTTAAAAAAGTGTCG
1089224 GTAATTTGAA
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (184 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:1091724 original size:25 final size:25
Alignment explanation
Indices: 1091690--1091754 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1091680 TTATCATTAA
1091690 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1091715 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1091740 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1091755 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1092071 original size:23 final size:23
Alignment explanation
Indices: 1092040--1092103 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1092030 ATAGGTAAAC
*
1092040 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1092063 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1092086 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1092104 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1092110 original size:23 final size:23
Alignment explanation
Indices: 1092040--1092112 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1092030 ATAGGTAAAC
* **
1092040 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1092063 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1092086 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1092109 ATAT
1 ATAT
1092113 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1092415 original size:25 final size:25
Alignment explanation
Indices: 1092381--1092431 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1092371 ACAACAAATC
*
1092381 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
1092406 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
1092431 A
1 A
1092432 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:1092747 original size:18 final size:18
Alignment explanation
Indices: 1092726--1092762 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1092716 GTAATTGGAG
1092726 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1092744 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1092762 T
1 T
1092763 ATATATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1092770 original size:24 final size:24
Alignment explanation
Indices: 1092718--1092764 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1092708 TTTCATATGT
* *
1092718 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1092742 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
1092765 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:1093064 original size:39 final size:39
Alignment explanation
Indices: 1093021--1093107 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1093011 TCCGATGCTC
*
1093021 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1093060 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1093099 ATCAAAATC
1 ATCAAAATC
1093108 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1093541 original size:23 final size:23
Alignment explanation
Indices: 1093510--1093573 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1093500 ATAGGTAAAC
*
1093510 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
1093533 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1093556 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1093574 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1093580 original size:23 final size:23
Alignment explanation
Indices: 1093510--1093582 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1093500 ATAGGTAAAC
* **
1093510 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1093533 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1093556 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1093579 ATAT
1 ATAT
1093583 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1097617 original size:24 final size:25
Alignment explanation
Indices: 1097590--1097658 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
1097580 AAAATCAAAT
1097590 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
1097614 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
1097637 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
1097659 ATATTATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 23 0.59
25 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:1097768 original size:16 final size:16
Alignment explanation
Indices: 1097727--1097773 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1097717 AATTATGATT
1097727 ATTATATTTTATTA-AA
1 ATTATA-TTTATTATAA
* *
1097743 A-TAAAATTATTATAA
1 ATTATATTTATTATAA
1097758 ATTATATTTATTATAA
1 ATTATATTTATTATAA
1097774 TAAGAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.24
15 6 0.24
16 13 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTATATTTATTATAA
Found at i:1097776 original size:30 final size:30
Alignment explanation
Indices: 1097702--1097776 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
1097692 TATATCTATA
* *
1097702 ATTTTATAAATAA-AAAATTATGATTATTAT
1 ATTTTAT-TATAATAAAATTATGATAATTAT
* *
1097732 ATTTTATTAAAATAAAATTATTATAAATTAT
1 ATTTTATTATAATAAAATTATGAT-AATTAT
1097763 A-TTTATTATAATAA
1 ATTTTATTATAATAA
1097777 GAATAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 3 0.08
30 29 0.76
31 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTTTATTATAATAAAATTATGATAATTAT
Found at i:1098295 original size:196 final size:197
Alignment explanation
Indices: 1097864--1098302 Score: 534
Period size: 198 Copynumber: 2.2 Consensus size: 197
1097854 CACATATGTT
* * *
1097864 ACATCGAAACCGATAATTATAATATAATAGGTAAATTTATAATATAGCCGATATAAATATACCGA
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAGCCGATATAAATATACCGA
* *
1097929 TTTTATGAGAGAATAGGTCAACATAACGTATCAACACAAATTTAAAAAGTGTTGATACATTTTAT
66 TTTTATGAGAAAATAGGTCAACATAACGTATCAACACAAATTTAAAAAGTGTCGATACATTTTAT
* *
1097994 CCAGAATGAATGCCAAACAAGGTGCACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCA
131 CCAGAATGAATGCCAAACAAGGTGCACATAAAGTATCAATACATTTA-TAAAAGTATCGATCCCA
1098059 AAA
195 AAA
* *
1098062 ACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTA-CTTTG-TATAAATATACC
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAGC--CGATATAAATATACC
* * * * * * ***
1098125 GGTTTTATGAGAAAATATGTCTACATAATGTATCGACAC-ATTTTAAGTTTGTGTCGATAC-TTT
64 GATTTTATGAGAAAATAGGTCAACATAACGTATCAACACAAATTTAA-AAAGTGTCGATACATTT
* * *
1098188 TTTCCAGAATGAATG-C-AACGAGGTGCACGCATAAAGTATCAATACATTTA-AAATTGTATCGA
128 TATCCAGAATGAATGCCAAACAAGGTGCA--CATAAAGTATCAATACATTTATAAA-AGTATCGA
1098250 TCCCAAAA
190 TCCCAAAA
* * *
1098258 ACATTGAAACTGATAATTATAATGTAAT-GGATAAATTTGCAATGT
1 ACATCGAAACCGATAATTATAATGTAATAGG-TAAATTTACAATGT
1098303 TTATTTTAAA
Statistics
Matches: 209, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
195 15 0.07
196 54 0.26
197 43 0.21
198 96 0.46
199 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (197 bp):
ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAGCCGATATAAATATACCGA
TTTTATGAGAAAATAGGTCAACATAACGTATCAACACAAATTTAAAAAGTGTCGATACATTTTAT
CCAGAATGAATGCCAAACAAGGTGCACATAAAGTATCAATACATTTATAAAAGTATCGATCCCAA
AA
Found at i:1098345 original size:21 final size:20
Alignment explanation
Indices: 1098303--1098351 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
1098293 TTTGCAATGT
*
1098303 TTATTTTAAAAATAATATTA
1 TTATTTTAAAAATAATAATA
**
1098323 TTATTTTGTAAATAAATAATA
1 TTATTTTAAAAAT-AATAATA
1098344 TTATTTTA
1 TTATTTTA
1098352 TTGTTATCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATTTTAAAAATAATAATA
Found at i:1098980 original size:23 final size:23
Alignment explanation
Indices: 1098945--1098995 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1098935 CCAGTAATTA
** *
1098945 ACCTATTTTATTATATAAGTGTT
1 ACCTATTACATTATATAAGTGGT
1098968 ACCTATTACATTATATAAGTGGT
1 ACCTATTACATTATATAAGTGGT
1098991 ACCTA
1 ACCTA
1098996 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTGGT
Found at i:1099027 original size:87 final size:87
Alignment explanation
Indices: 1098881--1099082 Score: 305
Period size: 87 Copynumber: 2.3 Consensus size: 87
1098871 TAAGTAATTA
*
1098881 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
* * * *
1098946 CCTATTTTATTATATAAGTGTT
66 CATACTTTATTATATAAGCGAT
* * * *
1098968 ACCTATTACATTATATAAGTGGTACCTAATATGTTATTGTTCTTGATAATGTTTTCAGTAATTAA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
1099033 CATACTTTATTATATAAGCGAT
66 CATACTTTATTATATAAGCGAT
**
1099055 ACCTATTTTATTATATAAGCGCTACCTA
1 ACCTATTACATTATATAAGCGCTACCTA
1099083 TTACATTATA
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 102 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (87 bp):
ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
CATACTTTATTATATAAGCGAT
Found at i:1099081 original size:110 final size:110
Alignment explanation
Indices: 1098945--1099201 Score: 363
Period size: 110 Copynumber: 2.3 Consensus size: 110
1098935 CCAGTAATTA
* * * *
1098945 ACCTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGGTACCTAATATGTTATTGT-T
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
*
1099009 CTTGATAATGTTTTCAGTAATTAACATACTTTATTATATAAGCGAT
66 -TTGATAATGTTTCCAGTAATTAACATACTTTATTATATAAGCGAT
*
1099055 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTATCTAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
* ** *
1099120 TTGATAATGTTTCCAGTAATTAACTTTTTTTATTATATAAGTGAT
66 TTGATAATGTTTCCAGTAATTAACATACTTTATTATATAAGCGAT
** * * *
1099165 ACCTATTACATTATATAAGCGGTACCTAATATATTAT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTAT
1099202 TGTGCTTGAT
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
110 130 0.99
111 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (110 bp):
ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
TTGATAATGTTTCCAGTAATTAACATACTTTATTATATAAGCGAT
Found at i:1099114 original size:23 final size:23
Alignment explanation
Indices: 1099040--1099101 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
1099030 TAACATACTT
* *
1099040 TATTATATAAGCGATACCTATTT
1 TATTATATAAGCGCTACCTATTA
1099063 TATTATATAAGCGCTACCTATTA
1 TATTATATAAGCGCTACCTATTA
*
1099086 CATTATATAAGCGCTA
1 TATTATATAAGCGCTA
1099102 TCTAATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (23 bp):
TATTATATAAGCGCTACCTATTA
Found at i:1099152 original size:87 final size:87
Alignment explanation
Indices: 1099055--1099301 Score: 361
Period size: 87 Copynumber: 2.8 Consensus size: 87
1099045 TATAAGCGAT
* * * *
1099055 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTATCTAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
1099120 TTGATAATGTTTCCAG-TAATTA
66 TTGATAATGTTT-CAGATAATTA
* * * *
1099142 ACTTTTTTTATTATATAAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGC
1 ACCTATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
*
1099207 TTGATAATGTTTCTGATAATTA
66 TTGATAATGTTTCAGATAATTA
* * *
1099229 ACCTATTTTATTATATAAACGTTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTAC
1 ACCTATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
*
1099294 TTGGTAAT
66 TTGATAAT
1099302 ATTTTCGGTT
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 2 0.01
87 140 0.99
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (87 bp):
ACCTATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
TTGATAATGTTTCAGATAATTA
Found at i:1099181 original size:23 final size:23
Alignment explanation
Indices: 1099151--1099201 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1099141 AACTTTTTTT
* *
1099151 ATTATATAAGTGATACCTATTAC
1 ATTATATAAGCGATACCTAATAC
* *
1099174 ATTATATAAGCGGTACCTAATAT
1 ATTATATAAGCGATACCTAATAC
1099197 ATTAT
1 ATTAT
1099202 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (23 bp):
ATTATATAAGCGATACCTAATAC
Found at i:1099216 original size:197 final size:197
Alignment explanation
Indices: 1098881--1099279 Score: 629
Period size: 197 Copynumber: 2.0 Consensus size: 197
1098871 TAAGTAATTA
*
1098881 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
* * * *
1098946 CCTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGGTACCTAATATGTTATTGTTCT
66 CCTATTTTATTATATAAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGCT
* **
1099011 TGATAATGTTTTCAG-TAATTAACATACTTTATTATATAAGCGATACCTATTTTATTATATAAGC
131 TGATAATG-TTTCAGATAATTAACATACTTTATTATATAAACGATACCTATTACATTATATAAGC
1099075 GCT
195 GCT
* *
1099078 ACCTATTACATTATATAAGCGCTATCTAATATGTTATTGTGTTTGATAATGTTTCCAGTAATTAA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
* *
1099143 CTTTTTTTATTATATAAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGCT
66 CCTATTTTATTATATAAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGCT
* * * *
1099208 TGATAATGTTTCTGATAATTAACCTATTTTATTATATAAACGTTACCTATTACATTATATAAGCG
131 TGATAATGTTTCAGATAATTAACATACTTTATTATATAAACGATACCTATTACATTATATAAGCG
*
1099273 GT
196 CT
1099275 ACCTA
1 ACCTA
1099280 ATATGTTATT
Statistics
Matches: 184, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
196 5 0.03
197 179 0.97
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (197 bp):
ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAA
CCTATTTTATTATATAAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTGTGCT
TGATAATGTTTCAGATAATTAACATACTTTATTATATAAACGATACCTATTACATTATATAAGCG
CT
Found at i:1099255 original size:23 final size:23
Alignment explanation
Indices: 1099229--1099279 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1099219 CTGATAATTA
** *
1099229 ACCTATTTTATTATATAAACGTT
1 ACCTATTACATTATATAAACGGT
*
1099252 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAACGGT
1099275 ACCTA
1 ACCTA
1099280 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGGT
Found at i:1100643 original size:2 final size:2
Alignment explanation
Indices: 1100636--1100665 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1100626 TGTGAAGAAC
1100636 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1100666 TCAAGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1101035 original size:4 final size:4
Alignment explanation
Indices: 1101026--1101052 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1101016 GCCAAAAGGG
1101026 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1101053 TATATGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1101062 original size:13 final size:13
Alignment explanation
Indices: 1101046--1101070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1101036 TATTTATTTA
1101046 TTTATTTTATATG
1 TTTATTTTATATG
1101059 TTTATTTTATAT
1 TTTATTTTATAT
1101071 TATATTCAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTATTTTATATG
Found at i:1102162 original size:31 final size:32
Alignment explanation
Indices: 1102124--1102208 Score: 129
Period size: 32 Copynumber: 2.7 Consensus size: 32
1102114 CATTTAAACC
*
1102124 CTAATCATAGAATGTATCAAAAG-GAAAAAAA
1 CTAATCATAGAATGTATCAAAAGAAAAAAAAA
*
1102155 CTAATCATATAATGTATCAAAAGAAAAAAAAA
1 CTAATCATAGAATGTATCAAAAGAAAAAAAAA
1102187 CTAATCATAGAA-GTCATCAAAA
1 CTAATCATAGAATGT-ATCAAAA
1102209 AGCAAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
31 24 0.49
32 25 0.51
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (32 bp):
CTAATCATAGAATGTATCAAAAGAAAAAAAAA
Found at i:1106923 original size:2 final size:2
Alignment explanation
Indices: 1106916--1106986 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
1106906 ATACCGAAAA
1106916 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
1106958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1106987 CTTCCAAACT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1108093 original size:21 final size:21
Alignment explanation
Indices: 1108067--1108148 Score: 130
Period size: 21 Copynumber: 3.9 Consensus size: 21
1108057 GTTTCCAGAT
*
1108067 TCGCAACGCGAACTTA-GACTA
1 TCGCAATGCGAAC-TAGGACTA
1108088 TCGCAATGCGAACTAGGACTA
1 TCGCAATGCGAACTAGGACTA
1108109 TCGCAATGCGAACTAGGACTA
1 TCGCAATGCGAACTAGGACTA
*
1108130 TCGCAATGCGAACTTGGAC
1 TCGCAATGCGAACTAGGAC
1108149 GACCACGACC
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 2 0.03
21 56 0.97
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAACTAGGACTA
Found at i:1108814 original size:42 final size:42
Alignment explanation
Indices: 1108755--1108972 Score: 305
Period size: 42 Copynumber: 5.2 Consensus size: 42
1108745 TCGTTGCGAT
*
1108755 TTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1108797 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* ** * *
1108839 CTTGGAATAAATCGCAACAAGAACTTTGAATATCGCAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* ** *
1108881 TTTGGAATAAATCGCAA--CGAATTTATAATAAATCGCAACGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGAA
*
1108923 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGAA
1 TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1108965 TTTGGAAT
1 TTTGGAAT
1108973 CGACTATCGT
Statistics
Matches: 156, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
40 8 0.05
42 140 0.90
44 8 0.05
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (42 bp):
TTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA
Found at i:1108852 original size:21 final size:21
Alignment explanation
Indices: 1108756--1109017 Score: 180
Period size: 21 Copynumber: 12.2 Consensus size: 21
1108746 CGTTGCGATT
1108756 TTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAA--CGAAC
* * * *
1108779 TTCGACT--ATCACAACGAAT
1 TTGGAATAAATCGCAACGAAC
1108798 TTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAA--CGAAC
* *
1108821 TTCGACT--ATCGCAACGAAC
1 TTGGAATAAATCGCAACGAAC
1108840 TTGGAATAAATCGCAACAAGAAC
1 TTGGAATAAATCGCAAC--GAAC
* *
1108863 TTTGAAT--ATCGCAACGAAT
1 TTGGAATAAATCGCAACGAAC
*
1108882 TTGGAATAAATCGCAACGAAT
1 TTGGAATAAATCGCAACGAAC
** *
1108903 TTATAATAAATCGCAACGAAT
1 TTGGAATAAATCGCAACGAAC
1108924 TTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAA--CGAAC
* * * *
1108947 TTCGACT--ATCGCAATGAAT
1 TTGGAATAAATCGCAACGAAC
* * *
1108966 TTGGAATCGACTATCGTAATGAAC
1 TTGGAAT--A-AATCGCAACGAAC
1108990 TTGGAATAAATCGCAACACGAAC
1 TTGGAATAAATCGC-A-ACGAAC
1109013 TTGGA
1 TTGGA
1109018 CTATCGCAAT
Statistics
Matches: 189, Mismatches: 31, Indels: 38
0.73 0.12 0.15
Matches are distributed among these distances:
19 36 0.19
21 91 0.48
22 2 0.01
23 43 0.23
24 17 0.09
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (21 bp):
TTGGAATAAATCGCAACGAAC
Found at i:1108897 original size:84 final size:83
Alignment explanation
Indices: 1108756--1109017 Score: 301
Period size: 84 Copynumber: 3.1 Consensus size: 83
1108746 CGTTGCGATT
*
1108756 TTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
* *
1108821 TTCGACT-ATCGCAACGAAC
64 TTAGAATAATCGCAACGAAC
** * * *
1108840 TTGGAATAAATCGCAACAAGAACTTTGAATATCGCAACGAATTTGGAATAAATCGCAACGAATTT
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGAACTT
* *
1108905 ATAATAAATCGCAACGAAT
66 AGAAT-AATCGCAACGAAC
* * * *
1108924 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGAATTTGGAATCGACTATCGTAATGAA
1 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAT--A-AATCGCAACGAA
*
1108989 CTTGGAATAAATCGCAACACGAAC
63 CTTAGAAT-AATCGC-A-ACGAAC
1109013 TTGGA
1 TTGGA
1109018 CTATCGCAAT
Statistics
Matches: 149, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
82 8 0.05
84 108 0.72
86 1 0.01
87 21 0.14
88 1 0.01
89 10 0.07
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (83 bp):
TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGAACTT
AGAATAATCGCAACGAAC
Found at i:1108978 original size:24 final size:24
Alignment explanation
Indices: 1108948--1108996 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1108938 AACGCGAACT
*
1108948 TCGACTATCGCAATGAATTTGGAA
1 TCGACTATCGCAATGAACTTGGAA
*
1108972 TCGACTATCGTAATGAACTTGGAA
1 TCGACTATCGCAATGAACTTGGAA
1108996 T
1 T
1108997 AAATCGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (24 bp):
TCGACTATCGCAATGAACTTGGAA
Found at i:1109227 original size:34 final size:34
Alignment explanation
Indices: 1109184--1109251 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1109174 TTTGATCACC
1109184 GATGTTATTTTCTCAAAAGGGAACTACGGTGGGT
1 GATGTTATTTTCTCAAAAGGGAACTACGGTGGGT
1109218 GATGTTATTTTCTCAAAAGGGAACTACGGTGGGT
1 GATGTTATTTTCTCAAAAGGGAACTACGGTGGGT
1109252 AGAGAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (34 bp):
GATGTTATTTTCTCAAAAGGGAACTACGGTGGGT
Found at i:1110732 original size:27 final size:27
Alignment explanation
Indices: 1110702--1110753 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1110692 TTATGAAAGC
*
1110702 AAAGATCTTGCTTTTTCATCCTACGGT
1 AAAGATCTTGCTTTTTCACCCTACGGT
1110729 AAAGATCTTGCTTTTTCACCCTACG
1 AAAGATCTTGCTTTTTCACCCTACG
1110754 AAAATCAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (27 bp):
AAAGATCTTGCTTTTTCACCCTACGGT
Found at i:1111323 original size:2 final size:2
Alignment explanation
Indices: 1111316--1111343 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1111306 AATATAAGGA
1111316 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
1111344 TTGGGTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1112552 original size:40 final size:39
Alignment explanation
Indices: 1112480--1112558 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
1112470 TAAGAATTTG
*
1112480 ATTAGAATATATTACATATTTTAGAAGAAAAAAAAGTTGA
1 ATTAGAATAGATTACATATTTTAGAAG-AAAAAAAGTTGA
* *
1112520 ATTAGAATAGATTACATATTTTTAG-GGGAAAAAAGTTGA
1 ATTAGAATAGATTACATA-TTTTAGAAGAAAAAAAGTTGA
1112559 TATAAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 11 0.31
40 18 0.51
41 6 0.17
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.33
Consensus pattern (39 bp):
ATTAGAATAGATTACATATTTTAGAAGAAAAAAAGTTGA
Found at i:1112616 original size:27 final size:27
Alignment explanation
Indices: 1112583--1112634 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1112573 TTTTTTAAAT
1112583 TGATTAAATTAATATTGTAATTAAAGA
1 TGATTAAATTAATATTGTAATTAAAGA
* * *
1112610 TGATTAAGTTGATATTTTAATTAAA
1 TGATTAAATTAATATTGTAATTAAA
1112635 ATGTAAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (27 bp):
TGATTAAATTAATATTGTAATTAAAGA
Found at i:1114353 original size:2 final size:2
Alignment explanation
Indices: 1114346--1114381 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1114336 TTTAGTATCT
1114346 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1114382 ATTTTCTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1119305 original size:9 final size:10
Alignment explanation
Indices: 1119284--1119309 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1119274 ACAATGACCG
1119284 AAAATGTTAA
1 AAAATGTTAA
1119294 AAAATGTTAA
1 AAAATGTTAA
1119304 AAAATG
1 AAAATG
1119310 ATGTTTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (10 bp):
AAAATGTTAA
Found at i:1119310 original size:30 final size:30
Alignment explanation
Indices: 1119242--1119310 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
1119232 CAGATTTTCG
** *
1119242 AAAAAATGACCGAAAATATTACTAGACGCT
1 AAAAAATGACCGAAAATATTAAAAAACGCT
* * * *
1119272 AAACAATGACCGAAAATGTTAAAAAATGTT
1 AAAAAATGACCGAAAATATTAAAAAACGCT
1119302 AAAAAATGA
1 AAAAAATGA
1119311 TGTTTTAAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.20
Consensus pattern (30 bp):
AAAAAATGACCGAAAATATTAAAAAACGCT
Found at i:1126569 original size:38 final size:39
Alignment explanation
Indices: 1126486--1126572 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 39
1126476 TTCCCAATAG
*
1126486 TGTTTCCAATACTATGTGGGATTGAGTATTACCAACATT
1 TGTTTCCAATACTATGTGGGATTGAGTATTACCAACACT
1126525 TGTTTCCAATACTATGTGGGATTGAGTATTA-CAACACT
1 TGTTTCCAATACTATGTGGGATTGAGTATTACCAACACT
1126563 TGTTTCCAAT
1 TGTTTCCAAT
1126573 GCTAAGTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 16 0.34
39 31 0.66
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (39 bp):
TGTTTCCAATACTATGTGGGATTGAGTATTACCAACACT
Found at i:1127038 original size:41 final size:41
Alignment explanation
Indices: 1126987--1127190 Score: 248
Period size: 41 Copynumber: 5.0 Consensus size: 41
1126977 GGTTCATCGA
** * *
1126987 TAGTGGCGTTTTTATACAAATACCGCTATAGACTTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTATACACTCGTACTT
* * * * *
1127028 TAGTGGCGTTTTTATACACAATGTCGTTATACACTTGTACTA
1 TAGTGGCGTTTTTATACA-AACGCCGCTATACACTCGTACTT
* * *
1127070 TAGTGGCGTTTTTATATAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTATACACTCGTACTT
*
1127111 TAGTGGC-ATTTTAGTACAAACGCCGCTATACACTCGTACTT
1 TAGTGGCGTTTTTA-TACAAACGCCGCTATACACTCGTACTT
* *
1127152 TAGTGGCGTTTTTATTCAAACGTCGCTATACACTCGTAC
1 TAGTGGCGTTTTTATACAAACGCCGCTATACACTCGTAC
1127191 AAATTTTAAG
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 5 0.04
41 95 0.68
42 40 0.29
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTATACACTCGTACTT
Found at i:1130109 original size:11 final size:11
Alignment explanation
Indices: 1130093--1130127 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
1130083 TATCATTTTA
1130093 AAAACACACTT
1 AAAACACACTT
1130104 AAAACACACTTTT
1 AAAACACAC--TT
1130117 AAAACACACTT
1 AAAACACACTT
1130128 CTCCCCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAACACACTT
Found at i:1130118 original size:13 final size:13
Alignment explanation
Indices: 1130088--1130127 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1130078 CCATTTATCA
1130088 TTTTAAAAACACAC
1 TTTT-AAAACACAC
1130102 --TTAAAACACAC
1 TTTTAAAACACAC
1130113 TTTTAAAACACAC
1 TTTTAAAACACAC
1130126 TT
1 TT
1130128 CTCCCCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 13 0.54
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (13 bp):
TTTTAAAACACAC
Found at i:1132334 original size:20 final size:21
Alignment explanation
Indices: 1132280--1132342 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
1132270 GATTCTCCTG
1132280 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
1132304 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
1132324 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
1132343 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:1136186 original size:22 final size:21
Alignment explanation
Indices: 1136144--1136183 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1136134 GAGTTTGTTT
*
1136144 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1136165 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1136184 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1140448 original size:41 final size:43
Alignment explanation
Indices: 1140397--1140621 Score: 171
Period size: 43 Copynumber: 5.3 Consensus size: 43
1140387 AGAATTGAAA
* * *
1140397 TTAGCGGCGTTTTTAT-C-AAAATGTCGCTATAGATATGACCT
1 TTAGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGACCT
* *
1140438 TTAGTGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTT
1 TTAGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGACC-T
* * * *
1140482 TTA-CGACGTTTGTATACAAAAACGCCGCTATAGATCTTGACTT
1 TTAGCGGCGTTTGTATCCAAAAACGCCGCTATAGAT-ATGACCT
* * ** * *
1140525 TTTGTGGCGTTT-T-TTGAACAGACGCCGCTATAGATCTCGACCT
1 TTAGCGGCGTTTGTATCCAA-AAACGCCGCTATAGATAT-GACCT
* *
1140568 GTTA-CGGCGTTTGT-T-CAATAACGCCGCAATAGATATTGACCT
1 -TTAGCGGCGTTTGTATCCAAAAACGCCGCTATAGATA-TGACCT
1140610 ATTA-CGGCGTTT
1 -TTAGCGGCGTTT
1140622 TTTGTTCTCA
Statistics
Matches: 148, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
41 14 0.09
42 34 0.23
43 82 0.55
44 18 0.12
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (43 bp):
TTAGCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGACCT
Found at i:1140609 original size:42 final size:44
Alignment explanation
Indices: 1140421--1140621 Score: 182
Period size: 43 Copynumber: 4.7 Consensus size: 44
1140411 ATCAAAATGT
* *
1140421 CGCTATAGATA-TGACC-TTTAGTGGCGTTTGTATCCAAAAACGC
1 CGCTATAGATATTGACCTTTTA-CGGCGTTTGTATACAAAAACGC
* *
1140464 CGCTATAGAT-CTGACCTTTTACGACGTTTGTATACAAAAACGC
1 CGCTATAGATATTGACCTTTTACGGCGTTTGTATACAAAAACGC
* * ** * * *
1140507 CGCTATAGATCTTGACTTTTTGTGGCGTTT-TTTGA-ACAGACGC
1 CGCTATAGATATTGACCTTTTACGGCGTTTGTAT-ACAAAAACGC
* * * *
1140550 CGCTATAGATCTCGACCTGTTACGGCGTTTGT-T-CAATAACGC
1 CGCTATAGATATTGACCTTTTACGGCGTTTGTATACAAAAACGC
* *
1140592 CGCAATAGATATTGACCTATTACGGCGTTT
1 CGCTATAGATATTGACCTTTTACGGCGTTT
1140622 TTTGTTCTCA
Statistics
Matches: 129, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
42 31 0.24
43 78 0.60
44 20 0.16
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (44 bp):
CGCTATAGATATTGACCTTTTACGGCGTTTGTATACAAAAACGC
Found at i:1140621 original size:85 final size:86
Alignment explanation
Indices: 1140460--1140625 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 86
1140450 GTATCCAAAA
* * * *
1140460 ACGCCGCTATAGATCTGACCTTTTACGACGTTTGTATACAAAAACGCCGCTATAGATCTTGACTT
1 ACGCCGCTATAGATCTGACCTGTTACGACGTTTGTATACAAAAACGCCGCAATAGATATTGACCT
* **
1140525 TTTGTGGCGTTTTTTGAACAG
66 ATTACGGCGTTTTTTGAACAG
* *
1140546 ACGCCGCTATAGATCTCGACCTGTTACGGCGTTTGT-T-CAATAACGCCGCAATAGATATTGACC
1 ACGCCGCTATAGATCT-GACCTGTTACGACGTTTGTATACAAAAACGCCGCAATAGATATTGACC
1140609 TATTACGGCGTTTTTTG
65 TATTACGGCGTTTTTTG
1140626 TTCTCAAACG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 36 0.51
86 17 0.24
87 17 0.24
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (86 bp):
ACGCCGCTATAGATCTGACCTGTTACGACGTTTGTATACAAAAACGCCGCAATAGATATTGACCT
ATTACGGCGTTTTTTGAACAG
Found at i:1147542 original size:2 final size:2
Alignment explanation
Indices: 1147535--1147567 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1147525 CAAATCCAAT
1147535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1147568 TAGGTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1150507 original size:2 final size:2
Alignment explanation
Indices: 1150502--1150543 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1150492 ATAAAAAATA
1150502 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
1150544 TACGATGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1151561 original size:4 final size:4
Alignment explanation
Indices: 1151552--1151606 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
1151542 CAATGCATGT
1151552 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1151600 ATAA ATA
1 ATAA ATA
1151607 GTTGAACAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:1154385 original size:28 final size:28
Alignment explanation
Indices: 1154345--1154403 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
1154335 AAAGTTAAGT
1154345 GTGTAAGGCCAATTTTCTTACACTTTGG
1 GTGTAAGGCCAATTTTCTTACACTTTGG
1154373 GTGTAAGGCCAATTTTCTTACACTTTGG
1 GTGTAAGGCCAATTTTCTTACACTTTGG
1154401 GTG
1 GTG
1154404 AAAGTTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (28 bp):
GTGTAAGGCCAATTTTCTTACACTTTGG
Found at i:1166227 original size:34 final size:34
Alignment explanation
Indices: 1166155--1166227 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
1166145 TATCACAGTC
*
1166155 AAAGTTCAATAAACGTCTGAAGGTAGGGATAGTT
1 AAAGTTCAATAAACGTCTGAAGGTAGGGATAGTG
*
1166189 AAAGTTCAATAAACGTCTGAAGGTAGTGAGTA-TG
1 AAAGTTCAATAAACGTCTGAAGGTAGGGA-TAGTG
1166223 AAAGT
1 AAAGT
1166228 CACTCTCCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (34 bp):
AAAGTTCAATAAACGTCTGAAGGTAGGGATAGTG
Found at i:1169253 original size:11 final size:12
Alignment explanation
Indices: 1169226--1169262 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
1169216 GAACGAGATA
1169226 AAAAAATATTAT
1 AAAAAATATTAT
1169238 AAAAAATATTAT
1 AAAAAATATTAT
1169250 AAAAAATA-TAT
1 AAAAAATATTAT
1169261 AA
1 AA
1169263 TATTTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAAATATTAT
Found at i:1171977 original size:10 final size:10
Alignment explanation
Indices: 1171962--1171995 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1171952 TTCATTTACC
1171962 ATTTATTTTT
1 ATTTATTTTT
1171972 ATTTATTTTT
1 ATTTATTTTT
* *
1171982 ATCTATTTAT
1 ATTTATTTTT
1171992 ATTT
1 ATTT
1171996 TACTAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:1181382 original size:60 final size:62
Alignment explanation
Indices: 1181307--1181425 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 62
1181297 AATACTTCGC
* * *
1181307 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTG-AAAAA-AAAAAGAA-AAGAAAAGAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAAAAGAAGAA-AAAAGAACGT
*
1181367 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAAAAGAAGAAAAAAGAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAAAAGAAGAAAAAAGAA
1181426 GAGAAAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
60 30 0.58
61 5 0.10
62 15 0.29
63 2 0.04
ACGTcount: A:0.52, C:0.12, G:0.24, T:0.12
Consensus pattern (62 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAAAAGAAGAAAAAAGAACGT
Found at i:1182365 original size:105 final size:105
Alignment explanation
Indices: 1182183--1183157 Score: 1706
Period size: 105 Copynumber: 9.4 Consensus size: 105
1182173 GCAGGTTTAC
1182183 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1182248 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
1182288 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1182353 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
1182393 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1182458 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
*
1182498 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGTACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1182563 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
1182603 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1182668 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
1182708 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
1182773 GACGAAGGGACCGCTGGTTGTCACCAAACACTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
1182813 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG------TT---
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1182869 --C-AAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
1182906 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* **
1182971 GACGAAGGGATCGCTGGTTGTCAACAAACATTTCTCAGTT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
*
1183011 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * * *
1183076 AACGAAGGGACGGCTGGTTGTCAACAAACAATTT-TCCAGT
66 GACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAAT
* ** *
1183116 TCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 T-CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1183158 GGAACAATAC
Statistics
Matches: 836, Mismatches: 20, Indels: 27
0.95 0.02 0.03
Matches are distributed among these distances:
93 88 0.11
94 1 0.00
99 4 0.00
104 1 0.00
105 702 0.84
106 40 0.05
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT
Found at i:1182936 original size:93 final size:93
Alignment explanation
Indices: 1182777--1183069 Score: 424
Period size: 93 Copynumber: 3.0 Consensus size: 93
1182767 CTTCACGACG
* *
1182777 AAGGGACCGCTGGTTGTCACCAAACACTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAG
1 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAG
1182842 GATATTGGACTCCAGACAACGCAAGTTC
66 GATATTGGACTCCAGACAACGCAAGTTC
1182870 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAG
1 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAG
1182935 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
66 GATATTGGACTCCAGACAACGCAAG------TT-----C
* **
1182974 GAAGGGATCGCTGGTTGTCAACAAACATTTCTCAGTTTCAGAGCCAATTTCAACTTCACAACGAA
1 -AAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAA
*
1183039 GGATATTGGACTCCAGACAACACAAGTTC
65 GGATATTGGACTCCAGACAACGCAAGTTC
1183068 AA
1 AA
1183070 CTTCACAACG
Statistics
Matches: 182, Mismatches: 6, Indels: 24
0.86 0.03 0.11
Matches are distributed among these distances:
93 90 0.49
94 1 0.01
99 4 0.02
104 1 0.01
105 86 0.47
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (93 bp):
AAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAG
GATATTGGACTCCAGACAACGCAAGTTC
Found at i:1183536 original size:18 final size:16
Alignment explanation
Indices: 1183513--1183547 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
1183503 GTCTTTTTGA
1183513 TATATATAATATTTATAT
1 TATATAT-ATATTT-TAT
1183531 TATATATATATTTTAT
1 TATATATATATTTTAT
1183547 T
1 T
1183548 TTATTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATATATATTTTAT
Done.