Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 51
Found at i:2073967 original size:55 final size:55
Alignment explanation
Indices: 2073920--2074318 Score: 446
Period size: 55 Copynumber: 7.4 Consensus size: 55
2073910 TTCAAATGAT
* * * * *
2073920 AAGTCTGCTCCCTATTCCTTTAGGGAGTATA-AGACTCGATCAATCTTCAATAAAC
1 AAGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAAC
** *
2073975 GGGTCCGCTCCCTA-TCCGTTCAGGGAGTAT-GAACTCGAACAATCTTCATA-AAAC
1 AAGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAAC
** *
2074029 GGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
1 AAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
* *
2074084 GAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
1 AAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
* * * *
2074139 AGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAT
1 AAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
** *
2074194 GGGTCCGCTCCCTATTCCTTCAGAGAGTATA-AGACTCG----ATCTTCAATAAAC
1 AAGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAAC
** *
2074245 GTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAAC
1 AAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
**
2074296 GTGTCCGCTCCCTATTCCTTCAG
1 AAGTCCGCTCCCTATTCCTTCAG
2074319 TGTATGGAAC
Statistics
Matches: 316, Mismatches: 20, Indels: 20
0.89 0.06 0.06
Matches are distributed among these distances:
51 81 0.26
54 48 0.15
55 187 0.59
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (55 bp):
AAGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAAC
Found at i:2074168 original size:110 final size:108
Alignment explanation
Indices: 2073926--2074318 Score: 504
Period size: 110 Copynumber: 3.7 Consensus size: 108
2073916 TGATAAGTCT
* * * *
2073926 GCTCCCTATTCCTTTAGGGAGTATA-AGACTCGATCAATCTTCAATAAACGGGTCCGCTCCCTA-
1 GCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTAT
*
2073989 TCCGTTCAGGGAGTAT-GAACTCGAACAATCTTCATAAAACGGGTCC
65 TCC-TTCAGAGAGTATAGAACTCGAACAATCTTCA-AAAAC-GGTCC
* * *
2074035 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGAGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATT
*
2074100 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACAGGTTC
66 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAA-AAAC-GGTCC
* *
2074145 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAATGGGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATT
2074210 CCTTCAGAGAGTATA-AGACTCG----ATCTTCAATAAACGTGTCC
66 CCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAA-AAACG-GTCC
* *
2074251 GCTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATT
2074312 CCTTCAG
66 CCTTCAG
2074319 TGTATGGAAC
Statistics
Matches: 259, Mismatches: 19, Indels: 19
0.87 0.06 0.06
Matches are distributed among these distances:
102 34 0.13
105 1 0.00
106 45 0.17
109 67 0.26
110 112 0.43
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (108 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATT
CCTTCAGAGAGTATAGAACTCGAACAATCTTCAAAAACGGTCC
Found at i:2074390 original size:54 final size:54
Alignment explanation
Indices: 2074320--2074614 Score: 482
Period size: 54 Copynumber: 5.5 Consensus size: 54
2074310 TTCCTTCAGT
* *
2074320 GTATGGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTATCTAGGGA
1 GTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
* * *
2074374 GTATGGAACTCGAACATCTTCTTCTTACGGATTTGCTCCCTCTTTCTCTATGGA
1 GTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
*
2074428 GTATGGAACTCGAGCATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
1 GTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
* *
2074482 GTATGGAACTCAAACATATTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
1 GTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
* *
2074536 GTATGGAACTCGAATATCTTTTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
1 GTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
* *
2074590 GTATGGAACTCGAATATCTTTTTCT
1 GTATGGAACTCGAACATCTTCTTCT
2074615 GCTTTACTAC
Statistics
Matches: 225, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 225 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (54 bp):
GTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGA
Found at i:2074687 original size:37 final size:37
Alignment explanation
Indices: 2074614--2074693 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
2074604 TATCTTTTTC
* * * *
2074614 TGCTTTACTACTTTCTTGTGAAGACTTCTAGATGATT
1 TGCTTCACTACTCTCTCGTGAAGACTTCAAGATGATT
*
2074651 TGCTTCACTACTCTCTCGTGAAGACTT-AAGTTTGATT
1 TGCTTCACTACTCTCTCGTGAAGACTTCAAG-ATGATT
2074688 TGCTTC
1 TGCTTC
2074694 GAAGGTCGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 2 0.05
37 35 0.95
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (37 bp):
TGCTTCACTACTCTCTCGTGAAGACTTCAAGATGATT
Found at i:2075068 original size:36 final size:37
Alignment explanation
Indices: 2075001--2075151 Score: 223
Period size: 37 Copynumber: 4.1 Consensus size: 37
2074991 ACTCTTCTGA
* * * *
2075001 GAAGGCTTAAAAAGGATATGCTTCACTACTCTTCGGT
1 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGT
* * * *
2075038 AAAGGCTTAAGATGG-TTTACTTCACTACTCTTTGGT
1 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGT
2075074 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGT
1 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGT
2075111 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGT
1 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGT
2075148 GAAG
1 GAAG
2075152 ACTTGACTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
36 30 0.29
37 73 0.71
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (37 bp):
GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGT
Found at i:2075096 original size:73 final size:74
Alignment explanation
Indices: 2075001--2075151 Score: 223
Period size: 73 Copynumber: 2.1 Consensus size: 74
2074991 ACTCTTCTGA
* * *
2075001 GAAGGCTTAAAAAGGATATGCTTCACTACTCTTCGGTAAAGGCTTAAGATGG-TTTACTTCACTA
1 GAAGGCTCAAAAAGGATATGCTTCACTACTCTTCGGTAAAGGCTCAAAATGGATTTACTTCACTA
2075065 CTCTTTGGT
66 CTCTTTGGT
* * * * *
2075074 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTGGTGAAGGCTCAAAATGGATTTGCTTCACTA
1 GAAGGCTCAAAAAGGATATGCTTCACTACTCTTCGGTAAAGGCTCAAAATGGATTTACTTCACTA
2075139 CTCTTTGGT
66 CTCTTTGGT
2075148 GAAG
1 GAAG
2075152 ACTTGACTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 45 0.65
74 24 0.35
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (74 bp):
GAAGGCTCAAAAAGGATATGCTTCACTACTCTTCGGTAAAGGCTCAAAATGGATTTACTTCACTA
CTCTTTGGT
Found at i:2076577 original size:125 final size:125
Alignment explanation
Indices: 2076372--2076603 Score: 306
Period size: 125 Copynumber: 1.9 Consensus size: 125
2076362 CTTATTCAGA
* * *
2076372 TACGAGCCTTCAAAATGCTCCAATACCTGAAATTATAAGGCTCATTTTCAATGACTTCTTGGTCT
1 TACGAGCCTTCAAAATGCTCCAATACCTCAAATTATAAGGCTCATTTTCAATGACTCCTTGGTCC
* *
2076437 GAACCTTATCATCTCAACATGATGTGGGTTCAGTCGTGCCCCGACATTATCTCATACTGG
66 AAACCTTATCATCTCAACATGATGTGGGTTCAGTCATGCCCCGACATTATCTCATACTGG
* * * * *
2076497 TACGGGCCTTCAAAATGC-CCCATCATCTCAATTTGTAAGGCTCATTCTTC-ATGACTCCTTGGT
1 TACGAGCCTTCAAAATGCTCCAAT-ACCTCAAATTATAAGGCTCATT-TTCAATGACTCCTTGGT
* * * *
2076560 CCAAATCTTGTCATCTCAATATGATGTGGGTTTAGTCATGCCCC
64 CCAAACCTTATCATCTCAACATGATGTGGGTTCAGTCATGCCCC
2076604 AATGTGGGTA
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
124 4 0.04
125 84 0.92
126 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (125 bp):
TACGAGCCTTCAAAATGCTCCAATACCTCAAATTATAAGGCTCATTTTCAATGACTCCTTGGTCC
AAACCTTATCATCTCAACATGATGTGGGTTCAGTCATGCCCCGACATTATCTCATACTGG
Found at i:2080120 original size:72 final size:73
Alignment explanation
Indices: 2080003--2080153 Score: 270
Period size: 72 Copynumber: 2.1 Consensus size: 73
2079993 CCCCTAACAG
2080003 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
2080068 TTCAT-TT
66 TTCATATT
* *
2080075 GTTCTTGATCATTTGCTATCATCACATTGGTTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
2080140 TTCATATT
66 TTCATATT
2080148 -TTCTTG
1 GTTCTTG
2080154 TGTAATAGGG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 74 0.97
73 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (73 bp):
GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
TTCATATT
Found at i:2080904 original size:55 final size:55
Alignment explanation
Indices: 2080834--2080995 Score: 288
Period size: 55 Copynumber: 2.9 Consensus size: 55
2080824 TGTGGATCGG
*
2080834 TCTTCAATCAAGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATTAT
1 TCTTCAATCAGGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATTAT
* *
2080889 TCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATTAT
1 TCTTCAATCAGGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATTAT
*
2080944 TCTTCATTCAGGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAAT
1 TCTTCAATCAGGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAAT
2080996 CATCTGAACG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 102 1.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (55 bp):
TCTTCAATCAGGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATTAT
Found at i:2087764 original size:13 final size:13
Alignment explanation
Indices: 2087746--2087838 Score: 104
Period size: 13 Copynumber: 7.2 Consensus size: 13
2087736 ACCGGTCATA
*
2087746 ACCCGACCCGTTT
1 ACCCGACCCGTTG
2087759 ACCCGACCCGCTT-
1 ACCCGACCCG-TTG
*
2087772 ACCCGACCAGTTG
1 ACCCGACCCGTTG
2087785 ACCCGACCC---G
1 ACCCGACCCGTTG
2087795 ACCCGACCCGTTG
1 ACCCGACCCGTTG
2087808 ACCCGACCCGTTG
1 ACCCGACCCGTTG
*
2087821 ACCGTTGACCCGTTG
1 ACC--CGACCCGTTG
2087836 ACC
1 ACC
2087839 GTTGACCCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.14
12 2 0.03
13 44 0.63
14 2 0.03
15 12 0.17
ACGTcount: A:0.17, C:0.46, G:0.20, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:2087827 original size:7 final size:7
Alignment explanation
Indices: 2087815--2087845 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
2087805 TTGACCCGAC
2087815 CCGTTGA
1 CCGTTGA
2087822 CCGTTGA
1 CCGTTGA
2087829 CCCGTTGA
1 -CCGTTGA
2087837 CCGTTGA
1 CCGTTGA
2087844 CC
1 CC
2087846 CACGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.35, G:0.26, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:2087832 original size:15 final size:15
Alignment explanation
Indices: 2087799--2087846 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
2087789 GACCCGACCC
*
2087799 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
2087812 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
2087827 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
2087842 GACCC
1 GACCC
2087847 ACGTTGACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.38
15 20 0.62
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:2087866 original size:10 final size:9
Alignment explanation
Indices: 2087812--2087866 Score: 50
Period size: 7 Copynumber: 6.6 Consensus size: 9
2087802 CCGTTGACCC
2087812 GACC-CGTT
1 GACCACGTT
2087820 GA-C-CGTT
1 GACCACGTT
2087827 GACC-CGTT
1 GACCACGTT
2087835 GA-C-CGTT
1 GACCACGTT
2087842 GACCCACGTT
1 GA-CCACGTT
2087852 GACCACTGTT
1 GACCAC-GTT
2087862 GACCA
1 GACCA
2087867 AAACTTTGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
7 14 0.33
8 9 0.21
9 5 0.12
10 14 0.33
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (9 bp):
GACCACGTT
Found at i:2089317 original size:26 final size:26
Alignment explanation
Indices: 2089269--2089318 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
2089259 AATGACCCAA
*
2089269 GAATATCCCCAAGCTCAGGAATGATT
1 GAATATCCCCAAGCTCAGAAATGATT
* * *
2089295 GAATATCCTCGAGCTCTGAAATGA
1 GAATATCCCCAAGCTCAGAAATGA
2089319 ATGGAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (26 bp):
GAATATCCCCAAGCTCAGAAATGATT
Found at i:2090330 original size:48 final size:48
Alignment explanation
Indices: 2090278--2090409 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
2090268 AATATTTTAC
*
2090278 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
2090326 CTGA-TATCTGACATGGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
2090374 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
2090410 CTGATTTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:2090416 original size:24 final size:24
Alignment explanation
Indices: 2090295--2090409 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
2090285 TCGATTTGAT
2090295 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
2090319 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
2090343 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
2090367 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
2090390 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
2090410 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:2090432 original size:24 final size:24
Alignment explanation
Indices: 2090346--2090419 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
2090336 ACATGGATTC
* * *
2090346 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
2090370 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
2090394 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
2090418 TG
1 TG
2090420 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:2092547 original size:13 final size:13
Alignment explanation
Indices: 2092529--2092621 Score: 104
Period size: 13 Copynumber: 7.2 Consensus size: 13
2092519 ACCGGTCATA
*
2092529 ACCCGACCCGTTT
1 ACCCGACCCGTTG
2092542 ACCCGACCCGCTT-
1 ACCCGACCCG-TTG
*
2092555 ACCCGACCAGTTG
1 ACCCGACCCGTTG
2092568 ACCCGACCC---G
1 ACCCGACCCGTTG
2092578 ACCCGACCCGTTG
1 ACCCGACCCGTTG
2092591 ACCCGACCCGTTG
1 ACCCGACCCGTTG
*
2092604 ACCGTTGACCCGTTG
1 ACC--CGACCCGTTG
2092619 ACC
1 ACC
2092622 GTTGACCCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
10 10 0.14
12 2 0.03
13 44 0.63
14 2 0.03
15 12 0.17
ACGTcount: A:0.17, C:0.46, G:0.20, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:2092610 original size:7 final size:7
Alignment explanation
Indices: 2092598--2092628 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
2092588 TTGACCCGAC
2092598 CCGTTGA
1 CCGTTGA
2092605 CCGTTGA
1 CCGTTGA
2092612 CCCGTTGA
1 -CCGTTGA
2092620 CCGTTGA
1 CCGTTGA
2092627 CC
1 CC
2092629 CACGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.35, G:0.26, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:2092615 original size:15 final size:15
Alignment explanation
Indices: 2092582--2092629 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
2092572 GACCCGACCC
*
2092582 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
2092595 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
2092610 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
2092625 GACCC
1 GACCC
2092630 ACGTTGACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.38
15 20 0.62
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:2092649 original size:10 final size:9
Alignment explanation
Indices: 2092595--2092649 Score: 50
Period size: 7 Copynumber: 6.6 Consensus size: 9
2092585 CCGTTGACCC
2092595 GACC-CGTT
1 GACCACGTT
2092603 GA-C-CGTT
1 GACCACGTT
2092610 GACC-CGTT
1 GACCACGTT
2092618 GA-C-CGTT
1 GACCACGTT
2092625 GACCCACGTT
1 GA-CCACGTT
2092635 GACCACTGTT
1 GACCAC-GTT
2092645 GACCA
1 GACCA
2092650 AAACTTTGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
7 14 0.33
8 9 0.21
9 5 0.12
10 14 0.33
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (9 bp):
GACCACGTT
Found at i:2094100 original size:26 final size:26
Alignment explanation
Indices: 2094052--2094101 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
2094042 AATGACCCAA
*
2094052 GAATATCCCCAAGCTCAGGAATGATT
1 GAATATCCCCAAGCTCAGAAATGATT
* * *
2094078 GAATATCCTCGAGCTCTGAAATGA
1 GAATATCCCCAAGCTCAGAAATGA
2094102 ATGGAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (26 bp):
GAATATCCCCAAGCTCAGAAATGATT
Found at i:2095113 original size:48 final size:48
Alignment explanation
Indices: 2095061--2095192 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
2095051 AATATTTTAC
*
2095061 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
2095109 CTGA-TATCTGACATGGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
2095157 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
2095193 CTGATTTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:2095199 original size:24 final size:24
Alignment explanation
Indices: 2095078--2095192 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
2095068 TCGATTTGAT
2095078 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
2095102 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
2095126 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
2095150 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
2095173 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
2095193 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:2095215 original size:24 final size:24
Alignment explanation
Indices: 2095129--2095202 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
2095119 ACATGGATTC
* * *
2095129 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
2095153 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
2095177 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
2095201 TG
1 TG
2095203 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:2096575 original size:37 final size:36
Alignment explanation
Indices: 2096529--2096815 Score: 291
Period size: 37 Copynumber: 7.8 Consensus size: 36
2096519 TTTTTTTAGA
* *
2096529 AAAAGATTTTTGAAACTGTATATATTATATAGTTTTG
1 AAAACATTTTTGAAACT-TATATAATATATAGTTTTG
*
2096566 AAATCA-TTTTGAAAAACTTATATAATATAGT-GTTTTG
1 AAAACATTTTTG--AAACTTATATAATATA-TAGTTTTG
* * *
2096603 AAATCATTTATAAGAACTTATATAATATATAGTTTTG
1 AAAACATTTTTGA-AACTTATATAATATATAGTTTTG
* *
2096640 AAAACATTTTTGAAAACATATATAATATATAGTTTTA
1 AAAACATTTTTG-AAACTTATATAATATATAGTTTTG
* *
2096677 AAAACATTTTTTGAAAATGTATATATTATATAGTTTTTG
1 AAAACA-TTTTTGAAACT-TATATAATATATAG-TTTTG
*
2096716 AAAAACATTTTTGACAAC-TATATAATATATGGTTTTG
1 -AAAACATTTTTGA-AACTTATATAATATATAGTTTTG
*
2096753 AAAACATTTTTTAAA--TATATAATATATAGTTTT-
1 AAAACATTTTTGAAACTTATATAATATATAGTTTTG
* *
2096786 AAAATATTTTTGAAA-TATATATATTATATA
1 AAAACATTTTTGAAACT-TATATAATATATA
2096816 ACTTATATTA
Statistics
Matches: 214, Mismatches: 22, Indels: 30
0.80 0.08 0.11
Matches are distributed among these distances:
33 13 0.06
34 17 0.08
35 14 0.07
36 19 0.09
37 91 0.43
38 41 0.19
39 11 0.05
40 8 0.04
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (36 bp):
AAAACATTTTTGAAACTTATATAATATATAGTTTTG
Found at i:2098131 original size:20 final size:19
Alignment explanation
Indices: 2098084--2098131 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
2098074 TTTATGCATG
2098084 TTTTAATTTAGCCACTATT
1 TTTTAATTTAGCCACTATT
* *
2098103 TTTTGATTTAGCCACTGTT
1 TTTTAATTTAGCCACTATT
2098122 ATTTTAATTT
1 -TTTTAATTT
2098132 TTGCATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAGCCACTATT
Found at i:2098428 original size:6 final size:6
Alignment explanation
Indices: 2098417--2098444 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2098407 TGAATCAGGT
2098417 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
2098445 CGCAATTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:2101295 original size:35 final size:34
Alignment explanation
Indices: 2101245--2101316 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 34
2101235 CAGCATCCTG
* * *
2101245 TTTGAACTTTATTTTTTACTTTCTCATATTTCTT
1 TTTGAACTTGATTTTTAACTTTCTCATATTTCAT
2101279 TTTGTAACTTGATTTTTAACTTTCTCATATTTCAT
1 TTTG-AACTTGATTTTTAACTTTCTCATATTTCAT
2101314 TTT
1 TTT
2101317 ATAAGGATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.19, C:0.14, G:0.04, T:0.62
Consensus pattern (34 bp):
TTTGAACTTGATTTTTAACTTTCTCATATTTCAT
Found at i:2101920 original size:99 final size:98
Alignment explanation
Indices: 2101811--2102010 Score: 310
Period size: 99 Copynumber: 2.0 Consensus size: 98
2101801 ATTATAATAT
* * * *
2101811 TATATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTATAGA
1 TATATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACACCCTAG-ATTATAGA
*
2101876 TAAGATTCATATAGCCTGATGAAGGCGATTATAA
65 TAAGATTCAGATAGCCTGATGAAGGCGATTATAA
* *
2101910 TATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCCTAGATTATGGAT
1 TATATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACACCCTAGATTATAGAT
* *
2101975 ATGATTCAGCTAGCCTGATGAAGGCGATTATAA
66 AAGATTCAGATAGCCTGATGAAGGCGATTATAA
2102008 TAT
1 TAT
2102011 TGAGTTGTCC
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 40 0.43
99 52 0.57
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (98 bp):
TATATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACACCCTAGATTATAGAT
AAGATTCAGATAGCCTGATGAAGGCGATTATAA
Found at i:2103590 original size:42 final size:42
Alignment explanation
Indices: 2103374--2103590 Score: 101
Period size: 42 Copynumber: 5.1 Consensus size: 42
2103364 CCCGCTAATA
* *
2103374 GGAACCACCTGAGGAATATACCACATGGCTTTCCCATGAAGG
1 GGAACCACCAGAGGAATATACCACATGGCTTTCCCGTGAAGG
** * * * *
2103416 GGAGTCATCCA-AAG-ATCATATCACCTGG-TTTAGACCCGCT-ATGG
1 GGAACCA-CCAGAGGAAT-ATACCACATGGCTTT---CCCG-TGAAGG
* * *
2103460 GGAAACACCTGAGGAATATACCACATGGCTTTCTCGTGAAGG
1 GGAACCACCAGAGGAATATACCACATGGCTTTCCCGTGAAGG
** * * * *
2103502 GGAGTCATCCA-AAG-ATCAT-CTCACCTGG-TTCAGACCCAAT-AAGG
1 GGAACCA-CCAGAGGAAT-ATAC-CACATGGCTT---TCCC-GTGAAGG
2103546 GGAACCACCAGAGGAATATACCACATGGCTTTCCCGTGAAGG
1 GGAACCACCAGAGGAATATACCACATGGCTTTCCCGTGAAGG
2103588 GGA
1 GGA
2103591 GTCATCCAAA
Statistics
Matches: 123, Mismatches: 30, Indels: 44
0.62 0.15 0.22
Matches are distributed among these distances:
41 12 0.10
42 47 0.38
43 9 0.07
44 43 0.35
45 12 0.10
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.20
Consensus pattern (42 bp):
GGAACCACCAGAGGAATATACCACATGGCTTTCCCGTGAAGG
Found at i:2104020 original size:86 final size:86
Alignment explanation
Indices: 2103138--2103992 Score: 1280
Period size: 86 Copynumber: 10.0 Consensus size: 86
2103128 AGGAACGTCT
* * * *
2103138 CACATGACTTTCCCGTGAAGGAGAGTTATCCAAAGATCATCTCACCTGGTTCAGACCCGCTATGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
*
2103203 GGAACCACCTGAGGAGTATAC
66 GGAACCACCTGAGGAATATAC
* *
2103224 CACATGGTTTTCCCGTGAATGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
*
2103289 GCAACCACCTGAGGAA-ATAC
66 GGAACCACCTGAGGAATATAC
**
2103309 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAATA
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
2103374 GGAACCACCTGAGGAATATAC
66 GGAACCACCTGAGGAATATAC
* * * *
2103395 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAGATCATATCACCTGGTTTAGACCCGCTATGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
*
2103460 GGAAACACCTGAGGAATATAC
66 GGAACCACCTGAGGAATATAC
* **
2103481 CACATGGCTTTCTCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCAATAAGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
*
2103546 GGAACCACCAGAGGAATATAC
66 GGAACCACCTGAGGAATATAC
*
2103567 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCTGCTAAGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
*
2103632 GGAACCACCTGAGGAATATTC
66 GGAACCACCTGAGGAATATAC
* * * * *
2103653 CACATGGATTTCCCCTGAAGGGGAGTCATCCAAAGATTATATCACTTGGTTCAGACCCGCTAAGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
*
2103718 GGAACCACCTAAGGAATATAC
66 GGAACCACCTGAGGAATATAC
* * * *
2103739 CACATAGCTTTCTCGTAAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGACCCGCTAAGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
**
2103804 GGAACCACCTGAGGAGCATAC
66 GGAACCACCTGAGGAATATAC
* * * * * *
2103825 AACTTGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACTTAGTTTAGACCCACTAAGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
* *
2103890 GGAACCACTTAAGGAATATAC
66 GGAACCACCTGAGGAATATAC
* * * * *
2103911 CACATTGCTTTCCCGTGAAGGGGATTCATCCAAAGATCATCTCACTTGGTTCATACCCGTTAAGG
1 CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
*
2103976 GGAACCACCTGAAGAAT
66 GGAACCACCTGAGGAAT
2103993 TATAATCGGC
Statistics
Matches: 691, Mismatches: 77, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
85 80 0.12
86 611 0.88
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (86 bp):
CACATGGCTTTCCCGTGAAGGGGAGTCATCCAAAGATCATCTCACCTGGTTCAGACCCGCTAAGG
GGAACCACCTGAGGAATATAC
Found at i:2104196 original size:85 final size:85
Alignment explanation
Indices: 2104080--2104256 Score: 230
Period size: 85 Copynumber: 2.1 Consensus size: 85
2104070 TGGATATATC
* *
2104080 TCAATAAAGACCTTCGAGTTCGATTAGATTCAGCTCAAA-GGCATATCAAATTCACAGCATAGCT
1 TCAACAAAGACCTTCGAGTTCGATTACATTCAGCT-AAAGGGCATATCAAATTCACAGCATAGCT
* **
2104144 CAAGGCGAGAGGGGCTATCTG
65 CAAGGCAAGAAAGGCTATCTG
* * * * * *
2104165 TCAACAAATACCTTCGAGTTCGATTCCATTCAGCTAAAGGGCATGTCAAATTTACAGCATAGTTT
1 TCAACAAAGACCTTCGAGTTCGATTACATTCAGCTAAAGGGCATATCAAATTCACAGCATAGCTC
*
2104230 AAGTCAAGAAAGGCTATCTG
66 AAGGCAAGAAAGGCTATCTG
2104250 TCAACAA
1 TCAACAA
2104257 CAACTGCCGA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 3 0.04
85 76 0.96
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (85 bp):
TCAACAAAGACCTTCGAGTTCGATTACATTCAGCTAAAGGGCATATCAAATTCACAGCATAGCTC
AAGGCAAGAAAGGCTATCTG
Found at i:2104268 original size:85 final size:85
Alignment explanation
Indices: 2104080--2104284 Score: 218
Period size: 85 Copynumber: 2.4 Consensus size: 85
2104070 TGGATATATC
* * * **
2104080 TCAATAAAGACCTTCGAGTTCGATTAGATTCAGCTCAAAGGCATATCAAATTCACAGCATAGCTC
1 TCAACAAATACCTCCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTCACAGCATAGCTC
* **
2104145 AAGGCGAGAGGGGCTATCTG
66 AAGGCAAGAAAGGCTATCTG
* * * *
2104165 TCAACAAATACCTTCGAGTTCGATTCCATTCAGCT-AAAGGGCATGTCAAATTTACAGCATAGTT
1 TCAACAAATACCTCCGAGTTCGATTCCATTCAGCTCAAA-GGCATATCAAATTCACAGCATAGCT
* *
2104229 TAAGTCAAGAAAGGCTATCTG
65 CAAGGCAAGAAAGGCTATCTG
**
2104250 TCAACAACA-A-CTGCCGAGTTCGATTCTTTTCAGCT
1 TCAACAA-ATACCT-CCGAGTTCGATTCCATTCAGCT
2104285 TGATGACACA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
84 5 0.05
85 96 0.94
86 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (85 bp):
TCAACAAATACCTCCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTCACAGCATAGCTC
AAGGCAAGAAAGGCTATCTG
Found at i:2104917 original size:8 final size:8
Alignment explanation
Indices: 2104904--2104930 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
2104894 TTTCGTCTGG
2104904 ATTATTTT
1 ATTATTTT
2104912 ATTATTTT
1 ATTATTTT
2104920 ATTATTTT
1 ATTATTTT
2104928 ATT
1 ATT
2104931 TATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTATTTT
Found at i:2105047 original size:36 final size:36
Alignment explanation
Indices: 2104988--2105340 Score: 186
Period size: 37 Copynumber: 9.7 Consensus size: 36
2104978 AGAAAACGAT
* *
2104988 TTTTGAAAATGTATATATTATATAGTTTTTGAAAAATA
1 TTTTGAAAATATATATAATATATA--TTTTGAAAAATA
** * *
2105026 TTTTGAAAATATATATAATATATAATTTTTTAGAACA
1 TTTTGAAAATATATATAATATAT-ATTTTGAAAAATA
*
2105063 TTTTAAAAACT-TATATAATATATAGTTTTG--AAATCA
1 TTTTGAAAA-TATATATAATATATA-TTTTGAAAAAT-A
2105099 TTTTGAAAA-ACTTATATAATATATAGTTTTG--AAATCA
1 TTTTGAAAATA--TATATAATATATA-TTTTGAAAAAT-A
2105136 TTTT-AAGAACT-TATATAATATATAGTTTTGAAAACAT-
1 TTTTGAA-AA-TATATATAATATATA-TTTTGAAAA-ATA
* ** *
2105173 TTTTCGAAAACATATATAATATATAGTTTT-AAATTTT
1 TTTT-GAAAATATATATAATATATA-TTTTGAAAAATA
* * *
2105210 TTTTGAAAATGTATATATTATATAGTTTTTGAAAAACA
1 TTTTGAAAATATATATAATATATA--TTTTGAAAAATA
* *
2105248 TTTTTGACAACTAT-T-TAATATATGGTTTTGAAAACAT-
1 -TTTTGA-AAATATATATAATATAT-ATTTTGAAAA-ATA
* *
2105285 TTTT--TAA-ATATACAATATATAGTTTT--AAAATA
1 TTTTGAAAATATATATAATATATA-TTTTGAAAAATA
*
2105317 TTTTTG-AAATATATATATTATATA
1 -TTTTGAAAATATATATAATATATA
2105341 GCTTATATTA
Statistics
Matches: 251, Mismatches: 34, Indels: 63
0.72 0.10 0.18
Matches are distributed among these distances:
31 2 0.01
32 5 0.02
33 6 0.02
34 13 0.05
35 14 0.06
36 53 0.21
37 87 0.35
38 55 0.22
39 12 0.05
40 4 0.02
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATATTTTGAAAAATA
Found at i:2105078 original size:37 final size:37
Alignment explanation
Indices: 2104999--2105320 Score: 238
Period size: 36 Copynumber: 8.8 Consensus size: 37
2104989 TTTGAAAATG
* *
2104999 TATATATTATATAGTTTTTGAAAAAT-ATTTT-GAAAA-T
1 TATATAATATATAG-TTTTG--AAATCATTTTCAAAAACT
* *
2105036 ATATATAATATATAATTTTTTAGAA-CATTTT-AAAAACT
1 -TATATAATATAT-AGTTTTGA-AATCATTTTCAAAAACT
*
2105074 TATATAATATATAGTTTTGAAATCATTTTGAAAAACT
1 TATATAATATATAGTTTTGAAATCATTTTCAAAAACT
*
2105111 TATATAATATATAGTTTTGAAATCATTTT-AAGAACT
1 TATATAATATATAGTTTTGAAATCATTTTCAAAAACT
* * *
2105147 TATATAATATATAGTTTTGAAAACATTTTTCGAAAACA
1 TATATAATATATAGTTTTGAAATCA-TTTTCAAAAACT
** **
2105185 TATATAATATATAGTTTT-AAATTTTTTTTGAAAA-T
1 TATATAATATATAGTTTTGAAATCATTTTCAAAAACT
* * ** *
2105220 GTATATATTATATAGTTTTTGAAAAACATTTTTGACAAC-
1 -TATATAATATATAG-TTTTG-AAATCATTTTCAAAAACT
* * * **
2105259 TATTTAATATATGGTTTTGAAAACATTTT-TTAAA--
1 TATATAATATATAGTTTTGAAATCATTTTCAAAAACT
* *
2105293 TATACAATATATAGTTTTAAAAT-ATTTT
1 TATATAATATATAGTTTTGAAATCATTTT
2105321 TGAAATATAT
Statistics
Matches: 239, Mismatches: 32, Indels: 31
0.79 0.11 0.10
Matches are distributed among these distances:
33 5 0.02
34 18 0.08
35 4 0.02
36 75 0.31
37 75 0.31
38 49 0.21
39 13 0.05
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
TATATAATATATAGTTTTGAAATCATTTTCAAAAACT
Found at i:2105226 original size:74 final size:71
Alignment explanation
Indices: 2104987--2105341 Score: 321
Period size: 74 Copynumber: 4.9 Consensus size: 71
2104977 TAGAAAACGA
* *
2104987 TTTTTGAAAATGTATATATTATATAGTTTTTGAAAA-ATATTTTGAAAATATATATAATATATAA
1 TTTTT-AAAAT-TATATAATATATAG-TTTTGAAAACAT-TTTTGAAAACATATATAATATAT-A
* *
2105051 TTTTTTAGAA-C
61 GTTTTGA-AATC
* * *
2105062 ATTTTAAAAACTTATATAATATATAGTTTTGAAATCA-TTTTGAAAAACTTATATAATATATAGT
1 -TTTTTAAAA-TTATATAATATATAGTTTTGAAAACATTTTTG-AAAACATATATAATATATAGT
2105126 TTTGAAATC
63 TTTGAAATC
*
2105135 ATTTTAAGAACTTATATAATATATAGTTTTGAAAACATTTTTCGAAAACATATATAATATATAGT
1 TTTTTAA-AA-TTATATAATATATAGTTTTGAAAACATTTTT-GAAAACATATATAATATATAGT
*
2105200 TTT-AAATTT
63 TTTGAAA-TC
* * * *
2105209 TTTTTGAAAATGTATATATTATATAGTTTTTGAAAAACATTTTTGACAAC-TATTTAATATATGG
1 TTTTT-AAAAT-TATATAATATATAG-TTTTG-AAAACATTTTTGAAAACATATATAATATATAG
*
2105273 TTTTGAAAAC
62 TTTTGAAATC
* * * * *
2105283 ATTTTTTAAA-TATACAATATATAGTTTT-AAAATATTTTTG-AAATATATATATTATATAG
1 -TTTTTAAAATTATATAATATATAGTTTTGAAAACATTTTTGAAAACATATATAATATATAG
2105342 CTTATATTAT
Statistics
Matches: 236, Mismatches: 28, Indels: 37
0.78 0.09 0.12
Matches are distributed among these distances:
68 2 0.01
69 22 0.09
71 4 0.02
72 19 0.08
73 44 0.19
74 90 0.38
75 39 0.17
76 16 0.07
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (71 bp):
TTTTTAAAATTATATAATATATAGTTTTGAAAACATTTTTGAAAACATATATAATATATAGTTTT
GAAATC
Found at i:2105354 original size:3 final size:3
Alignment explanation
Indices: 2105346--2105373 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2105336 ATATAGCTTA
2105346 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2105374 TTTTGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2105388 original size:4 final size:4
Alignment explanation
Indices: 2105369--2105409 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
2105359 ATTATTATTA
*
2105369 TTAT TT-T TTGAT TTAT TTAT TTAT TTAT TCAT TT-T TTAT TT
1 TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2105410 TGGGTCCAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.19
4 23 0.72
5 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2106604 original size:17 final size:17
Alignment explanation
Indices: 2106579--2106611 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2106569 TTTATGCATA
2106579 TTTTAATTTAGCCACTT
1 TTTTAATTTAGCCACTT
*
2106596 TTTTTATTTAGCCACT
1 TTTTAATTTAGCCACT
2106612 GTTATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTAATTTAGCCACTT
Found at i:2106805 original size:23 final size:22
Alignment explanation
Indices: 2106757--2106821 Score: 53
Period size: 23 Copynumber: 2.9 Consensus size: 22
2106747 CTAAATTTTA
**
2106757 TTTATCTC-TATTTATTTATTTAT
1 TTTAT-TCATATTTATTT-TTCCT
2106780 TTTATT-ATTATTATATTTTTCCT
1 TTTATTCA-TATT-TATTTTTCCT
*
2106803 TTTTTTCATATTTATTTTT
1 TTTATTCATATTTATTTTT
2106822 ATTTTACATT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 8 0.23
23 21 0.60
24 6 0.17
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATTCATATTTATTTTTCCT
Found at i:2112277 original size:20 final size:20
Alignment explanation
Indices: 2112249--2112286 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2112239 TTATACATTT
2112249 AAAACATAAATAAAACAATC
1 AAAACATAAATAAAACAATC
*
2112269 AAAAGATAAATAAAACAA
1 AAAACATAAATAAAACAA
2112287 ACTCATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAACATAAATAAAACAATC
Found at i:2113576 original size:29 final size:29
Alignment explanation
Indices: 2113512--2113569 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2113502 CAATAGACTG
2113512 AAATAAATACAACATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
*
2113541 AAATAAATACAAGATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
2113570 GATTAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.62, C:0.16, G:0.05, T:0.17
Consensus pattern (29 bp):
AAATAAATACAACATACAAATTAGAAACC
Found at i:2115658 original size:6 final size:6
Alignment explanation
Indices: 2115647--2115675 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2115637 GATTGCCAAA
2115647 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
1 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
2115676 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.66, G:0.17, T:0.17
Consensus pattern (6 bp):
CCCGTC
Found at i:2123199 original size:29 final size:29
Alignment explanation
Indices: 2123167--2123224 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2123157 TTGTTTAATC
2123167 GGTTTCTAATTTGTATCTTGTATTTATTT
1 GGTTTCTAATTTGTATCTTGTATTTATTT
*
2123196 GGTTTCTAATTTGTATGTTGTATTTATTT
1 GGTTTCTAATTTGTATCTTGTATTTATTT
2123225 CAGTCTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.05, G:0.16, T:0.62
Consensus pattern (29 bp):
GGTTTCTAATTTGTATCTTGTATTTATTT
Found at i:2124422 original size:20 final size:20
Alignment explanation
Indices: 2124397--2124434 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2124387 CTATATAAGT
2124397 TTGTTTTATTTATCTTTTGA
1 TTGTTTTATTTATCTTTTGA
*
2124417 TTGTTTTATTTATGTTTT
1 TTGTTTTATTTATCTTTT
2124435 AAATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.11, T:0.74
Consensus pattern (20 bp):
TTGTTTTATTTATCTTTTGA
Found at i:2125949 original size:3 final size:3
Alignment explanation
Indices: 2125941--2126009 Score: 104
Period size: 3 Copynumber: 23.0 Consensus size: 3
2125931 AATATAAATT
2125941 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2125989 TAA -AA TCA TAAA TAA AAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA
2126010 ATGGGCAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.93
4 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2126245 original size:39 final size:39
Alignment explanation
Indices: 2126189--2126604 Score: 564
Period size: 39 Copynumber: 10.7 Consensus size: 39
2126179 ATGTTGAATA
* * * * *
2126189 AGTTCTTCAAACTATGAAATTCTTCTTCCTCTTCAAATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* *
2126228 AGTTCTTCAGA-TCATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGACT-ATGAACTCCTTCTTCCTCTTCAGACG
*
2126267 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTTAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * *
2126306 AGTTCTTCAGACTATGAACCCCTTCTTCCTCTTTAGATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * *
2126345 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * * * *
2126384 ATTTCTTCATACTATAAACTTCTTCTTACTCTTCAGACA
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* *
2126423 AGTTCTTCAGACTATGAACTCATTCTTTCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* *
2126462 AGTTCTTCAGATTATGAACTCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
2126501 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * *
2126540 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
*
2126579 AGTTCTTCAGACTATGAACTCATTCT
1 AGTTCTTCAGACTATGAACTCCTTCT
2126605 GGAAATGTTT
Statistics
Matches: 337, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
38 1 0.00
39 335 0.99
40 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (39 bp):
AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
Found at i:2126728 original size:72 final size:73
Alignment explanation
Indices: 2126610--2126796 Score: 304
Period size: 72 Copynumber: 2.6 Consensus size: 73
2126600 ATTCTGGAAA
* *
2126610 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAATTTTCTCCAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
2126675 AAACAGTT
66 AAACAGTT
* *
2126683 TGTTTTAA-AAAAACAATCTCATGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGGGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
*
2126747 AAACATTT
66 AAACAGTT
* *
2126755 TGTTTTAAGAAAAATAATTTCAAGTGAGATAAATTGCTATTT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
2126797 GAAAACATTC
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 67 0.64
73 38 0.36
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (73 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGCGAG
AAACAGTT
Found at i:2127916 original size:54 final size:54
Alignment explanation
Indices: 2127827--2127992 Score: 224
Period size: 54 Copynumber: 3.1 Consensus size: 54
2127817 ATAATCACTG
* * * *
2127827 GTTCATAAAAAATTTGGCAACACATTCATCCTTTCCTGTGGCTTCTTCTTAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * * *
2127881 GTTCGTAAAACATTTGACAACATATTCATCATTTCCCGTGGCTTCTGCTCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * * *
2127935 GTTCATAAATCATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCCCAAAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
2127989 GTTC
1 GTTC
2127993 GCCAGTGAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.37
Consensus pattern (54 bp):
GTTCATAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:2128460 original size:78 final size:79
Alignment explanation
Indices: 2128319--2128469 Score: 171
Period size: 78 Copynumber: 1.9 Consensus size: 79
2128309 TGTTTATTGC
* * * * * *
2128319 TGATTTGAGCCTTCAAAATACCCCACATGGGTCATTTTTGTCTGAAATGGGCCTTCAAAATGCCT
1 TGATGTGAGCCTTCAAAATACCCCACATGGATAATTTTAGTCTGAAATAGGCCTTCAAAATGCCC
2128384 CAA-ATTTTCATAT
66 CAACATTTTCATAT
* ** * **
2128397 TGATGTGAGCCTTCAAAATGCTTCACATGGATAATTTCTAGT-TGAAATAGGCTTTCAGCATGCC
1 TGATGTGAGCCTTCAAAATACCCCACATGGATAATTT-TAGTCTGAAATAGGCCTTCAAAATGCC
2128461 CCAACATTT
65 CCAACATTT
2128470 ACTTCTTGCT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
78 52 0.88
79 7 0.12
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (79 bp):
TGATGTGAGCCTTCAAAATACCCCACATGGATAATTTTAGTCTGAAATAGGCCTTCAAAATGCCC
CAACATTTTCATAT
Found at i:2129467 original size:2 final size:2
Alignment explanation
Indices: 2129460--2129500 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2129450 ATGTCACTCA
2129460 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2129501 TTGTGAACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2130017 original size:72 final size:72
Alignment explanation
Indices: 2129900--2130043 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
2129890 ATATAATAGT
*
2129900 ATAACAAGCTAGCTGAATATTATCCATAAAGTTGGGGCGATTAACCAATTGCTTTAGGGGGACAA
1 ATAACAAGCTAGCTGAATATTATCCATAAAGTCGGGGCGATTAACCAATTGCTTTAGGGGGACAA
2129965 CTCAAGC
66 CTCAAGC
* * *
2129972 ATAACAGGCTAGCTGAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGATAA
1 ATAACAAGCTAGCTGAATATTATCCATAAAGTCGGGGCGATTAACCAATTGCTTTAGGGGGACAA
2130037 CTCAAGC
66 CTCAAGC
2130044 TTTATTGTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (72 bp):
ATAACAAGCTAGCTGAATATTATCCATAAAGTCGGGGCGATTAACCAATTGCTTTAGGGGGACAA
CTCAAGC
Found at i:2135032 original size:3 final size:3
Alignment explanation
Indices: 2135024--2135125 Score: 100
Period size: 3 Copynumber: 32.7 Consensus size: 3
2135014 TAAATTTAAA
* *
2135024 AAT AAT AAT AAT AAC AAT ATAT AAT ATT AAT AAT -AT ATAT ATAT ATAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT A-AT A-AT
*
2135072 ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT CAT AAAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
2135118 AAA AAT AA
1 AAT AAT AA
2135126 ATGGGCAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
2 4 0.05
3 62 0.72
4 20 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:2139986 original size:6 final size:6
Alignment explanation
Indices: 2139975--2140109 Score: 150
Period size: 6 Copynumber: 22.8 Consensus size: 6
2139965 TGAAATTATT
* * * *
2139975 TAATAA TAATAA TAAT-A TAATAA TTATAA TTATAA TTATAA TTATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * * *
2140022 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
2140070 TAATAA TAATAA TAATAA TAATAA TAA-AA T-ATAAA TAATA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAAT-AA TAATA
2140110 TTCAAATGAA
Statistics
Matches: 123, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
4 1 0.01
5 8 0.07
6 112 0.91
7 2 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
TAATAA
Found at i:2140110 original size:9 final size:9
Alignment explanation
Indices: 2139975--2140109 Score: 150
Period size: 9 Copynumber: 15.2 Consensus size: 9
2139965 TGAAATTATT
2139975 TAATAATAA
1 TAATAATAA
2139984 TAATAAT-A
1 TAATAATAA
*
2139992 TAATAATTA
1 TAATAATAA
*
2140001 TAATTATAA
1 TAATAATAA
* *
2140010 TTATAATTA
1 TAATAATAA
*
2140019 TAATTATAA
1 TAATAATAA
* *
2140028 TTATAATTA
1 TAATAATAA
*
2140037 TAATTATAA
1 TAATAATAA
* *
2140046 TTATAATTA
1 TAATAATAA
2140055 TAATAATAA
1 TAATAATAA
2140064 TAATAATAA
1 TAATAATAA
2140073 TAATAATAA
1 TAATAATAA
2140082 TAATAATAA
1 TAATAATAA
2140091 TAATAA-AA
1 TAATAATAA
2140099 T-ATAAATAA
1 TAAT-AATAA
2140108 TA
1 TA
2140110 TTCAAATGAA
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
7 2 0.02
8 13 0.13
9 88 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TAATAATAA
Found at i:2140578 original size:113 final size:112
Alignment explanation
Indices: 2140437--2140889 Score: 518
Period size: 113 Copynumber: 3.9 Consensus size: 112
2140427 AGTGTCACGA
* *
2140437 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCACATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
2140502 TATGAACTCTTCCAGAAATGTTGATCCATCGAATGATGAATTCAAAC
66 TATGAACTCTTCCGGAAATGTTGATCCATCGAATGATGAATTCAAAC
* * * *
2140549 AAAAGGTTTGACCAAATTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTCA
1 AAAAGG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * ** *
2140614 TTATGAACTCTCTCTGGAAATGCTGATCCATC-AAGTGATGAATTTGAGC
65 TTATGAACTCT-TCCGGAAATGTTGATCCATCGAA-TGATGAATTCAAAC
* *
2140663 AAAAGGTTAAACAAGTTCTTCACATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * ***
2140728 TATGAACTCTTTCTGGAAAAGTTGATGC-T-GATAT-ATCTCCTTCTGCGATAGAGTCAC
66 TATGAACTC-TTCCGGAAATGTTGATCCATCGA-ATGA--TGAAT-T-C---A-A---AC
* *
2140785 GAAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTC
1 --AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
2140850 ATTATGAACTCTTCCGGAAATGTTGATCCATCGAATGATG
64 ATTATGAACTCTTCCGGAAATGTTGATCCATCGAATGATG
2140890 GATTTGAATC
Statistics
Matches: 284, Mismatches: 35, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
111 1 0.00
112 9 0.03
113 144 0.51
114 36 0.13
119 1 0.00
122 1 0.00
123 16 0.06
124 73 0.26
125 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (112 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCCGGAAATGTTGATCCATCGAATGATGAATTCAAAC
Found at i:2153098 original size:13 final size:15
Alignment explanation
Indices: 2153080--2153116 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
2153070 CTGACAGAAA
2153080 AAATAAAATA-ATG-
1 AAATAAAATATATGT
*
2153093 AAATAAAATATTTGT
1 AAATAAAATATATGT
2153108 AAATAAAAT
1 AAATAAAAT
2153117 GAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
AAATAAAATATATGT
Found at i:2153442 original size:16 final size:17
Alignment explanation
Indices: 2153421--2153453 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2153411 GGTAGGTCAA
2153421 ATACC-AAAAAAACAAT
1 ATACCAAAAAAAACAAT
2153437 ATACCAAAAAAAACAAT
1 ATACCAAAAAAAACAAT
2153454 CTTTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (17 bp):
ATACCAAAAAAAACAAT
Found at i:2155459 original size:3 final size:3
Alignment explanation
Indices: 2155332--2155447 Score: 198
Period size: 3 Copynumber: 39.0 Consensus size: 3
2155322 TAAAATTATT
2155332 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
2155379 TAA TAA TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2155427 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
2155448 ATATAAATAA
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 2 0.02
3 104 0.98
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2164695 original size:16 final size:16
Alignment explanation
Indices: 2164656--2164687 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2164646 CTTATTTGAG
*
2164656 ATAATTTAGATTAAAT
1 ATAATTTAGATAAAAT
2164672 ATAATTTAGATAAAAT
1 ATAATTTAGATAAAAT
2164688 TTATTTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
ATAATTTAGATAAAAT
Found at i:2167636 original size:4 final size:4
Alignment explanation
Indices: 2167627--2167652 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2167617 ATCAAAACAA
2167627 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
2167653 TTCATCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2169633 original size:39 final size:38
Alignment explanation
Indices: 2169627--2169700 Score: 55
Period size: 39 Copynumber: 1.9 Consensus size: 38
2169617 TAAGAAATTA
*
2169627 AGAATTTAGAATGTT-ATGGTGATAA-AATTTAAGAAATT
1 AGAATTTATAATGTTAAT-GTGA-AATAATTTAAGAAATT
* * *
2169665 GGAATTTTTGAATGTTAGA-GTGAAATAATTTGAGAA
1 AGAATTTAT-AATGTTA-ATGTGAAATAATTTAAGAA
2169701 TTATAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
38 8 0.29
39 19 0.68
41 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (38 bp):
AGAATTTATAATGTTAATGTGAAATAATTTAAGAAATT
Found at i:2174329 original size:21 final size:21
Alignment explanation
Indices: 2174289--2174330 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2174279 TCTGGGCTAG
* *
2174289 GGGAATCGGTACCCATTCAAA
1 GGGAATCGATACCCACTCAAA
*
2174310 GGGAATCGATACCCCCTCAAA
1 GGGAATCGATACCCACTCAAA
2174331 CGAACCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (21 bp):
GGGAATCGATACCCACTCAAA
Found at i:2174402 original size:23 final size:22
Alignment explanation
Indices: 2174358--2174402 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2174348 AATCTCATAG
*
2174358 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
2174380 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
2174403 AAATTGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.33, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:2175917 original size:103 final size:103
Alignment explanation
Indices: 2175692--2175909 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
2175682 GTCGAGGGTC
2175692 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAAAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAAAC
* * *
2175757 TTGATCCTTGGCATATGTATATGATTCCTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCCTAACGAATGA
*
2175795 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAAAC
** *
2175860 TTGATCCCTATTATATGTATATGATTCTTAACGAATGA
66 TTGATCCCTAGCATATGTATATGATTCCTAACGAATGA
2175898 TATGTGGTCCTT
1 TATGTGGTCCTT
2175910 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAAAC
TTGATCCCTAGCATATGTATATGATTCCTAACGAATGA
Found at i:2175961 original size:23 final size:23
Alignment explanation
Indices: 2175935--2175993 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
2175925 TGGCACTATA
2175935 GTGCAATTCTACGCGGCACTCCG
1 GTGCAATTCTACGCGGCACTCCG
* *
2175958 GTGCAATTCTACGTGGCACTTCG
1 GTGCAATTCTACGCGGCACTCCG
*
2175981 GTGCAATTATACG
1 GTGCAATTCTACG
2175994 AGCTGTGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
GTGCAATTCTACGCGGCACTCCG
Found at i:2179574 original size:21 final size:21
Alignment explanation
Indices: 2179532--2179574 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2179522 TTTCTGGGCT
* *
2179532 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
2179553 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
2179574 A
1 A
2179575 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:2181163 original size:103 final size:103
Alignment explanation
Indices: 2180938--2181155 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
2180928 GTCGAGGGTC
2180938 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
2181003 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2181041 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
2181106 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2181144 TATGTGGTCCTT
1 TATGTGGTCCTT
2181156 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:2181198 original size:23 final size:23
Alignment explanation
Indices: 2181172--2181239 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
2181162 ATTATTATGT
*
2181172 GGCACTACGGTGCCATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
2181195 GGCACTCCGATGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
2181218 GGTACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
2181240 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2184452 original size:17 final size:15
Alignment explanation
Indices: 2184440--2184484 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
2184430 AATTTTGGAT
2184440 TTTTTTGTTTTTTT-
1 TTTTTTGTTTTTTTG
*
2184454 TATTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
2184469 CCTTTTTTGTTTTTTT
1 --TTTTTTGTTTTTTT
2184485 TAAATAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 13 0.50
17 13 0.50
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.84
Consensus pattern (15 bp):
TTTTTTGTTTTTTTG
Found at i:2185647 original size:17 final size:17
Alignment explanation
Indices: 2185621--2185664 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
2185611 TTTCCAATGC
*
2185621 TTGGACGAGTAGATCAT
1 TTGGAAGAGTAGATCAT
2185638 TTGGAAGAGTAGATCAT
1 TTGGAAGAGTAGATCAT
2185655 TTGGAAGAGT
1 TTGGAAGAGT
2185665 TATTACTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.30
Consensus pattern (17 bp):
TTGGAAGAGTAGATCAT
Found at i:2207055 original size:15 final size:15
Alignment explanation
Indices: 2207021--2207090 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
2207011 CACAAAGGGT
* *
2207021 ATTTTCACGTA-AAA
1 ATTTTCACATAGAAC
* *
2207035 ATTTTCACTTAGCAC
1 ATTTTCACATAGAAC
2207050 ATTTTCACATAGAAC
1 ATTTTCACATAGAAC
* *
2207065 AATTTCATATA-ACAC
1 ATTTTCACATAGA-AC
*
2207080 ATATTCACATA
1 ATTTTCACATA
2207091 CAAATAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
14 11 0.25
15 33 0.75
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (15 bp):
ATTTTCACATAGAAC
Found at i:2207596 original size:19 final size:20
Alignment explanation
Indices: 2207572--2207620 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
2207562 CTTACCTTTG
*
2207572 GTATCGATAC-CCTACATCA
1 GTATCGATACACCTAAATCA
*
2207591 GTATCGATACTACTTAAATCA
1 GTATCGATAC-ACCTAAATCA
2207612 GTATCGATA
1 GTATCGATA
2207621 ATGTTCATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 10 0.38
21 16 0.62
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (20 bp):
GTATCGATACACCTAAATCA
Found at i:2213606 original size:23 final size:24
Alignment explanation
Indices: 2213547--2213595 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2213537 CTGCTCATAT
2213547 AATTTGCACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
*
2213571 AATTTGCAGCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
2213595 A
1 A
2213596 TTTATCCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:2213768 original size:15 final size:15
Alignment explanation
Indices: 2213750--2213816 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
2213740 CACATAGGGT
*
2213750 ATTTTCACGTAGAAC
1 ATTTTCACATAGAAC
*
2213765 ATTTTCACTTAGAAC
1 ATTTTCACATAGAAC
*
2213780 GTTTTCACATAGAAC
1 ATTTTCACATAGAAC
* * *
2213795 AATTTCATATAAAAC
1 ATTTTCACATAGAAC
*
2213810 ATATTCA
1 ATTTTCA
2213817 GATACAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (15 bp):
ATTTTCACATAGAAC
Found at i:2219060 original size:147 final size:147
Alignment explanation
Indices: 2218793--2219074 Score: 555
Period size: 147 Copynumber: 1.9 Consensus size: 147
2218783 GAAGAATTAG
2218793 GTCAAATCTAAAGAGCTCAATTGAAAAAAAATTCCCTCGAGTAAACCATGTTTGATTCAAAACTA
1 GTCAAATCTAAAGAGCTCAATTGAAAAAAAATTCCCTCGAGTAAACCATGTTTGATTCAAAACTA
2218858 AAAACAATTACATTATAACTAAAGAAACAATCCTCAAATTCAAACTTCATAATTTCATTAAAACA
66 AAAACAATTACATTATAACTAAAGAAACAATCCTCAAATTCAAACTTCATAATTTCATTAAAACA
2218923 AATGTTTATAATTCAAA
131 AATGTTTATAATTCAAA
2218940 GTCAAATCTAAAGAGCTCAATTGAAAAAAAATTCCCTCGAGTAAACCATGTTTGATTCAAAACTA
1 GTCAAATCTAAAGAGCTCAATTGAAAAAAAATTCCCTCGAGTAAACCATGTTTGATTCAAAACTA
2219005 AAAACAATTACATTATAACTAAAGAAACAATCCTCAAATTCAAACTTCATAATTTCATTAAAACA
66 AAAACAATTACATTATAACTAAAGAAACAATCCTCAAATTCAAACTTCATAATTTCATTAAAACA
*
2219070 GATGT
131 AATGT
2219075 CCATAAAAAA
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 134 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (147 bp):
GTCAAATCTAAAGAGCTCAATTGAAAAAAAATTCCCTCGAGTAAACCATGTTTGATTCAAAACTA
AAAACAATTACATTATAACTAAAGAAACAATCCTCAAATTCAAACTTCATAATTTCATTAAAACA
AATGTTTATAATTCAAA
Found at i:2219196 original size:4 final size:4
Alignment explanation
Indices: 2219187--2219213 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2219177 TTAGTTCTGA
2219187 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
2219214 GTACATACTG
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:2219340 original size:28 final size:28
Alignment explanation
Indices: 2219308--2219363 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2219298 TAAAAACTAT
2219308 GGGTGTAAGTTATAAAGCTTAGTGTGTC
1 GGGTGTAAGTTATAAAGCTTAGTGTGTC
2219336 GGGTGTAAGTTATAAAGCTTAGTGTGTC
1 GGGTGTAAGTTATAAAGCTTAGTGTGTC
2219364 TCTAAACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.32, T:0.36
Consensus pattern (28 bp):
GGGTGTAAGTTATAAAGCTTAGTGTGTC
Found at i:2219907 original size:20 final size:21
Alignment explanation
Indices: 2219882--2219922 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2219872 CATTATCAAC
2219882 CAAACAAACA-AATAAA-CACT
1 CAAACAAA-ATAATAAAGCACT
2219902 CAAACAAAATAATAAAGCACT
1 CAAACAAAATAATAAAGCACT
2219923 GAACAGAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 14 0.74
21 4 0.21
ACGTcount: A:0.63, C:0.22, G:0.02, T:0.12
Consensus pattern (21 bp):
CAAACAAAATAATAAAGCACT
Found at i:2226206 original size:20 final size:20
Alignment explanation
Indices: 2226181--2226225 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2226171 TGAACATCAC
2226181 CAATTGGAACAAGTCAAATA
1 CAATTGGAACAAGTCAAATA
*
2226201 CAATTGTAACAAGTCAAATA
1 CAATTGGAACAAGTCAAATA
2226221 CAATT
1 CAATT
2226226 ATAACATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (20 bp):
CAATTGGAACAAGTCAAATA
Found at i:2226230 original size:20 final size:20
Alignment explanation
Indices: 2226188--2226231 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
2226178 CACCAATTGG
*
2226188 AACAAGTCAAATACAATTGT
1 AACAAGTCAAATACAATTAT
2226208 AACAAGTCAAATACAATTAT
1 AACAAGTCAAATACAATTAT
2226228 AACA
1 AACA
2226232 TTCATTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.16, G:0.07, T:0.23
Consensus pattern (20 bp):
AACAAGTCAAATACAATTAT
Found at i:2226683 original size:14 final size:14
Alignment explanation
Indices: 2226666--2226701 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2226656 ACAGCTTCTT
2226666 TTTTTTTCTGTTTC
1 TTTTTTTCTGTTTC
*
2226680 TTTTTTTCTTTTTC
1 TTTTTTTCTGTTTC
*
2226694 TCTTTTTC
1 TTTTTTTC
2226702 GAACTGCTCT
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:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTGTTTC
Found at i:2228283 original size:24 final size:24
Alignment explanation
Indices: 2228239--2228288 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
2228229 ATAAAGAACC
2228239 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAATACACCATTA
*
2228263 AAAATAAAGTTCAAATA-ACCATTA
1 AAAATAAACTT-AAATACACCATTA
2228287 AA
1 AA
2228289 TCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAATACACCATTA
Found at i:2234049 original size:24 final size:25
Alignment explanation
Indices: 2234022--2234082 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
2234012 GTAATTACAA
2234022 ACAAAGCAAATAAT-AGAAAACCTC
1 ACAAAGCAAATAATAAGAAAACCTC
**
2234046 ACAAAGCAAAT-ATAAGAAAGTCTC
1 ACAAAGCAAATAATAAGAAAACCTC
2234070 ACAAAGCCAAATA
1 ACAAAG-CAAATA
2234083 TGTTTGCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 2 0.06
24 25 0.78
25 5 0.16
ACGTcount: A:0.57, C:0.20, G:0.10, T:0.13
Consensus pattern (25 bp):
ACAAAGCAAATAATAAGAAAACCTC
Found at i:2235261 original size:19 final size:18
Alignment explanation
Indices: 2235228--2235263 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2235218 CTTGAGAAGT
*
2235228 TTAAATTATTATTAATAC
1 TTAAATTAGTATTAATAC
2235246 TTAAATATAGTATTAATA
1 TTAAAT-TAGTATTAATA
2235264 TTTTCCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TTAAATTAGTATTAATAC
Found at i:2236736 original size:24 final size:24
Alignment explanation
Indices: 2236704--2236812 Score: 109
Period size: 24 Copynumber: 4.6 Consensus size: 24
2236694 CATTTAAATG
2236704 ATAAACGAACACAAATGAACGAAT
1 ATAAACGAACACAAATGAACGAAT
** *
2236728 ATAAACG-A-ACGGATGAAAACGAAC
1 ATAAACGAACACAAATG--AACGAAT
* *
2236752 ATAAATGAACAC-AATAAACGAA-
1 ATAAACGAACACAAATGAACGAAT
2236774 AGTAAACGAACACAAATGAACGAAT
1 A-TAAACGAACACAAATGAACGAAT
*
2236799 GTAAACGAACACAA
1 ATAAACGAACACAA
2236813 TAAATGAACA
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
22 6 0.09
23 17 0.25
24 41 0.59
25 3 0.04
26 2 0.03
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.11
Consensus pattern (24 bp):
ATAAACGAACACAAATGAACGAAT
Found at i:2236779 original size:23 final size:23
Alignment explanation
Indices: 2236704--2236826 Score: 106
Period size: 24 Copynumber: 5.2 Consensus size: 23
2236694 CATTTAAATG
* *
2236704 ATAAACGAACACAAATGAACGAAT
1 ATAAACGAACAC-AATAAACGAAC
**
2236728 ATAAACGAAC-GGATGAAAACGAAC
1 ATAAACGAACACAAT--AAACGAAC
*
2236752 ATAAATGAACACAATAAACGAA-
1 ATAAACGAACACAATAAACGAAC
* *
2236774 AGTAAACGAACACAAATGAACGAAT
1 A-TAAACGAACAC-AATAAACGAAC
* *
2236799 GTAAACGAACACAATAAATGAAC
1 ATAAACGAACACAATAAACGAAC
2236822 ATAAA
1 ATAAA
2236827 TGAATATAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
22 3 0.04
23 29 0.37
24 45 0.57
25 2 0.03
ACGTcount: A:0.59, C:0.15, G:0.14, T:0.12
Consensus pattern (23 bp):
ATAAACGAACACAATAAACGAAC
Found at i:2237025 original size:14 final size:14
Alignment explanation
Indices: 2237005--2237054 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
2236995 GATTGGGCTA
2237005 AACATAAATGAACG
1 AACATAAATGAACG
* *
2237019 CACATAAACGAACG
1 AACATAAATGAACG
2237033 AACATAAATGAACG
1 AACATAAATGAACG
2237047 AACATAAA
1 AACATAAA
2237055 CTAACATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:2238177 original size:23 final size:23
Alignment explanation
Indices: 2238146--2238209 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
2238136 TCGTAATTTG
*
2238146 CACCGAAGTGCCACATAAGTTTA
1 CACCAAAGTGCCACATAAGTTTA
2238169 CACCAAAGTGCCACATAAGTTTA
1 CACCAAAGTGCCACATAAGTTTA
*
2238192 CACTAAAGTGCCACATAA
1 CACCAAAGTGCCACATAA
2238210 TTGTCCCGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (23 bp):
CACCAAAGTGCCACATAAGTTTA
Found at i:2239777 original size:26 final size:29
Alignment explanation
Indices: 2239722--2239783 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 29
2239712 TTTAATAAAA
2239722 TAATAAAATTTAATATAAGAAATAATTCT
1 TAATAAAATTTAATATAAGAAATAATTCT
* *
2239751 TAATATAATTT-AT-TAA-AAATCATTCT
1 TAATAAAATTTAATATAAGAAATAATTCT
2239777 TAATAAA
1 TAATAAA
2239784 TATTAAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 15 0.50
27 3 0.10
28 2 0.07
29 10 0.33
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
TAATAAAATTTAATATAAGAAATAATTCT
Found at i:2239791 original size:23 final size:24
Alignment explanation
Indices: 2239732--2239791 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 24
2239722 TAATAAAATT
2239732 TAATA-TAAGAAATAATTCTTAATA
1 TAATATTAA-AAATAATTCTTAATA
*
2239756 TAATTTATTAAAAATCATTCTTAATA
1 TAA--TATTAAAAATAATTCTTAATA
2239782 -AATATTAAAA
1 TAATATTAAAA
2239792 GTTAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
23 8 0.25
24 3 0.09
25 2 0.06
26 16 0.50
27 3 0.09
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (24 bp):
TAATATTAAAAATAATTCTTAATA
Found at i:2239930 original size:26 final size:27
Alignment explanation
Indices: 2239874--2239952 Score: 124
Period size: 26 Copynumber: 2.9 Consensus size: 27
2239864 ATAATTCTTA
2239874 ATAATATTAAATTATAATTAATAAGGGTAT
1 ATAATATTAAATTATAATTAAT-A--GTAT
2239904 ATAATATTAAATTATAATTAATA-TAT
1 ATAATATTAAATTATAATTAATAGTAT
2239930 ATAATATTAAATTATAATTAATA
1 ATAATATTAAATTATAATTAATA
2239953 AATAAAAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
26 26 0.53
29 1 0.02
30 22 0.45
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (27 bp):
ATAATATTAAATTATAATTAATAGTAT
Found at i:2239971 original size:26 final size:26
Alignment explanation
Indices: 2239874--2239962 Score: 99
Period size: 26 Copynumber: 3.3 Consensus size: 26
2239864 ATAATTCTTA
*
2239874 ATAATATTAAATTATAATTAATAAGGGTAT
1 ATAAAATTAAATTATAATTAATAA----AT
* *
2239904 ATAATATTAAATTATAATTAATATAT
1 ATAAAATTAAATTATAATTAATAAAT
*
2239930 ATAATATTAAATTATAATTAATAAAT
1 ATAAAATTAAATTATAATTAATAAAT
2239956 A-AAAATT
1 ATAAAATT
2239963 GAGAATATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
25 5 0.09
26 28 0.50
30 23 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
ATAAAATTAAATTATAATTAATAAAT
Found at i:2241315 original size:2 final size:2
Alignment explanation
Indices: 2241308--2241348 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2241298 ATTTCAAATA
2241308 AT 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 AT A
2241349 GATCAAATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2241523 original size:22 final size:22
Alignment explanation
Indices: 2241486--2241541 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
2241476 CAAATAATAG
2241486 AGTCTATTTTTT-GGTGCAAAA
1 AGTCTATTTTTTGGGTGCAAAA
2241507 AGTCTATTTTTTGGGTGCAAAA
1 AGTCTATTTTTTGGGTGCAAAA
* *
2241529 TGTCTATATTTTG
1 AGTCTATTTTTTG
2241542 ATCTCTTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (22 bp):
AGTCTATTTTTTGGGTGCAAAA
Found at i:2245816 original size:15 final size:15
Alignment explanation
Indices: 2245778--2245855 Score: 97
Period size: 15 Copynumber: 5.3 Consensus size: 15
2245768 AAATAATTTT
2245778 AAATAATTTA--ATA
1 AAATAATTTATTATA
* * *
2245791 AGATTATTTATTTTA
1 AAATAATTTATTATA
2245806 AAATAATTTATTATA
1 AAATAATTTATTATA
*
2245821 AAATAATTTATTTTA
1 AAATAATTTATTATA
*
2245836 AAATAAATTATTATA
1 AAATAATTTATTATA
2245851 AAATA
1 AAATA
2245856 TGGATTAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
13 8 0.15
15 46 0.85
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATAATTTATTATA
Found at i:2245890 original size:32 final size:32
Alignment explanation
Indices: 2245773--2246002 Score: 271
Period size: 32 Copynumber: 7.2 Consensus size: 32
2245763 TATTAAAATA
2245773 ATTTTAAATAATTTA--A-TA-AGATT-ATTT
1 ATTTTAAATAATTTATTAGTATAGATTGATTT
* *
2245800 ATTTTAAAATAATTTATTA-TA-A-AATAATTT
1 ATTTT-AAATAATTTATTAGTATAGATTGATTT
* * *
2245830 ATTTTAAAATAAATTATTA-TAAAATATGGATTAAATT
1 ATTTT-AAATAATTTATTAGT---ATA--GATTGATTT
*
2245867 ATTTTAAATAATTTATTAGTATGGATTGATTT
1 ATTTTAAATAATTTATTAGTATAGATTGATTT
2245899 ATTTTAAATAATTTATTAGTATAGATTGATTT
1 ATTTTAAATAATTTATTAGTATAGATTGATTT
*
2245931 ATTTTAAATAATTTATTATTATAGATTGATTT
1 ATTTTAAATAATTTATTAGTATAGATTGATTT
2245963 ATTTTAAATAATTTATTAGTATAGATTGATTT
1 ATTTTAAATAATTTATTAGTATAGATTGATTT
2245995 ATTTTAAA
1 ATTTTAAA
2246003 ATATGGATTG
Statistics
Matches: 180, Mismatches: 11, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
27 5 0.03
28 10 0.06
29 2 0.01
30 27 0.15
32 108 0.60
33 1 0.01
34 3 0.02
36 12 0.07
37 12 0.07
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTAAATAATTTATTAGTATAGATTGATTT
Found at i:2246047 original size:80 final size:80
Alignment explanation
Indices: 2245955--2246140 Score: 336
Period size: 80 Copynumber: 2.3 Consensus size: 80
2245945 ATTATTATAG
2245955 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
*
2246020 ATTGTAGTTGTATGA
66 ATTGTAATTGTATGA
* *
2246035 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
*
2246100 ATTGTAATTGTATGG
66 ATTGTAATTGTATGA
2246115 ATTGATTTATTTTAAATAATTTATTA
1 ATTGATTTATTTTAAATAATTTATTA
2246141 TTGTAGTTAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 101 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (80 bp):
ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
ATTGTAATTGTATGA
Found at i:2246087 original size:22 final size:22
Alignment explanation
Indices: 2246062--2246130 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
2246052 AATTTATTTG
2246062 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
**
2246084 TATGGATTGATTTATTATTGTAATTG
1 TATGGATTGATTTA-T-TT-TAA-AA
2246110 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2246131 TAATTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 14 0.35
23 4 0.10
24 4 0.10
25 4 0.10
26 14 0.35
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2246212 original size:31 final size:31
Alignment explanation
Indices: 2246155--2246213 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2246145 AGTTATATTG
**
2246155 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
2246186 ATTATTTAAATTTCAGTATTACAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
2246214 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:2258142 original size:86 final size:87
Alignment explanation
Indices: 2258052--2258213 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 87
2258042 TAATATTTTC
* * *
2258052 TTTTAGGACAAAAAGACCCTTAACGTTTGACTAAGTAGTAACTTTAA-TCCTT-ATTTTTTTGGA
1 TTTTAGGACAAAAAGACCCTTAACGCTTGACTAAATAATAACTTTAACT-CTTAATTTTTTTGGA
2258115 GCATTTTGACCCTTAATGATTCA
65 GCATTTTGACCCTTAATGATTCA
* * ** * * * *
2258138 TTTTAGGGCAAAAGGGTCTTTAATGCTTGACTAAATAATCACTTTAACTCTTAATTTTTTTTGAG
1 TTTTAGGACAAAAAGACCCTTAACGCTTGACTAAATAATAACTTTAACTCTTAATTTTTTTGGAG
*
2258203 TATTTTGACCC
66 CATTTTGACCC
2258214 ATAACATTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
86 40 0.65
87 22 0.35
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (87 bp):
TTTTAGGACAAAAAGACCCTTAACGCTTGACTAAATAATAACTTTAACTCTTAATTTTTTTGGAG
CATTTTGACCCTTAATGATTCA
Found at i:2258611 original size:21 final size:21
Alignment explanation
Indices: 2258587--2258654 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
2258577 AAGATGACGA
2258587 CGATGACAACGGATGTGGCGG
1 CGATGACAACGGATGTGGCGG
*
2258608 CGATGACAACAGATGTGGCGG
1 CGATGACAACGGATGTGGCGG
* *
2258629 CGATGACAATGG-TGGTGGTGG
1 CGATGACAACGGAT-GTGGCGG
2258650 CGATG
1 CGATG
2258655 GCGGAATCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.24, C:0.16, G:0.43, T:0.18
Consensus pattern (21 bp):
CGATGACAACGGATGTGGCGG
Found at i:2260956 original size:2 final size:2
Alignment explanation
Indices: 2260949--2260975 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2260939 TTTCTAGCAT
2260949 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2260976 CAATTTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2263324 original size:13 final size:13
Alignment explanation
Indices: 2263306--2263330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2263296 AAACTTGAAA
2263306 ATACCAAACCACT
1 ATACCAAACCACT
2263319 ATACCAAACCAC
1 ATACCAAACCAC
2263331 ATATTTATAT
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:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (13 bp):
ATACCAAACCACT
Found at i:2264071 original size:19 final size:19
Alignment explanation
Indices: 2264029--2264071 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2264019 ATTTTTTATA
* *
2264029 TTTAATAATAATATATCAT
1 TTTAATAAAAATATATAAT
2264048 TTTAATAAAAATATA-AAT
1 TTTAATAAAAATATATAAT
2264066 TATTAA
1 T-TTAA
2264072 ATTATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTAATAAAAATATATAAT
Found at i:2264256 original size:20 final size:22
Alignment explanation
Indices: 2264225--2264272 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
2264215 TAAAATGTTA
*
2264225 TATAATATTTTTAT-TTTAATAT
1 TATAAT-TTTTAATATTTAATAT
2264247 TATAATTTTTAATAGTTTAATAT
1 TATAATTTTTAATA-TTTAATAT
2264270 TAT
1 TAT
2264273 TATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATAATTTTTAATATTTAATAT
Found at i:2264304 original size:37 final size:36
Alignment explanation
Indices: 2264226--2264377 Score: 116
Period size: 38 Copynumber: 4.1 Consensus size: 36
2264216 AAAATGTTAT
* *
2264226 ATAATATTTTTATTTTAATATTATAATTTTTAATAGT-TTA
1 ATAATATTATTATTTTAATA-AATAA---TTAATA-TATTA
*
2264266 ATATTATTATTATTTTAATAAATAATTAATATACTTA
1 ATAATATTATTATTTTAATAAATAATTAATATA-TTA
* *
2264303 ATAATATTTTTTATTTTAATAAATATTTAATATAATT-
1 ATAATA-TTATTATTTTAATAAATAATTAATAT-ATTA
* *
2264340 ATAATATT-TTCA-TTTAATAAA-ATATAAAAATATTA
1 ATAATATTATT-ATTTTAATAAATA-ATTAATATATTA
2264375 ATA
1 ATA
2264378 TTTTTATTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 19
0.77 0.07 0.15
Matches are distributed among these distances:
34 4 0.04
35 20 0.21
36 9 0.09
37 14 0.15
38 26 0.27
39 5 0.05
40 18 0.19
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (36 bp):
ATAATATTATTATTTTAATAAATAATTAATATATTA
Found at i:2264325 original size:38 final size:37
Alignment explanation
Indices: 2264225--2264349 Score: 137
Period size: 38 Copynumber: 3.3 Consensus size: 37
2264215 TAAAATGTTA
* ** *
2264225 TATAATA-TTTTTATTTTAATATTATAATTTTTAATAGT
1 TATAATATTTTTTATTTTAATA-AATAATTAAT-ATAAT
*
2264263 T-TAATATTATTATTATTTTAATAAATAATTAATATACT
1 TATAATATT-TT-TTATTTTAATAAATAATTAATATAAT
*
2264301 TAATAATATTTTTTATTTTAATAAATATTTAATATAAT
1 T-ATAATATTTTTTATTTTAATAAATAATTAATATAAT
2264339 TATAATATTTT
1 TATAATATTTT
2264350 CATTTAATAA
Statistics
Matches: 76, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
37 15 0.20
38 32 0.42
39 11 0.14
40 18 0.24
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (37 bp):
TATAATATTTTTTATTTTAATAAATAATTAATATAAT
Found at i:2264470 original size:20 final size:20
Alignment explanation
Indices: 2264432--2264470 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2264422 ATGACATAAA
* *
2264432 TAATATTAGATAAATTATTC
1 TAATATTAGAAAAAATATTC
*
2264452 TAATATTTGAAAAAATATT
1 TAATATTAGAAAAAATATT
2264471 ATTATTTTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
TAATATTAGAAAAAATATTC
Found at i:2265857 original size:2 final size:2
Alignment explanation
Indices: 2265850--2265879 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2265840 TAATATTTAC
2265850 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
2265880 TAGTATTAAT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2271193 original size:106 final size:106
Alignment explanation
Indices: 2271002--2271835 Score: 1167
Period size: 106 Copynumber: 7.9 Consensus size: 106
2270992 CACGAAGAAA
** * * * * *
2271002 ATTGGACTCCAGACAACGTAAGTTCAACTTCATGACGAAGGGACTGCTGGTTGTTAATAAACAAT
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* **
2271067 TTTCCAA-AACTAGAGCCAATTTCAACTTCACAGCGAAGGAT
66 TTCCCAATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGAT
* * *
2271108 AGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAAACAAC
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
2271173 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGAT
66 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
*
2271214 ATTGGACTCCAGACAACACATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* *
2271279 TTCTCAACTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
66 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * * * *
2271320 ATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAAAAAC
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* *
2271385 TTCTCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGAT
66 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * *
2271426 ATTGGACTCCAGACAACGCATGTTCAACGTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * *
2271491 TTCTCAATTTCAGAGCCAAATTCAACTTCACAACGAAGGAT
66 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * * *
2271532 ATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAAAAAA
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AAACAA
* *
2271597 CTTCTCAATTTC-GAGCCAATTT-AA--TCACAACGAAGGAT
65 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * ** *
2271635 ATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAAT
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
2271700 TTCCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGGAT
66 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * * *
2271741 -TTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAAT
1 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * *
2271805 TTCCCAGTTCCAGAACCAATTTCAACTTCAC
66 TTCCCAATTTCAGAGCCAATTTCAACTTCAC
2271836 GACAGAGTAT
Statistics
Matches: 670, Mismatches: 52, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
102 15 0.02
103 76 0.11
104 2 0.00
105 92 0.14
106 467 0.70
107 18 0.03
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
Found at i:2272344 original size:2 final size:2
Alignment explanation
Indices: 2272337--2272366 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2272327 TAATATTTAC
2272337 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
2272367 TAGTATTAAT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2277573 original size:3 final size:3
Alignment explanation
Indices: 2277565--2277625 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
2277555 ATGTAAAATA
* *
2277565 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2277613 GAT AAT AAT AAT A
1 AAT AAT AAT AAT A
2277626 TACAAAAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2278554 original size:50 final size:51
Alignment explanation
Indices: 2278474--2278574 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 51
2278464 CTGTGAATTA
* * *
2278474 CTTTAAGAACTATTCAATAGGTATTCACGTTTTTTAA-TATTATGACATAT
1 CTTTAAGAACTATTCAACAGGTATTAACGTTTTTTAAGCATTATGACATAT
2278524 CTTTAAGAACTATTCAACAGGTATTAACGTTTTTTAAGCATTATGACATAT
1 CTTTAAGAACTATTCAACAGGTATTAACGTTTTTTAAGCATTATGACATAT
2278575 TAAACAGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 35 0.74
51 12 0.26
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (51 bp):
CTTTAAGAACTATTCAACAGGTATTAACGTTTTTTAAGCATTATGACATAT
Found at i:2280043 original size:20 final size:20
Alignment explanation
Indices: 2279992--2280044 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2279982 CATATTATTT
*
2279992 TTTTTTTGTAATTTTTCAGA
1 TTTTTTTGTATTTTTTCAGA
*
2280012 TTTTTTTGTATTTTTTCTGA
1 TTTTTTTGTATTTTTTCAGA
*
2280032 TTTTTTTATATTT
1 TTTTTTTGTATTT
2280045 ATAAAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.74
Consensus pattern (20 bp):
TTTTTTTGTATTTTTTCAGA
Found at i:2280167 original size:22 final size:22
Alignment explanation
Indices: 2280136--2280177 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2280126 ATTGTTATAT
*
2280136 CTTTAGAGTAGAGATAAAAATA
1 CTTTAAAGTAGAGATAAAAATA
2280158 CTTTAAAGTAGAGATAAAAA
1 CTTTAAAGTAGAGATAAAAA
2280178 CTAGAGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (22 bp):
CTTTAAAGTAGAGATAAAAATA
Found at i:2281562 original size:38 final size:39
Alignment explanation
Indices: 2281515--2281593 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 39
2281505 TCGAGTTGGG
2281515 TTTTTTAAGTGTGATATTCGGGTCGAGTCGGG-TCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGT
*
2281553 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGT
2281592 TT
1 TT
2281594 AGGATGAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 31 0.79
39 8 0.21
ACGTcount: A:0.11, C:0.10, G:0.37, T:0.42
Consensus pattern (39 bp):
TTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGT
Found at i:2281762 original size:38 final size:38
Alignment explanation
Indices: 2281695--2281783 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 38
2281685 TAATATTTCG
*
2281695 GGTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGA
1 GGTCGGGTCGGGTTTTTTTAAGTGTAATATTCGGGT-GA
*
2281733 -GTCGGGTCGGGTTTTTTTAAGTGTAATATTCGGGTTA
1 GGTCGGGTCGGGTTTTTTTAAGTGTAATATTCGGGTGA
2281770 GGTCGGGTCGGGTT
1 GGTCGGGTCGGGTT
2281784 CGTGTTTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
37 12 0.26
38 35 0.74
ACGTcount: A:0.12, C:0.10, G:0.39, T:0.38
Consensus pattern (38 bp):
GGTCGGGTCGGGTTTTTTTAAGTGTAATATTCGGGTGA
Done.