Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 72 of 133
Found at i:14239725 original size:23 final size:22
Alignment explanation
Indices: 14239649--14239730 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 22
14239639 TTAAAGATTT
*
14239649 ACAT-CAAAATTTCAAAAATTC
1 ACATCCAAAATTTCAATAATTC
* *
14239670 ACATTCAAAAACTTT-AATAGTTC
1 ACA-TCCAAAA-TTTCAATAATTC
*
14239693 ACAACCAAAATTTCAATAATTC
1 ACATCCAAAATTTCAATAATTC
* *
14239715 TCATCCTAAAAATTCA
1 ACATCC-AAAATTTCA
14239731 GGGTTTTACC
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
21 6 0.13
22 17 0.36
23 21 0.45
24 3 0.06
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (22 bp):
ACATCCAAAATTTCAATAATTC
Found at i:14240796 original size:21 final size:21
Alignment explanation
Indices: 14240776--14240815 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14240766 TTTTCCTCAT
*
14240776 TTTTTTTCTTTTTT-TTTTCA
1 TTTTTTCCTTTTTTCTTTTCA
14240796 TTTTTTCCTTTTTTCTTTTC
1 TTTTTTCCTTTTTTCTTTTC
14240816 CTTTCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCCTTTTTTCTTTTCA
Found at i:14241094 original size:10 final size:9
Alignment explanation
Indices: 14241074--14241141 Score: 61
Period size: 9 Copynumber: 7.6 Consensus size: 9
14241064 GCCCTATTAA
14241074 TTTTTTCTT
1 TTTTTTCTT
*
14241083 CTTTTTC-T
1 TTTTTTCTT
*
14241091 TTCTTTCTT
1 TTTTTTCTT
*
14241100 TTTCTT-TT
1 TTTTTTCTT
14241108 TTTTTTCTCT
1 TTTTTTCT-T
14241118 TTTTTTCATT
1 TTTTTTC-TT
14241128 TTTGTTT-TT
1 TTT-TTTCTT
14241137 TTTTT
1 TTTTT
14241142 GTACTTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
8 15 0.31
9 17 0.35
10 12 0.25
11 4 0.08
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:14241105 original size:23 final size:21
Alignment explanation
Indices: 14241074--14241136 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 21
14241064 GCCCTATTAA
14241074 TTTTTTCTTCTTTTTCTTTCT-T
1 TTTTTTCTT-TTTTT-TTTCTCT
14241096 TCTTTTTCTTTTTTTTTTCTCT
1 T-TTTTTCTTTTTTTTTTCTCT
14241118 TTTTTTCATTTTTGTTTTT
1 TTTTTTC-TTTTT-TTTTT
14241137 TTTTTGTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.30
22 13 0.35
23 13 0.35
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.83
Consensus pattern (21 bp):
TTTTTTCTTTTTTTTTTCTCT
Found at i:14241106 original size:20 final size:19
Alignment explanation
Indices: 14241075--14241121 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 19
14241065 CCCTATTAAT
14241075 TTTTTCTTCTTTTTCTTTCTTTC
1 TTTTTCTT-TTTTT-TTTC--TC
14241098 TTTTTCTTTTTTTTTTCTC
1 TTTTTCTTTTTTTTTTCTC
14241117 TTTTT
1 TTTTT
14241122 TTCATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
21 4 0.17
22 5 0.21
23 8 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTCTC
Found at i:14241129 original size:17 final size:16
Alignment explanation
Indices: 14241075--14241139 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
14241065 CCCTATTAAT
* *
14241075 TTTTTCTTCTTTTTCT
1 TTTTTCTTTTTTTTCA
**
14241091 TTCTTTCTTTTTCTTTTT
1 TT-TTTCTTTTT-TTTCA
14241109 TTTTTCTCTTTTTTTCA
1 TTTTTCT-TTTTTTTCA
*
14241126 TTTTTGTTTTTTTT
1 TTTTTCTTTTTTTT
14241140 TTGTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
16 9 0.22
17 22 0.54
18 10 0.24
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTTTTTTCA
Found at i:14241129 original size:27 final size:27
Alignment explanation
Indices: 14241084--14241141 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
14241074 TTTTTTCTTC
14241084 TTTTTCTTTCTTTC-TTTTTCTTTTTT
1 TTTTTCTTTCTTTCATTTTTCTTTTTT
* *
14241110 TTTTCTCTTTTTTTCATTTTTGTTTTTT
1 TTTT-TCTTTCTTTCATTTTTCTTTTTT
14241138 TTTT
1 TTTT
14241142 GTACTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 9 0.32
28 15 0.54
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (27 bp):
TTTTTCTTTCTTTCATTTTTCTTTTTT
Found at i:14241130 original size:29 final size:29
Alignment explanation
Indices: 14241098--14241160 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
14241088 TCTTTCTTTC
**
14241098 TTTTTCTTTTTTTTTTCT-CTTTTTTTCA
1 TTTTTCTTTTTTTTTTCTACTTTTCATCA
* *
14241126 TTTTTGTTTTTTTTTTGTACTTTTCATCA
1 TTTTTCTTTTTTTTTTCTACTTTTCATCA
14241155 TTTTTC
1 TTTTTC
14241161 AAAAAGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.06, C:0.13, G:0.03, T:0.78
Consensus pattern (29 bp):
TTTTTCTTTTTTTTTTCTACTTTTCATCA
Found at i:14247814 original size:10 final size:10
Alignment explanation
Indices: 14247799--14247824 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14247789 TCAAAAAATG
14247799 TATTTTTTTA
1 TATTTTTTTA
14247809 TATTTTTTTA
1 TATTTTTTTA
14247819 TATTTT
1 TATTTT
14247825 CTTTTTTCTT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:14249638 original size:61 final size:61
Alignment explanation
Indices: 14249562--14249678 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
14249552 GCGTCCATCA
* *
14249562 ACTCCACGTGCTTGAACTTCGATATTAAAAGGTTCGACTTAGATGCGCGAGTCTATGATGG
1 ACTCCACGTGCTTGAACTTCGATATTAAAAGGTTCAACTTAAATGCGCGAGTCTATGATGG
* * *
14249623 ACTCCATGTGCTTGAACTTCGGTATTAAAAGGTTCAACTTAAATGCTCGAGTCTAT
1 ACTCCACGTGCTTGAACTTCGATATTAAAAGGTTCAACTTAAATGCGCGAGTCTAT
14249679 AATAATATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (61 bp):
ACTCCACGTGCTTGAACTTCGATATTAAAAGGTTCAACTTAAATGCGCGAGTCTATGATGG
Found at i:14254214 original size:6 final size:6
Alignment explanation
Indices: 14254199--14254263 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
14254189 ACACTCAAAA
* * *
14254199 AATTTT AATTTC AATTTT AATTTT AATTCT AATCTTG AA-TTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AAT-TTT AATTTT AATTTT
* *
14254247 CATTTT GATTTT AATTT
1 AATTTT AATTTT AATTT
14254264 GGATTTGGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
5 4 0.08
6 41 0.85
7 3 0.06
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (6 bp):
AATTTT
Found at i:14254274 original size:18 final size:18
Alignment explanation
Indices: 14254238--14254276 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14254228 TAATCTTGAA
* *
14254238 TTTAATTTTCATTTTGAT
1 TTTAATTTGCATTTGGAT
*
14254256 TTTAATTTGGATTTGGAT
1 TTTAATTTGCATTTGGAT
14254274 TTT
1 TTT
14254277 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.64
Consensus pattern (18 bp):
TTTAATTTGCATTTGGAT
Found at i:14255880 original size:3 final size:3
Alignment explanation
Indices: 14255872--14255914 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14255862 TTCCAGGTTG
14255872 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14255915 CTGTTTATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14256074 original size:18 final size:19
Alignment explanation
Indices: 14256048--14256101 Score: 101
Period size: 18 Copynumber: 2.9 Consensus size: 19
14256038 ATATTGTTAT
14256048 ATGATTATTTATTAATTGC
1 ATGATTATTTATTAATTGC
14256067 ATGA-TATTTATTAATTGC
1 ATGATTATTTATTAATTGC
14256085 ATGATTATTTATTAATT
1 ATGATTATTTATTAATT
14256102 ATACATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (19 bp):
ATGATTATTTATTAATTGC
Found at i:14256141 original size:20 final size:20
Alignment explanation
Indices: 14256116--14256216 Score: 103
Period size: 20 Copynumber: 4.7 Consensus size: 20
14256106 ATTTATTTAC
14256116 ATATTTGCATGATTAATAAT
1 ATATTTGCATGATTAATAAT
*
14256136 ATATTTGCATGACTAATAAT
1 ATATTTGCATGATTAATAAT
14256156 ATATTTTGCATGATATAAATATATTT
1 ATA-TTTGCATGAT-T-AATA-A--T
* *
14256182 AATTTTTGCATGATTATTAAT
1 -ATATTTGCATGATTAATAAT
14256203 ATATGTTGCATGAT
1 ATAT-TTGCATGAT
14256217 ATTTACATGA
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
20 25 0.37
21 19 0.28
22 1 0.01
23 5 0.07
24 4 0.06
25 1 0.01
26 11 0.16
27 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.47
Consensus pattern (20 bp):
ATATTTGCATGATTAATAAT
Found at i:14256275 original size:45 final size:44
Alignment explanation
Indices: 14256131--14256287 Score: 120
Period size: 47 Copynumber: 3.5 Consensus size: 44
14256121 TGCATGATTA
* * * * ** *
14256131 ATAATATATTTGCATGACTAATAATATATTTTGCATGATATAAAT
1 ATAATATTTTTGTATGA-TATTAATATATGTTGCATGATATTTAC
* *
14256176 ATATTTAATTTTTGCATGATTATTAATATATGTTGCATGATATTTAC
1 ATA-AT-ATTTTTGTATGA-TATTAATATATGTTGCATGATATTTAC
* * * *
14256223 ATGATATTTTTGTATGATATT-GTATATTGTTGCATGATTTATTGC
1 ATAATATTTTTGTATGATATTAATATA-TGTTGCATGATAT-TTAC
*
14256268 ATAATATTTTTTTAT-ATATT
1 ATAATATTTTTGTATGATATT
14256288 TATTGCATGA
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
43 4 0.04
44 21 0.23
45 30 0.33
46 2 0.02
47 35 0.38
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (44 bp):
ATAATATTTTTGTATGATATTAATATATGTTGCATGATATTTAC
Found at i:14256287 original size:44 final size:45
Alignment explanation
Indices: 14256183--14256287 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
14256173 AATATATTTA
* * *
14256183 ATTTTTGCATGATTATT-AATATATGTTGCATGATATTTACATGAT
1 ATTTTTGTATGA-TATTGTATATATGTTGCATGATATTTACATAAT
* *
14256228 ATTTTTGTATGATATTGTATAT-TGTTGCATGATTTATTGCATAAT
1 ATTTTTGTATGATATTGTATATATGTTGCATGATAT-TTACATAAT
*
14256273 ATTTTTTTAT-ATATT
1 ATTTTTGTATGATATT
14256288 TATTGCATGA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 21 0.40
45 31 0.60
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (45 bp):
ATTTTTGTATGATATTGTATATATGTTGCATGATATTTACATAAT
Found at i:14257358 original size:38 final size:40
Alignment explanation
Indices: 14257284--14257362 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
14257274 TGTAAATTCA
14257284 TATATTGTTCTTTATATATATTATGTGTATACTAACCCTT
1 TATATTGTTCTTTATATATATTATGTGTATACTAACCCTT
*
14257324 TATATTGTT-TCTTATATATATTATGT-T-TATTAACCCTT
1 TATATTGTTCT-TTATATATATTATGTGTATACTAACCCTT
14257362 T
1 T
14257363 TTTTTTCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
38 11 0.30
39 2 0.05
40 24 0.65
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (40 bp):
TATATTGTTCTTTATATATATTATGTGTATACTAACCCTT
Found at i:14257449 original size:20 final size:20
Alignment explanation
Indices: 14257410--14257449 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14257400 CTTCTTATTG
*
14257410 CATTCATGCATATATGCATT
1 CATTCATGCATATATCCATT
14257430 CATTCATGCAT-TATTCCATT
1 CATTCATGCATATA-TCCATT
14257450 TCACTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (20 bp):
CATTCATGCATATATCCATT
Found at i:14257988 original size:139 final size:139
Alignment explanation
Indices: 14257574--14258097 Score: 502
Period size: 139 Copynumber: 3.8 Consensus size: 139
14257564 ATATACATCC
* * * * *
14257574 ATGTAAATATCGTTGTATGTACATTA-TTCTATTTGTTTGAGAGCAATCTTTATCTTTTTAATTT
1 ATGTAAATATCTTTGTATGTACATTATTTC-ATTTGTTTAAGAGCAATCATTGTCTTTTCAATTT
* * * *
14257638 TGTACATAGTTTTGAATATGAATTCTCGTTGTTACTATGCATTACGTAC-CTGTATTTACATATA
65 TGTACATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTGCATACAC-GTATTTACATATA
*
14257702 CA-TTTTATCC
129 CATTTTTATCT
* * * ** *
14257712 ATGTAAATATCTTTGTATATACATTATTTCATTTATTTGAAG-GCAATCTTTACCTTTTCAGTTT
1 ATGTAAATATCTTTGTATGTACATTATTTCATTTGTTT-AAGAGCAATCATTGTCTTTTCAATTT
* * * * * **
14257776 TGTGCATAGTTTTTAATAT--A----TGTTTTTACTATGTATTGCATGCATGTATTTTTATATAC
65 TGTACATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTGCATACACGTATTTACATATAC
14257835 ATTTTTAT-T
130 ATTTTTATCT
* * * * * *
14257844 AATGTAAACATCTTTGTATGTAAATTATTTCTTTTGTTTAAGAG-AACCATTGTCTTTTTTAGTT
1 -ATGTAAATATCTTTGTATGTACATTATTTCATTTGTTTAAGAGCAATCATTGTC-TTTTCAATT
* *
14257908 TTGTACATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTGCATACACATATTTGCATATA
64 TTGTACATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTGCATACACGTATTTACATATA
14257973 CATTTTTATCT
129 CATTTTTATCT
* * * * *
14257984 ATGTAAATATTTTTGCATGTACATTGTTTCATTTGTTT-GGTAG-AAT-ATTTGCCGTTTTCAAT
1 ATGTAAATATCTTTGTATGTACATTATTTCATTTGTTTAAG-AGCAATCA-TTGTC-TTTTCAAT
* * * * *
14258046 TTTGTACATAATTTTGAATATGAACTCTTATTTTTACCATGTATTGCATACA
63 TTTGTACATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTGCATACA
14258098 TGTGTTTGCA
Statistics
Matches: 316, Mismatches: 54, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
132 39 0.12
133 66 0.21
135 1 0.00
136 1 0.00
138 69 0.22
139 139 0.44
140 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.50
Consensus pattern (139 bp):
ATGTAAATATCTTTGTATGTACATTATTTCATTTGTTTAAGAGCAATCATTGTCTTTTCAATTTT
GTACATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTGCATACACGTATTTACATATACA
TTTTTATCT
Found at i:14258541 original size:14 final size:15
Alignment explanation
Indices: 14258522--14258550 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14258512 AGTAATGAAA
14258522 TTTGAAAAAC-CTTG
1 TTTGAAAAACTCTTG
14258536 TTTGAAAAACTCTTG
1 TTTGAAAAACTCTTG
14258551 GTAAGCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
TTTGAAAAACTCTTG
Found at i:14260654 original size:71 final size:70
Alignment explanation
Indices: 14260560--14260723 Score: 184
Period size: 70 Copynumber: 2.3 Consensus size: 70
14260550 TTGATTAGAT
* * * ***
14260560 CATGCATTTTTCATTATTTGGTGAATATTTAAATCATTGTTTTGAATAGTACATTTGCATCATTG
1 CATGCA-TTTGCATCATTTGGTGAATATATAAATCATTG-TTTGAATAGTACATTTGCATCACAA
****
14260625 TTTGTAC
64 TAAAAAC
* * **
14260632 CATGCATTTGCATCATTTGGTGAGTATATAAATCATTGTTTGAATATTGTATTTGCATCACAATA
1 CATGCATTTGCATCATTTGGTGAATATATAAATCATTGTTTGAATAGTACATTTGCATCACAATA
14260697 AAAAC
66 AAAAC
14260702 CATGCATTTGCATCATTTGGTG
1 CATGCATTTGCATCATTTGGTG
14260724 TTAAAGTTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
70 44 0.56
71 28 0.36
72 6 0.08
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (70 bp):
CATGCATTTGCATCATTTGGTGAATATATAAATCATTGTTTGAATAGTACATTTGCATCACAATA
AAAAC
Found at i:14261497 original size:45 final size:44
Alignment explanation
Indices: 14261428--14261521 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
14261418 TTTTCAAATG
* * * *
14261428 TTTTGAAATGCAAATCATTTAATTTTAAATGTGAATCTCTAAAA
1 TTTTCAAAAGCAAATCATTTAATTTTAAATGAGAATCTATAAAA
* *
14261472 CTTTTCAAAAGCAAATC-TTTAAATTTTGAATGAGAATGTATAAAA
1 -TTTTCAAAAGCAAATCATTT-AATTTTAAATGAGAATCTATAAAA
14261517 TTTTC
1 TTTTC
14261522 GAATGAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 8 0.19
45 34 0.81
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (44 bp):
TTTTCAAAAGCAAATCATTTAATTTTAAATGAGAATCTATAAAA
Found at i:14261517 original size:22 final size:21
Alignment explanation
Indices: 14261485--14261545 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
14261475 TTCAAAAGCA
*
14261485 AATCTTTAAATTTTGAATGAG
1 AATCTATAAATTTTGAATGAG
*
14261506 AATGTATAAAATTTTCGAATGAG
1 AATCTAT-AAATTTT-GAATGAG
*
14261529 AATCTATGAATTTTGAA
1 AATCTATAAATTTTGAA
14261546 AAAAAATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 8 0.24
22 13 0.38
23 13 0.38
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (21 bp):
AATCTATAAATTTTGAATGAG
Found at i:14261685 original size:22 final size:22
Alignment explanation
Indices: 14261618--14261686 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
14261608 TTAATTCTTG
* *
14261618 AAATTTCA-AATGTGAACTTTTG
1 AAATTTTAGAATGTGAA-TTTTA
* *
14261640 AAATTTTAG-ATGTGAATCTCA
1 AAATTTTAGAATGTGAATTTTA
*
14261661 AAATTTTTGAATGTGAATTTTA
1 AAATTTTAGAATGTGAATTTTA
14261683 AAAT
1 AAAT
14261687 CTTAAACATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 10 0.26
22 28 0.74
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (22 bp):
AAATTTTAGAATGTGAATTTTA
Found at i:14261789 original size:18 final size:18
Alignment explanation
Indices: 14261735--14261805 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
14261725 GACTCTTTAT
* *
14261735 GAATTTTGAAATCTTTTC
1 GAATTTTGAAACCTTTGC
* * *
14261753 AAATCTTT-AAGCTTTTGC
1 GAAT-TTTGAAACCTTTGC
14261771 GAATTTTGAAACCTTTGC
1 GAATTTTGAAACCTTTGC
*
14261789 GAATCTTGAAACCTTTG
1 GAATTTTGAAACCTTTG
14261806 TAAACTTGGG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
17 3 0.07
18 36 0.86
19 3 0.07
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (18 bp):
GAATTTTGAAACCTTTGC
Found at i:14262264 original size:39 final size:38
Alignment explanation
Indices: 14262186--14262321 Score: 109
Period size: 38 Copynumber: 3.6 Consensus size: 38
14262176 AATCTTATAT
* * *
14262186 AACACTTTATTTTTCAAAAGTTTAAA-ACTTCGATGAAG
1 AACAATTTATTTTTCAAAAG-TCAAAGCCTTCGATGAAG
*
14262224 AAACAATTTATTTTTCAAAAGTCAAAGCCTT-GGTGAAAG
1 -AACAATTTATTTTTCAAAAGTCAAAGCCTTCGATG-AAG
* * *
14262263 AATAATTTAGTTTTT-AAAAGTCAAAG-CTTCTATGAAA
1 AACAATTTA-TTTTTCAAAAGTCAAAGCCTTCGATGAAG
* * *
14262300 AAGTACTTTATTTTTTAAAAGT
1 AA-CAATTTATTTTTCAAAAGT
14262322 TGAAACCTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
37 12 0.15
38 40 0.49
39 30 0.37
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (38 bp):
AACAATTTATTTTTCAAAAGTCAAAGCCTTCGATGAAG
Found at i:14262282 original size:38 final size:38
Alignment explanation
Indices: 14262228--14262339 Score: 108
Period size: 38 Copynumber: 2.9 Consensus size: 38
14262218 ATGAAGAAAC
14262228 AATTTATTTTTCAAAAGTCAAAGCCTTGGTGAAAGAA-T
1 AATTTATTTTT-AAAAGTCAAAGCCTTGGTGAAAGAAGT
**
14262266 AATTTAGTTTTTAAAAGTCAAAG-CTTCTATGAAA-AAGT
1 AATTTA-TTTTTAAAAGTCAAAGCCTT-GGTGAAAGAAGT
* *
14262304 ACTTTATTTTTTAAAAGTTGAAA-CCTTGGT-AAAGAA
1 AATTTA-TTTTTAAAAG-TCAAAGCCTTGGTGAAAGAA
14262340 ATACTTGGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
37 8 0.13
38 41 0.67
39 12 0.20
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (38 bp):
AATTTATTTTTAAAAGTCAAAGCCTTGGTGAAAGAAGT
Found at i:14262345 original size:38 final size:37
Alignment explanation
Indices: 14262189--14262345 Score: 106
Period size: 38 Copynumber: 4.1 Consensus size: 37
14262179 CTTATATAAC
* * * * *
14262189 ACTTTATTTTTCAAAAGTTTAAAACTTCGATGAAGAAAC
1 ACTTTATTTTTCAAAAG-TCAAACCTT-GGTAAAGAAAT
*
14262228 AATTTATTTTTCAAAAGTCAAAGCCTTGGTGAAAG-AAT
1 ACTTTATTTTTCAAAAGTCAAA-CCTTGGT-AAAGAAAT
* * *
14262266 AATTTAGTTTTT-AAAAGTCAAAGCTT-CTATGAA-AAAGT
1 ACTTTA-TTTTTCAAAAGTCAAACCTTGGTA--AAGAAA-T
* *
14262304 ACTTTATTTTTTAAAAGTTGAAACCTTGGTAAAGAAAT
1 ACTTTATTTTTCAAAAG-TCAAACCTTGGTAAAGAAAT
14262342 ACTT
1 ACTT
14262346 GGTGAAAAAG
Statistics
Matches: 95, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 12 0.13
38 42 0.44
39 37 0.39
40 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (37 bp):
ACTTTATTTTTCAAAAGTCAAACCTTGGTAAAGAAAT
Found at i:14262418 original size:38 final size:38
Alignment explanation
Indices: 14262357--14262481 Score: 146
Period size: 38 Copynumber: 3.3 Consensus size: 38
14262347 GTGAAAAAGC
* * * *
14262357 ACTTTATTTTAT-AAAAGTGAAAATCTTGATAGATGAGT
1 ACTTTATTTT-TCAAAAGTCAAAATCTCGATAAAAGAGT
* *
14262395 ACTTTATTTTTCAAAAATTAAAAT-TCGATAAAAGAGT
1 ACTTTATTTTTCAAAAGTCAAAATCTCGATAAAAGAGT
* *
14262432 ACTTTTTTTTTCAAAAGTCAAAATCTCGATAAAAAAGT
1 ACTTTATTTTTCAAAAGTCAAAATCTCGATAAAAGAGT
*
14262470 ATTTTATTTTTC
1 ACTTTATTTTTC
14262482 GAATTTTCAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
37 32 0.43
38 42 0.57
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (38 bp):
ACTTTATTTTTCAAAAGTCAAAATCTCGATAAAAGAGT
Found at i:14262442 original size:37 final size:38
Alignment explanation
Indices: 14262376--14262481 Score: 126
Period size: 37 Copynumber: 2.8 Consensus size: 38
14262366 TATAAAAGTG
* * * * *
14262376 AAAATCTTGATAGATGAGTACTTTATTTTTCAAAAATT
1 AAAATCTCGATAAAAGAGTACTTTTTTTTTCAAAAATC
*
14262414 AAAAT-TCGATAAAAGAGTACTTTTTTTTTCAAAAGTC
1 AAAATCTCGATAAAAGAGTACTTTTTTTTTCAAAAATC
*
14262451 AAAATCTCGATAAAAAAGTA-TTTTATTTTTC
1 AAAATCTCGATAAAAGAGTACTTTT-TTTTTC
14262482 GAATTTTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 35 0.59
38 24 0.41
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (38 bp):
AAAATCTCGATAAAAGAGTACTTTTTTTTTCAAAAATC
Found at i:14262739 original size:6 final size:6
Alignment explanation
Indices: 14262728--14262814 Score: 93
Period size: 6 Copynumber: 14.0 Consensus size: 6
14262718 AAGCCTAAAA
* * *
14262728 AATTTT AATTTT AATTTC AATTTT GATTTT AATTTT AATTTT GATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * *
14262776 AACTTTT AAATTG GATTTT GATATTTT AATTTT AATTTT
1 AA-TTTT AATTTT AATTTT -A-ATTTT AATTTT AATTTT
14262815 TTGTTTTAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
6 54 0.82
7 7 0.11
8 5 0.08
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:14264579 original size:19 final size:19
Alignment explanation
Indices: 14264555--14264613 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
14264545 AATTGTTGAC
*
14264555 ATTTATTAATTGCATGATT
1 ATTTATTAATTACATGATT
* *
14264574 ATTTATTAATTATATGTTT
1 ATTTATTAATTACATGATT
*
14264593 ATTTATATATTTACATGATT
1 ATTTAT-TAATTACATGATT
14264613 A
1 A
14264614 ATAATATGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTATTAATTACATGATT
Found at i:14264659 original size:27 final size:28
Alignment explanation
Indices: 14264623--14264697 Score: 120
Period size: 27 Copynumber: 2.8 Consensus size: 28
14264613 AATAATATGT
14264623 TTTG-CATGATTATAAATATATTTAATA
1 TTTGACATGATTATAAATATATTTAATA
14264650 TTT-ACATGATTATAAATATATTTAATA
1 TTTGACATGATTATAAATATATTTAATA
*
14264677 TTTGA-ATGATTATTAATATAT
1 TTTGACATGATTATAAATATAT
14264698 GTTGCATGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (28 bp):
TTTGACATGATTATAAATATATTTAATA
Found at i:14264803 original size:35 final size:33
Alignment explanation
Indices: 14264706--14264803 Score: 94
Period size: 35 Copynumber: 3.0 Consensus size: 33
14264696 ATGTTGCATG
*
14264706 ATATT-TT-CATGATATTTTTGTATGATTTTTT
1 ATATTATTACATGATATTTTTGCATGATTTTTT
* * *
14264737 ATATTATTACATGGT-TTTATTACATGTTTTTTAT
1 ATATTATTACATGATATTT-TTGCATGATTTTT-T
* *
14264771 ATATTTATTATATGATATCTTTGCATGATTTTT
1 ATA-TTATTACATGATATTTTTGCATGATTTTT
14264804 GGTATGATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
31 5 0.10
32 5 0.10
33 15 0.29
34 4 0.08
35 21 0.40
36 2 0.04
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (33 bp):
ATATTATTACATGATATTTTTGCATGATTTTTT
Found at i:14266378 original size:5 final size:5
Alignment explanation
Indices: 14266358--14266392 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
14266348 AAATTAATAT
14266358 TTATA TATATTA TTATA TTATA TTATA TTATA TTA
1 TTATA T-TA-TA TTATA TTATA TTATA TTATA TTA
14266393 CAAGATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.75
6 4 0.14
7 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:14269059 original size:24 final size:24
Alignment explanation
Indices: 14269032--14269100 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
14269022 TCTGTTAAAT
14269032 TGATGACATGGCATGTTGACCACG
1 TGATGACATGGCATGTTGACCACG
* *
14269056 TGATG---TGTCA--TTG---ACT
1 TGATGACATGGCATGTTGACCACG
14269072 TGATGACATGGCATGTTGACCACG
1 TGATGACATGGCATGTTGACCACG
14269096 TGATG
1 TGATG
14269101 TGTCATTGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 16
0.62 0.08 0.30
Matches are distributed among these distances:
16 7 0.21
19 7 0.21
21 7 0.21
24 12 0.36
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (24 bp):
TGATGACATGGCATGTTGACCACG
Found at i:14269086 original size:40 final size:40
Alignment explanation
Indices: 14269031--14269122 Score: 184
Period size: 40 Copynumber: 2.3 Consensus size: 40
14269021 CTCTGTTAAA
14269031 TTGATGACATGGCATGTTGACCACGTGATGTGTCATTGAC
1 TTGATGACATGGCATGTTGACCACGTGATGTGTCATTGAC
14269071 TTGATGACATGGCATGTTGACCACGTGATGTGTCATTGAC
1 TTGATGACATGGCATGTTGACCACGTGATGTGTCATTGAC
14269111 TTGATGACATGG
1 TTGATGACATGG
14269123 ATAAAAATGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (40 bp):
TTGATGACATGGCATGTTGACCACGTGATGTGTCATTGAC
Found at i:14270676 original size:45 final size:45
Alignment explanation
Indices: 14270606--14270700 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
14270596 TGAAGGGTTG
* * * * *
14270606 ATTTTGACTAAAGATGTAGAGGAACATGCAATGGATCATAAGCTA
1 ATTTTGACTAAAGATGCAAAAGAACAAGCAATGGATCAAAAGCTA
* *
14270651 ATTTTGACTAAAGATGCAAAAGAACAAGTAATGGATCAAAAGCTT
1 ATTTTGACTAAAGATGCAAAAGAACAAGCAATGGATCAAAAGCTA
14270696 ATTTT
1 ATTTT
14270701 ATTGGAGATG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (45 bp):
ATTTTGACTAAAGATGCAAAAGAACAAGCAATGGATCAAAAGCTA
Found at i:14270930 original size:45 final size:45
Alignment explanation
Indices: 14270852--14270942 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
14270842 GAAGCAACAT
* * * * * *
14270852 GTAAAGGATGAAGGACAATTTGGTAGTAGAGATATAAGGGGACAA
1 GTAAAGGATAAAGGACAAATTGGTAGCAAAGATACAAAGGGACAA
*
14270897 GTAAGGGATAAAGGACAAATTGGTAGCAAAGATACAAAGGGACAA
1 GTAAAGGATAAAGGACAAATTGGTAGCAAAGATACAAAGGGACAA
14270942 G
1 G
14270943 CAGTGGATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.45, C:0.07, G:0.32, T:0.16
Consensus pattern (45 bp):
GTAAAGGATAAAGGACAAATTGGTAGCAAAGATACAAAGGGACAA
Found at i:14273929 original size:26 final size:27
Alignment explanation
Indices: 14273893--14273946 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
14273883 TGGTGATAGA
14273893 TTGTTTTTAACATTACTTT-TTATGTT
1 TTGTTTTTAACATTACTTTCTTATGTT
14273919 TTGTTTTTAACATTACTTTCTTATGTT
1 TTGTTTTTAACATTACTTTCTTATGTT
14273946 T
1 T
14273947 AAATCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.19, C:0.09, G:0.07, T:0.65
Consensus pattern (27 bp):
TTGTTTTTAACATTACTTTCTTATGTT
Found at i:14278628 original size:27 final size:28
Alignment explanation
Indices: 14278590--14278645 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
14278580 ACCCAAATGG
*
14278590 CTAAGGCCCACAACC-AAACAATAGAAT
1 CTAAGGCCCACAACCAAAAAAATAGAAT
*
14278617 CTAAGGTCCACAACCAAAAAAATAGAAT
1 CTAAGGCCCACAACCAAAAAAATAGAAT
14278645 C
1 C
14278646 CAATATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.50, C:0.27, G:0.11, T:0.12
Consensus pattern (28 bp):
CTAAGGCCCACAACCAAAAAAATAGAAT
Found at i:14280389 original size:3 final size:3
Alignment explanation
Indices: 14280381--14280433 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
14280371 GGAATTACTA
* *
14280381 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG AAG AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14280429 AAG AA
1 AAG AA
14280434 AACATATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14280521 original size:3 final size:3
Alignment explanation
Indices: 14280513--14280538 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14280503 AATTTGCAAC
14280513 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
14280539 AATTTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14280585 original size:126 final size:126
Alignment explanation
Indices: 14280387--14280613 Score: 325
Period size: 126 Copynumber: 1.8 Consensus size: 126
14280377 ACTAAAGAAG
*
14280387 AAGAAGAAGAAGAAGAAGAAGAAGGAGAAGAAGAAGAAAAAGAAGAAAACATATAAAAATATAAA
1 AAGAAGAAGAAGAAGAAGAAGAAGGAAAAGAAGAAGAAAAAGAAGAAAACATATAAAAATATAAA
*
14280452 AATATAAAGATTCATTTTTTAAAAAAATTATGAAAACAAACTTGCTTTGAAAATTTGCAAC
66 AATATAAAGATTCATCTTTTAAAAAAATTATGAAAACAAACTTGCTTTGAAAATTTGCAAC
****
14280513 AAGAAGAAGAAGAAGAAGAAGAA-GAAAATTTTAATGGAAAAAGAAGAAAAACATAT-AAAATAT
1 AAGAAGAAGAAGAAGAAGAAGAAGGAAAAGAAGAA--GAAAAAGAAG-AAAACATATAAAAATAT
* * *
14280576 -AAAATATAAAGATTTATCTTTTAGAGAAATTATGAAAA
63 AAAAATATAAAGATTCATCTTTTAAAAAAATTATGAAAA
14280614 ATGAACTTAC
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
125 6 0.07
126 57 0.64
127 17 0.19
128 9 0.10
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.21
Consensus pattern (126 bp):
AAGAAGAAGAAGAAGAAGAAGAAGGAAAAGAAGAAGAAAAAGAAGAAAACATATAAAAATATAAA
AATATAAAGATTCATCTTTTAAAAAAATTATGAAAACAAACTTGCTTTGAAAATTTGCAAC
Found at i:14280730 original size:14 final size:14
Alignment explanation
Indices: 14280711--14280756 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
14280701 AAACCTTAAT
14280711 ATGAAACCCTAAAA
1 ATGAAACCCTAAAA
14280725 ATGAAACCCT-AAA
1 ATGAAACCCTAAAA
* *
14280738 ATGAAATCTTAAAA
1 ATGAAACCCTAAAA
14280752 A-GAAA
1 ATGAAA
14280757 ATCCTAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 15 0.52
14 14 0.48
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.17
Consensus pattern (14 bp):
ATGAAACCCTAAAA
Found at i:14280732 original size:27 final size:26
Alignment explanation
Indices: 14280701--14280774 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
14280691 GCAAAATCCA
* *
14280701 AAACCTTAATATGAAACCCTAAAAATG
1 AAACCCTAAAATGAAACCCTAAAAA-G
* *
14280728 AAACCCTAAAATGAAATCTTAAAAAG
1 AAACCCTAAAATGAAACCCTAAAAAG
* *
14280754 AAAATCCTAAAACTAAAACCC
1 -AAACCCTAAAA-TGAAACCC
14280775 CAAAGTCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.03
27 31 0.84
28 5 0.14
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.19
Consensus pattern (26 bp):
AAACCCTAAAATGAAACCCTAAAAAG
Found at i:14280751 original size:13 final size:13
Alignment explanation
Indices: 14280701--14280743 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
14280691 GCAAAATCCA
* *
14280701 AAACCTTAATATG
1 AAACCCTAAAATG
14280714 AAACCCTAAAAATG
1 AAACCCT-AAAATG
14280728 AAACCCTAAAATG
1 AAACCCTAAAATG
14280741 AAA
1 AAA
14280744 TCTTAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.19
Consensus pattern (13 bp):
AAACCCTAAAATG
Found at i:14280995 original size:20 final size:20
Alignment explanation
Indices: 14280965--14281016 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
14280955 TTCCATAATC
14280965 AAAACAATAATAAGATTAAAT
1 AAAA-AATAATAAGATTAAAT
*
14280986 AAAAAATAATAAGATTAGAT
1 AAAAAATAATAAGATTAAAT
14281006 -AAAAATAATAA
1 AAAAAATAATAA
14281017 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 15 0.50
21 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAAATAATAAGATTAAAT
Found at i:14282056 original size:37 final size:37
Alignment explanation
Indices: 14282015--14282128 Score: 123
Period size: 37 Copynumber: 3.2 Consensus size: 37
14282005 TTTTATAAGC
14282015 TCATTTAAGCATACTTTTAAGATATAAACAGAGACAT
1 TCATTTAAGCATACTTTTAAGATATAAACAGAGACAT
* * * **
14282052 TCATTTATAG-ATA-ATTCAA-AT-T-AATAGA-AGTTT
1 TCATTTA-AGCATACTTTTAAGATATAAACAGAGA-CAT
14282085 TCATTTAAGCATACTTTTAAGATATAAACAGAGACAT
1 TCATTTAAGCATACTTTTAAGATATAAACAGAGACAT
14282122 TCATTTA
1 TCATTTA
14282129 TAGATAATTC
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
32 3 0.05
33 16 0.27
34 5 0.08
35 4 0.07
36 5 0.08
37 23 0.39
38 3 0.05
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (37 bp):
TCATTTAAGCATACTTTTAAGATATAAACAGAGACAT
Found at i:14282090 original size:33 final size:33
Alignment explanation
Indices: 14282051--14282159 Score: 105
Period size: 33 Copynumber: 3.2 Consensus size: 33
14282041 AACAGAGACA
14282051 TTCATTTATAGATAATTCAAATTAATAGAAGTT
1 TTCATTTATAGATAATTCAAATTAATAGAAGTT
* * * **
14282084 TTCATTTA-AGCATACTTTTAAGATATAA-ACAGAGACA
1 TTCATTTATAG-ATA-ATTCAA-AT-TAATAGA-AG-TT
14282121 TTCATTTATAGATAATTCAAATTAATAGAAGTT
1 TTCATTTATAGATAATTCAAATTAATAGAAGTT
14282154 TTCATT
1 TTCATT
14282160 CATTCCAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
32 2 0.03
33 17 0.29
34 9 0.16
35 8 0.14
36 9 0.16
37 11 0.19
38 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Consensus pattern (33 bp):
TTCATTTATAGATAATTCAAATTAATAGAAGTT
Found at i:14282097 original size:70 final size:70
Alignment explanation
Indices: 14282015--14282159 Score: 290
Period size: 70 Copynumber: 2.1 Consensus size: 70
14282005 TTTTATAAGC
14282015 TCATTTAAGCATACTTTTAAGATATAAACAGAGACATTCATTTATAGATAATTCAAATTAATAGA
1 TCATTTAAGCATACTTTTAAGATATAAACAGAGACATTCATTTATAGATAATTCAAATTAATAGA
14282080 AGTTT
66 AGTTT
14282085 TCATTTAAGCATACTTTTAAGATATAAACAGAGACATTCATTTATAGATAATTCAAATTAATAGA
1 TCATTTAAGCATACTTTTAAGATATAAACAGAGACATTCATTTATAGATAATTCAAATTAATAGA
14282150 AGTTT
66 AGTTT
14282155 TCATT
1 TCATT
14282160 CATTCCAAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (70 bp):
TCATTTAAGCATACTTTTAAGATATAAACAGAGACATTCATTTATAGATAATTCAAATTAATAGA
AGTTT
Found at i:14284369 original size:23 final size:23
Alignment explanation
Indices: 14284333--14284389 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
14284323 TCTTCCCCTT
*
14284333 TTTCTCTTTCTTTTATT-TTTT-C
1 TTTCTCTTT-TTTTTTTGTTTTAC
14284355 TTTCCTCTTTTTTTTTTGTTTTAC
1 TTT-CTCTTTTTTTTTTGTTTTAC
14284379 TTTCT-TTTTTT
1 TTTCTCTTTTTT
14284390 CCACCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 15 0.48
23 12 0.39
24 4 0.13
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTCTCTTTTTTTTTTGTTTTAC
Found at i:14284377 original size:30 final size:32
Alignment explanation
Indices: 14284321--14284400 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 32
14284311 TTTTTTTCCA
* *
14284321 TTTC-TTCCCCTTTTTCTCTTTCTTTTA-TTT-
1 TTTCTTTCCACTTTTT-TTTTTCTTTTACTTTC
* *
14284351 TTTCTTTCCTCTTTTTTTTTTGTTTTACTTTC
1 TTTCTTTCCACTTTTTTTTTTCTTTTACTTTC
* *
14284383 TTTTTTTCCACCTTTTTT
1 TTTCTTTCCACTTTTTTT
14284401 ATATTTTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 13 0.32
31 13 0.32
32 15 0.37
ACGTcount: A:0.04, C:0.23, G:0.01, T:0.72
Consensus pattern (32 bp):
TTTCTTTCCACTTTTTTTTTTCTTTTACTTTC
Found at i:14284969 original size:20 final size:18
Alignment explanation
Indices: 14284944--14284985 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
14284934 TTAAAAACAT
14284944 AATAAATAACGACAATTTAA
1 AATAAATAAC-ACAA-TTAA
*
14284964 AATAAATAACATAATTAA
1 AATAAATAACACAATTAA
14284982 AATA
1 AATA
14284986 TGCATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAAATAACACAATTAA
Found at i:14286187 original size:14 final size:14
Alignment explanation
Indices: 14286179--14286368 Score: 105
Period size: 14 Copynumber: 14.4 Consensus size: 14
14286169 TAGGGTTCAA
*
14286179 GGTTTAGGGTTT--
1 GGTTTAAGGTTTAG
*
14286191 GGTTCAAGGTTTAG
1 GGTTTAAGGTTTAG
*
14286205 GGTTTTA--TTTAG
1 GGTTTAAGGTTTAG
*
14286217 GGTTTAAGGTTTAC
1 GGTTTAAGGTTTAG
* *
14286231 GGTTTACGGTTTAT
1 GGTTTAAGGTTTAG
14286245 GGTTTAAGGTTTA-
1 GGTTTAAGGTTTAG
* * * *
14286258 AGATTAGGGTTTAA
1 GGTTTAAGGTTTAG
14286272 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
* *
14286286 GGTTT-ATGTTTTG
1 GGTTTAAGGTTTAG
** *
14286299 GGTTTTGGGTTTAA
1 GGTTTAAGGTTTAG
* *
14286313 AG-TTATGG-TTAG
1 GGTTTAAGGTTTAG
* * *
14286325 GGTTTAGGGGTAAG
1 GGTTTAAGGTTTAG
*
14286339 GTTTTAA-GTTTAG
1 GGTTTAAGGTTTAG
*
14286352 GG--TGAGGTTTAG
1 GGTTTAAGGTTTAG
14286364 GGTTT
1 GGTTT
14286369 TATGGGTAGT
Statistics
Matches: 132, Mismatches: 35, Indels: 20
0.71 0.19 0.11
Matches are distributed among these distances:
11 2 0.02
12 33 0.25
13 35 0.27
14 62 0.47
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:14286189 original size:7 final size:7
Alignment explanation
Indices: 14286168--14286368 Score: 93
Period size: 7 Copynumber: 30.3 Consensus size: 7
14286158 GGGGTCTAGG
14286168 TTAGGGT
1 TTAGGGT
* *
14286175 TCAAGGT
1 TTAGGGT
14286182 TTAGGGT
1 TTAGGGT
14286189 TT--GGT
1 TTAGGGT
* *
14286194 TCAAGGT
1 TTAGGGT
14286201 TTAGGGTT
1 TTAGGG-T
14286209 TTA---T
1 TTAGGGT
14286213 TTAGGGT
1 TTAGGGT
*
14286220 TTAAGGT
1 TTAGGGT
*
14286227 TTACGGT
1 TTAGGGT
*
14286234 TTACGGT
1 TTAGGGT
*
14286241 TTATGGT
1 TTAGGGT
*
14286248 TTAAGGT
1 TTAGGGT
* *
14286255 TTA-AGA
1 TTAGGGT
14286261 TTAGGGT
1 TTAGGGT
*
14286268 TTAAGGT
1 TTAGGGT
*
14286275 TTAAGGT
1 TTAGGGT
14286282 TTAGGGT
1 TTAGGGT
*
14286289 TTA-TGT
1 TTAGGGT
*
14286295 TTTGGGT
1 TTAGGGT
*
14286302 TTTGGGT
1 TTAGGGT
**
14286309 TTAAAG-
1 TTAGGGT
*
14286315 TTATGG-
1 TTAGGGT
14286321 TTAGGGT
1 TTAGGGT
*
14286328 TTAGGGG
1 TTAGGGT
* *
14286335 TAAGGTT
1 TTAGGGT
*
14286342 TTA-AGT
1 TTAGGGT
14286348 TTAGGG-
1 TTAGGGT
*
14286354 TGA-GGT
1 TTAGGGT
14286360 TTAGGGT
1 TTAGGGT
14286367 TT
1 TT
14286369 TATGGGTAGT
Statistics
Matches: 146, Mismatches: 36, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
4 4 0.03
5 6 0.04
6 25 0.17
7 107 0.73
8 4 0.03
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:14286241 original size:21 final size:20
Alignment explanation
Indices: 14286178--14286330 Score: 111
Period size: 21 Copynumber: 7.7 Consensus size: 20
14286168 TTAGGGTTCA
*
14286178 AGGTTTAGGGTTT--GGTTCA
1 AGGTTTAGGGTTTAAGGTT-T
*
14286197 AGGTTTAGGGTTTTA--TTT
1 AGGTTTAGGGTTTAAGGTTT
* *
14286215 AGGGTTTAAGGTTTACGGTTT
1 A-GGTTTAGGGTTTAAGGTTT
*
14286236 ACGGTTTATGGTTTAAGGTTT
1 A-GGTTTAGGGTTTAAGGTTT
* *
14286257 AAGATTAGGGTTTAAGGTTT
1 AGGTTTAGGGTTTAAGGTTT
* *
14286277 AAGGTTTAGGGTTTATGTTTT
1 -AGGTTTAGGGTTTAAGGTTT
* * *
14286298 GGGTTTTGGGTTTAAAG-TT
1 AGGTTTAGGGTTTAAGGTTT
14286317 ATGG-TTAGGGTTTA
1 A-GGTTTAGGGTTTA
14286331 GGGGTAAGGT
Statistics
Matches: 106, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
18 1 0.01
19 37 0.35
20 30 0.28
21 38 0.36
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (20 bp):
AGGTTTAGGGTTTAAGGTTT
Found at i:14286273 original size:48 final size:46
Alignment explanation
Indices: 14286168--14286293 Score: 146
Period size: 48 Copynumber: 2.7 Consensus size: 46
14286158 GGGGTCTAGG
* * * * * * *
14286168 TTAGGGTTCAAGGTTTAGGGTTT-GGTTCAAGGTTTAGGGTTTTAT
1 TTAGGGTTTAAGGTTTAAGGTTTAGGTTTATGGTTTAAGGTTTAAA
*
14286213 TTAGGGTTTAAGGTTTACGGTTTACGGTTTATGGTTTAAGGTTTAAGA
1 TTAGGGTTTAAGGTTTAAGGTTTA-GGTTTATGGTTTAAGGTTTAA-A
14286261 TTAGGGTTTAAGGTTTAAGGTTTAGGGTTTATG
1 TTAGGGTTTAAGGTTTAAGGTTTA-GGTTTATG
14286294 TTTTGGGTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 21 0.30
47 17 0.25
48 31 0.45
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (46 bp):
TTAGGGTTTAAGGTTTAAGGTTTAGGTTTATGGTTTAAGGTTTAAA
Found at i:14286296 original size:20 final size:20
Alignment explanation
Indices: 14286172--14286368 Score: 122
Period size: 19 Copynumber: 9.9 Consensus size: 20
14286162 TCTAGGTTAG
*
14286172 GGTTCAAGGTTTAGGGTTT-
1 GGTTTAAGGTTTAGGGTTTA
*
14286191 GGTTCAAGGTTTAGGGTTTTA
1 GGTTTAAGGTTTAGGG-TTTA
* *
14286212 --TTTAGGGTTTAAGGTTTA
1 GGTTTAAGGTTTAGGGTTTA
* *
14286230 CGGTTTACGGTTTATGGTTTAA
1 -GGTTTAAGGTTTAGGGTTT-A
*
14286252 GGTTTAA-GATTAGGGTTTAA
1 GGTTTAAGGTTTAGGGTTT-A
14286272 GGTTTAAGGTTTAGGGTTTA
1 GGTTTAAGGTTTAGGGTTTA
* ** *
14286292 TGTTTTGGGTTTTGGGTTTAA
1 GGTTTAAGGTTTAGGGTTT-A
* *
14286313 AG-TTATGG-TTAGGGTTTA
1 GGTTTAAGGTTTAGGGTTTA
** *
14286331 GGGGTAAGGTTTTA-AGTTTA
1 GGTTTAAGG-TTTAGGGTTTA
* *
14286351 GG-GTGAGGTTTAGGGTTT
1 GGTTTAAGGTTTAGGGTTT
14286369 TATGGGTAGT
Statistics
Matches: 143, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
18 10 0.07
19 48 0.34
20 48 0.34
21 36 0.25
22 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (20 bp):
GGTTTAAGGTTTAGGGTTTA
Found at i:14288047 original size:144 final size:144
Alignment explanation
Indices: 14287735--14288173 Score: 463
Period size: 144 Copynumber: 3.1 Consensus size: 144
14287725 ACCTCAATAG
* * * * *
14287735 GGTCAAATTACAAAAATAACCTTAAAAGGGTATTTTAGTAATTT--TAATCTTTTGAGGTGCAAT
1 GGTCAAATTATAAAAATACCCTT-TAAGGGTATTTTAGTAATTTCATAA-CTTTCGAGGTGCGAT
* * * * *
14287798 CAAGATTTTTAATGCACTAAAAATCATGAAATATTATAAAATCATAATCTG---ATTTTCACGAA
64 CAAGGTTTTTAATGCACTAAAAATCATAAAATAATATAAAATCATGATTTGAAAATTTTCAC-AA
*
14287860 AAA-CTGA-CT-ATGAAAA
128 AAATCCGACCTCA-G-AAA
* * * *
14287876 GGTCAAATTATGAAAATATCCC-TTAAGGGTAGTTTGGTAATTTCATAACTTTCGAGGTGCGACC
1 GGTCAAATTATAAAAATA-CCCTTTAAGGGTATTTTAGTAATTTCATAACTTTCGAGGTGCGATC
* *
14287940 AAGGTTTTTAATGCACTAAAAATCATAAAATAATATTAAATCATGTTTTGAAAATTTTCACAAAA
65 AAGGTTTTTAATGCACTAAAAATCATAAAATAATATAAAATCATGATTTGAAAATTTTCACAAAA
14288005 ATCCGACCTCAGAAA
130 ATCCGACCTCAGAAA
* * * *
14288020 GGTCAAATTATAAAAATACCCTTTAAGGTTATTTTAGTAATTTCA-CACATTCTAAGGTGCGATC
1 GGTCAAATTATAAAAATACCCTTTAAGGGTATTTTAGTAATTTCATAACTTTC-GAGGTGCGATC
* * *
14288084 AAGGTTTTTAATGCA--AAAATAGTCATCAAATAATATAAAATTATGATTTGAAAGTTTTCACAA
65 AAGGTTTTTAATGCACTAAAA-A-TCATAAAATAATATAAAATCATGATTTGAAAATTTTCACAA
* *
14288147 AAATCCTACTTCAAGAAA
128 AAATCCGACCTC-AGAAA
14288165 -GTCAAATTA
1 GGTCAAATTA
14288174 CGAAAATTTT
Statistics
Matches: 252, Mismatches: 32, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
140 17 0.07
141 73 0.29
142 9 0.04
143 14 0.06
144 130 0.52
145 8 0.03
146 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (144 bp):
GGTCAAATTATAAAAATACCCTTTAAGGGTATTTTAGTAATTTCATAACTTTCGAGGTGCGATCA
AGGTTTTTAATGCACTAAAAATCATAAAATAATATAAAATCATGATTTGAAAATTTTCACAAAAA
TCCGACCTCAGAAA
Found at i:14289388 original size:27 final size:27
Alignment explanation
Indices: 14289345--14289399 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
14289335 ATTTTTAAAA
14289345 TTTTTTGAATGTGAATCTT-AAAATTT
1 TTTTTTGAATGTGAATCTTCAAAATTT
* *
14289371 TTTTTTCGATTGTTAATCTTCAAAATTT
1 TTTTTT-GAATGTGAATCTTCAAAATTT
14289399 T
1 T
14289400 GGATAGGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.56
Consensus pattern (27 bp):
TTTTTTGAATGTGAATCTTCAAAATTT
Found at i:14289701 original size:20 final size:20
Alignment explanation
Indices: 14289663--14289720 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
14289653 ATCTTTATAA
14289663 TTAC-AAATC-TTTAAATTC
1 TTACAAAATCTTTTAAATTC
*
14289681 TTACAAAATCTTTTCAATTC
1 TTACAAAATCTTTTAAATTC
*
14289701 TTGCAAAA-C-TTTAAATTC
1 TTACAAAATCTTTTAAATTC
14289719 TT
1 TT
14289721 GTGAATCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.40
19 6 0.17
20 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (20 bp):
TTACAAAATCTTTTAAATTC
Found at i:14289730 original size:18 final size:18
Alignment explanation
Indices: 14289666--14289778 Score: 86
Period size: 18 Copynumber: 6.2 Consensus size: 18
14289656 TTTATAATTA
*
14289666 CAAATCTTTAAATTCTTA
1 CAAATCTTTAAATTCTTG
*
14289684 CAAAATCTTTTCAATTCTTG
1 C-AAATC-TTTAAATTCTTG
*
14289704 CAAAACTTTAAATTCTTG
1 CAAATCTTTAAATTCTTG
** *
14289722 TGAATCTTTTAACTT-TTG
1 CAAATC-TTTAAATTCTTG
* *
14289740 CAAATCTTTGAACTCTTG
1 CAAATCTTTAAATTCTTG
** *
14289758 TGAATCTTTGAA-TCTTG
1 CAAATCTTTAAATTCTTG
14289775 CAAA
1 CAAA
14289779 ATTTTTACGA
Statistics
Matches: 74, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
17 12 0.16
18 35 0.47
19 16 0.22
20 11 0.15
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (18 bp):
CAAATCTTTAAATTCTTG
Found at i:14289757 original size:36 final size:37
Alignment explanation
Indices: 14289687--14289779 Score: 113
Period size: 36 Copynumber: 2.6 Consensus size: 37
14289677 ATTCTTACAA
*
14289687 AATCTTTTCAATTCTTGCAAAACTTTAAATTCTTGTG
1 AATCTTTTCAATTCTTGCAAAACTTTAAACTCTTGTG
* *
14289724 AATCTTTT-AACTT-TTGCAAATCTTTGAACTCTTGTG
1 AATCTTTTCAA-TTCTTGCAAAACTTTAAACTCTTGTG
*
14289760 AATC-TTTGAA-TCTTGCAAAA
1 AATCTTTTCAATTCTTGCAAAA
14289780 TTTTTACGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
34 1 0.02
35 10 0.20
36 28 0.57
37 10 0.20
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (37 bp):
AATCTTTTCAATTCTTGCAAAACTTTAAACTCTTGTG
Found at i:14290362 original size:26 final size:27
Alignment explanation
Indices: 14290322--14290374 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
14290312 ATTTGGTTAA
* *
14290322 AATCAAACAATAAAATAAGTAAAAAAT
1 AATCAAACAATAAAAAAAGAAAAAAAT
14290349 AATCAAA-AATAAAAAAAGAAAAAAAT
1 AATCAAACAATAAAAAAAGAAAAAAAT
14290375 GAGATTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (27 bp):
AATCAAACAATAAAAAAAGAAAAAAAT
Found at i:14297229 original size:31 final size:30
Alignment explanation
Indices: 14297183--14297240 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
14297173 TAACGGCTCT
* *
14297183 CAAATTAGAAGTTAAAAAGCTTATTTAAGTA
1 CAAATTAAAAATTAAAAA-CTTATTTAAGTA
*
14297214 CAAATTAAAAATTAAAAATTTATTTAA
1 CAAATTAAAAATTAAAAACTTATTTAA
14297241 ATATATATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (30 bp):
CAAATTAAAAATTAAAAACTTATTTAAGTA
Found at i:14297239 original size:30 final size:29
Alignment explanation
Indices: 14297183--14297288 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 29
14297173 TAACGGCTCT
* * *
14297183 CAAATTAGAAGTTAAAAAGCTTATTTAAGTA
1 CAAATTAAAAATTAAAAA-TTTATTTAA-TA
14297214 CAAATTAAAAATTAAAAATTTATTTAAATA
1 CAAATTAAAAATTAAAAATTTATTT-AATA
* * * **
14297244 TATATCAAATTTTAAAAATTTATTTATATA
1 CAAATTAAAAATTAAAAATTTATTTA-ATA
* *
14297274 TAAATTAAAGATTAA
1 CAAATTAAAAATTAA
14297289 GTACTTACTG
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
29 1 0.02
30 42 0.69
31 18 0.30
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (29 bp):
CAAATTAAAAATTAAAAATTTATTTAATA
Found at i:14300046 original size:21 final size:22
Alignment explanation
Indices: 14300022--14300070 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
14300012 TTAACACTAT
* *
14300022 TAAATTTTTTATCA-ATTAATA
1 TAAATTTTATATAACATTAATA
14300043 TAAAATTTTATATAACATTAATA
1 T-AAATTTTATATAACATTAATA
14300066 -AAATT
1 TAAATT
14300071 GATTAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 11 0.46
23 7 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATTTTATATAACATTAATA
Found at i:14300048 original size:22 final size:23
Alignment explanation
Indices: 14300023--14300065 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14300013 TAACACTATT
* *
14300023 AAATTTTTTATCA-ATTAATATA
1 AAATTTTATATAACATTAATATA
14300045 AAATTTTATATAACATTAATA
1 AAATTTTATATAACATTAATA
14300066 AAATTGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATTTTATATAACATTAATATA
Found at i:14300727 original size:12 final size:12
Alignment explanation
Indices: 14300705--14300737 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14300695 CTTTAGCATT
14300705 AAAAGAAATTTTC
1 AAAA-AAATTTTC
14300718 AAAAAAA-TTTC
1 AAAAAAATTTTC
14300729 AAAAAAATT
1 AAAAAAATT
14300738 CTAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 4 0.21
13 4 0.21
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (12 bp):
AAAAAAATTTTC
Found at i:14300849 original size:19 final size:21
Alignment explanation
Indices: 14300817--14300864 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
14300807 TAAATTTCTT
*
14300817 TTTAAAAATTATTA-AAAAAA
1 TTTAAAAATAATTATAAAAAA
*
14300837 TTTAAAAA-AATTATGAAAAA
1 TTTAAAAATAATTATAAAAAA
14300857 -TTAAAAAT
1 TTTAAAAAT
14300865 CTAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TTTAAAAATAATTATAAAAAA
Found at i:14300963 original size:19 final size:19
Alignment explanation
Indices: 14300942--14300999 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
14300932 AATCTAAGTT
*
14300942 TTTTAGAAAA-TATGAAAA
1 TTTTAAAAAATTATGAAAA
14300960 TTTTAAAAAATTATGAAAA
1 TTTTAAAAAATTATGAAAA
* *
14300979 ATTT-AAATATTATGAACAA
1 TTTTAAAAAATTATGAA-AA
14300998 TT
1 TT
14301000 AAATAATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 20 0.59
19 14 0.41
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (19 bp):
TTTTAAAAAATTATGAAAA
Found at i:14301306 original size:16 final size:17
Alignment explanation
Indices: 14301275--14301319 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
14301265 TTTTAAATTT
*
14301275 TTTATTTTTAAGAAAA-
1 TTTATTTTTATGAAAAC
*
14301291 TTTATTTTTATTAAAAC
1 TTTATTTTTATGAAAAC
14301308 TTTCATTTTTAT
1 TTT-ATTTTTAT
14301320 ATTTTTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 3 0.12
18 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTATTTTTATGAAAAC
Found at i:14301384 original size:21 final size:21
Alignment explanation
Indices: 14301351--14301391 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14301341 AAAATTTCTG
**
14301351 AATTTTTTGGATTTTGTATTA
1 AATTTTTAAGATTTTGTATTA
*
14301372 AATTTTTAAGATTTTTTATT
1 AATTTTTAAGATTTTGTATT
14301392 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (21 bp):
AATTTTTAAGATTTTGTATTA
Found at i:14301393 original size:58 final size:57
Alignment explanation
Indices: 14301331--14301445 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
14301321 TTTTTGTTGA
* *
14301331 ATTTTTCTATAAAA-TTTCT-GAAT-TTTTTGGATTTTGTATTAAATTTTTAAGATTTTTT
1 ATTTTT-T-TAAAATTTTCTAGAATCTTATTGGATTTT-TATAAAATTTTT-AGATTTTTT
*
14301389 ATTTTTTTAAAATTTTCTATAATCTTATTGGATTTTTATAAAATTTTTAGATTTTTT
1 ATTTTTTTAAAATTTTCTAGAATCTTATTGGATTTTTATAAAATTTTTAGATTTTTT
14301446 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
56 5 0.10
57 15 0.29
58 20 0.39
59 11 0.22
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (57 bp):
ATTTTTTTAAAATTTTCTAGAATCTTATTGGATTTTTATAAAATTTTTAGATTTTTT
Found at i:14310770 original size:21 final size:21
Alignment explanation
Indices: 14310736--14310796 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
14310726 TAATTTTTAA
**
14310736 ATTTTATAAATAAAAATAATT
1 ATTTTATATTTAAAAATAATT
* *
14310757 ATTTTATATTTAAATATATTT
1 ATTTTATATTTAAAAATAATT
**
14310778 A-AATATATTT-AAAATAATT
1 ATTTTATATTTAAAAATAATT
14310797 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 7 0.22
20 7 0.22
21 18 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTATATTTAAAAATAATT
Found at i:14310801 original size:10 final size:10
Alignment explanation
Indices: 14310761--14310800 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
14310751 ATAATTATTT
14310761 TATATTTAAA
1 TATATTTAAA
14310771 TATATTTAAA
1 TATATTTAAA
14310781 TATATTTAAA
1 TATATTTAAA
14310791 -ATAATTTAAA
1 TAT-ATTTAAA
14310801 AATAATAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 2 0.07
10 27 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TATATTTAAA
Found at i:14312116 original size:31 final size:30
Alignment explanation
Indices: 14312062--14312120 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
14312052 CAATACAAGG
*
14312062 ATTAAATTTTAAATTTTGGTAGAGTAAAACA
1 ATTAAATTTTAAATTTTGATAGAG-AAAACA
14312093 ATTAAATTTTAAA-TTTGTATAGAGAAAA
1 ATTAAATTTTAAATTTTG-ATAGAGAAAA
14312121 TGGATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (30 bp):
ATTAAATTTTAAATTTTGATAGAGAAAACA
Found at i:14312334 original size:27 final size:27
Alignment explanation
Indices: 14312283--14312334 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
14312273 ATTTATAAAC
* *
14312283 TTTTTTTAAAAAATTAATATATAAATT
1 TTTTTTTAAAAAATAAAAATATAAATT
* *
14312310 TTTTTTTAAAAAGTAAAAATTTAAA
1 TTTTTTTAAAAAATAAAAATATAAA
14312335 AATATAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
TTTTTTTAAAAAATAAAAATATAAATT
Found at i:14312422 original size:18 final size:16
Alignment explanation
Indices: 14312407--14312478 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
14312397 ATAAAAATGA
14312407 TAAAATTTGAAAAAAT
1 TAAAATTTGAAAAAAT
* *
14312423 ACAAAAACTTTCAAAAAAT
1 --TAAAA-TTTGAAAAAAT
* * *
14312442 GAAATTTTAAAAAAAT
1 TAAAATTTGAAAAAAT
*
14312458 TAAAATATTGAAAAAAA
1 TAAAAT-TTGAAAAAAT
14312475 TAAA
1 TAAA
14312479 TTTAATATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 14 0.33
17 15 0.35
18 4 0.09
19 10 0.23
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (16 bp):
TAAAATTTGAAAAAAT
Found at i:14312428 original size:17 final size:16
Alignment explanation
Indices: 14312408--14312473 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
14312398 TAAAAATGAT
14312408 AAAATTTGAAAAAATAC
1 AAAATTTGAAAAAAT-C
* *
14312425 AAAAACTTTCAAAAAATG
1 -AAAA-TTTGAAAAAATC
* * *
14312443 AAATTTTAAAAAAATT
1 AAAATTTGAAAAAATC
14312459 AAAATATTGAAAAAA
1 AAAAT-TTGAAAAAA
14312474 ATAAATTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 14 0.36
17 11 0.28
18 4 0.10
19 10 0.26
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAATTTGAAAAAATC
Found at i:14312478 original size:17 final size:16
Alignment explanation
Indices: 14312406--14312478 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 16
14312396 AATAAAAATG
14312406 ATAAAATTTGAAAAAA
1 ATAAAATTTGAAAAAA
* *
14312422 TACAAAAACTTT-CAAAAA
1 -A-TAAAA-TTTGAAAAAA
* *
14312440 ATGAAATTTTAAAAAA
1 ATAAAATTTGAAAAAA
14312456 ATTAAAATATTGAAAAAA
1 A-TAAAAT-TTGAAAAAA
14312474 ATAAA
1 ATAAA
14312479 TTTAATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 11 0.25
18 18 0.41
19 3 0.07
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (16 bp):
ATAAAATTTGAAAAAA
Found at i:14312862 original size:20 final size:20
Alignment explanation
Indices: 14312837--14312898 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
14312827 CAATCTAAAT
14312837 TGTCATGTCAACAAAATCAA
1 TGTCATGTCAACAAAATCAA
* *
14312857 TGTCATGTCAA-GAAAGCTAA
1 TGTCATGTCAACAAAATC-AA
*
14312877 TGTCATG-CTAACAAAGTCAA
1 TGTCATGTC-AACAAAATCAA
14312897 TG
1 TG
14312899 CCCATGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.15
20 26 0.76
21 3 0.09
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTCATGTCAACAAAATCAA
Found at i:14313035 original size:29 final size:29
Alignment explanation
Indices: 14312997--14313064 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
14312987 ATAATAGAAA
*
14312997 GATTAAATTTATATGAATTACAATACAAT
1 GATTAAATTTATATAAATTACAATACAAT
*
14313026 GATTACATTTATATAAATTACAATACAAT
1 GATTAAATTTATATAAATTACAATACAAT
14313055 GATTAAATTT
1 GATTAAATTT
14313065 TAAATTTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (29 bp):
GATTAAATTTATATAAATTACAATACAAT
Found at i:14316385 original size:18 final size:17
Alignment explanation
Indices: 14316362--14316413 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
14316352 CCATTTAAAG
14316362 ATAATTTAAAATAATTTA
1 ATAATTTAAAATAA-TTA
*
14316380 ATAA-TT-AAGTAATTA
1 ATAATTTAAAATAATTA
*
14316395 TTAATTTAAAATAAATTA
1 ATAATTTAAAAT-AATTA
14316413 A
1 A
14316414 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 5 0.19
18 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATAATTTAAAATAATTA
Found at i:14321821 original size:26 final size:26
Alignment explanation
Indices: 14321792--14321843 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
14321782 GCCTTAAATA
*
14321792 CATCTTTATTTCCTACCTTCATTACC
1 CATCTTCATTTCCTACCTTCATTACC
*
14321818 CATCTTCATTTCCTACCTTCGTTACC
1 CATCTTCATTTCCTACCTTCATTACC
14321844 TTAGCAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.17, C:0.37, G:0.02, T:0.44
Consensus pattern (26 bp):
CATCTTCATTTCCTACCTTCATTACC
Found at i:14321837 original size:13 final size:13
Alignment explanation
Indices: 14321799--14321837 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
14321789 ATACATCTTT
14321799 ATTTCCTACCTTC
1 ATTTCCTACCTTC
* * *
14321812 ATTACCCATCTTC
1 ATTTCCTACCTTC
14321825 ATTTCCTACCTTC
1 ATTTCCTACCTTC
14321838 GTTACCTTAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTCCTACCTTC
Found at i:14327008 original size:32 final size:32
Alignment explanation
Indices: 14326950--14327015 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
14326940 TTGACTAGCC
*
14326950 TAGGGATTAAAGAGCCTACCTGTTGTTTAATA
1 TAGGGATTAAAGAGCCTACCTATTGTTTAATA
* * * *
14326982 TAGGGATTAAAGAGCTTGCTTATTGTTTTATA
1 TAGGGATTAAAGAGCCTACCTATTGTTTAATA
14327014 TA
1 TA
14327016 TATTAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (32 bp):
TAGGGATTAAAGAGCCTACCTATTGTTTAATA
Found at i:14330756 original size:23 final size:23
Alignment explanation
Indices: 14330730--14330775 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
14330720 TCTCCATTTG
14330730 TCATCAGAATCGAGCAATTCTTA
1 TCATCAGAATCGAGCAATTCTTA
*
14330753 TCATCAGAATTGAGCAATTCTTA
1 TCATCAGAATCGAGCAATTCTTA
14330776 CTCTCTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (23 bp):
TCATCAGAATCGAGCAATTCTTA
Found at i:14330955 original size:10 final size:10
Alignment explanation
Indices: 14330919--14330947 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
14330909 ACAAAAATTA
14330919 TCAAGATTCT
1 TCAAGATTCT
14330929 TCAAGATTCT
1 TCAAGATTCT
14330939 TCAAGATTC
1 TCAAGATTC
14330948 ACCAAGATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (10 bp):
TCAAGATTCT
Found at i:14331762 original size:4 final size:5
Alignment explanation
Indices: 14331737--14331774 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
14331727 GTGCATGGGG
14331737 AAAAT AAAAT AAAAT AAAAT -AAAT AATAAT AATAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AA
14331775 TAATGAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.13
5 16 0.52
6 11 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:14331766 original size:3 final size:3
Alignment explanation
Indices: 14331739--14331778 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
14331729 GCATGGGGAA
14331739 AAT AA- AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
14331779 GAAATGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.18
3 24 0.73
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:14332824 original size:237 final size:234
Alignment explanation
Indices: 14332303--14333202 Score: 994
Period size: 236 Copynumber: 3.8 Consensus size: 234
14332293 TGTGACTTTT
* *
14332303 TTTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTATT
1 TTTTTATTTTAGGTGACGTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATAAATTT-TT
* * * *
14332368 CTGATAGATTTTAGGTGATGTTATTAAGTTTTGTCATAAATTGAACACTATAGTTAACTATTAAT
65 TTGATAGATTTTAGGTGATGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAAT
* * * ** *
14332433 GACATTGCAATTTCGTCATGTCAATGTATGGTGGTATATGACGATAATATAAATGTCACAAACTT
130 GACATTACAATTTTGTCATGTCAATATATGGTATTATATGACGATAACATAAATGTCACAAACTT
** * *
14332498 TTACTGCCAAATTTAATTGGTGGAAAATTTTTTTATGACA
195 TTACTAACAAATTTATTTGGTGGAAAAATTTTTTATGACA
* * * * * *
14332538 TTTTTCATTTTAGGTGATGTT-TAAATTTTGTCACTAATTTTAAATTTTATCCGTAACAAATTTT
1 TTTTT-ATTTTAGGTGACGTTAT-AATTTTGTCACCAATTTAAAATTTTATCTGTGATAAATTTT
* * * ** *
14332602 TTCTAATAGATTTTAGGTGATGTTATCAATTTTTGTCACAAATGGAATGCTTTAGTTAATTATTA
64 TT-TGATAGATTTTAGGTGATGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTA
* * * * *
14332667 ATGACATTGCAATTTTGTCACCT-TTATTTTATGGTATTATATGACGATAACATAAATGTGACAA
128 ATGACATTACAATTTTGTCA--TGTCAATATATGGTATTATATGACGATAACATAAATGTCACAA
* * * * *
14332731 ATTTTTACTATCAATTTTATTTGGTGAAAAAATTTTTTGTGACA
191 ACTTTTACTAACAAATTTATTTGGTGGAAAAATTTTTTATGACA
* * * *
14332775 TTTTGTATTTTA-ATCAACGTTATAATTTTGTCACTAATTTAAAATTTTATCTGTGATGAATTTT
1 TTTT-TATTTTAGGT-GACGTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATAAATTTT
* * * * * * *
14332839 TTTTATAGATTTTAAGTGGTGTTATTGATTTTTATCACAAATTGAATC-TTTTAGTTAATTATTA
64 TTTGATAGATTTTAGGTGATGTTATTAATTTTTGTCACAAATTGAA-CACTTTAGTTAACTATTA
* * *
14332903 ATGACATTATAATTTTGTCATGTCAATATATGGTATTATATGATGATAACTTAAATGTCACAAAC
128 ATGACATTACAATTTTGTCATGTCAATATATGGTATTATATGACGATAACATAAATGTCACAAAC
* * * * * *
14332968 TTTTACCAAAAAAATAATTTGATGGAAAAATTTCTTATGACA
193 TTTTACTAACAAATTTATTTGGTGGAAAAATTTTTTATGACA
* *
14333010 TTTTTTTATTTTAGGTGACGTTATAATTTTGTTACCAAGTTAAAATTTTATCTGTGATAAATTGT
1 --TTTTTATTTTAGGTGACGTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATAAATT-T
* ** *
14333075 TTTTGATAAATTTTAGGTGACATTATAAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTA
63 TTTTGATAGATTTTAGGTGATGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTA
* * * * *
14333140 ATGACATTACAA--TT-TCAT-T--ACAT-TGGTGTTATATTACGATAATATAAATGTGACAAAC
128 ATGACATTACAATTTTGTCATGTCAATATATGGTATTATATGACGATAACATAAATGTCACAAAC
14333198 TTTTA
193 TTTTA
14333203 TCGTCAAATT
Statistics
Matches: 555, Mismatches: 95, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
230 34 0.06
231 3 0.01
233 1 0.00
234 5 0.01
235 78 0.14
236 240 0.43
237 191 0.34
238 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (234 bp):
TTTTTATTTTAGGTGACGTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATAAATTTTTT
TGATAGATTTTAGGTGATGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATG
ACATTACAATTTTGTCATGTCAATATATGGTATTATATGACGATAACATAAATGTCACAAACTTT
TACTAACAAATTTATTTGGTGGAAAAATTTTTTATGACA
Found at i:14337430 original size:204 final size:198
Alignment explanation
Indices: 14336996--14337770 Score: 718
Period size: 204 Copynumber: 3.8 Consensus size: 198
14336986 TTAATAACGT
* * * ** * * * *
14336996 TAATTATGTCACCAGTACTTTGATGATTTATCTTTCGTTACTAATATATTAGATTTAATCATTTA
1 TAATTATGTCACCAATACTGTAACAATTTACCTTTCGTCACTAATATATCAGATTTTATCATTTA
* * * * * * *
14337061 GTTTGTGACGATTATAGCCTTTAATGACATTTTTTTCATAAGTAGCTAACAAAAACTAACGTC-A
66 TTTTGTGATGATTATAGAC-TTAATGACATTTTTTTTATAAATAGTTAACGAAAACTAACGTCAA
* * * * * * *
14337125 CAAAAAAAGCATAATGTGACGTTTGATTTTATTATCACGTTTGACGTTATTTTACAACCAATTGT
130 AAAAAAAAGCATAAAGTGACGTTTGATTTTATTGTCAC-TTTGACATTATCTTACAATCATTTGT
14337190 GATGA
194 GATGA
* * * * *
14337195 TAATTATGTTACTAATACTATAACAATTTACCTTTCATCATTAATATATCAGATTTTATCATTTA
1 TAATTATGTCACCAATACTGTAACAATTTACCTTTCGTCACTAATATATCAGATTTTATCATTTA
* * * * *
14337260 TTTTGTGATGATTATAAACTTCAATGACGTTTTTCTTTATAAATAGTTGATGAAAATTAACGTCA
66 TTTTGTGATGATTATAGACTT-AATGACATTTTT-TTTATAAATAGTTAACGAAAACTAACGTCA
* * * *
14337325 TATAAAAAAAAGGCATAAAGTGATGTTTGATTTTATTGTCACATTTGATATTATCTTATAATTAT
129 -A-AAAAAAAA-GCATAAAGTGACGTTTGATTTTATTGTCAC-TTTGACATTATCTTACAATCAT
*
14337390 TTATGATGA
190 TTGTGATGA
* * * * *
14337399 TAATTATGTCACCAATATTGTGACGATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTA
1 TAATTATGTCACCAATACTGTAACAATTTACCTTTCGTCACTAATATATCAGATTTTATCATTTA
* * * *
14337464 TTTTGTGATGATTATAGTCATTAATGACTTTTTTGTTTATAAATAGTTAACGAAAACAAACATCA
66 TTTTGTGATGATTATAGAC-TTAATGACATTTTT-TTTATAAATAGTTAACGAAAACTAACGTCA
* * *
14337529 CAAAAATTAACGCATAACA-TGACGTTTGATTTTATTGTCACTATAGACATTATCTTACAATCAT
129 -AAAAA-AAAAGCATAA-AGTGACGTTTGATTTTATTGTCACT-TTGACATTATCTTACAATCAT
*
14337593 TGGTGATGA
190 TTGTGATGA
* * * * *
14337602 TAATTTTGTCACTAATACTGTAACAATTTACCTTTTGTCACTAATTTATCAAAATTTT-TCATTT
1 TAATTATGTCACCAATACTGTAACAATTTACCTTTCGTCACTAATATATC-AGATTTTATCATTT
* ** * * *
14337666 TTTTTGTGACAAATATAG-CTTTTAAT--CATTTTTTTTTCATAAATAGTTGACGAAAACTAATG
65 ATTTTGTGATGATTATAGAC--TTAATGACA-TTTTTTTT-ATAAATAGTTAACGAAAACTAACG
* * *
14337728 TTACAAAAAAAAAAACAT-AAGTTGATGTTTTATTTTATTGTCA
126 -T-CAAAAAAAAAAGCATAAAG-TGACGTTTGATTTTATTGTCA
14337771 TGGTAGATTC
Statistics
Matches: 468, Mismatches: 90, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
198 2 0.00
199 78 0.17
200 23 0.05
201 5 0.01
202 52 0.11
203 136 0.29
204 170 0.36
205 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (198 bp):
TAATTATGTCACCAATACTGTAACAATTTACCTTTCGTCACTAATATATCAGATTTTATCATTTA
TTTTGTGATGATTATAGACTTAATGACATTTTTTTTATAAATAGTTAACGAAAACTAACGTCAAA
AAAAAAAGCATAAAGTGACGTTTGATTTTATTGTCACTTTGACATTATCTTACAATCATTTGTGA
TGA
Found at i:14344259 original size:51 final size:51
Alignment explanation
Indices: 14344203--14344301 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
14344193 TTTTCTTTGA
* * *
14344203 AAAAAAATGATAAAAAGGGGGAACATGTTAGATTTGAATA-AAGCCCCATAT
1 AAAAAAATGATAAAAAAGAGGAAAATGTTAGATTTGAATATAA-CCCCATAT
14344254 AAAAAAATGATAAAAAAGAGGAAAATGTTAGATTTGAATATAACCCCA
1 AAAAAAATGATAAAAAAGAGGAAAATGTTAGATTTGAATATAACCCCA
14344302 CATAGTTAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.95
52 2 0.05
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (51 bp):
AAAAAAATGATAAAAAAGAGGAAAATGTTAGATTTGAATATAACCCCATAT
Found at i:14345401 original size:26 final size:26
Alignment explanation
Indices: 14345337--14345402 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
14345327 AAAATTTTTG
*
14345337 AAAAAAAAAATAAAAAAAGCCAAGAT
1 AAAAAAAAAAAAAAAAAAGCCAAGAT
* ** *
14345363 GAAAAAACCAAAAAAAAAGTCAAG-T
1 AAAAAAAAAAAAAAAAAAGCCAAGAT
*
14345388 AAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAA
14345403 GAGAAGAAAG
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.77, C:0.09, G:0.08, T:0.06
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAAAAGCCAAGAT
Found at i:14345750 original size:23 final size:23
Alignment explanation
Indices: 14345724--14345813 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
14345714 GAATGCACTT
*
14345724 AAAAAAAAAAAGTG-AAAAAATG
1 AAAAAAAAAAAGAGAAAAAAATG
*
14345746 CAAAAGAAAAAAGAGAAAAAAATG
1 -AAAAAAAAAAAGAGAAAAAAATG
* *
14345770 --AAAAAATAAG-GAAAAACAAAG
1 AAAAAAAAAAAGAGAAAAA-AATG
*
14345791 AAAAAAGGAAAAAGAGGAAAAAA
1 AAAAAA--AAAAAGAGAAAAAAA
14345814 GAAGAAGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
20 6 0.11
21 11 0.21
23 16 0.30
24 8 0.15
25 7 0.13
26 5 0.09
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAAAGAGAAAAAAATG
Found at i:14345774 original size:18 final size:17
Alignment explanation
Indices: 14345747--14345815 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
14345737 GAAAAAATGC
14345747 AAAAGAAAAAAGAGAAA
1 AAAAGAAAAAAGAGAAA
*
14345764 AAAATGAAAAAATAAGGAAAA
1 AAAA-GAAAAAA-GA-G-AAA
14345785 ACAAAGAAAAAAG-GAAA
1 A-AAAGAAAAAAGAGAAA
*
14345802 AAGAGGAAAAAAGA
1 AA-AAGAAAAAAGA
14345816 AGAAGAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
16 1 0.02
17 17 0.40
18 8 0.19
19 1 0.02
20 1 0.02
21 11 0.26
22 3 0.07
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAGAGAAA
Found at i:14345815 original size:10 final size:9
Alignment explanation
Indices: 14345752--14345813 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
14345742 AATGCAAAAG
14345752 AAAAAAGAGA
1 AAAAAAG-GA
*
14345762 AAAAAATGAA
1 AAAAAA-GGA
14345772 AAAATAAGGA
1 AAAA-AAGGA
*
14345782 AAAACAAAG-
1 AAAA-AAGGA
14345791 AAAAAAGGA
1 AAAAAAGGA
*
14345800 AAAAGAGGA
1 AAAAAAGGA
14345809 AAAAA
1 AAAAA
14345814 GAAGAAGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.07
9 16 0.38
10 20 0.48
11 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAAAGGA
Found at i:14346804 original size:34 final size:34
Alignment explanation
Indices: 14346730--14346847 Score: 104
Period size: 34 Copynumber: 3.6 Consensus size: 34
14346720 TTAGCCTTAA
* * * *
14346730 AAAATATTTAAGCCCAGTTTAGCTGGCACTAAATG
1 AAAAGATTTAAGCCTAG-TTATCTGGAACTAAATG
*
14346765 AAAAGATTTAAGCCTAGCTTATCTGGAACT-CATG
1 AAAAGATTTAAGCCTAG-TTATCTGGAACTAAATG
* *
14346799 AAAAGATTTAAGCTTAGTTCATCTGGCA-TAAA--
1 AAAAGATTTAAGCCTAGTT-ATCTGGAACTAAATG
14346831 AAAA-A-TTAAGCCTAGTT
1 AAAAGATTTAAGCCTAGTT
14346848 CATTTGGCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
30 11 0.15
31 1 0.01
32 4 0.06
33 3 0.04
34 27 0.38
35 25 0.35
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (34 bp):
AAAAGATTTAAGCCTAGTTATCTGGAACTAAATG
Found at i:14346847 original size:30 final size:30
Alignment explanation
Indices: 14346806--14346877 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
14346796 ATGAAAAGAT
*
14346806 TTAAGCTTAGTTCATCTGGCATAAAAAAAA
1 TTAAGCCTAGTTCATCTGGCATAAAAAAAA
* * * *
14346836 TTAAGCCTAGTTCATTTGGCATTAGAGAAA
1 TTAAGCCTAGTTCATCTGGCATAAAAAAAA
14346866 TTAAGCCTAGTT
1 TTAAGCCTAGTT
14346878 TAGCTGACAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (30 bp):
TTAAGCCTAGTTCATCTGGCATAAAAAAAA
Found at i:14346931 original size:32 final size:32
Alignment explanation
Indices: 14346866--14346977 Score: 145
Period size: 33 Copynumber: 3.4 Consensus size: 32
14346856 ATTAGAGAAA
*
14346866 TTAAGCCTAGTTTAGCT-GACACCAAATGAAGAT
1 TTAAGCCTAGTTTAGCTAG-CATC-AATGAAGAT
* *
14346899 TTAAGCTTAGTTTAGCTAGTATCAATGAAGAT
1 TTAAGCCTAGTTTAGCTAGCATCAATGAAGAT
* *
14346931 TTAAGCCTAGTTTAGTTGGCATCAATGAAAGAT
1 TTAAGCCTAGTTTAGCTAGCATCAATG-AAGAT
14346964 TTAAGCCTAGTTTA
1 TTAAGCCTAGTTTA
14346978 TATGGTACAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 32 0.46
33 37 0.53
34 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
TTAAGCCTAGTTTAGCTAGCATCAATGAAGAT
Found at i:14347041 original size:29 final size:29
Alignment explanation
Indices: 14346996--14347062 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
14346986 ATCGTGAAAA
* *
14346996 GATTTAAGTCCAATTTAGCTGGCACATAG
1 GATTTAAGCCCAATTTAGCTGGAACATAG
* * *
14347025 GATTTAAGCCCAGTTTAGTTGGAACCTAG
1 GATTTAAGCCCAATTTAGCTGGAACATAG
*
14347054 GTTTTAAGC
1 GATTTAAGC
14347063 TTAATTTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (29 bp):
GATTTAAGCCCAATTTAGCTGGAACATAG
Found at i:14347230 original size:31 final size:31
Alignment explanation
Indices: 14347183--14347339 Score: 109
Period size: 31 Copynumber: 4.9 Consensus size: 31
14347173 AGCTGACATT
**
14347183 TAATGAAAATTTAAGCCCAGATTACCTGGCC
1 TAATGAAGTTTTAAGCCCAGATTACCTGGCC
* *
14347214 TATTGAAGTTTTAAGCCTAGATTACCTGGCC
1 TAATGAAGTTTTAAGCCCAGATTACCTGGCC
* * * * ** **
14347245 TTTATGGAAAGATTTAAGTCTAGATTAGTTATCAC
1 -TAAT-G-AAGTTTTAAGCCCAGATTACCTGGC-C
* *
14347280 TCAATGAAATTTTAAGCCCAGATTACCTAGCC
1 T-AATGAAGTTTTAAGCCCAGATTACCTGGCC
* *
14347312 CAATGAAGTTTTAAAG-CCATATTACCTG
1 TAATGAAGTTTT-AAGCCCAGATTACCTG
14347340 ATTTCATGGA
Statistics
Matches: 96, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
31 47 0.49
32 6 0.06
33 19 0.20
34 21 0.22
35 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (31 bp):
TAATGAAGTTTTAAGCCCAGATTACCTGGCC
Found at i:14347286 original size:98 final size:95
Alignment explanation
Indices: 14347159--14347405 Score: 266
Period size: 98 Copynumber: 2.5 Consensus size: 95
14347149 AATATAAAAT
* * * *
14347159 TTTAAGTCTAGATTAGCTGACATTTAATGAAAATTTAAGCCCAGATTACCTGGCCTATTGAAGTT
1 TTTAAGTCTAGATTAG-TTACA-CTAATGAAAATTTAAGCCCAGATTACCTGGCCCAATGAAGTT
*
14347224 TT-AAGCCTAGATTACCTGGCCTTT-ATGGAAAGA
64 TTAAAGCC-AGATTACCT-G-ATTTCATGGAAAGA
* *
14347257 TTTAAGTCTAGATTAGTTATCACTCAATGAAATTTTAAGCCCAGATTACCTAGCCCAATGAAGTT
1 TTTAAGTCTAGATTAGTTA-CACT-AATGAAAATTTAAGCCCAGATTACCTGGCCCAATGAAGTT
*
14347322 TTAAAGCCATATTACCTGATTTCATGGAAAGA
64 TTAAAGCCAGATTACCTGATTTCATGGAAAGA
* * * * * * *
14347354 TTTAAGCCCAGTTTAGTTGGCACTAAT-AAAAATTAAGCCCAGTTTATCTGGC
1 TTTAAGTCTAGATTAGTT-ACACTAATGAAAATTTAAGCCCAGATTACCTGGC
14347406 ACCTTATAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
95 20 0.16
96 6 0.05
97 32 0.25
98 64 0.50
99 5 0.04
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
TTTAAGTCTAGATTAGTTACACTAATGAAAATTTAAGCCCAGATTACCTGGCCCAATGAAGTTTT
AAAGCCAGATTACCTGATTTCATGGAAAGA
Found at i:14347425 original size:66 final size:64
Alignment explanation
Indices: 14347349--14347544 Score: 198
Period size: 66 Copynumber: 2.9 Consensus size: 64
14347339 GATTTCATGG
*
14347349 AAAGATTTAAGCCCAGTTTAGTTGGCACTAAT-AAAAATTAAGCCCAGTTTATCTGGCACCTTAT
1 AAAGATTTAAGCCCAGTTTAGTTGGCACTAATGAAAAATTAAGCCCAGTTTAT-TGGCACC-AAT
14347413 AA
64 -A
* * * * * *
14347415 AAAGATTTAAGCCCTGTTTAGCTGGTA-TCAATGAAAGATTTAAGCCTAGTTTGATTGGCATCAA
1 AAAGATTTAAGCCCAGTTTAGTTGGCACT-AATGAAA-AATTAAGCCCAGTTT-ATTGGCACCAA
*
14347479 TG
63 TA
* *
14347481 AAAGATTTAAGCCCAGTTTAGTTGGCACATTATGAAAAGATTTAAGCCCAATTTAGTTGGCACC
1 AAAGATTTAAGCCCAGTTTAGTTGGCAC-TAATGAAAA-A-TTAAGCCCAGTTTA-TTGGCACC
14347545 CAAGTTTTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
65 1 0.01
66 52 0.50
67 12 0.11
68 38 0.36
69 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (64 bp):
AAAGATTTAAGCCCAGTTTAGTTGGCACTAATGAAAAATTAAGCCCAGTTTATTGGCACCAATA
Found at i:14347457 original size:33 final size:33
Alignment explanation
Indices: 14347348--14347542 Score: 161
Period size: 33 Copynumber: 5.8 Consensus size: 33
14347338 TGATTTCATG
*
14347348 GAAAGATTTAAGCCCAGTTTAGTTGGCA-CTAAT
1 GAAAGATTTAAGCCCTGTTTAGTTGGCATC-AAT
* * * *
14347381 -AAA-AATTAAGCCCAGTTTA-TCTGGCACCTTAT
1 GAAAGATTTAAGCCCTGTTTAGT-TGGCATC-AAT
* * *
14347413 AAAAAGATTTAAGCCCTGTTTAGCTGGTATCAAT
1 -GAAAGATTTAAGCCCTGTTTAGTTGGCATCAAT
14347447 GAAAGATTTAAG-CCTAGTTT-GATTGGCATCAAT
1 GAAAGATTTAAGCCCT-GTTTAG-TTGGCATCAAT
*
14347480 GAAAGATTTAAGCCCAGTTTAGTTGGCA-CATTAT
1 GAAAGATTTAAGCCCTGTTTAGTTGGCATCA--AT
**
14347514 GAAAAGATTTAAGCCCAATTTAGTTGGCA
1 G-AAAGATTTAAGCCCTGTTTAGTTGGCA
14347543 CCCAAGTTTT
Statistics
Matches: 136, Mismatches: 13, Indels: 24
0.79 0.08 0.14
Matches are distributed among these distances:
30 1 0.01
31 20 0.15
32 13 0.10
33 46 0.34
34 11 0.08
35 45 0.33
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (33 bp):
GAAAGATTTAAGCCCTGTTTAGTTGGCATCAAT
Found at i:14347523 original size:101 final size:99
Alignment explanation
Indices: 14347348--14347529 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 99
14347338 TGATTTCATG
*
14347348 GAAAGATTTAAGCCCAGTTTAGTTGGCACTAATAAAAATTAAGCCCAGTTTATCTGGCACCTTAT
1 GAAAGATTTAAGCCCAGTTTAGTTGGCACTAATAAAAATTAAGCCCAGTTTATCTGGCACATTAT
14347413 AAAAAGATTTAAGCCCTGTTTAGCTGGTATCAAT
66 AAAAAGATTTAAGCCCTGTTTAGCTGGTATCAAT
* *
14347447 GAAAGATTTAAGCCTAGTTT-GATTGGCA-TCAATGAAAGATTTAAGCCCAGTTTAGT-TGGCAC
1 GAAAGATTTAAGCCCAGTTTAG-TTGGCACT-AAT-AAA-AATTAAGCCCAGTTTA-TCTGGCAC
*
14347509 ATTATGAAAAGATTTAAGCCC
61 ATTATAAAAAGATTTAAGCCC
14347530 AATTTAGTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
98 2 0.03
99 28 0.38
100 3 0.04
101 40 0.54
102 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (99 bp):
GAAAGATTTAAGCCCAGTTTAGTTGGCACTAATAAAAATTAAGCCCAGTTTATCTGGCACATTAT
AAAAAGATTTAAGCCCTGTTTAGCTGGTATCAAT
Found at i:14347784 original size:35 final size:35
Alignment explanation
Indices: 14347764--14347853 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 35
14347754 TCTCTTTATT
14347764 TTTTCTGACTTGTGGTGTTATCTCAATCGTACTTTA
1 TTTT-TGACTTGTGGTGTTATCTCAATCGTACTTTA
* **
14347800 TTTTTGACTTGTGGTATTATC-CAGATCGTTTTTTA
1 TTTTTGACTTGTGGTGTTATCTCA-ATCGTACTTTA
*
14347835 TTTTTTGACTTATGGTGTT
1 -TTTTTGACTTGTGGTGTT
14347854 GTCCTAGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 2 0.04
35 25 0.53
36 20 0.43
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.54
Consensus pattern (35 bp):
TTTTTGACTTGTGGTGTTATCTCAATCGTACTTTA
Found at i:14350241 original size:34 final size:35
Alignment explanation
Indices: 14350180--14350247 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
14350170 GAAACCCTAG
* * *
14350180 GTAAAATCCTATAGCCCTAGGTAAAACCTTAAATT
1 GTAAAACCCTATAACCCTAAGTAAAACCTTAAATT
*
14350215 GTAAAACCCTA-AACCCTAAGTGAAACCTTAAAT
1 GTAAAACCCTATAACCCTAAGTAAAACCTTAAAT
14350248 GAGAAACCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 19 0.66
35 10 0.34
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (35 bp):
GTAAAACCCTATAACCCTAAGTAAAACCTTAAATT
Found at i:14356546 original size:24 final size:24
Alignment explanation
Indices: 14356519--14356565 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14356509 AATCCTATTT
* *
14356519 TAGCCGAACCTATGAAGGAGTTTA
1 TAGCCGAACCTATAAAAGAGTTTA
*
14356543 TAGCTGAACCTATAAAAGAGTTT
1 TAGCCGAACCTATAAAAGAGTTT
14356566 GAATTAAGAT
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:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (24 bp):
TAGCCGAACCTATAAAAGAGTTTA
Found at i:14362349 original size:13 final size:13
Alignment explanation
Indices: 14362331--14362355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14362321 ACTTTTCACC
14362331 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
14362344 TTTTTTCTCTTT
1 TTTTTTCTCTTT
14362356 AAGTCTTCTA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:14365296 original size:16 final size:16
Alignment explanation
Indices: 14365275--14365309 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14365265 CACCTGATCA
*
14365275 ATCCATTCCTTAGGTG
1 ATCCATTCCTTAGGGG
14365291 ATCCATTCCTTAGGGG
1 ATCCATTCCTTAGGGG
14365307 ATC
1 ATC
14365310 GATCCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (16 bp):
ATCCATTCCTTAGGGG
Found at i:14365315 original size:20 final size:18
Alignment explanation
Indices: 14365270--14365317 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
14365260 TAATGCACCT
*
14365270 GATCAATCCATTCCTTAG
1 GATCGATCCATTCCTTAG
14365288 G-T-GATCCATTCCTTAGGG
1 GATCGATCCATTCCTTA--G
14365306 GATCGATCCATT
1 GATCGATCCATT
14365318 TTCTAGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 12 0.48
17 1 0.04
18 3 0.12
19 1 0.04
20 8 0.32
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (18 bp):
GATCGATCCATTCCTTAG
Found at i:14365940 original size:9 final size:9
Alignment explanation
Indices: 14365922--14365971 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
14365912 TGTTCATACA
*
14365922 ATCAAAATC
1 ATCAAGATC
*
14365931 ATCAATATC
1 ATCAAGATC
14365940 ATCAAGATC
1 ATCAAGATC
* * *
14365949 ATTAATACC
1 ATCAAGATC
14365958 ATCAAGATC
1 ATCAAGATC
14365967 ATCAA
1 ATCAA
14365972 AGTAATTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (9 bp):
ATCAAGATC
Found at i:14365949 original size:18 final size:18
Alignment explanation
Indices: 14365917--14365971 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
14365907 ATTTTTGTTC
* *
14365917 ATACAATCAAAATCATCA
1 ATACCATCAAGATCATCA
* *
14365935 ATATCATCAAGATCATTA
1 ATACCATCAAGATCATCA
14365953 ATACCATCAAGATCATCA
1 ATACCATCAAGATCATCA
14365971 A
1 A
14365972 AGTAATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (18 bp):
ATACCATCAAGATCATCA
Found at i:14376212 original size:32 final size:31
Alignment explanation
Indices: 14376158--14376222 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
14376148 ATAAATTACG
14376158 TTCTTGCTTTTAGTTTGATTTAATCTATTCAA
1 TTCTTGCTTTTAGTTTGATTTAAT-TATTCAA
* * *
14376190 TTCTTG-TTTTATTTTGGTTTTAATTATTTAA
1 TTCTTGCTTTTAGTTT-GATTTAATTATTCAA
14376221 TT
1 TT
14376223 GCAATTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.20, C:0.08, G:0.09, T:0.63
Consensus pattern (31 bp):
TTCTTGCTTTTAGTTTGATTTAATTATTCAA
Found at i:14383072 original size:491 final size:492
Alignment explanation
Indices: 14382149--14383134 Score: 1902
Period size: 491 Copynumber: 2.0 Consensus size: 492
14382139 AGAACTCAAA
14382149 CTTAAGCTATGTCGATCCCTGAGGTAAAAGATGTTTTCATATTGATCTTATCTTTGTTGATATTT
1 CTTAAGCTATGTCGATCCCTGAGGTAAAAGATGTTTTCATATTGATCTTATCTTTGTTGATATTT
14382214 TTATTTTTTATTGAGATAACTTTGGCAATTTAAATTTATGGAGAAATTTTCCAAAAAGATTTTTT
66 TTATTTTTTATTGAGATAACTTTGGCAATTTAAATTTATGGAGAAATTTTCCAAAAAGATTTTTT
14382279 TATTTTAATGGAAGGATGTGAGATTTTGAGTTGATTTTTTTTTTTTTGCATCATATGTTCTTGTT
131 TATTTTAATGGAAGGATGTGAGATTTTGAGTTGATTTTTTTTTTTTTGCATCATATGTTCTTGTT
14382344 TCATTACATGCATTTATACATACATTATCTCTTCTGCTCTTTTTAGTTTTAATTTATTTGAAAAT
196 TCATTACATGCATTTATACATACATTATCTCTTCTGCTCTTTTTAGTTTTAATTTATTTGAAAAT
*
14382409 GAATCTTGTTTTTCATCATTTACATTATTTCATTTGTGTTTTTCAAATTTTGAATATAATTTCGA
261 GAATCTTGTTTTTCATCATTTACATTATTTCATTTGTGTTTTTCAAATTTTGAATATAATTTCAA
*
14382474 GCATGAATTTTCAATAATCATTATGTAATGGATACATGTGTTTGCATTTATGAAAGCATCTTTGT
326 GCATGAATTTTCAATAATCATTACGTAATGGATACATGTGTTTGCATTTATGAAAGCATCTTTGT
14382539 GTGTACATTATTTCATTCGTTTGAGGCAATCCTTACTTTCTTTAGTTATGTACACAATTAAAAAT
391 GTGTACATTATTTCATTCGTTTGAGGCAATCCTTACTTTCTTTAGTTATGTACACAATTAAAAAT
14382604 GAACAATTTTTTAGCATACATGTAATTGTACATATAT
456 GAACAATTTTTTAGCATACATGTAATTGTACATATAT
*
14382641 CTTAAGCTATGTCGATCCCTGGGGTAAAAGATGTTTTCATATTGATCTTATCTTTGTTGATATTT
1 CTTAAGCTATGTCGATCCCTGAGGTAAAAGATGTTTTCATATTGATCTTATCTTTGTTGATATTT
14382706 TTATTTTTTATTGAGATAACTTTGGCAATTTAAATTTATGGAGAAATTTTCCAAAAAGA-TTTTT
66 TTATTTTTTATTGAGATAACTTTGGCAATTTAAATTTATGGAGAAATTTTCCAAAAAGATTTTTT
14382770 TATTTTAATGGAAGGATGTGAGATTTTGAGTTGATTTTTTTTTTTTTGCATCATATGTTCTTGTT
131 TATTTTAATGGAAGGATGTGAGATTTTGAGTTGATTTTTTTTTTTTTGCATCATATGTTCTTGTT
14382835 TCATTACATGCATTTATACATACATTATCTCTTCTGCTCTTTTTAGTTTTAATTTATTTGAAAAT
196 TCATTACATGCATTTATACATACATTATCTCTTCTGCTCTTTTTAGTTTTAATTTATTTGAAAAT
14382900 GAATCTTGTTTTTCATCATTTACATTATTTCATTTGTGTTTTTCAAATTTTGAATATAATTTCAA
261 GAATCTTGTTTTTCATCATTTACATTATTTCATTTGTGTTTTTCAAATTTTGAATATAATTTCAA
*
14382965 GCATGAATTTTCAATAATCGTTACGTAATGGATACATGTGTTTGCATTTATGAAAGCATCTTTGT
326 GCATGAATTTTCAATAATCATTACGTAATGGATACATGTGTTTGCATTTATGAAAGCATCTTTGT
* *
14383030 GTGTACATTATTTCATTCGTTTGAGGCAATCTTTACTTTCTTTTGTTATGTACACAATTAAAAAT
391 GTGTACATTATTTCATTCGTTTGAGGCAATCCTTACTTTCTTTAGTTATGTACACAATTAAAAAT
*
14383095 GAACAATTTTTTGGCATACATGTAATTGTACATATAT
456 GAACAATTTTTTAGCATACATGTAATTGTACATATAT
14383132 CTT
1 CTT
14383135 TTAATCCATG
Statistics
Matches: 487, Mismatches: 7, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
491 364 0.75
492 123 0.25
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (492 bp):
CTTAAGCTATGTCGATCCCTGAGGTAAAAGATGTTTTCATATTGATCTTATCTTTGTTGATATTT
TTATTTTTTATTGAGATAACTTTGGCAATTTAAATTTATGGAGAAATTTTCCAAAAAGATTTTTT
TATTTTAATGGAAGGATGTGAGATTTTGAGTTGATTTTTTTTTTTTTGCATCATATGTTCTTGTT
TCATTACATGCATTTATACATACATTATCTCTTCTGCTCTTTTTAGTTTTAATTTATTTGAAAAT
GAATCTTGTTTTTCATCATTTACATTATTTCATTTGTGTTTTTCAAATTTTGAATATAATTTCAA
GCATGAATTTTCAATAATCATTACGTAATGGATACATGTGTTTGCATTTATGAAAGCATCTTTGT
GTGTACATTATTTCATTCGTTTGAGGCAATCCTTACTTTCTTTAGTTATGTACACAATTAAAAAT
GAACAATTTTTTAGCATACATGTAATTGTACATATAT
Found at i:14384243 original size:11 final size:11
Alignment explanation
Indices: 14384224--14384270 Score: 69
Period size: 11 Copynumber: 4.2 Consensus size: 11
14384214 CATGAATTGC
14384224 AAAAA-AAAAA
1 AAAAAGAAAAA
14384234 AAAAAGAAAAA
1 AAAAAGAAAAA
14384245 AAAAAGAAAAA
1 AAAAAGAAAAA
14384256 AAAAGATGAAAAA
1 AAAA-A-GAAAAA
14384269 AA
1 AA
14384271 TAGTTGATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.15
11 20 0.59
12 1 0.03
13 8 0.24
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAA
Done.