Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 47 of 106
Found at i:8179256 original size:83 final size:83
Alignment explanation
Indices: 8179151--8179325 Score: 192
Period size: 83 Copynumber: 2.1 Consensus size: 83
8179141 TCTTTGTACC
* * *
8179151 TAAAACAGATTTAGTTCAAAAGACATACAAATCCTACTC-AGAAGACTTAAAGACTATGCCCAGA
1 TAAAACAAATTTAGCTCAAAAGACATACAAATCCTACTCGA-AAAACTTAAAGACTATG-CCAGA
*
8179215 GGTCTTATAAGTCTCAAC-T
64 GGTCTTACAAGTCTCAACAT
* ** *** * *
8179234 TAAAACAAATTTAGCTCGAAAGATTTTTGAATCTTATTCGAAAAACTTAAAGACTATGCCAGAGG
1 TAAAACAAATTTAGCTCAAAAGACATACAAATCCTACTCGAAAAACTTAAAGACTATGCCAGAGG
**
8179299 TCTTACAAGTCTTGACAT
66 TCTTACAAGTCTCAACAT
8179317 TAAAACAAA
1 TAAAACAAA
8179326 CACTAATCAT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
82 20 0.26
83 55 0.72
84 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (83 bp):
TAAAACAAATTTAGCTCAAAAGACATACAAATCCTACTCGAAAAACTTAAAGACTATGCCAGAGG
TCTTACAAGTCTCAACAT
Found at i:8179501 original size:40 final size:40
Alignment explanation
Indices: 8179457--8179590 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 40
8179447 ACTAGAAGGT
* *
8179457 CTTGGAAATTATTCTAAAATTTAAAATTCTACTCGGAAGC
1 CTTGGAAATCATTCTAAAATTTAAAATTCTACTCGAAAGC
* ** * * * * *
8179497 CTTGGGAATCATTAAAAAAGTCTGAAGTTCTA-TCAAAAGT
1 CTTGGAAATCATTCTAAAA-TTTAAAATTCTACTCGAAAGC
* *
8179537 CTTGGAAATCATTCTTGAAATTTAAAATTCTAC-CTGAAAAC
1 CTTGGAAATCATTC-TAAAATTTAAAATTCTACTC-GAAAGC
8179578 CTTGGAAATCATT
1 CTTGGAAATCATT
8179591 AAAAAATCTA
Statistics
Matches: 70, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
40 42 0.60
41 28 0.40
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (40 bp):
CTTGGAAATCATTCTAAAATTTAAAATTCTACTCGAAAGC
Found at i:8179620 original size:81 final size:80
Alignment explanation
Indices: 8179451--8179626 Score: 205
Period size: 81 Copynumber: 2.2 Consensus size: 80
8179441 GGTCCTACTA
* * * *
8179451 GAAGGTCTTGGAAATTATTCTAAAATTTAAAATTCTACTCGGAAGCCTTGGGAATCATTAAAAAA
1 GAAGGTCTTGGAAATCATTCTAAAATTTAAAATTCTACTCGAAAACCTTGGAAATCATTAAAAAA
8179516 GTCTGAAGTTCTATC
66 GTCTGAAGTTCTATC
* * *
8179531 AAAAGTCTTGGAAATCATTCTTGAAATTTAAAATTCTAC-CTGAAAACCTTGGAAATCATTAAAA
1 GAAGGTCTTGGAAATCATTC-TAAAATTTAAAATTCTACTC-GAAAACCTTGGAAATCATTAAAA
* * *
8179595 AA-TCT-AAGGTTTTGCTT
64 AAGTCTGAA-GTTCT-ATC
8179612 GAAGGTCTTGGAAAT
1 GAAGGTCTTGGAAAT
8179627 AATTTGAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.03
80 25 0.31
81 53 0.66
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (80 bp):
GAAGGTCTTGGAAATCATTCTAAAATTTAAAATTCTACTCGAAAACCTTGGAAATCATTAAAAAA
GTCTGAAGTTCTATC
Found at i:8179793 original size:40 final size:40
Alignment explanation
Indices: 8179712--8179802 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
8179702 CAAGAGGCCA
** **
8179712 TGGAAATCATTCAAAATTTTAAAATTTCTTTCAAAGTTCT
1 TGGAAATTTTTCAAAATTTTAAAATTTCTGCCAAAGTTCT
8179752 TGGAAATTTTTCAAAATTTTAAAATTT-TGCCTAGAAG-TCT
1 TGGAAATTTTTCAAAATTTTAAAATTTCTGCC-A-AAGTTCT
*
8179792 TGGAATTTTTT
1 TGGAAATTTTT
8179803 AAGGTTTTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
39 2 0.05
40 39 0.89
41 3 0.07
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (40 bp):
TGGAAATTTTTCAAAATTTTAAAATTTCTGCCAAAGTTCT
Found at i:8179947 original size:40 final size:37
Alignment explanation
Indices: 8179868--8179978 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 37
8179858 GGTTTTCCCC
* *
8179868 TAAGGCCTTGAAAATCATTT-AAAAATTTAAAATTTTGCT
1 TAAGGTCTT-AAAATC-TTTCAAAAATTTAAAA-TATGCT
*
8179907 TGAAGGTCTTAAAAATCTTTCAAAATTTTGAAAATATGCT
1 T-AAGGTCTT-AAAATCTTTCAAAAATTT-AAAATATGCT
* *
8179947 TATAGGTCCTGAAATCTTTCAAAAATTTAAAA
1 TA-AGGTCTTAAAATCTTTCAAAAATTTAAAA
8179979 ATCTACCCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
38 4 0.07
39 21 0.34
40 32 0.52
41 4 0.07
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (37 bp):
TAAGGTCTTAAAATCTTTCAAAAATTTAAAATATGCT
Found at i:8180052 original size:41 final size:41
Alignment explanation
Indices: 8179948--8180099 Score: 152
Period size: 40 Copynumber: 3.8 Consensus size: 41
8179938 AAATATGCTT
* *
8179948 ATAGGTCCTGAAA-TCTTTCAAAAATTTAAAAA-TCTACCC
1 ATAGGTCTTGAAATTCTTTTAAAAATTTAAAAATTCTACCC
* * * * * *
8179987 AAAAGTCTTGCAATTATTTCAAAATTTTAAAAATTCTA-CC
1 ATAGGTCTTGAAATTCTTTTAAAAATTTAAAAATTCTACCC
* *
8180027 ATAGGTCTTAAAATTCTTTTAAAAATTTAAAGATTCTATCCC
1 ATAGGTCTTGAAATTCTTTTAAAAATTTAAAAATTCTA-CCC
*
8180069 A-AGGTCTTGAAATT-TTTTCACAAATTTAAAA
1 ATAGGTCTTGAAATTCTTTT-AAAAATTTAAAA
8180100 GTTCCCTCTA
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 9 0.10
40 53 0.58
41 26 0.29
42 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (41 bp):
ATAGGTCTTGAAATTCTTTTAAAAATTTAAAAATTCTACCC
Found at i:8180097 original size:81 final size:79
Alignment explanation
Indices: 8179948--8180099 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 79
8179938 AAATATGCTT
* *
8179948 ATAGGTCCTGAAATCTTTCAAAAATTTAAAAATCTACCCAAAAGTCTTGCAATTATTTCAAAATT
1 ATAGGTCCTAAAATCTTTCAAAAATTTAAAAATCTACCCAAAAGTCTTGAAATTATTTCAAAATT
8180013 TTAAAAATTCTACC
66 TTAAAAATTCTACC
* * * * *
8180027 ATAGGTCTTAAAATTCTTTTAAAAATTTAAAGATTCTATCCC-AAGGTCTTGAAATTTTTTCACA
1 ATAGGTCCTAAAA-TCTTTCAAAAATTTAAA-AATCTA-CCCAAAAGTCTTGAAATTATTTCA-A
8180091 AA-TTTAAAA
62 AATTTTAAAA
8180100 GTTCCCTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
79 11 0.18
80 16 0.26
81 29 0.47
82 6 0.10
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (79 bp):
ATAGGTCCTAAAATCTTTCAAAAATTTAAAAATCTACCCAAAAGTCTTGAAATTATTTCAAAATT
TTAAAAATTCTACC
Found at i:8182624 original size:37 final size:37
Alignment explanation
Indices: 8182576--8182752 Score: 150
Period size: 37 Copynumber: 4.8 Consensus size: 37
8182566 AATAAGGTTG
*
8182576 ATACTA-CTATTAAGATGTGCATGAGATGGAATAAAT
1 ATACTATCTATTAAGATGTGCATGAAATGGAATAAAT
*
8182612 ATACTATCTATTAAGATGTGCATGAAATGGAATACACT
1 ATACTATCTATTAAGATGTGCATGAAATGGAATA-AAT
* * * * * *
8182650 -TA-TGTCTATTATGATGTACAT-AGGATGGACTACAT
1 ATACTATCTATTAAGATGTGCATGA-AATGGAATAAAT
* * * *
8182685 GTATTATCTATTTAGATGTGCATGAAAT-GAATTACAT
1 ATACTATCTATTAAGATGTGCATGAAATGGAA-TAAAT
* *
8182722 ATACTACCCATTAAGATGT-CTATGAAATGGA
1 ATACTATCTATTAAGATGTGC-ATGAAATGGA
8182753 GTGTATGTAC
Statistics
Matches: 112, Mismatches: 20, Indels: 16
0.76 0.14 0.11
Matches are distributed among these distances:
35 2 0.02
36 34 0.30
37 71 0.63
38 5 0.04
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (37 bp):
ATACTATCTATTAAGATGTGCATGAAATGGAATAAAT
Found at i:8184948 original size:19 final size:18
Alignment explanation
Indices: 8184926--8185049 Score: 61
Period size: 19 Copynumber: 6.4 Consensus size: 18
8184916 AGGGTTTAGG
8184926 TTAGGGTTTAAGATTTGGT
1 TTAGGGTTTAAG-TTTGGT
** *
8184945 TTAGTATTTCAGGTTTGGT
1 TTAGGGTTT-AAGTTTGGT
*
8184964 TTA-GGTTTTAGTTTAGGGT
1 TTAGGGTTTAAGTTT--GGT
* * *
8184983 TAAGGGTTTTTAAGGTTGAT
1 TTAGGG--TTTAAGTTTGGT
*
8185003 TTGGGGTTTAAGGTTTGGT
1 TTAGGGTTTAA-GTTTGGT
** *
8185022 TTAAAGTTTAAGGTTTTAGT
1 TTAGGGTTTAA-G-TTTGGT
8185042 TTAGGGTT
1 TTAGGGTT
8185050 AAAGGTTTTT
Statistics
Matches: 76, Mismatches: 21, Indels: 15
0.68 0.19 0.13
Matches are distributed among these distances:
17 4 0.05
18 8 0.11
19 36 0.47
20 21 0.28
22 7 0.09
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (18 bp):
TTAGGGTTTAAGTTTGGT
Found at i:8185043 original size:66 final size:65
Alignment explanation
Indices: 8184962--8185090 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 65
8184952 TTCAGGTTTG
*
8184962 GTTTAGGTTTTAGTTTAGGGTTAAGGGTTTTTAAGGTTGATTTGGGGTTTAAGGTTTGGTTTAAA
1 GTTTAGGTTTTAGTTTAGGGTTAAAGGTTTTTAAGGTTGATTTGGGGTTTAAGGTTTGGTTTAAA
8185027 GTTTAAGGTTTTAGTTTAGGGTTAAAGGTTTTTAAGGTTGATTTGGGGTTTAAGGTTTGGTTTA
1 GTTT-AGGTTTTAGTTTAGGGTTAAAGGTTTTTAAGGTTGATTTGGGGTTTAAGGTTTGGTTTA
8185091 GGTTTTTATT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 4 0.06
66 58 0.94
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (65 bp):
GTTTAGGTTTTAGTTTAGGGTTAAAGGTTTTTAAGGTTGATTTGGGGTTTAAGGTTTGGTTTAAA
Found at i:8185125 original size:43 final size:46
Alignment explanation
Indices: 8185072--8185159 Score: 119
Period size: 48 Copynumber: 1.9 Consensus size: 46
8185062 GGTTGATTTG
* *
8185072 GGGTTTAAGG-T-T-TGGTTTAGGTTTTTATTAGTGGTTTAGGTTA
1 GGGTTTAAGGTTATGTGGTTTAGGGTTTTATTAGTGATTTAGGTTA
8185115 GGGTTTAAGGTTTATGGTGGTTTAGGGTTTTATTAGTGATTTAGG
1 GGGTTTAAGG-TTAT-GTGGTTTAGGGTTTTATTAGTGATTTAGG
8185160 GTTTGGAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
43 10 0.26
45 1 0.03
46 1 0.03
48 26 0.68
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (46 bp):
GGGTTTAAGGTTATGTGGTTTAGGGTTTTATTAGTGATTTAGGTTA
Found at i:8185128 original size:19 final size:19
Alignment explanation
Indices: 8184913--8185057 Score: 59
Period size: 19 Copynumber: 7.5 Consensus size: 19
8184903 GAGGTTTAAA
*
8184913 TTTAGGGTTTAGGTTAGGG
1 TTTAAGGTTTAGGTTAGGG
* **
8184932 TTTAAGATTT-GGTTTAGTA
1 TTTAAGGTTTAGG-TTAGGG
*
8184951 TTTCAGGTTT-GGTTTA-GG
1 TTTAAGGTTTAGG-TTAGGG
*
8184969 TTTTA-GTTTAGGGTTAAGGG
1 TTTAAGGTTTA-GGTT-AGGG
* * *
8184989 TTTTTAAGGTTGA-TTTGGGG
1 --TTTAAGGTTTAGGTTAGGG
**
8185009 TTTAAGGTTT-GGTTTAAAG
1 TTTAAGGTTTAGG-TTAGGG
*
8185028 TTTAAGGTTTTAGTTTAGGG
1 TTTAAGG-TTTAGGTTAGGG
*
8185048 TTAAAGGTTT
1 TTTAAGGTTT
8185058 TTAAGGTTGA
Statistics
Matches: 92, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
17 4 0.04
18 17 0.18
19 42 0.46
20 18 0.20
21 3 0.03
22 4 0.04
23 4 0.04
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (19 bp):
TTTAAGGTTTAGGTTAGGG
Found at i:8185194 original size:19 final size:18
Alignment explanation
Indices: 8185116--8185258 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 18
8185106 TTTAGGTTAG
*
8185116 GGTTTAAGGTTTATGG-T
1 GGTTTAGGGTTTATGGTT
*
8185133 GGTTTAGGGTTTTATTAG-T
1 GGTTTAGGG-TTTA-TGGTT
* *
8185152 GATTTAGGGTTTGGA-GGGT
1 GGTTTAGGGTTT--ATGGTT
8185171 GGTTTTAGGGTTTATGGTT
1 GG-TTTAGGGTTTATGGTT
*
8185190 GGTTTAGGGTTTCATGGGT
1 GGTTTAGGGTTT-ATGGTT
* **
8185209 GGTTTAGAGTTTCATGAAT
1 GGTTTAGGGTTT-ATGGTT
* ***
8185228 GGTTTAGGATTTCATCAAT
1 GGTTTAGGGTTT-ATGGTT
8185247 GGTTTAGGGTTT
1 GGTTTAGGGTTT
8185259 TATCGATGGA
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
17 8 0.08
18 19 0.18
19 66 0.63
20 11 0.11
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (18 bp):
GGTTTAGGGTTTATGGTT
Found at i:8185231 original size:57 final size:55
Alignment explanation
Indices: 8185116--8185258 Score: 126
Period size: 57 Copynumber: 2.5 Consensus size: 55
8185106 TTTAGGTTAG
* * * * * **
8185116 GGTTTAAGGTTTATGGTGGTTTAGGGTTTTATTAGTGATTTAGGGTTTGGAGGGT
1 GGTTTAGGGTTTATGGTGGTTTAGGGTTTCATGAGTGATTTAGAGTTTGCAGAAT
* *
8185171 GGTTTTAGGGTTTATGGTTGGTTTAGGGTTTCATGGGTGGTTTAGAGTTT-CATGAAT
1 GG-TTTAGGGTTTATGG-TGGTTTAGGGTTTCATGAGTGATTTAGAGTTTGCA-GAAT
* **
8185228 GGTTTAGGATTTCATCAATGGTTTAGGGTTT
1 GGTTTAGGGTTT-AT-GGTGGTTTAGGGTTT
8185259 TATCGATGGA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
55 2 0.03
56 23 0.32
57 46 0.65
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (55 bp):
GGTTTAGGGTTTATGGTGGTTTAGGGTTTCATGAGTGATTTAGAGTTTGCAGAAT
Found at i:8185267 original size:19 final size:19
Alignment explanation
Indices: 8185174--8185267 Score: 93
Period size: 19 Copynumber: 5.0 Consensus size: 19
8185164 GGAGGGTGGT
* *
8185174 TTTAGGGTTT-ATGGTTGG
1 TTTAGGGTTTCATCGATGG
* *
8185192 TTTAGGGTTTCATGGGTGG
1 TTTAGGGTTTCATCGATGG
*
8185211 TTTAGAGTTTCAT-GAATGG
1 TTTAGGGTTTCATCG-ATGG
* *
8185230 TTTAGGATTTCATCAATGG
1 TTTAGGGTTTCATCGATGG
*
8185249 TTTAGGGTTTTATCGATGG
1 TTTAGGGTTTCATCGATGG
8185268 AGGGTGGTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
18 11 0.17
19 53 0.83
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (19 bp):
TTTAGGGTTTCATCGATGG
Found at i:8185282 original size:12 final size:12
Alignment explanation
Indices: 8185265--8185289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8185255 GTTTTATCGA
8185265 TGGAGGGTGGTT
1 TGGAGGGTGGTT
8185277 TGGAGGGTGGTT
1 TGGAGGGTGGTT
8185289 T
1 T
8185290 AGAGTTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.56, T:0.36
Consensus pattern (12 bp):
TGGAGGGTGGTT
Found at i:8185315 original size:38 final size:37
Alignment explanation
Indices: 8185116--8185315 Score: 113
Period size: 38 Copynumber: 5.3 Consensus size: 37
8185106 TTTAGGTTAG
* * *
8185116 GGTTTAAGGTTT-ATGGTGGTTTAGGGTTTTATTAGT
1 GGTTTAAGGTTTCAGGGTGGTTTAGGGTTTCATGAGT
* * *
8185152 GATTTAGGGTTTGGAGGGTGGTTTTAGGGTTT-ATG-GTT
1 GGTTTAAGGTTT-CAGGGTGG-TTTAGGGTTTCATGAG-T
* * *
8185190 GGTTTAGGGTTTCATGGGTGGTTTAGAGTTTCATGAAT
1 GGTTTAAGGTTTCA-GGGTGGTTTAGGGTTTCATGAGT
*** *
8185228 GGTTT-AGGATTTCATCAATGGTTTAGGGTTTTATCGA-T
1 GGTTTAAGG-TTTCA-GGGTGGTTTAGGGTTTCAT-GAGT
***** * *
8185266 GGAGGGTGGTTTGGAGGGTGGTTTAGAGTTTCATGAGT
1 GGTTTAAGGTTT-CAGGGTGGTTTAGGGTTTCATGAGT
8185304 GGTTTAAGGTTT
1 GGTTTAAGGTTT
8185316 TGAATTTAAG
Statistics
Matches: 123, Mismatches: 29, Indels: 22
0.71 0.17 0.13
Matches are distributed among these distances:
36 10 0.08
37 15 0.12
38 83 0.67
39 15 0.12
ACGTcount: A:0.17, C:0.03, G:0.36, T:0.43
Consensus pattern (37 bp):
GGTTTAAGGTTTCAGGGTGGTTTAGGGTTTCATGAGT
Found at i:8189460 original size:20 final size:20
Alignment explanation
Indices: 8189431--8189469 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8189421 AAAATTCAAC
*
8189431 TTAAAGTTAAAACCAAAATT
1 TTAAAATTAAAACCAAAATT
8189451 TTAAAATTAAAACCAAAAT
1 TTAAAATTAAAACCAAAAT
8189470 CAATATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (20 bp):
TTAAAATTAAAACCAAAATT
Found at i:8191162 original size:16 final size:16
Alignment explanation
Indices: 8191134--8191186 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
8191124 TAAGGTCATT
*
8191134 TTTTA-ATTCAAATCA
1 TTTTAGATTTAAATCA
* *
8191149 TTTTGGATTTAAATGA
1 TTTTAGATTTAAATCA
* *
8191165 TTGTAGATTTAAATTA
1 TTTTAGATTTAAATCA
8191181 TTTTAG
1 TTTTAG
8191187 GTTCATGTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (16 bp):
TTTTAGATTTAAATCA
Found at i:8193387 original size:15 final size:13
Alignment explanation
Indices: 8193358--8193390 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
8193348 TACTTGATAA
8193358 AAAAATTTTTAAG
1 AAAAATTTTTAAG
8193371 AAAAATTTTTAAG
1 AAAAATTTTTAAG
8193384 AGAAAAT
1 A-AAAAT
8193391 GAATTATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (13 bp):
AAAAATTTTTAAG
Found at i:8204503 original size:2 final size:2
Alignment explanation
Indices: 8204496--8204525 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8204486 CTACCAATTG
8204496 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8204526 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8204530 original size:2 final size:2
Alignment explanation
Indices: 8204525--8204550 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8204515 TCTCTCTCTC
8204525 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8204551 AAACAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8205580 original size:83 final size:83
Alignment explanation
Indices: 8205422--8205653 Score: 197
Period size: 83 Copynumber: 2.8 Consensus size: 83
8205412 ATAAAATAAA
* *
8205422 ATATTAATTTAATATAAATAAATATTAATTTAATTATATTAAATATTAATTAATAATATTTTATG
1 ATATTAATTTAATATAAATAAATATTAATTTAATTATATTAAATATTAATTAATAATATTTAATA
*
8205487 CTAACTTAATAGTATTCT
66 CTAACTTAATAATATTCT
* * * * *
8205505 ATATTAATTTAATATTACTCAATATT-ATTGTAA-TATTATTAACTATTAATTTCATAATA-TTA
1 ATATTAATTTAATATAAATAAATATTAATT-TAATTA-TATTAAATATTAA-TTAATAATATTTA
* **
8205567 ACTACTATC-TAATAATATTAA
63 A-TACTAACTTAATAATATTCT
* * * * * * *
8205588 ATATT-ATTGAACA-ATATTAAACATTAGTTTAATAATATTAAATATTCAATTTAATAATATTAA
1 ATATTAATTTAATATA-AATAAATATTAATTTAATTATATTAAATATT-AA-TTAATAATATTTA
8205651 ATA
63 ATA
8205654 TTGATTAAAT
Statistics
Matches: 118, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
82 31 0.26
83 71 0.60
84 16 0.14
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (83 bp):
ATATTAATTTAATATAAATAAATATTAATTTAATTATATTAAATATTAATTAATAATATTTAATA
CTAACTTAATAATATTCT
Found at i:8205586 original size:41 final size:41
Alignment explanation
Indices: 8205420--8205650 Score: 128
Period size: 41 Copynumber: 5.6 Consensus size: 41
8205410 TCATAAAATA
* * * * * * *
8205420 AAATATTAATTTAATATAAATAAATATTAATTTAATTATATT
1 AAATATTAATTTAATA-ATATTAACACTAGTCTAATAATATT
* ** * *
8205462 AAATATTAA-TTAATAATATTTTATGCTA-ACTTAATAGTATT
1 AAATATTAATTTAATAATA-TTAACACTAGTC-TAATAATATT
** * * * * * * *
8205503 CTATATTAATTTAATATTACTCAATATTATTGTAATATTATT
1 AAATATTAATTTAATAATA-TTAACACTAGTCTAATAATATT
* *
8205545 AACTATTAATTTCATAATATTAACTACTA-TCTAATAATATT
1 AAATATTAATTTAATAATATTAAC-ACTAGTCTAATAATATT
* * * *
8205586 AAATATT-ATTGAACAATATTAAACATTAGTTTAATAATATT
1 AAATATTAATTTAATAATATT-AACACTAGTCTAATAATATT
8205627 AAATATTCAATTTAATAATATTAA
1 AAATATT-AATTTAATAATATTAA
8205651 ATATTGATTA
Statistics
Matches: 142, Mismatches: 38, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
40 15 0.11
41 66 0.46
42 50 0.35
43 11 0.08
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (41 bp):
AAATATTAATTTAATAATATTAACACTAGTCTAATAATATT
Found at i:8205595 original size:10 final size:10
Alignment explanation
Indices: 8205505--8205676 Score: 78
Period size: 10 Copynumber: 16.5 Consensus size: 10
8205495 ATAGTATTCT
*
8205505 ATATTAATTTA
1 ATATT-ATTAA
* *
8205516 ATATTACTCA
1 ATATTATTAA
*
8205526 ATATTATTGTA
1 ATATTATT-AA
8205537 ATATTATTAA
1 ATATTATTAA
* **
8205547 CTATTAATTTC
1 ATATT-ATTAA
*
8205558 ATAATATTAA
1 ATATTATTAA
* *
8205568 CTACTATCT-A
1 ATATTAT-TAA
*
8205578 ATAATATTAA
1 ATATTATTAA
*
8205588 ATATTATTGA
1 ATATTATTAA
* *
8205598 ACAATATTAA
1 ATATTATTAA
* *
8205608 ACATTAGTTTA
1 ATATTA-TTAA
*
8205619 ATAATATTAA
1 ATATTATTAA
*
8205629 ATATTCAATTTA
1 ATATT--ATTAA
*
8205641 ATAATATTAA
1 ATATTATTAA
8205651 ATATTGATTAA
1 ATATT-ATTAA
8205662 ATAATT-TTAA
1 AT-ATTATTAA
8205672 ATATT
1 ATATT
8205677 TTTTTATTTT
Statistics
Matches: 121, Mismatches: 31, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
9 4 0.03
10 71 0.59
11 35 0.29
12 11 0.09
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (10 bp):
ATATTATTAA
Found at i:8205666 original size:21 final size:20
Alignment explanation
Indices: 8205353--8205676 Score: 192
Period size: 21 Copynumber: 15.8 Consensus size: 20
8205343 ATAATTTAAT
8205353 ATAATTATTAAATATTA-TTA
1 ATAA-TATTAAATATTATTTA
* *
8205373 ATTAATCTTAAATATTA-AT-
1 A-TAATATTAAATATTATTTA
* *
8205392 AT-TTCATT-AATATTAATTTC
1 ATAAT-ATTAAATATT-ATTTA
* *
8205412 ATAAAATAAAATATTAATTTA
1 ATAATATTAAATATT-ATTTA
*
8205433 AT-ATAAATAAATATTAATTTA
1 ATAAT-ATTAAATATT-ATTTA
* *
8205454 ATTATATTAAATATTAATTA
1 ATAATATTAAATATTATTTA
** * * *
8205474 ATAATATTTTATGCTAACTTA
1 ATAATATTAAAT-ATTATTTA
* **
8205495 ATAGTATTCTATATTAATTTA
1 ATAATATTAAATATT-ATTTA
* * *
8205516 ATATTACTCAATATTATTGTA
1 ATAATATTAAATATTATT-TA
* * *
8205537 ATATTATTAACTATTAATTTC
1 ATAATATTAAATATT-ATTTA
* * *
8205558 ATAATATTAACTACTATCTA
1 ATAATATTAAATATTATTTA
*
8205578 ATAATATTAAATATTATTGA
1 ATAATATTAAATATTATTTA
* *
8205598 ACAATATTAAACATTAGTTTA
1 ATAATATTAAATATTA-TTTA
8205619 ATAATATTAAATATTCAATTTA
1 ATAATATTAAATATT--ATTTA
*
8205641 ATAATATTAAATATTGATTAA
1 ATAATATTAAATATT-ATTTA
*
8205662 ATAATTTTAAATATT
1 ATAATATTAAATATT
8205677 TTTTTATTTT
Statistics
Matches: 240, Mismatches: 48, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
17 7 0.03
18 4 0.02
19 2 0.01
20 68 0.28
21 134 0.56
22 24 0.10
23 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAATATTAAATATTATTTA
Found at i:8206592 original size:23 final size:23
Alignment explanation
Indices: 8206566--8206614 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
8206556 TTTGAAAAAT
* *
8206566 ATATTTTAGCAAAAGTGTTTAGA
1 ATATTTGAGCAAAAGTGTCTAGA
8206589 ATATTTGAGCAAAAGTGTCTAGA
1 ATATTTGAGCAAAAGTGTCTAGA
8206612 ATA
1 ATA
8206615 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (23 bp):
ATATTTGAGCAAAAGTGTCTAGA
Found at i:8207528 original size:12 final size:12
Alignment explanation
Indices: 8207505--8207542 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8207495 ATAATCACAA
8207505 TAAATA-TTAAT
1 TAAATATTTAAT
8207516 TAAATATTTAAT
1 TAAATATTTAAT
*
8207528 TAAATCTCTTAAT
1 TAAATAT-TTAAT
8207541 TA
1 TA
8207543 TCATCAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 6 0.25
12 11 0.46
13 7 0.29
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (12 bp):
TAAATATTTAAT
Found at i:8210311 original size:20 final size:20
Alignment explanation
Indices: 8210286--8210334 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
8210276 AGATGTCCAT
*
8210286 CATGAAGATGTCTTTAAAGA
1 CATGAAAATGTCTTTAAAGA
8210306 CATGAAAATGTCTTTAAAGA
1 CATGAAAATGTCTTTAAAGA
8210326 CATGAAAAT
1 CATGAAAAT
8210335 TATTAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGAAAATGTCTTTAAAGA
Found at i:8217051 original size:107 final size:107
Alignment explanation
Indices: 8216926--8217130 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 107
8216916 ACTTTTCATA
**
8216926 TTTTTAATTTAAAATTTCATTGCCTTTGGTCAAACA-AGCTATTTAAAGTCTT-A-TAGCCTCTG
1 TTTTTAATTTAAAATTTCATAACCTTTGGTCAAA-AGAGCTATTTAAAGT-TTCATTA-CCTCTG
*
8216988 GTCAGAA-AAG-TCATTTAAAGTTTCATA-CCTTTAGTTAGAATAGT
63 GTCA-AATAAGCT-ATTTAAAGTCTCATAGCCTTTAGTTAGAATAGT
* * *
8217032 TTTTTAAATTTAAAGTTTCATAACCTTTGGTTAAAAGAGCTATTTAAAGTTTCATTACCTTTGGT
1 TTTTT-AATTTAAAATTTCATAACCTTTGGTCAAAAGAGCTATTTAAAGTTTCATTACCTCTGGT
8217097 CAAATAAGCTATTTAAAGTCTCATAGCCTTTAGT
65 CAAATAAGCTATTTAAAGTCTCATAGCCTTTAGT
8217131 CAAATGAGCT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
106 10 0.12
107 65 0.76
108 11 0.13
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (107 bp):
TTTTTAATTTAAAATTTCATAACCTTTGGTCAAAAGAGCTATTTAAAGTTTCATTACCTCTGGTC
AAATAAGCTATTTAAAGTCTCATAGCCTTTAGTTAGAATAGT
Found at i:8217078 original size:40 final size:39
Alignment explanation
Indices: 8217000--8217079 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
8216990 CAGAAAAGTC
* * * *
8217000 ATTTAAAGTTTCATACCTTTAGTTAGAATAGTTTTTTAA
1 ATTTAAAGTTTCATACCTTTAGTTAAAAGAGCTATTTAA
*
8217039 ATTTAAAGTTTCATAACCTTTGGTTAAAAGAGCTATTTAA
1 ATTTAAAGTTTCAT-ACCTTTAGTTAAAAGAGCTATTTAA
8217079 A
1 A
8217080 GTTTCATTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 14 0.40
40 21 0.60
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (39 bp):
ATTTAAAGTTTCATACCTTTAGTTAAAAGAGCTATTTAA
Found at i:8217135 original size:34 final size:34
Alignment explanation
Indices: 8216932--8217145 Score: 156
Period size: 34 Copynumber: 6.2 Consensus size: 34
8216922 CATATTTTTA
* * *
8216932 ATTTAAAATTTCATTGCCTTTGGTCAAACAAGCT
1 ATTTAAAGTTTCATAGCCTTTGGTCAAATAAGCT
*
8216966 ATTTAAAGTCTT-ATAGCCTCTGGTCAGAA-AAG-T
1 ATTTAAAGT-TTCATAGCCTTTGGTCA-AATAAGCT
* * *
8216999 CATTTAAAGTTTCATA-CCTTTAGTTAGAAT-AGTTTTTT
1 -ATTTAAAGTTTCATAGCCTTTGGTCA-AATAAG----CT
* *
8217037 AAATTTAAAGTTTCATAACCTTTGGTTAAA-AGAGCT
1 --ATTTAAAGTTTCATAGCCTTTGGTCAAATA-AGCT
8217073 ATTTAAAGTTTCATTA-CCTTTGGTCAAATAAGCT
1 ATTTAAAGTTTCA-TAGCCTTTGGTCAAATAAGCT
* * *
8217107 ATTTAAAGTCTCATAGCCTTTAGTCAAATGAGCT
1 ATTTAAAGTTTCATAGCCTTTGGTCAAATAAGCT
8217141 -TTTAA
1 ATTTAA
8217146 TTTTAAAAGC
Statistics
Matches: 150, Mismatches: 13, Indels: 35
0.76 0.07 0.18
Matches are distributed among these distances:
33 22 0.15
34 91 0.61
35 7 0.05
36 1 0.01
38 1 0.01
39 17 0.11
40 11 0.07
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (34 bp):
ATTTAAAGTTTCATAGCCTTTGGTCAAATAAGCT
Found at i:8217144 original size:107 final size:107
Alignment explanation
Indices: 8216926--8217153 Score: 254
Period size: 107 Copynumber: 2.1 Consensus size: 107
8216916 ACTTTTCATA
* **
8216926 TTTTTAATTTAAAATTTCATTGCCTTTGGTCAAACAAGCTATTTAAAGTCTTATAGCCTCTGGTC
1 TTTTAAATTTAAAATTTCATAACCTTTGGTCAAACAAGCTATTTAAAGTCTTATAGCCTCTGGTC
* * *
8216991 AGAAAAGTCATTTAAAGTTTCATACCTTTAGTTAGAATAGTT
66 AGAAAAGTCATTTAAAGTCTCATACCTTTAGTCAGAATAGTC
* * *
8217033 TTTTAAATTTAAAGTTTCATAACCTTTGGTTAAA-AGAGCTATTTAAAGT-TTCATTA-CCTTTG
1 TTTTAAATTTAAAATTTCATAACCTTTGGTCAAACA-AGCTATTTAAAGTCTT-A-TAGCCTCTG
8217095 GTCA-AATAAG-CTATTTAAAGTCTCATAGCCTTTAGTCA-AATGAG-C
63 GTCAGAA-AAGTC-ATTTAAAGTCTCATA-CCTTTAGTCAGAAT-AGTC
*
8217140 TTTTAATTTTAAAA
1 TTTTAAATTTAAAA
8217154 GCCTCTAGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
106 6 0.06
107 84 0.82
108 13 0.13
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (107 bp):
TTTTAAATTTAAAATTTCATAACCTTTGGTCAAACAAGCTATTTAAAGTCTTATAGCCTCTGGTC
AGAAAAGTCATTTAAAGTCTCATACCTTTAGTCAGAATAGTC
Found at i:8217551 original size:34 final size:34
Alignment explanation
Indices: 8217513--8217838 Score: 194
Period size: 34 Copynumber: 9.5 Consensus size: 34
8217503 CAGAATTTTA
* *
8217513 ATTTAAAGTTTCATTGCCTCTGCTCAGAGTAGCT
1 ATTTAAAGTTTCATTGCCTCTGCTCAGAATAGCC
* * * * *
8217547 ATTTATAGTTTCATTGGCTCTACTTAAAATAGCC
1 ATTTAAAGTTTCATTGCCTCTGCTCAGAATAGCC
** *
8217581 ATTTAAAGTTTCATAACCTCTGCTTA-AATGAGCC
1 ATTTAAAGTTTCATTGCCTCTGCTCAGAAT-AGCC
* * *
8217615 ATTTTAAAGTTTCATTGCCTTTGCTCAAAAGAGCC
1 A-TTTAAAGTTTCATTGCCTCTGCTCAGAATAGCC
** * **
8217650 ATTTAAAGTTTCATTATCTCTACTC-GTAGGAG-C
1 ATTTAAAGTTTCATTGCCTCTGCTCAG-AATAGCC
* * * * * **
8217683 ATTTTAAAAGTGTCATAGCTTTTGGTCA-AATGAGGTT
1 A-TTT-AAAGTTTCATTGCCTCTGCTCAGAAT-A-GCC
* * * *
8217720 TTTTCAAAGTTTCATAGCCTCTACTCAGAAAAGCC
1 ATTT-AAAGTTTCATTGCCTCTGCTCAGAATAGCC
* *
8217755 ATTTAAAGTTTCATTGCCTCTGCTTAG-ATGAGTC
1 ATTTAAAGTTTCATTGCCTCTGCTCAGAAT-AGCC
* * * ** *
8217789 ATTTAAAGTTTCATTACCTATACTCAGAGGAGTC
1 ATTTAAAGTTTCATTGCCTCTGCTCAGAATAGCC
*
8217823 TTTTAAAGTTTCATTG
1 ATTTAAAGTTTCATTG
8217839 TCTTTGGTTA
Statistics
Matches: 221, Mismatches: 58, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
33 6 0.03
34 145 0.66
35 44 0.20
36 24 0.11
37 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (34 bp):
ATTTAAAGTTTCATTGCCTCTGCTCAGAATAGCC
Found at i:8217793 original size:139 final size:139
Alignment explanation
Indices: 8217585--8217854 Score: 334
Period size: 139 Copynumber: 1.9 Consensus size: 139
8217575 ATAGCCATTT
* * * *
8217585 AAAGTTTCATAACCTCTGCTTAAATGAGCCATTTTAAAGTTTCATTGCCTTTGCTCAAAAGAGCC
1 AAAGTTTCATAACCTCTACTCAAATAAGCCATTTTAAAGTTTCATTGCCTCTGCTCAAAAGAGCC
* *
8217650 ATTTAAAGTTTCATTATCTCTACTC-GTAGGAG-CATTTTAAAAGTGTCATAG-CTTTTGGTCAA
66 ATTTAAAGTTTCATTACCTATACTCAG-AGGAGTC-TTTT-AAAGTGTCATAGTC-TTTGGTCAA
8217712 ATGAGGTTTTTTC
127 ATGAGGTTTTTTC
* * * * *
8217725 AAAGTTTCATAGCCTCTACTCAGAA-AAGCCA-TTTAAAGTTTCATTGCCTCTGCTTAGATGAGT
1 AAAGTTTCATAACCTCTACTCA-AATAAGCCATTTTAAAGTTTCATTGCCTCTGCTCAAAAGAGC
* * *
8217788 CATTTAAAGTTTCATTACCTATACTCAGAGGAGTCTTTTAAAGTTTCATTGTCTTTGGTTAAATG
65 CATTTAAAGTTTCATTACCTATACTCAGAGGAGTCTTTTAAAGTGTCATAGTCTTTGGTCAAATG
8217853 AG
130 AG
8217855 CATTTTTAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
138 23 0.21
139 61 0.54
140 26 0.23
141 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (139 bp):
AAAGTTTCATAACCTCTACTCAAATAAGCCATTTTAAAGTTTCATTGCCTCTGCTCAAAAGAGCC
ATTTAAAGTTTCATTACCTATACTCAGAGGAGTCTTTTAAAGTGTCATAGTCTTTGGTCAAATGA
GGTTTTTTC
Found at i:8217854 original size:68 final size:67
Alignment explanation
Indices: 8217513--8217859 Score: 270
Period size: 68 Copynumber: 5.1 Consensus size: 67
8217503 CAGAATTTTA
* * * * * * *
8217513 ATTTAAAGTTTCATTGCCTCTGCTCAGAGTAGCTATTTATAGTTTCATTGGCTCTACTTAAAAT-
1 ATTTAAAGTTTCATTACCTCTACTCAGAGGAGCT-TTTAAAGTTTCATTGCCTTTGCTT-AAATG
8217577 AGCC
64 AGCC
* * * * * * *
8217581 ATTTAAAGTTTCATAACCTCTGCTTAAATGAGCCATTTTAAAGTTTCATTGCCTTTGCTCAAAAG
1 ATTTAAAGTTTCATTACCTCTACTCAGAGGAG-C-TTTTAAAGTTTCATTGCCTTTGCTTAAATG
8217646 AGCC
64 AGCC
* * * * * *
8217650 ATTTAAAGTTTCATTATCTCTACTC-GTAGGAGCATTTTAAAAGTGTCATAGCTTTTGGTCAAAT
1 ATTTAAAGTTTCATTACCTCTACTCAG-AGGAGC-TTTT-AAAGTTTCATTGCCTTTGCTTAAAT
**
8217714 GAGGTT
63 GA-GCC
* ** * * *
8217720 TTTTCAAAGTTTCA-TAGCCTCTACTCAGAAAAGCCATTTAAAGTTTCATTGCCTCTGCTTAGAT
1 ATTT-AAAGTTTCATTA-CCTCTACTCAGAGGAG-CTTTTAAAGTTTCATTGCCTTTGCTTAAAT
*
8217784 GAGTC
63 GAGCC
* * *
8217789 ATTTAAAGTTTCATTACCTATACTCAGAGGAGTCTTTTAAAGTTTCATTGTCTTTGGTTAAATGA
1 ATTTAAAGTTTCATTACCTCTACTCAGAGGAG-CTTTTAAAGTTTCATTGCCTTTGCTTAAATGA
8217854 G-C
65 GCC
8217856 ATTT
1 ATTT
8217860 TTAAAGTGCC
Statistics
Matches: 220, Mismatches: 48, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
67 5 0.02
68 85 0.39
69 78 0.35
70 27 0.12
71 23 0.10
72 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (67 bp):
ATTTAAAGTTTCATTACCTCTACTCAGAGGAGCTTTTAAAGTTTCATTGCCTTTGCTTAAATGAG
CC
Found at i:8217897 original size:47 final size:46
Alignment explanation
Indices: 8217824--8217912 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 46
8217814 AGAGGAGTCT
* * ** *
8217824 TTTAAAGTTTCATTGTCTTTGGTTAAATGAGCATTTTTAAAGTGCCA
1 TTTAAAGTTTCATTGCCTCTACTTAAAAGAG-ATTTTTAAAGTGCCA
*
8217871 TTTAAAGTTTCATTGCCTCTACTTAAAAGAGTTTTTTAAAGT
1 TTTAAAGTTTCATTGCCTCTACTTAAAAGAGATTTTTAAAGT
8217913 TTCATTGCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 10 0.28
47 26 0.72
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (46 bp):
TTTAAAGTTTCATTGCCTCTACTTAAAAGAGATTTTTAAAGTGCCA
Found at i:8217937 original size:34 final size:35
Alignment explanation
Indices: 8217871--8217993 Score: 122
Period size: 35 Copynumber: 3.5 Consensus size: 35
8217861 TAAAGTGCCA
* ** *
8217871 TTTAAAGTTTCATTGCCTCTACTTAAAAGAG-TTT
1 TTTAAAGTTTCATTGCCTTTGGTTAAAGGAGCTTT
* * *
8217905 TTTAAAGTTTCATTGCTTTTGGTCAAAGGAGTTTT
1 TTTAAAGTTTCATTGCCTTTGGTTAAAGGAGCTTT
* * *
8217940 TTTTAAGTTTCATAGCCTTTGGTTAGAGGAGCTATT
1 TTTAAAGTTTCATTGCCTTTGGTTAAAGGAGCT-TT
* *
8217976 TTCAAAGTTTCATAGCCT
1 TTTAAAGTTTCATTGCCT
8217994 CTATTTAGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
34 25 0.34
35 30 0.41
36 18 0.25
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (35 bp):
TTTAAAGTTTCATTGCCTTTGGTTAAAGGAGCTTT
Found at i:8218027 original size:43 final size:42
Alignment explanation
Indices: 8217989--8218071 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
8217979 AAAGTTTCAT
*
8217989 AGCCTCTATTTAGAAGAACCGTTTT-AATTTTTAAAAGTTGTTG
1 AGCCTCTACTTAGAAG-ACC-TTTTAAATTTTTAAAAGTTGTTG
* *
8218032 AGCCTTTACTTAGAAGAGCTTTTAAATTTTTAAAAGTTGT
1 AGCCTCTACTTAGAAGACCTTTTAAATTTTTAAAAGTTGT
8218072 CAAACCTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 4 0.11
42 18 0.50
43 14 0.39
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (42 bp):
AGCCTCTACTTAGAAGACCTTTTAAATTTTTAAAAGTTGTTG
Found at i:8222654 original size:112 final size:113
Alignment explanation
Indices: 8222526--8222735 Score: 264
Period size: 113 Copynumber: 1.9 Consensus size: 113
8222516 AATAACTAAT
* * * * * *
8222526 TATGAAGCAATCAAAAA-TTGTATTTTTGTAATTATACTTAAAAGACATTATAGTAATTTTGGT-
1 TATGAAGCAATCAAAAAGATATATTTTTGTAACTATACTTAAAAAACATTATAATAATTTT-ATC
*
8222589 CAATTATAATATAA-TGGGTATTTTCATAATTATAATTGGATAGGCATTA
65 CAATTATAATATAAGT-GGTATATTCATAATTATAATTGGATAGGCATTA
* ** *
8222638 TATGAAGCAATCAAAAAGATATTTTTTTGTAACTATGGTTAAAAAATATTATAATAATTTTATCC
1 TATGAAGCAATCAAAAAGATATATTTTTGTAACTATACTTAAAAAACATTATAATAATTTTATCC
* *
8222703 AATTATAATATGAGTGGTATATTCGTAATTATA
66 AATTATAATATAAGTGGTATATTCATAATTATA
8222736 GTATGAGGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
112 18 0.22
113 63 0.77
114 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (113 bp):
TATGAAGCAATCAAAAAGATATATTTTTGTAACTATACTTAAAAAACATTATAATAATTTTATCC
AATTATAATATAAGTGGTATATTCATAATTATAATTGGATAGGCATTA
Found at i:8222758 original size:25 final size:26
Alignment explanation
Indices: 8222703--8222759 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
8222693 AATTTTATCC
*
8222703 AATTATAATATGAGTGGTATATTCGT
1 AATTATAATATGAGTGATATATTCGT
* *
8222729 AATTATAGTATGAG-GATATTTTCGT
1 AATTATAATATGAGTGATATATTCGT
8222754 AATTAT
1 AATTAT
8222760 GGTAGCGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.44
Consensus pattern (26 bp):
AATTATAATATGAGTGATATATTCGT
Found at i:8223243 original size:32 final size:32
Alignment explanation
Indices: 8223207--8223269 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
8223197 TAATTATTTT
8223207 AATATAAAAATAATAAAAAAAT-AAATATATAA
1 AATATAAAAATAA-AAAAAAATAAAATATATAA
* * **
8223239 AATATTATAATAAATTAAAATAAAATATATA
1 AATATAAAAATAAAAAAAAATAAAATATATA
8223270 TAGTATTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (32 bp):
AATATAAAAATAAAAAAAAATAAAATATATAA
Found at i:8223253 original size:25 final size:25
Alignment explanation
Indices: 8223207--8223271 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
8223197 TAATTATTTT
*
8223207 AATATA-AAAATAATA-AAAAAATA
1 AATATATAAAATATTATAAAAAATA
* *
8223230 AATATATAAAATATTATAATAAATT
1 AATATATAAAATATTATAAAAAATA
8223255 AA-A-ATAAAATATATATA
1 AATATATAAAATAT-TATA
8223272 GTATTTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 15 0.42
24 13 0.36
25 8 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AATATATAAAATATTATAAAAAATA
Found at i:8223476 original size:19 final size:20
Alignment explanation
Indices: 8223440--8223477 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8223430 AGGAAAGTAA
* *
8223440 CTTTTTATGTTTTTTAATTT
1 CTTTTTATGATTTATAATTT
8223460 CTTTTTAT-ATTTATAATT
1 CTTTTTATGATTTATAATT
8223478 ATTATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
CTTTTTATGATTTATAATTT
Found at i:8224302 original size:14 final size:14
Alignment explanation
Indices: 8224280--8224309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8224270 AAAAATAAAT
*
8224280 TTATTAATGTTATA
1 TTATGAATGTTATA
8224294 TTATGAATGTTATA
1 TTATGAATGTTATA
8224308 TT
1 TT
8224310 TTTATTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (14 bp):
TTATGAATGTTATA
Found at i:8226147 original size:2 final size:2
Alignment explanation
Indices: 8226140--8226167 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8226130 ATGATGATGA
8226140 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
8226168 TATGATTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8227214 original size:11 final size:11
Alignment explanation
Indices: 8227198--8227279 Score: 68
Period size: 11 Copynumber: 7.7 Consensus size: 11
8227188 AAGATAAAAT
8227198 AATTATTATAA
1 AATTATTATAA
*
8227209 AATTATCAT--
1 AATTATTATAA
8227218 AATTA-TATAA
1 AATTATTATAA
8227228 AA-TATTATTAA
1 AATTATTA-TAA
*
8227239 AATTA-TATCA
1 AATTATTATAA
8227249 AA-TATTATCAA
1 AATTATTAT-AA
*
8227260 AATTATAATAAA
1 AATTATTAT-AA
8227272 AATTATTA
1 AATTATTA
8227280 AATTTTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.04
9 9 0.16
10 11 0.20
11 18 0.32
12 16 0.29
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (11 bp):
AATTATTATAA
Found at i:8227242 original size:21 final size:21
Alignment explanation
Indices: 8227218--8227281 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
8227208 AAATTATCAT
8227218 AATTATATAAAATATTATTAA
1 AATTATATAAAATATTATTAA
* *
8227239 AATTATATCAAATATTATCAA
1 AATTATATAAAATATTATTAA
8227260 AATTATAATAAAA-ATTATTAA
1 AATTAT-ATAAAATATTATTAA
8227281 A
1 A
8227282 TTTTAAAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 33 0.87
22 5 0.13
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTATATAAAATATTATTAA
Found at i:8227257 original size:42 final size:41
Alignment explanation
Indices: 8227198--8227281 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 41
8227188 AAGATAAAAT
*
8227198 AATTATTATAAAATTATCATAATTAT-ATAAAATATTATTAA
1 AATTATTATAAAATTATCAAAATTATAATAAAA-ATTATTAA
8227239 AATTA-TATCAAATATTATCAAAATTATAATAAAAATTATTAA
1 AATTATTAT-AAA-ATTATCAAAATTATAATAAAAATTATTAA
8227281 A
1 A
8227282 TTTTAAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
40 3 0.08
41 8 0.21
42 22 0.56
43 6 0.15
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (41 bp):
AATTATTATAAAATTATCAAAATTATAATAAAAATTATTAA
Found at i:8227265 original size:30 final size:30
Alignment explanation
Indices: 8227191--8227277 Score: 77
Period size: 33 Copynumber: 2.7 Consensus size: 30
8227181 ACTGGTAAAG
*
8227191 ATAAAATAATTATTATAAAATTATCATAATTAT
1 ATAAAAT-ATTA-T-TAAAATTATCATAAATAT
8227224 ATAAAATATTATTAAAATTAT-ATCAAATATT
1 ATAAAATATTATTAAAATTATCAT-AAATA-T
* *
8227255 ATCAAAATTATAATAAAAATTAT
1 AT-AAAA-TATTATTAAAATTAT
8227278 TAAATTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 2 0.04
30 13 0.28
31 4 0.09
32 8 0.17
33 20 0.43
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAAAATATTATTAAAATTATCATAAATAT
Found at i:8227422 original size:21 final size:21
Alignment explanation
Indices: 8227359--8227422 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
8227349 AATTATTGAT
*
8227359 AAAAAAATTATCATAAC-TATT
1 AAAAAAATTATCA-AACTTATC
* **
8227380 ACAAAAATTATTGCAATTTTATC
1 AAAAAAATTA-T-CAAACTTATC
8227403 AAAAAAATTATCAAACTTAT
1 AAAAAAATTATCAAACTTAT
8227423 TAATTAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 16 0.48
22 3 0.09
23 14 0.42
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAAAATTATCAAACTTATC
Found at i:8231793 original size:52 final size:52
Alignment explanation
Indices: 8231722--8231878 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
8231712 TATAACCATA
*
8231722 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTATAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
* * * ** *
8231774 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
* * **
8231826 CAAACTTACCTATTAAGAAT-CCTCTTTCTCTTAGAATTCTTCTTTTACAAGT
1 CAAACTTGCCTATTAAGAATCCCTC-TCCTCTTAGAATTCTTCTCCTACAAGT
8231878 C
1 C
8231879 TTCTTGTTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTACAAGT
Found at i:8231921 original size:11 final size:11
Alignment explanation
Indices: 8231905--8231944 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
8231895 AATATCTGGT
8231905 AAATCTCAAAC
1 AAATCTCAAAC
8231916 AAATCTCAAAC
1 AAATCTCAAAC
8231927 AAATC-CTAAAC
1 AAATCTC-AAAC
8231938 AAATCTC
1 AAATCTC
8231945 TTATGGGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:8232953 original size:52 final size:51
Alignment explanation
Indices: 8232806--8232962 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 51
8232796 TATAACCATA
* * * ** *
8232806 CAAACTTGCCCATTAAGAATCCCTCTCTTCTTAGAATTCTTCTCCTATAAGT
1 CAAACTTACCTATTAAGAATCCCTTTC-TCTTAGAATTCTTCTTTTACAAGT
* *
8232858 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTTTTACAAGT
1 CAAACTTACCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTTTTACAAGT
* *
8232910 CAAACTTACTTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCC-CTTTCTCTTAGAATTCTTCTTTTACAAGT
8232962 C
1 C
8232963 TTCTTGTTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 88 0.95
53 5 0.05
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.41
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTTTTACAAGT
Found at i:8236425 original size:20 final size:20
Alignment explanation
Indices: 8236400--8236437 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8236390 TATATTTACA
*
8236400 TTAAAAATAATATTTTATAT
1 TTAAAAATAAAATTTTATAT
8236420 TTAAAAATAAAATTTTAT
1 TTAAAAATAAAATTTTAT
8236438 TAATTTCGGA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAAATAAAATTTTATAT
Found at i:8238834 original size:8 final size:8
Alignment explanation
Indices: 8238817--8238851 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
8238807 TTTAATTTTT
8238817 TATTTATA
1 TATTTATA
8238825 TATAATTATA
1 TAT--TTATA
8238835 TATTTATA
1 TATTTATA
8238843 TATTTATA
1 TATTTATA
8238851 T
1 T
8238852 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:8238848 original size:26 final size:26
Alignment explanation
Indices: 8238811--8238891 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
8238801 TATTTTTTTA
* **
8238811 ATTTTTTATTTATATATAATTAT-AT
1 ATTTTATATTTATATATAAAAATAAT
*
8238836 ATTTATATATTTATATTTAAAAATAAT
1 ATTT-TATATTTATATATAAAAATAAT
8238863 ATTTTATA-TT-T-TA-AAAAATAAT
1 ATTTTATATTTATATATAAAAATAAT
8238885 ATTTTAT
1 ATTTTAT
8238892 TAATTTCAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
22 16 0.33
23 1 0.02
24 1 0.02
25 6 0.12
26 19 0.39
27 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTATATTTATATATAAAAATAAT
Found at i:8238870 original size:20 final size:22
Alignment explanation
Indices: 8238840--8238891 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
8238830 TTATATATTT
8238840 ATATATTTATA-TTT-AAAAATA
1 ATAT-TTTATATTTTAAAAAATA
8238861 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
8238883 ATATTTTAT
1 ATATTTTAT
8238892 TAATTTCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.21
21 7 0.24
22 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:8241397 original size:43 final size:43
Alignment explanation
Indices: 8241349--8241432 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
8241339 CTTAAACTTG
* * *
8241349 GTTGTGAAGTTTGTTCAACA-TGATGTGTTCTTATAGTAATGTA
1 GTTGTGAAATTTGTTCAACATTG-CGTATTCTTATAGTAATGTA
8241392 GTTGTGAAATTTGTTCAACATTGCGTATTCTTATAGTAATG
1 GTTGTGAAATTTGTTCAACATTGCGTATTCTTATAGTAATG
8241433 AACTGTCTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 35 0.95
44 2 0.05
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.44
Consensus pattern (43 bp):
GTTGTGAAATTTGTTCAACATTGCGTATTCTTATAGTAATGTA
Found at i:8249325 original size:19 final size:18
Alignment explanation
Indices: 8249273--8249325 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
8249263 GTTTGAGAAG
*
8249273 ATATTAAAGATTTAATTTT
1 ATATTAAA-ATTTTATTTT
* *
8249292 AAATTAAATTTTTATATTT
1 ATATTAAAATTTTAT-TTT
8249311 ATATTAAAATTTTAT
1 ATATTAAAATTTTAT
8249326 CTTCCTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATTAAAATTTTATTTT
Found at i:8252606 original size:2 final size:2
Alignment explanation
Indices: 8252596--8252629 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8252586 AAGTAAAAAA
* *
8252596 AT AT GT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8252630 TGATCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8257886 original size:21 final size:21
Alignment explanation
Indices: 8257862--8257913 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
8257852 TAAAAGTAAT
*
8257862 TATTATAATAGTCAGATTAAA
1 TATTATAATAGTCAAATTAAA
* * *
8257883 TATTGTAGTAGTGAAATTAAA
1 TATTATAATAGTCAAATTAAA
8257904 -ATTAATAATA
1 TATT-ATAATA
8257914 AGATATATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TATTATAATAGTCAAATTAAA
Found at i:8258183 original size:20 final size:19
Alignment explanation
Indices: 8258136--8258184 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
8258126 ATTAACTTTT
8258136 TTATGTATTAAATTATTTAA
1 TTAT-TATTAAATTATTTAA
* *
8258156 TAATTTATTAAATTATATTAC
1 TTA-TTATTAAATTAT-TTAA
8258177 TTATTATT
1 TTATTATT
8258185 TATGTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATTATTAAATTATTTAA
Found at i:8258218 original size:15 final size:15
Alignment explanation
Indices: 8258160--8258219 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
8258150 ATTTAATAAT
8258160 TTATTAAATTATATTAC
1 TTATT-AATTAT-TTAC
* * *
8258177 TTATTATTTATGTAT
1 TTATTAATTATTTAC
*
8258192 TTATTTAA-TATTTAG
1 TTA-TTAATTATTTAC
8258207 TTATTAATTATTT
1 TTATTAATTATTT
8258220 GCTTGGAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.11
15 18 0.51
16 8 0.23
17 5 0.14
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATTAATTATTTAC
Found at i:8260388 original size:17 final size:16
Alignment explanation
Indices: 8260346--8260388 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
8260336 TCATTTATTT
8260346 TAGATTTGGATAATTA
1 TAGATTTGGATAATTA
*
8260362 TA-A-ATGGATAATTA
1 TAGATTTGGATAATTA
8260376 GTAGATTTGGATA
1 -TAGATTTGGATA
8260389 GAAGATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
16 3 0.14
17 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (16 bp):
TAGATTTGGATAATTA
Found at i:8260976 original size:16 final size:15
Alignment explanation
Indices: 8260951--8260992 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
8260941 TACTATTATC
8260951 ATTT-ATATTAATAA
1 ATTTAATATTAATAA
8260965 ATTATAATATTAAT-A
1 ATT-TAATATTAATAA
8260980 ATTTAA-ATTAATA
1 ATTTAATATTAATA
8260993 TATCAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 5 0.20
16 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAATATTAATAA
Found at i:8261056 original size:18 final size:18
Alignment explanation
Indices: 8261012--8261057 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
8261002 TAATATTATT
* *
8261012 TTTTAGTTTAGTAAATTA
1 TTTTAATTTAGTAAAATA
* *
8261030 CTTTGATTTAGTAAAATA
1 TTTTAATTTAGTAAAATA
8261048 TTTTAATTTA
1 TTTTAATTTA
8261058 TTTAGAATCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (18 bp):
TTTTAATTTAGTAAAATA
Found at i:8261567 original size:18 final size:19
Alignment explanation
Indices: 8261540--8261582 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8261530 AAAATTTAAT
*
8261540 ATTTTAAAAAACT-AAAAA
1 ATTTTTAAAAACTCAAAAA
* *
8261558 ATTTTTAAAAATTCAAAAT
1 ATTTTTAAAAACTCAAAAA
8261577 ATTTTT
1 ATTTTT
8261583 TGTATTAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTTTAAAAACTCAAAAA
Found at i:8265507 original size:40 final size:40
Alignment explanation
Indices: 8265463--8265605 Score: 259
Period size: 40 Copynumber: 3.6 Consensus size: 40
8265453 TTTGATTATG
* * *
8265463 TTATAATTTATTAATTGATTATTTAATAAGTATTACTTAA
1 TTATAATATAATAATTGATTATTTAATAAGTATAACTTAA
8265503 TTATAATATAATAATTGATTATTTAATAAGTATAACTTAA
1 TTATAATATAATAATTGATTATTTAATAAGTATAACTTAA
8265543 TTATAATATAATAATTGATTATTTAATAAGTATAACTTAA
1 TTATAATATAATAATTGATTATTTAATAAGTATAACTTAA
8265583 TTATAATATAATAATTGATTATT
1 TTATAATATAATAATTGATTATT
8265606 CAAATATAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (40 bp):
TTATAATATAATAATTGATTATTTAATAAGTATAACTTAA
Found at i:8265513 original size:22 final size:22
Alignment explanation
Indices: 8265488--8265593 Score: 74
Period size: 22 Copynumber: 5.2 Consensus size: 22
8265478 TGATTATTTA
8265488 ATAAGTATTACTTAATTATAAT
1 ATAAGTATTACTTAATTATAAT
8265510 ATAA-TAATTGA-TT-ATT-T-A-
1 ATAAGT-ATT-ACTTAATTATAAT
*
8265528 ATAAGTATAACTTAATTATAAT
1 ATAAGTATTACTTAATTATAAT
8265550 ATAA-TAATTGA-TT-ATT-T-A-
1 ATAAGT-ATT-ACTTAATTATAAT
*
8265568 ATAAGTATAACTTAATTATAAT
1 ATAAGTATTACTTAATTATAAT
8265590 ATAA
1 ATAA
8265594 TAATTGATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 32
0.65 0.03 0.32
Matches are distributed among these distances:
17 2 0.03
18 16 0.25
19 10 0.15
20 4 0.06
21 10 0.15
22 21 0.32
23 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (22 bp):
ATAAGTATTACTTAATTATAAT
Found at i:8265531 original size:18 final size:18
Alignment explanation
Indices: 8265474--8265571 Score: 58
Period size: 18 Copynumber: 5.0 Consensus size: 18
8265464 TATAATTTAT
8265474 TAATTGATTATTTAATAA
1 TAATTGATTATTTAATAA
8265492 GT-ATT-ACTTAATTATAATATAA
1 -TAATTGA-TT-ATT-T-A-ATAA
8265514 TAATTGATTATTTAATAAGTA
1 TAATTGATTATTTAAT-A--A
* *
8265535 TAACTTAATTA-TAATATAA
1 TAA-TTGATTATTTA-ATAA
8265554 TAATTGATTATTTAATAA
1 TAATTGATTATTTAATAA
8265572 GTATAACTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 27
0.67 0.04 0.29
Matches are distributed among these distances:
17 1 0.02
18 17 0.27
19 12 0.19
20 2 0.03
21 12 0.19
22 17 0.27
23 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (18 bp):
TAATTGATTATTTAATAA
Found at i:8265628 original size:18 final size:19
Alignment explanation
Indices: 8265502--8265628 Score: 77
Period size: 20 Copynumber: 6.5 Consensus size: 19
8265492 GTATTACTTA
8265502 ATTAT-AATATAATAATTG
1 ATTATAAATATAATAATTG
* *
8265520 ATTATTTAATA-AGTATAACTTA
1 ATTA-TAAATATA--ATAA-TTG
8265542 ATTAT-AATATAATAATTG
1 ATTATAAATATAATAATTG
* *
8265560 ATTATTTAATA-AGTATAACTTA
1 ATTA-TAAATATA--ATAA-TTG
8265582 ATTAT-AATATAATAATTG
1 ATTATAAATATAATAATTG
*
8265600 ATTATTCAAATATAAT-ATTT
1 ATTA-T-AAATATAATAATTG
8265620 ATTATAAAT
1 ATTATAAAT
8265629 GTAACTTTAA
Statistics
Matches: 89, Mismatches: 5, Indels: 30
0.72 0.04 0.24
Matches are distributed among these distances:
18 20 0.22
19 14 0.16
20 23 0.26
21 20 0.22
22 12 0.13
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (19 bp):
ATTATAAATATAATAATTG
Found at i:8268955 original size:15 final size:16
Alignment explanation
Indices: 8268942--8269011 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
8268932 TCATTTTTGT
*
8268942 TTTAGATTTTTTTGGA
1 TTTAAATTTTTTTGGA
*
8268958 TTTAAATTTTTTT-TA
1 TTTAAATTTTTTTGGA
* * *
8268973 TTCAGATATTTTTGGA
1 TTTAAATTTTTTTGGA
* * *
8268989 TTCAGATTTTTTCGGA
1 TTTAAATTTTTTTGGA
*
8269005 TTCAAAT
1 TTTAAAT
8269012 AATTTTAAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 11 0.25
16 33 0.75
ACGTcount: A:0.24, C:0.06, G:0.13, T:0.57
Consensus pattern (16 bp):
TTTAAATTTTTTTGGA
Found at i:8268984 original size:16 final size:15
Alignment explanation
Indices: 8268949--8269008 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 15
8268939 TGTTTTAGAT
* *
8268949 TTTTTTGGATTTAAA
1 TTTTTTGGATTCAGA
**
8268964 TTTTTTTTATTCAGA
1 TTTTTTGGATTCAGA
8268979 TATTTTTGGATTCAGA
1 T-TTTTTGGATTCAGA
8268995 TTTTTTCGGATTCA
1 TTTTTT-GGATTCA
8269009 AATAATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 17 0.46
16 20 0.54
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTTTTGGATTCAGA
Found at i:8269259 original size:16 final size:16
Alignment explanation
Indices: 8269233--8269265 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8269223 AAAATTTTAA
8269233 AAATAATATATTCATAT
1 AAATAATATATT-ATAT
8269250 AAAT-ATATATTATAT
1 AAATAATATATTATAT
8269265 A
1 A
8269266 TTAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAATATATTATAT
Found at i:8271744 original size:6 final size:6
Alignment explanation
Indices: 8271733--8271781 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
8271723 TATTATTTTT
*
8271733 AATATA AATATA AA-ATTA AATATA TATATA AA-ATA TAAT-TA AATATA
1 AATATA AATATA AATA-TA AATATA AATATA AATATA -AATATA AATATA
8271780 AA
1 AA
8271782 ATTTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
5 7 0.19
6 28 0.78
7 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AATATA
Found at i:8271754 original size:18 final size:19
Alignment explanation
Indices: 8271732--8271784 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
8271722 ATATTATTTT
8271732 TAATATAAATATAAAATTA
1 TAATATAAATATAAAATTA
*
8271751 -AATATATATATAAAA-TA
1 TAATATAAATATAAAATTA
8271768 TAAT-TAAATATAAAATT
1 TAATATAAATATAAAATT
8271785 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATATAAATATAAAATTA
Found at i:8271772 original size:23 final size:24
Alignment explanation
Indices: 8271734--8271779 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
8271724 ATTATTTTTA
8271734 ATATAAATATAAAATTAAATATAT
1 ATATAAATATAAAATTAAATATAT
*
8271758 ATATAAA-ATATAATTAAATATA
1 ATATAAATATAAAATTAAATATA
8271780 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAAATATAAAATTAAATATAT
Found at i:8271796 original size:12 final size:12
Alignment explanation
Indices: 8271781--8271809 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8271771 TTAAATATAA
8271781 AATTTAAAAAAT
1 AATTTAAAAAAT
8271793 AATTTAAAAAAT
1 AATTTAAAAAAT
8271805 AATTT
1 AATTT
8271810 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:8271801 original size:36 final size:35
Alignment explanation
Indices: 8271732--8271808 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 35
8271722 ATATTATTTT
* *
8271732 TAATATAAATATAAAATTAAATATATATATAAAATA
1 TAAT-TAAATATAAAATTAAAAATATATATAAAAAA
*
8271768 TAATTAAATATAAAATTTAAAAA-ATAATTTAAAAAA
1 TAATTAAATATAAAA-TTAAAAATAT-ATATAAAAAA
8271804 TAATT
1 TAATT
8271809 TTTTTTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 13 0.36
36 23 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (35 bp):
TAATTAAATATAAAATTAAAAATATATATAAAAAA
Found at i:8272385 original size:5 final size:5
Alignment explanation
Indices: 8272375--8272400 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8272365 AAATGGGGCC
8272375 GGGTG GGGTG GGGTG GGGTG GGGTG G
1 GGGTG GGGTG GGGTG GGGTG GGGTG G
8272401 AGTGAGAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (5 bp):
GGGTG
Found at i:8275118 original size:60 final size:60
Alignment explanation
Indices: 8275027--8275348 Score: 342
Period size: 59 Copynumber: 5.4 Consensus size: 60
8275017 ACAAACTCTC
* * * *
8275027 CAATATATTGGTAAGGTTT-TTTG-TT-TT-AAAAATTTATTTTTAAAATTTAAACTTTT
1 CAATATGTTGGTAAAGTTTATTTGTTTATTCAAAAATTCATTTTTAAAATTTAAACCTTT
* * * *
8275083 CACTATGTTGGTAAAGTTTATTTGTTTATTCAAAAATTTATATTTTTTAAAAATTTGAACCTTC
1 CAATATGTTGGTAAAGTTTATTTGTTTATTCAAAAA-TT-CA-TTTTT-AAAATTTAAACCTTT
* *
8275147 CAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTCATTTTTAAAATTTAAACCTTT
1 CAATATGTTGGTAAAGTTTATTTGTTTATTCAAAAATTCATTTTTAAAATTTAAACCTTT
* *
8275207 -AATATGTTGGT-AAGATTTATTT-TTTAGTCAAAAATTCATTTTTAAAAATTTAAACCTTC
1 CAATATGTTGGTAAAG-TTTATTTGTTTATTCAAAAATTCATTTTT-AAAATTTAAACCTTT
* **
8275266 CAATATATTGGT-AAGATTT-TTT-TTTATTTC-AAAATTCATTTAAAAAATTTAAACCTTT
1 CAATATGTTGGTAAAG-TTTATTTGTTTA-TTCAAAAATTCATTTTTAAAATTTAAACCTTT
* *
8275324 CAATATGTTGGTAAGGTTCATTTGT
1 CAATATGTTGGTAAAGTTTATTTGT
8275349 CTAAAATATT
Statistics
Matches: 228, Mismatches: 23, Indels: 26
0.82 0.08 0.09
Matches are distributed among these distances:
56 16 0.07
57 4 0.02
58 51 0.22
59 57 0.25
60 38 0.17
61 7 0.03
62 3 0.01
63 7 0.03
64 45 0.20
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.48
Consensus pattern (60 bp):
CAATATGTTGGTAAAGTTTATTTGTTTATTCAAAAATTCATTTTTAAAATTTAAACCTTT
Found at i:8275288 original size:58 final size:59
Alignment explanation
Indices: 8275025--8275338 Score: 338
Period size: 58 Copynumber: 5.3 Consensus size: 59
8275015 TCACAAACTC
* * * *
8275025 TCCAATATATTGGTAAGGTT-TTTTGTT-TT-AAAAATTTATTTTT-AAAATTTAAACTT
1 TCCAATATGTTGGTAAGATTATTTT-TTATTCAAAAATTCATTTTTAAAAATTTAAACCT
* * * * *
8275081 TTCACTATGTTGGTAAAGTTTATTTGTTTATTCAAAAATTTATATTTTTTAAAAATTTGAACCT
1 TCCAATATGTTGGT-AAGATTATTT-TTTATTCAAAAA-TT-CA-TTTTTAAAAATTTAAACCT
*
8275145 TCCAATATGTTGGTAAGGTTTATTTATTTATTCAAAAATTCATTTTT-AAAATTTAAACCT
1 TCCAATATGTTGGTAA-GATTATTT-TTTATTCAAAAATTCATTTTTAAAAATTTAAACCT
* *
8275205 T-TAATATGTTGGTAAGATTTATTTTTTAGTCAAAAATTCATTTTTAAAAATTTAAACCT
1 TCCAATATGTTGGTAAGA-TTATTTTTTATTCAAAAATTCATTTTTAAAAATTTAAACCT
* * *
8275264 TCCAATATATTGGTAAGATTTTTTTTTATTTC-AAAATTCA-TTTAAAAAATTTAAACCT
1 TCCAATATGTTGGTAAGATTATTTTTTA-TTCAAAAATTCATTTTTAAAAATTTAAACCT
*
8275322 TTCAATATGTTGGTAAG
1 TCCAATATGTTGGTAAG
8275339 GTTCATTTGT
Statistics
Matches: 223, Mismatches: 21, Indels: 26
0.83 0.08 0.10
Matches are distributed among these distances:
56 11 0.05
57 5 0.02
58 58 0.26
59 53 0.24
60 34 0.15
61 7 0.03
62 3 0.01
63 9 0.04
64 43 0.19
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (59 bp):
TCCAATATGTTGGTAAGATTATTTTTTATTCAAAAATTCATTTTTAAAAATTTAAACCT
Found at i:8276637 original size:22 final size:22
Alignment explanation
Indices: 8276612--8276658 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
8276602 AGGTTTTGAC
8276612 GATCATGCTCGGAGATTTTATA
1 GATCATGCTCGGAGATTTTATA
8276634 GATCATGCTCGGAGATTTTATA
1 GATCATGCTCGGAGATTTTATA
8276656 GAT
1 GAT
8276659 TATGTCCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (22 bp):
GATCATGCTCGGAGATTTTATA
Found at i:8281546 original size:137 final size:137
Alignment explanation
Indices: 8281300--8281578 Score: 479
Period size: 137 Copynumber: 2.0 Consensus size: 137
8281290 TCCATGAATG
* *** *
8281300 CATATGCAAGAAATGTAATGTTATAGTGCAGGGACGATGGGATATTAAATGTACTGCATGTTCTA
1 CATATGCAAGAAATGTAATGTTATAATGCAAAAACGATGGGATATGAAATGTACTGCATGTTCTA
*
8281365 TAAAACCCTACCATTCGTGAAACCATGTGCATGAAATACAACAACATACTACATGAATGATGAGA
66 TAAAACCCTACCATTCGTGAAACCATGTGCATGAAATACAACAACATACTACATGAATGACGAGA
8281430 TATATTC
131 TATATTC
*
8281437 CATATGCAAGAAATGTAATGTTATAATGCAAAAACGATGGGATATGAAATGTACTGCATGTTTTA
1 CATATGCAAGAAATGTAATGTTATAATGCAAAAACGATGGGATATGAAATGTACTGCATGTTCTA
*
8281502 TAAAACCTTACCATTCGTGAAACCATGTGCATGAAATACAACAACATACTACATGAATGACGAGA
66 TAAAACCCTACCATTCGTGAAACCATGTGCATGAAATACAACAACATACTACATGAATGACGAGA
8281567 TATATTC
131 TATATTC
8281574 C-TATG
1 CATATG
8281579 ACTAAAGCAA
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
136 4 0.03
137 130 0.97
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (137 bp):
CATATGCAAGAAATGTAATGTTATAATGCAAAAACGATGGGATATGAAATGTACTGCATGTTCTA
TAAAACCCTACCATTCGTGAAACCATGTGCATGAAATACAACAACATACTACATGAATGACGAGA
TATATTC
Found at i:8282577 original size:82 final size:82
Alignment explanation
Indices: 8282435--8282598 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
8282425 AGACCTAATC
*
8282435 GATCCCTTCCCTTAGGGGATCGATTGGTTCACTTTTAGAAGCCAATTTTACCTTTGAAAATGCCT
1 GATCCCTTCCCTTAGGGGATCGATTGGTTCACTTTTAGAAGCCAATTTTACCTTTAAAAATGCCT
8282500 ACCCGATCGATTCCTTT
66 ACCCGATCGATTCCTTT
8282517 GATCCCTTCCCTTAGGGGATCGATTGGTTCACTTTTAGAAGCCAATTTTACCTTTAAAAATGCCT
1 GATCCCTTCCCTTAGGGGATCGATTGGTTCACTTTTAGAAGCCAATTTTACCTTTAAAAATGCCT
8282582 ACCCGATCGATTCCTTT
66 ACCCGATCGATTCCTTT
8282599 ATGTAAGGGA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (82 bp):
GATCCCTTCCCTTAGGGGATCGATTGGTTCACTTTTAGAAGCCAATTTTACCTTTAAAAATGCCT
ACCCGATCGATTCCTTT
Found at i:8283385 original size:17 final size:17
Alignment explanation
Indices: 8283359--8283392 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8283349 ATGTACTAAA
*
8283359 TAAATATTTTTTAAAAT
1 TAAATATTTTTCAAAAT
*
8283376 TAAATCTTTTTCAAAAT
1 TAAATATTTTTCAAAAT
8283393 CTTGATCAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATTTTTCAAAAT
Found at i:8284259 original size:16 final size:16
Alignment explanation
Indices: 8284225--8284259 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8284215 ATACAAGTTC
**
8284225 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
8284241 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
8284257 ATA
1 ATA
8284260 TGTTATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:8291835 original size:16 final size:17
Alignment explanation
Indices: 8291806--8291838 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8291796 TCCCATCATA
*
8291806 AATTTTTTTAATTAATT
1 AATTTTATTAATTAATT
8291823 AATTTTATT-ATTAATT
1 AATTTTATTAATTAATT
8291839 TTTAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTATTAATTAATT
Found at i:8294058 original size:6 final size:6
Alignment explanation
Indices: 8294047--8294098 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
8294037 ATTAATTTTG
* *
8294047 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AGAGAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
8294095 AAAA
1 AAAA
8294099 TTGGACTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:8294437 original size:19 final size:17
Alignment explanation
Indices: 8294415--8294457 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
8294405 TTAAATTAGT
8294415 TCAAATTAAAATATTAAAA
1 TCAAATTAAAA-A-TAAAA
8294434 TCAAATTTAAAAATAAAA
1 TCAAA-TTAAAAATAAAA
8294452 -CAAATT
1 TCAAATT
8294458 CGAGTTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 4 0.17
18 5 0.22
19 6 0.26
20 6 0.26
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (17 bp):
TCAAATTAAAAATAAAA
Found at i:8300464 original size:18 final size:17
Alignment explanation
Indices: 8300441--8300476 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8300431 TAATATATTC
8300441 TATTAATAATAATAAAAA
1 TATTAATAATAA-AAAAA
*
8300459 TATTAATGATAAAAAAA
1 TATTAATAATAAAAAAA
8300476 T
1 T
8300477 TATGTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TATTAATAATAAAAAAA
Found at i:8304590 original size:7 final size:7
Alignment explanation
Indices: 8304514--8304595 Score: 50
Period size: 7 Copynumber: 11.7 Consensus size: 7
8304504 ATAAACAATA
*
8304514 ATAAAAG
1 ATAAAAT
8304521 ATAAATAT
1 ATAAA-AT
8304529 ATAAAAT
1 ATAAAAT
8304536 A-AAAA-
1 ATAAAAT
8304541 AT-AAAT
1 ATAAAAT
8304547 AT-AAAT
1 ATAAAAT
8304553 AT-AAAT
1 ATAAAAT
8304559 GATAAGTACAT
1 -ATAA--A-AT
8304570 ATAAAA-
1 ATAAAAT
8304576 ATAAAAAT
1 AT-AAAAT
8304584 ATAAAAT
1 ATAAAAT
*
8304591 TTAAA
1 ATAAA
8304596 CCTTTTAGAT
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
5 4 0.06
6 18 0.29
7 24 0.38
8 10 0.16
10 5 0.08
11 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (7 bp):
ATAAAAT
Found at i:8305888 original size:25 final size:25
Alignment explanation
Indices: 8305842--8305890 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8305832 TTTTTACCTA
*
8305842 GAAATTTTTTAAAAATTTATCATTT
1 GAAATTTTTTAAAAATTCATCATTT
*
8305867 GAAA-TTTTTAAGAATCTCATCATT
1 GAAATTTTTTAAAAAT-TCATCATT
8305891 GGGTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (25 bp):
GAAATTTTTTAAAAATTCATCATTT
Found at i:8306097 original size:25 final size:26
Alignment explanation
Indices: 8306034--8306097 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 26
8306024 AAATTTAGAA
* *
8306034 AAAAATTTC-TCACTTAGGAATTTAT
1 AAAAATTTCATCATTTAGAAATTTAT
* *
8306059 AAAAATTT-ACCATTTA-AAATTTTT
1 AAAAATTTCATCATTTAGAAATTTAT
8306083 AAAAATTTCATCATT
1 AAAAATTTCATCATT
8306098 AGATAATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (26 bp):
AAAAATTTCATCATTTAGAAATTTAT
Found at i:8307026 original size:15 final size:14
Alignment explanation
Indices: 8307008--8307041 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
8306998 AAAATCCTCA
8307008 TTATTTTTATTATTT
1 TTATTTTTATT-TTT
8307023 TTATTTTTATTTTT
1 TTATTTTTATTTTT
8307037 TTATT
1 TTATT
8307042 ACTATCCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTATTTTTATTTTT
Found at i:8307173 original size:4 final size:4
Alignment explanation
Indices: 8307164--8307213 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
8307154 ATAAACCCAA
* * *
8307164 AAAT AAAT AAGT AAAT AGAT AAAT -AAT ACAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
8307211 AAA
1 AAA
8307214 ATATAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:8307196 original size:23 final size:23
Alignment explanation
Indices: 8307165--8307220 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
8307155 TAAACCCAAA
* *
8307165 AATAAATAAGTAAATAGATAAAT
1 AATAAATAAATAAATAAATAAAT
*
8307188 AATACATAAATAAATAAATAAAT
1 AATAAATAAATAAATAAATAAAT
8307211 AA-AATATAAA
1 AATAA-ATAAA
8307221 ATAATGAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (23 bp):
AATAAATAAATAAATAAATAAAT
Found at i:8307403 original size:9 final size:8
Alignment explanation
Indices: 8307389--8307428 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
8307379 CCAACACATT
8307389 TTTTTTTA
1 TTTTTTTA
*
8307397 CTTTTTTA
1 TTTTTTTA
8307405 TTTTTTTTA
1 -TTTTTTTA
*
8307414 TTTTTTTG
1 TTTTTTTA
8307422 TTTTTTT
1 TTTTTTT
8307429 TTAAATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.07, C:0.03, G:0.03, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:8307409 original size:18 final size:18
Alignment explanation
Indices: 8307386--8307431 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
8307376 ATCCCAACAC
8307386 ATTTTTTTTTACTTTTTT
1 ATTTTTTTTTACTTTTTT
*
8307404 A-TTTTTTTTATTTTTTT
1 ATTTTTTTTTACTTTTTT
*
8307421 GTTTTTTTTTA
1 ATTTTTTTTTA
8307432 AATCAAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.85
Consensus pattern (18 bp):
ATTTTTTTTTACTTTTTT
Found at i:8307547 original size:44 final size:44
Alignment explanation
Indices: 8307454--8307862 Score: 306
Period size: 44 Copynumber: 9.4 Consensus size: 44
8307444 AAACTTGTTG
* * * *
8307454 AATAATATAA-ACTCCTCTAAGCAAAGGCT-TACAACTTTTG-AAA
1 AATAA-ATAAGACTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAA
* * *
8307497 AATAAATAAGACTCCTTTAAACAGTGGCTCAATGACTTTGAAAA
1 AATAAATAAGACTCCTCTAAACAGAGGCTCAACGACTTTGAAAA
* *
8307541 AATAAATATAG-CTCCTC-ATATCAGAGGCTCAACAACTTT-AGAAA
1 AATAAATA-AGACTCCTCTA-AACAGAGGCTCAACGACTTTGA-AAA
* * *
8307585 AATAAATAATG-CTCTTCTAAGCAGAAGCTTCATA--ACTTTG-AAA
1 AATAAATAA-GACTCCTCTAAACAGAGGC-TCA-ACGACTTTGAAAA
* * *
8307628 AATAAATACGATTCCTCTAAACAGAGGCTCAATGACTTTGAAAA
1 AATAAATAAGACTCCTCTAAACAGAGGCTCAACGACTTTGAAAA
* * * *
8307672 AATAAAGAAAACTCCTCTAATCAGAGGCTCAACGGCTTT-AGAAA
1 AATAAATAAGACTCCTCTAAACAGAGGCTCAACGACTTTGA-AAA
* * * * ** * *
8307716 AATAAAAAAG-GTTCTTTAAGTAGAGGCTTAACGACTTTAAAAA
1 AATAAATAAGACTCCTCTAAACAGAGGCTCAACGACTTTGAAAA
* * * * *
8307759 AATAAATAAAACTCCTCTAATCAGAGTCTCAATGACTTTTAAAA
1 AATAAATAAGACTCCTCTAAACAGAGGCTCAACGACTTTGAAAA
* * * *
8307803 AATAATTAA-AGCTACTCTAAATAGAGGCTCAACAACTTTG-AAA
1 AATAAATAAGA-CTCCTCTAAACAGAGGCTCAACGACTTTGAAAA
8307846 AATAAATAAGACTCCTC
1 AATAAATAAGACTCCTC
8307863 GATAATCATG
Statistics
Matches: 289, Mismatches: 57, Indels: 40
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.00
42 8 0.03
43 107 0.37
44 166 0.57
45 6 0.02
46 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (44 bp):
AATAAATAAGACTCCTCTAAACAGAGGCTCAACGACTTTGAAAA
Found at i:8307634 original size:131 final size:130
Alignment explanation
Indices: 8307469--8307855 Score: 460
Period size: 131 Copynumber: 3.0 Consensus size: 130
8307459 TATAAACTCC
* *
8307469 TCTAAGCA-AAGGCTTACAACTTTTGAAAAATAAATAAGACTCCTTTAAACAGTGGCTCAATGAC
1 TCTAAGCAGAA-GCTTACAAC-TTTGAAAAATAAATAAGACTCCTCTAAACAGAGGCTCAATGAC
* *
8307533 TTTGAAAAAATAAATATAGCTCCTCATATCAGAGGCTCAACAACTTTAGAAAAATAAATAATGCT
64 TTTGAAAAAATAAATAAAGCTCCTCATATCAGAGGCTCAACAACTTTAGAAAAATAAATAAGGCT
8307598 CT
129 CT
* * *
8307600 TCTAAGCAGAAGCTTCATAACTTTGAAAAATAAATACGATTCCTCTAAACAGAGGCTCAATGACT
1 TCTAAGCAGAAGCTT-ACAACTTTGAAAAATAAATAAGACTCCTCTAAACAGAGGCTCAATGACT
* * ** * *
8307665 TTGAAAAAATAAAGAAAACTCCTC-TAATCAGAGGCTCAACGGCTTTAGAAAAATAAAAAAGGTT
65 TTGAAAAAATAAATAAAGCTCCTCAT-ATCAGAGGCTCAACAACTTTAGAAAAATAAATAAGGCT
8307729 CT
129 CT
* * * * * * *
8307731 T-TAAGTAGAGGCTTAACGACTTTAAAAAAATAAATAAAACTCCTCTAATCAGAGTCTCAATGAC
1 TCTAAGCAGAAGCTT-ACAACTTT-GAAAAATAAATAAGACTCCTCTAAACAGAGGCTCAATGAC
* * * *
8307795 TTTTAAAAAATAATTAAAGCTACTCTAAAT-AGAGGCTCAACAACTTT-GAAAAATAAATAAG
64 TTTGAAAAAATAAATAAAGCTCCTC-ATATCAGAGGCTCAACAACTTTAGAAAAATAAATAAG
8307856 ACTCCTCGAT
Statistics
Matches: 217, Mismatches: 33, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
130 31 0.14
131 178 0.82
132 8 0.04
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (130 bp):
TCTAAGCAGAAGCTTACAACTTTGAAAAATAAATAAGACTCCTCTAAACAGAGGCTCAATGACTT
TGAAAAAATAAATAAAGCTCCTCATATCAGAGGCTCAACAACTTTAGAAAAATAAATAAGGCTCT
Found at i:8307691 original size:87 final size:85
Alignment explanation
Indices: 8307562--8307862 Score: 259
Period size: 87 Copynumber: 3.5 Consensus size: 85
8307552 CTCCTCATAT
* ** * *
8307562 CAGAGGCTCAACAACTTTAGAAAAATAAATAATGCTCTTCTAAGCAGAAGCTTCATA-ACTTT-G
1 CAGAGGCTCAACGACTTTA-AAAAATAAATAAAACTCCTCTAATCAGAAGC-TCA-ACACTTTAG
* *
8307625 AAAAATAAATACGATTCCTCTAAA
63 AAAAATAAAAAAGATT-CTCTAAA
* * * *
8307649 CAGAGGCTCAATGACTTTGAAAAAATAAAGAAAACTCCTCTAATCAGAGGCTCAACGGCTTTAGA
1 CAGAGGCTCAACGACTTT-AAAAAATAAATAAAACTCCTCTAATCAGAAGCTCAAC-ACTTTAGA
* * *
8307714 AAAATAAAAAAGGTTCTTTAAG
64 AAAATAAAAAAGATTCTCTAAA
* * *
8307736 TAGAGGCTTAACGACTTTAAAAAAATAAATAAAACTCCTCTAATCAG-AGTCTCAATGACTTTTA
1 CAGAGGCTCAACGACTTT-AAAAAATAAATAAAACTCCTCTAATCAGAAG-CTCAA-CAC-TTTA
* * *
8307800 -AAAAATAATTAAAGCTACTCTAAA
62 GAAAAATAA-AAAAGATTCTCTAAA
* * * *
8307824 TAGAGGCTCAACAACTTTGAAAAATAAATAAGACTCCTC
1 CAGAGGCTCAACGACTTTAAAAAATAAATAAAACTCCTC
8307863 GATAATCATG
Statistics
Matches: 175, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
85 1 0.01
86 4 0.02
87 125 0.71
88 45 0.26
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.26
Consensus pattern (85 bp):
CAGAGGCTCAACGACTTTAAAAAATAAATAAAACTCCTCTAATCAGAAGCTCAACACTTTAGAAA
AATAAAAAAGATTCTCTAAA
Found at i:8308091 original size:16 final size:17
Alignment explanation
Indices: 8308067--8308100 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8308057 TTAGTTTTGC
8308067 AAGAATTCAA-ATTCGT
1 AAGAATTCAAGATTCGT
*
8308083 AAGATTTCAAGATTCGT
1 AAGAATTCAAGATTCGT
8308100 A
1 A
8308101 TTTAAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
AAGAATTCAAGATTCGT
Found at i:8308171 original size:36 final size:37
Alignment explanation
Indices: 8308109--8308200 Score: 150
Period size: 36 Copynumber: 2.5 Consensus size: 37
8308099 TATTTAAGAA
8308109 ATTCACATCCAAAATTTAATCCAGAGATTCGCATGAG
1 ATTCACATCCAAAATTTAATCCAGAGATTCGCATGAG
** *
8308146 ATTCACATCC-AAATTTAATTTAGAGATTTGCATGAG
1 ATTCACATCCAAAATTTAATCCAGAGATTCGCATGAG
8308182 ATTCACATCCAAAATTTAA
1 ATTCACATCCAAAATTTAA
8308201 AGATTCAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
36 33 0.65
37 18 0.35
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (37 bp):
ATTCACATCCAAAATTTAATCCAGAGATTCGCATGAG
Found at i:8308502 original size:21 final size:21
Alignment explanation
Indices: 8308475--8308790 Score: 207
Period size: 21 Copynumber: 15.9 Consensus size: 21
8308465 TTCACATATC
8308475 AAAGATTCTCATTTGAAACTT
1 AAAGATTCTCATTTGAAACTT
* * *
8308496 GAAGATTTTCATTTGAGAACTC
1 AAAGATTCTCATTTGA-AACTT
*
8308518 AGAGATTCTCATTTGAAA-TT
1 AAAGATTCTCATTTGAAACTT
* *
8308538 CAAAGATTCTCATTTAAAAACTC
1 -AAAGATTCTCATTT-GAAACTT
*
8308561 AAA-ATTCTCATTTGAAAACTC
1 AAAGATTCTCATTTG-AAACTT
8308582 AAAGATTCTCATTTG-AA--T
1 AAAGATTCTCATTTGAAACTT
*
8308600 CAAGA-T-TC-TTTG-AA-TT
1 AAAGATTCTCATTTGAAACTT
* *
8308616 CAAGATT-T-TTTTGAAAC-T
1 AAAGATTCTCATTTGAAACTT
*
8308634 CAAGA-T-TCATTTG-AAC-T
1 AAAGATTCTCATTTGAAACTT
* *
8308651 CAAGA-T-T--TTTGGAACTT
1 AAAGATTCTCATTTGAAACTT
8308668 AAAGATT-TCCATTTGAAA-TT
1 AAAGATTCT-CATTTGAAACTT
*
8308688 CAAAGATTCTTATTTGAAA-TT
1 -AAAGATTCTCATTTGAAACTT
* *
8308709 CAAAGATTTTCATTTGAAACTC
1 -AAAGATTCTCATTTGAAACTT
*
8308731 AAAGATTCTCGTTTGAAA-TT
1 AAAGATTCTCATTTGAAACTT
*
8308751 CAAAGATTCTTATTTGAAA-TT
1 -AAAGATTCTCATTTGAAACTT
8308772 CAAAGATTCTCATTTGAAA
1 -AAAGATTCTCATTTGAAA
8308791 ACTCAAAATT
Statistics
Matches: 247, Mismatches: 26, Indels: 44
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.04
16 11 0.04
17 25 0.10
18 18 0.07
20 6 0.02
21 140 0.57
22 36 0.15
23 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAACTT
Found at i:8308715 original size:42 final size:42
Alignment explanation
Indices: 8308473--8308797 Score: 298
Period size: 42 Copynumber: 8.1 Consensus size: 42
8308463 GTTTCACATA
* *
8308473 TCAAAGATTCTCATTTGAAACTT-GAAGATTTTCATTTGAGAAC
1 TCAAAGATTCTCATTTGAAA-TTCAAAGATTCTCATTTGA-AAC
* *
8308516 TCAGAGATTCTCATTTGAAATTCAAAGATTCTCATTTAAAAAC
1 TCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTT-GAAAC
*
8308559 TCAAA-ATTCTCATTTGAAAACTCAAAGATTCTCATTTG-AA-
1 TCAAAGATTCTCATTTG-AAATTCAAAGATTCTCATTTGAAAC
*
8308599 TC-AAGA-T-TC-TTTG-AATTC-AAGATT-T-TTTTGAAAC
1 TCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAAC
* *
8308633 TC-AAGA-T-TCATTTG-AACTC-AAGA-T-T--TTTGGAAC
1 TCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAAC
* * *
8308666 TTAAAGATT-TCCATTTGAAATTCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCT-CATTTGAAATTCAAAGATTCTCATTTGAAAC
* * * *
8308708 TCAAAGATTTTCATTTGAAACTCAAAGATTCTCGTTTGAAAT
1 TCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAAC
*
8308750 TCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTG-AAAC
8308793 TCAAA
1 TCAAA
8308798 ATTTTATCTT
Statistics
Matches: 240, Mismatches: 24, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
32 4 0.02
33 11 0.05
34 21 0.09
35 18 0.08
36 6 0.03
37 8 0.03
38 6 0.03
39 4 0.02
40 4 0.02
41 2 0.01
42 89 0.37
43 66 0.28
44 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (42 bp):
TCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAAAC
Found at i:8309936 original size:17 final size:17
Alignment explanation
Indices: 8309916--8310006 Score: 84
Period size: 17 Copynumber: 5.5 Consensus size: 17
8309906 TTTGAGTCTT
8309916 TTTTTTCTCTTTTTTCA
1 TTTTTTCTCTTTTTTCA
8309933 TTTTTTC-CTTTTTT--
1 TTTTTTCTCTTTTTTCA
*
8309947 TTTCATTTCTCGTTTTTCA
1 TTT--TTTCTCTTTTTTCA
**
8309966 TTTTTTCTCCATTTTCA
1 TTTTTTCTCTTTTTTCA
* *
8309983 -TTTTTC-ATTTTTCCA
1 TTTTTTCTCTTTTTTCA
8309998 TTTTTTCTC
1 TTTTTTCTC
8310007 ACACATCTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.05
15 5 0.08
16 23 0.39
17 25 0.42
19 3 0.05
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.71
Consensus pattern (17 bp):
TTTTTTCTCTTTTTTCA
Found at i:8309962 original size:25 final size:24
Alignment explanation
Indices: 8309916--8309994 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
8309906 TTTGAGTCTT
** *
8309916 TTTTTTCTCTTTTTTCATTTTTTCC
1 TTTTTTCTCCATTTTCA-TTTTTCA
* * *
8309941 TTTTTTTTTCATTTCTCGTTTTTCA
1 TTTTTTCTCCATTT-TCATTTTTCA
8309966 TTTTTTCTCCATTTTCATTTTTCA
1 TTTTTTCTCCATTTTCATTTTTCA
8309990 TTTTT
1 TTTTT
8309995 CCATTTTTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 14 0.32
25 28 0.64
26 2 0.05
ACGTcount: A:0.08, C:0.18, G:0.01, T:0.73
Consensus pattern (24 bp):
TTTTTTCTCCATTTTCATTTTTCA
Found at i:8310000 original size:32 final size:31
Alignment explanation
Indices: 8309919--8310006 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 31
8309909 GAGTCTTTTT
* ***
8309919 TTTCTCTTTTTTCATTTTTTCCTTTTTTTTTCA
1 TTTCTCATTTTTCATTTTTT-C-TCCATTTTCA
*
8309952 TTTCTCGTTTTTCATTTTTTCTCCATTTTCA
1 TTTCTCATTTTTCATTTTTTCTCCATTTTCA
*
8309983 TTTTTCATTTTTCCATTTTTTCTC
1 TTTCTCATTTTT-CATTTTTTCTC
8310007 ACACATCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 17 0.35
32 12 0.25
33 19 0.40
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.70
Consensus pattern (31 bp):
TTTCTCATTTTTCATTTTTTCTCCATTTTCA
Found at i:8314963 original size:17 final size:17
Alignment explanation
Indices: 8314941--8314974 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8314931 ACTTCCCTTC
8314941 TCTCTCTTCTTT-TCTTT
1 TCTCTCTT-TTTCTCTTT
8314958 TCTCTCTTTTTCTCTTT
1 TCTCTCTTTTTCTCTTT
8314975 AAACTCGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TCTCTCTTTTTCTCTTT
Found at i:8320753 original size:25 final size:25
Alignment explanation
Indices: 8320725--8320789 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
8320715 TAATATAACA
*
8320725 ATTACAATATTAAAAATTATTTATT
1 ATTAAAATATTAAAAATTATTTATT
*
8320750 ATTAGAATATATT-GAAATTATTTATT
1 ATTA-AA-ATATTAAAAATTATTTATT
*
8320776 GTTAAAATTATTAA
1 ATTAAAA-TATTAA
8320790 TATTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 1 0.03
25 10 0.31
26 16 0.50
27 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (25 bp):
ATTAAAATATTAAAAATTATTTATT
Found at i:8320797 original size:15 final size:16
Alignment explanation
Indices: 8320758--8320879 Score: 63
Period size: 16 Copynumber: 7.3 Consensus size: 16
8320748 TTATTAGAAT
*
8320758 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
* *
8320774 TTGTTAAAATTA-TTA
1 ATATTAAAATTATTTA
* *
8320789 ATATTAAAAAATAATT-
1 ATATT-AAAATTATTTA
8320805 ATATTTAAATAATAATATTTA
1 ATA-TT-AA-AAT--TATTTA
8320826 ATATTAAAATATTATGTTA
1 ATATT-AAA-ATTAT-TTA
*
8320845 ATA-TAAAAATATTTA
1 ATATTAAAATTATTTA
*
8320860 A-AATAAAATTATTTA
1 ATATTAAAATTATTTA
*
8320875 TTATT
1 ATATT
8320880 CTTTATATTA
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
14 1 0.01
15 21 0.25
16 24 0.29
17 10 0.12
18 6 0.07
19 7 0.08
20 11 0.13
21 3 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:8320806 original size:20 final size:20
Alignment explanation
Indices: 8320781--8320834 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 20
8320771 TTATTGTTAA
8320781 AATTATTAATATTAAAAAAT
1 AATTATTAATATTAAAAAAT
*
8320801 AATTA-T-AT-TTAAATAAT
1 AATTATTAATATTAAAAAAT
8320818 AA-TATTTAATATTAAAA
1 AATTA-TTAATATTAAAA
8320835 TATTATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 2 0.07
17 10 0.36
18 3 0.11
19 3 0.11
20 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTATTAATATTAAAAAAT
Found at i:8320816 original size:14 final size:14
Alignment explanation
Indices: 8320797--8320826 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8320787 TAATATTAAA
*
8320797 AAATAATTATATTT
1 AAATAATAATATTT
8320811 AAATAATAATATTT
1 AAATAATAATATTT
8320825 AA
1 AA
8320827 TATTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAATAATATTT
Found at i:8320856 original size:34 final size:35
Alignment explanation
Indices: 8320778--8320868 Score: 91
Period size: 34 Copynumber: 2.6 Consensus size: 35
8320768 TATTTATTGT
* *
8320778 TAAAATTA-TTAATATTAAAAAATAATTATATTTAAA
1 TAAAAATATTTAATATT--AAAATAATTATAGTTAAA
*
8320814 TAATAATATTTAATATTAAAAT-ATTAT-GTTAATA
1 TAAAAATATTTAATATTAAAATAATTATAGTTAA-A
*
8320848 TAAAAATATTTAA-AATAAAAT
1 TAAAAATATTTAATATTAAAAT
8320869 TATTTATTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
33 11 0.23
34 18 0.38
35 5 0.10
36 6 0.12
37 8 0.17
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (35 bp):
TAAAAATATTTAATATTAAAATAATTATAGTTAAA
Found at i:8320903 original size:16 final size:15
Alignment explanation
Indices: 8320883--8320922 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
8320873 TATTATTCTT
8320883 TATATTATTTAGTAA
1 TATATTATTTAGTAA
*
8320898 TAATATTATTTATTAA
1 T-ATATTATTTAGTAA
8320914 TATATTATT
1 TATATTATT
8320923 ACAATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TATATTATTTAGTAA
Found at i:8320914 original size:13 final size:13
Alignment explanation
Indices: 8320884--8321037 Score: 101
Period size: 13 Copynumber: 11.9 Consensus size: 13
8320874 ATTATTCTTT
8320884 ATATTATTTAGTAATA
1 ATATTATTTA-T--TA
8320900 ATATTATTTATTA
1 ATATTATTTATTA
8320913 ATA-TA-TTATTA
1 ATATTATTTATTA
8320924 CA-A-TATTTATTA
1 -ATATTATTTATTA
* * *
8320936 AT-TAAATTAATA
1 ATATTATTTATTA
*
8320948 ATATTTATTAATATA
1 ATA-TTATTTAT-TA
*
8320963 ATATTATTTATGA
1 ATATTATTTATTA
8320976 ATA-TA-TTA-TA
1 ATATTATTTATTA
*
8320986 ATATTATTTTTTA
1 ATATTATTTATTA
*
8320999 ATATCATTTATTA
1 ATATTATTTATTA
8321012 ATA-TATTATATTA
1 ATATTATT-TATTA
*
8321025 ATAGTATATTATT
1 ATATTAT-TTATT
8321038 TATAAGTAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
10 4 0.04
11 15 0.14
12 24 0.22
13 33 0.30
14 18 0.16
15 7 0.06
16 10 0.09
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (13 bp):
ATATTATTTATTA
Found at i:8320957 original size:18 final size:18
Alignment explanation
Indices: 8320943--8321016 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
8320933 TTAATTAAAT
8320943 TAATAATATTTATTAATA
1 TAATAATATTTATTAATA
* *
8320961 TAATATTATTTATGAATA
1 TAATAATATTTATTAATA
* *
8320979 TATTATAATA-TTATT-TTT
1 TA--ATAATATTTATTAATA
8320997 TAAT-ATCATTTATTAATA
1 TAATAAT-ATTTATTAATA
8321015 TA
1 TA
8321017 TTATATTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
15 2 0.05
16 3 0.07
17 5 0.12
18 24 0.56
19 4 0.09
20 5 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (18 bp):
TAATAATATTTATTAATA
Found at i:8320994 original size:63 final size:66
Alignment explanation
Indices: 8320883--8321040 Score: 175
Period size: 63 Copynumber: 2.4 Consensus size: 66
8320873 TATTATTCTT
* * *
8320883 TATATTAT-TTAGTAATAATATTATTTATTAATATATTATTACAATATTTATTAAT-T-A-AATT
1 TATATTATATTAAT-ATAATATTATTTATGAATATATTATAACAATATTTATTAATATCATAATT
8320944 AA
65 AA
* * * *
8320946 TAATATT-TATTAATATAATATTATTTATGAATATATTATAATATTATTTTTTAATATCATTTAT
1 T-ATATTATATTAATATAATATTATTTATGAATATATTATAACAATATTTATTAATATCA-TAAT
8321010 TAA
64 TAA
8321013 TATATTATATTAATAGT-ATATTATTTAT
1 TATATTATATTAATA-TAATATTATTTAT
8321041 AAGTAAAATT
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
63 38 0.47
64 10 0.12
65 1 0.01
66 5 0.06
67 25 0.31
68 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (66 bp):
TATATTATATTAATATAATATTATTTATGAATATATTATAACAATATTTATTAATATCATAATTA
A
Done.