Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 61 of 207
Found at i:17609302 original size:8 final size:8
Alignment explanation
Indices: 17609289--17609329 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
17609279 AAAGAAAAGA
17609289 AAAATAAT
1 AAAATAAT
17609297 AAAATAAT
1 AAAATAAT
*
17609305 AGAAT-A-
1 AAAATAAT
17609311 AAAATAAAT
1 AAAAT-AAT
17609320 AAAATAAT
1 AAAATAAT
17609328 AA
1 AA
17609330 TAGGGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 4 0.14
7 1 0.04
8 18 0.64
9 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:17609328 original size:26 final size:26
Alignment explanation
Indices: 17609290--17609341 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17609280 AAGAAAAGAA
17609290 AAATAATAAAATAATAGAATAAAAAT
1 AAATAATAAAATAATAGAATAAAAAT
**
17609316 AAATAA-AATAATAATAGGGTAAAAAT
1 AAATAATAA-AATAATAGAATAAAAAT
17609342 GGGGTAACCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (26 bp):
AAATAATAAAATAATAGAATAAAAAT
Found at i:17612856 original size:24 final size:23
Alignment explanation
Indices: 17612825--17612870 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
17612815 TATACATACC
*
17612825 TTATTATATATCTTTATATCTTA
1 TTATTATATATCTATATATCTTA
*
17612848 TTATGTATATATCTATATCTCTT
1 TTAT-TATATATCTATATATCTT
17612871 TTTAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTATATATCTATATATCTTA
Found at i:17612903 original size:22 final size:24
Alignment explanation
Indices: 17612878--17612922 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
17612868 CTTTTTAAAT
17612878 ATTC-TCTAGCT-TATATATATAC
1 ATTCATCTAGCTATATATATATAC
* *
17612900 ATTCATTTTGCTATATATATATA
1 ATTCATCTAGCTATATATATATA
17612923 TGTCTAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 5 0.26
24 10 0.53
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTCATCTAGCTATATATATATAC
Found at i:17613163 original size:8 final size:8
Alignment explanation
Indices: 17613152--17613227 Score: 59
Period size: 8 Copynumber: 9.4 Consensus size: 8
17613142 GTATATGTAC
17613152 ATATTTAT
1 ATATTTAT
17613160 ATATATATAT
1 ATAT-T-TAT
17613170 ATATTTAT
1 ATATTTAT
*
17613178 ATATTCTTT
1 ATATT-TAT
17613187 ATATTT-T
1 ATATTTAT
**
17613194 A-AAATAT
1 ATATTTAT
17613201 AT-TTTAT
1 ATATTTAT
17613208 ATATTTTAT
1 ATA-TTTAT
*
17613217 ATATTTTT
1 ATATTTAT
17613225 ATA
1 ATA
17613228 ATTCACATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.04
7 9 0.16
8 20 0.36
9 17 0.31
10 7 0.13
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTTAT
Found at i:17613165 original size:10 final size:10
Alignment explanation
Indices: 17613152--17613227 Score: 67
Period size: 9 Copynumber: 8.1 Consensus size: 10
17613142 GTATATGTAC
17613152 ATATTTATAT
1 ATATTTATAT
17613162 ATA--TATAT
1 ATATTTATAT
17613170 ATATTTATAT
1 ATATTTATAT
17613180 AT-TCTT-TAT
1 ATAT-TTATAT
*
17613189 AT-TTTAAAAT
1 ATATTT-ATAT
17613199 ATATTT-TAT
1 ATATTTATAT
17613208 ATATTT-TAT
1 ATATTTATAT
*
17613217 ATATTTTTAT
1 ATATTTATAT
17613227 A
1 A
17613228 ATTCACATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
8 10 0.18
9 24 0.42
10 20 0.35
11 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTTATAT
Found at i:17613200 original size:19 final size:19
Alignment explanation
Indices: 17613167--17613227 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
17613157 TATATATATA
*
17613167 TATATATTT-ATATATTCTT
1 TATATATTTAAAATATT-TT
17613186 TATAT-TTTAAAATATATTT
1 TATATATTTAAAATAT-TTT
* *
17613205 TATATATTTTATATATTTT
1 TATATATTTAAAATATTTT
17613224 TATA
1 TATA
17613228 ATTCACATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.08
19 24 0.67
20 9 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATATTTAAAATATTTT
Found at i:17613200 original size:21 final size:21
Alignment explanation
Indices: 17613176--17613227 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
17613166 ATATATATTT
17613176 ATATATTCTT-TATATTTTAAA
1 ATATATT-TTATATATTTTAAA
*
17613197 ATATATTTTATATATTTT-AT
1 ATATATTTTATATATTTTAAA
17613217 ATAT-TTTTATA
1 ATATATTTTATA
17613228 ATTCACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.24
20 7 0.24
21 15 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATATTTTATATATTTTAAA
Found at i:17613209 original size:30 final size:31
Alignment explanation
Indices: 17613166--17613223 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
17613156 TTATATATAT
17613166 ATATATATTTATATATTCTT-TATATTTTAAA
1 ATATATATTTATATATT-TTATATATTTTAAA
17613197 ATATAT-TTTATATATTTTATATATTTT
1 ATATATATTTATATATTTTATATATTTT
17613224 TATAATTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 2 0.08
30 18 0.69
31 6 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
ATATATATTTATATATTTTATATATTTTAAA
Found at i:17613311 original size:21 final size:21
Alignment explanation
Indices: 17613287--17613327 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17613277 TCTTTACATT
17613287 TTTTATTGT-ATTCATTATTTA
1 TTTTATTGTCATT-ATTATTTA
*
17613308 TTTTATTTTCATTATTATTT
1 TTTTATTGTCATTATTATTT
17613328 TGAATGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTATTGTCATTATTATTTA
Found at i:17617844 original size:16 final size:16
Alignment explanation
Indices: 17617815--17617856 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17617805 TACATAATAT
* *
17617815 ATTATTAATTAATAAA
1 ATTATAAATCAATAAA
17617831 ATTATAAATCAATAAA
1 ATTATAAATCAATAAA
17617847 ATTATTAAAT
1 ATTA-TAAAT
17617857 ATAACTGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATAAATCAATAAA
Found at i:17617923 original size:15 final size:15
Alignment explanation
Indices: 17617911--17617940 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17617901 AATATAATTT
17617911 TGTAATAATTAATAA
1 TGTAATAATTAATAA
*
17617926 TGTTATAATTAATAA
1 TGTAATAATTAATAA
17617941 AAATTAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
TGTAATAATTAATAA
Found at i:17622082 original size:2 final size:2
Alignment explanation
Indices: 17622075--17622106 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17622065 CTAAGTACTC
17622075 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17622107 AAAACAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17622809 original size:19 final size:19
Alignment explanation
Indices: 17622769--17622812 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
17622759 TCCTCAACTC
*
17622769 ATTGTGATTCTTTTTTTCT
1 ATTGTGATTCTTTGTTTCT
*
17622788 ATTGTGATTGTTATGTTT-T
1 ATTGTGATTCTT-TGTTTCT
17622807 ATTGTG
1 ATTGTG
17622813 GGATGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.14, C:0.05, G:0.18, T:0.64
Consensus pattern (19 bp):
ATTGTGATTCTTTGTTTCT
Found at i:17626347 original size:16 final size:15
Alignment explanation
Indices: 17626328--17626359 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17626318 TTATATAATA
17626328 ATATATATATATTTTT
1 ATATATA-ATATTTTT
17626344 ATATATAATATTTTT
1 ATATATAATATTTTT
17626359 A
1 A
17626360 ATTAATAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATATAATATTTTT
Found at i:17627057 original size:40 final size:41
Alignment explanation
Indices: 17626973--17627059 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
17626963 TGTAGGGCGT
* *
17626973 GTTTTTAAACAAGTCAAGAGAAAACGCTTCCTGCAGGACGC
1 GTTTTCAAACAAGTCAAGAGAAAACGCTTCCTGCAGGACAC
* *
17627014 GTTTTCAAACAAGTC-AGCA-AAAATGCTTCCTGTAGGACAC
1 GTTTTCAAACAAGTCAAG-AGAAAACGCTTCCTGCAGGACAC
17627054 GTTTTC
1 GTTTTC
17627060 TGTTTCCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
40 26 0.63
41 15 0.37
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
GTTTTCAAACAAGTCAAGAGAAAACGCTTCCTGCAGGACAC
Found at i:17629741 original size:22 final size:22
Alignment explanation
Indices: 17629704--17629757 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
17629694 TAATTTATGG
17629704 CTCACATGCAATATACATTCTTGA
1 CTCACAT--AATATACATTCTTGA
*
17629728 CTCACATAATATACATTCTTGC
1 CTCACATAATATACATTCTTGA
*
17629750 CTCGCATA
1 CTCACATA
17629758 GTACACTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 21 0.75
24 7 0.25
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (22 bp):
CTCACATAATATACATTCTTGA
Found at i:17629846 original size:22 final size:22
Alignment explanation
Indices: 17629804--17629909 Score: 97
Period size: 22 Copynumber: 4.7 Consensus size: 22
17629794 ATGTAATTCA
* *
17629804 TGACTTGCATATAGTATACATTCT
1 TGACTCGCATA-A-TATACATACT
* *
17629828 TGAATCGCATAATATACATTCT
1 TGACTCGCATAATATACATACT
* *
17629850 TGCCTC-CTATAATACACATACT
1 TGACTCGC-ATAATATACATACT
* *
17629872 TGACTTGCATAATACACATACT
1 TGACTCGCATAATATACATACT
*
17629894 TGACTCGTATAATATA
1 TGACTCGCATAATATA
17629910 GTGGTTCACA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
21 1 0.01
22 57 0.83
23 2 0.03
24 9 0.13
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (22 bp):
TGACTCGCATAATATACATACT
Found at i:17629874 original size:44 final size:44
Alignment explanation
Indices: 17629821--17629907 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
17629811 CATATAGTAT
* * * *
17629821 ACATTCTTGAATCGCATAATATACATTCTTGCCTCCTATAATAC
1 ACATACTTGAATCGCATAATACACATACTTGACTCCTATAATAC
* * *
17629865 ACATACTTGACTTGCATAATACACATACTTGACTCGTATAATA
1 ACATACTTGAATCGCATAATACACATACTTGACTCCTATAATA
17629908 TAGTGGTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (44 bp):
ACATACTTGAATCGCATAATACACATACTTGACTCCTATAATAC
Found at i:17629945 original size:103 final size:102
Alignment explanation
Indices: 17629838--17630071 Score: 299
Period size: 103 Copynumber: 2.3 Consensus size: 102
17629828 TGAATCGCAT
* * * * * *
17629838 AATATACATTCTTGCCTCCTATAATACACATACTTGACTTGCATAATACACATACTTGACTCGTA
1 AATATACGTTCTTG-CTCCTATAATACACATACTTGACTCGCATAACACACATACCTAACTCGCA
* *
17629903 TAATATAGTGGTTCACATGTAATTTATGACTTATATGC
65 TAATATAGTGGTTCACATGTAATTTATGACTCACATGC
* * *
17629941 AATATACGTTCTTGATTCTCATAATACACATGCTTGACTCGCATAACACACATACCTAACTCGCA
1 AATATACGTTCTTGCTCCT-ATAATACACATACTTGACTCGCATAACACACATACCTAACTCGCA
* *
17630006 TAATATAGTGGTTCGCATGTAATTTATGACTCGCATGC
65 TAATATAGTGGTTCACATGTAATTTATGACTCACATGC
*
17630044 AATATTCGTTCTTGACTCGC-ATAATACA
1 AATATACGTTCTTG-CTC-CTATAATACA
17630072 ATGGTTCGCA
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
102 3 0.03
103 107 0.96
104 1 0.01
105 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (102 bp):
AATATACGTTCTTGCTCCTATAATACACATACTTGACTCGCATAACACACATACCTAACTCGCAT
AATATAGTGGTTCACATGTAATTTATGACTCACATGC
Found at i:17629947 original size:125 final size:124
Alignment explanation
Indices: 17629713--17630010 Score: 339
Period size: 125 Copynumber: 2.4 Consensus size: 124
17629703 GCTCACATGC
* * * * * *
17629713 AATATACATTCTTGACTCACATAATATACATTCTTGCCTCGCATAGTACACTTACTTGACTTGCA
1 AATATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCGCA
** *
17629778 AAATATAGTGGTTTGCATGTAATTCATGACTTGCATATAGTATACATTCTTGAATCGCAT
66 AAATATAGTGGTTCACATGTAATTCATGACTT-CATATAATATACATTCTTGAATCGCAT
* * *
17629838 AATATACATTCTTGCCTC-CTATAATACACATACTTGACTTGCATAATACACATACTTGACTCGT
1 AATATACATTCTTGACTCAC-ATAATACACATACTTGACTCGCATAATACACATACTTGACTCGC
* * * * *
17629902 ATAATATAGTGGTTCACATGTAATTTATGACTT-ATATGCAATATACGTTCTTGATTCTCAT
65 AAAATATAGTGGTTCACATGTAATTCATGACTTCATAT--AATATACATTCTTGAATCGCAT
* * * * * *
17629963 AATACACATGCTTGACTCGCATAACACACATACCTAACTCGCATAATA
1 AATATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATA
17630011 TAGTGGTTCG
Statistics
Matches: 145, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
123 4 0.03
124 1 0.01
125 139 0.96
126 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (124 bp):
AATATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCGCA
AAATATAGTGGTTCACATGTAATTCATGACTTCATATAATATACATTCTTGAATCGCAT
Found at i:17629976 original size:22 final size:22
Alignment explanation
Indices: 17629951--17630008 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
17629941 AATATACGTT
* * *
17629951 CTTGATTCTCATAATACACATG
1 CTTGACTCGCATAACACACATG
*
17629973 CTTGACTCGCATAACACACATA
1 CTTGACTCGCATAACACACATG
* *
17629995 CCTAACTCGCATAA
1 CTTGACTCGCATAA
17630009 TATAGTGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.28
Consensus pattern (22 bp):
CTTGACTCGCATAACACACATG
Found at i:17630249 original size:29 final size:29
Alignment explanation
Indices: 17630213--17630349 Score: 211
Period size: 29 Copynumber: 4.7 Consensus size: 29
17630203 CATGTTCACT
*
17630213 TATACTAGGGCTCGCACAACAACTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
* * *
17630242 TATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
17630271 TATACTAGGGCTCGCACAACAGCTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
* * *
17630300 TATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAGCTTTACA
17630329 TATACTAGGGCTCGCACAACA
1 TATACTAGGGCTCGCACAACA
17630350 AGGCTTGCAC
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (29 bp):
TATACTAGGGCTCGCACAACAGCTTTACA
Found at i:17630283 original size:58 final size:58
Alignment explanation
Indices: 17630213--17630350 Score: 267
Period size: 58 Copynumber: 2.4 Consensus size: 58
17630203 CATGTTCACT
17630213 TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
*
17630271 TATACTAGGGCTCGCACAACAGCTTTACATATACTAGTGCTCACACAATAGCTTTACA
1 TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
17630329 TATACTAGGGCTCGCACAACAA
1 TATACTAGGGCTCGCACAACAA
17630351 GGCTTGCACA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
58 78 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (58 bp):
TATACTAGGGCTCGCACAACAACTTTACATATACTAGTGCTCACACAATAGCTTTACA
Found at i:17637285 original size:22 final size:23
Alignment explanation
Indices: 17637232--17637285 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
17637222 TGTTCAATTG
17637232 AAACTATTTTGCTTTTATAATTCT
1 AAAC-ATTTTGCTTTTATAATTCT
**
17637256 AAGTATTTTG-TTTTAT-ATTCT
1 AAACATTTTGCTTTTATAATTCT
17637277 CAAACATTT
1 -AAACATTT
17637286 AATCTAAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.20
22 12 0.48
23 6 0.24
24 2 0.08
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.54
Consensus pattern (23 bp):
AAACATTTTGCTTTTATAATTCT
Found at i:17638005 original size:13 final size:13
Alignment explanation
Indices: 17637984--17638047 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
17637974 ACACTCAAAT
*
17637984 TTCTTAAAAGCAC
1 TTCTCAAAAGCAC
*
17637997 TTCTCAAAAACAC
1 TTCTCAAAAGCAC
*
17638010 -TCTTGAAAAGCAC
1 TTC-TCAAAAGCAC
17638023 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
17638036 TTCTCAAAAGCA
1 TTCTCAAAAGCA
17638048 ATGAAGAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:17644129 original size:27 final size:28
Alignment explanation
Indices: 17644090--17644148 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
17644080 TTGTAAATGG
* *
17644090 TTTATTTTAAGTTATTTTGTATATT-AT
1 TTTATTTTAAGTTACTTTATATATTAAT
*
17644117 TTTATTTCT-AGTTGCTTTATATATTAAT
1 TTTATTT-TAAGTTACTTTATATATTAAT
17644145 TTTA
1 TTTA
17644149 AAATTATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTATTTTAAGTTACTTTATATATTAAT
Found at i:17644221 original size:4 final size:4
Alignment explanation
Indices: 17644212--17644240 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
17644202 TTTCACGTAC
17644212 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
17644241 TATCACTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:17644590 original size:23 final size:23
Alignment explanation
Indices: 17644564--17644609 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17644554 AATTTATTGT
17644564 TTATATTGATGATTTTAAATTTC
1 TTATATTGATGATTTTAAATTTC
17644587 TTATATTGATGATTTTAAATTTC
1 TTATATTGATGATTTTAAATTTC
17644610 CTTACTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
TTATATTGATGATTTTAAATTTC
Found at i:17649416 original size:20 final size:19
Alignment explanation
Indices: 17649391--17649460 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
17649381 TTATAAAAAC
17649391 ATTCAAAATAATTTTCACAA
1 ATTCAAAATAATTTTCA-AA
* *
17649411 ATTCAATATAATTTTTAAA
1 ATTCAAAATAATTTTCAAA
*
17649430 ATTCAAAAT-ATTTATAAAA
1 ATTCAAAATAATTT-TCAAA
*
17649449 ATTTAAAA-AATT
1 ATTCAAAATAATT
17649461 CTAAAGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.09
19 24 0.56
20 15 0.35
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTCAAAATAATTTTCAAA
Found at i:17649433 original size:19 final size:19
Alignment explanation
Indices: 17649391--17649448 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
17649381 TTATAAAAAC
*
17649391 ATTCAAAATAATTTTCACAA
1 ATTCAAAATAATTTTTA-AA
*
17649411 ATTCAATATAATTTTTAAA
1 ATTCAAAATAATTTTTAAA
*
17649430 ATTCAAAAT-ATTTATAAA
1 ATTCAAAATAATTTTTAAA
17649448 A
1 A
17649449 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 15 0.44
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTCAAAATAATTTTTAAA
Found at i:17649451 original size:19 final size:20
Alignment explanation
Indices: 17649379--17649449 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
17649369 TCCTAACAAA
*
17649379 AATTATAAAAACATTCAAAAT
1 AATTTTAAAAA-ATTCAAAAT
* * *
17649400 AATTTTCACAAATTCAATAT
1 AATTTTAAAAAATTCAAAAT
*
17649420 AATTTT-TAAAATTCAAAAT
1 AATTTTAAAAAATTCAAAAT
17649439 -ATTTATAAAAA
1 AATTT-TAAAAA
17649450 TTTAAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 17 0.43
21 8 0.20
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTTTAAAAAATTCAAAAT
Found at i:17650833 original size:144 final size:144
Alignment explanation
Indices: 17650652--17650942 Score: 548
Period size: 144 Copynumber: 2.0 Consensus size: 144
17650642 CAAGTTTTCA
*
17650652 GTATCAAATGTGTTCCATATGATGGCCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
1 GTATCAAATGTGTTCCATATGATGACCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
17650717 -AGAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAGAAGAAGTTGCAAATGAA
66 GA-AACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAGAAGAAGTTGCAAATGAA
17650781 AGTATTCTAAAGTTT
130 AGTATTCTAAAGTTT
17650796 GTATCAAATGTGTTCCATATGATGACCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
1 GTATCAAATGTGTTCCATATGATGACCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
17650861 GAAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAGAAGAAGTTGCAAATGAAA
66 GAAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAGAAGAAGTTGCAAATGAAA
*
17650926 GTGTTCTAAAGTTT
131 GTATTCTAAAGTTT
17650940 GTA
1 GTA
17650943 AAACTTTGTA
Statistics
Matches: 144, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
144 143 0.99
145 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (144 bp):
GTATCAAATGTGTTCCATATGATGACCCAATTACAAAAGATATCCCCTATTCAAGTATATCCAAA
GAAACACTTTCAGTTTTGCAACTAAATACAAAAAAGTTGTAAAGTAGAAGAAGTTGCAAATGAAA
GTATTCTAAAGTTT
Found at i:17652759 original size:6 final size:6
Alignment explanation
Indices: 17652748--17652772 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17652738 TTGCTCAATC
17652748 TTGATG TTGATG TTGATG TTGATG T
1 TTGATG TTGATG TTGATG TTGATG T
17652773 CGTTTCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTGATG
Found at i:17654975 original size:49 final size:49
Alignment explanation
Indices: 17654856--17655040 Score: 158
Period size: 49 Copynumber: 3.8 Consensus size: 49
17654846 CGGTATCCAG
* *
17654856 ATATGA-AGAGCCACTAGTAGGGCATGTTAGTTGCAAACCAGAATGGCAA
1 ATATGATAG-GCCACTGGTAGGGCATGTTAGTTGCTAACCAGAATGGCAA
* * * * * * * * *
17654905 ATGTGCTAGACTACTGATAGGGCATGCTAGTTGCTAACTAG-GTGGGAGA
1 ATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGAATGGCA-A
* * *
17654954 ATATGATAGGCCACTGGTAGGGCATATTAGTTGCTAACCAGATTGGCAT
1 ATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGAATGGCAA
* * * * * *
17655003 GTATGTTGGGCCACTAGTAGGACATGTTAGTTGTTAAC
1 ATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAAC
17655041 TAGGTTGATG
Statistics
Matches: 104, Mismatches: 29, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
48 4 0.04
49 94 0.90
50 6 0.06
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (49 bp):
ATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGAATGGCAA
Found at i:17655034 original size:98 final size:98
Alignment explanation
Indices: 17654856--17655045 Score: 222
Period size: 98 Copynumber: 1.9 Consensus size: 98
17654846 CGGTATCCAG
* * *
17654856 ATATGAAGAGCCACTAGTAGGGCATGTTAGTTGCAAACCAGAATGGCAAATGTGCTAGACTACTG
1 ATATGAAGAGCCACTAGTAGGGCATATTAGTTGCAAACCAGAATGGCAAATATGCTAGACCACTG
*
17654921 ATAGGGCATGCTAGTTGCTAACTAGGTGGGAGA
66 ATAGGACATGCTAGTTGCTAACTAGGTGGGAGA
* * * ** * * *
17654954 ATATGATAG-GCCACTGGTAGGGCATATTAGTTGCTAACCAGATTGGCATGTATGTTGGGCCACT
1 ATATGA-AGAGCCACTAGTAGGGCATATTAGTTGCAAACCAGAATGGCAAATATGCTAGACCACT
* *
17655018 -AGTAGGACATGTTAGTTGTTAACTAGGT
65 GA-TAGGACATGCTAGTTGCTAACTAGGT
17655046 TGATGGCCAC
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
97 1 0.01
98 73 0.96
99 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (98 bp):
ATATGAAGAGCCACTAGTAGGGCATATTAGTTGCAAACCAGAATGGCAAATATGCTAGACCACTG
ATAGGACATGCTAGTTGCTAACTAGGTGGGAGA
Found at i:17655368 original size:48 final size:48
Alignment explanation
Indices: 17655290--17655434 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
17655280 AAGAAATGAT
* * *
17655290 TTGAAAAGAGTAAGTTAATATCAATTTGTATGTGATATATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGATATATGTTATGTA
* *
17655338 TTGAAAAGGGTAAGTTAATATGACTCTGTATATGATATATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGATATATGTTATGTA
* *
17655386 TTGAAAAGAGTAAGTTAATATGACTCTATATGTGTTGA-ATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGAT-ATATGTTATGTA
17655434 T
1 T
17655435 AATTACTGAC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 86 0.99
49 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (48 bp):
TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGATATATGTTATGTA
Found at i:17662738 original size:15 final size:16
Alignment explanation
Indices: 17662713--17662748 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
17662703 TAAGTGAAAG
17662713 AAAATATTTTATGTTA
1 AAAATATTTTATGTTA
*
17662729 AAAATA-TTTATTTTA
1 AAAATATTTTATGTTA
17662744 AAAAT
1 AAAAT
17662749 TTATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAATATTTTATGTTA
Found at i:17662752 original size:13 final size:14
Alignment explanation
Indices: 17662713--17662754 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
17662703 TAAGTGAAAG
*
17662713 AAAATATTTTATGTTA
1 AAAATA-TTTAT-TTT
17662729 AAAATATTTATTTT
1 AAAATATTTATTTT
17662743 AAAA-ATTTATTT
1 AAAATATTTATTT
17662755 AATAATGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 6 0.24
15 5 0.20
16 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
AAAATATTTATTTT
Found at i:17664372 original size:20 final size:19
Alignment explanation
Indices: 17664349--17664412 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 19
17664339 AATAATTTTC
17664349 AAAAATTTAAAACATTTATA
1 AAAAATTTAAAA-ATTTATA
*
17664369 AAAAATTCTAAAGAATATTTAAA
1 AAAAATT-T-AA-AA-ATTTATA
*
17664392 AAAAAATTAAAAATTT-TA
1 AAAAATTTAAAAATTTATA
17664410 AAA
1 AAA
17664413 CTTTGCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 9 0.24
21 3 0.08
22 3 0.08
23 14 0.38
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATTTAAAAATTTATA
Found at i:17665887 original size:114 final size:112
Alignment explanation
Indices: 17665526--17665887 Score: 408
Period size: 113 Copynumber: 3.2 Consensus size: 112
17665516 CCTCAACAAC
* *
17665526 TAGTGGCGTTTCTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTGTAAGCGCCGCA
1 TAGTGGCGTTTC-GATAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTGTAAGCGCCGCA
* * *
17665591 AAATACCTTAACCAAAATGCAGCGTTTGG-TTCAATTGTATATTAGAAT
65 AAATACCTTAACCAAAACGCAGCGTTTGGTTTCGA-GGTATATTAGAAT
* * * * **
17665639 TAGTGGCGTTTTCGATAAGACGCCGCT-AAAGAATATTATTAGCGGCGTTTTACAAG-AAGCGCC
1 TAGTGGCG-TTTCGATAAAACGCCG-TAAAAGAACATAATTAGTGGCG-TTTA-TTGTAAGCGCC
* * * * *
17665702 GC-AAATATCTTAACGAAAACGCAGCGTTTGGTCTCGAGGTAGATTAGTAT
62 GCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTCGAGGTATATTAGAAT
** * *
17665752 TAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTCGATA-AAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
* *
17665817 AAAATACCTTAACCAAAACGCAGCGCTTGGTTTTGAGGTATATTAGAAT
64 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTCGAGGTATATTAGAAT
*
17665866 TAGTGGTGTTTACGATAAAACG
1 TAGTGGCGTTT-CGATAAAACG
17665888 AAGCAAATAT
Statistics
Matches: 202, Mismatches: 37, Indels: 19
0.78 0.14 0.07
Matches are distributed among these distances:
112 11 0.05
113 111 0.55
114 77 0.38
115 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (112 bp):
TAGTGGCGTTTCGATAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTGTAAGCGCCGCAA
AATACCTTAACCAAAACGCAGCGTTTGGTTTCGAGGTATATTAGAAT
Found at i:17666019 original size:188 final size:188
Alignment explanation
Indices: 17665702--17666342 Score: 646
Period size: 188 Copynumber: 3.3 Consensus size: 188
17665692 AAGAAGCGCC
* *
17665702 GCAAATATCTTAACGAAAACGCAGCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCGTTTTTAA
1 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCATTTTTAA
*
17665767 ACAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
66 ACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
* **
17665832 AAACGCAGCGCTTGGTTTTGA-GGTATATTAGAATTAGTGGTGTTTACGATAAAACGAA
131 AAACGCAGCGCTTGG-ATCAATGGTATATTAGAATTAGTGGTGTTTACGATAAAACGAA
* *
17665890 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTGTTAGTGGCATTTTTAA
1 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCATTTTTAA
* *
17665955 AGAAACGCCGTAAAAGAACATAATTAGTGGCGTTTACTTT-TAAGCGCCGCAAAATACTTTAACC
66 ACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTA-TTTGTAAGCGCCGCAAAATACCTTAACC
* * * *
17666019 AAAACGCAGCGTTTGGATCAATTGTATATTAGAATTAGTGGTGTTTTCTATAAAACGCCGCTAAA
130 AAAACGCAGCGCTTGGATCAATGGTATATTAGAATTAGTGGTGTTTACGATAAAA---CG---AA
* * * * *** * * *** *
17666084 GAATAGAATTAGCGGCGTATCACAAAAAGCGC-CGCAAAT-ATCT-TAACCAGAGGTAGATTAGT
1 G--CA-AA-TA---TC-T-TAACGAAAA-CGCAC-CGTTTGGTCTCGAGGTAGA-TTAG--T---
* * * *
17666146 ATTAATGGCGTTTTTAAACAAACACCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCC
49 ATTAGTGGCATTTTTAAACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTAAGCGCC
* * ** *
17666211 GCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGA-GGTATATTAGAATTAGTGGCGTTTAC
114 GCAAAATACCTTAACCAAAACGCAGCGCTTGG-ATCAATGGTATATTAGAATTAGTGGTGTTTAC
**
17666275 GATAAAACGCC
178 GATAAAACGAA
* *
17666286 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTTTTAGTGGC
1 GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGC
17666343 GTTTATTTGT
Statistics
Matches: 365, Mismatches: 58, Indels: 60
0.76 0.12 0.12
Matches are distributed among these distances:
187 2 0.01
188 170 0.47
189 3 0.01
191 3 0.01
192 5 0.01
193 14 0.04
194 8 0.02
195 1 0.00
196 1 0.00
197 2 0.01
198 4 0.01
199 2 0.01
200 1 0.00
201 1 0.00
202 6 0.02
203 14 0.04
204 5 0.01
205 3 0.01
207 3 0.01
208 115 0.32
209 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (188 bp):
GCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCATTTTTAA
ACAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCA
AAACGCAGCGCTTGGATCAATGGTATATTAGAATTAGTGGTGTTTACGATAAAACGAA
Found at i:17666400 original size:75 final size:75
Alignment explanation
Indices: 17666185--17666422 Score: 356
Period size: 75 Copynumber: 3.2 Consensus size: 75
17666175 AAAGAACATC
17666185 ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAG
1 ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAG
17666250 GTATATTAGA
66 GTATATTAGA
* * * * * *
17666260 ATTAGTGGCGTTTA--CGATAAAACGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTG
1 ATTAGTGGCGTTTATTTG-T-AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTG
* *
17666322 AGGTAGATTAGT
64 AGGTATATTAGA
*
17666334 TTTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAG
1 ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAG
17666399 GTATATTAGA
66 GTATATTAGA
17666409 ATTAGTGGCGTTTA
1 ATTAGTGGCGTTTA
17666423 AGGTGAAACG
Statistics
Matches: 140, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
73 1 0.01
74 62 0.44
75 76 0.54
76 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (75 bp):
ATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAG
GTATATTAGA
Found at i:17666890 original size:26 final size:26
Alignment explanation
Indices: 17666846--17666897 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
17666836 GGTTTATAGA
* *
17666846 TTAGGGGTTAGGGGCTAAGGGTTAGG
1 TTAGGGGTTAGAGGCTAAGAGTTAGG
* *
17666872 TTAGGGGTTAGATGTTAAGAGTTAGG
1 TTAGGGGTTAGAGGCTAAGAGTTAGG
17666898 GATTTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.44, T:0.31
Consensus pattern (26 bp):
TTAGGGGTTAGAGGCTAAGAGTTAGG
Found at i:17666994 original size:7 final size:7
Alignment explanation
Indices: 17666982--17667064 Score: 80
Period size: 7 Copynumber: 11.9 Consensus size: 7
17666972 TAAATAAGGT
17666982 TTAGGGG
1 TTAGGGG
17666989 TTAGGGG
1 TTAGGGG
17666996 TTAGGGG
1 TTAGGGG
*
17667003 TTAGAGG
1 TTAGGGG
*
17667010 TTATGGG
1 TTAGGGG
*
17667017 TTAAGGGT
1 TT-AGGGG
*
17667025 TTA-AGG
1 TTAGGGG
*
17667031 TTAAGGGT
1 TT-AGGGG
17667039 TTA-GGG
1 TTAGGGG
*
17667045 TTAAGGG
1 TTAGGGG
17667052 TTAGGGG
1 TTAGGGG
17667059 TTAGGG
1 TTAGGG
17667065 ATTGGGTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
6 8 0.13
7 45 0.74
8 8 0.13
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:17667314 original size:21 final size:21
Alignment explanation
Indices: 17667261--17667314 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
17667251 TAAAGATTAT
17667261 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
17667282 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
17667303 TAATTTAAAATT
1 TAATTTAAAATT
17667315 GTAACAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:17667343 original size:20 final size:20
Alignment explanation
Indices: 17667309--17667353 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17667299 ATAATAATTT
**
17667309 AAAATTGTAACAATTGTAAA
1 AAAATTGTAACAATTACAAA
17667329 AAAATTGTCAA-AATTACAAA
1 AAAATTGT-AACAATTACAAA
17667349 AAAAT
1 AAAAT
17667354 GAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAATTGTAACAATTACAAA
Found at i:17667429 original size:47 final size:47
Alignment explanation
Indices: 17667377--17667468 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
17667367 AAAAAAGAAA
** **
17667377 TAAAAAACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACT
1 TAAAAAACTAAAATTGATAAATTTACCTAATTTTTATAAATATTACT
* * * *
17667424 TAAAAAACTGAGATTGATAAATTTATCTAATTTTTTTAAATATTA
1 TAAAAAACTAAAATTGATAAATTTACCTAATTTTTATAAATATTA
17667469 ACGAAATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (47 bp):
TAAAAAACTAAAATTGATAAATTTACCTAATTTTTATAAATATTACT
Found at i:17668043 original size:198 final size:198
Alignment explanation
Indices: 17667793--17668218 Score: 676
Period size: 198 Copynumber: 2.2 Consensus size: 198
17667783 GCCTAATATT
* * * * * * *
17667793 TAGTGGCGCTTATGTATAAATGCCGCAATTTACAGAAATTGTTTAGGAAAACGGCTCCGTTTTCT
1 TAGTGGCGCTTGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTCCATTTTCT
*
17667858 TATTTAAC-TTTAGTGGCGCTTTTAGTAAACGCCG-CAAAATGGTTTTAATTTTTATGGAGACGA
66 TATTT-ACTTTTAGTGGCGCTTTTAGTAAACGCCGAAAAAAT-GTTTTAATTTTTATGGAGACGA
* * *
17667921 TGCCGTTTTCTCTAAAACGCCATGAGTTTTAGTTAACTAATCGGGAAACGACAGCGTTTGATCAT
129 TGCCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGAAACGACAGCGTTTGATCAT
17667986 ATTAC
194 ATTAC
* *
17667991 TAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTTCATTTTCT
1 TAGTGGCGCTTGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTCCATTTTCT
17668056 TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCGAAAAAATGTTTTAATTTTTATGGAGACGATG
66 TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCGAAAAAATGTTTTAATTTTTATGGAGACGATG
* *
17668121 CCGTTTTCTCTAAAATGCAATGACTTTGAGTTAACTGATCGGGAAACGACAGCGTTTGATCATAT
131 CCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGAAACGACAGCGTTTGATCATAT
*
17668186 TAG
196 TAC
17668189 TAGTGGCGCTTGTATATAAACGCCGCAAAT
1 TAGTGGCGCTTGTATATAAACGCCGCAAAT
17668219 GGGTTAATTA
Statistics
Matches: 209, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
197 2 0.01
198 202 0.97
199 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (198 bp):
TAGTGGCGCTTGTATATAAACGCCGCAAATTACAGAAATTGTTTAAGAAAACGACTCCATTTTCT
TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCGAAAAAATGTTTTAATTTTTATGGAGACGATG
CCGTTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGAAACGACAGCGTTTGATCATAT
TAC
Found at i:17669464 original size:18 final size:19
Alignment explanation
Indices: 17669441--17669484 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
17669431 CATAAATTTC
*
17669441 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
17669459 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
17669478 TGTTTCT
1 TGTTTCT
17669485 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:17669500 original size:7 final size:7
Alignment explanation
Indices: 17669488--17669575 Score: 95
Period size: 7 Copynumber: 12.3 Consensus size: 7
17669478 TGTTTCTTTA
17669488 TTTTCTG
1 TTTTCTG
17669495 TTTTCTG
1 TTTTCTG
* *
17669502 TTTTATAT
1 TTTTCT-G
17669510 TTTTCTG
1 TTTTCTG
*
17669517 TTTTCTA
1 TTTTCTG
17669524 TTTTCTG
1 TTTTCTG
*
17669531 TGTTCTG
1 TTTTCTG
*
17669538 TTTTCTA
1 TTTTCTG
*
17669545 TTTTTTG
1 TTTTCTG
17669552 TTTTCTG
1 TTTTCTG
*
17669559 TTTTGCTA
1 TTTT-CTG
17669567 TTTTCTG
1 TTTTCTG
17669574 TT
1 TT
17669576 GAATGAAGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
7 54 0.83
8 11 0.17
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (7 bp):
TTTTCTG
Found at i:17669512 original size:21 final size:21
Alignment explanation
Indices: 17669488--17669575 Score: 113
Period size: 21 Copynumber: 4.1 Consensus size: 21
17669478 TGTTTCTTTA
* * *
17669488 TTTTCTGTTTTCTGTTTTATAT
1 TTTTCTGTTTTCTATTTTCT-G
17669510 TTTTCTGTTTTCTATTTTCTG
1 TTTTCTGTTTTCTATTTTCTG
* *
17669531 TGTTCTGTTTTCTATTTTTTG
1 TTTTCTGTTTTCTATTTTCTG
17669552 TTTTCTGTTTTGCTATTTTCTG
1 TTTTCTGTTTT-CTATTTTCTG
17669574 TT
1 TT
17669576 GAATGAAGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 29 0.50
22 29 0.50
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (21 bp):
TTTTCTGTTTTCTATTTTCTG
Found at i:17669537 original size:43 final size:43
Alignment explanation
Indices: 17669490--17669574 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
17669480 TTTCTTTATT
*
17669490 TTCTGTTTTCTGTTTTATAT-TTTTCTGTTTT-CTATTTTCTGTG
1 TTCTGTTTTCTATTTT-T-TGTTTTCTGTTTTGCTATTTTCTGTG
17669533 TTCTGTTTTCTATTTTTTGTTTTCTGTTTTGCTATTTTCTGT
1 TTCTGTTTTCTATTTTTTGTTTTCTGTTTTGCTATTTTCTGT
17669575 TGAATGAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 1 0.03
42 12 0.31
43 26 0.67
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (43 bp):
TTCTGTTTTCTATTTTTTGTTTTCTGTTTTGCTATTTTCTGTG
Found at i:17670040 original size:13 final size:13
Alignment explanation
Indices: 17670022--17670073 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
17670012 ACTTATTACT
*
17670022 AATATATTACTTG
1 AATATATTACTTA
17670035 AATATATTACTTA
1 AATATATTACTTA
17670048 AATA-AGTTACTTA
1 AATATA-TTACTTA
*
17670061 AATACATTACTTA
1 AATATATTACTTA
17670074 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 1 0.03
13 34 0.94
14 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:17670110 original size:53 final size:53
Alignment explanation
Indices: 17670041--17670176 Score: 209
Period size: 53 Copynumber: 2.6 Consensus size: 53
17670031 CTTGAATATA
* *
17670041 TTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACGTACTAAAATTTCGTTAAATTTT
* * * * *
17670094 TTATTTAAATATGTTACTCAGATACATTAAGTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACGTACTAAAATTTCGTTAAATTTT
17670147 TTACTTAAATATGTTACTTAAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
17670177 CCGCTATAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 72 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACGTACTAAAATTTCGTTAAATTTT
Found at i:17670307 original size:13 final size:13
Alignment explanation
Indices: 17670289--17670330 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
17670279 TTTTACTCTT
*
17670289 AATATATTACTTG
1 AATATATTACTTA
17670302 AATATATTACTTA
1 AATATATTACTTA
17670315 AATA-AGTTACTTA
1 AATATA-TTACTTA
17670328 AAT
1 AAT
17670331 GGATTACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 1 0.04
13 26 0.96
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:17670365 original size:53 final size:53
Alignment explanation
Indices: 17670308--17670442 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 53
17670298 CTTGAATATA
* ** *
17670308 TTACTTAAATAAGTTACTTAAATGGATTACTCACTAAAATTTGGTTAAATGTT
1 TTACTTAAATATGTTACTTAAATACATTAATCACTAAAATTTGGTTAAATGTT
* * * *
17670361 TTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTAATCACTAAAATTTGGTTAAATGTT
17670414 TTACTTAAATATGTTACTTAAATACATTA
1 TTACTTAAATATGTTACTTAAATACATTA
17670443 CCCGCTATAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 72 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTAATCACTAAAATTTGGTTAAATGTT
Found at i:17670496 original size:267 final size:267
Alignment explanation
Indices: 17670021--17670744 Score: 1358
Period size: 267 Copynumber: 2.7 Consensus size: 267
17670011 AACTTATTAC
17670021 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
1 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
* *
17670086 TAAATTTTTTATTTAAATATGTTACTCAGATACATTAAGTACTAAAATTTGGTTAAATTTTTTAC
66 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
*
17670151 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTTCATTACTTAAATAA
131 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
17670216 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
196 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
*
17670281 TTACTCT
261 TTAATCT
** * *
17670288 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATGGATTACTCACTAAAATTTGGT
1 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
*
17670353 TAAATGTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
66 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
17670418 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
131 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
17670483 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
196 ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
17670548 TTAATCT
261 TTAATCT
17670555 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
1 TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
17670620 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
66 TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
*
17670685 TTAAGTATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTA
131 TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTA
17670745 CAGAACTTGT
Statistics
Matches: 442, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
267 442 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (267 bp):
TAATATATTACTTGAATATATTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGT
TAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTTTTAC
TTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACATTACTTAAATAA
ATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAAAACATATTTTTTACTAAATT
TTAATCT
Found at i:17670574 original size:13 final size:13
Alignment explanation
Indices: 17670556--17670607 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
17670546 TTTTAATCTT
*
17670556 AATATATTACTTG
1 AATATATTACTTA
17670569 AATATATTACTTA
1 AATATATTACTTA
17670582 AATA-AGTTACTTA
1 AATATA-TTACTTA
*
17670595 AATACATTACTTA
1 AATATATTACTTA
17670608 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 1 0.03
13 34 0.94
14 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:17670633 original size:53 final size:53
Alignment explanation
Indices: 17670575--17670710 Score: 218
Period size: 53 Copynumber: 2.6 Consensus size: 53
17670565 CTTGAATATA
*
17670575 TTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* * * *
17670628 TTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*
17670681 TTACTTAAGTATGTTACTTAAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
17670711 CCGCTATAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 74 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:17670879 original size:9 final size:9
Alignment explanation
Indices: 17670855--17671105 Score: 159
Period size: 9 Copynumber: 28.8 Consensus size: 9
17670845 TATGTACAAG
17670855 AACTTACAT
1 AACTTACAT
* *
17670864 AATTTACAC
1 AACTTACAT
17670873 AACTTACAT
1 AACTTACAT
*
17670882 AACCTACAT
1 AACTTACAT
17670891 AACTTACAT
1 AACTTACAT
17670900 AA--TACA-
1 AACTTACAT
17670906 AAGCTTACAT
1 AA-CTTACAT
* *
17670916 AACTGAAAT
1 AACTTACAT
* *
17670925 AGCTTACAC
1 AACTTACAT
17670934 AACTTACAT
1 AACTTACAT
17670943 AACTTACAT
1 AACTTACAT
*
17670952 AACTTACAG
1 AACTTACAT
* *
17670961 AAGTTATAT
1 AACTTACAT
*
17670970 AATACATA-AT
1 -A-ACTTACAT
17670980 AACTTAC--
1 AACTTACAT
17670987 AACTTACAT
1 AACTTACAT
*
17670996 AACATACAT
1 AACTTACAT
* **
17671005 TACTTTGAT
1 AACTTACAT
17671014 AACTTACAT
1 AACTTACAT
*
17671023 AAGTTACAT
1 AACTTACAT
*
17671032 AA--TACAC
1 AACTTACAT
17671039 AACTTACAT
1 AACTTACAT
** *
17671048 AGTTTACTT
1 AACTTACAT
*
17671057 AA--TACAA
1 AACTTACAT
*
17671064 AACTTAAAT
1 AACTTACAT
17671073 AACTT--AT
1 AACTTACAT
17671080 -ACATGTACAT
1 AAC-T-TACAT
17671090 AACTTACAT
1 AACTTACAT
*
17671099 AATTTAC
1 AACTTAC
17671106 TTAATACATA
Statistics
Matches: 183, Mismatches: 41, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
6 4 0.02
7 25 0.14
8 5 0.03
9 136 0.74
10 8 0.04
11 5 0.03
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:17671048 original size:25 final size:25
Alignment explanation
Indices: 17671014--17671113 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
17671004 TTACTTTGAT
* * *
17671014 AACTTACATAAGTTACATAATACAC
1 AACTTACATAATTTACTTAATACAA
*
17671039 AACTTACATAGTTTACTTAATACAA
1 AACTTACATAATTTACTTAATACAA
* * * *
17671064 AACTTAAATAACTTATACAT-GTACAT
1 AACTTACATAA-TT-TACTTAATACAA
17671090 AACTTACATAATTTACTTAATACA
1 AACTTACATAATTTACTTAATACA
17671114 TAAATATATA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 4 0.07
25 36 0.60
26 16 0.27
27 4 0.07
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (25 bp):
AACTTACATAATTTACTTAATACAA
Found at i:17676662 original size:12 final size:12
Alignment explanation
Indices: 17676645--17676684 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
17676635 AGCAGATGCC
17676645 GCAGCGAGAGAA
1 GCAGCGAGAGAA
17676657 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
17676669 GCAGCGATAGAA
1 GCAGCGAGAGAA
17676681 GCAG
1 GCAG
17676685 AGGTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.40, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:17677247 original size:42 final size:42
Alignment explanation
Indices: 17677152--17677378 Score: 267
Period size: 42 Copynumber: 5.3 Consensus size: 42
17677142 CTTTTTGAAC
* * * * * *
17677152 AAGCACCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTCT
* * * *
17677195 AAACGCCGCTAAAGAATATGATCTTTTGCGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* *
17677237 AAGCACCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* *
17677279 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
*
17677321 AAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC--T
*
17677365 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
17677379 TTAGCGACGT
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 117 0.74
43 27 0.17
44 15 0.09
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
Found at i:17681176 original size:57 final size:57
Alignment explanation
Indices: 17681114--17681232 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 57
17681104 TCATTTTCAT
** * *
17681114 TTTTCATTTTAATTTTAGAGGAAACCACATTCATTTCCAAATGATT-CTATTTCTCCA
1 TTTTCATTTTAATTTTAGACAAAACCACAATAATTTCCAAAT-ATTCCTATTTCTCCA
* * * *
17681171 TTTTCATTTTTATTTTGGACAAAACCATAATAATTTCCAAATCTTCCCTATTTCTCCA
1 TTTTCATTTTAATTTTAGACAAAACCACAATAATTTCCAAATATT-CCTATTTCTCCA
17681229 TTTT
1 TTTT
17681233 ACCATTTCTA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
56 2 0.04
57 35 0.67
58 15 0.29
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (57 bp):
TTTTCATTTTAATTTTAGACAAAACCACAATAATTTCCAAATATTCCTATTTCTCCA
Found at i:17681371 original size:22 final size:22
Alignment explanation
Indices: 17681345--17681393 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
17681335 ATTATTTATA
17681345 ATTAACTTTAAGCTCTTCACTT
1 ATTAACTTTAAGCTCTTCACTT
*
17681367 ATTAAGTTTAAGCTCTTCACTT
1 ATTAACTTTAAGCTCTTCACTT
17681389 ATTAA
1 ATTAA
17681394 TTATAAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (22 bp):
ATTAACTTTAAGCTCTTCACTT
Found at i:17683802 original size:98 final size:98
Alignment explanation
Indices: 17683700--17683892 Score: 228
Period size: 98 Copynumber: 2.0 Consensus size: 98
17683690 GTGTAAACAA
** *
17683700 TGAAAGCCATCATT-TTCGGGTCATCCAAGATGGTAGAAAATCGAAATACTGAAAGTCATCATTG
1 TGAAAGCCATCATTGTT-GGACCATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATCATTG
*
17683764 TCTA-GCCACTTAGGATGGTAGAATATGAAAATAG
65 TC-AGGCCACCTAGGATGGTAGAATATGAAAATAG
* * * * * * * **
17683798 TGAAAGCTATCGTTGTTGGACCATCCGAGATGGTGGAGAATTGAAATAGTGAAAGCCATTGTTGT
1 TGAAAGCCATCATTGTTGGACCATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGT
*
17683863 CAGGCCACCTGGGATGGTAGAATATGAAAA
66 CAGGCCACCTAGGATGGTAGAATATGAAAA
17683893 CAATAAAAGT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
97 1 0.01
98 76 0.96
99 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (98 bp):
TGAAAGCCATCATTGTTGGACCATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGT
CAGGCCACCTAGGATGGTAGAATATGAAAATAG
Found at i:17683830 original size:49 final size:49
Alignment explanation
Indices: 17683727--17683933 Score: 142
Period size: 49 Copynumber: 4.2 Consensus size: 49
17683717 GGGTCATCCA
* * * * *
17683727 AGATGGTAGAAAATCG-AAATACTGAAAGTCATCATTGTCTA-GCCA-CTT
1 AGATGGTAGAATAT-GAAAATAGTGAAAGCCATCGTTGTC-AGGCCACCTG
* *
17683775 AGGATGGTAGAATATGAAAATAGTGAAAGCTATCGTTGT-TGGACCATCC-G
1 A-GATGGTAGAATATGAAAATAGTGAAAGCCATCGTTGTCAGG-CCA-CCTG
*
17683825 AGATGGTGGAGAAT-TG-AAATAGTGAAAGCCATTGTTGTCAGGCCACCTG
1 AGATGGT--AGAATATGAAAATAGTGAAAGCCATCGTTGTCAGGCCACCTG
* * * * * * *
17683874 GGATGGTAGAATATGAAAACAATAAAAGTCATCGTTG-CTAAGCCACCCG
1 AGATGGTAGAATATGAAAATAGTGAAAGCCATCGTTGTC-AGGCCACCTG
*
17683923 AGATGATAGAA
1 AGATGGTAGAA
17683934 CATTCAAATT
Statistics
Matches: 126, Mismatches: 20, Indels: 25
0.74 0.12 0.15
Matches are distributed among these distances:
47 5 0.04
48 8 0.06
49 102 0.81
50 5 0.04
51 6 0.05
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.24
Consensus pattern (49 bp):
AGATGGTAGAATATGAAAATAGTGAAAGCCATCGTTGTCAGGCCACCTG
Found at i:17683908 original size:98 final size:98
Alignment explanation
Indices: 17683721--17683910 Score: 231
Period size: 98 Copynumber: 1.9 Consensus size: 98
17683711 ATTTTCGGGT
* *
17683721 CATCCAAGATGGTAGAAAATCGAAATACTGAAAGTCATCATTGTCTAGCCACTTAGGATGGTAGA
1 CATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGTCTAGCCACCTAGGATGGTAGA
* * *
17683786 ATATGAAAATAGTGAAAGCTATCGTTGTTGGAC
66 ATATGAAAACAATAAAAGCTATCGTTGTTGGAC
* * * * * ** *
17683819 CATCCGAGATGGTGGAGAATTGAAATAGTGAAAGCCATTGTTGTC-AGGCCACCTGGGATGGTAG
1 CATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGTCTA-GCCACCTAGGATGGTAG
17683883 AATATGAAAACAATAAAAG-TCATCGTTG
65 AATATGAAAACAATAAAAGCT-ATCGTTG
17683911 CTAAGCCACC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
97 2 0.03
98 75 0.97
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (98 bp):
CATCCAAGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGTCTAGCCACCTAGGATGGTAGA
ATATGAAAACAATAAAAGCTATCGTTGTTGGAC
Found at i:17683924 original size:98 final size:98
Alignment explanation
Indices: 17683727--17683976 Score: 222
Period size: 98 Copynumber: 2.6 Consensus size: 98
17683717 GGGTCATCCA
* *
17683727 AGATGGTAGAAAATCGAAATACTGAAAGTCATCATTGTCTAGCCACTTAGGATGGTAGAATATGA
1 AGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGTCTAGCCACCTAGGATGGTAGAATATGA
* * * ** *
17683792 AAATAGTGAAAGCTATCGTTGTTGGACCATCCG
66 AAACAATAAAAGCTATCGTTGTAAGACCACCCG
* * * * ** *
17683825 AGATGGTGGAGAATTGAAATAGTGAAAGCCATTGTTGTC-AGGCCACCTGGGATGGTAGAATATG
1 AGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGTCTA-GCCACCTAGGATGGTAGAATATG
17683889 AAAACAATAAAAG-TCATCGTTGCTAAG-CCACCCG
65 AAAACAATAAAAGCT-ATCGTTG-TAAGACCACCCG
* * * * * * *
17683923 AGATGATAGAACATTC-AAATTCT-AAATGTCATCATTGTCGAGCAACCCAGGATG
1 AGATGGTAGAA-AATCGAAATACTGAAA-GCCATCATTGTCTAGCCACCTAGGATG
17683977 ACAAGAGTAT
Statistics
Matches: 118, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
97 5 0.04
98 108 0.92
99 5 0.04
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (98 bp):
AGATGGTAGAAAATCGAAATACTGAAAGCCATCATTGTCTAGCCACCTAGGATGGTAGAATATGA
AAACAATAAAAGCTATCGTTGTAAGACCACCCG
Found at i:17686820 original size:546 final size:545
Alignment explanation
Indices: 17685787--17686881 Score: 2136
Period size: 546 Copynumber: 2.0 Consensus size: 545
17685777 AAATGACACT
17685787 ACAAGGACCTCATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAC
1 ACAAGGACCTCATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAC
17685852 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAGTACTATTTATACTCACTCCAC
66 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAGTACTATTTATACTCACTCCAC
17685917 CTTTTTTATAATTGTTTAATTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAATAT
131 CTTTTTTATAATTGTTTAATTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAATAT
17685982 TTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTAGA
196 TTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTAGA
17686047 AATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAAA
261 AATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAAA
17686112 TCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTTAA
326 TCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTTAA
17686177 CAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATTA
391 CAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATTA
17686242 ACACAATTTCTTGGATAAGTCACCCATAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAAA
456 ACACAATTTCTTGGATAAGTCACCCATAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAAA
17686307 TTTACATTCAAGTCAAAAGAATCAA
521 TTTACATTCAAGTCAAAAGAATCAA
*
17686332 ACAAGGACCTTATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAC
1 ACAAGGACCTCATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAC
17686397 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAGTACTATTTATACTCACTCCAC
66 ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAGTACTATTTATACTCACTCCAC
*
17686462 CTTTTTTATAATTGTTTAATTTTTTTATTAAAGATATAAGTTTGTATTATTTTTTAGGGCTAATA
131 CTTTTTTATAATTGTTTAA-TTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAATA
*
17686527 TTTGTTGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTAG
195 TTTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTAG
17686592 AAATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAA
260 AAATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAA
*
17686657 ATCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAGAGGAAAATAAAAAAATTTA
325 ATCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTTA
17686722 ACAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATT
390 ACAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATT
*
17686787 AACACAATTTCTTGGATAAGTCACCCCTAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAA
455 AACACAATTTCTTGGATAAGTCACCCATAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAA
17686852 ATTTACATTCAAGTCAAAAGAATCAA
520 ATTTACATTCAAGTCAAAAGAATCAA
17686878 ACAA
1 ACAA
17686882 TTTTAACATA
Statistics
Matches: 544, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
545 148 0.27
546 396 0.73
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (545 bp):
ACAAGGACCTCATTATCATAGACAGTGAGTAGGGCCGAAAAATTATTAAAAGCATCAAAAGAAAC
ATTTTGGGAACATGAAAATAAACTTGTAAAATAGGAAATTACAGTACTATTTATACTCACTCCAC
CTTTTTTATAATTGTTTAATTTTTTATTAAAGATATAAGTTTGTATTATTTTTTACGGCTAATAT
TTGATGCATTGGTGACGAATGATTTTTTACATCATTAGTGGATCAAATAATGTCATGTCATTAGA
AATAAAGTTAATATTAAAATTTTCCAATAACATGTCATTAATTGATTCACTAATGGTTTATAAAA
TCACATACCCTCAATGCATCAAATTAAATTATTTTTTAATAAAAAAGGAAAATAAAAAAATTTAA
CAAAACATATTTTTTATTTTTTGTAATAAAAAGGACAAATACCCTAAGCTATTGTTTGAAAATTA
ACACAATTTCTTGGATAAGTCACCCATAGCAAAAGGTGGTTTTAGATGATTTCACGGAATACAAA
TTTACATTCAAGTCAAAAGAATCAA
Found at i:17689026 original size:26 final size:26
Alignment explanation
Indices: 17688997--17689076 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
17688987 ATCCTCTTTC
17688997 GAGCCATATAACAGGAAACTCACAAA
1 GAGCCATATAACAGGAAACTCACAAA
*
17689023 GAGCTAT-TAATCA-GAAAGCTCACAAA
1 GAGCCATATAA-CAGGAAA-CTCACAAA
* *
17689049 GAG-CATAT--CGGGAAGCTCACAAA
1 GAGCCATATAACAGGAAACTCACAAA
17689072 GAGCC
1 GAGCC
17689077 TATCAGGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
23 12 0.27
24 4 0.09
25 9 0.20
26 20 0.44
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.14
Consensus pattern (26 bp):
GAGCCATATAACAGGAAACTCACAAA
Found at i:17689068 original size:23 final size:23
Alignment explanation
Indices: 17689008--17689088 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
17688998 AGCCATATAA
*
17689008 CAGGAAACTCACAAAGAGCTATTAAT
1 CAGGAAGCTCACAAAGAGC-A-T-AT
*
17689034 CAGAAAGCTCACAAAGAGCATAT
1 CAGGAAGCTCACAAAGAGCATAT
* *
17689057 CGGGAAGCTCACAAAGAGCCTAT
1 CAGGAAGCTCACAAAGAGCATAT
17689080 CAGGAAGCT
1 CAGGAAGCT
17689089 TATCCGGGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
23 30 0.61
24 1 0.02
25 1 0.02
26 17 0.35
ACGTcount: A:0.42, C:0.22, G:0.21, T:0.15
Consensus pattern (23 bp):
CAGGAAGCTCACAAAGAGCATAT
Found at i:17689156 original size:26 final size:26
Alignment explanation
Indices: 17689125--17689215 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 26
17689115 ATAAGAGTCA
* *
17689125 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGCTCACGAAGAACTTT
*
17689151 TAATCAGGAAGCTCACGAAGAGCCTTT
1 TAATCAGGAAGCTCACGAAGA-ACTTT
* * * *
17689178 AAAT-GGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACGAAGAACTTT
17689203 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
17689216 TGGATAGCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
25 11 0.20
26 36 0.67
27 7 0.13
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
TAATCAGGAAGCTCACGAAGAACTTT
Found at i:17689378 original size:64 final size:64
Alignment explanation
Indices: 17689272--17689400 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
17689262 TTTGGAGAGC
* * * * *
17689272 CATATAACAGGACGCTCATAAAGAGCTACGGTATGTCTGCAACACATGCAGGATCACTACCGAT
1 CATATAAAAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGAAGGATCACAACCGAT
* *
17689336 CATATAAAAGGACGCTCACAAAGAGTTACGGTATGTCCGCAACATATGAAGGATCACAACCGAT
1 CATATAAAAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGAAGGATCACAACCGAT
17689400 C
1 C
17689401 GGGGTGTTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (64 bp):
CATATAAAAGGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGAAGGATCACAACCGAT
Found at i:17692983 original size:50 final size:50
Alignment explanation
Indices: 17692859--17693107 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
17692849 GATAATAACA
* * ** * *
17692859 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17692910 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17692960 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17693010 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
17693065 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
17693108 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17693037 original size:100 final size:104
Alignment explanation
Indices: 17692858--17693107 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
17692848 TGATAATAAC
**
17692858 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
17692923 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
17692960 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
17693023 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
17693065 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17693108 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:17693223 original size:13 final size:13
Alignment explanation
Indices: 17693202--17693233 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17693192 GCTTGGATCA
*
17693202 TCATCAAATAAAT
1 TCATAAAATAAAT
17693215 TCATAAAATAAAT
1 TCATAAAATAAAT
17693228 TCATAA
1 TCATAA
17693234 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17693480 original size:30 final size:30
Alignment explanation
Indices: 17693445--17693502 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17693435 CCTCGACTCT
*
17693445 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
17693475 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
17693503 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:17700574 original size:50 final size:50
Alignment explanation
Indices: 17700450--17700698 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
17700440 GATAATAACA
* * ** * *
17700450 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17700501 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17700551 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17700601 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
17700656 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
17700699 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17700628 original size:100 final size:104
Alignment explanation
Indices: 17700449--17700698 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
17700439 TGATAATAAC
**
17700449 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
17700514 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
17700551 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
17700614 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
17700656 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17700699 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:17700814 original size:13 final size:13
Alignment explanation
Indices: 17700793--17700824 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17700783 GCTTGGATCA
*
17700793 TCATCAAATAAAT
1 TCATAAAATAAAT
17700806 TCATAAAATAAAT
1 TCATAAAATAAAT
17700819 TCATAA
1 TCATAA
17700825 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17701071 original size:30 final size:30
Alignment explanation
Indices: 17701036--17701093 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17701026 CCTCGACTCT
*
17701036 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
17701066 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
17701094 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:17702392 original size:22 final size:21
Alignment explanation
Indices: 17702367--17702458 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
17702357 ACCAAATGCC
17702367 TTATATTTAGAGAT-TTTGAAAA
1 TTATATTTA-A-ATGTTTGAAAA
* *
17702389 TTATATATAATTGTTTGAAAA
1 TTATATTTAAATGTTTGAAAA
* *
17702410 TTATATTTTTGAA-G--TGAATA
1 TTATA--TTTAAATGTTTGAAAA
* *
17702430 TTATATATAATTGTTTGAAAA
1 TTATATTTAAATGTTTGAAAA
17702451 TTATATTT
1 TTATATTT
17702459 TTTTATTGAC
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 11 0.21
21 26 0.49
22 9 0.17
23 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (21 bp):
TTATATTTAAATGTTTGAAAA
Found at i:17702407 original size:21 final size:21
Alignment explanation
Indices: 17702381--17702456 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
17702371 ATTTAGAGAT
17702381 TTTGAAAATTATATATAATTG
1 TTTGAAAATTATATATAATTG
*
17702402 TTTGAAAATTATAT-T-TTTG
1 TTTGAAAATTATATATAATTG
** *
17702421 AAGTGAATATTATATATAATTG
1 -TTTGAAAATTATATATAATTG
17702443 TTTGAAAATTATAT
1 TTTGAAAATTATAT
17702457 TTTTTTATTG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.07
20 12 0.27
21 26 0.59
22 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTGAAAATTATATATAATTG
Found at i:17702436 original size:41 final size:41
Alignment explanation
Indices: 17702383--17702460 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
17702373 TTAGAGATTT
17702383 TGAAAATTATATATAATTGTTTGAAAATTATATTTTTGAAG
1 TGAAAATTATATATAATTGTTTGAAAATTATATTTTTGAAG
*
17702424 TGAATATTATATATAATTGTTTGAAAATTATATTTTT
1 TGAAAATTATATATAATTGTTTGAAAATTATATTTTT
17702461 TTATTGACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (41 bp):
TGAAAATTATATATAATTGTTTGAAAATTATATTTTTGAAG
Found at i:17707056 original size:23 final size:25
Alignment explanation
Indices: 17707012--17707057 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
17707002 TTTGGTGCAA
*
17707012 TTAACTCATTATTTTAATTTAAAAT
1 TTAACTCATTATTTTAAATTAAAAT
17707037 TTAA-TCATT-TTTTAAATTAAA
1 TTAACTCATTATTTTAAATTAAA
17707058 TCGAACTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 5 0.25
25 4 0.20
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAACTCATTATTTTAAATTAAAAT
Found at i:17708379 original size:15 final size:15
Alignment explanation
Indices: 17708359--17708392 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
17708349 ACGTTTCAAG
*
17708359 AATTAAAATTTACCA
1 AATTAAAATATACCA
17708374 AATTAAAATATACCA
1 AATTAAAATATACCA
17708389 AATT
1 AATT
17708393 TACCAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTAAAATATACCA
Found at i:17713308 original size:7 final size:6
Alignment explanation
Indices: 17713274--17713310 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
17713264 TCTTTGCTTC
*
17713274 AAGAAA AAGAAA AAGAAA AGGAAA AAGAAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA
17713311 CCCTATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:17717879 original size:31 final size:31
Alignment explanation
Indices: 17717844--17717907 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
17717834 ATATTACAAA
* *
17717844 AATTTAAATATAATTA-AAA-TGATATTTAAAT
1 AATTT-AACATAATTATAAAGT-ATAGTTAAAT
17717875 AATTTAACATAATTATAAAGTATAGTTAAAT
1 AATTTAACATAATTATAAAGTATAGTTAAAT
17717906 AA
1 AA
17717908 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 9 0.31
31 19 0.66
32 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (31 bp):
AATTTAACATAATTATAAAGTATAGTTAAAT
Found at i:17717991 original size:31 final size:31
Alignment explanation
Indices: 17717925--17717991 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
17717915 ATTGAATAGT
* * * *
17717925 TAAATAATTTAATATAATAATAGATGATATT
1 TAAATAATTTAATATAATAATACATAAAATA
17717956 TAAATAATTTAATATAATGAA-ACATAAAATA
1 TAAATAATTTAATATAAT-AATACATAAAATA
17717987 TAAAT
1 TAAAT
17717992 TAATCTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (31 bp):
TAAATAATTTAATATAATAATACATAAAATA
Found at i:17719891 original size:46 final size:46
Alignment explanation
Indices: 17719787--17720078 Score: 462
Period size: 46 Copynumber: 6.6 Consensus size: 46
17719777 TACATATGAT
* *
17719787 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17719830 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
17719876 CACTTATCATTTTGTCACTTGATCTGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17719922 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17719964 --C-TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17720007 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17720053 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17720079 AGTACTCAAA
Statistics
Matches: 232, Mismatches: 7, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
39 38 0.16
40 1 0.00
43 10 0.04
44 5 0.02
45 29 0.12
46 149 0.64
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:17719979 original size:85 final size:85
Alignment explanation
Indices: 17719791--17720057 Score: 396
Period size: 85 Copynumber: 3.1 Consensus size: 85
17719781 TATGATCACT
* *
17719791 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACTTGAT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGAT
17719853 CAGATAAGTGTAGCTAAAGCTACCAC
66 CAGATAAGTGTAGCTAAAG------C
* *
17719879 TTATCATTTTGTCACTTGATCTGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGA
1 -TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGA
17719944 TCAGATAAGTGTAGCTAAAGC
65 TCAGATAAGTGTAGCTAAAGC
*
17719965 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGAT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGAT
17720030 CAGATAAGTGTAGCTAAAGC
66 CAGATAAGTGTAGCTAAAGC
*
17720050 TACCACTT
1 TATCACTT
17720058 ATCACTTTGT
Statistics
Matches: 167, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
85 89 0.53
86 1 0.01
89 5 0.03
90 5 0.03
91 19 0.11
92 48 0.29
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (85 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGAT
CAGATAAGTGTAGCTAAAGC
Found at i:17720044 original size:131 final size:132
Alignment explanation
Indices: 17719787--17720078 Score: 466
Period size: 131 Copynumber: 2.2 Consensus size: 132
17719777 TACATATGAT
*
17719787 CACTTATCAC-TTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTGATCAGATAAGTGTAGCTA-G--A-CACTTATCACTTTGTCACTTG
* *
17719851 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTGTCACTTGATCTGATAAGTGTAGCTAA
62 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA
17719916 AGCTAC
127 AGCTAC
17719922 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-A-AGC-TATCACTTTGTCACTTGAT
1 CACTTATCACTTTGTCAC-TGATCAGATAAGTGTAGCTAGACA-CTTATCACTTTGTCACTTGAT
*
17719984 CAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
64 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
17720049 CTAC
129 CTAC
17720053 CACTTATCACTTTGTCACTGATCAGA
1 CACTTATCACTTTGTCACTGATCAGA
17720079 AGTACTCAAA
Statistics
Matches: 150, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
130 8 0.05
131 104 0.69
132 1 0.01
133 1 0.01
135 10 0.07
136 6 0.04
137 20 0.13
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (132 bp):
CACTTATCACTTTGTCACTGATCAGATAAGTGTAGCTAGACACTTATCACTTTGTCACTTGATCA
GATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
AC
Found at i:17725231 original size:22 final size:22
Alignment explanation
Indices: 17725206--17725281 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 22
17725196 ATAATATGGG
17725206 ATATGATATGATAATATATGAA
1 ATATGATATGATAATATATGAA
* *
17725228 ATATGGTA-CA-ACATGATATGAA
1 ATATGATATGATA-AT-ATATGAA
* * * *
17725250 ATATGATTTGATAAGATACGAT
1 ATATGATATGATAATATATGAA
*
17725272 ATAAGATATG
1 ATATGATATG
17725282 CTCTAATTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 33 0.82
23 2 0.05
24 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATATGATATGATAATATATGAA
Found at i:17727164 original size:18 final size:18
Alignment explanation
Indices: 17727137--17727175 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17727127 TCCATATGCA
17727137 GAGCCAGTTG-CTAGAGTT
1 GAGCCAGTTGTC-AGAGTT
*
17727155 GAGCCTGTTGTCAGAGTT
1 GAGCCAGTTGTCAGAGTT
17727173 GAG
1 GAG
17727176 TAGGTACCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (18 bp):
GAGCCAGTTGTCAGAGTT
Found at i:17728416 original size:31 final size:31
Alignment explanation
Indices: 17728381--17728449 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
17728371 TATAGGCAAA
*
17728381 TTTCAAAAGTAATTGAATCCTAATAAAACTC
1 TTTCAAAAGTAATTGAAGCCTAATAAAACTC
*
17728412 TTTCAAGAGTAATTGAAGCCTAATAAAACTC
1 TTTCAAAAGTAATTGAAGCCTAATAAAACTC
17728443 TTT-AAAA
1 TTTCAAAA
17728450 TTATCTAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (31 bp):
TTTCAAAAGTAATTGAAGCCTAATAAAACTC
Found at i:17730286 original size:15 final size:15
Alignment explanation
Indices: 17730266--17730295 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17730256 ACTTCTAGTG
17730266 CAACTCTTTATCATA
1 CAACTCTTTATCATA
17730281 CAACTCTTTATCATA
1 CAACTCTTTATCATA
17730296 GGTCGAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
CAACTCTTTATCATA
Found at i:17733861 original size:5 final size:6
Alignment explanation
Indices: 17733846--17733871 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17733836 TGATTTTGGG
17733846 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
17733872 GAACAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:17767979 original size:17 final size:16
Alignment explanation
Indices: 17767954--17767995 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17767944 TCACCAGTGC
*
17767954 TTTGGCAAATTGAGGAG
1 TTTGCCAAA-TGAGGAG
*
17767971 TTTGCCAAATGGGGAG
1 TTTGCCAAATGAGGAG
17767987 TTTGCCAAA
1 TTTGCCAAA
17767996 AGAGTATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (16 bp):
TTTGCCAAATGAGGAG
Found at i:17770383 original size:6 final size:6
Alignment explanation
Indices: 17770374--17770402 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
17770364 TAATTTAGCC
17770374 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
17770403 TATGTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:17772559 original size:8 final size:9
Alignment explanation
Indices: 17772510--17772562 Score: 69
Period size: 8 Copynumber: 6.3 Consensus size: 9
17772500 ATCATTAAAT
17772510 AATT-TTAA
1 AATTATTAA
17772518 AATTATTAA
1 AATTATTAA
17772527 AATTATT-A
1 AATTATTAA
*
17772535 TATTA-TAA
1 AATTATTAA
17772543 AATTATTAA
1 AATTATTAA
17772552 AATT-TTAA
1 AATTATTAA
17772560 AAT
1 AAT
17772563 CATTTGCTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
7 1 0.03
8 21 0.52
9 18 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTATTAA
Found at i:17783236 original size:19 final size:20
Alignment explanation
Indices: 17783212--17783254 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
17783202 CCTGACTTGA
*
17783212 AAATTTTC-AATTTCTTTCT
1 AAATTTTCTAATTTCTTTCG
*
17783231 AAATTTTCTAATTTGTTTCG
1 AAATTTTCTAATTTCTTTCG
17783251 AAAT
1 AAAT
17783255 GGTCCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (20 bp):
AAATTTTCTAATTTCTTTCG
Found at i:17784719 original size:56 final size:56
Alignment explanation
Indices: 17784644--17784757 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
17784634 TAAATATTAG
* *
17784644 AGGCAAGTCGTGAGAACGAAACTAATTAAAGCAATCGGTGTTTTTAATATTGGTGT
1 AGGCAAGTCATGAGAACGAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
17784700 AGGCAAGTCATGAGAACGAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
1 AGGCAAGTCATGAGAACGAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
17784756 AG
1 AG
17784758 TTTTTATGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.30
Consensus pattern (56 bp):
AGGCAAGTCATGAGAACGAAACTAATTAAAGCAATCGATGTTTTTAATATTGGTGT
Found at i:17787378 original size:19 final size:19
Alignment explanation
Indices: 17787344--17787392 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
17787334 GATAGAAAAG
*
17787344 ATGACAAATG-AATAT-GA
1 ATGAGAAATGAAATATGGA
17787361 TATGAGAAATGAAATATGGA
1 -ATGAGAAATGAAATATGGA
17787381 ATGATGAAATGA
1 ATGA-GAAATGA
17787393 GATGTGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 9 0.33
20 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.24
Consensus pattern (19 bp):
ATGAGAAATGAAATATGGA
Found at i:17787401 original size:19 final size:18
Alignment explanation
Indices: 17787349--17787413 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
17787339 AAAAGATGAC
17787349 AAATGAATATGATATGA-G
1 AAATGAATATGA-ATGATG
17787367 AAATGAAATATGGAATGATG
1 AAATG-AATAT-GAATGATG
*
17787387 AAATGAGATGTGAATTG-TG
1 AAATGA-ATATGAA-TGATG
17787406 AAATGAAT
1 AAATGAAT
17787414 TCAAGTATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
18 7 0.17
19 21 0.51
20 13 0.32
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.28
Consensus pattern (18 bp):
AAATGAATATGAATGATG
Found at i:17788417 original size:54 final size:54
Alignment explanation
Indices: 17788313--17788419 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
17788303 TGTGAGATCA
* * **
17788313 AAGTCAGTGAGTTATACAGGCAGAGACACGGGCTGGGACACGGCCATGTGTCTT
1 AAGTCAGTGAGTTACACAGGCAGAGACACGAGCTGGGACACAACCATGTGTCTT
* *
17788367 AAGTTAGTGAGTTACACAGGCA-AGGACACGAGCTGGGACACAACCGTGTGTCT
1 AAGTCAGTGAGTTACACAGGCAGA-GACACGAGCTGGGACACAACCATGTGTCT
17788420 AAACTTTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.20
Consensus pattern (54 bp):
AAGTCAGTGAGTTACACAGGCAGAGACACGAGCTGGGACACAACCATGTGTCTT
Found at i:17790198 original size:8 final size:8
Alignment explanation
Indices: 17790185--17790253 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
17790175 CTAAGCCCTA
17790185 TTTTTATT
1 TTTTTATT
17790193 TTTTTATT
1 TTTTTATT
*
17790201 TATTTTTTT
1 T-TTTTATT
*
17790210 TATTTTATGGA
1 T-TTTTAT--T
* *
17790221 TTTATATG
1 TTTTTATT
*
17790229 TTTTTA-C
1 TTTTTATT
17790236 TTTTTATT
1 TTTTTATT
17790244 TTTTTATT
1 TTTTTATT
17790252 TT
1 TT
17790254 CTGGATTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
7 6 0.12
8 24 0.49
9 13 0.27
10 5 0.10
11 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.04, T:0.78
Consensus pattern (8 bp):
TTTTTATT
Found at i:17801971 original size:48 final size:48
Alignment explanation
Indices: 17801900--17802034 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
17801890 TCTCATATCG
* **
17801900 ATGTCATACCCTAGATATGGTCTTATACGGGATCTCAAAATGATGTCA
1 ATGTCATATCCTAGATATGGTCTTATACGGGATCTCAAAATGATACCA
* * *
17801948 ATGTCATATCTTAGATATGGTCTTATACGGGATCTCAAATTGATACCG
1 ATGTCATATCCTAGATATGGTCTTATACGGGATCTCAAAATGATACCA
* * *
17801996 ATGCCACATCCCAGATATGGTCTTATACGGGATCTCAAA
1 ATGTCATATCCTAGATATGGTCTTATACGGGATCTCAAA
17802035 TCGATTTAGC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (48 bp):
ATGTCATATCCTAGATATGGTCTTATACGGGATCTCAAAATGATACCA
Found at i:17808200 original size:109 final size:106
Alignment explanation
Indices: 17808009--17808213 Score: 295
Period size: 109 Copynumber: 1.9 Consensus size: 106
17807999 TTATTGATTT
17808009 TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAGTAGGA
1 TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAGTAGGA
* **
17808074 AGCCTGTTTGGCCAAAATAATCTTTAAAAAAAGAAATAAAACAA
66 AGCCTATTTAACCAAAAT-A--TTTAAAAAAAGAAATAAAACAA
* * * * *
17808118 TGAAGACTGGTCATGCATGGTATTTATAGGCACCATGTATTAGAAAAACATGAACGTT-GATAGT
1 TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAG-TAGG
17808182 AAGCCTATTTAACCAAAATATTTAAAAAAAGA
65 AAGCCTATTTAACCAAAATATTTAAAAAAAGA
17808214 GAAAGAAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 12 0.14
108 2 0.02
109 73 0.84
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (106 bp):
TGAAGACAGGTCATGCATGGTATTTATACGCACCATGCATTAGAAAAACATAAACGTTAGTAGGA
AGCCTATTTAACCAAAATATTTAAAAAAAGAAATAAAACAA
Found at i:17833453 original size:136 final size:133
Alignment explanation
Indices: 17833147--17833474 Score: 308
Period size: 136 Copynumber: 2.4 Consensus size: 133
17833137 ATTCCATGTA
* *
17833147 AAAACTCAAGTTTTTCTCCTTAAAAACTCAAATAA-TTCCTATAAAACCCCAAGTTTTTCCCTTT
1 AAAACTCAAG--TTT-TCCTTAAAAACTCAAGTAATTTCCTATAAAACCCCAAGTGTTTCCCTTT
* **** * ** *
17833211 ATTGAAAAAACTAAAATTAATTTTTTTAAAAATAATAAAGGAAACTAAAAAGATAAAATAGTTTT
63 ACTGAAAAAACTAAAATTAATTTAAAAAAAAAAAATAAAGGAAAAAAAAAAGATAAAATAATTTT
17833276 TCCTTC
128 TCCTTC
* * * * *
17833282 ATAA-TCCAAGTTTTCCTCTAAATACTCAGGTAATTTCCTGTAAAATCCCAAGTGTTTCCCTCTT
1 AAAACT-CAAGTTTTCCT-TAAAAACTCAAGTAATTTCCTATAAAACCCCAAGTGTTTCCCT-TT
* *
17833346 ACT-AAAAAA-TAAAATTAATTCTAAAAAAGAAAAAATGAAATGAAAAAAAAAAGATAAATTAAT
63 ACTGAAAAAACTAAAATTAATT-TAAAAAA-AAAAAAT-AAAGGAAAAAAAAAAGATAAAATAAT
*
17833409 TTTTCGTGT-
125 TTTTCCT-TC
* ** *
17833418 AAAACTCAAGTTTTCCTATAAAAACTTAAGTAATTTATTATAAAACCCTAAGT-TTTC
1 AAAACTCAAGTTTTCCT-TAAAAACTCAAGTAATTTCCTATAAAACCCCAAGTGTTTC
17833475 TCTTCCAATT
Statistics
Matches: 155, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
132 4 0.03
133 26 0.17
134 34 0.22
135 21 0.14
136 68 0.44
137 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.34
Consensus pattern (133 bp):
AAAACTCAAGTTTTCCTTAAAAACTCAAGTAATTTCCTATAAAACCCCAAGTGTTTCCCTTTACT
GAAAAAACTAAAATTAATTTAAAAAAAAAAAATAAAGGAAAAAAAAAAGATAAAATAATTTTTCC
TTC
Found at i:17833705 original size:31 final size:31
Alignment explanation
Indices: 17833670--17833728 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
17833660 ATGTGTGCAA
17833670 TGACTAAAATAATAAAAATATGTAACGAGAG
1 TGACTAAAATAATAAAAATATGTAACGAGAG
* *
17833701 TGACTAAAATGATAAAATTATGTAACGA
1 TGACTAAAATAATAAAAATATGTAACGA
17833729 TAATATCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (31 bp):
TGACTAAAATAATAAAAATATGTAACGAGAG
Found at i:17834941 original size:21 final size:22
Alignment explanation
Indices: 17834915--17834961 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
17834905 CTCTGCTCAA
*
17834915 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
17834936 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
17834958 ACTC
1 ACTC
17834962 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:17840306 original size:18 final size:18
Alignment explanation
Indices: 17840265--17840306 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17840255 TCATTGCAAT
*
17840265 ATATGTAAAAATAATTTA
1 ATATATAAAAATAATTTA
*
17840283 AAATATAAAAATTAA-TTA
1 ATATATAAAAA-TAATTTA
17840301 ATATAT
1 ATATAT
17840307 CAATATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATATAAAAATAATTTA
Found at i:17842524 original size:17 final size:18
Alignment explanation
Indices: 17842487--17842524 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
17842477 TACAATAAAT
* *
17842487 AATATATAATAAATTTGA
1 AATATATAATAAATATAA
17842505 AATA-ATAATAAATATAA
1 AATATATAATAAATATAA
17842522 AAT
1 AAT
17842525 TAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATATATAATAAATATAA
Found at i:17842599 original size:24 final size:24
Alignment explanation
Indices: 17842473--17842772 Score: 142
Period size: 24 Copynumber: 12.8 Consensus size: 24
17842463 TGAATTGGAT
* *
17842473 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
17842498 AATTTGAAATAATAATAAAT-ATA
1 AATTTAAAATAATAATATATGATA
* *
17842521 AAATTAAAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * ***
17842542 AATTCTAGAATAATCATACGCGATA
1 AATT-TAAAATAATAATATATGATA
** * *
17842567 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
17842591 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
17842612 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** ** *
17842636 AATTTAAAATAATGTTA-ACAATG
1 AATTTAAAATAATAATATATGATA
17842659 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
17842682 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
* **
17842706 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * * *
17842730 CACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
17842752 AATTTAATAATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
17842773 AACATTCAAA
Statistics
Matches: 199, Mismatches: 56, Indels: 39
0.68 0.19 0.13
Matches are distributed among these distances:
20 1 0.01
21 15 0.08
22 27 0.14
23 63 0.32
24 76 0.38
25 16 0.08
26 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:17842741 original size:70 final size:68
Alignment explanation
Indices: 17842563--17842755 Score: 174
Period size: 70 Copynumber: 2.8 Consensus size: 68
17842553 AATCATACGC
* * * * * ** *
17842563 GATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATAT
1 GATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGATAAATTACAAATAGATAA
17842628 ACAT
65 ACAT
* ** *
17842632 GATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTACAAATA-AT
1 GATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGATAAATTACAAATAGAT
17842695 AAAACAT
63 -AAACAT
* * *
17842702 GATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATT
1 GATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGATAAATT
17842756 TAATAATAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
68 9 0.09
69 20 0.20
70 62 0.63
71 8 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (68 bp):
GATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGATAAATTACAAATAGATAAA
CAT
Found at i:17845178 original size:22 final size:22
Alignment explanation
Indices: 17845153--17845201 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
17845143 AATCATGTCA
*
17845153 TTTTGAAGTTGAAACGGTATGG
1 TTTTGAAGTTGAAACGGAATGG
17845175 TTTTGAAGTTGAAACGGAATGG
1 TTTTGAAGTTGAAACGGAATGG
17845197 TTTTG
1 TTTTG
17845202 GCTGGTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.39
Consensus pattern (22 bp):
TTTTGAAGTTGAAACGGAATGG
Found at i:17855191 original size:19 final size:20
Alignment explanation
Indices: 17855149--17855194 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
17855139 AAAAAAATTA
* *
17855149 AAAATCATAATATATTTTTG
1 AAAATTATAAAATATTTTTG
17855169 AAAATTATAAAATATTTTT-
1 AAAATTATAAAATATTTTTG
17855188 AAAATTA
1 AAAATTA
17855195 CAAGTCTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAATTATAAAATATTTTTG
Found at i:17855300 original size:22 final size:22
Alignment explanation
Indices: 17855275--17855325 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
17855265 AGAAAATCTT
17855275 AAATTTTTTTATGATTTTTTAA
1 AAATTTTTTTATGATTTTTTAA
**
17855297 AAATAATTTTATGATTTTTTAA
1 AAATTTTTTTATGATTTTTTAA
17855319 AAATTTT
1 AAATTTT
17855326 ATGGGTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
AAATTTTTTTATGATTTTTTAA
Done.