Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 99 of 190
Found at i:29933298 original size:21 final size:21
Alignment explanation
Indices: 29933248--29933298 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
29933238 TTATCCCCAC
29933248 ATGGTGTGTTGGTGGTATGGA
1 ATGGTGTGTTGGTGGTATGGA
*
29933269 GTGGTGTGTTGGTTGG-ATTGGA
1 ATGGTGTGTTGG-TGGTA-TGGA
29933291 ATGG-GTGT
1 ATGGTGTGT
29933299 CATCACTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.12, C:0.00, G:0.49, T:0.39
Consensus pattern (21 bp):
ATGGTGTGTTGGTGGTATGGA
Found at i:29933358 original size:28 final size:28
Alignment explanation
Indices: 29933313--29933406 Score: 136
Period size: 28 Copynumber: 3.4 Consensus size: 28
29933303 ACTGCATTGT
*
29933313 ACTGATTACTGTATTGGGATAAGGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
* *
29933342 ATTGTTACTATATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
29933370 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
29933398 ACTG-TACTG
1 ACTGTTACTG
29933407 ATACTGTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.08
28 51 0.86
29 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:29933421 original size:33 final size:32
Alignment explanation
Indices: 29933310--29933429 Score: 89
Period size: 28 Copynumber: 3.9 Consensus size: 32
29933300 ATCACTGCAT
* * *
29933310 TGTACTGATTACTGTATTGGGATAAGGCCCACAT
1 TGTACT-A-TACTGTATAGGGCTAAGGCCCACAC
29933344 TGTTACTATA---T-T-GGGCTAAGGCCCACAC
1 TG-TACTATACTGTATAGGGCTAAGGCCCACAC
29933372 TG---T-TACTGTA-ATGGGCTAAGGCCCACAC
1 TGTACTATACTGTATA-GGGCTAAGGCCCACAC
*
29933400 TGTACTGATACTGTATAGGGCTCAGGCCCA
1 TGTACT-ATACTGTATAGGGCTAAGGCCCA
29933430 GATTGATTCT
Statistics
Matches: 70, Mismatches: 3, Indels: 27
0.70 0.03 0.27
Matches are distributed among these distances:
23 2 0.03
24 1 0.01
26 1 0.01
28 34 0.49
29 1 0.01
30 1 0.01
31 1 0.01
33 21 0.30
34 4 0.06
35 4 0.06
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (32 bp):
TGTACTATACTGTATAGGGCTAAGGCCCACAC
Found at i:29934780 original size:5 final size:5
Alignment explanation
Indices: 29934772--29934797 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
29934762 GAGATGGAAT
29934772 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
29934798 ATATTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:29935189 original size:22 final size:22
Alignment explanation
Indices: 29935164--29935205 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29935154 ATAGTCCAAT
29935164 AAACCAACAACAATAACACACC
1 AAACCAACAACAATAACACACC
* *
29935186 AAACTAATAACAATAACACA
1 AAACCAACAACAATAACACA
29935206 TCAGTTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.29, G:0.00, T:0.10
Consensus pattern (22 bp):
AAACCAACAACAATAACACACC
Found at i:29937308 original size:39 final size:40
Alignment explanation
Indices: 29937250--29937334 Score: 136
Period size: 39 Copynumber: 2.1 Consensus size: 40
29937240 TTAAGTAAAA
* *
29937250 TAATGACTAAGTTATTCTTGCATTACAATTGTATGGTAAC
1 TAATGACTAAGTTACTCTTGCATTACAATTGTAAGGTAAC
*
29937290 -AATGACTAAGTTACTCTTGCATTGCAATTGTAAGGTAAC
1 TAATGACTAAGTTACTCTTGCATTACAATTGTAAGGTAAC
29937329 TAATGA
1 TAATGA
29937335 ATTAATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.88
40 5 0.12
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (40 bp):
TAATGACTAAGTTACTCTTGCATTACAATTGTAAGGTAAC
Found at i:29947262 original size:20 final size:20
Alignment explanation
Indices: 29947239--29947287 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
29947229 GAACCACTCT
*
29947239 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
* *
29947259 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
29947279 ATTTACTTA
1 ATTTACTTA
29947288 GCATAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:29948004 original size:40 final size:40
Alignment explanation
Indices: 29947943--29948235 Score: 363
Period size: 40 Copynumber: 7.3 Consensus size: 40
29947933 AAATCAACTG
* * * *
29947943 AACACACCAGACAGAAACTCATAAGAGCTGATCCACCCG-
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* * * *
29947982 AAGCACACTAAACAGGAGCTCATAAGAGTTGATCCAACCGT
1 AA-CACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* *
29948023 AACACGCCAAACAGAAGCTCATAATAGCTTATCCAACCGT
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* * *
29948063 AACATGCCAAACAGAAGCTCATAAGAGCTTATCCAACCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* * *
29948103 AACACGCCAAACAAAAGCTCATAAGAGCTTATCCAATCGT
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* *
29948143 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* * * *
29948183 AACACGCCAAACAGTAGCTCATAAGAGTTGATCTAATCGT
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
*
29948223 AACATGCCAAACA
1 AACACGCCAAACA
29948236 AAAAGTATAA
Statistics
Matches: 221, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
39 2 0.01
40 217 0.98
41 2 0.01
ACGTcount: A:0.42, C:0.28, G:0.15, T:0.15
Consensus pattern (40 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
Found at i:29948792 original size:22 final size:22
Alignment explanation
Indices: 29948715--29948779 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
29948705 CCTAAAACAT
* **
29948715 GCTTAGTACGTGAAACATGAGA
1 GCTTAGTACGTTAGCCATGAGA
29948737 GCTTAGTACGTTAGCCATGAGA
1 GCTTAGTACGTTAGCCATGAGA
29948759 GCTTAGTACGTTAGCCATGAG
1 GCTTAGTACGTTAGCCATGAG
29948780 GGTTTAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (22 bp):
GCTTAGTACGTTAGCCATGAGA
Found at i:29952104 original size:25 final size:25
Alignment explanation
Indices: 29952076--29952131 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
29952066 TTTCTGATTA
* *
29952076 ATGGCTCTCCAGAGCTTCCCAATAT
1 ATGGCTCGCCAGAACTTCCCAATAT
** *
29952101 ATGGCTCGCTTGAACTTCCCGATAT
1 ATGGCTCGCCAGAACTTCCCAATAT
29952126 ATGGCT
1 ATGGCT
29952132 ATTTGGAGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (25 bp):
ATGGCTCGCCAGAACTTCCCAATAT
Found at i:29952143 original size:25 final size:25
Alignment explanation
Indices: 29952087--29952179 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
29952077 TGGCTCTCCA
* **
29952087 GAGCTTCCCAATATATGGCTCGCTT-
1 GAGCTTCCCGATATATGGCT-ATTTG
*
29952112 GAACTTCCCGATATATGGCTATTTG
1 GAGCTTCCCGATATATGGCTATTTG
* *
29952137 GAGCTTCCCGAT-TAATGGCTCTTCG
1 GAGCTTCCCGATAT-ATGGCTATTTG
* *
29952162 GAGCTACCCGTTAT-TGGC
1 GAGCTTCCCGATATATGGC
29952180 ACGCATGAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
24 7 0.12
25 48 0.86
26 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTATTTG
Found at i:29952240 original size:49 final size:49
Alignment explanation
Indices: 29952138--29952241 Score: 111
Period size: 49 Copynumber: 2.1 Consensus size: 49
29952128 GGCTATTTGG
* * * *
29952138 AGCTTCCCGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCACGCATG
1 AGCTTCCCGATTAATGGCTCTTAGGAGCTACCCATTATTAGCACGCATA
* * * * *
29952187 AGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCATTATATAGCCCGGATA
1 AGCTTCCCGATTAATGGCTCTTAGGAGCTACCCATTAT-TAGCACGCATA
29952236 AGCTTC
1 AGCTTC
29952242 TCGTCACATG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (49 bp):
AGCTTCCCGATTAATGGCTCTTAGGAGCTACCCATTATTAGCACGCATA
Found at i:29960009 original size:26 final size:26
Alignment explanation
Indices: 29959980--29960038 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
29959970 CCTGATATAT
29959980 GGCTCTTGGTGAGCTTCCCGATTAAA
1 GGCTCTTGGTGAGCTTCCCGATTAAA
* * * *
29960006 GGCTGTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTGGTGAGCTTCCCGATTAAA
29960032 GGCTCTT
1 GGCTCTT
29960039 CAAAGCTACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.37
Consensus pattern (26 bp):
GGCTCTTGGTGAGCTTCCCGATTAAA
Found at i:29960154 original size:73 final size:73
Alignment explanation
Indices: 29960017--29960156 Score: 160
Period size: 73 Copynumber: 1.9 Consensus size: 73
29960007 GCTGTTTGTG
* * * * *
29960017 AGCTTCCTGATTAATGGCTCTTCAAAGCTACCCGATATGGCTCGCTTGAACTTTTCGATATATGG
1 AGCTTCCCGATTAATGGCTCTTCAAAGCTACCCAATATGGCTCGCATGAACTTCTCAATATATGG
29960082 CTATTCGA
66 CTATTCGA
** *
29960090 AGCTTCCCGATTAATGGCTCTTCGGAGCTA-CCAATTATTGGCTCGCATGAGCTTC-CTAAT-TA
1 AGCTTCCCGATTAATGGCTCTTCAAAGCTACCCAA-TA-TGGCTCGCATGAACTTCTC-AATATA
29960152 TGGCT
63 TGGCT
29960157 CTTATGATCT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
72 3 0.05
73 37 0.66
74 16 0.29
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (73 bp):
AGCTTCCCGATTAATGGCTCTTCAAAGCTACCCAATATGGCTCGCATGAACTTCTCAATATATGG
CTATTCGA
Found at i:29960163 original size:24 final size:23
Alignment explanation
Indices: 29960103--29960169 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
29960093 TTCCCGATTA
** *
29960103 ATGGCTCTTCGGAGCTACCAATT
1 ATGGCTCTTATGAGCTTCCAATT
**
29960126 ATTGGCTCGCATGAGCTTCCTAATT
1 A-TGGCTCTTATGAGCTTCC-AATT
*
29960151 ATGGCTCTTATGATCTTCC
1 ATGGCTCTTATGAGCTTCC
29960170 CGTTATACAG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
23 1 0.03
24 28 0.82
25 5 0.15
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCAATT
Found at i:29968292 original size:17 final size:18
Alignment explanation
Indices: 29968250--29968292 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
29968240 AACCATATAT
*
29968250 CTCGCCCAAACCACAAAA
1 CTCGCCAAAACCACAAAA
* *
29968268 TTCACCAAAACC-CAAAA
1 CTCGCCAAAACCACAAAA
29968285 CTCGCCAA
1 CTCGCCAA
29968293 TCAACGCATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.44, C:0.42, G:0.05, T:0.09
Consensus pattern (18 bp):
CTCGCCAAAACCACAAAA
Found at i:29970547 original size:50 final size:50
Alignment explanation
Indices: 29970422--29970669 Score: 234
Period size: 50 Copynumber: 4.9 Consensus size: 50
29970412 TGATAATAAC
* * *
29970422 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGT--TTTCTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATC-G
* * * **
29970469 TACTACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * ** *
29970521 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
** *
29970571 ATGCCAACACCATGTCCCAGACATTGTCTTACATGGGACCTCTCATAGTCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA---TC---G
*
29970627 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29970670 TTACACAAAT
Statistics
Matches: 161, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 33 0.20
50 79 0.49
51 2 0.01
52 1 0.01
53 5 0.03
56 40 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:29978084 original size:50 final size:50
Alignment explanation
Indices: 29977959--29978206 Score: 234
Period size: 50 Copynumber: 4.9 Consensus size: 50
29977949 TGATAATAAC
** * *
29977959 ATGCCAAAACCATGTCCCAGACATGGTCTTACATGGGA--TGT--TTTCTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATC-G
* * **
29978006 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * ** *
29978058 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* *
29978108 ATGCCAACGCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATAGTCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA---TC---G
* *
29978164 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29978207 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 33 0.20
50 81 0.50
51 2 0.01
52 1 0.01
53 5 0.03
56 40 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:29999237 original size:24 final size:24
Alignment explanation
Indices: 29999208--29999256 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
29999198 CATTTACAAC
29999208 ATAAATACTAAAAGATCAAAAATA
1 ATAAATACTAAAAGATCAAAAATA
*
29999232 ATAAATACTAAGAGATCAAAAATA
1 ATAAATACTAAAAGATCAAAAATA
29999256 A
1 A
29999257 ATGACTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (24 bp):
ATAAATACTAAAAGATCAAAAATA
Found at i:30006956 original size:9 final size:9
Alignment explanation
Indices: 30006942--30006971 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
30006932 AACTATCCTG
30006942 TAAAGTGTT
1 TAAAGTGTT
*
30006951 TAAAGTTTT
1 TAAAGTGTT
30006960 TAAAGTGTT
1 TAAAGTGTT
30006969 TAA
1 TAA
30006972 TAATTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAAGTGTT
Found at i:30006965 original size:18 final size:19
Alignment explanation
Indices: 30006940--30006994 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
30006930 TGAACTATCC
30006940 TGTAAAGTGTTTAAAGTTT
1 TGTAAAGTGTTTAAAGTTT
*
30006959 T-TAAAGTGTTTAATAATTT
1 TGTAAAGTGTTTAA-AGTTT
**
30006978 TGTTGAGTGTTTAAAGT
1 TGTAAAGTGTTTAAAGT
30006995 GTGTTGTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 12 0.40
19 8 0.27
20 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TGTAAAGTGTTTAAAGTTT
Found at i:30017248 original size:20 final size:20
Alignment explanation
Indices: 30017211--30017249 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30017201 TTTAAAAAAA
**
30017211 AACTACATGATATTTAAGAG
1 AACTACATGATAAATAAGAG
*
30017231 AACTAGATGATAAATAAGA
1 AACTACATGATAAATAAGA
30017250 TCTATTTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (20 bp):
AACTACATGATAAATAAGAG
Found at i:30019189 original size:25 final size:23
Alignment explanation
Indices: 30019169--30019237 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
30019159 TAAAATACCT
30019169 ATATATAAAATATTAATAAATAAAA
1 ATATATAAAATA-T-ATAAATAAAA
*
30019194 ATATATAAAATATATAAATATTAA
1 ATATATAAAATATATAAATA-AAA
*
30019218 AT-TAAAAAATAATATAAATA
1 ATATATAAAAT-ATATAAATA
30019238 TATTTTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 14 0.35
24 14 0.35
25 12 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATATAAAATATATAAATAAAA
Found at i:30019191 original size:15 final size:15
Alignment explanation
Indices: 30019171--30019239 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 15
30019161 AAATACCTAT
30019171 ATATAAAATATTAATA
1 ATATAAAATATTAA-A
30019187 A-ATAAAAATATATAAA
1 ATAT-AAAATAT-TAAA
30019203 ATATATAAATATTAAA
1 ATATA-AAATATTAAA
* * *
30019219 TTAAAAAATAATATAA
1 ATATAAAATATTA-AA
30019235 ATATA
1 ATATA
30019240 TTTTTTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
15 9 0.21
16 23 0.53
17 11 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATATTAAA
Found at i:30019212 original size:23 final size:24
Alignment explanation
Indices: 30019169--30019239 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
30019159 TAAAATACCT
30019169 ATATATAAAATATTAATAAATA-AAA
1 ATATATAAAATA-T-ATAAATATAAA
*
30019194 ATATATAAAATATATAAATATTAA
1 ATATATAAAATATATAAATATAAA
*
30019218 AT-TAAAAAATAATATAAATATA
1 ATATATAAAAT-ATATAAATATA
30019240 TTTTTTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.34
24 15 0.37
25 12 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
ATATATAAAATATATAAATATAAA
Found at i:30025930 original size:20 final size:20
Alignment explanation
Indices: 30025882--30025927 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
30025872 TAATTTTTTT
30025882 ATATTATT-ACTAATTTATA
1 ATATTATTAACTAATTTATA
*
30025901 ATAATATTAACTAATTTA-A
1 ATATTATTAACTAATTTATA
30025920 ATATTATT
1 ATATTATT
30025928 TAAATGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATTAACTAATTTATA
Found at i:30029927 original size:13 final size:11
Alignment explanation
Indices: 30029905--30029955 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
30029895 TCCACTTTAT
30029905 AAATTTTACAA
1 AAATTTTACAA
30029916 AAATACTTTAC-A
1 AAAT--TTTACAA
30029928 AAATTTTACAA
1 AAATTTTACAA
*
30029939 AAATCTT-CAA
1 AAATTTTACAA
*
30029949 AACTTTT
1 AAATTTT
30029956 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 13 0.38
11 11 0.32
12 5 0.15
13 5 0.15
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTTTACAA
Found at i:30044096 original size:17 final size:18
Alignment explanation
Indices: 30044065--30044098 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30044055 GTTGAGCCGA
30044065 AATGGGCTGTGTGGGCCC
1 AATGGGCTGTGTGGGCCC
30044083 AATGGGCT-TGTGGGCC
1 AATGGGCTGTGTGGGCC
30044099 TCACACGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.24
Consensus pattern (18 bp):
AATGGGCTGTGTGGGCCC
Found at i:30044502 original size:81 final size:80
Alignment explanation
Indices: 30044329--30044690 Score: 394
Period size: 81 Copynumber: 4.5 Consensus size: 80
30044319 CCCCAAAATA
* * * * ***
30044329 GGTAAAATGACCAAAATACCCCTGA-AGGGTAAAATGACTATTTTACC-CCTAATAGATGAAAAT
1 GGTAAAATGATCGAAATA-CCCTCATAGGGTAAAATGACCAAAATACCTCCT-A-AGAT-AAAAT
*
30044392 AACCGAAATACCCCTATAG
62 AACCGAAATACCCCCATAG
* * *
30044411 GGTAAAATGATTGAAATACCCTCATAGGGTAAAATGACCAAAATAGCCTCCTAAGTTAAAATGAC
1 GGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATA-CCTCCTAAGATAAAATAAC
*
30044476 CTAAATACCCCCATAG
65 CGAAATACCCCCATAG
** *
30044492 GGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACTGAAATACCT-CTATAGGGTAAAATAA
1 GGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCTCCTA-A-GATAAAATAA
* *
30044556 CCAAAATACACCCATAG
64 CCGAAATACCCCCATAG
* * *
30044573 GGTAAAATGACCGAAATACCCTCATAGGATAAAATGACCAAAATA-CTCCCATAAGATAAAATGA
1 GGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCT-CC-TAAGATAAAATAA
30044637 CCGAAATACCCCCATAG
64 CCGAAATACCCCCATAG
*
30044654 GGTAAAATG-TCTAAAATACCC-CTATAGGGTAAAATGA
1 GGTAAAATGATC-GAAATACCCTC-ATAGGGTAAAATGA
30044691 ACGAAATGAT
Statistics
Matches: 240, Mismatches: 30, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
79 3 0.01
80 8 0.03
81 185 0.77
82 36 0.15
83 5 0.02
84 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (80 bp):
GGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCTCCTAAGATAAAATAACC
GAAATACCCCCATAG
Found at i:30044696 original size:54 final size:54
Alignment explanation
Indices: 30044329--30044697 Score: 376
Period size: 54 Copynumber: 6.8 Consensus size: 54
30044319 CCCCAAAATA
* ** *
30044329 GGTAAAATGACCAAAATACCCCTGA-AGGGTAAAATGA-CTATTTTACCCCTAATA-
1 GGTAAAATGACCAAAATACCCCT-ATAGGGTAAAATGACCGA-AATACCCC-CATAG
* * * ** *
30044383 GATGAAAATAACCGAAATACCCCTATAGGGTAAAATGATTGAAATACCCTCATAG
1 GGT-AAAATGACCAAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAG
* *
30044438 GGTAAAATGACCAAAATAGCCTCCTA-A-GTTAAAATGACCTAAATACCCCCATAG
1 GGTAAAATGACCAAAATA-CC-CCTATAGGGTAAAATGACCGAAATACCCCCATAG
* * * * *
30044492 GGTAAAATGATCGAAATA-CCCTCATAGGGTAAAATGACTGAAATACCTCTATAG
1 GGTAAAATGACCAAAATACCCCT-ATAGGGTAAAATGACCGAAATACCCCCATAG
* *
30044546 GGTAAAATAACCAAAATACACCC-ATAGGGTAAAATGACCGAAATACCCTCATAG
1 GGTAAAATGACCAAAATAC-CCCTATAGGGTAAAATGACCGAAATACCCCCATAG
* * *
30044600 GATAAAATGACCAAAATACTCCC-ATAAGATAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATAC-CCCTATAGGGTAAAATGACCGAAATACCCCCATAG
* * *
30044654 GGTAAAATGTCTAAAATACCCCTATAGGGTAAAATGAACGAAAT
1 GGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGAAAT
30044698 GATTGTTATA
Statistics
Matches: 260, Mismatches: 43, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
51 3 0.01
52 2 0.01
53 4 0.02
54 203 0.78
55 40 0.15
56 8 0.03
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (54 bp):
GGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAG
Found at i:30044697 original size:27 final size:27
Alignment explanation
Indices: 30044329--30044697 Score: 335
Period size: 27 Copynumber: 13.6 Consensus size: 27
30044319 CCCCAAAATA
*
30044329 GGTAAAATGACCAAAATACCCCTGA-AG
1 GGTAAAATGACCGAAATACCCCT-ATAG
* **
30044356 GGTAAAATGA-CTATTTTACCCCTAATA-
1 GGTAAAATGACCGA-AATACCCCT-ATAG
* *
30044383 GATGAAAATAACCGAAATACCCCTATAG
1 GGT-AAAATGACCGAAATACCCCTATAG
**
30044411 GGTAAAATGATTGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
*
30044438 GGTAAAATGACCAAAATAGCCTCCTA-A-
1 GGTAAAATGACCGAAATA-CC-CCTATAG
* * *
30044465 GTTAAAATGACCTAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
30044492 GGTAAAATGATCGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
* *
30044519 GGTAAAATGACTGAAATACCTCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
30044546 GGTAAAATAACCAAAATACACCC-ATAG
1 GGTAAAATGACCGAAATAC-CCCTATAG
30044573 GGTAAAATGACCGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
* * *
30044600 GATAAAATGACCAAAATACTCCC-ATAA
1 GGTAAAATGACCGAAATAC-CCCTATAG
* *
30044627 GATAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* **
30044654 GGTAAAATGTCTAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
30044681 GGTAAAATGAACGAAAT
1 GGTAAAATGACCGAAAT
30044698 GATTGTTATA
Statistics
Matches: 277, Mismatches: 46, Indels: 38
0.77 0.13 0.11
Matches are distributed among these distances:
25 6 0.02
26 15 0.05
27 224 0.81
28 22 0.08
29 7 0.03
30 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:30045011 original size:26 final size:27
Alignment explanation
Indices: 30044934--30045014 Score: 96
Period size: 26 Copynumber: 3.1 Consensus size: 27
30044924 TTTACCACAT
* * *
30044934 ATACTG-TTACTGGTAGCTTTACTGCA
1 ATACTGATTACTGGCAGCTTTGCTGCG
*
30044960 ATACTGA-TACTGGCAGCTCTGCTGCG
1 ATACTGATTACTGGCAGCTTTGCTGCG
*
30044986 ATGCT-ATTACTGGCAGCTTTGCTGCG
1 ATACTGATTACTGGCAGCTTTGCTGCG
30045012 ATA
1 ATA
30045015 TTAGTGTGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.02
26 45 0.98
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.33
Consensus pattern (27 bp):
ATACTGATTACTGGCAGCTTTGCTGCG
Found at i:30045155 original size:28 final size:28
Alignment explanation
Indices: 30045115--30045218 Score: 104
Period size: 28 Copynumber: 3.5 Consensus size: 28
30045105 TTATTGCACA
30045115 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
*
30045143 ACACTGATT-CTGTATTGGGCTAAGGCGC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
*
30045171 ACACTG-TACTGTCACTGAATAGGGCTTAGGCCC
1 ACACTGTTACTGT-A-T---T-GGGCTAAGGCCC
*
30045204 AGACTGTTACTGTAT
1 ACACTGTTACTGTAT
30045219 GTTGTTTACT
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
26 1 0.02
27 4 0.06
28 31 0.49
29 3 0.05
32 2 0.03
33 16 0.25
34 6 0.10
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (28 bp):
ACACTGTTACTGTATTGGGCTAAGGCCC
Found at i:30053157 original size:211 final size:210
Alignment explanation
Indices: 30052530--30053158 Score: 1019
Period size: 210 Copynumber: 3.0 Consensus size: 210
30052520 GTTAGGAACA
*
30052530 TGTATATAAGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
* *
30052595 TATTAGACTACAGAGTTCTATATATTACACTATAAATAGGTATTAAGCAATTGAACGTACCG-GA
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTA-CGAGA
*
30052659 TGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTACGATAAATTGTTGAATTCGTGATTG
130 TGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTG
*
30052724 TTTGGTTGATGAAACT
195 TTTGGTTGATTAAACT
*
30052740 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
* * * *
30052805 TATTAGACTACTAAGTTCTATATATTACATTATAAATAGGCATTAAACAATTGAACGTACCAGAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACGAGAT
* *
30052870 GAAATAGAAAATACAGGGAAACGAGCATGCTACTAAGTATGATAAATTGTTGAATTCGTGATTCT
131 GAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
30052935 TTAGTTGATTAAACT
196 TTGGTTGATTAAACT
* *
30052950 TGTATATAGGTTGATTGTATTTACTATAAATTTTTCCATGGTAGTAGATGATTTTAAATTTTTGA
1 TGTATATAGGTTGATTGTATTTACTATAAA-TTTTGCATGATAGTAGATGATTTTAAATTTTTGA
* *
30053015 TT-TTCAGACTACAAAGTTTTATATATTACACTATAAAGAGGCATTAAGCAATTGAACGTACGAG
65 TTATT-AGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACGAG
* * * *
30053079 ATGAAATAGAAAATATAGGGAAACGAGCATGCTACTATTTATGATAAATTGTTGAATTTGTAATT
129 ATGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATT
*
30053144 GTTTGGATGATTAAA
194 GTTTGGTTGATTAAA
30053159 TTTTTGAATA
Statistics
Matches: 386, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
209 1 0.00
210 227 0.59
211 158 0.41
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (210 bp):
TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACGAGAT
GAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
TTGGTTGATTAAACT
Found at i:30054332 original size:210 final size:209
Alignment explanation
Indices: 30053963--30054585 Score: 947
Period size: 210 Copynumber: 3.0 Consensus size: 209
30053953 GTTAAGAACA
*
30053963 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTTAT
* * *
30054028 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGCCATTAAGCAATTGAACGTACCAAAT
66 TATTAGACTACTAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
**
30054093 GAAATAGAAAATACTTGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
131 GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
30054158 TTGGTTGATTAAACT
196 TTGGTTGATTAAA-T
*
30054173 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTACATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTTAT
* * * * *
30054238 TATTAGACTACTAATTTCTATATATTATATTATAAATAGGCATTAAACAATTGAACATACCAGAT
66 TATTAGACTACTAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
*
30054303 GAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
131 GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
30054368 ATGGTTG-----A-
196 TTGGTTGATTAAAT
* *
30054376 T-TATATAGGTTGATTGTATTTACTATAAATTTTTTCATGATAGTAGATGATTATAAATTTTTTA
1 TGTATATAGGTTGATTGTATTTACTATAAA-TTTTGCATGATAGTAGATGATTTTAAATTTTTTA
* * *
30054440 TT-TTCAGACTACTAAGCTCTGTATATTACACTATAAAGAGGCATTAAGCAATTGAACGTACCAG
65 TTATT-AGACTACTAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAG
* * * * *
30054504 ATGAAATATAAAAGACAGGAAAACTAGCATGCTACTATGTATGATAAATTGTTGAATTTGTGATT
129 ATGAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATT
30054569 GTTTGGTTGATTAAAT
194 GTTTGGTTGATTAAAT
30054585 T
1 T
30054586 TGTGAATAAT
Statistics
Matches: 374, Mismatches: 31, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
202 30 0.08
203 153 0.41
205 1 0.00
208 1 0.00
209 1 0.00
210 188 0.50
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (209 bp):
TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTTAT
TATTAGACTACTAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
TTGGTTGATTAAAT
Found at i:30056301 original size:23 final size:22
Alignment explanation
Indices: 30056247--30056304 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
30056237 CTTTTTAAAG
* *
30056247 GATTGTAATTTATTTTAGGATA
1 GATTGTTATTTATTTTAGAATA
*
30056269 -ATT-TTA-TTATTTTAATAATA
1 GATTGTTATTTATTTT-AGAATA
30056289 GATTGTTATTTATTTT
1 GATTGTTATTTATTTT
30056305 TGTGTTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 7 0.24
20 6 0.21
21 6 0.21
22 3 0.10
23 7 0.24
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (22 bp):
GATTGTTATTTATTTTAGAATA
Found at i:30063027 original size:25 final size:25
Alignment explanation
Indices: 30062999--30063071 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
30062989 TCCTGTACAT
* *
30062999 GTATGCTCACACGAGCTGTGAATCA
1 GTATGCTCTCACGAGCTGTAAATCA
* * *
30063024 GTATGCTTTCACAAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCA
*
30063049 GTATGCTCTCACGAGCTATAAAT
1 GTATGCTCTCACGAGCTGTAAAT
30063072 TGATGTGCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCA
Found at i:30071510 original size:20 final size:21
Alignment explanation
Indices: 30071467--30071510 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30071457 TTAGGAAAAC
*
30071467 TTTATTCTATTAATTTATTCA
1 TTTATTCTATTAATTTAATCA
30071488 TTTATTC-ATTAATTTTAAT-A
1 TTTATTCTATTAA-TTTAATCA
30071508 TTT
1 TTT
30071511 TTAATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTCTATTAATTTAATCA
Found at i:30077172 original size:3 final size:3
Alignment explanation
Indices: 30077164--30077315 Score: 64
Period size: 3 Copynumber: 50.7 Consensus size: 3
30077154 TTATTTTTGT
* * *
30077164 TTA TTA TTA TT- GTA TTA TTTA TT- TCT- TTA TTT TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * * *
30077208 TTA -TA TTG TTA TCA TTC TTA TTA TTA TTA ATA ATA TTA TTA -TA CTGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * ** *
30077255 CGTTA TTA CTA TTA CTA TTA TTA TTA CAA TTA TTA TTTA TTG TTA TTA
1 --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* *
30077303 GT- TTC TTA TTA TT
1 TTA TTA TTA TTA TT
30077316 CTACTGTTAA
Statistics
Matches: 109, Mismatches: 30, Indels: 20
0.69 0.19 0.13
Matches are distributed among these distances:
2 8 0.07
3 92 0.84
4 7 0.06
5 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:30087804 original size:14 final size:14
Alignment explanation
Indices: 30087785--30087825 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
30087775 TTAAAAAGCT
30087785 ATAAAAATAAATAA
1 ATAAAAATAAATAA
*
30087799 ATAAAAATATA-AA
1 ATAAAAATAAATAA
*
30087812 AT-CAAATAAATAA
1 ATAAAAATAAATAA
30087825 A
1 A
30087826 AGGAATAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 6 0.26
13 7 0.30
14 10 0.43
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:30088708 original size:25 final size:25
Alignment explanation
Indices: 30088665--30088743 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
30088655 TATATATTAA
*
30088665 ATATTTATT-TTTTTAATCAAATAT
1 ATATTTTTTATTTTTAATCAAATAT
30088689 ATATTTTTTATTTTTAATCAAATAT
1 ATATTTTTTATTTTTAATCAAATAT
* *
30088714 ATATTTTATATTTATTAA--ATATAT
1 ATATTTTTTATTT-TTAATCAAATAT
30088738 ATATTT
1 ATATTT
30088744 AATATGCGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
24 19 0.38
25 27 0.54
26 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
ATATTTTTTATTTTTAATCAAATAT
Found at i:30091925 original size:26 final size:27
Alignment explanation
Indices: 30091865--30091928 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
30091855 TTTACTCTAG
30091865 TAAAATTTTGACAATTTTACCCCTCGA
1 TAAAATTTTGACAATTTTACCCCTCGA
* * *
30091892 TAAAATTTTTACGATTTTAGCCC-CGA
1 TAAAATTTTGACAATTTTACCCCTCGA
30091918 TAAAATTTTGA
1 TAAAATTTTGA
30091929 GAAAATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (27 bp):
TAAAATTTTGACAATTTTACCCCTCGA
Found at i:30093909 original size:67 final size:67
Alignment explanation
Indices: 30093795--30093925 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 67
30093785 TTTTCGTACA
* * **
30093795 ACTATATTCCCGACACTTGGAAACTTTCCAAGTGACAGAGTTCGTCAGCCATTGAGCGGGTATCC
1 ACTATATTCCCAACACTTGGAAACTTTCCAAGTGACAAAGTTCGTCAGCCATCAAGCGGGTATCC
30093860 CG
66 CG
* * *
30093862 ACTATATTCCCAACACTTGGAAACTTTTCAAGTGATAAAGTTTGTCAGCCATCAAGCGGGTATC
1 ACTATATTCCCAACACTTGGAAACTTTCCAAGTGACAAAGTTCGTCAGCCATCAAGCGGGTATC
30093926 TCAACCAGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (67 bp):
ACTATATTCCCAACACTTGGAAACTTTCCAAGTGACAAAGTTCGTCAGCCATCAAGCGGGTATCC
CG
Found at i:30096125 original size:42 final size:41
Alignment explanation
Indices: 30096000--30096156 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 41
30095990 CACATGTGCA
* *
30096000 CCCCTAGTTGTACTTCGGTTCCCCTAAATTGCACATACGTG
1 CCCCTATTTGTACTTCGGTACCCCTAAATTGCACATACGTG
*
30096041 CCCCTCTTTGTACTTCGGTACCCCTAAATTGCACATACGTG
1 CCCCTATTTGTACTTCGGTACCCCTAAATTGCACATACGTG
* * * ** * * *
30096082 CCCTTGTTTGAACTTCAATACCCCCTGAATTGTACATATGTG
1 CCCCTATTTGTACTTCGGTA-CCCCTAAATTGCACATACGTG
*
30096124 CCCCTATTTGTACTTCGGTACCCCTGAA-TGCAC
1 CCCCTATTTGTACTTCGGTACCCCTAAATTGCAC
30096157 TTTTTTGCCC
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 4 0.04
41 61 0.62
42 33 0.34
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.32
Consensus pattern (41 bp):
CCCCTATTTGTACTTCGGTACCCCTAAATTGCACATACGTG
Found at i:30105220 original size:30 final size:30
Alignment explanation
Indices: 30105179--30105235 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
30105169 GGTAGAGTGA
*
30105179 GAATGAGCATTGGTATCACTTGATGAATTC
1 GAATGACCATTGGTATCACTTGATGAATTC
30105209 GAATGACCATTGGTATCACTTGATGAA
1 GAATGACCATTGGTATCACTTGATGAA
30105236 CCCGATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (30 bp):
GAATGACCATTGGTATCACTTGATGAATTC
Found at i:30111992 original size:50 final size:50
Alignment explanation
Indices: 30111892--30112076 Score: 167
Period size: 50 Copynumber: 3.6 Consensus size: 50
30111882 GAGATACCAT
* * * *
30111892 GTAAGACCATGTTTGGGTCATGGCATTGACATTATTGAGATTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGC---ATCGAGA-TA--AGAGGTCCCAC
30111948 GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATAAGAGGTCCC-C
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATAAGAGGTCCCAC
* * * * ** *
30111997 ATTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAA-AACTCCCAT
1 -GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT-AAGAGGTCCCAC
* *
30112048 GTAAGACCATATCTGGGATATGGCATTGG
1 GTAAGACCATGTCTGGGACATGGCATTGG
30112077 AAGTACAGGA
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 1 0.01
50 73 0.66
51 2 0.02
52 2 0.02
53 6 0.05
56 27 0.24
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATAAGAGGTCCCAC
Found at i:30115478 original size:15 final size:14
Alignment explanation
Indices: 30115455--30115490 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
30115445 CACATTTCAC
*
30115455 TATTTTGTCTTTTG
1 TATTTTGTCTTTTA
30115469 TATTTCTGTCTTTTA
1 TATTT-TGTCTTTTA
30115484 TATTTTG
1 TATTTTG
30115491 CATGCATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.69
Consensus pattern (14 bp):
TATTTTGTCTTTTA
Found at i:30122918 original size:16 final size:16
Alignment explanation
Indices: 30122897--30122933 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
30122887 TTGGTTCGCT
*
30122897 GTAATGGAATATAGAC
1 GTAATGGAATAGAGAC
30122913 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
30122929 GTAAT
1 GTAAT
30122934 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:30122977 original size:45 final size:44
Alignment explanation
Indices: 30122913--30123002 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
30122903 GAATATAGAC
30122913 GTAATGGAATAGAGACGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* * *
30122958 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
30123002 G
1 G
30123003 GAATAGAGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.44
45 22 0.54
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:30123145 original size:11 final size:11
Alignment explanation
Indices: 30123126--30123158 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
30123116 TTAATATAAA
30123126 TAATAAATAATT
1 TAAT-AATAATT
30123138 TAATAATAATT
1 TAATAATAATT
30123149 TAA-AATAATT
1 TAATAATAATT
30123159 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:30123179 original size:24 final size:21
Alignment explanation
Indices: 30123103--30123216 Score: 79
Period size: 20 Copynumber: 5.1 Consensus size: 21
30123093 GTTATTAAAT
30123103 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
30123125 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
30123147 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
** *
30123173 TTTAATAAAAAAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
30123193 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
30123215 TT
1 TT
30123217 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
20 15 0.21
21 15 0.21
22 15 0.21
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:30123231 original size:57 final size:57
Alignment explanation
Indices: 30123116--30123253 Score: 154
Period size: 57 Copynumber: 2.4 Consensus size: 57
30123106 AATAAGATTA
* *
30123116 TTAATATAAATAATAAATAATTTAATAATAATTTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAAAAATATATAATTTAATAATAATTTAAAATAATTATTATTAAATATAAT
* * *
30123174 TTAATAAAAAAATATATAATTTAATAA-AATTCTTAATATAATTATTCTTATAT-TAAT
1 TTAATAAAAAAATATATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
*
30123231 TTATTAAAATCATAATATATAAT
1 TTAATAAAA--A-AATATATAAT
30123254 AATATAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
56 2 0.03
57 32 0.46
58 24 0.35
59 1 0.01
60 10 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (57 bp):
TTAATAAAAAAATATATAATTTAATAATAATTTAAAATAATTATTATTAAATATAAT
Found at i:30123663 original size:77 final size:77
Alignment explanation
Indices: 30123536--30123687 Score: 286
Period size: 77 Copynumber: 2.0 Consensus size: 77
30123526 TTTTTGTCCA
30123536 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
30123601 ATTAACATAACT
66 ATTAACATAACT
*
30123613 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATGTATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
*
30123678 ATTGACATAA
66 ATTAACATAA
30123688 AACTTTAAGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (77 bp):
CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
ATTAACATAACT
Found at i:30130083 original size:2 final size:2
Alignment explanation
Indices: 30130076--30130127 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
30130066 ACCGAATCAT
30130076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
30130118 TA TA TT TA TA
1 TA TA TA TA TA
30130128 ATGACACTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30130327 original size:9 final size:9
Alignment explanation
Indices: 30130294--30130368 Score: 57
Period size: 9 Copynumber: 8.3 Consensus size: 9
30130284 TTTTTAAAAA
30130294 ATATTTTATT
1 ATATTTT-TT
*
30130304 TTATTTTTT
1 ATATTTTTT
*
30130313 AAATTTTTT
1 ATATTTTTT
* *
30130322 GTATTTTTA
1 ATATTTTTT
*
30130331 ATAATTTTT
1 ATATTTTTT
30130340 AT-TTATTTT
1 ATATT-TTTT
30130349 -TATTTTTT
1 ATATTTTTT
30130357 GA-ATTTTTT
1 -ATATTTTTT
30130366 ATA
1 ATA
30130369 AAGTTATGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
8 7 0.14
9 37 0.74
10 6 0.12
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
ATATTTTTT
Found at i:30130363 original size:35 final size:34
Alignment explanation
Indices: 30130302--30130369 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
30130292 AAATATTTTA
*
30130302 TTTTATTTTTTAAATTTTTTGTATTTTTAATAAT
1 TTTTATTTTTTAAATTTTTTGAATTTTTAATAAT
** *
30130336 TTTTATTTATTTTTATTTTTTGAATTTTTTATAA
1 TTTTATTT-TTTAAATTTTTTGAATTTTTAATAA
30130370 AGTTATGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (34 bp):
TTTTATTTTTTAAATTTTTTGAATTTTTAATAAT
Found at i:30130543 original size:4 final size:4
Alignment explanation
Indices: 30130534--30130563 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
30130524 CCGTTTTGAT
30130534 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
30130564 ATCCTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:30131428 original size:28 final size:28
Alignment explanation
Indices: 30131388--30131443 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30131378 CTTGGAGCAA
30131388 GCTTGTAGAAGAAATATTTGAACTCTTT
1 GCTTGTAGAAGAAATATTTGAACTCTTT
30131416 GCTTGTAGAAGAAATATTTGAACTCTTT
1 GCTTGTAGAAGAAATATTTGAACTCTTT
30131444 CATTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (28 bp):
GCTTGTAGAAGAAATATTTGAACTCTTT
Found at i:30136106 original size:13 final size:11
Alignment explanation
Indices: 30136078--30136116 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
30136068 ATTTTTTTAA
30136078 TTTTAAAATAT
1 TTTTAAAATAT
30136089 TTTTAAAATACTT
1 TTTTAAAATA--T
30136102 TTTTAAAAT-T
1 TTTTAAAATAT
30136112 TTTTA
1 TTTTA
30136117 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.23
11 10 0.38
13 10 0.38
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:30142920 original size:16 final size:19
Alignment explanation
Indices: 30142882--30142922 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
30142872 TTGGAGCAAC
30142882 TACAATCAATTATACATCA
1 TACAATCAATTATACATCA
30142901 TACAATC-ATT-TACA-CA
1 TACAATCAATTATACATCA
30142917 TACAAT
1 TACAAT
30142923 TAAGTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 3 0.14
19 7 0.32
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (19 bp):
TACAATCAATTATACATCA
Found at i:30143005 original size:25 final size:25
Alignment explanation
Indices: 30142971--30143022 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
30142961 TTCCGGGGTC
30142971 TGATATGAGCTTACAATAGCTCTTT
1 TGATATGAGCTTACAATAGCTCTTT
30142996 TGATATGAGCTTACAATAGCTCTTT
1 TGATATGAGCTTACAATAGCTCTTT
30143021 TG
1 TG
30143023 CTAACTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (25 bp):
TGATATGAGCTTACAATAGCTCTTT
Found at i:30160112 original size:14 final size:15
Alignment explanation
Indices: 30160086--30160115 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30160076 CAATATAATA
30160086 AATAAATAAATATTT
1 AATAAATAAATATTT
30160101 AATAAA-AAATATTT
1 AATAAATAAATATTT
30160115 A
1 A
30160116 CGGGCTCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAATAAATATTT
Found at i:30165175 original size:322 final size:322
Alignment explanation
Indices: 30164590--30165237 Score: 1215
Period size: 322 Copynumber: 2.0 Consensus size: 322
30164580 AAAATCCTAC
*
30164590 TTTGTTAAATATGATAGGTATATGTGATGCTATGGATTTATTCATTTTGTGAGTTGTTGAATATG
1 TTTGTTAAATATGATAGGTATATGTGATGCTATGGATTTATCCATTTTGTGAGTTGTTGAATATG
*
30164655 TATTCATGAATCTTGCGGTATCGATATAGGGTTATTCATGATATGTGTAAATTTCATATTTGAAA
66 TATTCATGAATCTTGCGGTATCGATATAAGGTTATTCATGATATGTGTAAATTTCATATTTGAAA
*
30164720 TGGATAGATATGATTAAAGTTTATACGAGCTTACTAAGTATTCATTGCTTACGTAGTTATTTTTT
131 TGGATAGATATGATTAAAGTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTT
*
30164785 CTTACTTTTTAGATTATCGGAAGCTCAATTGGGTTGGAAACTCGTCGAAGACCTATCACAATGTC
196 CTTACTTTTCAGATTATCGGAAGCTCAATTGGGTTGGAAACTCGTCGAAGACCTATCACAATGTC
*
30164850 CAAAGATTATATCGGTAGATTTTGATGTCTTGGTTAAGGTTATAATGGCATGTATAGGTTAT
261 CAAAGATTATATCAGTAGATTTTGATGTCTTGGTTAAGGTTATAATGGCATGTATAGGTTAT
*
30164912 TTTGTTAAATATGATAGGTATATGTGATGCTGTGGATTTATCCATTTTGTGAGTTGTTGAATATG
1 TTTGTTAAATATGATAGGTATATGTGATGCTATGGATTTATCCATTTTGTGAGTTGTTGAATATG
*
30164977 TATTCATGAATCTTGCGGTATCGATATAAGGTTATTCTTGATATGTGTAAATTTCATATTTGAAA
66 TATTCATGAATCTTGCGGTATCGATATAAGGTTATTCATGATATGTGTAAATTTCATATTTGAAA
30165042 TGGATAGATATGATTAAAGTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTT
131 TGGATAGATATGATTAAAGTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTT
* *
30165107 CTTACTTTTCAGATTATCGGAAGCTCAATTGGGTTGGAAACTCTTCGAAGACCTATCACACTGTC
196 CTTACTTTTCAGATTATCGGAAGCTCAATTGGGTTGGAAACTCGTCGAAGACCTATCACAATGTC
30165172 CAAAGATTATATCAGTAGATTTTGATGTCTTGGTTAAGGTTATAATGGCATGTATAGGTTAT
261 CAAAGATTATATCAGTAGATTTTGATGTCTTGGTTAAGGTTATAATGGCATGTATAGGTTAT
30165234 TTTG
1 TTTG
30165238 GCTAATGTTG
Statistics
Matches: 317, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
322 317 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (322 bp):
TTTGTTAAATATGATAGGTATATGTGATGCTATGGATTTATCCATTTTGTGAGTTGTTGAATATG
TATTCATGAATCTTGCGGTATCGATATAAGGTTATTCATGATATGTGTAAATTTCATATTTGAAA
TGGATAGATATGATTAAAGTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTT
CTTACTTTTCAGATTATCGGAAGCTCAATTGGGTTGGAAACTCGTCGAAGACCTATCACAATGTC
CAAAGATTATATCAGTAGATTTTGATGTCTTGGTTAAGGTTATAATGGCATGTATAGGTTAT
Found at i:30171469 original size:3 final size:3
Alignment explanation
Indices: 30171461--30171527 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
30171451 AAAGTATCGC
30171461 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30171509 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
30171528 AGTGTTCTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30172231 original size:22 final size:22
Alignment explanation
Indices: 30172206--30172273 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
30172196 GTGTGTTGGT
* *
30172206 AAAGTTGGGGGTTTCAAGGGGG
1 AAAGTTGGGGATATCAAGGGGG
* *
30172228 AAAGTTAGGGATATCAGGGGGG
1 AAAGTTGGGGATATCAAGGGGG
30172250 AAAGTTGGGGATATC-AGGGGG
1 AAAGTTGGGGATATCAAGGGGG
30172271 AAA
1 AAA
30172274 ATTTATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 8 0.20
22 32 0.80
ACGTcount: A:0.31, C:0.04, G:0.46, T:0.19
Consensus pattern (22 bp):
AAAGTTGGGGATATCAAGGGGG
Found at i:30176695 original size:46 final size:44
Alignment explanation
Indices: 30176604--30176697 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
30176594 ATTACAATAT
*
30176604 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
*
30176648 CATTCCATTCAACCAAACAAAAGGATTACCTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAA-GAATA-CTATTACGCCTCTATTC
30176694 CATT
1 CATT
30176698 ACACCTCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 21 0.46
45 4 0.09
46 21 0.46
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.29
Consensus pattern (44 bp):
CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
Found at i:30176704 original size:16 final size:16
Alignment explanation
Indices: 30176679--30176714 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30176669 AGGATTACCT
*
30176679 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
30176695 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
30176711 ATTA
1 ATTA
30176715 TAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:30177005 original size:21 final size:21
Alignment explanation
Indices: 30176957--30177024 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
30176947 CTCCTAACGT
30176957 CTAACCCCTAAACCCTTAA-CC
1 CTAACCCCTAAA-CCTTAATCC
30176978 CTTAACCCCTAAACCTTAAATCC
1 C-TAACCCCTAAACCTT-AATCC
* *
30177001 C-AACCCTTAAACCATAATCC
1 CTAACCCCTAAACCTTAATCC
30177021 CTAA
1 CTAA
30177025 ATCCATACTC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 6 0.15
21 19 0.46
22 13 0.32
23 3 0.07
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAACCCCTAAACCTTAATCC
Found at i:30177025 original size:28 final size:28
Alignment explanation
Indices: 30176974--30177028 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
30176964 CTAAACCCTT
* * *
30176974 AACCCTTAACCCCTAAACCTTAAATCCC
1 AACCCTTAAACCATAAACCCTAAATCCC
*
30177002 AACCCTTAAACCATAATCCCTAAATCC
1 AACCCTTAAACCATAAACCCTAAATCC
30177029 ATACTCCTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (28 bp):
AACCCTTAAACCATAAACCCTAAATCCC
Found at i:30177434 original size:41 final size:41
Alignment explanation
Indices: 30177389--30177747 Score: 381
Period size: 41 Copynumber: 8.9 Consensus size: 41
30177379 TAAAATGTTT
* *
30177389 TTAGCGGCGCTTTTTCAAAAATAG-CGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAA-CGCCGCTAAAACCCCCAGCA
* * *
30177430 TTAGCGGCGCTTTTCCAAAAACTCAGCTAAAA-CCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCCAGCA
* * **
30177470 TTAGCAGCGCTTTTT-ATAAAACGCCGCTAAAACACTGAGCA
1 TTAGCGGCGCTTTTTCA-AAAACGCCGCTAAAACCCCCAGCA
* * * *
30177511 TTAGCGGTGCTTTTTCAAAAACGCCACCAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCCAGCA
* * * *
30177552 TTAGCGACGCCTTTTCAAAAACGCCGCTAAAATCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCCAGCA
* * * * * *
30177593 TTAGCGGCGCTTTTTAAAAAATGCCGTTAAAACACCAAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCCAGCA
*
30177634 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAAACCCCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCCAGCA
* * *
30177674 TTAGCGGCGCATTTTCAAAAATGCCGCT-AAA--CCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCCAGCA
* * *
30177712 TTAGCGGCACTTTTTTAAAAACGCCGCTAAAGCCCC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCC
30177748 GAAAGGTAAG
Statistics
Matches: 261, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
38 30 0.11
39 3 0.01
40 72 0.28
41 155 0.59
42 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCCAGCA
Found at i:30177524 original size:81 final size:79
Alignment explanation
Indices: 30177389--30177742 Score: 335
Period size: 81 Copynumber: 4.4 Consensus size: 79
30177379 TAAAATGTTT
* * *
30177389 TTAGCGGCGCTTTTTCAAAAATAG-CGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAAAAACT
1 TTAGCGGCGC-TTTTCAAAAA-CGCCGCTAAA-ACCCGAGCATTAGCGGCGCTTTT-CAAAAACT
30177453 -CAGCTAAAACCCCAGCA
62 GCAGCTAAAACCCCAGCA
* * * *
30177470 TTAGCAGCGCTTTTTATAAAACGCCGCTAAAACACTGAGCATTAGCGGTGCTTTTTCAAAAAC-G
1 TTAGCGGCGCTTTTCA-AAAACGCCGCTAAAAC-CCGAGCATTAGCGGCGC-TTTTCAAAAACTG
* *
30177534 CCA-CCAAAGCCCCCAGCA
63 -CAGCTAAA-ACCCCAGCA
* * *
30177552 TTAGCGACGCCTTTTCAAAAACGCCGCTAAAATCCCGAGCATTAGCGGCGCTTTTTAAAAAATGC
1 TTAGCGGCG-CTTTTCAAAAACGCCGCTAAAA-CCCGAGCATTAGCGGCGCTTTTCAAAAACTGC
* * * *
30177617 CGTTAAAACACCAAACA
64 AGCTAAAAC-CCCAGCA
*
30177634 TTAGCGGCGCTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCGCATTTTCAAAAA-TGC
1 TTAGCGGCGCTTTTCAAAAACGCCGCTAAAA-CCCGAGCATTAGCGGCGC-TTTTCAAAAACTGC
* *
30177698 CGCT-AAA-CCGAGCA
64 AGCTAAAACCCCAGCA
* *
30177712 TTAGCGGCACTTTTTTAAAAACGCCGCTAAA
1 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAA
30177743 GCCCCGAAAG
Statistics
Matches: 228, Mismatches: 31, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
78 14 0.06
79 19 0.08
80 10 0.04
81 101 0.44
82 77 0.34
83 7 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (79 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAAACCCGAGCATTAGCGGCGCTTTTCAAAAACTGCAG
CTAAAACCCCAGCA
Found at i:30177648 original size:122 final size:122
Alignment explanation
Indices: 30177389--30177742 Score: 457
Period size: 122 Copynumber: 2.9 Consensus size: 122
30177379 TAAAATGTTT
*
30177389 TTAGCGGCGCTTTTTCAAAAATAG-CGCTAAAGCCCCCAGCATTAGCGGCG-CTTTTCCAAAAAC
1 TTAGCGGCGCTTTTTCAAAAA-CGCCGCTAAAGCCCCCAGCATTAGCGGCGCCTTTT-CAAAAAC
* * * * * ** *
30177452 TCAGCTAAAACCCCAGCATTAGCAGCGCTTTTTATAAAACGCCGCTAAAACACTGAGCA
64 GCCGCTAAAACCCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACACCAAACA
* * * *
30177511 TTAGCGGTGCTTTTTCAAAAACGCCACCAAAGCCCCCAGCATTAGCGACGCCTTTTCAAAAACGC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGGCGCCTTTTCAAAAACGC
* *
30177576 CGCTAAAATCCCGAGCATTAGCGGCGCTTTTTAAAAAATGCCGTTAAAACACCAAACA
66 CGCTAAAA-CCCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACACCAAACA
* * * *
30177634 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCGCATTTTCAAAAATGC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGGCGCCTTTTCAAAAACGC
* *
30177698 CGCT-AAA-CCGAGCATTAGCGGCACTTTTTTAAAAACGCCGCTAAA
66 CGCTAAAACCCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
30177743 GCCCCGAAAG
Statistics
Matches: 202, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
119 34 0.17
121 4 0.02
122 109 0.54
123 55 0.27
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (122 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGGCGCCTTTTCAAAAACGC
CGCTAAAACCCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACACCAAACA
Found at i:30188873 original size:15 final size:14
Alignment explanation
Indices: 30188852--30188887 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
30188842 ATAATCCTTA
*
30188852 ATAATTATCTTAAT
1 ATAATTATCCTAAT
30188866 AGTAATTATCCTAAT
1 A-TAATTATCCTAAT
30188881 ATAATTA
1 ATAATTA
30188888 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:30190764 original size:61 final size:61
Alignment explanation
Indices: 30190699--30190825 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 61
30190689 ATTTTAAATA
* * * ** * *
30190699 TAAAAAATTCAACAAATTTAGCACTCAATGTCTGCAAAATTTGTCATTTTAGTTCTAATTC
1 TAAAAAATTCAACAAAATTAGCACTCAATATCTACAAAATTTGTCAAATTAGTCCTAACTC
* * * * * *
30190760 TAAAAATTTTAATAAAATTGGCCCTCAATATTTACAAAATTTGTCAAATTAGTCCTAACTC
1 TAAAAAATTCAACAAAATTAGCACTCAATATCTACAAAATTTGTCAAATTAGTCCTAACTC
30190821 TAAAA
1 TAAAA
30190826 TTAAAAATAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (61 bp):
TAAAAAATTCAACAAAATTAGCACTCAATATCTACAAAATTTGTCAAATTAGTCCTAACTC
Found at i:30192002 original size:123 final size:124
Alignment explanation
Indices: 30191783--30192131 Score: 585
Period size: 123 Copynumber: 2.8 Consensus size: 124
30191773 TTATTTCGAG
* *
30191783 TTGACATTTCTG-GTCAAATTGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
30191847 GAAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAA-TTTTT
65 GAAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * * *
30191906 TTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTACGAGGATGATATTTGAGTAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
30191971 AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
30192030 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * *
30192095 AAATCGCGTCCTCGTGGACGCGAATTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAG
30192132 CAAGTTTGGG
Statistics
Matches: 210, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
123 110 0.52
124 100 0.48
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:30195396 original size:24 final size:27
Alignment explanation
Indices: 30195322--30195492 Score: 112
Period size: 29 Copynumber: 6.4 Consensus size: 27
30195312 TGTAAAATTA
*
30195322 GGTTAGGATTTTTAATTAAATTAGGTTAG
1 GGTTAGG-GTTTT-ATTAAATTAGGTTAG
30195351 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGG-TTTT-ATTAAATTAGGTTAG
*
30195380 GGTTAGGG-TTT-TT-AATTAAGTTA-
1 GGTTAGGGTTTTATTAAATTAGGTTAG
* * **
30195403 -GTTA--ATTGTTAGTAAAATTAAATTAG
1 GGTTAGGGTT-TTA-TTAAATTAGGTTAG
* * *
30195429 AGTT----TTTAATTAAATTAGTTTAG
1 GGTTAGGGTTTTATTAAATTAGGTTAG
30195452 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGG-TTTT-ATTAAATTAGGTTAG
30195481 GGTTAGGGTTTT
1 GGTTAGGGTTTT
30195493 TAATTAAGTT
Statistics
Matches: 116, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
21 1 0.01
22 6 0.05
23 14 0.12
24 12 0.10
25 13 0.11
27 6 0.05
28 7 0.06
29 57 0.49
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (27 bp):
GGTTAGGGTTTTATTAAATTAGGTTAG
Found at i:30195414 original size:29 final size:29
Alignment explanation
Indices: 30195322--30195403 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
30195312 TGTAAAATTA
*
30195322 GGTTAGGATTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
30195351 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
30195380 GGTTAGGGTTTTTAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAG
30195404 TTAATTGTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:30195435 original size:101 final size:100
Alignment explanation
Indices: 30195313--30195540 Score: 402
Period size: 101 Copynumber: 2.3 Consensus size: 100
30195303 ATCAAAATAT
**
30195313 GTAAAATTAGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 GTAAAATTAAATTAGG-TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
30195378 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
65 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
*
30195414 GTAAAATTAAATTAGAGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 GTAAAATTAAATTAG-GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
30195479 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
65 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
*
30195515 GTAAAATTAAATTAGGGTTTTAATTA
1 GTAAAATTAAATTAGGTTTTTAATTA
30195541 CATCAAATAN
Statistics
Matches: 122, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
100 10 0.08
101 111 0.91
102 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (100 bp):
GTAAAATTAAATTAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
GGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
Found at i:30195462 original size:29 final size:29
Alignment explanation
Indices: 30195425--30195506 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
30195415 TAAAATTAAA
*
30195425 TTAGAGTTTTTAATTAAATTAGTTTAGGG
1 TTAGGGTTTTTAATTAAATTAGTTTAGGG
*
30195454 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGTTTAGGG
*
30195483 TTAGGGTTTTTAATTAAGTTAGTT
1 TTAGGGTTTTTAATTAAATTAGTT
30195507 AATTGTTAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGTTTAGGG
Found at i:30195486 original size:72 final size:72
Alignment explanation
Indices: 30195353--30195486 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
30195343 TAGGTTAGGG
* * **
30195353 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTAA
1 TTAGAGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAAGGGTTAGTAA
30195418 AATTAAA
66 AATTAAA
*
30195425 TTAGAGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAG
1 TTAGAGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GTTAAGGGTTAG
30195487 GGTTTTTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 53 0.95
73 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.46
Consensus pattern (72 bp):
TTAGAGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAAGGGTTAGTAA
AATTAAA
Found at i:30196695 original size:7 final size:7
Alignment explanation
Indices: 30196685--30196709 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30196675 TCATATACAT
30196685 AATACTA
1 AATACTA
30196692 AATACTA
1 AATACTA
30196699 AATACTA
1 AATACTA
30196706 AATA
1 AATA
30196710 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:30197832 original size:31 final size:32
Alignment explanation
Indices: 30197786--30197851 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 32
30197776 GCCATTGATG
*
30197786 AAAATATAAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATATAAAATTATTTTAAA
30197818 AAAATAT-AAAAAAATATAAAATTATTTTAAA
1 AAAATATAAAAAAAATATAAAATTATTTTAAA
30197849 AAA
1 AAA
30197852 TGAAATTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAATATAAAAAAAATATAAAATTATTTTAAA
Found at i:30197918 original size:51 final size:51
Alignment explanation
Indices: 30197854--30197965 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 51
30197844 TTAAAAAATG
* *
30197854 AAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTCGAAGA
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCGAAGA
* * *
30197905 AAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGAATTTTGGAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCGAAGA
30197956 AAATTGAGAG
1 AAATTGAGAG
30197966 AATTTTGGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.29
Consensus pattern (51 bp):
AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTCGAAGA
Found at i:30197965 original size:22 final size:22
Alignment explanation
Indices: 30197940--30197987 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
30197930 TATGGGTTTC
30197940 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
30197962 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
30197984 AGAG
1 AGAG
30197988 GATTAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:30230002 original size:177 final size:177
Alignment explanation
Indices: 30229706--30230063 Score: 617
Period size: 177 Copynumber: 2.0 Consensus size: 177
30229696 CGAGTGATTG
* * *
30229706 GTGAGTGTTTGGAATCGCTGTTAGTAGACAGGATTCATAGTGTTAATTAGGAGCTTAGGAATAGC
1 GTGAGTGTTTCGAATCGCCGCTAGTAGACAGGATTCATAGTGTTAATTAGGAGCTTAGGAATAGC
* *
30229771 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGCTTTCTATTTCCCCTTGATTTATTTGGGTAAAAT
66 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTGGGCAAAAT
* *
30229836 GTGTGATTATGTGAATAATTGTGGATTGAGTAATATGATGTGATATT
131 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
* *
30229883 GTGAGTGTTTCGAATCGCCGCTAGTAGACATGATTCATAGTGTTAATTGGGAGCTTAGGAATAGC
1 GTGAGTGTTTCGAATCGCCGCTAGTAGACAGGATTCATAGTGTTAATTAGGAGCTTAGGAATAGC
* *
30229948 CTAAACCCGTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
66 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTGGGCAAAAT
30230013 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
131 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
30230060 GTGA
1 GTGA
30230064 CATGAGATGT
Statistics
Matches: 170, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 170 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (177 bp):
GTGAGTGTTTCGAATCGCCGCTAGTAGACAGGATTCATAGTGTTAATTAGGAGCTTAGGAATAGC
CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTGGGCAAAAT
GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
Found at i:30236385 original size:15 final size:16
Alignment explanation
Indices: 30236356--30236385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30236346 CAAACATGCT
30236356 TTAACACATTATCAAA
1 TTAACACATTATCAAA
30236372 TTAACACA-TATCAA
1 TTAACACATTATCAA
30236386 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:30236870 original size:15 final size:16
Alignment explanation
Indices: 30236852--30236881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30236842 TTTCATTTTT
30236852 ATTTCA-TTACTTTCC
1 ATTTCATTTACTTTCC
30236867 ATTTCATTTACTTTC
1 ATTTCATTTACTTTC
30236882 TTTAACTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTCATTTACTTTCC
Found at i:30236875 original size:20 final size:19
Alignment explanation
Indices: 30236834--30236875 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
30236824 CCTTTTAAAT
*
30236834 TTTCTTACTTTCATTTTTA
1 TTTCTTACTTTCATTTTCA
30236853 TTTCATTACTTTCCA-TTTCA
1 TTTC-TTACTTT-CATTTTCA
30236873 TTT
1 TTT
30236876 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTCTTACTTTCATTTTCA
Found at i:30248485 original size:115 final size:115
Alignment explanation
Indices: 30248283--30248490 Score: 344
Period size: 115 Copynumber: 1.8 Consensus size: 115
30248273 AAGCCTCGAA
* *
30248283 GTAAAGTGGTACTCGAGGAACTTTCAAGAGTGGTAGAACAATCACCAAGTTCAATTCGCGAGAAA
1 GTAAAGTGGTACTCGAGGAACTTTCAAGAGTGGTAGAACAATCACCAAGTTCAATTCGCAAAAAA
*
30248348 TTTGCAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAG
66 GTTGCAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAG
* * *
30248398 GTAAAGTGGTACTCGAGGAACTTTCAGGAGTGGTAGAACAATCACCAAGTTTAATTCTCAAAAAA
1 GTAAAGTGGTACTCGAGGAACTTTCAAGAGTGGTAGAACAATCACCAAGTTCAATTCGCAAAAAA
* *
30248463 GTTGTAGAAAAACCTGCAAACGATCAAC
66 GTTGCAGAAAAACCTACAAACGATCAAC
30248491 TTTCGAGAGT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 85 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (115 bp):
GTAAAGTGGTACTCGAGGAACTTTCAAGAGTGGTAGAACAATCACCAAGTTCAATTCGCAAAAAA
GTTGCAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAG
Found at i:30248536 original size:72 final size:72
Alignment explanation
Indices: 30248416--30248562 Score: 233
Period size: 72 Copynumber: 2.0 Consensus size: 72
30248406 GTACTCGAGG
*
30248416 AACTTTCAGGAGTGGTAGAACAATCACCAAGTTTAATTCTCAAAAAAGTTGTAGAAAAACCTGCA
1 AACTTTCAGGAGTGGTAGAACAATCACCAAGTTCAATTCTCAAAAAAGTTGTAGAAAAACCTGCA
30248481 AACGATC
66 AACGATC
** * *
30248488 AACTTTC-GAGAGTGGTAGAACAATCACCAAGTTCAATTCTTGAGAAAGTTGTAGAAAAACTTGC
1 AACTTTCAG-GAGTGGTAGAACAATCACCAAGTTCAATTCTCAAAAAAGTTGTAGAAAAACCTGC
30248552 AAACGATC
65 AAACGATC
30248560 AAC
1 AAC
30248563 AACATAGAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
71 1 0.01
72 68 0.99
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (72 bp):
AACTTTCAGGAGTGGTAGAACAATCACCAAGTTCAATTCTCAAAAAAGTTGTAGAAAAACCTGCA
AACGATC
Found at i:30249777 original size:45 final size:45
Alignment explanation
Indices: 30249713--30249891 Score: 202
Period size: 45 Copynumber: 4.0 Consensus size: 45
30249703 TACTGGGTAC
* *
30249713 CATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCAAGTAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTAT
* * *
30249758 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCGGGTA-
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTAT
* * * * *
30249802 CTATTGATTATGAAGGTGGTTGTTATTTGCTGATTCTACTGAGTAT
1 C-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTAT
* * * *
30249848 CATTGAATATTAGGGTGG-TGCTATGTGCTGA-TCCACCGTGTAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTAT
30249891 C
1 C
30249892 TGTTATTATT
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
43 10 0.09
44 12 0.10
45 92 0.80
46 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAGTAT
Found at i:30249865 original size:90 final size:88
Alignment explanation
Indices: 30249707--30249885 Score: 223
Period size: 90 Copynumber: 2.0 Consensus size: 88
30249697 TACGTGTACT
* *
30249707 GGGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCAAGTATCATTGATTATAAAG
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCAAGTATCATTGAATATAAAG
* *
30249772 GTGGTTGTTGTGTGCTGATTCCACC
66 GTGG-TGCTATGTGCTGA-TCCACC
* * * * * ** * *
30249797 GGGTACTATTGATTATGAAGGTGGTTGTTATTTGCTGATTCTACTGAGTATCATTGAATATTAGG
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCAAGTATCATTGAATATAAAG
30249862 GTGGTGCTATGTGCTGATCCACC
66 GTGGTGCTATGTGCTGATCCACC
30249885 G
1 G
30249886 TGTATCTGTT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 7 0.09
89 11 0.14
90 58 0.76
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (88 bp):
GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCAAGTATCATTGAATATAAAG
GTGGTGCTATGTGCTGATCCACC
Found at i:30253396 original size:15 final size:15
Alignment explanation
Indices: 30253378--30253409 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30253368 TATTTTACTA
*
30253378 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
30253393 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
30253408 TT
1 TT
30253410 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:30257464 original size:13 final size:13
Alignment explanation
Indices: 30257446--30257482 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
30257436 CAAACTCGTT
30257446 TAGTAACCTCCTG
1 TAGTAACCTCCTG
30257459 TAGTAACCTCCTG
1 TAGTAACCTCCTG
30257472 TAGTAACCTCC
1 TAGTAACCTCC
30257483 AAAACCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (13 bp):
TAGTAACCTCCTG
Found at i:30264647 original size:20 final size:20
Alignment explanation
Indices: 30264611--30264648 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30264601 ATGTCCACAT
*
30264611 TTCTGGCAGCTTGTCTGCAA
1 TTCTGGCAGCTTATCTGCAA
*
30264631 TTCTGGCAGTTTATCTGC
1 TTCTGGCAGCTTATCTGC
30264649 GTATCTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (20 bp):
TTCTGGCAGCTTATCTGCAA
Found at i:30277241 original size:16 final size:16
Alignment explanation
Indices: 30277222--30277263 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30277212 ATTAGTAGTT
**
30277222 AATAAATAATTTTTTA
1 AATAAATAATTTGGTA
*
30277238 AATAAATAAATTGGTA
1 AATAAATAATTTGGTA
30277254 AATAAATAAT
1 AATAAATAAT
30277264 AATAAACTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
AATAAATAATTTGGTA
Found at i:30279026 original size:5 final size:6
Alignment explanation
Indices: 30278995--30279032 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
30278985 TTTTAGTTAG
*
30278995 TTATTT TTATTT TTACTTT TAATTT TTA-TT TTATTT TT
1 TTATTT TTATTT TTA-TTT TTATTT TTATTT TTATTT TT
30279033 GTTTCTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:30279579 original size:299 final size:299
Alignment explanation
Indices: 30279041--30279637 Score: 1122
Period size: 299 Copynumber: 2.0 Consensus size: 299
30279031 TTGTTTCTGC
30279041 AAATAAACTTCAGATGCAATCAAGATTGGTTTTAATTTACTTTTTAGGTTTTTCTCTTATTATTT
1 AAATAAACTTCAGATGCAATCAAGATTGGTTTTAATTTACTTTTTAGGTTTTTCTCTTATTATTT
*
30279106 TCCTCTGATGAATGTTTGGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCTTC
66 TCCTCTGATGAATGTTTGGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCCTC
30279171 AATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAATC
131 AATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAATC
* *
30279236 AATTTTGTATGGCATCTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTTAAGTATTTTTTAT
196 AATTTTGTATGGAATCTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTTAT
30279301 GTTAAGTAAATCATGAAATGAATGTTAATTTTAATGAGA
261 GTTAAGTAAATCATGAAATGAATGTTAATTTTAATGAGA
*
30279340 AAATAAACTTCAGATGCAATCAAGATTGGTTTTAATTTACTTTTTGGGTTTTTCTCTTATTATTT
1 AAATAAACTTCAGATGCAATCAAGATTGGTTTTAATTTACTTTTTAGGTTTTTCTCTTATTATTT
* *
30279405 TCCTCTGATGAATGTTTTGAACAATGAGGACATTGTTCTGCTTAAGTTTGGGGGGATTGTGCCTC
66 TCCTCTGATGAATGTTTGGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCCTC
30279470 AATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAATC
131 AATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAATC
*
30279535 AATTTTGTATGGAATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTTAT
196 AATTTTGTATGGAATCTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTTAT
*
30279600 GTTAAGTAAATCATGAAATGAATGTTGATTTTAATGAG
261 GTTAAGTAAATCATGAAATGAATGTTAATTTTAATGAG
30279638 CATGTATAGG
Statistics
Matches: 290, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
299 290 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (299 bp):
AAATAAACTTCAGATGCAATCAAGATTGGTTTTAATTTACTTTTTAGGTTTTTCTCTTATTATTT
TCCTCTGATGAATGTTTGGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCCTC
AATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAATC
AATTTTGTATGGAATCTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTTAT
GTTAAGTAAATCATGAAATGAATGTTAATTTTAATGAGA
Found at i:30280072 original size:2 final size:2
Alignment explanation
Indices: 30280067--30280093 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30280057 CCTATGTGGA
30280067 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
30280094 AGTATCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30280333 original size:21 final size:21
Alignment explanation
Indices: 30280309--30280348 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30280299 GTCTCATACA
30280309 TCAA-CATAAACATAGCATAAG
1 TCAATCATAAACAT-GCATAAG
*
30280330 TCAATCATATACATGCATA
1 TCAATCATAAACATGCATA
30280349 TCATCCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (21 bp):
TCAATCATAAACATGCATAAG
Found at i:30283473 original size:23 final size:22
Alignment explanation
Indices: 30283447--30283491 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30283437 AAATTGTTTA
30283447 TTTA-CCATTTAAGTCCATTTAAT
1 TTTATCCA-TTAAG-CCATTTAAT
*
30283470 TTTATTCATTAAGCCATTTAAT
1 TTTATCCATTAAGCCATTTAAT
30283492 CATTCAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 9 0.45
24 2 0.10
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTAAT
Found at i:30284550 original size:68 final size:68
Alignment explanation
Indices: 30284441--30284577 Score: 238
Period size: 68 Copynumber: 2.0 Consensus size: 68
30284431 GGGCTTAGAC
* *
30284441 AGAACAGCTTGAAGGATTCAGAACCTTTCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
1 AGAACAGCTTGAAAGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
30284506 ATT
66 ATT
* *
30284509 AGAACAGCTTGAAAGATTCAGAACCTATCACGTTGGGTTTCAAAGCAAACTTCATTCCAGACCCA
1 AGAACAGCTTGAAAGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
30284574 ATT
66 ATT
30284577 A
1 A
30284578 CATGGATACT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (68 bp):
AGAACAGCTTGAAAGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
ATT
Found at i:30296580 original size:60 final size:61
Alignment explanation
Indices: 30296511--30296628 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 61
30296501 TTAATCTTTT
* * * *
30296511 TTTTTTGATACAATGTCT-AAACTACCCA-TCTAACCTTTAAATAAGAGGATAATATACCTG
1 TTTTTTGATACAAT-TCTCAAACTACCCACCCCAACCTTTAAATAAAACGATAATATACCTG
*
30296571 TTTTTTGATACAATTTTCAAACTACCCACCCCAACCTTTAAATAAAACGATAATATAC
1 TTTTTTGATACAATTCTCAAACTACCCACCCCAACCTTTAAATAAAACGATAATATAC
30296629 TTTAACGCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 2 0.04
60 24 0.47
61 25 0.49
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (61 bp):
TTTTTTGATACAATTCTCAAACTACCCACCCCAACCTTTAAATAAAACGATAATATACCTG
Found at i:30301467 original size:15 final size:15
Alignment explanation
Indices: 30301447--30301478 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30301437 AAAGAAATAA
30301447 TTTAATTTTTAAACT
1 TTTAATTTTTAAACT
30301462 TTTAATTTTTAAACT
1 TTTAATTTTTAAACT
30301477 TT
1 TT
30301479 GGTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTAAACT
Found at i:30302226 original size:18 final size:18
Alignment explanation
Indices: 30302193--30302239 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
30302183 ATGCGCCAAT
*
30302193 ATGCACTTCGTGTGCCAGG
1 ATGCACTT-ATGTGCCAGG
30302212 ATGCACTTATGTGCCAGG
1 ATGCACTTATGTGCCAGG
*
30302230 ATGCGCTTAT
1 ATGCACTTAT
30302240 ACGCCAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (18 bp):
ATGCACTTATGTGCCAGG
Found at i:30302245 original size:18 final size:18
Alignment explanation
Indices: 30302206--30302245 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30302196 CACTTCGTGT
**
30302206 GCCAGGATGCACTTATGT
1 GCCAGGATGCACTTATAC
*
30302224 GCCAGGATGCGCTTATAC
1 GCCAGGATGCACTTATAC
30302242 GCCA
1 GCCA
30302246 ATATGCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.23
Consensus pattern (18 bp):
GCCAGGATGCACTTATAC
Found at i:30302245 original size:55 final size:56
Alignment explanation
Indices: 30302156--30302261 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 56
30302146 ATATAGGCTT
* * * *
30302156 ATGCACATTGTGTGTCAAGATGTGCTTATGCGCCAATATGCACTTCGTGTGCCAGG
1 ATGCACATTATGTGCCAAGATGCGCTTATACGCCAATATGCACTTCGTGTGCCAGG
* *
30302212 ATGCAC-TTATGTGCCAGGATGCGCTTATACGCCAATATGCATTTCGTGTG
1 ATGCACATTATGTGCCAAGATGCGCTTATACGCCAATATGCACTTCGTGTG
30302262 ACAATTTTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 38 0.86
56 6 0.14
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (56 bp):
ATGCACATTATGTGCCAAGATGCGCTTATACGCCAATATGCACTTCGTGTGCCAGG
Found at i:30304320 original size:16 final size:19
Alignment explanation
Indices: 30304282--30304320 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 19
30304272 CTTTTCCCTA
30304282 ATTAAGTAATTTTTAAATC
1 ATTAAGTAATTTTTAAATC
30304301 -TTAAGT-A-TTTTAAA-C
1 ATTAAGTAATTTTTAAATC
30304316 ATTAA
1 ATTAA
30304321 AGGGCTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.05
16 11 0.58
17 1 0.05
18 6 0.32
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
ATTAAGTAATTTTTAAATC
Found at i:30304725 original size:75 final size:77
Alignment explanation
Indices: 30304569--30304744 Score: 259
Period size: 75 Copynumber: 2.3 Consensus size: 77
30304559 TAAACTCACA
* * *
30304569 TTAAATGTTACTTAAAACATTAAAGGGTTTTAAAGAAATAAAGAAACTCATAAATAACGGGAAAT
1 TTAAATGTTACTTAAAACATTAAAGGCTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAA
30304634 TTACTTAATTTC
66 TTACTTAATTTC
* * * *
30304646 TTAAATGTTACAT-AAACATTAAAGGACTTTTAAA-AAATTAAGTAACTCA-AAATAATGAGAAA
1 TTAAATGTTACTTAAAACATTAAAGG-CTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAA
30304708 ATTACTTAATTTC
65 ATTACTTAATTTC
30304721 TTAAATGTTACTTAAAACATTAAA
1 TTAAATGTTACTTAAAACATTAAA
30304745 AATTCCTAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
75 35 0.39
76 35 0.39
77 19 0.21
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (77 bp):
TTAAATGTTACTTAAAACATTAAAGGCTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAA
TTACTTAATTTC
Found at i:30304901 original size:77 final size:77
Alignment explanation
Indices: 30304569--30305177 Score: 321
Period size: 77 Copynumber: 8.0 Consensus size: 77
30304559 TAAACTCACA
* * * ** ***
30304569 TTAAATG-TTACTTAAAACATT-AAAGGGTTTTAAAGAAATAAAGAAACTCATAAATAACGGG-A
1 TTAAATGATTACTTAAATCATTAAAAGGATTTT-AAGAAATAAATAATTTC-TAAATCTTGGGTA
30304631 AATTTACTTAATTTC
64 AA-TTACTTAATTTC
* * * * * ** * *
30304646 TTAAATG-TTACATAAA-CATT-AAAGGACTTTTAAAAAATTAAGTAA-CTCAAAATAATGAGAA
1 TTAAATGATTACTTAAATCATTAAAAGGA-TTTTAAGAAA-TAAATAATTTCTAAATCTTGGGTA
30304707 AATTACTTAATTTC
64 AATTACTTAATTTC
* * ** * *
30304721 TTAAATG-TTACTTAAAACATTAAAA--ATTCCTAA-ATCTTGCTGAATTACTTAAT-TAAATCT
1 TTAAATGATTACTTAAATCATTAAAAGGATT-TTAAGA----AAT-AAATAATT--TCTAAATCT
*
30304781 TGGGTAATTTACTTAATTTC
58 TGGGTAAATTACTTAATTTC
*
30304801 TTAAATGA-GACTTAAAAT-ATT-AAAGGATTTTTAA-AAATAAATTAATTTCTAAATCTTGGGT
1 TTAAATGATTACTT-AAATCATTAAAAGGA-TTTTAAGAAATAAA-TAATTTCTAAATCTTGGGT
* *
30304862 AAATAACTTAATTTTT
63 AAATTACTTAA-TTTC
* * *
30304878 TTAAA-GATTACTTAAATCATTAAAAGGCTTTTAAGAAATCAAATAA-TTCTTGAATCTTGGGAA
1 TTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAAT-AAATAATTTC-TAAATCTTGGGTA
30304941 AATTACTTAATTTC
64 AATTACTTAATTTC
* * *** *
30304955 TTAAATG-TTACTTAAAACATTAAAAGGATTTAAAGAAATCACGGAATTTTTAAATCTTGGGTAA
1 TTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAAT-AAATAATTTCTAAATCTTGGGTAA
*
30305019 ATTATTTAATTTC
65 ATTACTTAATTTC
* * * * *
30305032 TTAAATG-TTGC------C----AAAGGAATTTAAAGAAATTAAGTAATTACTAAATCAT-GGTA
1 TTAAATGATTACTTAAATCATTAAAAGG-ATTTTAAGAAA-TAAATAATTTCTAAATCTTGGGTA
* *
30305085 AGTTATTTAATTTC
64 AATTACTTAATTTC
* * ** **
30305099 TTAAATG-TTACTTAAAACATTAAAGGGATTTTAAGAAATCAAATAA-TTCTAAAATCACGGAAA
1 TTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAAT-AAATAATTTCT-AAATCTTGGGTA
30305162 AATTACTTAATTTC
64 AATTACTTAATTTC
30305176 TT
1 TT
30305178 TTAGGGATTT
Statistics
Matches: 423, Mismatches: 64, Indels: 90
0.73 0.11 0.16
Matches are distributed among these distances:
67 32 0.08
68 24 0.06
69 1 0.00
71 1 0.00
73 1 0.00
74 3 0.01
75 44 0.10
76 74 0.17
77 152 0.36
78 39 0.09
79 6 0.01
80 35 0.08
81 9 0.02
82 2 0.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (77 bp):
TTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATAAATAATTTCTAAATCTTGGGTAAA
TTACTTAATTTC
Found at i:30305093 original size:67 final size:67
Alignment explanation
Indices: 30304977--30305107 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 67
30304967 TAAAACATTA
* ** *
30304977 AAAGGATTTAAAGAAATCACGGAATTTTTAAATCTTGGGTAAATTATTTAATTTCTTAAATGTTG
1 AAAGGATTTAAAGAAATCAAGGAATTACTAAATCATGGGTAAATTATTTAATTTCTTAAATGTTG
30305042 CC
66 CC
* * *
30305044 AAAGGAATTTAAAGAAATTAAGTAATTACTAAATCAT-GGTAAGTTATTTAATTTCTTAAATGTT
1 AAAGG-ATTTAAAGAAATCAAGGAATTACTAAATCATGGGTAAATTATTTAATTTCTTAAATGTT
30305108 ACTTAAAACA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 31 0.55
68 25 0.45
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (67 bp):
AAAGGATTTAAAGAAATCAAGGAATTACTAAATCATGGGTAAATTATTTAATTTCTTAAATGTTG
CC
Found at i:30305596 original size:17 final size:17
Alignment explanation
Indices: 30305566--30305664 Score: 80
Period size: 17 Copynumber: 5.9 Consensus size: 17
30305556 TTTATAATTA
*
30305566 TATTTTTAGAATATTTTT
1 TATTTTTA-TATATTTTT
30305584 TATTTTTATATATTTTT
1 TATTTTTATATATTTTT
** *
30305601 TAAATTTATA-A--TTA
1 TATTTTTATATATTTTT
* *
30305615 TATTTTAAGAATATTTTT
1 TATTTTTA-TATATTTTT
30305633 TATTTTTATATATTTTT
1 TATTTTTATATATTTTT
**
30305650 TAAATTTAT-TATTTT
1 TATTTTTATATATTTT
30305665 ATTTTTTGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
14 7 0.11
15 1 0.02
16 8 0.12
17 31 0.48
18 17 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTTATATATTTTT
Found at i:30305616 original size:49 final size:49
Alignment explanation
Indices: 30305550--30305710 Score: 214
Period size: 49 Copynumber: 3.2 Consensus size: 49
30305540 TAAATTTAAA
*
30305550 TTTAGATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
1 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
*
30305599 TTTAAATTTATAATTATATTTTAAGAATATTTTTTATTTTTATATATTT
1 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
* * * **
30305648 TTTAAATTTATTATTTTATTTTTTGAAAATATTTATGCATTTTTATATATTT
1 TTTAAATTTATAATTATA-TTTTT-AGAATATTT-TTTATTTTTATATATTT
*
30305700 CTTTTAATTTA
1 -TTTAAATTTA
30305711 CTAGAATTAG
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 63 0.64
50 4 0.04
51 8 0.08
52 15 0.15
53 9 0.09
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (49 bp):
TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
Found at i:30311063 original size:75 final size:77
Alignment explanation
Indices: 30310921--30311069 Score: 169
Period size: 75 Copynumber: 2.0 Consensus size: 77
30310911 TATTAATTTA
* * * * *
30310921 TTTTAAGAAATTAGGTAATTCTTAAATCATAGGAAAATTACATTAATTTTATAAAGGAAACTTAA
1 TTTTAAGAAATTAAGTAATTCCTAAATCATAGGAAAATAACATTAATTTCATAAAGGAAACATAA
30310986 AACAATAAAGGT
66 AACAATAAAGGT
** * **
30310998 TTTTAAGAAA-TAAGTAATTCCTAAATTGT-GGATAAATAAC-TTAATTTCGTAAAGGCTACATA
1 TTTTAAGAAATTAAGTAATTCCTAAATCATAGGA-AAATAACATTAATTTCATAAAGGAAACATA
*
30311060 AAACATTAAA
65 AAACAATAAA
30311070 CGATTTTTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
75 29 0.48
76 21 0.35
77 10 0.17
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (77 bp):
TTTTAAGAAATTAAGTAATTCCTAAATCATAGGAAAATAACATTAATTTCATAAAGGAAACATAA
AACAATAAAGGT
Found at i:30311289 original size:16 final size:16
Alignment explanation
Indices: 30311270--30311302 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30311260 TAGTTTTATT
*
30311270 AATATTTAATTTTAAA
1 AATATTTAATATTAAA
30311286 AATATTTAATATTAAA
1 AATATTTAATATTAAA
30311302 A
1 A
30311303 TAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTTAATATTAAA
Found at i:30313638 original size:69 final size:69
Alignment explanation
Indices: 30313521--30313743 Score: 283
Period size: 69 Copynumber: 3.3 Consensus size: 69
30313511 TTTTAAGCTA
* * * *
30313521 TTAAAATTAA-TTTTTAA-AGAAAATAGTGAAGAAGTTAGCTATGAGAGTATTCTCTAGTGAATG
1 TTAAAATTAACTTTTTAATA-AAAATAGTGAAGAAGTAAGCTAAGGGAGTATTCTCTAGAGAATG
30313584 TGGGG
65 TGGGG
* *
30313589 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTAAGGGAGTATTCTCTAAAGAATAT
1 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTAAGGGAGTATTCTCTAGAGAATGT
30313654 GGGG
66 GGGG
* * * **
30313658 TTAAAATTATCTTTTTAATAAAAATAGTGAAAAAGTGAGCTATA-GGAGTATTCTCTAGCCAATG
1 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTA-AGGGAGTATTCTCTAGAGAATG
30313722 T-GGG
65 TGGGG
* *
30313726 ATAAAATTAACTGTTTAA
1 TTAAAATTAACTTTTTAA
30313744 GGAAAATAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
68 28 0.21
69 106 0.78
70 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (69 bp):
TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTAAGGGAGTATTCTCTAGAGAATGT
GGGG
Found at i:30315367 original size:17 final size:17
Alignment explanation
Indices: 30315335--30315390 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
30315325 GTTTAATTGC
* *
30315335 TTTAGTTATTTGTTTAT
1 TTTATTTATTTATTTAT
*
30315352 TTTATTTTTTTATTTAT
1 TTTATTTATTTATTTAT
* * *
30315369 TTCAATTATTTATTTCT
1 TTTATTTATTTATTTAT
30315386 TTTAT
1 TTTAT
30315391 GATTTTTTGT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTATTTAT
Found at i:30315390 original size:13 final size:13
Alignment explanation
Indices: 30315347--30315390 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
30315337 TAGTTATTTG
30315347 TTTATTTTATTT-T
1 TTTA-TTTATTTCT
*
30315360 TTTATTTATTTCA
1 TTTATTTATTTCT
*
30315373 ATTATTTATTTCT
1 TTTATTTATTTCT
30315386 TTTAT
1 TTTAT
30315391 GATTTTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTATTTCT
Found at i:30315748 original size:15 final size:16
Alignment explanation
Indices: 30315728--30315778 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 16
30315718 ATAGATACAG
30315728 TATTTTT-ATTTCTTT
1 TATTTTTAATTTCTTT
*
30315743 TATTTTTAATTTTTTGT
1 TATTTTTAATTTCTT-T
30315760 TATTTGTTTAATTTCTTT
1 TA-TT-TTTAATTTCTTT
30315778 T
1 T
30315779 TAGTTTGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 7 0.23
16 6 0.20
17 3 0.10
18 4 0.13
19 10 0.33
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (16 bp):
TATTTTTAATTTCTTT
Found at i:30315771 original size:19 final size:20
Alignment explanation
Indices: 30315747--30315786 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
30315737 TTCTTTTATT
30315747 TTTAATTT-TTTGTTA-TTTG
1 TTTAATTTCTTT-TTAGTTTG
30315766 TTTAATTTCTTTTTAGTTTG
1 TTTAATTTCTTTTTAGTTTG
30315786 T
1 T
30315787 AGGTTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (20 bp):
TTTAATTTCTTTTTAGTTTG
Done.