Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 87 of 208
Found at i:30304444 original size:41 final size:42
Alignment explanation
Indices: 30304372--30304457 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 42
30304362 TTCCATAATT
* * * * * *
30304372 AAAACCGAGCCCAAAAAATTGAAGAGACCCAATGCACACGGA
1 AAAACAGAGCCCAAAAAACTAAACAGACCCAAAGCACAAGGA
*
30304414 AAAACAGAGCCC-AAAAACTAAACAGGCCCAAAGCACAAGGA
1 AAAACAGAGCCCAAAAAACTAAACAGACCCAAAGCACAAGGA
30304455 AAA
1 AAA
30304458 GTCCAAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 26 0.70
42 11 0.30
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (42 bp):
AAAACAGAGCCCAAAAAACTAAACAGACCCAAAGCACAAGGA
Found at i:30305265 original size:34 final size:35
Alignment explanation
Indices: 30305221--30305287 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30305211 GAGTAAAATA
* *
30305221 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
30305255 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
30305288 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:30305291 original size:14 final size:15
Alignment explanation
Indices: 30305215--30305291 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
30305205 GATTGAGAGT
* *
30305215 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
30305229 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
30305243 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
30305263 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
30305278 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
30305292 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.40
15 16 0.32
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:30306878 original size:12 final size:12
Alignment explanation
Indices: 30306854--30306891 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30306844 ATTAAAATGG
30306854 AAGAAAAAGTTAA
1 AAGAAAAA-TTAA
*
30306867 ATGAAAAATTAA
1 AAGAAAAATTAA
30306879 AAGAAAAA-TAA
1 AAGAAAAATTAA
30306890 AA
1 AA
30306892 CGTCGTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 5 0.22
12 11 0.48
13 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (12 bp):
AAGAAAAATTAA
Found at i:30314730 original size:3 final size:3
Alignment explanation
Indices: 30314722--30314755 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
30314712 ATCCATCACA
30314722 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30314756 CAATTTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30315330 original size:13 final size:14
Alignment explanation
Indices: 30315306--30315343 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
30315296 TGTTTCACTG
30315306 AAAATGACTTTC-GA
1 AAAATGA-TTTCTGA
*
30315320 AAAATGATTTCTGG
1 AAAATGATTTCTGA
30315334 AAAATGATTT
1 AAAATGATTT
30315344 ATTTTTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:30315820 original size:15 final size:15
Alignment explanation
Indices: 30315800--30315851 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
30315790 ACTACAAGAC
30315800 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
30315815 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
30315834 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
30315849 ATT
1 ATT
30315852 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:30325433 original size:167 final size:165
Alignment explanation
Indices: 30325047--30325780 Score: 1090
Period size: 164 Copynumber: 4.5 Consensus size: 165
30325037 CGTAACGATT
30325047 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * * ** * *
30325112 TATTAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTGCTAAATAC--TAACATGTTGCCGTGTT
66 TAATAGGCCGTTGATATTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
30325175 CCAAAAAACAAAAAATAAAG-AAAAAAGCCATTAA
131 CCAAAAAACAAAAAATAAAGAAAAAAAGCCATTAA
* *
30325209 TGGCCCATGCAGGTCTCGAACCTGCGACATTCGCGTCATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
30325274 TAATAGGCCGTTGATATTTCCGCTAAAATTCTGTTTTAATAAATACTATAACAGGTTGACGTTTT
66 TAATAGGCCGTTGATATTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
30325339 CCAAAAAACAAAAAATAAAGTAAAAAACAGCCATTAA
131 CCAAAAAACAAAAAATAAAG-AAAAAA-AGCCATTAA
*
30325376 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * *
30325441 TAATAGGCCGTTGATACTCCCGCTTAAGTTTTGTTTTAATAAATACTGTAACAGGTTGCCG-TTT
66 TAATAGGCCGTTGATATTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
*
30325505 CCAAAAAA-AAAAAA-AAGGGAAAAAAAAGCCATTAA
131 CCAAAAAACAAAAAATAA-AG-AAAAAAAGCCATTAA
30325540 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
30325605 TAATAGGCCGTTGACATTCCCGTTTAAATT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTT
66 TAATAGGCCGTTGATATTCCCGCTTAAATTCT-GTTTTAATAAATACTGTAACAGGTTGCCGTTT
*
30325669 TCCAAAAAAC-AAAAATAAAGAAAAAATA-CCATTAT
130 TCCAAAAAACAAAAAATAAAGAAAAAA-AGCCATTAA
* * * * *
30325704 TGGCCCATGCAGGTTTCGAACCCGCTACCTTCTCGTTATTAGCACGACTCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
30325769 TAATAGGCCGTT
66 TAATAGGCCGTT
30325781 TTGTACCCTT
Statistics
Matches: 522, Mismatches: 39, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
162 101 0.19
163 1 0.00
164 246 0.47
165 31 0.06
166 18 0.03
167 125 0.24
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (165 bp):
TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
TAATAGGCCGTTGATATTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCCGTTTT
CCAAAAAACAAAAAATAAAGAAAAAAAGCCATTAA
Found at i:30325647 original size:331 final size:326
Alignment explanation
Indices: 30325047--30325780 Score: 1107
Period size: 331 Copynumber: 2.2 Consensus size: 326
30325037 CGTAACGATT
*
30325047 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * ** *
30325112 TATTAGGCCGTTGATATTCTCGCCTAAATTCTGTTCTGCTAAATACTAACATGTTGCCGTGTTCC
66 TAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATACTAACAGGTTGCCGTGTTCC
*
30325177 AAAAAACAAAAAATAAAGAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTCG
131 AAAAAACAAAAAATAAAAAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTCG
* *
30325242 CGTCATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGATATTTCCGCTAAAATTCTG
196 CGTCATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTAAAATTCTG
30325307 TTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAAATAAAGTAAAAAACAGCCA
261 TTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAAC-AAAAATAAAG-AAAAAACA-CCA
30325372 TTAA
323 TTAA
30325376 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
30325441 TAATAGGCCGTTGATACTCCCGCTTAAGTTTTGTTTTAATAAATACTGTAACAGGTTGCCGT-TT
66 TAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATAC--TAACAGGTTGCCGTGTT
30325505 CCAAAAAA-AAAAAA-AAGGGAAAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
129 CCAAAAAACAAAAAATAA---AAAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGAC
* * * *
30325568 CTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGTTTAAA
191 ATTCGCGTCATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTAAAA
* * ** *
30325633 TT-TAGTTTTAATAAATACTGTAATAGGTTTCCGTTTTCCAAAAAACAAAAATAAAGAAAAAATA
256 TTCT-GTTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAATAAAGAAAAAACA
*
30325697 CCATTAT
320 CCATTAA
* * * *
30325704 TGGCCCATGCAGGTTTCGAACCCGCTACCTTCTCGTTATTAGCACGACTCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
30325769 TAATAGGCCGTT
66 TAATAGGCCGTT
30325781 TTGTACCCTT
Statistics
Matches: 371, Mismatches: 28, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
328 81 0.22
329 114 0.31
330 21 0.06
331 155 0.42
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (326 bp):
TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
TAATAGGCCGTTGATACTCCCGCCTAAATTCTGTTCTAATAAATACTAACAGGTTGCCGTGTTCC
AAAAAACAAAAAATAAAAAAAAAAGCCATTAATGGCCCATGCAGGTCTCGAACCTGCGACATTCG
CGTCATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGTTGACATTCCCGCTAAAATTCTG
TTTTAATAAATACTATAACAGGTTGACGTTTTCCAAAAAACAAAAATAAAGAAAAAACACCATTA
A
Found at i:30331384 original size:29 final size:30
Alignment explanation
Indices: 30331351--30331439 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 30
30331341 TTAGTTTAAT
*
30331351 GTGCAATTGTATACATG-AATTTTAATTTG
1 GTGCAATTGTATACATGAAACTTTAATTTG
* * *
30331380 GTGCAATTATATACGTGAAACTTTGATTGTG
1 GTGCAATTGTATACATGAAACTTTAATT-TG
* * *
30331411 GTTCAACTGTATGCATGAAACTTTAATTT
1 GTGCAATTGTATACATGAAACTTTAATTT
30331440 TGATTTAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 15 0.31
30 9 0.19
31 24 0.50
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (30 bp):
GTGCAATTGTATACATGAAACTTTAATTTG
Found at i:30336281 original size:19 final size:20
Alignment explanation
Indices: 30336257--30336300 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
30336247 AAAATTACAT
*
30336257 AAATTTAAATTTA-ACAAAA
1 AAATTTAAATATATACAAAA
*
30336276 AAATTTAAATATATATAAAA
1 AAATTTAAATATATACAAAA
30336296 AAATT
1 AAATT
30336301 ACATAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTTAAATATATACAAAA
Found at i:30336294 original size:29 final size:29
Alignment explanation
Indices: 30336239--30336294 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
30336229 TTTTTATATA
* *
30336239 TAACAAAAAAAATTACATAAATTTAAATT
1 TAACAAAAAAAATTAAATAAATATAAATT
* *
30336268 TAACAAAAAAATTTAAATATATATAAA
1 TAACAAAAAAAATTAAATAAATATAAA
30336295 AAAATTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (29 bp):
TAACAAAAAAAATTAAATAAATATAAATT
Found at i:30336829 original size:19 final size:19
Alignment explanation
Indices: 30336790--30336830 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
30336780 TTGAAATATC
*
30336790 TTTATTATAAAAACATCAT
1 TTTATTATAAAAACATAAT
* *
30336809 TTTATTATAAATACCTAAT
1 TTTATTATAAAAACATAAT
30336828 TTT
1 TTT
30336831 TTTAAATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATTATAAAAACATAAT
Found at i:30363286 original size:49 final size:49
Alignment explanation
Indices: 30363229--30363326 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
30363219 AGGTCCTATA
30363229 AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
1 AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
* *
30363278 AGCTGGTTTTTCATATTTTTGTATCATGTGAGTTCAATTCTTGCTCTTT
1 AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
30363327 TCTTGTAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.16, C:0.15, G:0.17, T:0.51
Consensus pattern (49 bp):
AGCTGGTTTTTCATATTTTTGCATCATGTGAGTTCAATTCTTGCGCTTT
Found at i:30368371 original size:12 final size:12
Alignment explanation
Indices: 30368354--30368378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30368344 TTTACAAATC
30368354 ATAAAAGTTTGA
1 ATAAAAGTTTGA
30368366 ATAAAAGTTTGA
1 ATAAAAGTTTGA
30368378 A
1 A
30368379 ATACTTGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATAAAAGTTTGA
Found at i:30371255 original size:25 final size:25
Alignment explanation
Indices: 30371227--30371276 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
30371217 TGAGAAAATG
30371227 TATGATTTATTTACAATTAAATTTA
1 TATGATTTATTTACAATTAAATTTA
* *
30371252 TATGATTTATTTATAATTTAATTTA
1 TATGATTTATTTACAATTAAATTTA
30371277 ATTTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TATGATTTATTTACAATTAAATTTA
Found at i:30378132 original size:42 final size:42
Alignment explanation
Indices: 30378073--30378158 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
30378063 TCTAGAAACT
30378073 AAAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
1 AAAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
30378115 AAAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
1 AAAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
30378157 AA
1 AA
30378159 TTTTGAGGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.53, C:0.05, G:0.26, T:0.16
Consensus pattern (42 bp):
AAAAAAAATGGATGGATTAGGACCAAATTGAAAAAGGTGAAG
Found at i:30382855 original size:12 final size:12
Alignment explanation
Indices: 30382838--30382862 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30382828 TCGAATAAGC
30382838 ATGTATATATAT
1 ATGTATATATAT
30382850 ATGTATATATAT
1 ATGTATATATAT
30382862 A
1 A
30382863 ATGCTAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:30383529 original size:41 final size:41
Alignment explanation
Indices: 30383484--30383637 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
30383474 AGGCTAAGCG
30383484 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
30383525 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
30383566 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
30383607 CCTAGCAGGCTACGTGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
30383638 AAGCTATAAG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:30383638 original size:41 final size:41
Alignment explanation
Indices: 30383484--30383666 Score: 285
Period size: 41 Copynumber: 4.5 Consensus size: 41
30383474 AGGCTAAGCG
*
30383484 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
*
30383525 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
30383566 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
* * * *
30383607 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
* * *
30383648 TCTAGCAGTCTATGTGCCG
1 CCTAGCAGGCTACGTGCCG
30383667 TTGAATCTGT
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 134 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
Found at i:30390183 original size:17 final size:17
Alignment explanation
Indices: 30390150--30390183 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30390140 TTGTGTTTTG
*
30390150 TGCAAAAAGGACTAAAT
1 TGCAAAAAGGACAAAAT
*
30390167 TGCAAAAAGTACAAAAT
1 TGCAAAAAGGACAAAAT
30390184 GTTAGGGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGACAAAAT
Found at i:30391415 original size:41 final size:41
Alignment explanation
Indices: 30391203--30391397 Score: 345
Period size: 41 Copynumber: 4.8 Consensus size: 41
30391193 AGGCTAAGCG
* *
30391203 CCTAGCAGGCTACGTGCCAGTAATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
30391244 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
30391285 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
30391326 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
* *
30391367 CCTAGCAGGCTACATGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
30391398 AAGCTATAAG
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:30391426 original size:41 final size:41
Alignment explanation
Indices: 30391203--30391426 Score: 331
Period size: 41 Copynumber: 5.5 Consensus size: 41
30391193 AGGCTAAGCG
* * *
30391203 CCTAGCAGGCTACGTGCCAGTAATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
*
30391244 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
*
30391285 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
30391326 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
* * * * *
30391367 CCTAGCAGGCTACATGCCGGTGATCTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
* * *
30391408 TCTAGCAGTCTATGTGCCG
1 CCTAGCAGGCTACGTGCCG
30391427 TTGAATCTGT
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 171 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
Found at i:30396373 original size:22 final size:22
Alignment explanation
Indices: 30396345--30396394 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
30396335 ACAAATCCTA
30396345 TCTCAATTTCCTTCC-AAAATCC
1 TCTCAATTTCCTTCCAAAAAT-C
30396367 TCTCAATTTCCTTCCAAAAATC
1 TCTCAATTTCCTTCCAAAAATC
30396389 TCTCAA
1 TCTCAA
30396395 ATCCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.30, C:0.34, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAAATC
Found at i:30396465 original size:31 final size:31
Alignment explanation
Indices: 30396430--30396492 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30396420 TCAATTTCAT
30396430 TTTTTTAAAAATAATTTTAAATTTTTTTATA
1 TTTTTTAAAAATAATTTTAAATTTTTTTATA
30396461 TTTTTTAAAAATAATTTTAAATTTTTTTATA
1 TTTTTTAAAAATAATTTTAAATTTTTTTATA
30396492 T
1 T
30396493 ATTCATCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTAAAAATAATTTTAAATTTTTTTATA
Found at i:30398784 original size:29 final size:29
Alignment explanation
Indices: 30398716--30399505 Score: 1119
Period size: 29 Copynumber: 26.8 Consensus size: 29
30398706 TAAAAAAAAT
*
30398716 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
30398746 CCTAATTTAA-TAAGAAACCCTAACCCTAA
1 CCTAATTTAATTAA-AAACCCTAACCCTAA
*
30398775 CCTAATTTAATTAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
30398804 CTTAATTTAATTAAAAACCCTAACCCTAC
1 CCTAATTTAATTAAAAACCCTAACCCTAA
30398833 CCTAATTTAATTAAAAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
30398861 -CTAA-TTAA-TAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30398887 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
30398916 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30398945 CCTAATTTAATTAAAAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30398974 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30399003 CCTAATTTAATTAAAAACCCTAAACCCAAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
30399033 CCTAATTTAATTAAAAACCCTAACCTAAACCCTAA
1 CCTAATTTAATTAAAAA--C---CCT-AACCCTAA
30399068 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
30399097 CTTAATTTAATTAAAAACCCTAACCCTAC
1 CCTAATTTAATTAAAAACCCTAACCCTAA
30399126 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30399155 CTTAATTTAATTAAAAACCCTAACCCTAACCCTAA
1 CCTAATTTAATT--AAA----AACCCTAACCCTAA
* *
30399190 CCTAATTTATTTTAAAACCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
30399219 CCTTAATTTAATTAAAAACCCTAACCCTAA
1 CC-TAATTTAATTAAAAACCCTAACCCTAA
* *
30399249 CCTAATTTAATT--AAACCCTAATCCTCA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
30399276 CCTAATTTATTTTAAAACCCTAAACCCTCA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
30399306 CCTAATTTAATTAAAAACCCTAACCGTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
30399335 CCTAATTTATTTTAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
30399365 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30399394 CCTAATTTAATTAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30399423 CTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
30399452 CCTAATTTAATTAAAAACCATAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
30399482 CTTAATTTAATTAAAAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAAC
30399506 TATTAACAAA
Statistics
Matches: 689, Mismatches: 45, Indels: 53
0.88 0.06 0.07
Matches are distributed among these distances:
25 12 0.02
26 9 0.01
27 31 0.04
28 8 0.01
29 418 0.61
30 152 0.22
31 3 0.00
32 1 0.00
33 3 0.00
35 52 0.08
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:30399064 original size:12 final size:12
Alignment explanation
Indices: 30399047--30399072 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30399037 ATTTAATTAA
30399047 AAACCCTAACCT
1 AAACCCTAACCT
30399059 AAACCCTAACCT
1 AAACCCTAACCT
30399071 AA
1 AA
30399073 TTTAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (12 bp):
AAACCCTAACCT
Found at i:30402919 original size:124 final size:124
Alignment explanation
Indices: 30402699--30402977 Score: 488
Period size: 124 Copynumber: 2.2 Consensus size: 124
30402689 CACGAGGGCA
* *
30402699 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCGA
1 CGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCAA
*
30402764 AATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGAATCCTGGTAGAAG
66 AATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGAATCCTGGTAGAAG
30402823 CGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCAA
1 CGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCAA
* *
30402888 AATCGGGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
66 AATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGAATCCTGGTAGAAG
*
30402947 CGATTTTATACTATTTGACT-AGAAACATCAA
1 CGATTTTATACTATTT-ACTCAGAAACGTCAA
30402978 CTCGAAATAA
Statistics
Matches: 148, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
124 145 0.98
125 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (124 bp):
CGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCAA
AATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGAATCCTGGTAGAAG
Found at i:30403606 original size:14 final size:14
Alignment explanation
Indices: 30403564--30403613 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
30403554 CTAAAGTTCA
30403564 ATTATAATAA-ATTT
1 ATTA-AATAATATTT
*
30403578 ATTAAA-ACTACTTT
1 ATTAAATAATA-TTT
30403592 ATTAAATAATATTT
1 ATTAAATAATATTT
*
30403606 AATAAATA
1 ATTAAATA
30403614 TTATGATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 3 0.10
14 23 0.77
15 3 0.10
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATAATATTT
Found at i:30408679 original size:24 final size:24
Alignment explanation
Indices: 30408648--30408760 Score: 79
Period size: 24 Copynumber: 4.6 Consensus size: 24
30408638 CAATTATCAA
* *
30408648 GAAGCTCATACGAGCCATAAACGG
1 GAAGCTCATAAGAGCCATAAACAG
* *
30408672 GAAGCTCA-AGAGAGTCATTAACAG
1 GAAGCTCATA-AGAGCCATAAACAG
30408696 GAAGCTCATAAGAGCCA-AATATC-G
1 GAAGCTCATAAGAGCCATAA-A-CAG
* * *
30408720 AGAAGCTCGTGAGAACCATATAACAG
1 -GAAGCTCATAAGAGCCATA-AACAG
* *
30408746 GATGCTTATAAGAGC
1 GAAGCTCATAAGAGC
30408761 TAAATAACAG
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
23 2 0.03
24 34 0.51
25 27 0.40
26 3 0.04
27 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAAACAG
Found at i:30413211 original size:20 final size:19
Alignment explanation
Indices: 30413161--30413211 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
30413151 AATGTTTGTT
*
30413161 CTTTCTTCTTCTTCTTTTTG
1 CTTTCTT-TTCTTCTTTTAG
*
30413181 CTTCTCCTTTCTTTCTTTTAG
1 CTT-TCTTTTC-TTCTTTTAG
30413202 CTTTCTTTTC
1 CTTTCTTTTC
30413212 CTTTAATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.02, C:0.27, G:0.04, T:0.67
Consensus pattern (19 bp):
CTTTCTTTTCTTCTTTTAG
Found at i:30417011 original size:20 final size:19
Alignment explanation
Indices: 30416973--30417011 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
30416963 TCTTTAATGC
* *
30416973 TATGTGTTGTTTGTAATTT
1 TATGTGTTATTTATAATTT
30416992 TATGTGTTTATTTATAATTT
1 TATGTG-TTATTTATAATTT
30417012 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (19 bp):
TATGTGTTATTTATAATTT
Found at i:30418735 original size:6 final size:6
Alignment explanation
Indices: 30418724--30418765 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
30418714 ATATTTTTTG
30418724 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
30418766 TTTATATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:30419739 original size:9 final size:9
Alignment explanation
Indices: 30419727--30419880 Score: 64
Period size: 10 Copynumber: 16.4 Consensus size: 9
30419717 TAAACTTACT
30419727 AAAATTATAAA
1 AAAATTAT--A
30419738 AAAATTATA
1 AAAATTATA
*
30419747 AATATTAT-
1 AAAATTATA
30419755 AAAA-TATA
1 AAAATTATA
30419763 AAAATATATA
1 AAAAT-TATA
*
30419773 ATAAGTTATAA
1 A-AAATTAT-A
*
30419784 AAAATTTATT
1 AAAA-TTATA
* *
30419794 AGAATTCTTA
1 AAAATT-ATA
* * *
30419804 AAAGTAACCA
1 AAAATTA-TA
*
30419814 AAAAGTA-A
1 AAAATTATA
* *
30419822 AAAA-AATT
1 AAAATTATA
*
30419830 AAAATTATT
1 AAAATTATA
30419839 AAAATTATA
1 AAAATTATA
*
30419848 TAAACTTATA
1 -AAAATTATA
30419858 AAAATTATAA
1 AAAATTAT-A
*
30419868 AAAATCATA
1 AAAATTATA
30419877 AAAA
1 AAAA
30419881 CTTGAGCTAG
Statistics
Matches: 108, Mismatches: 23, Indels: 26
0.69 0.15 0.17
Matches are distributed among these distances:
7 4 0.04
8 16 0.15
9 33 0.31
10 38 0.35
11 17 0.16
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:30419758 original size:18 final size:19
Alignment explanation
Indices: 30419682--30419880 Score: 64
Period size: 19 Copynumber: 10.7 Consensus size: 19
30419672 AAAACGATTA
*
30419682 AAAAATCATAAAAA-ATA-
1 AAAAATTATAAAAATATAT
* *
30419699 AAAAA-AATAAAATTA-AT
1 AAAAATTATAAAAATATAT
* * *
30419716 ATAAACTTACTAAAATTATAA
1 A-AAAATTA-TAAAAATATAT
*
30419737 AAAAATTATAAATAT-TAT
1 AAAAATTATAAAAATATAT
30419755 -AAAA-TATAAAAATATAT
1 AAAAATTATAAAAATATAT
* *
30419772 AATAAGTTATAAAAAATTTAT
1 AA-AAATTAT-AAAAATATAT
* * * * *
30419793 TAGAATTCTTAAAAGTA-ACC
1 AAAAATT-ATAAAAATATA-T
*
30419813 AAAAAGTA-AAAAA-A-AT
1 AAAAATTATAAAAATATAT
* *
30419829 TAAAATTATTAAAAT-TAT
1 AAAAATTATAAAAATATAT
*
30419847 ATAAACTTATAAAAAT-TAT
1 A-AAAATTATAAAAATATAT
*
30419866 AAAAAATCATAAAAA
1 -AAAAATTATAAAAA
30419881 CTTGAGCTAG
Statistics
Matches: 131, Mismatches: 33, Indels: 34
0.66 0.17 0.17
Matches are distributed among these distances:
16 21 0.16
17 20 0.15
18 12 0.09
19 35 0.27
20 30 0.23
21 13 0.10
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATTATAAAAATATAT
Found at i:30419771 original size:20 final size:20
Alignment explanation
Indices: 30419727--30419786 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 20
30419717 TAAACTTACT
*
30419727 AAAAT-TATAAAAAAAT-TA
1 AAAATATATAATAAAATATA
*
30419745 TAAATAT-T-ATAAAATATA
1 AAAATATATAATAAAATATA
**
30419763 AAAATATATAATAAGTTATA
1 AAAATATATAATAAAATATA
30419783 AAAA
1 AAAA
30419787 ATTTATTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 6 0.18
18 13 0.39
19 2 0.06
20 12 0.36
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATATATAATAAAATATA
Found at i:30419773 original size:37 final size:36
Alignment explanation
Indices: 30419678--30419773 Score: 85
Period size: 37 Copynumber: 2.7 Consensus size: 36
30419668 CATAAAAACG
*
30419678 ATTAAAAAATCATAAAAA-ATA-AAAAAAATAAAATT
1 ATTATAAAAT-ATAAAAATATATAAAAAAATAAAATT
* *
30419713 AATATAAACT-TACTAAAAT-TATAAAAAAATTATAAA-T
1 ATTATAAAATATA--AAAATATATAAAAAAA-TA-AAATT
30419750 ATTATAAAATATAAAAATATATAA
1 ATTATAAAATATAAAAATATATAA
30419774 TAAGTTATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
33 2 0.04
35 13 0.27
36 12 0.25
37 16 0.33
38 5 0.10
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (36 bp):
ATTATAAAATATAAAAATATATAAAAAAATAAAATT
Found at i:30419851 original size:10 final size:10
Alignment explanation
Indices: 30419829--30419872 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
30419819 TAAAAAAAAT
30419829 TAAAATTAT-
1 TAAAATTATA
30419838 TAAAATTATA
1 TAAAATTATA
*
30419848 TAAACTTATA
1 TAAAATTATA
30419858 -AAAATTATA
1 TAAAATTATA
*
30419867 AAAAAT
1 TAAAAT
30419873 CATAAAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 17 0.55
10 14 0.45
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAATTATA
Found at i:30419851 original size:19 final size:19
Alignment explanation
Indices: 30419829--30419880 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
30419819 TAAAAAAAAT
*
30419829 TAAAATTATTAAAATTATA
1 TAAAATTATAAAAATTATA
*
30419848 TAAACTTATAAAAATTATA
1 TAAAATTATAAAAATTATA
* *
30419867 AAAAATCATAAAAA
1 TAAAATTATAAAAA
30419881 CTTGAGCTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATTATAAAAATTATA
Found at i:30432057 original size:154 final size:154
Alignment explanation
Indices: 30431777--30432068 Score: 401
Period size: 154 Copynumber: 1.9 Consensus size: 154
30431767 TTTTTTATTT
* * * * *
30431777 TACATTCTTTCACATGATTAATTATAAAGTTCATAAATCTAACAAGCTCAATTAATTAGTATGAG
1 TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAG
* * * * *
30431842 TCATCAAATTTAATTAATTAATTTATCATGCGTTATTAAATTCAAGTAATCAATTTATAAGTTTT
66 TCATCAAATTAAATTAATTAATCTATAATGAGTTATTAAATTCAAGTAATCAATTTATAAGTTTA
30431907 TGATGTTCTAAATTCACAGTAGAA
131 TGATGTTCTAAATTCACAGTAGAA
* *
30431931 TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTTAATTAATCGGTACGAG
1 TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAG
* * *
30431996 TTA-CAAAATTAAATTAA-TATATCTATAATGAGTTATTCAATTTAAGTAATTC-ATTTATAAGT
66 TCATC-AAATTAAATTAATTA-ATCTATAATGAGTTATTAAATTCAAGTAA-TCAATTTATAAGT
30432058 TTATGATGTTC
128 TTATGATGTTC
30432069 CAAACTCATA
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
153 3 0.03
154 115 0.96
155 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (154 bp):
TACATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAG
TCATCAAATTAAATTAATTAATCTATAATGAGTTATTAAATTCAAGTAATCAATTTATAAGTTTA
TGATGTTCTAAATTCACAGTAGAA
Found at i:30434508 original size:25 final size:25
Alignment explanation
Indices: 30434449--30434515 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
30434439 TATGGCTCTT
* **
30434449 ATGAGCTTCCCGTTATACAGCCCGG
1 ATGAGCTTCCTGTTATACAGCCCAC
* *
30434474 AT-AACTTTCCTGTTATACAGCTCAC
1 ATGAGC-TTCCTGTTATACAGCCCAC
*
30434499 ATGAGCTTCCTATTATA
1 ATGAGCTTCCTGTTATA
30434516 TGGCTTGAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
24 2 0.06
25 29 0.88
26 2 0.06
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATACAGCCCAC
Found at i:30440068 original size:57 final size:58
Alignment explanation
Indices: 30439990--30440112 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
30439980 ATTTCTAGGT
* * * *
30439990 CATTTTCATTTGCATTTTGGAGAAAACCACATTCATTTTCAAATGATT-CTATTTCTC
1 CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
* * *
30440047 CATTTTCATTTTCATTATGGAGAAAACCATAATCATTTCCAAATGTTTCCCATTTCTC
1 CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
30440105 CATTTTCA
1 CATTTTCA
30440113 CAATTTCTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 42 0.72
58 16 0.28
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.43
Consensus pattern (58 bp):
CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
Found at i:30444072 original size:29 final size:30
Alignment explanation
Indices: 30444032--30444094 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
30444022 AACCAAAAAA
30444032 GGCCGGTTTTTTCCAA-AATTTACCGAAATG
1 GGCCGGTTTTTT-CAATAATTTACCGAAATG
* *
30444062 GGCCGGTTTTTT-AATTATTTACCGGAATG
1 GGCCGGTTTTTTCAATAATTTACCGAAATG
30444091 GGCC
1 GGCC
30444095 ATTTTCCGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 16 0.53
30 12 0.40
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (30 bp):
GGCCGGTTTTTTCAATAATTTACCGAAATG
Found at i:30447216 original size:25 final size:23
Alignment explanation
Indices: 30447171--30447216 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
30447161 AACTATTCAA
*
30447171 AATAAAATAAATAATGCAATATT
1 AATAAAATAAATAATGAAATATT
*
30447194 AATAAAATTAAAATTATGAAATA
1 AATAAAA-T-AAATAATGAAATA
30447217 ATGAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 1 0.05
25 11 0.58
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (23 bp):
AATAAAATAAATAATGAAATATT
Found at i:30449229 original size:19 final size:19
Alignment explanation
Indices: 30449203--30449258 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
30449193 AATATATGAA
30449203 TATATAAAAGAACTAAAAT
1 TATATAAAAGAACTAAAAT
* *
30449222 TTTATAAAA-AAATATAAA-
1 TATATAAAAGAACTA-AAAT
*
30449240 TATATAAAGGAACTAAAAT
1 TATATAAAAGAACTAAAAT
30449259 AACACATGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (19 bp):
TATATAAAAGAACTAAAAT
Found at i:30449258 original size:18 final size:17
Alignment explanation
Indices: 30449201--30449259 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
30449191 AAAATATATG
30449201 AATATATAAAAGAACTAA
1 AATATAT-AAAGAACTAA
* * *
30449219 AATTTTATAAAAAAATATA
1 AA-TATATAAAGAACTA-A
30449238 AATATATAAAGGAACTAA
1 AATATATAAA-GAACTAA
30449256 AATA
1 AATA
30449260 ACACATGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
18 21 0.66
19 11 0.34
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.27
Consensus pattern (17 bp):
AATATATAAAGAACTAA
Found at i:30450620 original size:6 final size:6
Alignment explanation
Indices: 30450600--30450629 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
30450590 AAAAGATATT
30450600 AAATAA AATATAA AAATAA AAATAA AAATA
1 AAATAA AA-ATAA AAATAA AAATAA AAATA
30450630 TTTGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:30461100 original size:3 final size:3
Alignment explanation
Indices: 30461092--30461145 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
30461082 CTTTCAACTT
30461092 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
30461140 TTA TTA
1 TTA TTA
30461146 CTATCTTCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30466512 original size:27 final size:27
Alignment explanation
Indices: 30466463--30466582 Score: 91
Period size: 27 Copynumber: 4.4 Consensus size: 27
30466453 AGGGGCATAG
* *
30466463 CGGTCATTTTACCCCAT-GGGGATATTT
1 CGGTCATTTTA-CCCTTCGAGGATATTT
*
30466490 CGGTCATTTTACCCTTTGAGGATATTT
1 CGGTCATTTTACCCTTCGAGGATATTT
* * *
30466517 -TGACAATTTTACCCTTCGAGGGTATTT
1 CGGTC-ATTTTACCCTTCGAGGATATTT
** * * *
30466544 CAATAATTTTACCATTCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGATATTT
* *
30466571 CGATAATTTTAC
1 CGGTCATTTTAC
30466583 GGCTCAAGCC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
26 6 0.08
27 72 0.92
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.41
Consensus pattern (27 bp):
CGGTCATTTTACCCTTCGAGGATATTT
Found at i:30466948 original size:29 final size:29
Alignment explanation
Indices: 30466906--30466962 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
30466896 ACATCAAAAG
*
30466906 ATTTAGGAACCCAACATCAGAATAATCGA
1 ATTTAGGAACCCAACACCAGAATAATCGA
30466935 ATTTAGGAACCCAACACCAGAATAATCG
1 ATTTAGGAACCCAACACCAGAATAATCG
30466963 GCTGACATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (29 bp):
ATTTAGGAACCCAACACCAGAATAATCGA
Found at i:30467412 original size:29 final size:29
Alignment explanation
Indices: 30467370--30467426 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
30467360 ACATCAAAAG
30467370 ATTTAGGAACCCAACACCAGAATAATCGA
1 ATTTAGGAACCCAACACCAGAATAATCGA
30467399 ATTTAGGAACCCAACACCAGAATAATCG
1 ATTTAGGAACCCAACACCAGAATAATCG
30467427 GCTGACATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.14, T:0.18
Consensus pattern (29 bp):
ATTTAGGAACCCAACACCAGAATAATCGA
Found at i:30467497 original size:464 final size:464
Alignment explanation
Indices: 30466629--30467558 Score: 1596
Period size: 464 Copynumber: 2.0 Consensus size: 464
30466619 TCGTCCAACG
* * * *
30466629 CCTAGTCTCGTGGACTCAGTTTTCCTGCACGAATGATTGCACACTCATGTGGCCTCGGTTGCCGT
1 CCTAGTCTCGTGGACTCAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
* *
30466694 GTTTTTAGCTTTTCAGCTTTTGTCGATTTGTAATAGAGAATGTGTGATTACACACTTTTTTCCGG
66 GTTTTTAGCTTTTCAGCTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACTTTTTTCCGG
* * *
30466759 AATAGCGCAGAAACCTTGAATGTCAAACCCGAGCCTTGCTTGATCGGATGCCCTTAGCCTTCTTA
131 AATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCTTA
* * * *
30466824 GACTACTAACAGAATCGATCACCCGCTTAATTATGTATCTTCCTGTCCATGGATTCTATTAAAAA
196 GACTACTAACAGAATCGATCACCCACTTAATCATGTATCTGCCTGTCCACGGATTCTATTAAAAA
*
30466889 GTTAAAAACATCAAAAGATTTAGGAACCCAACATCAGAATAATCGAATTTAGGAACCCAACACCA
261 GTTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACACCA
* *
30466954 GAATAATCGGCTGACATCATAAATTATTAGTCAAATGATTACCTTAGATTGCGAGATAAGAAAAT
326 GAATAATCGGCTGACATCATAAATTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAAAAG
30467019 GATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTGAAA
391 GATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTGAAA
30467084 GTGCCACCA
456 GTGCCACCA
*
30467093 CCTAGTCTCGTGGACTTAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
1 CCTAGTCTCGTGGACTCAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
*
30467158 GTTTTTAGGTTTTC-GACTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACTCTTTTT-C
66 GTTTTTAGCTTTTCAG-CTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACT-TTTTTCC
30467221 GGAATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCT
129 GGAATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCT
* *
30467286 TAGACTACTACCAGAATTGATCACCCACTTAATCATGTATCTGCCTGTCCACGGATTCTATT-AA
194 TAGACTACTAACAGAATCGATCACCCACTTAATCATGTATCTGCCTGTCCACGGATTCTATTAAA
30467350 AAGATTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACA
259 AAG-TTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACA
**
30467415 CCAGAATAATCGGCTGACATCATACGTTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAA
323 CCAGAATAATCGGCTGACATCATAAATTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAA
* *
30467480 AAGGATTGACTACCATTGCGATCTTTGACAAACCCCTTCACCTCTTGTAATGATCTAAAAAACTG
388 AAGGATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTG
30467545 AAAGTGCCACCA
453 AAAGTGCCACCA
30467557 CC
1 CC
30467559 ATCATTGGGG
Statistics
Matches: 439, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
463 6 0.01
464 428 0.97
465 5 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (464 bp):
CCTAGTCTCGTGGACTCAGTTTTCCCGCACGAATGATCGCACACTCATGTGGCCTCGGTTACCAT
GTTTTTAGCTTTTCAGCTTTTGTCGATTTGCAATAGAGAAGGTGTGATTACACACTTTTTTCCGG
AATAGCGCAGAAACCCTGAATGTCAAACCCGAACCTTGCTTGATCGGATGCCCCTAGCCTTCTTA
GACTACTAACAGAATCGATCACCCACTTAATCATGTATCTGCCTGTCCACGGATTCTATTAAAAA
GTTAAAAACATCAAAAGATTTAGGAACCCAACACCAGAATAATCGAATTTAGGAACCCAACACCA
GAATAATCGGCTGACATCATAAATTATTAGCCAAATGATTACCTTAGATTGCGAGATAAGAAAAG
GATTGACTACCATTGCGATCATTGACAAACCCCTTCACCCCTTGTAATGATCTAAAAAACTGAAA
GTGCCACCA
Found at i:30471329 original size:18 final size:18
Alignment explanation
Indices: 30471290--30471345 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
30471280 ATAATTTAAA
* *
30471290 AAAATTCAAGATAATTTTT
1 AAAATTCAAAAT-ATTTAT
30471309 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
30471327 AAAAATTCTAAA-ATTTAT
1 -AAAATTCAAAATATTTAT
30471345 A
1 A
30471346 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 1 0.03
18 11 0.33
19 21 0.64
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:30472296 original size:13 final size:13
Alignment explanation
Indices: 30472244--30472296 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
30472234 AGTTTAGTAT
*
30472244 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
30472257 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
30472270 TGCTATGGAAAAG
1 TGCTTTTGAAAAG
*
30472283 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
30472296 T
1 T
30472297 TTAGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:30472476 original size:24 final size:28
Alignment explanation
Indices: 30472449--30472529 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
30472439 AGAATATACA
*
30472449 AAATAATTT-AT-TATAA-CTT-ATTAT
1 AAATAATTTAATATATAATATTAATTAT
*
30472473 AAATATTTTAATATATAATATTAATTAT
1 AAATAATTTAATATATAATATTAATTAT
*
30472501 AAATATTTCTAAT-TAATTAATATTAATTA
1 AAATAATT-TAATAT-A-TAATATTAATTA
30472530 ATTGTTAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.17
25 2 0.04
26 5 0.10
27 2 0.04
28 14 0.29
29 5 0.10
30 12 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
AAATAATTTAATATATAATATTAATTAT
Found at i:30472500 original size:28 final size:30
Alignment explanation
Indices: 30472468--30472529 Score: 94
Period size: 28 Copynumber: 2.1 Consensus size: 30
30472458 ATTATAACTT
30472468 ATTATAAATATTT-TAA-T-ATATAATATTA
1 ATTATAAATATTTCTAATTAAT-TAATATTA
30472496 ATTATAAATATTTCTAATTAATTAATATTA
1 ATTATAAATATTTCTAATTAATTAATATTA
30472526 ATTA
1 ATTA
30472530 ATTGTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 13 0.42
29 3 0.10
30 13 0.42
31 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTATAAATATTTCTAATTAATTAATATTA
Found at i:30472515 original size:16 final size:15
Alignment explanation
Indices: 30472468--30472515 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
30472458 ATTATAACTT
30472468 ATTATAAATATTTTA
1 ATTATAAATATTTTA
30472483 A-TATATAATA--TTA
1 ATTATA-AATATTTTA
30472496 ATTATAAATATTTCTA
1 ATTATAAATATTT-TA
30472512 ATTA
1 ATTA
30472516 ATTAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 8 0.29
14 8 0.29
15 6 0.21
16 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAAATATTTTA
Found at i:30472591 original size:21 final size:21
Alignment explanation
Indices: 30472543--30472595 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
30472533 GTTAAATTTA
*
30472543 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
30472565 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
30472585 ATTAAATATTT
1 ATTAAATATTT
30472596 GTAATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:30475029 original size:2 final size:2
Alignment explanation
Indices: 30475022--30475061 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30475012 TTAGGGGAGT
30475022 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30475062 GCAACAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30475105 original size:18 final size:18
Alignment explanation
Indices: 30475071--30475105 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30475061 GGCAACAATC
**
30475071 TTGAAGAAAATGGAAGAA
1 TTGAAGAAAATAAAAGAA
30475089 TTGAAGAAAATAAAAGA
1 TTGAAGAAAATAAAAGA
30475106 GAAGAGAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
TTGAAGAAAATAAAAGAA
Found at i:30489832 original size:13 final size:13
Alignment explanation
Indices: 30489814--30489857 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
30489804 GTGCATTCGT
30489814 TAGTTAATTTAGA
1 TAGTTAATTTAGA
30489827 TAGTTACA-TT-GA
1 TAGTTA-ATTTAGA
30489839 TTAGTTAATTTAGA
1 -TAGTTAATTTAGA
30489853 TAGTT
1 TAGTT
30489858 TGATTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.11
13 21 0.78
14 3 0.11
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (13 bp):
TAGTTAATTTAGA
Found at i:30492507 original size:21 final size:21
Alignment explanation
Indices: 30492466--30492508 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
30492456 AGCCAACAAA
*
30492466 TGGTTTTTGAAAACACAAGTT
1 TGGTTTTTGAAAAAACAAGTT
30492487 TGGTTTTTGATAAAAAC-AGTT
1 TGGTTTTTGA-AAAAACAAGTT
30492508 T
1 T
30492509 TCATACTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (21 bp):
TGGTTTTTGAAAAAACAAGTT
Found at i:30495925 original size:23 final size:23
Alignment explanation
Indices: 30495883--30495926 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30495873 TAATCCTCAC
*
30495883 ATGGTGTGTAGGGTTGGATGGAG
1 ATGGTGTGTAGGGCTGGATGGAG
30495906 ATGGTGTGTAGAGGCT-GATGG
1 ATGGTGTGTAG-GGCTGGATGG
30495927 GTAGGATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.18, C:0.02, G:0.50, T:0.30
Consensus pattern (23 bp):
ATGGTGTGTAGGGCTGGATGGAG
Found at i:30497159 original size:27 final size:27
Alignment explanation
Indices: 30497116--30497343 Score: 176
Period size: 27 Copynumber: 8.3 Consensus size: 27
30497106 TGCGAATCGT
* * * *
30497116 GGGTAAAATAACCGAATTACCCCCAAA
1 GGGTAAAATTACTGAAATACCCTCAAA
* * * *
30497143 GGGTAAAATGACTGAATTACCCACGAA
1 GGGTAAAATTACTGAAATACCCTCAAA
*
30497170 GGGTAAAATTA-TCGAAATACCCTTAAA
1 GGGTAAAATTACT-GAAATACCCTCAAA
* *
30497197 GGGTAAAAATTATTGAAATACCCTTAAA
1 GGGT-AAAATTACTGAAATACCCTCAAA
* *
30497225 AGGTAAAATTACCGAAATACCCTCAAA
1 GGGTAAAATTACTGAAATACCCTCAAA
*
30497252 GGGTAAAAATTA-TCATAATACCCTCGAAA
1 GGGT-AAAATTACTGA-AATACCCTC-AAA
* **
30497281 -GGTAAAATTA-TCAAAATACCCTTGAA
1 GGGTAAAATTACT-GAAATACCCTCAAA
** * *
30497307 GGGTAAAAATTACCAAAATACCCTCGAT
1 GGGT-AAAATTACTGAAATACCCTCAAA
30497335 GGGTAAAAT
1 GGGTAAAAT
30497344 GATCTTTATA
Statistics
Matches: 169, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
26 3 0.02
27 95 0.56
28 67 0.40
29 4 0.02
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
GGGTAAAATTACTGAAATACCCTCAAA
Found at i:30497214 original size:28 final size:27
Alignment explanation
Indices: 30497168--30497330 Score: 186
Period size: 28 Copynumber: 5.9 Consensus size: 27
30497158 ATTACCCACG
30497168 AAGGGTAAAATTATCGAAATACCCTTA
1 AAGGGTAAAATTATCGAAATACCCTTA
*
30497195 AAGGGTAAAAATTATTGAAATACCCTTA
1 AAGGGT-AAAATTATCGAAATACCCTTA
* * *
30497223 AAAGGTAAAATTACCGAAATACCCTCA
1 AAGGGTAAAATTATCGAAATACCCTTA
*
30497250 AAGGGTAAAAATTATC-ATAATACCCTCGA
1 AAGGGT-AAAATTATCGA-AATACCCT-TA
* *
30497279 AA-GGTAAAATTATCAAAATACCCTTG
1 AAGGGTAAAATTATCGAAATACCCTTA
* *
30497305 AAGGGTAAAAATTACCAAAATACCCT
1 AAGGGT-AAAATTATCGAAATACCCT
30497331 CGATGGGTAA
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
26 2 0.02
27 50 0.42
28 63 0.53
29 3 0.03
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.24
Consensus pattern (27 bp):
AAGGGTAAAATTATCGAAATACCCTTA
Found at i:30497332 original size:55 final size:55
Alignment explanation
Indices: 30497160--30497343 Score: 242
Period size: 55 Copynumber: 3.3 Consensus size: 55
30497150 ATGACTGAAT
* * **
30497160 TACCCACGAAGGGTAAAATTATCGAAATACCCTTAAAGGGTAAAAATTATTGAAA
1 TACCCTCGAAAGGTAAAATTATCGAAATACCCTTAAAGGGTAAAAATTATCAAAA
** * * *
30497215 TACCCTTAAAAGGTAAAATTACCGAAATACCCTCAAAGGGTAAAAATTATCATAA
1 TACCCTCGAAAGGTAAAATTATCGAAATACCCTTAAAGGGTAAAAATTATCAAAA
* * *
30497270 TACCCTCGAAAGGTAAAATTATCAAAATACCCTTGAAGGGTAAAAATTACCAAAA
1 TACCCTCGAAAGGTAAAATTATCGAAATACCCTTAAAGGGTAAAAATTATCAAAA
**
30497325 TACCCTCGATGGGTAAAAT
1 TACCCTCGAAAGGTAAAAT
30497344 GATCTTTATA
Statistics
Matches: 110, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 110 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.23
Consensus pattern (55 bp):
TACCCTCGAAAGGTAAAATTATCGAAATACCCTTAAAGGGTAAAAATTATCAAAA
Found at i:30497338 original size:28 final size:28
Alignment explanation
Indices: 30497160--30497342 Score: 174
Period size: 28 Copynumber: 6.6 Consensus size: 28
30497150 ATGACTGAAT
* * *
30497160 TACCCACGAAGGGT-AAAATTATCGAAA
1 TACCCTCGAAGGGTAAAAATTACCAAAA
** ***
30497187 TACCCTTAAAGGGTAAAAATTATTGAAA
1 TACCCTCGAAGGGTAAAAATTACCAAAA
** * *
30497215 TACCCTTAAAAGGT-AAAATTACCGAAA
1 TACCCTCGAAGGGTAAAAATTACCAAAA
* * *
30497242 TACCCTCAAAGGGTAAAAATTATCATAA
1 TACCCTCGAAGGGTAAAAATTACCAAAA
* *
30497270 TACCCTCGAAAGGT-AAAATTATCAAAA
1 TACCCTCGAAGGGTAAAAATTACCAAAA
*
30497297 TACCCTTGAAGGGTAAAAATTACCAAAA
1 TACCCTCGAAGGGTAAAAATTACCAAAA
*
30497325 TACCCTCGATGGGTAAAA
1 TACCCTCGAAGGGTAAAA
30497343 TGATCTTTAT
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
27 58 0.44
28 75 0.56
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.23
Consensus pattern (28 bp):
TACCCTCGAAGGGTAAAAATTACCAAAA
Found at i:30497356 original size:55 final size:55
Alignment explanation
Indices: 30497133--30497347 Score: 198
Period size: 55 Copynumber: 3.9 Consensus size: 55
30497123 ATAACCGAAT
* * ** * * * * *
30497133 TACCCCCAAAGGGT-AAAATGACTGAATTACCCACGAAGGGTAAAATTATCGAAA
1 TACCCTCAAAGGGTAAAAATTACCAAAATACCCTCGAAAGGTAAAATGATCAAAA
* *** ** * * *
30497187 TACCCTTAAAGGGTAAAAATTATTGAAATACCCTTAAAAGGTAAAATTACCGAAA
1 TACCCTCAAAGGGTAAAAATTACCAAAATACCCTCGAAAGGTAAAATGATCAAAA
* * *
30497242 TACCCTCAAAGGGTAAAAATTATCATAATACCCTCGAAAGGTAAAATTATCAAAA
1 TACCCTCAAAGGGTAAAAATTACCAAAATACCCTCGAAAGGTAAAATGATCAAAA
** **
30497297 TACCCTTGAAGGGTAAAAATTACCAAAATACCCTCGATGGGTAAAATGATC
1 TACCCTCAAAGGGTAAAAATTACCAAAATACCCTCGAAAGGTAAAATGATC
30497348 TTTATACCCC
Statistics
Matches: 135, Mismatches: 25, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
54 12 0.09
55 123 0.91
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (55 bp):
TACCCTCAAAGGGTAAAAATTACCAAAATACCCTCGAAAGGTAAAATGATCAAAA
Found at i:30504701 original size:15 final size:15
Alignment explanation
Indices: 30504669--30504702 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30504659 AACTTTCCTT
*
30504669 TTTCATTCCATTCCA
1 TTTCATTCCATTCAA
*
30504684 TTTCATTCCATTTAA
1 TTTCATTCCATTCAA
30504699 TTTC
1 TTTC
30504703 TTTTCTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTCATTCCATTCAA
Found at i:30513390 original size:16 final size:18
Alignment explanation
Indices: 30513362--30513403 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
30513352 GACATTATTT
30513362 ATTAAATTAATTTTCT-A
1 ATTAAATTAATTTTCTCA
30513379 ATTAAA-TAATTTTCTCA
1 ATTAAATTAATTTTCTCA
*
30513396 ATTCAATT
1 ATTAAATT
30513404 TTAATTCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 12 0.55
18 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAAATTAATTTTCTCA
Found at i:30522995 original size:15 final size:17
Alignment explanation
Indices: 30522975--30523009 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
30522965 GGTTGGTATT
30522975 GGTTTTGGGT-G-TTTG
1 GGTTTTGGGTAGATTTG
30522990 GGTTTTGGGTAGATTTG
1 GGTTTTGGGTAGATTTG
30523007 GGT
1 GGT
30523010 AATTTGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 1 0.06
17 7 0.39
ACGTcount: A:0.06, C:0.00, G:0.46, T:0.49
Consensus pattern (17 bp):
GGTTTTGGGTAGATTTG
Found at i:30523614 original size:90 final size:91
Alignment explanation
Indices: 30523497--30523668 Score: 211
Period size: 92 Copynumber: 1.9 Consensus size: 91
30523487 TGTGGCTTTA
* * ** * * * *
30523497 ATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGTAGCCGGT-CTTCAATTTGTTCCACTGCA
1 ATCTGCTCCACTGCAACTTCAAAGAGATAAGATCTGTAACCGATACTTCAATTTGTTCCACCGCA
*
30523561 ACTTCAGGGAGATAAGGTTTGATATG
66 ACTTCAGGGAAATAAGGTTTGATATG
* * **
30523587 ATCTGCTCTACTGCAACTTCAAAGAGATAGGATCTGTAACTTATAGCTTCAATTTGTTCCACCGC
1 ATCTGCTCCACTGCAACTTCAAAGAGATAAGATCTGTAACCGATA-CTTCAATTTGTTCCACCGC
30523652 AACTTCAGGGAAATAAG
65 AACTTCAGGGAAATAAG
30523669 ATTCGCTATC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 33 0.49
92 34 0.51
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (91 bp):
ATCTGCTCCACTGCAACTTCAAAGAGATAAGATCTGTAACCGATACTTCAATTTGTTCCACCGCA
ACTTCAGGGAAATAAGGTTTGATATG
Found at i:30530459 original size:41 final size:41
Alignment explanation
Indices: 30530402--30530491 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
30530392 GGTTGCATGG
30530402 GTTTTAGATAAAAAGGGGCTACCACATGTGCATTAAATAGA
1 GTTTTAGATAAAAAGGGGCTACCACATGTGCATTAAATAGA
30530443 GTTTTAGATAAAAAGGGGCTACCACATGTGCATTAAATAGA
1 GTTTTAGATAAAAAGGGGCTACCACATGTGCATTAAATAGA
30530484 -TTTT-GATA
1 GTTTTAGATA
30530492 CAACTCTCCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 4 0.08
40 4 0.08
41 41 0.84
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (41 bp):
GTTTTAGATAAAAAGGGGCTACCACATGTGCATTAAATAGA
Found at i:30537019 original size:16 final size:17
Alignment explanation
Indices: 30536998--30537029 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30536988 AAATATGCAA
30536998 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
30537014 TCACATAACTTCATAT
1 TCACATAACTTCATAT
30537030 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:30537259 original size:43 final size:42
Alignment explanation
Indices: 30537193--30537311 Score: 134
Period size: 41 Copynumber: 2.8 Consensus size: 42
30537183 TCGTACAATG
* *
30537193 CCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCGAAA
1 CCAATGTCCCAGACAG-GGTCTTACACGTAATCACATAT-GAAA
* * **
30537236 CCACTGTCCCAGACAGGGTCTTACACG-AATCAAATATGATG
1 CCAATGTCCCAGACAGGGTCTTACACGTAATCACATATGAAA
* *
30537277 CCAATGTCCCAGACATGGTCTTACACGTAAACACA
1 CCAATGTCCCAGACAGGGTCTTACACGTAATCACA
30537312 AGTCGATGCC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 27 0.42
42 14 0.22
43 22 0.34
44 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.22
Consensus pattern (42 bp):
CCAATGTCCCAGACAGGGTCTTACACGTAATCACATATGAAA
Found at i:30537331 original size:84 final size:84
Alignment explanation
Indices: 30537190--30537347 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
30537180 GACTCGTACA
* * * *
30537190 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGAAACCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGAAACCACTATCCCAGAC-GTGG
30537254 TCTTACACGAATCAAATATG
65 TCTTACACGAATCAAATATG
* **
30537274 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCGAC-ATCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGAAACC-ACTATCCCAGACGTG
30537337 GTCTTACACGA
64 GTCTTACACGA
30537348 TAACATATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.03
84 60 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGAAACCACTATCCCAGACGTGGT
CTTACACGAATCAAATATG
Found at i:30538964 original size:27 final size:27
Alignment explanation
Indices: 30538927--30538984 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
30538917 TATGTGTAAC
*
30538927 AAAATTATATATTTTTTGGTAAATAAA
1 AAAATTATATATATTTTGGTAAATAAA
30538954 AAAATTATATATATTTTGGTAAATAAA
1 AAAATTATATATATTTTGGTAAATAAA
30538981 AAAA
1 AAAA
30538985 AAAGTTACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (27 bp):
AAAATTATATATATTTTGGTAAATAAA
Found at i:30540975 original size:15 final size:14
Alignment explanation
Indices: 30540955--30540986 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
30540945 GGTTGGTATT
30540955 GGTTTTGGGTGTTTG
1 GGTTTTGGGT-TTTG
30540970 GGTTTTGGGTTTTG
1 GGTTTTGGGTTTTG
30540984 GGT
1 GGT
30540987 AGATTTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (14 bp):
GGTTTTGGGTTTTG
Found at i:30540978 original size:7 final size:7
Alignment explanation
Indices: 30540955--30540986 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
30540945 GGTTGGTATT
30540955 GGTTTTG
1 GGTTTTG
30540962 GGTGTTTG
1 GGT-TTTG
30540970 GGTTTTG
1 GGTTTTG
30540977 GGTTTTG
1 GGTTTTG
30540984 GGT
1 GGT
30540987 AGATTTGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (7 bp):
GGTTTTG
Found at i:30547818 original size:14 final size:15
Alignment explanation
Indices: 30547799--30547829 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
30547789 ATTTTTATAA
30547799 TTTTTAAT-ATTTAT
1 TTTTTAATAATTTAT
30547813 TTTTTAATAATTTAT
1 TTTTTAATAATTTAT
30547828 TT
1 TT
30547830 ACTTTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAATAATTTAT
Found at i:30567521 original size:22 final size:25
Alignment explanation
Indices: 30567477--30567529 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 25
30567467 AAATACTTTA
30567477 ATTTTTAATATAATTTTAGTTAA-T
1 ATTTTTAATATAATTTTAGTTAAGT
30567501 ATTTTTAAT-T-ATTTT-GATTAAGT
1 ATTTTTAATATAATTTTAG-TTAAGT
30567524 -TTTTTA
1 ATTTTTA
30567530 CACGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
22 15 0.56
23 2 0.07
24 9 0.33
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
ATTTTTAATATAATTTTAGTTAAGT
Found at i:30569277 original size:21 final size:19
Alignment explanation
Indices: 30569241--30569282 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
30569231 AAATATTTAA
*
30569241 AAATAAAAGAATAATAAAT
1 AAATAAAAGAAAAATAAAT
30569260 AAATAAAGAGGAAAAATAAAT
1 AAATAAA-A-GAAAAATAAAT
30569281 AA
1 AA
30569283 TATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (19 bp):
AAATAAAAGAAAAATAAAT
Found at i:30570460 original size:17 final size:18
Alignment explanation
Indices: 30570420--30570461 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
30570410 ATACATTATA
*
30570420 TGCATATAATCAATTTAC
1 TGCATATAATCAATTAAC
*
30570438 T-AATATAATC-ATTAAC
1 TGCATATAATCAATTAAC
30570454 TGCATATA
1 TGCATATA
30570462 CTGATTTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 6 0.30
17 13 0.65
18 1 0.05
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (18 bp):
TGCATATAATCAATTAAC
Found at i:30571020 original size:41 final size:41
Alignment explanation
Indices: 30570847--30571007 Score: 243
Period size: 41 Copynumber: 3.9 Consensus size: 41
30570837 TATAGTTTAG
* * * *
30570847 TTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTGA
1 TTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-GA
* *
30570888 TTCAGTTCACCGGCACTTAGCCTACTAGACGTATAGTCCGA
1 TTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGA
*
30570929 TTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCGA
1 TTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGA
30570970 TTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 TTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
30571008 TGAATAATTT
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
41 109 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (41 bp):
TTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGA
Found at i:30571020 original size:82 final size:82
Alignment explanation
Indices: 30570852--30571025 Score: 235
Period size: 82 Copynumber: 2.1 Consensus size: 82
30570842 TTTAGTTCAG
* * * *
30570852 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCGGCACTTAGCCTACTAGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAATTCACCGGCACTTAGCCTACTAGA
*
30570917 CGTATAGTCCGATTCAA
66 CGTATAGTCCGAATCAA
* *
30570934 TTCACCGGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAG-CCTGATTCAATTCACCGGCACTTAGCCTACTAG
*
30570998 ACGTATAGTCTGAAT-AA
65 ACGTATAGTCCGAATCAA
*
30571015 TTTCACTGGCA
1 -TTCACCGGCA
30571026 ATAAATCCGA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 2 0.02
82 77 0.95
83 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAATTCACCGGCACTTAGCCTACTAGA
CGTATAGTCCGAATCAA
Found at i:30572676 original size:13 final size:13
Alignment explanation
Indices: 30572658--30572682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30572648 CAATCAAATG
30572658 CACACAAAATAAA
1 CACACAAAATAAA
30572671 CACACAAAATAA
1 CACACAAAATAA
30572683 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:30573630 original size:5 final size:5
Alignment explanation
Indices: 30573622--30573646 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30573612 TTTATTTTTA
30573622 TTTGG TTTGG TTTGG TTTGG TTTGG
1 TTTGG TTTGG TTTGG TTTGG TTTGG
30573647 GCCCGGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (5 bp):
TTTGG
Found at i:30573885 original size:44 final size:44
Alignment explanation
Indices: 30573833--30574282 Score: 208
Period size: 44 Copynumber: 9.9 Consensus size: 44
30573823 AAGTTTGTCA
*
30573833 CTTTAATCTGCTCCACTGCAACTTTAGGAAAATAAGATTAGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGATTAGTAG
* ** *
30573877 CTTCAATCTGCTCCACTGCAACTTTCGAGAGATAAAATTTGTAACTAGTAG
1 CTTTAATCTGCTCCACTGCAAC-TTC-AG-G--AAAATAAG--ATTAGTAG
* ** * *
30573928 ATTTAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGA--T-T-A---GTAG
** * * *
30573979 CTTTAAT-TTTTCCACTGCAACTTTA-GAGAAATAAGATTCACTAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGA-AAATAAGATT-AGTAG
* * **
30574023 CTTTAATTTGC-CCTATTGCAACTTCAGGGGAATAAGATTTGTAACTTGTAG
1 CTTTAATCTGCTCC-ACTGCAACTTCAGGAAAATAAGA--T-T-A---GTAG
* * *
30574074 CTTTAATCTGTTCCACTGCAACTTCA-GAGAAATAAGATTCGCTAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGA-AAATAAGATTAG-TAG
* *
30574119 CTTTAATCTGTTCCACTGCAACTTCAGG-------GACCT-GTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGA-TTAGTAG
* * * *
30574156 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGATTAGTAG
* * * * * * *
30574200 CTTCAATCTACTCTACCGCAACTTCAAGG-AGATAAGATTTGTGG
1 CTTTAATCTGCTCCACTGCAACTTC-AGGAAAATAAGATTAGTAG
* *
30574244 CTTTAATCTGCTCCACTGTAACTTCAAGG-GAATAAGATT
1 CTTTAATCTGCTCCACTGCAACTTC-AGGAAAATAAGATT
30574283 TGTAACTTAC
Statistics
Matches: 314, Mismatches: 54, Indels: 76
0.71 0.12 0.17
Matches are distributed among these distances:
37 27 0.09
38 3 0.01
39 1 0.00
43 1 0.00
44 109 0.35
45 51 0.16
46 8 0.03
47 5 0.02
48 6 0.02
49 10 0.03
50 27 0.09
51 64 0.20
52 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (44 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGATTAGTAG
Found at i:30574028 original size:95 final size:96
Alignment explanation
Indices: 30573929--30574148 Score: 331
Period size: 96 Copynumber: 2.3 Consensus size: 96
30573919 AACTAGTAGA
*
30573929 TTTAATCTATTCCACTGCAACTTCAGGGAG-ATAAGATTTGTAACTTGTAGCTTTAAT-TTTTCC
1 TTTAATCT-TTCCACTGCAACTTCAGGGAGAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCC
*
30573992 ACTGCAACTTTAGAGAAATAAGATTCACTATC
65 ACTGCAACTTCAGAGAAATAAGATTCACTATC
* *
30574024 TTTAAT-TTGCCCTATTGCAACTTCAGGG-GAATAAGATTTGTAACTTGTAGCTTTAATCTGTTC
1 TTTAATCTT-TCC-ACTGCAACTTCAGGGAGAATAAGATTTGTAACTTGTAGCTTTAATCTGTTC
*
30574087 CACTGCAACTTCAGAGAAATAAGATTCGCTATC
64 CACTGCAACTTCAGAGAAATAAGATTCACTATC
30574120 TTTAATCTGTTCCACTGCAACTTCAGGGA
1 TTTAATCT-TTCCACTGCAACTTCAGGGA
30574149 CCTGTAGCTT
Statistics
Matches: 111, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
93 1 0.01
94 4 0.04
95 47 0.42
96 55 0.50
97 3 0.03
98 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (96 bp):
TTTAATCTTTCCACTGCAACTTCAGGGAGAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCA
CTGCAACTTCAGAGAAATAAGATTCACTATC
Found at i:30574079 original size:146 final size:145
Alignment explanation
Indices: 30573844--30574112 Score: 357
Period size: 146 Copynumber: 1.8 Consensus size: 145
30573834 TTTAATCTGC
*
30573844 TCCACTGCAACTTTAGGAAAATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTTCGAGAGA
1 TCCACTGCAACTTTAGGAAAATAAGATTACTAGCTTCAATCTGCTCCACTGCAACTTTCGAGAGA
* *
30573909 TAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGTAACT
66 TAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATTTGTAACT
30573974 TGTAGCTTTAATTTT
131 TGTAGCTTTAATTTT
* * * *
30573989 TCCACTGCAACTTTA-GAGAAATAAGATTCACTATCTTTAATTTGC-CCTATTGCAAC-TTC-AG
1 TCCACTGCAACTTTAGGA-AAATAAGATT-ACTAGCTTCAATCTGCTCC-ACTGCAACTTTCGA-
* * * * *
30574050 GGGAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATT
62 GAG-ATAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATT
30574113 CGCTATCTTT
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
144 3 0.03
145 32 0.30
146 72 0.67
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (145 bp):
TCCACTGCAACTTTAGGAAAATAAGATTACTAGCTTCAATCTGCTCCACTGCAACTTTCGAGAGA
TAAAATTTGTAACTAGTAGATTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATTTGTAACT
TGTAGCTTTAATTTT
Found at i:30574099 original size:51 final size:50
Alignment explanation
Indices: 30573833--30574147 Score: 213
Period size: 51 Copynumber: 6.6 Consensus size: 50
30573823 AAGTTTGTCA
* * **
30573833 CTTTAATCTGCTCCACTGCAACTTTAGGAAAATAAGA--T-T-A--GTAG
1 CTTTAATCTGTTCCACTGCAACTTCAGGGGAATAAGATTTGTAACTGTAG
* * * *
30573877 CTTCAATCTGCTCCACTGCAACTTTC--GAGAGATAAAATTTGTAACTAGTAG
1 CTTTAATCTGTTCCACTGCAAC-TTCAGGGGA-ATAAGATTTGTAACT-GTAG
* *
30573928 ATTTAATCTATTCCACTGCAACTTCA-GGGAGATAAGATTTGTAACTTGTAG
1 CTTTAATCTGTTCCACTGCAACTTCAGGGGA-ATAAGATTTGTAAC-TGTAG
* * * * * *
30573979 CTTTAAT-TTTTCCACTGCAACTTTAGAGAAATAAGA--T-TCAC--TAT
1 CTTTAATCTGTTCCACTGCAACTTCAGGGGAATAAGATTTGTAACTGTAG
* * *
30574023 CTTTAATTTG-CCCTATTGCAACTTCAGGGGAATAAGATTTGTAACTTGTAG
1 CTTTAATCTGTTCC-ACTGCAACTTCAGGGGAATAAGATTTGTAAC-TGTAG
* * * *
30574074 CTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCG---C--TAT
1 CTTTAATCTGTTCCACTGCAACTTCAGGGGAATAAGATTTGTAACTGTAG
30574119 CTTTAATCTGTTCCACTGCAACTTCAGGG
1 CTTTAATCTGTTCCACTGCAACTTCAGGG
30574148 ACCTGTAGCT
Statistics
Matches: 217, Mismatches: 33, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.01
44 37 0.17
45 52 0.24
46 1 0.00
47 5 0.02
48 6 0.03
50 25 0.12
51 85 0.39
52 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (50 bp):
CTTTAATCTGTTCCACTGCAACTTCAGGGGAATAAGATTTGTAACTGTAG
Found at i:30574369 original size:109 final size:110
Alignment explanation
Indices: 30574231--30574444 Score: 281
Period size: 112 Copynumber: 1.9 Consensus size: 110
30574221 CTTCAAGGAG
* *
30574231 ATAAGATTTGTGGCTTTAATCTGCTCCACTGTAACTTCAAGGG-AATAAGATTTG-TAACTTACA
1 ATAAGATTTGTAGCTTTAATCGGCTCCACTGTAACTTC-AGGGAAATAAGATTTGATAACTTACA
30574294 ACTTTAATCTATTCCACTGCAACTTCAAAGAAATAAGATAAGGGAA
65 ACTTTAATCTATTCCACTGCAACTTCAAAGAAATAAGATAAGGGAA
* *
30574340 ATAAGATTTGCTATCTTTAATCGGC-CCACTGTAACTTCAGGGAAATAAGATTTGTAATAACTTG
1 ATAAGATTTG-TAGCTTTAATCGGCTCCACTGTAACTTCAGGGAAATAAGATTTG--ATAACTTA
* * * * **
30574404 TAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGAT
63 CAACTTTAATCTATTCCACTGCAACTTCAAAGAAATAAGAT
30574445 TCGCTATCTT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
108 4 0.04
109 34 0.38
110 11 0.12
112 41 0.46
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (110 bp):
ATAAGATTTGTAGCTTTAATCGGCTCCACTGTAACTTCAGGGAAATAAGATTTGATAACTTACAA
CTTTAATCTATTCCACTGCAACTTCAAAGAAATAAGATAAGGGAA
Found at i:30574519 original size:44 final size:44
Alignment explanation
Indices: 30574399--30574576 Score: 214
Period size: 44 Copynumber: 4.0 Consensus size: 44
30574389 ATTTGTAATA
* * *
30574399 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAG
1 ACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
30574443 A-TTCGCTATCTTTAATCTGCCCCACTGTAACTTCAGGGAGATAAG
1 ACTT-G-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
30574488 ACTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
1 ACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
30574532 ATTTGTGGTTTTAATCTGCTCCATTGCAAATTCAGGGAGATAAG
1 ACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
30574576 A
1 A
30574577 TTTGCCACGA
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
43 2 0.02
44 74 0.65
45 35 0.31
46 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:30583176 original size:24 final size:25
Alignment explanation
Indices: 30583064--30583176 Score: 81
Period size: 24 Copynumber: 4.6 Consensus size: 25
30583054 GGACTCACCA
*
30583064 CAGCTCGTATGAGCTTATCGAT-TA-
1 CAGCTCGTATGAGCTTA-CCATATAT
* * *
30583088 CAGCTCGTAAGAGCTTACTA-ATTCT
1 CAGCTCGTATGAGCTTACCATA-TAT
* * *
30583113 CAGCTCTTATGAGCTTACCGTTATTT
1 CAGCTCGTATGAGCTTACC-ATATAT
* * *
30583139 CAACTCGGAGGAGCTTACCATATAT
1 CAGCTCGTATGAGCTTACCATATAT
30583164 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
30583177 ATACATGTAT
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
23 2 0.03
24 27 0.40
25 20 0.30
26 17 0.25
27 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCATATAT
Found at i:30585138 original size:21 final size:20
Alignment explanation
Indices: 30585098--30585138 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30585088 GATCTTGCAC
* *
30585098 ATATTTCTGAATTTGTTCTA
1 ATATTTCTAAATTTGATCTA
30585118 ATATTTCTAATATTTGATCTA
1 ATATTTCTAA-ATTTGATCTA
30585139 TTGCTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (20 bp):
ATATTTCTAAATTTGATCTA
Found at i:30585272 original size:19 final size:20
Alignment explanation
Indices: 30585248--30585292 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
30585238 TTATAAAACT
*
30585248 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
30585267 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
30585287 -AATGCA
1 TAATGCA
30585293 AAAGAGGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:30588032 original size:22 final size:22
Alignment explanation
Indices: 30588007--30588048 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30587997 TTTATGAAGT
*
30588007 TTTTATATTTTTTTAATTTTAA
1 TTTTATATTTTTATAATTTTAA
*
30588029 TTTTTTATTTTTATAATTTT
1 TTTTATATTTTTATAATTTT
30588049 TTGAATTACT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATATTTTTATAATTTTAA
Found at i:30588034 original size:14 final size:15
Alignment explanation
Indices: 30588008--30588055 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
30587998 TTATGAAGTT
*
30588008 TTTATATTTTTTTAA
1 TTTATAATTTTTTAA
*
30588023 TTT-TAATTTTTTATT
1 TTTATAATTTTTTA-A
30588038 TTTATAATTTTTTGAA
1 TTTATAATTTTTT-AA
30588054 TT
1 TT
30588056 ACTTATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.33
15 6 0.22
16 11 0.41
17 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATAATTTTTTAA
Found at i:30588045 original size:16 final size:16
Alignment explanation
Indices: 30588006--30588050 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
30587996 TTTTATGAAG
*
30588006 TTTTTATATTTTTTTA
1 TTTTTATAATTTTTTA
*
30588022 -ATTT-TAATTTTTTA
1 TTTTTATAATTTTTTA
30588036 TTTTTATAATTTTTT
1 TTTTTATAATTTTTT
30588051 GAATTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 9 0.38
15 6 0.25
16 9 0.38
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTATAATTTTTTA
Found at i:30588616 original size:18 final size:18
Alignment explanation
Indices: 30588579--30588616 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30588569 CAAATTTCTC
*
30588579 TATTTTTTAATATTTTTT
1 TATTTTTTAATATTTATT
30588597 TATTTTATTAAT-TTTATT
1 TATTTT-TTAATATTTATT
30588615 TA
1 TA
30588617 ATAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTTAATATTTATT
Found at i:30594545 original size:19 final size:21
Alignment explanation
Indices: 30594510--30594549 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
30594500 GTATTGTTTT
30594510 TTATTTTTAATATTAATATAA
1 TTATTTTTAATATTAATATAA
30594531 TTATTTTT-A-ATTAATATAA
1 TTATTTTTAATATTAATATAA
30594550 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATTTTTAATATTAATATAA
Found at i:30603758 original size:19 final size:19
Alignment explanation
Indices: 30603734--30603781 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
30603724 TTATTATTTT
30603734 AAAATTTTATCTACATTAC
1 AAAATTTTATCTACATTAC
30603753 AAAATTTTATCTACATTAC
1 AAAATTTTATCTACATTAC
30603772 AAAATTTTAT
1 AAAATTTTAT
30603782 GCATCAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATTTTATCTACATTAC
Found at i:30603852 original size:11 final size:11
Alignment explanation
Indices: 30603838--30603867 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
30603828 TTATCAGAAG
30603838 TTTCAAAAATC
1 TTTCAAAAATC
*
30603849 TTTCAATAATC
1 TTTCAAAAATC
30603860 TTTCAAAA
1 TTTCAAAA
30603868 GTTTTAGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTCAAAAATC
Found at i:30607946 original size:14 final size:14
Alignment explanation
Indices: 30607927--30607978 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
30607917 GAACCCTAGG
30607927 TGTGCAAACCTTTA
1 TGTGCAAACCTTTA
*
30607941 TGTGCAAACCTGTA
1 TGTGCAAACCTTTA
* *
30607955 AGTGCGAACAC-TTA
1 TGTGCAAAC-CTTTA
*
30607969 TGTGCGAACC
1 TGTGCAAACC
30607979 CCTATGAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (14 bp):
TGTGCAAACCTTTA
Found at i:30608100 original size:26 final size:27
Alignment explanation
Indices: 30608071--30608142 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
30608061 ATGAGCGAGC
30608071 CCCTATGTGCGAACCCTATAG-ACAAA
1 CCCTATGTGCGAACCCTATAGAACAAA
* *
30608097 CCCTATGTGTGAACCTTATAGAAACAAA
1 CCCTATGTGCGAACCCTATAG-AACAAA
* * *
30608125 CACTATGCGCAAACCCTA
1 CCCTATGTGCGAACCCTA
30608143 CTTGTGCGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 19 0.51
28 18 0.49
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (27 bp):
CCCTATGTGCGAACCCTATAGAACAAA
Found at i:30609815 original size:21 final size:22
Alignment explanation
Indices: 30609791--30609835 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
30609781 AGAAAAAGAG
30609791 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
30609812 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
30609834 AA
1 AA
30609836 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:30612253 original size:12 final size:12
Alignment explanation
Indices: 30612236--30612260 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30612226 GAATATTTAG
30612236 ATGTAGAATTCT
1 ATGTAGAATTCT
30612248 ATGTAGAATTCT
1 ATGTAGAATTCT
30612260 A
1 A
30612261 GTAAGTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGTAGAATTCT
Found at i:30614475 original size:19 final size:22
Alignment explanation
Indices: 30614432--30614477 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
30614422 TATGTAATAT
*
30614432 AACATATAATATATAATAAGTA
1 AACATATAATATATAATAAGAA
30614454 AACATAT-ATATAT-ATAA-AA
1 AACATATAATATATAATAAGAA
30614473 AACAT
1 AACAT
30614478 CATTAATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 6 0.26
22 7 0.30
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
AACATATAATATATAATAAGAA
Found at i:30615524 original size:3 final size:3
Alignment explanation
Indices: 30615516--30615574 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
30615506 GTGAAATACT
* * * * *
30615516 ATA ATA ATA A-C ATA ATT ATA ATA ATA TTA ATA TTA ATA ATA AT- ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
30615562 ATA GTA ATA ATA A
1 ATA ATA ATA ATA A
30615575 ATAAATGAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:30615577 original size:18 final size:18
Alignment explanation
Indices: 30615533--30615574 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
30615523 TAACATAATT
*
30615533 ATAATAATATTAATATTA
1 ATAATAATATTAATAGTA
30615551 ATAATAATATT-ATAGTA
1 ATAATAATATTAATAGTA
30615568 ATAATAA
1 ATAATAA
30615575 ATAAATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATAATATTAATAGTA
Found at i:30615681 original size:20 final size:18
Alignment explanation
Indices: 30615656--30615740 Score: 68
Period size: 20 Copynumber: 4.6 Consensus size: 18
30615646 AAAGCGCCAA
30615656 AAAATAATAAGAGAAATAAT
1 AAAATAATAA-A-AAATAAT
* * *
30615676 AAAATAATAAGAACACACT
1 AAAATAATAA-AAAATAAT
30615695 AAAA-AATAAAAAATAA-
1 AAAATAATAAAAAATAAT
30615711 AAAA-AATAAAAAAATAAT
1 AAAATAAT-AAAAAATAAT
*
30615729 GACAATAATAAA
1 -AAAATAATAAA
30615741 TAAAAAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
16 7 0.13
17 13 0.24
18 5 0.09
19 14 0.26
20 15 0.28
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAATAATAAAAAATAAT
Found at i:30615931 original size:4 final size:4
Alignment explanation
Indices: 30615922--30616069 Score: 72
Period size: 4 Copynumber: 36.5 Consensus size: 4
30615912 ATGAAGGAAT
** *
30615922 AATA AATA AATA AATA AATA AACG AATA AA-A GAATTAA AATA AA-A AAGTG
1 AATA AATA AATA AATA AATA AATA AATA AATA -AA-T-A AATA AATA AA-TA
* * * * * * *
30615972 AATA AGTG AAT- AATA TATA AATA AATA AGTA AATG AGTA AATA AATG
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * *
30616019 AATAA AATA AA-A GGAAT- AATG AATA AATA AATA AGTA AATA GATG AATA
1 AAT-A AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA AATA
30616068 AA
1 AA
30616070 AGAATTAAAA
Statistics
Matches: 106, Mismatches: 26, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
3 11 0.10
4 84 0.79
5 8 0.08
6 2 0.02
7 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.11, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:30615992 original size:61 final size:58
Alignment explanation
Indices: 30615918--30616089 Score: 199
Period size: 61 Copynumber: 2.9 Consensus size: 58
30615908 AAAAATGAAG
*
30615918 GAATAATAAATAAATAAATAAATAAACGAATAAAAGAATTAAAATAAAAAAGTGAATAAGT
1 GAATAAT-AATAAATAAATAAATAAATGAATAAAAGAATTAAAATAAAAAAG-GAATAA-T
* * *
30615979 GAATAATATATAAATAAATAAGTAAATGAGTAAATA-AATGAATAA-AATAAAAGGAATAAT
1 GAATAATA-ATAAATAAATAAATAAATGAATAAA-AGAATTAA-AATAA-AAAAGGAATAAT
* *
30616039 GAAT-A-AATAAATAAGTAAATAGATGAATAAAAGAATTAAAATAAAAAAGGA
1 GAATAATAATAAATAAATAAATAAATGAATAAAAGAATTAAAATAAAAAAGGA
30616090 CTTAATTGTA
Statistics
Matches: 96, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
56 10 0.10
57 28 0.29
58 1 0.01
59 1 0.01
60 6 0.06
61 42 0.44
62 8 0.08
ACGTcount: A:0.66, C:0.01, G:0.12, T:0.22
Consensus pattern (58 bp):
GAATAATAATAAATAAATAAATAAATGAATAAAAGAATTAAAATAAAAAAGGAATAAT
Found at i:30616036 original size:53 final size:54
Alignment explanation
Indices: 30615979--30616084 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 54
30615969 GTGAATAAGT
*
30615979 GAATAAT-ATATAAATAAATAAGTAAAT-GAGTAAATAAATGAA-TAAAATAAAAG
1 GAATAATGA-ATAAATAAATAAGTAAATAGA-TAAATAAAAGAATTAAAATAAAAG
*
30616032 GAATAATGAATAAATAAATAAGTAAATAGATGAATAAAAGAATTAAAATAAAA
1 GAATAATGAATAAATAAATAAGTAAATAGATAAATAAAAGAATTAAAATAAAA
30616085 AAGGACTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
53 35 0.73
54 13 0.27
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (54 bp):
GAATAATGAATAAATAAATAAGTAAATAGATAAATAAAAGAATTAAAATAAAAG
Found at i:30617773 original size:27 final size:27
Alignment explanation
Indices: 30617736--30617791 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
30617726 TTTACAAATA
*
30617736 TTTAAATATTTTTATTATT-TATTATATT
1 TTTAAATATTTATATT-TTCTATTAT-TT
30617764 TTTAAA-ATTTATATTTTCTATTATTT
1 TTTAAATATTTATATTTTCTATTATTT
30617790 TT
1 TT
30617792 AATGATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.23
27 14 0.54
28 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTAAATATTTATATTTTCTATTATTT
Found at i:30617792 original size:18 final size:17
Alignment explanation
Indices: 30617741--30617792 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
30617731 AAATATTTAA
30617741 ATATTTTTATTATTTATT
1 ATATTTTTATTATTT-TT
**
30617759 ATATTTTTA--AAATTT
1 ATATTTTTATTATTTTT
30617774 ATATTTTCTATTATTTTT
1 ATATTTT-TATTATTTTT
30617792 A
1 A
30617793 ATGATGTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 9 0.33
16 4 0.15
18 14 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTTATTATTTTT
Found at i:30623138 original size:46 final size:46
Alignment explanation
Indices: 30623071--30623229 Score: 291
Period size: 46 Copynumber: 3.5 Consensus size: 46
30623061 TGATCAGTGA
* *
30623071 CAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
30623117 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
30623163 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
30623209 CACGTGACAAAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
30623230 TAATCAAGTG
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:30623245 original size:25 final size:25
Alignment explanation
Indices: 30623207--30623254 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30623197 CACTTATCTG
* *
30623207 ATCACGTGACAAAGTGATAAGTGTA
1 ATCAAGTGAAAAAGTGATAAGTGTA
30623232 ATCAAGTGAAAAAGTGATAAGTG
1 ATCAAGTGAAAAAGTGATAAGTG
30623255 GTAGCCTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (25 bp):
ATCAAGTGAAAAAGTGATAAGTGTA
Found at i:30626611 original size:24 final size:24
Alignment explanation
Indices: 30626579--30626633 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
30626569 GTATTACATA
30626579 TAACGGGTAGCTCCAAAGAGCAAT
1 TAACGGGTAGCTCCAAAGAGCAAT
* *
30626603 TAACGGGTAGCTCCGAAGAGCACT
1 TAACGGGTAGCTCCAAAGAGCAAT
*
30626627 GAACGGG
1 TAACGGG
30626634 AAGCACCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.31, T:0.15
Consensus pattern (24 bp):
TAACGGGTAGCTCCAAAGAGCAAT
Found at i:30626723 original size:26 final size:26
Alignment explanation
Indices: 30626675--30626740 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
30626665 AAGCAAGCAC
* * *
30626675 TAACGGGAAGCTCACAAATAGCC-TT
1 TAACGGGAAGCTTACAAAGAGCCATA
*
30626700 TAATCGGGAAGCTTACGAAGAGCCATA
1 TAA-CGGGAAGCTTACAAAGAGCCATA
*
30626727 TAACGGGACGCTTA
1 TAACGGGAAGCTTA
30626741 TAAGAGTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 27 0.79
27 4 0.12
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
TAACGGGAAGCTTACAAAGAGCCATA
Done.