Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 49 of 85
Found at i:16625326 original size:24 final size:23
Alignment explanation
Indices: 16625268--16625326 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
16625258 AAATAATGTT
*
16625268 GATTTTGGTACGATATGGTAATG
1 GATTTTGGTACGAAATGGTAATG
**
16625291 GGGTTTGGTACGAAATGGT-ATG
1 GATTTTGGTACGAAATGGTAATG
16625313 GAAATTTTGGTACG
1 G--ATTTTGGTACG
16625327 TAATAGACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (23 bp):
GATTTTGGTACGAAATGGTAATG
Found at i:16628650 original size:20 final size:19
Alignment explanation
Indices: 16628622--16628671 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
16628612 CCACTCTCAA
16628622 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
16628643 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
16628662 T-TCTTTTTCT
1 TCTCTTTTTCT
16628672 GTGATTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:16628656 original size:18 final size:17
Alignment explanation
Indices: 16628628--16628671 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
16628618 TCAATCTCTT
16628628 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
16628647 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
16628665 TTTTTCT
1 TTTTTCT
16628672 GTGATTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:16632449 original size:62 final size:62
Alignment explanation
Indices: 16632352--16632476 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
16632342 TCTACCCAAG
* * * * * *
16632352 GTGATAGAGGGTTGTGCGCGGACCAAGATTGAGTTGTCAAGTCACGGGAAACTCCTACGAAA
1 GTGATAGAGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGACACGAGAAACTCCTACGAAA
* * *
16632414 GTGATAGGGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGACATGAGAAACTCCTATGAAA
1 GTGATAGAGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGACACGAGAAACTCCTACGAAA
16632476 G
1 G
16632477 GCCCTAGACG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.19
Consensus pattern (62 bp):
GTGATAGAGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGACACGAGAAACTCCTACGAAA
Found at i:16636391 original size:23 final size:22
Alignment explanation
Indices: 16636339--16636391 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
16636329 TCCTTGTCTT
*
16636339 TTTCTTTTGTTTCTTTTTATAA
1 TTTCTTTTCTTTCTTTTTATAA
* *
16636361 CTTATTTTCTCTTCTTTCTT-TAA
1 TTTCTTTTCT-TTCTTT-TTATAA
16636384 TTTCTTTT
1 TTTCTTTT
16636392 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 15 0.62
24 2 0.08
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTATAA
Found at i:16640172 original size:17 final size:18
Alignment explanation
Indices: 16640152--16640187 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
16640142 CACACTCATT
16640152 TTCTCAATGTTTTT-TTC
1 TTCTCAATGTTTTTCTTC
*
16640169 TTCTCCATGTTTTTCTTC
1 TTCTCAATGTTTTTCTTC
16640187 T
1 T
16640188 ATTGCTGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.08, C:0.22, G:0.06, T:0.64
Consensus pattern (18 bp):
TTCTCAATGTTTTTCTTC
Found at i:16641565 original size:11 final size:12
Alignment explanation
Indices: 16641537--16641570 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16641527 AATACAACTT
16641537 GAATTTTTTTTC
1 GAATTTTTTTTC
*
16641549 GAATTTTTTTTT
1 GAATTTTTTTTC
16641561 G-ATTTTTTTT
1 GAATTTTTTTT
16641571 GCACTTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.74
Consensus pattern (12 bp):
GAATTTTTTTTC
Found at i:16646416 original size:274 final size:269
Alignment explanation
Indices: 16645932--16646470 Score: 902
Period size: 274 Copynumber: 2.0 Consensus size: 269
16645922 CCGACTATGT
*
16645932 GCTGCCAATAAGAGGATAATTGATCGAATCTTTAAGATTGAAAGAGGCTGAAAACAAAACAAGAA
1 GCTGCCAATAAGAGGAGAATTGATCGAATCTTTAAGATTGAAAGAGGCTGAAAACAAAACAAGAA
* * ** * *
16645997 GAGTAATTAAATTAATAACGATAACAAGTAGATAAAAAGAAGAGAATTGAACAGCAAGAAATTAA
66 GAGCAATTAAATCAATAACGATAACAAACAGATAAAAAGAAGAAAATTGAACAGCAAGAAAATAA
16646062 ATTAAAAGTCCTAAGAAGCCTTGAAATCCTAAAAGATTTCACAATTCCCTTCAATCGACTCTAAT
131 ATTAAAAGTCCTAAGAAGCCTTGAAATCCTAAAAGATTTCACAATTCCCTTCAATCGACTCTAAT
16646127 CTCCCCTCCAAAGAATATCAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAGATTG
196 CTCCCCTCCAAAGAATATCAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAGATTG
*
16646192 TTAAAACAA
261 CTAAAACAA
16646201 GCTGCCAATAAGAGGAGAATTGATCGAATCTTTAAGATTGAAAGAGGCTGAAAACAAAACAAGAA
1 GCTGCCAATAAGAGGAGAATTGATCGAATCTTTAAGATTGAAAGAGGCTGAAAACAAAACAAGAA
* * *
16646266 GAGCAATTAAATCAATAACGATAATCGGCACAAACAGA-AACTAA-AAGAAAATTGATCAGGAAG
66 GAGCAATTAAATCAATAACGAT-A-----ACAAACAGATAA-AAAGAAGAAAATTGAACAGCAAG
16646329 AAAATAAATTAAAAGTCCTAAGAAGCCTTGAAATCCTAAAAGATTTCACAATTCCCTTCAATCGA
124 AAAATAAATTAAAAGTCCTAAGAAGCCTTGAAATCCTAAAAGATTTCACAATTCCCTTCAATCGA
16646394 CTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAA
189 CTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAA
16646459 AAGATTGCTAAA
254 AAGATTGCTAAA
16646471 CAACTTCTTA
Statistics
Matches: 252, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
269 84 0.33
270 1 0.00
274 158 0.63
275 9 0.04
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (269 bp):
GCTGCCAATAAGAGGAGAATTGATCGAATCTTTAAGATTGAAAGAGGCTGAAAACAAAACAAGAA
GAGCAATTAAATCAATAACGATAACAAACAGATAAAAAGAAGAAAATTGAACAGCAAGAAAATAA
ATTAAAAGTCCTAAGAAGCCTTGAAATCCTAAAAGATTTCACAATTCCCTTCAATCGACTCTAAT
CTCCCCTCCAAAGAATATCAATGGCAAGAAGAAGGCTGAAGATGGCTCCCACAATCAAAAGATTG
CTAAAACAA
Found at i:16646504 original size:25 final size:25
Alignment explanation
Indices: 16646475--16646528 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
16646465 GCTAAACAAC
*
16646475 TTCTTAAAG-AAAATTCAAGAGAGAA
1 TTCTTAAAGAAAAACTCAA-AGAGAA
**
16646500 TTCTTGGAGAAAAACTCAAAGAGAA
1 TTCTTAAAGAAAAACTCAAAGAGAA
16646525 TTCT
1 TTCT
16646529 GCACTCAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (25 bp):
TTCTTAAAGAAAAACTCAAAGAGAA
Found at i:16649907 original size:20 final size:20
Alignment explanation
Indices: 16649869--16649908 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16649859 AATATTTTCC
* *
16649869 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
16649889 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
16649909 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:16649923 original size:34 final size:35
Alignment explanation
Indices: 16649857--16649923 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16649847 CAAACACCAG
* *
16649857 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
16649892 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
16649924 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:16649930 original size:14 final size:14
Alignment explanation
Indices: 16649892--16649931 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16649882 ATAGAAAAGT
*
16649892 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
16649906 AAATCATTTTACGG
1 AAAACATTTTACAG
16649920 AAAACATTTTAC
1 AAAACATTTTAC
16649932 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:16656123 original size:13 final size:12
Alignment explanation
Indices: 16656105--16656146 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
16656095 TGTGAGCGAG
16656105 AAAAGAACATTGA
1 AAAAGAA-ATTGA
16656118 AAAAGAAATTG-
1 AAAAGAAATTGA
16656129 -AAAGAAA-TGA
1 AAAAGAAATTGA
16656139 AAAAGAAA
1 AAAAGAAA
16656147 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:16656186 original size:18 final size:19
Alignment explanation
Indices: 16656165--16656205 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
16656155 AATGAGATTT
16656165 AAAAAAC-AAAAGAGAGTG
1 AAAAAACAAAAAGAGAGTG
* *
16656183 -AAAAGCAAAAAGAGATTG
1 AAAAAACAAAAAGAGAGTG
16656201 AAAAA
1 AAAAA
16656206 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.68, C:0.05, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAAAACAAAAAGAGAGTG
Found at i:16656206 original size:12 final size:12
Alignment explanation
Indices: 16656189--16656231 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
16656179 AGTGAAAAGC
16656189 AAAAAGAGATTG
1 AAAAAGAGATTG
*
16656201 AAAAAGAAATTG
1 AAAAAGAGATTG
*
16656213 AAAAAGAGTTTG
1 AAAAAGAGATTG
*
16656225 CAAAAGA
1 AAAAAGA
16656232 AACGAGTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.16
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:16685407 original size:12 final size:12
Alignment explanation
Indices: 16685379--16685411 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16685369 CACAATTTTC
16685379 TTTTTC-AATTT
1 TTTTTCGAATTT
16685390 TATTTTCGAATTT
1 T-TTTTCGAATTT
16685403 TTTTTCGAA
1 TTTTTCGAA
16685412 ACTACAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 13 0.65
13 6 0.30
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (12 bp):
TTTTTCGAATTT
Found at i:16698132 original size:116 final size:117
Alignment explanation
Indices: 16697924--16698158 Score: 418
Period size: 116 Copynumber: 2.0 Consensus size: 117
16697914 AAATTTGCAG
16697924 GGAGGATTAGATATTTATAAAGGGGTTATATTGAGTTGTAAAAAAAATCAGTAAAATCTGGTAAT
1 GGAGGATTAGATATTTATAAAGGGGTTATATTGAGTTGTAAAAAAAATCAGTAAAATCTGGTAAT
*
16697989 ACCTCGTATCCTATTCCGGCGACGGATACTGGTAAGGGCTGTTACATTTGTT
66 ACCTCGTATCCTATTCCGGCGACGGATACGGGTAAGGGCTGTTACATTTGTT
* *
16698041 GGAGGATTAGATATTTATAAAGGGGTTATATTGAGTTGT-AAAAAAATTAGTAAAATTTGGTAAT
1 GGAGGATTAGATATTTATAAAGGGGTTATATTGAGTTGTAAAAAAAATCAGTAAAATCTGGTAAT
* *
16698105 ACCTCGTATCCTATTCCGGCGATGGATACGGGTAAGGGGTGTTACATTTGTT
66 ACCTCGTATCCTATTCCGGCGACGGATACGGGTAAGGGCTGTTACATTTGTT
16698157 GG
1 GG
16698159 TATCAGAGCT
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
116 74 0.65
117 39 0.35
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (117 bp):
GGAGGATTAGATATTTATAAAGGGGTTATATTGAGTTGTAAAAAAAATCAGTAAAATCTGGTAAT
ACCTCGTATCCTATTCCGGCGACGGATACGGGTAAGGGCTGTTACATTTGTT
Found at i:16705945 original size:15 final size:17
Alignment explanation
Indices: 16705913--16705946 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
16705903 AATTGTACAA
16705913 AAATTATTATGAGTTAT
1 AAATTATTATGAGTTAT
16705930 AAATTA-TATG-GTTAT
1 AAATTATTATGAGTTAT
16705945 AA
1 AA
16705947 TACTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
AAATTATTATGAGTTAT
Found at i:16707701 original size:117 final size:117
Alignment explanation
Indices: 16707495--16707720 Score: 407
Period size: 117 Copynumber: 1.9 Consensus size: 117
16707485 ATTTGCAGGG
* *
16707495 AGGATTAGATATTTATAAAGGGGTTATATTGAGTTGTAAAAAAAATCAGTAAAATCTGGTAATAC
1 AGGATTAGATATTTATAAAGGGGTTATATTGAGTTGGAAAAAAAATCAGTAAAATCTGGTAAGAC
*
16707560 CTTGTATCCTATTCCAGCGACGGATACGGGTAAGGGGTGTTACATTTGTTGA
66 CTCGTATCCTATTCCAGCGACGGATACGGGTAAGGGGTGTTACATTTGTTGA
*
16707612 AGGATTAGATATTTATAAAGGGGTTATATTGAGTTGGAAAAAAAATTAGTAAAATCTGGTAAGAC
1 AGGATTAGATATTTATAAAGGGGTTATATTGAGTTGGAAAAAAAATCAGTAAAATCTGGTAAGAC
*
16707677 CTCGTATCCTATTCCGGCGACGGATACGGGTAAGGGGTGTTACA
66 CTCGTATCCTATTCCAGCGACGGATACGGGTAAGGGGTGTTACA
16707721 GTACGCATCT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.31
Consensus pattern (117 bp):
AGGATTAGATATTTATAAAGGGGTTATATTGAGTTGGAAAAAAAATCAGTAAAATCTGGTAAGAC
CTCGTATCCTATTCCAGCGACGGATACGGGTAAGGGGTGTTACATTTGTTGA
Found at i:16711341 original size:23 final size:22
Alignment explanation
Indices: 16711289--16711341 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
16711279 TCCTTGTCTT
*
16711289 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
16711311 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
16711334 TTTCTTTT
1 TTTCTTTT
16711342 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:16711355 original size:18 final size:18
Alignment explanation
Indices: 16711334--16711373 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16711324 CTTTCTTCAA
* * *
16711334 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
16711352 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
16711370 TTTC
1 TTTC
16711374 ACTCTCAATC
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:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:16723217 original size:52 final size:50
Alignment explanation
Indices: 16723098--16723219 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
16723088 CATTTAATAT
** *
16723098 AGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTGAATCATAAATTA
1 AGTCATGCATTATGTAACTCCCATGTTAGTTAAGTCTGAATCATAAATTA
* * * *
16723148 TGACATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATTATTAAATTA
1 AGTCATGCATTATGTAACTCCCATGTTAG-TTAAGTCTGAATCA-TAAATTA
* *
16723200 AGTCATGCAATAAGTAACTC
1 AGTCATGCATTATGTAACTC
16723220 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 25 0.42
51 11 0.19
52 23 0.39
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (50 bp):
AGTCATGCATTATGTAACTCCCATGTTAGTTAAGTCTGAATCATAAATTA
Found at i:16735829 original size:24 final size:24
Alignment explanation
Indices: 16735805--16735851 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16735795 AAACTACTTC
16735805 TAAAGAAAACTCAAGAGAGAATTCT
1 TAAAGAAAACTCAA-AGAGAATTCT
**
16735830 TGGAGAAAACTCAAAGAGAATT
1 TAAAGAAAACTCAAAGAGAATT
16735852 TTTCACTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (24 bp):
TAAAGAAAACTCAAAGAGAATTCT
Found at i:16755770 original size:14 final size:13
Alignment explanation
Indices: 16755749--16755784 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
16755739 ACACAAAATA
*
16755749 AATTTTTTTTCGG
1 AATTTTTTTTTGG
*
16755762 AATTTTTTTTTTG
1 AATTTTTTTTTGG
16755775 AATTTTTTTT
1 AATTTTTTTT
16755785 ACAAACTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (13 bp):
AATTTTTTTTTGG
Found at i:16758526 original size:17 final size:17
Alignment explanation
Indices: 16758496--16758534 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16758486 GAATAAGAAT
* * *
16758496 AAAAATAATCAAATCTG
1 AAAAAAAATAAAATCTC
16758513 AAAAAAAATAAAATCTC
1 AAAAAAAATAAAATCTC
16758530 AAAAA
1 AAAAA
16758535 TCAACTAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAAAAATAAAATCTC
Found at i:16760998 original size:51 final size:50
Alignment explanation
Indices: 16760922--16761106 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 50
16760912 NNGGTTCACA
* *
16760922 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATGCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATGCACG
* * * *
16760973 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATTC-A-GTACG
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGATGCACG
* * * * *
16761022 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCTGGTACACG
1 --TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGATGCACG
*
16761074 TAGTAGCCTGGACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
16761107 TAGCAACTTC
Statistics
Matches: 108, Mismatches: 18, Indels: 17
0.76 0.13 0.12
Matches are distributed among these distances:
49 5 0.05
50 36 0.33
51 62 0.57
52 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATGCACG
Found at i:16761100 original size:101 final size:101
Alignment explanation
Indices: 16760920--16761104 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
16760910 NNNNGGTTCA
* * *
16760920 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATGCACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
16760985 CATAGTACTACACACGTGATCGAAGCTATTCAGTACG
65 CATAGTACTACACACGTGATCGAAGCTATTCAGTACG
* * *
16761022 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCTGGTACACGTAGTAGCCTGGA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
16761086 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
16761105 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.50
102 34 0.45
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATTCAGTACG
Found at i:16766907 original size:17 final size:15
Alignment explanation
Indices: 16766882--16766932 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
16766872 TTTACCTCAA
*
16766882 TTTTCTCAACTTTTCCT
1 TTTTTTCAA-TTTT-CT
16766899 TTTTTTCAATTTTCT
1 TTTTTTCAATTTTCT
*
16766914 TTCTTTTC-TTTTTCT
1 TT-TTTTCAATTTTCT
16766929 TTTT
1 TTTT
16766933 CTCTCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 2 0.06
15 12 0.39
16 9 0.29
17 8 0.26
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTCAATTTTCT
Found at i:16766925 original size:30 final size:30
Alignment explanation
Indices: 16766891--16766964 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
16766881 ATTTTCTCAA
16766891 CTTTTCCTTTTTTTCAATTTTCTTTCTT-TT
1 CTTTTCCTTTTTTTCAATTTT-TTTCTTGTT
* * **
16766921 CTTTTTCTTTTTCTCTCTTTTTTTCTTGTT
1 CTTTTCCTTTTTTTCAATTTTTTTCTTGTT
16766951 CTTTTTCCTTTTTT
1 C-TTTTCCTTTTTT
16766965 ACAGTCTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 6 0.17
30 20 0.56
31 10 0.28
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (30 bp):
CTTTTCCTTTTTTTCAATTTTTTTCTTGTT
Found at i:16766928 original size:6 final size:6
Alignment explanation
Indices: 16766913--16766963 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
16766903 TTCAATTTTC
* *
16766913 TTTC-T TTTCTT TTTCTT TTTCTCT CTT-TT TTTCTT GTTCTT TTTCCTT
1 TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT TTTCTT TTTCTT TTT-CTT
16766961 TTT
1 TTT
16766964 TACAGTCTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 7 0.18
6 22 0.58
7 9 0.24
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:16766944 original size:24 final size:23
Alignment explanation
Indices: 16766911--16766964 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
16766901 TTTTCAATTT
*
16766911 TCTTTCTTTTCTTTTTCTTTTTCTC
1 TCTTT-TTTTCTTGTTCTTTTTC-C
16766936 TCTTTTTTTCTTGTTCTTTTTCC
1 TCTTTTTTTCTTGTTCTTTTTCC
16766959 T-TTTTT
1 TCTTTTT
16766965 ACAGTCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.18
23 2 0.07
24 16 0.57
25 5 0.18
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (23 bp):
TCTTTTTTTCTTGTTCTTTTTCC
Found at i:16766955 original size:14 final size:13
Alignment explanation
Indices: 16766891--16766956 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 13
16766881 ATTTTCTCAA
16766891 CTTTTCCTTTTTTT
1 CTTTT-CTTTTTTT
16766905 CAATTTTCTTTCTTTT
1 C--TTTTCTTT-TTTT
*
16766921 CTTTT-TCTTTTT
1 CTTTTCTTTTTTT
*
16766933 C-TCTCTTTTTTT
1 CTTTTCTTTTTTT
16766945 CTTGTTCTTTTT
1 CTT-TTCTTTTT
16766957 CCTTTTTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 2 0.05
12 12 0.29
13 3 0.07
14 12 0.29
15 4 0.10
16 9 0.21
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.76
Consensus pattern (13 bp):
CTTTTCTTTTTTT
Found at i:16779168 original size:120 final size:121
Alignment explanation
Indices: 16778955--16779195 Score: 475
Period size: 120 Copynumber: 2.0 Consensus size: 121
16778945 TTTTAACAAA
16778955 GAAATTTCATCTAGCATAATTGAGTGAAATTATGTAAAATTAATACCTTATTATGTAAAATTAGA
1 GAAATTTCATCTAGCATAATTGAGTGAAATTATGTAAAATTAATACCTTATTATGTAAAATTAGA
16779020 AACTTTACTTAAATTATGCCCAATGTCTCAATATGAACTAAAA-TTACACAATTAG
66 AACTTTACTTAAATTATGCCCAATGTCTCAATATGAACTAAAATTTACACAATTAG
16779075 GAAATTTCATCTAGCATAATTGAGTGAAATTATGTAAAATTAATACCTTATTATGTAAAATTAGA
1 GAAATTTCATCTAGCATAATTGAGTGAAATTATGTAAAATTAATACCTTATTATGTAAAATTAGA
16779140 AACTTTACTTAAATTATGCCCAATGTCTCAATATGAACTAAAATTTACACAATTAG
66 AACTTTACTTAAATTATGCCCAATGTCTCAATATGAACTAAAATTTACACAATTAG
16779196 CTATCTACAT
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
120 108 0.90
121 12 0.10
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (121 bp):
GAAATTTCATCTAGCATAATTGAGTGAAATTATGTAAAATTAATACCTTATTATGTAAAATTAGA
AACTTTACTTAAATTATGCCCAATGTCTCAATATGAACTAAAATTTACACAATTAG
Found at i:16787497 original size:29 final size:27
Alignment explanation
Indices: 16787464--16787518 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
16787454 GTGATTAAAT
16787464 AAAATCGAC-ACAAGCAGAATTTAAAAGAA
1 AAAATCGACAACAAG-A-AA-TTAAAAGAA
*
16787493 AAAATTGACAACAAGAAATTAAAAGA
1 AAAATCGACAACAAGAAATTAAAAGA
16787519 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 9 0.38
30 5 0.21
ACGTcount: A:0.62, C:0.11, G:0.13, T:0.15
Consensus pattern (27 bp):
AAAATCGACAACAAGAAATTAAAAGAA
Found at i:16796393 original size:23 final size:23
Alignment explanation
Indices: 16796362--16796412 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16796352 ACCTACTTTC
* *
16796362 TTACTGTAGTAATTTTCAGGGTA
1 TTACAGTAGTAATTTTCAGGATA
16796385 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
16796408 TTACA
1 TTACA
16796413 CTTATAGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:16798292 original size:20 final size:19
Alignment explanation
Indices: 16798267--16798315 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
16798257 ATGTAATAAT
*
16798267 CTAAGACAAATTTAATTGAA
1 CTAAGACAAA-TTAATTCAA
*
16798287 CTAAGACACAATTAATTCAG
1 CTAAGACA-AATTAATTCAA
16798307 CTAAGACAA
1 CTAAGACAA
16798316 GGCATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 23 0.88
21 2 0.08
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (19 bp):
CTAAGACAAATTAATTCAA
Found at i:16802009 original size:38 final size:38
Alignment explanation
Indices: 16801957--16802187 Score: 286
Period size: 38 Copynumber: 6.1 Consensus size: 38
16801947 AACATTTATT
* * * *
16801957 ACACCGGTAATAAGCCTACTAGGCACTAAGCTTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
* * *
16801995 ACACCGGCATTAAG-CTAGCTAGGAACAAAGCCTGAATA
1 ACACCGGCACTAAGCCT-GCTAGGCACAAAGCTTGAATA
* * *
16802033 ACATCGAG-ACTAAGCCTGTTAGGCACAAAGCCTGAATA
1 ACACCG-GCACTAAGCCTGCTAGGCACAAAGCTTGAATA
* *
16802071 ACACAGGCACTAAGCCTGCTAGGCACAAAACTTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
* *
16802109 ACACCGGTACTAAGCCTGCTAGGCACAAAGCTTAAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
* *
16802147 ACACTGGCACTAAGCCTGCTAGGCACAAAGCGTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
16802185 ACA
1 ACA
16802188 TTATGATTCA
Statistics
Matches: 166, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
37 3 0.02
38 160 0.96
39 3 0.02
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
Found at i:16803192 original size:11 final size:11
Alignment explanation
Indices: 16803178--16803208 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16803168 TTTTCTCTCT
16803178 TTTATTTCTTC
1 TTTATTTCTTC
16803189 TTTATTTCTTC
1 TTTATTTCTTC
16803200 TTT-TTTCTT
1 TTTATTTCTT
16803209 TTTGGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTTCTTC
Found at i:16809570 original size:22 final size:21
Alignment explanation
Indices: 16809535--16809577 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
16809525 CATCACATAT
16809535 TATCTTAAAGTTTACGTTTTTC
1 TATCTTAAAGTTTAC-TTTTTC
* *
16809557 TATCTTGAATTTTACTTTTTC
1 TATCTTAAAGTTTACTTTTTC
16809578 AAATGATCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.58
Consensus pattern (21 bp):
TATCTTAAAGTTTACTTTTTC
Found at i:16811059 original size:22 final size:22
Alignment explanation
Indices: 16811031--16811076 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
16811021 AGTTATATAC
16811031 TAAGTGATTCAATTGATTAAGT
1 TAAGTGATTCAATTGATTAAGT
16811053 TAAGTGATTCAATTGATTAAGT
1 TAAGTGATTCAATTGATTAAGT
16811075 TA
1 TA
16811077 TTAAGCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.41
Consensus pattern (22 bp):
TAAGTGATTCAATTGATTAAGT
Found at i:16812792 original size:25 final size:25
Alignment explanation
Indices: 16812760--16812818 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
16812750 TACAAATCAT
16812760 TTGATCCCTAATTACATATGTCTAA
1 TTGATCCCTAATTACATATGTCTAA
16812785 TTGATCCCTAATTACATATGTCTAA
1 TTGATCCCTAATTACATATGTCTAA
16812810 TTGATCCCT
1 TTGATCCCT
16812819 CCTCTAGCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (25 bp):
TTGATCCCTAATTACATATGTCTAA
Found at i:16833731 original size:12 final size:12
Alignment explanation
Indices: 16833714--16833757 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 12
16833704 AGTAGTAAAG
16833714 TTTTATTTTTAT
1 TTTTATTTTTAT
16833726 TTTTATTTATTTATT
1 TTTTA-TT-TTTA-T
16833741 TATTTATTTTTAT
1 T-TTTATTTTTAT
16833754 TTTT
1 TTTT
16833758 TTTAGATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 8 0.29
15 4 0.14
16 4 0.14
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:16833744 original size:18 final size:18
Alignment explanation
Indices: 16833721--16833755 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16833711 AAGTTTTATT
16833721 TTTATTT-TTATTTATTTA
1 TTTATTTATT-TTTATTTA
16833739 TTTATTTATTTTTATTT
1 TTTATTTATTTTTATTT
16833756 TTTTTAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTATTTTTATTTA
Found at i:16836101 original size:19 final size:20
Alignment explanation
Indices: 16836060--16836101 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
16836050 AACAAGTGAG
*
16836060 GAAAAATAGAAAGGAGAAGA
1 GAAAAATAGAAAGGAGAAAA
16836080 GAAAAATA-AAAGTGA-AAAA
1 GAAAAATAGAAAG-GAGAAAA
16836099 GAA
1 GAA
16836102 GAAAATGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (20 bp):
GAAAAATAGAAAGGAGAAAA
Found at i:16848642 original size:32 final size:34
Alignment explanation
Indices: 16848577--16848643 Score: 84
Period size: 36 Copynumber: 2.0 Consensus size: 34
16848567 TAAAAAAGTT
*
16848577 ATGTTAAAAGAAATGGAAAATATAGGGAAAAAAACC
1 ATGTTAAAAGAAATGG--AAGATAGGGAAAAAAACC
*
16848613 ATGTTAAAAGAAATGG-AGA-AGGGAGAAAAAC
1 ATGTTAAAAGAAATGGAAGATAGGGAAAAAAAC
16848644 AGAGGGAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 11 0.38
33 2 0.07
36 16 0.55
ACGTcount: A:0.57, C:0.04, G:0.24, T:0.15
Consensus pattern (34 bp):
ATGTTAAAAGAAATGGAAGATAGGGAAAAAAACC
Found at i:16862812 original size:9 final size:9
Alignment explanation
Indices: 16862793--16862851 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
16862783 CTTTATAAAA
16862793 TTTTATAATT
1 TTTTAT-ATT
16862803 TTTTATA-T
1 TTTTATATT
* *
16862811 TTCTATATA
1 TTTTATATT
16862820 TTTTATATT
1 TTTTATATT
*
16862829 TTTTACGA-T
1 TTTTA-TATT
16862838 TTTTATAATT
1 TTTTAT-ATT
16862848 TTTT
1 TTTT
16862852 TCTAATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 7 0.18
9 20 0.51
10 12 0.31
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTATATT
Found at i:16862839 original size:27 final size:26
Alignment explanation
Indices: 16862791--16862849 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
16862781 TACTTTATAA
*
16862791 AATTTTATAATTTTTTATATTTCTAT
1 AATTTTATAATTTTTTAGATTTCTAT
*
16862817 ATATTTTAT-ATTTTTTACGATTTTTAT
1 A-ATTTTATAATTTTTTA-GATTTCTAT
16862844 AATTTT
1 AATTTT
16862850 TTTCTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (26 bp):
AATTTTATAATTTTTTAGATTTCTAT
Found at i:16862860 original size:19 final size:18
Alignment explanation
Indices: 16862819--16862861 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
16862809 ATTTCTATAT
16862819 ATTTTATATTTTTTACGA
1 ATTTTATATTTTTTACGA
* * *
16862837 TTTTTATAATTTTTTTCTA
1 ATTTTAT-ATTTTTTACGA
16862856 ATTTTA
1 ATTTTA
16862862 AATAAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTATATTTTTTACGA
Found at i:16862963 original size:87 final size:90
Alignment explanation
Indices: 16862865--16863047 Score: 232
Period size: 90 Copynumber: 2.1 Consensus size: 90
16862855 AATTTTAAAT
* * *
16862865 AAAAACAGGGGCTTAGTTGC-TTTT-TTGAAAATGTTTGAGGG-TCTTTTTGATGCT-TTTTGAA
1 AAAAACAGGGGCTTAATTGCTTTTTCTTAAAAAGGTTTGAGGGCT-TTTTTGATG-TATTTTGAA
* *
16862926 AGTTCAAGTACCCAATTGAGTGCAAA-
64 AGTTCAACTACCCAAATGAGTGCAAAG
*
16862952 AAAAATAGGGGCTTAATTGCTTTTTTCTTAAAAAGGTTTGAGGGCTTTTTTGATGTATTTTGAAA
1 AAAAACAGGGGCTTAATTGC-TTTTTCTTAAAAAGGTTTGAGGGCTTTTTTGATGTATTTTGAAA
* *
16863017 GTTGAACTACCCAAATGAGTGTAAAG
65 GTTCAACTACCCAAATGAGTGCAAAG
16863043 AAAAA
1 AAAAA
16863048 AAACAAGAGC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
87 18 0.22
89 5 0.06
90 53 0.65
91 6 0.07
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (90 bp):
AAAAACAGGGGCTTAATTGCTTTTTCTTAAAAAGGTTTGAGGGCTTTTTTGATGTATTTTGAAAG
TTCAACTACCCAAATGAGTGCAAAG
Found at i:16863562 original size:25 final size:23
Alignment explanation
Indices: 16863530--16863668 Score: 119
Period size: 25 Copynumber: 5.9 Consensus size: 23
16863520 TTTTTATTGG
16863530 TATTCTTAAAAACTAAAATTTAAAT
1 TATTCTTAAAAA--AAAATTTAAAT
* *
16863555 TATTCTT--AAAAGAA-TTAGAT
1 TATTCTTAAAAAAAAATTTAAAT
16863575 TATTCTTAAACAAATAAAGTTTAAAT
1 TATTCTTAAA-AAA-AAA-TTTAAAT
*
16863601 TATTCTAAAACAAACAAATTTAAAT
1 TATTCTTAAA-AAA-AAATTTAAAT
16863626 TATTCTTAAACAAACAAATTTAAA-
1 TATTCTTAAA-AAA-AAATTTAAAT
*
16863650 T-TT-TTAAAAAGAAATTTAA
1 TATTCTTAAAAAAAAATTTAA
16863669 GTTTTTTAAG
Statistics
Matches: 100, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
20 20 0.20
21 5 0.05
22 6 0.06
23 8 0.08
24 3 0.03
25 37 0.37
26 21 0.21
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (23 bp):
TATTCTTAAAAAAAAATTTAAAT
Found at i:16863602 original size:26 final size:25
Alignment explanation
Indices: 16863545--16863651 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
16863535 TTAAAAACTA
16863545 AAATTTAAATTATTCTT--A-AAA-
1 AAATTTAAATTATTCTTAAACAAAC
* * *
16863566 GAA-TTAGATTATTCTTAAACAAAT
1 AAATTTAAATTATTCTTAAACAAAC
*
16863590 AAAGTTTAAATTATTCTAAAACAAAC
1 AAA-TTTAAATTATTCTTAAACAAAC
16863616 AAATTTAAATTATTCTTAAACAAAC
1 AAATTTAAATTATTCTTAAACAAAC
16863641 AAATTTAAATT
1 AAATTTAAATT
16863652 TTTAAAAAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
20 12 0.16
21 2 0.03
22 1 0.01
23 3 0.04
24 2 0.03
25 32 0.44
26 21 0.29
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.37
Consensus pattern (25 bp):
AAATTTAAATTATTCTTAAACAAAC
Found at i:16863929 original size:17 final size:19
Alignment explanation
Indices: 16863894--16863930 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
16863884 TAAGTAATTT
*
16863894 TATTGGTAAAAATTTTAAA
1 TATTGGTAAAAATTATAAA
16863913 TATT-GTAAAAA-TATAAA
1 TATTGGTAAAAATTATAAA
16863930 T
1 T
16863931 TTGCCTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
TATTGGTAAAAATTATAAA
Found at i:16873125 original size:69 final size:69
Alignment explanation
Indices: 16873003--16873266 Score: 305
Period size: 69 Copynumber: 3.8 Consensus size: 69
16872993 AACCTTAGTT
* * **
16873003 CTCTTGCTAACTGTGTTGGAGGTCGC-GACTCTTCGCTTGCGAACCTTGGTTTTACAGCTGGGAG
1 CTCTCGCTAACTGTTTTGGAGGTCGCGGA-TCTTCGCTTGCGAACCTTAATTTTACAGCTGGGAG
16873067 CTTTG
65 CTTTG
* * * *
16873072 CTCTCGCTAACTATTTTGGAGGTTGCGGATCTTCGCGTACGAACCTTAATTTTACAGCTGGGAGC
1 CTCTCGCTAACTGTTTTGGAGGTCGCGGATCTTCGCTTGCGAACCTTAATTTTACAGCTGGGAGC
16873137 TTTG
66 TTTG
* * * * * * * *
16873141 CTCTCACTAATTGTTTTGGAGGTCTCAGCTCTTTGCTTGCGAACCTTAATTTTAAAGCTGAGAGC
1 CTCTCGCTAACTGTTTTGGAGGTCGCGGATCTTCGCTTGCGAACCTTAATTTTACAGCTGGGAGC
16873206 TTTG
66 TTTG
* * * * * *
16873210 CTCTCGCTAACTCTTCTGGAGGTCGTGGCTCTTTTGCCTGCGAACCTTAATTTTACA
1 CTCTCGCTAACTGTTTTGGAGGTCGCGGATC-TTCGCTTGCGAACCTTAATTTTACA
16873267 ATTCATCAAA
Statistics
Matches: 164, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
69 139 0.85
70 25 0.15
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (69 bp):
CTCTCGCTAACTGTTTTGGAGGTCGCGGATCTTCGCTTGCGAACCTTAATTTTACAGCTGGGAGC
TTTG
Found at i:16874715 original size:20 final size:20
Alignment explanation
Indices: 16874680--16874826 Score: 127
Period size: 20 Copynumber: 7.3 Consensus size: 20
16874670 GCATCATAGA
* *
16874680 TGCATAACAGGAGCACCGAGG
1 TGCA-AACAGGGGCACCGAAG
* *
16874701 TGCAGACAGGGGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
* * *
16874721 TGCAAATAGGGGCATCGTAG
1 TGCAAACAGGGGCACCGAAG
* * * *
16874741 TGCGAATAGGGACACCAAAG
1 TGCAAACAGGGGCACCGAAG
* *
16874761 TGTATACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
*
16874781 TGCAAACAGGGGCACCAAAG
1 TGCAAACAGGGGCACCGAAG
16874801 TG-ATAACAGGGGCACCGAAG
1 TGCA-AACAGGGGCACCGAAG
16874821 TGCAAA
1 TGCAAA
16874827 TCCCGTACAA
Statistics
Matches: 99, Mismatches: 23, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
19 3 0.03
20 89 0.90
21 7 0.07
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.12
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:16874783 original size:40 final size:40
Alignment explanation
Indices: 16874683--16874826 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
16874673 TCATAGATGC
* * * *
16874683 ATAACAGGAGCACCGAGGTGCAGACAGGGGCA-CAAATGTG
1 ATAACAGGGGCACCGAAGTGCAAACAGGGACACCAAA-GTG
* * * * *
16874723 CA-AATAGGGGCATCGTAGTGCGAATAGGGACACCAAAGTG
1 -ATAACAGGGGCACCGAAGTGCAAACAGGGACACCAAAGTG
*
16874763 -TATACAGGGGCACCGAAGTGCAAACAGGGGCACCAAAGTG
1 ATA-ACAGGGGCACCGAAGTGCAAACAGGGACACCAAAGTG
16874803 ATAACAGGGGCACCGAAGTGCAAA
1 ATAACAGGGGCACCGAAGTGCAAA
16874827 TCCCGTACAA
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.01
40 76 0.90
41 7 0.08
ACGTcount: A:0.36, C:0.20, G:0.33, T:0.11
Consensus pattern (40 bp):
ATAACAGGGGCACCGAAGTGCAAACAGGGACACCAAAGTG
Found at i:16874822 original size:60 final size:60
Alignment explanation
Indices: 16874683--16874824 Score: 142
Period size: 60 Copynumber: 2.4 Consensus size: 60
16874673 TCATAGATGC
* * * * **
16874683 ATAACAGGAGCACCGAGGTGCAGACAGGGGCACAAATGTGCAAATAGGGGCATCGTAGTG
1 ATAACAGGGGCACCGAAGTGCAGACAGGGGCACAAATGTGCAAACAGGGGCACCAAAGTG
** * * * * * *
16874743 CGAATAGGGACACCAAAGTGTATACAGGGGCACCGAA-GTGCAAACAGGGGCACCAAAGTG
1 ATAACAGGGGCACCGAAGTGCAGACAGGGGCA-CAAATGTGCAAACAGGGGCACCAAAGTG
16874803 ATAACAGGGGCACCGAAGTGCA
1 ATAACAGGGGCACCGAAGTGCA
16874825 AATCCCGTAC
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
60 58 0.95
61 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.11
Consensus pattern (60 bp):
ATAACAGGGGCACCGAAGTGCAGACAGGGGCACAAATGTGCAAACAGGGGCACCAAAGTG
Found at i:16878696 original size:41 final size:41
Alignment explanation
Indices: 16878566--16878683 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
16878556 GCTTATTAAA
* * * *
16878566 ATACACCGGCATAAAGCCTTCTAGGCACAAAGCCAGATATG
1 ATACACCGGCATGAAGCCTGCTAGGCATAAAGCCTGATATG
* *
16878607 ATACACCAGCACGAAGCCTGCTAGGCATAAAGCCTGATATG
1 ATACACCGGCATGAAGCCTGCTAGGCATAAAGCCTGATATG
* *
16878648 GTACACCGGCATGAAGCCTGCTAGGCATAAAACCTG
1 ATACACCGGCATGAAGCCTGCTAGGCATAAAGCCTG
16878684 CTATAATTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.17
Consensus pattern (41 bp):
ATACACCGGCATGAAGCCTGCTAGGCATAAAGCCTGATATG
Found at i:16882476 original size:19 final size:20
Alignment explanation
Indices: 16882452--16882489 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
16882442 TGAGCTGATT
16882452 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
16882471 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
16882490 AGTCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:16900120 original size:21 final size:21
Alignment explanation
Indices: 16900096--16900138 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16900086 TAAAATTCAC
*
16900096 TAATTCAAAATTTTAAATAAT
1 TAATTCAAAATTTCAAATAAT
**
16900117 TAATTGTAAATTTCAAATAAT
1 TAATTCAAAATTTCAAATAAT
16900138 T
1 T
16900139 TATTTCATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATTCAAAATTTCAAATAAT
Found at i:16912617 original size:19 final size:21
Alignment explanation
Indices: 16912585--16912623 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16912575 TCTATTTACG
*
16912585 AAAAACCTTAGTTTT-TAGAA
1 AAAAACCGTAGTTTTGTAGAA
16912605 AAAAACCGT-GTTTTGTAGA
1 AAAAACCGTAGTTTTGTAGA
16912624 GTTATAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAAACCGTAGTTTTGTAGAA
Found at i:16922717 original size:50 final size:50
Alignment explanation
Indices: 16922552--16922793 Score: 174
Period size: 50 Copynumber: 4.7 Consensus size: 50
16922542 GGGGATGATA
* ** * **
16922552 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA--TAAT-AGAAC
* * * **
16922608 TCCCATGGAAGACCATGTCTGGGACAT-GCGTTGGCACCCGA-GATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCGATAAT-AGAAC
*
16922658 TCTCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAATAGAAC
1 TC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAATAGAAC
* * *
16922708 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--G-TACA-GGAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATA-ATAG-AAC
* *
16922756 ATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16922794 TGTTATTATC
Statistics
Matches: 158, Mismatches: 20, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
47 3 0.02
48 5 0.03
49 35 0.22
50 69 0.44
51 11 0.07
52 1 0.01
53 2 0.01
55 6 0.04
56 26 0.16
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATAATAGAAC
Found at i:16923012 original size:12 final size:12
Alignment explanation
Indices: 16922995--16923045 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
16922985 TTGAGTTATT
16922995 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
16923007 TAAGTAAACAAG
1 TAAGTAAGCAAG
*
16923019 TAAG-AGAGTAAG
1 TAAGTA-AGCAAG
* *
16923031 TAAATAAGAAAG
1 TAAGTAAGCAAG
16923043 TAA
1 TAA
16923046 AGATCATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.22, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:16923021 original size:20 final size:20
Alignment explanation
Indices: 16922996--16923034 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16922986 TGAGTTATTT
16922996 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
16923016 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
16923035 TAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:16931826 original size:45 final size:46
Alignment explanation
Indices: 16931750--16931841 Score: 168
Period size: 45 Copynumber: 2.0 Consensus size: 46
16931740 CAATGTTAGT
*
16931750 ACGACCTTTAACGTTTTTGATTTGTCTCTATTTGATGCAGATTGCG
1 ACGACCTTTAACGTTTCTGATTTGTCTCTATTTGATGCAGATTGCG
16931796 ACGACCTTTAACG-TTCTGATTTGTCTCTATTTGATGCAGATTGCG
1 ACGACCTTTAACGTTTCTGATTTGTCTCTATTTGATGCAGATTGCG
16931841 A
1 A
16931842 TTTGAGGACA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 32 0.71
46 13 0.29
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (46 bp):
ACGACCTTTAACGTTTCTGATTTGTCTCTATTTGATGCAGATTGCG
Found at i:16932433 original size:14 final size:14
Alignment explanation
Indices: 16932414--16932440 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16932404 TACATTGGAC
16932414 AGATTCATGCATGT
1 AGATTCATGCATGT
16932428 AGATTCATGCATG
1 AGATTCATGCATG
16932441 GGGAGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:16937375 original size:28 final size:28
Alignment explanation
Indices: 16937335--16937467 Score: 167
Period size: 28 Copynumber: 4.8 Consensus size: 28
16937325 AACACACCAA
* * *
16937335 AAAATCGAAGCCTTTGTAGCGATCTAAG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
* * *
16937363 AAAAGGGAAGCCTTTGTGGCGATCTATG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
* *
16937391 AAAATGGAAGCATTTGTGGCAATTTAAG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
*
16937419 AAAATGGAAGCCTTTGTGGCAAACTAAG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
* *
16937447 AAAATGTAATCCTTTGTGGCA
1 AAAATGGAAGCCTTTGTGGCA
16937468 TACTCTAAAG
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (28 bp):
AAAATGGAAGCCTTTGTGGCAATCTAAG
Found at i:16953641 original size:430 final size:431
Alignment explanation
Indices: 16952813--16953667 Score: 1444
Period size: 430 Copynumber: 2.0 Consensus size: 431
16952803 TTGCTTGTGG
* *
16952813 TACGAGTCACAAAGGCCCAACCAAAGCTCAAGAACGTGATGGGCTCAACTTACCACAAGGCCCAA
1 TACGAGTCACAAAGGCCCAACCAAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
* *
16952878 TAACGAGATCAAAGGCCCGAAAAATGTGTTCCAAACTAAATGGGACCATCCAGGACTTCGTTAGC
66 TAACAAGATCAAAGGCCCGAAAAATGCGTTCCAAACTAAATGGGACCATCCAGGACTTCGTTAGC
* *
16952943 AAGGCCTTAGATGCATAAACGAGAGAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
131 AAGGCCTTAGATGCATAAACGAAAGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
*
16953008 TCAAGAAACTGAATCTTGGCCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
196 TCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
* *
16953073 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGTAGCCAAATCGCATTGGATCTCC
261 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAGCGCATTGGATCTCC
* * *
16953138 GTTACGAGCCTCAACGACCCAATTTCGGTAAGAGATGGAATACAAGCCCAAGTTCTTGAAGGCAA
326 GTTACGAGCATCAACGAACCAATTTCGGTAAGAGATGGAACACAAGCCCAAGTTCTTGAAGGCAA
* *
16953203 GGCCCAATAAGATGAGTCCAAGCCGAATCAAGAAGTCCTTA
391 GGCCCAATAAGATGAGTCCAAGCCCAAACAAGAAGTCCTTA
*
16953244 TACGAGTCACAAAGG-CCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
1 TACGAGTCACAAAGGCCCAACCAAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
* * * * *
16953308 TAACAAGATCAAAGGCTCGACAAATGCGTTCCAAACTAAATGGGACCATTCAGGAGTTTGTTAGC
66 TAACAAGATCAAAGGCCCGAAAAATGCGTTCCAAACTAAATGGGACCATCCAGGACTTCGTTAGC
* * * * *
16953373 AAGGCCTTGGATGCGTACATGAAAGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGGAAA
131 AAGGCCTTAGATGCATAAACGAAAGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
16953438 TCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
196 TCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
16953503 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAGCGCATTGGATCTCC
261 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAGCGCATTGGATCTCC
16953568 GTTACGAGCATCAACGAACCAATTTCGGT-AGAAGATGGAACACAAGCCCAAGTTCTTGAAGGCA
326 GTTACGAGCATCAACGAACCAATTTCGGTAAG-AGATGGAACACAAGCCCAAGTTCTTGAAGGCA
* *
16953632 AGGCCCAATAAGATGATTCCATGCCCAAACAAGAAG
390 AGGCCCAATAAGATGAGTCCAAGCCCAAACAAGAAG
16953668 ACAAACCATA
Statistics
Matches: 396, Mismatches: 27, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
429 2 0.01
430 379 0.96
431 15 0.04
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (431 bp):
TACGAGTCACAAAGGCCCAACCAAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGCCCAA
TAACAAGATCAAAGGCCCGAAAAATGCGTTCCAAACTAAATGGGACCATCCAGGACTTCGTTAGC
AAGGCCTTAGATGCATAAACGAAAGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
TCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAGCGCATTGGATCTCC
GTTACGAGCATCAACGAACCAATTTCGGTAAGAGATGGAACACAAGCCCAAGTTCTTGAAGGCAA
GGCCCAATAAGATGAGTCCAAGCCCAAACAAGAAGTCCTTA
Found at i:16960360 original size:19 final size:19
Alignment explanation
Indices: 16960323--16960360 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
16960313 TGAAGGCAAG
16960323 GCCCAATAAGATGAGTCCAA
1 GCCCAATAAGA-GAGTCCAA
16960343 GCCCAATCAAGA-AGTCCA
1 GCCCAAT-AAGAGAGTCCA
16960361 CCCCTACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.13
Consensus pattern (19 bp):
GCCCAATAAGAGAGTCCAA
Found at i:16963029 original size:22 final size:22
Alignment explanation
Indices: 16963001--16963071 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
16962991 ATATAATATC
16963001 AAGATAAATTAATTAACATACT
1 AAGATAAATTAATTAACATACT
16963023 AAGATAAATT-A--AA-A-A--
1 AAGATAAATTAATTAACATACT
*
16963038 AAGACAAATTAATTAACATACT
1 AAGATAAATTAATTAACATACT
16963060 AAGATAAATTAA
1 AAGATAAATTAA
16963072 AAATGATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
15 9 0.22
16 1 0.03
17 1 0.03
18 3 0.08
19 3 0.08
20 1 0.03
21 1 0.03
22 21 0.52
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (22 bp):
AAGATAAATTAATTAACATACT
Found at i:16963034 original size:18 final size:18
Alignment explanation
Indices: 16963011--16963071 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
16963001 AAGATAAATT
16963011 AATTAACATACTAAGATA
1 AATTAACATACTAAGATA
* * ** * *
16963029 AATTAAAAAAAGACAAATT
1 AATTAACATACTA-AGATA
16963048 AATTAACATACTAAGATA
1 AATTAACATACTAAGATA
16963066 AATTAA
1 AATTAA
16963072 AAATGATTAA
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (18 bp):
AATTAACATACTAAGATA
Found at i:16963056 original size:37 final size:37
Alignment explanation
Indices: 16963001--16963074 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
16962991 ATATAATATC
*
16963001 AAGATAAATTAATTAACATACTAAGATAAATTAAAAA
1 AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
16963038 AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
1 AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
16963075 TGATTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (37 bp):
AAGACAAATTAATTAACATACTAAGATAAATTAAAAA
Found at i:16968186 original size:286 final size:285
Alignment explanation
Indices: 16967672--16968240 Score: 933
Period size: 286 Copynumber: 2.0 Consensus size: 285
16967662 TATATATTCC
*
16967672 TAAGGTTCAAACGGGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
1 TAAGGTTCAAACGAGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
16967737 ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
66 ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
* *
16967802 CGATCACAAAAACAATGAAACAGGATCGACTAGTCTGACACTTTATCTTTCCCTCGATCTAAGTC
131 CGATCACAAAAACAATGAAACAGGAACGACTAGTCCGACACTTTATCTTTCCCTCGATCTAAGTC
* * *
16967867 TATACGAGGCTTAACTTGATCTACATGAACAAATTAAATCCATTCAATGTCCGTTCTATGCAATT
196 TATACGAGGCTTAACTTGATCTAAATGAACAAATTAAATCCATTCAA--TCCATTCAATGCAATT
* *
16967932 TAGTACAAAATACAAACTTTTGCAACT
259 CAATACAAAATACAAACTTTTGCAACT
*
16967959 TAAGGTTTAAACGAGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
1 TAAGGTTCAAACGAGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
* *
16968024 ATAAATAACATAATAGCATTTAAACCGAATACATTAAAA-ACTATTTAAACATACAAACTTACCT
66 ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
* * * *
16968088 CGATCCCAAAAACGATGAAATAGGAACGATTAGTCCGACACTTTATCTTTCCCTCGATCTAAGTC
131 CGATCACAAAAACAATGAAACAGGAACGACTAGTCCGACACTTTATCTTTCCCTCGATCTAAGTC
* * * *
16968153 TGTATGAGGCTTAACTTGATCTAAATGAACAAATTAAATCCATTCAATCTATTCAATTCAATTCA
196 TATACGAGGCTTAACTTGATCTAAATGAACAAATTAAATCCATTCAATCCATTCAATGCAATTCA
*
16968218 ATACAAAATACACACTTTTGCAA
261 ATACAAAATACAAACTTTTGCAA
16968241 ATTTACACTT
Statistics
Matches: 262, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
284 34 0.13
286 128 0.49
287 100 0.38
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (285 bp):
TAAGGTTCAAACGAGACTCGATAGTCATCGAAACATCATTGGATTTCCCGTCAAGGCATAATATG
ATAAATAACATAATAGCAATTAAACCAAATACATTAAAACACTATTTAAACATACAAACTTACCT
CGATCACAAAAACAATGAAACAGGAACGACTAGTCCGACACTTTATCTTTCCCTCGATCTAAGTC
TATACGAGGCTTAACTTGATCTAAATGAACAAATTAAATCCATTCAATCCATTCAATGCAATTCA
ATACAAAATACAAACTTTTGCAACT
Found at i:16977836 original size:10 final size:10
Alignment explanation
Indices: 16977799--16977838 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
16977789 TCGAAATTCT
*
16977799 TTTTTTTTGA
1 TTTTTTTCGA
*
16977809 ATTTTTTCGA
1 TTTTTTTCGA
16977819 TTTTTTTCGA
1 TTTTTTTCGA
16977829 TTTTTTTCGA
1 TTTTTTTCGA
16977839 AACTACAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.70
Consensus pattern (10 bp):
TTTTTTTCGA
Found at i:16988210 original size:22 final size:22
Alignment explanation
Indices: 16988178--16988237 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
16988168 ATGCTGCTCT
*
16988178 TAGGGTGTCATGACACAGGCAC
1 TAGGGTGTCATGACACAGGCAA
*
16988200 TAGGGTATCATGACACAGGCAA
1 TAGGGTGTCATGACACAGGCAA
*
16988222 TAGGGTGTCGTGACAC
1 TAGGGTGTCATGACAC
16988238 TGGCCATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (22 bp):
TAGGGTGTCATGACACAGGCAA
Found at i:17014778 original size:29 final size:30
Alignment explanation
Indices: 17014723--17014792 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 30
17014713 CCGAAGCTAC
* *
17014723 CCCTTTTCATATTTTGATGGTCGTCACCAT
1 CCCTTTTCATATGTTGATGGTCATCACCAT
*
17014753 CCCTTTTCAT-TGTTGATGGTCATCACCGT
1 CCCTTTTCATATGTTGATGGTCATCACCAT
17014782 CCCTTTTCATA
1 CCCTTTTCATA
17014793 ATTTGATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 26 0.72
30 10 0.28
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.43
Consensus pattern (30 bp):
CCCTTTTCATATGTTGATGGTCATCACCAT
Found at i:17014814 original size:59 final size:59
Alignment explanation
Indices: 17014751--17014940 Score: 197
Period size: 59 Copynumber: 3.2 Consensus size: 59
17014741 GGTCGTCACC
* * *
17014751 ATCCCTTTTCATTGTTGATGGTCATCACCGTCCCTTTTCATAATTTGATAGTTGAAGCT
1 ATCCCTTTTCATAGTTGATGGTCATCACCATTCCTTTTCATAATTTGATAGTTGAAGCT
* * * * * ** *
17014810 ATCCCATTTCATAATTCAATAGG-CA-AAGCTATTCCTTTTCATGCTTTGATAGTTGTCA-CT
1 ATCCCTTTTCATAGTT-GAT-GGTCATCA-CCATTCCTTTTCATAATTTGATAGTTG-AAGCT
* * *
17014870 ATCCCTTTTCATAGTTGATGGTCGTCACCATTCCTTTTCATAATTTGACAGTCGAAGCT
1 ATCCCTTTTCATAGTTGATGGTCATCACCATTCCTTTTCATAATTTGATAGTTGAAGCT
17014929 ATCCCTTTTCAT
1 ATCCCTTTTCAT
17014941 TGGCCGATAA
Statistics
Matches: 102, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
58 3 0.03
59 53 0.52
60 43 0.42
61 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (59 bp):
ATCCCTTTTCATAGTTGATGGTCATCACCATTCCTTTTCATAATTTGATAGTTGAAGCT
Found at i:17014896 original size:29 final size:29
Alignment explanation
Indices: 17014855--17014911 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
17014845 TTTTCATGCT
* * *
17014855 TTGATAGTTGTCACTATCCCTTTTCATAG
1 TTGATGGTCGTCACCATCCCTTTTCATAG
*
17014884 TTGATGGTCGTCACCATTCCTTTTCATA
1 TTGATGGTCGTCACCATCCCTTTTCATA
17014912 ATTTGACAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (29 bp):
TTGATGGTCGTCACCATCCCTTTTCATAG
Found at i:17014906 original size:119 final size:119
Alignment explanation
Indices: 17014724--17014940 Score: 326
Period size: 119 Copynumber: 1.8 Consensus size: 119
17014714 CGAAGCTACC
* * * *
17014724 CCTTTTCATATTTTGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCATCACCGTCCCTTTT
1 CCTTTTCATACTTTGATAGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTT
* *
17014789 CATAATTTGATAGTTGAAGCTATCCCATTTCATAATTCAATAGGCAAAGCTATT
66 CATAATTTGACAGTCGAAGCTATCCCATTTCATAATTCAATAGGCAAAGCTATT
* * * * *
17014843 CCTTTTCATGCTTTGATAGTTGTCACTATCCCTTTTCATAGTTGATGGTCGTCACCATTCCTTTT
1 CCTTTTCATACTTTGATAGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTT
*
17014908 CATAATTTGACAGTCGAAGCTATCCCTTTTCAT
66 CATAATTTGACAGTCGAAGCTATCCCATTTCAT
17014941 TGGCCGATAA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
119 86 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (119 bp):
CCTTTTCATACTTTGATAGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTT
CATAATTTGACAGTCGAAGCTATCCCATTTCATAATTCAATAGGCAAAGCTATT
Found at i:17014938 original size:30 final size:30
Alignment explanation
Indices: 17014691--17014940 Score: 129
Period size: 30 Copynumber: 8.4 Consensus size: 30
17014681 GATTGTCACC
** * *
17014691 ATCCCTTTTCATAGCTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* * * * *
17014721 ACCCCTTTTCATATTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATAGTCG-AAGCT
* *
17014751 ATCCCTTTTCAT--TGTTGATGGTC-ATCA-CC
1 ATCCCTTTTCATAAT-TTGATAGTCGA--AGCT
* *
17014780 GTCCCTTTTCATAATTTGATAGTTGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* ** * *
17014810 ATCCCATTTCATAATTCAATAGGCAAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* ** * *
17014840 ATTCCTTTTCATGCTTTGATAGTTGTCA-CT
1 ATCCCTTTTCATAATTTGATAGTCG-AAGCT
* * * *
17014870 ATCCCTTTTCAT-AGTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATAGTCG-AAGCT
* *
17014899 ATTCCTTTTCATAATTTGACAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
17014929 ATCCCTTTTCAT
1 ATCCCTTTTCAT
17014941 TGGCCGATAA
Statistics
Matches: 165, Mismatches: 44, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
28 1 0.01
29 48 0.29
30 112 0.68
31 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCGAAGCT
Found at i:17020021 original size:50 final size:49
Alignment explanation
Indices: 17019892--17020029 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 49
17019882 GTGGAGTTAT
17019892 GTGGCAGTTTATCTG-CAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCA
1 GTGGCAGTTTAT-TGTCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCA
* * * * *
17019941 GTGGCAGTATA-TCT-ATAT-ATGTGGTGGCTTGTCCGCAAAGTGTTATTA
1 GTGGCAGTTTATTGTCAAATCA-GTGGTGGCTTGTCCACAAAGTGTT-TCA
* *
17019989 GTGGCATTTTATTGTCAAATCAATGGTGGCTTGTCCACAAA
1 GTGGCAGTTTATTGTCAAATCAGTGGTGGCTTGTCCACAAA
17020030 TGGTGTTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
46 1 0.01
47 27 0.38
48 11 0.15
49 12 0.17
50 20 0.28
51 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (49 bp):
GTGGCAGTTTATTGTCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCA
Found at i:17030142 original size:16 final size:16
Alignment explanation
Indices: 17030121--17030153 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17030111 ATTTAAACAA
17030121 AATT-AAATTGAATTAT
1 AATTAAAATT-AATTAT
17030137 AATTAAAATTAATTAT
1 AATTAAAATTAATTAT
17030153 A
1 A
17030154 TTATGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTAAAATTAATTAT
Found at i:17030147 original size:22 final size:22
Alignment explanation
Indices: 17030119--17030164 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
17030109 TTATTTAAAC
17030119 AAAATTAAATTGA-ATTAT-AATT
1 AAAATT-AATT-ATATTATGAATT
17030141 AAAATTAATTATATTATGAATT
1 AAAATTAATTATATTATGAATT
17030163 AA
1 AA
17030165 TACACATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 9 0.41
22 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
AAAATTAATTATATTATGAATT
Found at i:17037559 original size:51 final size:50
Alignment explanation
Indices: 17037483--17037652 Score: 173
Period size: 51 Copynumber: 3.4 Consensus size: 50
17037473 TATACACACG
* * *
17037483 TGTGTAGTACTAAGTGCAGGCTACTACTTGTATCGATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACATGTATCGA-AGATAATGATCACA
* * * *
17037534 TGTGTAGTACTATGTGCAGGCTACTACATGAACCAGAA-AGT-TTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACATGTATC-GAAGA-TAATGATCACA
* * *
17037584 TGTGTAGTACTATGTGAAGGCTACTACATGTATCGAATGATAATAATTACA
1 TGTGTAGTACTATGTGCAGGCTACTACATGTATCGAA-GATAATGATCACA
* * *
17037635 CGGGTGGTACTATGTGCA
1 TGTGTAGTACTATGTGCA
17037653 AACCACTAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
49 3 0.03
50 39 0.41
51 52 0.54
52 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACATGTATCGAAGATAATGATCACA
Found at i:17039227 original size:13 final size:13
Alignment explanation
Indices: 17039209--17039233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17039199 GAAAAATATT
17039209 AAAATACGATTTC
1 AAAATACGATTTC
17039222 AAAATACGATTT
1 AAAATACGATTT
17039234 TAATCAAGAT
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
AAAATACGATTTC
Found at i:17053422 original size:15 final size:15
Alignment explanation
Indices: 17053402--17053450 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
17053392 AAAAACTAAT
*
17053402 GAAAATTGAAGCAAA
1 GAAAATGGAAGCAAA
*
17053417 GAAAATGGATGCAAA
1 GAAAATGGAAGCAAA
*
17053432 GAAAATGGATGCAAA
1 GAAAATGGAAGCAAA
17053447 GAAA
1 GAAA
17053451 TTTGAATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (15 bp):
GAAAATGGAAGCAAA
Found at i:17053924 original size:21 final size:21
Alignment explanation
Indices: 17053900--17053940 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17053890 TCTCTCTCGC
*
17053900 TTTCCTTTTCGCCTTTTTCAT
1 TTTCATTTTCGCCTTTTTCAT
**
17053921 TTTCATTTTCTTCTTTTTCA
1 TTTCATTTTCGCCTTTTTCA
17053941 CTTGTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTCATTTTCGCCTTTTTCAT
Found at i:17063955 original size:25 final size:25
Alignment explanation
Indices: 17063912--17063977 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
17063902 AATTGTCTAA
* * *
17063912 ACTGAAACTGTTTTTGGTAGTATAT
1 ACTGAAACTGCTATAGGTAGTATAT
17063937 -CTTGAAACTGCTATAGGTAGTATAT
1 AC-TGAAACTGCTATAGGTAGTATAT
*
17063962 ACTGAGACTGCTATAG
1 ACTGAAACTGCTATAG
17063978 ATAGATTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (25 bp):
ACTGAAACTGCTATAGGTAGTATAT
Found at i:17071762 original size:53 final size:53
Alignment explanation
Indices: 17071682--17071788 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
17071672 AAAGTAGAAC
*
17071682 TTACATTGTACACACCAGGTAGATCAATTTTATAGGCATTGCCGTTGATCCGT
1 TTACATTGTACACACCAGGTAGATCAATTTTATAGGCATTACCGTTGATCCGT
*
17071735 TTACATTGTACTCACCAGGTAGATCAATTTTATAGGCATTACCGTTGATCCGT
1 TTACATTGTACACACCAGGTAGATCAATTTTATAGGCATTACCGTTGATCCGT
17071788 T
1 T
17071789 CGAGTACATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (53 bp):
TTACATTGTACACACCAGGTAGATCAATTTTATAGGCATTACCGTTGATCCGT
Found at i:17084549 original size:50 final size:50
Alignment explanation
Indices: 17084430--17084672 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
17084420 GGTAAAGGGA
* * * *
17084430 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGTTTATGAGAGT
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--TGAG---ATGAGAGG
* * * *
17084486 TCCCATGTAAGACCATGTTTCGGACATGGCGTTGGCACTGAGATGAGTGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* **
17084536 TCCCACGTAAGACCATGTCTGGGACATGACGTTGGCACCAAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* * * * **
17084586 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCT-ATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCA-CTGAGATGAGAGG
* * * * *
17084636 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCA
17084673 GTACAAGAAA
Statistics
Matches: 160, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
50 120 0.75
51 1 0.01
53 4 0.03
55 1 0.01
56 34 0.21
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
Found at i:17087922 original size:41 final size:41
Alignment explanation
Indices: 17087865--17087944 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
17087855 GTTGGTAGAG
*
17087865 TTTGCCTATAATAATAGTTACCAATTGAGTTTGAAGATGGC
1 TTTGCCTATAATAATAGTTACCAATCGAGTTTGAAGATGGC
17087906 TTTGCCTATAATAATAGTTACCAATCGAGTTTGAAGATG
1 TTTGCCTATAATAATAGTTACCAATCGAGTTTGAAGATG
17087945 ACACCTTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (41 bp):
TTTGCCTATAATAATAGTTACCAATCGAGTTTGAAGATGGC
Found at i:17089847 original size:50 final size:50
Alignment explanation
Indices: 17089722--17090017 Score: 297
Period size: 50 Copynumber: 5.8 Consensus size: 50
17089712 ATTTGGGTAA
* * ** *
17089722 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTAACATCATTGAGATTCTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA---TG
* * *
17089778 AGAAGTCCCATGTAAGACCATGTCTGGGACATGGCCTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
17089828 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAGGTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
17089878 AAAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
17089928 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
17089978 AGAACTCTCATGTAAGACCATATTTAGGATATGGCATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
17090018 TAGTACGAGA
Statistics
Matches: 206, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.00
50 164 0.80
51 1 0.00
53 4 0.02
56 36 0.17
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:17096785 original size:21 final size:21
Alignment explanation
Indices: 17096759--17096806 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
17096749 TAATTATTAT
*
17096759 TTTAATCCAAAATAAATTGGA
1 TTTAATCCAAAATAAATTAGA
17096780 TTTAATCCAAAATAAATTAGA
1 TTTAATCCAAAATAAATTAGA
*
17096801 TATAAT
1 TTTAAT
17096807 TAAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (21 bp):
TTTAATCCAAAATAAATTAGA
Found at i:17099397 original size:30 final size:29
Alignment explanation
Indices: 17099363--17099425 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 29
17099353 TTACCGCAAA
17099363 ATAAAA-TCCCAAATAAAAATAATAAAGTCC
1 ATAAAAGTCCCAAATAAAAAT-AT-AAGTCC
*
17099393 ATAAAAGTCCCAAATTAAAATATAAGTCC
1 ATAAAAGTCCCAAATAAAAATATAAGTCC
17099422 ATAA
1 ATAA
17099426 CCATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 10 0.32
30 8 0.26
31 13 0.42
ACGTcount: A:0.57, C:0.16, G:0.05, T:0.22
Consensus pattern (29 bp):
ATAAAAGTCCCAAATAAAAATATAAGTCC
Found at i:17099861 original size:50 final size:51
Alignment explanation
Indices: 17099735--17099870 Score: 168
Period size: 50 Copynumber: 2.7 Consensus size: 51
17099725 ACACCATTTG
* * * * * *
17099735 TGGAAAAGCCACCACTTATTTGCAAATAAACTGCCACTGATAACACTTTTG
1 TGGACAAGCCACCACTAATATGCAGATATACTGCCACTGATAACACTTTTA
* * **
17099786 TGGACAAGCCACCACTATTAT-CAGATTTACTGCCACTGATATGA-TTTTA
1 TGGACAAGCCACCACTAATATGCAGATATACTGCCACTGATAACACTTTTA
17099835 TGGACAAGCCACCACTAATATGCAGATATACTGCCA
1 TGGACAAGCCACCACTAATATGCAGATATACTGCCA
17099871 TTGGTTCCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 24 0.33
50 31 0.43
51 17 0.24
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (51 bp):
TGGACAAGCCACCACTAATATGCAGATATACTGCCACTGATAACACTTTTA
Found at i:17114331 original size:25 final size:25
Alignment explanation
Indices: 17114276--17114434 Score: 160
Period size: 25 Copynumber: 6.4 Consensus size: 25
17114266 TAAACACACC
* * *
17114276 ACAGCTCATGAGAGCTTAC-CAGTTT
1 ACAGCTCGTGAGAGCATACTGA-TTT
* *
17114301 ACAGCTCGTGAGAGCATACTAATAT
1 ACAGCTCGTGAGAGCATACTGATTT
* *
17114326 ATAGCTCGTGAGAGCATAATGATTT
1 ACAGCTCGTGAGAGCATACTGATTT
* * * *
17114351 ATAGCTCGTGAGAGTATACCGTTTT
1 ACAGCTCGTGAGAGCATACTGATTT
17114376 ACAGCTCGTGAGAGCATATCT-ATTT
1 ACAGCTCGTGAGAGCATA-CTGATTT
* *
17114401 ACAGCTCGAGAGAGCATACTGATTC
1 ACAGCTCGTGAGAGCATACTGATTT
*
17114426 ACAGTTCGT
1 ACAGCTCGT
17114435 ATAAGCATAC
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
24 2 0.02
25 107 0.96
26 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACTGATTT
Found at i:17114901 original size:17 final size:17
Alignment explanation
Indices: 17114879--17114919 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
17114869 ATAGTAAATC
17114879 GGAAGCTCGTTCGGGTT
1 GGAAGCTCGTTCGGGTT
17114896 GGAAGCTCGTTCGGGTT
1 GGAAGCTCGTTCGGGTT
17114913 GGAAGCT
1 GGAAGCT
17114920 TGTCGGAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.15, C:0.17, G:0.41, T:0.27
Consensus pattern (17 bp):
GGAAGCTCGTTCGGGTT
Found at i:17118146 original size:26 final size:26
Alignment explanation
Indices: 17118095--17118146 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
17118085 TTAGGTTTAG
*
17118095 GTTTTCTCTTAGATTAACTTTGTATT
1 GTTTTCTCTTAGATTAAATTTGTATT
* *
17118121 GTTTTCTTTTTAGTTTAAATTT-TATT
1 GTTTTC-TCTTAGATTAAATTTGTATT
17118147 TTATTTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.19, C:0.08, G:0.10, T:0.63
Consensus pattern (26 bp):
GTTTTCTCTTAGATTAAATTTGTATT
Found at i:17118964 original size:5 final size:5
Alignment explanation
Indices: 17118954--17118993 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
17118944 TTTGATTAAG
* *
17118954 AATTT AATTT AATCT AATCT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT
17118994 TTTTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:17119048 original size:16 final size:17
Alignment explanation
Indices: 17119027--17119064 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
17119017 AAAATAGAAA
*
17119027 ATAAATAT-TGAGTTGG
1 ATAAATATAAGAGTTGG
*
17119043 ATAAATATAAGTGTTGG
1 ATAAATATAAGAGTTGG
17119060 ATAAA
1 ATAAA
17119065 ATTCAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (17 bp):
ATAAATATAAGAGTTGG
Found at i:17134442 original size:43 final size:43
Alignment explanation
Indices: 17134233--17134433 Score: 330
Period size: 43 Copynumber: 4.7 Consensus size: 43
17134223 ATGTTCCAAT
*
17134233 ATCGATTTGAGATTTCGTGTAAGACCATAGTTAGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
* *
17134276 ATCGATTTGAGATTTCATGTAAGACCATAGCTAGGCTATTGTC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
*
17134319 ATCGATTTGAGATTTTGTGTAAGACCATAGCTAGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
*
17134362 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
* *
17134405 ATCGATATGAGATTTCTATGTAAGACCAT
1 ATCGATTTGAGATTTC-GTGTAAGACCAT
17134434 GTCTGGCTAA
Statistics
Matches: 147, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 136 0.93
44 11 0.07
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
Found at i:17146308 original size:219 final size:220
Alignment explanation
Indices: 17145929--17146367 Score: 871
Period size: 219 Copynumber: 2.0 Consensus size: 220
17145919 TATGGATATG
17145929 CTTTGGTGTTATGTGTGTCGAAATAAGTGTTAATACAAAGAAGGCATGAAAGAGTAAAATTTGTA
1 CTTTGGTGTTATGTGTGTCGAAATAAGTGTTAATACAAAGAAGGCATGAAAGAGTAAAATTTGTA
17145994 ATAAAATAGTTTTAGACAGCAGCAGTTGTATAAATTTGAAAAATCACCAAAAATTGTGGGAATCC
66 ATAAAATAGTTTTAGACAGCAGCAGTTGTATAAATTTGAAAAATCACCAAAAATTGTGGGAATCC
17146059 CATTTGAGGTTGAATAAGTCATGAAATCAAAGCTTATTTAGTCTATCTTCACATAGAATAAACGG
131 CATTTGAGGTTGAATAAGTCATGAAATCAAAGCTTATTTAGTCTATCTTCACATAGAATAAACGG
17146124 TGTAAGGAAAAGAA-CGCATATTAT
196 TGTAAGGAAAAGAATCGCATATTAT
17146148 CTTTGGTGTTATGTGTGTCGAAATAAGTGTTAATACAAAGAAGGCATGAAAGAGTAAAATTTGTA
1 CTTTGGTGTTATGTGTGTCGAAATAAGTGTTAATACAAAGAAGGCATGAAAGAGTAAAATTTGTA
17146213 ATAAAATAGTTTTAGACAGCAGCAGTTGTATAAATTTGAAAAATCACCAAAAATTGTGGGAATCC
66 ATAAAATAGTTTTAGACAGCAGCAGTTGTATAAATTTGAAAAATCACCAAAAATTGTGGGAATCC
17146278 CATTTGAGGTTGAATAAGTCATGAAATCAAAGCTTATTTAGTCTATCTTCACATAGAATAAACGG
131 CATTTGAGGTTGAATAAGTCATGAAATCAAAGCTTATTTAGTCTATCTTCACATAGAATAAACGG
17146343 TGTAAGGAAAAGAATCGCATATTAT
196 TGTAAGGAAAAGAATCGCATATTAT
17146368 GAGATATTTG
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
219 209 0.95
220 10 0.05
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (220 bp):
CTTTGGTGTTATGTGTGTCGAAATAAGTGTTAATACAAAGAAGGCATGAAAGAGTAAAATTTGTA
ATAAAATAGTTTTAGACAGCAGCAGTTGTATAAATTTGAAAAATCACCAAAAATTGTGGGAATCC
CATTTGAGGTTGAATAAGTCATGAAATCAAAGCTTATTTAGTCTATCTTCACATAGAATAAACGG
TGTAAGGAAAAGAATCGCATATTAT
Found at i:17149343 original size:38 final size:38
Alignment explanation
Indices: 17149301--17149376 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
17149291 AAATGTTAAG
*
17149301 TGTTGGTTTGAAGAGAAAAACCGTAAGAAATGAACTCT
1 TGTTGGTTTAAAGAGAAAAACCGTAAGAAATGAACTCT
17149339 TGTTGGTTTAAAGAGAAAAACCGTAAGAAATGAACTCT
1 TGTTGGTTTAAAGAGAAAAACCGTAAGAAATGAACTCT
17149377 GTAGAAGTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (38 bp):
TGTTGGTTTAAAGAGAAAAACCGTAAGAAATGAACTCT
Found at i:17155222 original size:533 final size:533
Alignment explanation
Indices: 17154216--17155283 Score: 2136
Period size: 533 Copynumber: 2.0 Consensus size: 533
17154206 ACAAACATTG
17154216 AATGATATAACAATGATCTCACATAAATATATTGGCATACACTTCTCATGGCTTAATCGGGTGAT
1 AATGATATAACAATGATCTCACATAAATATATTGGCATACACTTCTCATGGCTTAATCGGGTGAT
17154281 CAAACATCGGATAAACTGATCTTCGGACTCCCACAAATATCAAATACAGTCCACCGAGTTCAGTG
66 CAAACATCGGATAAACTGATCTTCGGACTCCCACAAATATCAAATACAGTCCACCGAGTTCAGTG
17154346 AGCCGAAGCACACACTCACTTATAGCGCCTCAAATAACCCAATGAGTGGAGACTCATGCTCAACA
131 AGCCGAAGCACACACTCACTTATAGCGCCTCAAATAACCCAATGAGTGGAGACTCATGCTCAACA
17154411 GTCCCTTATCTACTACAAACAAATCAACCCACCTAGAGCCACATGCTCACAATGTCACAAATAAA
196 GTCCCTTATCTACTACAAACAAATCAACCCACCTAGAGCCACATGCTCACAATGTCACAAATAAA
17154476 GGTGAGTACTCACAAATTCTATGGCATGCCAACTATATCCAATGGATCCACCATGCATGTTGCCG
261 GGTGAGTACTCACAAATTCTATGGCATGCCAACTATATCCAATGGATCCACCATGCATGTTGCCG
17154541 ATATATTCAGTCAAATATAGCATATAAATAAGTTATGCTCAATTTAATGTGGAAAAGTGCTTATG
326 ATATATTCAGTCAAATATAGCATATAAATAAGTTATGCTCAATTTAATGTGGAAAAGTGCTTATG
17154606 TGTAACATGTAACATAGTCATTTAACATCTAATTAAATCAAGCATTTCATTTGCCATTTTTCGAT
391 TGTAACATGTAACATAGTCATTTAACATCTAATTAAATCAAGCATTTCATTTGCCATTTTTCGAT
17154671 ATTCAATTACCCATTGTAACACCAATATATCACGATCAAAAACTCTAGTAAACATGCTTTTATCA
456 ATTCAATTACCCATTGTAACACCAATATATCACGATCAAAAACTCTAGTAAACATGCTTTTATCA
17154736 TAAAGACAATTTT
521 TAAAGACAATTTT
17154749 AATGATATAACAATGATCTCACATAAATATATTGGCATACACTTCTCATGGCTTAATCGGGTGAT
1 AATGATATAACAATGATCTCACATAAATATATTGGCATACACTTCTCATGGCTTAATCGGGTGAT
17154814 CAAACATCGGATAAACTGATCTTCGGACTCCCACAAATATCAAATACAGTCCACCGAGTTCAGTG
66 CAAACATCGGATAAACTGATCTTCGGACTCCCACAAATATCAAATACAGTCCACCGAGTTCAGTG
17154879 AGCCGAAGCACACACTCACTTATAGCGCCTCAAATAACCCAATGAGTGGAGACTCATGCTCAACA
131 AGCCGAAGCACACACTCACTTATAGCGCCTCAAATAACCCAATGAGTGGAGACTCATGCTCAACA
17154944 GTCCCTTATCTACTACAAACAAATCAACCCACCTAGAGCCACATGCTCACAATGTCACAAATAAA
196 GTCCCTTATCTACTACAAACAAATCAACCCACCTAGAGCCACATGCTCACAATGTCACAAATAAA
17155009 GGTGAGTACTCACAAATTCTATGGCATGCCAACTATATCCAATGGATCCACCATGCATGTTGCCG
261 GGTGAGTACTCACAAATTCTATGGCATGCCAACTATATCCAATGGATCCACCATGCATGTTGCCG
17155074 ATATATTCAGTCAAATATAGCATATAAATAAGTTATGCTCAATTTAATGTGGAAAAGTGCTTATG
326 ATATATTCAGTCAAATATAGCATATAAATAAGTTATGCTCAATTTAATGTGGAAAAGTGCTTATG
17155139 TGTAACATGTAACATAGTCATTTAACATCTAATTAAATCAAGCATTTCATTTGCCATTTTTCGAT
391 TGTAACATGTAACATAGTCATTTAACATCTAATTAAATCAAGCATTTCATTTGCCATTTTTCGAT
17155204 ATTCAATTACCCATTGTAACACCAATATATCACGATCAAAAACTCTAGTAAACATGCTTTTATCA
456 ATTCAATTACCCATTGTAACACCAATATATCACGATCAAAAACTCTAGTAAACATGCTTTTATCA
17155269 TAAAGACAATTTT
521 TAAAGACAATTTT
17155282 AA
1 AA
17155284 GATTGAAGAT
Statistics
Matches: 535, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
533 535 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (533 bp):
AATGATATAACAATGATCTCACATAAATATATTGGCATACACTTCTCATGGCTTAATCGGGTGAT
CAAACATCGGATAAACTGATCTTCGGACTCCCACAAATATCAAATACAGTCCACCGAGTTCAGTG
AGCCGAAGCACACACTCACTTATAGCGCCTCAAATAACCCAATGAGTGGAGACTCATGCTCAACA
GTCCCTTATCTACTACAAACAAATCAACCCACCTAGAGCCACATGCTCACAATGTCACAAATAAA
GGTGAGTACTCACAAATTCTATGGCATGCCAACTATATCCAATGGATCCACCATGCATGTTGCCG
ATATATTCAGTCAAATATAGCATATAAATAAGTTATGCTCAATTTAATGTGGAAAAGTGCTTATG
TGTAACATGTAACATAGTCATTTAACATCTAATTAAATCAAGCATTTCATTTGCCATTTTTCGAT
ATTCAATTACCCATTGTAACACCAATATATCACGATCAAAAACTCTAGTAAACATGCTTTTATCA
TAAAGACAATTTT
Found at i:17155384 original size:22 final size:21
Alignment explanation
Indices: 17155351--17155391 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
17155341 AAACTTGAGA
*
17155351 AATTTTAGAATATTTTTGGCT
1 AATTTTAGAATAATTTTGGCT
17155372 AATTTTGAGAATAATTTTGG
1 AATTTT-AGAATAATTTTGG
17155392 GTGAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (21 bp):
AATTTTAGAATAATTTTGGCT
Found at i:17156999 original size:22 final size:21
Alignment explanation
Indices: 17156966--17157006 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
17156956 AAACTTGAGA
*
17156966 AATTTTAGAATATTTTTGGCT
1 AATTTTAGAATAATTTTGGCT
17156987 AATTTTGAGAATAATTTTGG
1 AATTTT-AGAATAATTTTGG
17157007 GTGAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (21 bp):
AATTTTAGAATAATTTTGGCT
Found at i:17161233 original size:15 final size:15
Alignment explanation
Indices: 17161213--17161245 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
17161203 TGACTATGGT
17161213 TGTTGTATAATTTTG
1 TGTTGTATAATTTTG
17161228 TGTTGTATAATTTTG
1 TGTTGTATAATTTTG
17161243 TGT
1 TGT
17161246 GTAAAGCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (15 bp):
TGTTGTATAATTTTG
Found at i:17162661 original size:21 final size:20
Alignment explanation
Indices: 17162617--17162662 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
17162607 TAGGGATTTG
* * *
17162617 GTATCGATACCTTATCTCAA
1 GTATCGATACCGTAACTAAA
17162637 GTATCGATACTCGTAACTAAA
1 GTATCGATAC-CGTAACTAAA
17162658 GTATC
1 GTATC
17162663 AATGATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
GTATCGATACCGTAACTAAA
Found at i:17167644 original size:579 final size:579
Alignment explanation
Indices: 17166546--17167693 Score: 2296
Period size: 579 Copynumber: 2.0 Consensus size: 579
17166536 GATCTTCGTG
17166546 AGATTTATTGGTGGCCTAGGTTGAAATGTGACGTTACGGATTTTGTGGCTCGATGTTTGGTTTGT
1 AGATTTATTGGTGGCCTAGGTTGAAATGTGACGTTACGGATTTTGTGGCTCGATGTTTGGTTTGT
17166611 CAAAAGGTGAAAGCTGAACGTCAATTTCCTTCGGGATTGTTGCAACATATTGTGATTCTTGAATG
66 CAAAAGGTGAAAGCTGAACGTCAATTTCCTTCGGGATTGTTGCAACATATTGTGATTCTTGAATG
17166676 GAAGTGGGAAACGATTACTATGGATTTTGTTTCGGGTTTATCATTGAAACCTGTGAGGAAAGATT
131 GAAGTGGGAAACGATTACTATGGATTTTGTTTCGGGTTTATCATTGAAACCTGTGAGGAAAGATT
17166741 CGGTATGGGTTATAGTTGATCAATTTTTGAAGAGTGCGCATTTCTTAGAAGTGCGAACCAATTAT
196 CGGTATGGGTTATAGTTGATCAATTTTTGAAGAGTGCGCATTTCTTAGAAGTGCGAACCAATTAT
17166806 TCGTTGCAGAAGTTAGTAGAGTTGTATATTACTAAGATTGTTTGTCTTCATGGGGTTCCAGTTTC
261 TCGTTGCAGAAGTTAGTAGAGTTGTATATTACTAAGATTGTTTGTCTTCATGGGGTTCCAGTTTC
17166871 GATTATTTCTGATAGGGATCCAAGGTTTACCTCAAGGTTTTGGGAGAGTTTGCAAGAAGCTTCAA
326 GATTATTTCTGATAGGGATCCAAGGTTTACCTCAAGGTTTTGGGAGAGTTTGCAAGAAGCTTCAA
17166936 GATCAAATCATAATTTTAGTTTGGCTTATCATCCTCAAATAGATGGTCAGTTTGAAAGGGTAATA
391 GATCAAATCATAATTTTAGTTTGGCTTATCATCCTCAAATAGATGGTCAGTTTGAAAGGGTAATA
17167001 CAAGTTTTGGAAGATATGTTGCGAAGCTCTATGATCGATTTCAATGATAGTTGGGAGCGATATTT
456 CAAGTTTTGGAAGATATGTTGCGAAGCTCTATGATCGATTTCAATGATAGTTGGGAGCGATATTT
17167066 GCTGCTAGCAGATTTTGCTTACAACAATAGTTTTCAAGCAAGAATTCGCTTACAACAAT
521 GCTGCTAGCAGATTTTGCTTACAACAATAGTTTTCAAGCAAGAATTCGCTTACAACAAT
17167125 AGATTTATTGGTGGCCTAGGTTGAAATGTGACGTTACGGATTTTGTGGCTCGATGTTTGGTTTGT
1 AGATTTATTGGTGGCCTAGGTTGAAATGTGACGTTACGGATTTTGTGGCTCGATGTTTGGTTTGT
17167190 CAAAAGGTGAAAGCTGAACGTCAATTTCCTTCGGGATTGTTGCAACATATTGTGATTCTTGAATG
66 CAAAAGGTGAAAGCTGAACGTCAATTTCCTTCGGGATTGTTGCAACATATTGTGATTCTTGAATG
17167255 GAAGTGGGAAACGATTACTATGGATTTTGTTTCGGGTTTATCATTGAAACCTGTGAGGAAAGATT
131 GAAGTGGGAAACGATTACTATGGATTTTGTTTCGGGTTTATCATTGAAACCTGTGAGGAAAGATT
17167320 CGGTATGGGTTATAGTTGATCAATTTTTGAAGAGTGCGCATTTCTTAGAAGTGCGAACCAATTAT
196 CGGTATGGGTTATAGTTGATCAATTTTTGAAGAGTGCGCATTTCTTAGAAGTGCGAACCAATTAT
17167385 TCGTTGCAGAAGTTAGTAGAGTTGTATATTACTAAGATTGTTTGTCTTCATGGGGTTCCAGTTTC
261 TCGTTGCAGAAGTTAGTAGAGTTGTATATTACTAAGATTGTTTGTCTTCATGGGGTTCCAGTTTC
17167450 GATTATTTCTGATAGGGATCCAAGGTTTACCTCAAGGTTTTGGGAGAGTTTGCAAGAAGCTTCAA
326 GATTATTTCTGATAGGGATCCAAGGTTTACCTCAAGGTTTTGGGAGAGTTTGCAAGAAGCTTCAA
17167515 GATCAAATCATAATTTTAGTTTGGCTTATCATCCTCAAATAGATGGTCAGTTTGAAAGGGTAATA
391 GATCAAATCATAATTTTAGTTTGGCTTATCATCCTCAAATAGATGGTCAGTTTGAAAGGGTAATA
17167580 CAAGTTTTGGAAGATATGTTGCGAAGCTCTATGATCGATTTCAATGATAGTTGGGAGCGATATTT
456 CAAGTTTTGGAAGATATGTTGCGAAGCTCTATGATCGATTTCAATGATAGTTGGGAGCGATATTT
17167645 GCTGCTAGCAGATTTTGCTTACAACAATAGTTTTCAAGCAAGAATTCGC
521 GCTGCTAGCAGATTTTGCTTACAACAATAGTTTTCAAGCAAGAATTCGC
17167694 ATGACACCAT
Statistics
Matches: 569, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
579 569 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (579 bp):
AGATTTATTGGTGGCCTAGGTTGAAATGTGACGTTACGGATTTTGTGGCTCGATGTTTGGTTTGT
CAAAAGGTGAAAGCTGAACGTCAATTTCCTTCGGGATTGTTGCAACATATTGTGATTCTTGAATG
GAAGTGGGAAACGATTACTATGGATTTTGTTTCGGGTTTATCATTGAAACCTGTGAGGAAAGATT
CGGTATGGGTTATAGTTGATCAATTTTTGAAGAGTGCGCATTTCTTAGAAGTGCGAACCAATTAT
TCGTTGCAGAAGTTAGTAGAGTTGTATATTACTAAGATTGTTTGTCTTCATGGGGTTCCAGTTTC
GATTATTTCTGATAGGGATCCAAGGTTTACCTCAAGGTTTTGGGAGAGTTTGCAAGAAGCTTCAA
GATCAAATCATAATTTTAGTTTGGCTTATCATCCTCAAATAGATGGTCAGTTTGAAAGGGTAATA
CAAGTTTTGGAAGATATGTTGCGAAGCTCTATGATCGATTTCAATGATAGTTGGGAGCGATATTT
GCTGCTAGCAGATTTTGCTTACAACAATAGTTTTCAAGCAAGAATTCGCTTACAACAAT
Found at i:17171097 original size:50 final size:51
Alignment explanation
Indices: 17171027--17171223 Score: 184
Period size: 50 Copynumber: 3.8 Consensus size: 51
17171017 TTCCTGTACC
* ** *
17171027 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATA-TTGGT
1 GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATACTCGGT
* * *
17171077 GCCCATGCCATGTCCCAGATATGGCCTTACAGGGGACCTCTCA-ACTCGGT
1 GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATACTCGGT
* * * * *
17171127 TCCAACGCCATGTCCAAGACATGGTTTTACATGGGACCTCTCATAGTCTCAATGAG-
1 GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA--CTC---G-GT
* * *
17171183 GCCAATGCCATGTCCCAGACATGGTCTTAAATGGGATCTCT
1 GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCT
17171224 TTACCAAAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 76 0.64
51 1 0.01
53 3 0.03
56 36 0.31
57 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (51 bp):
GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATACTCGGT
Found at i:17178712 original size:50 final size:50
Alignment explanation
Indices: 17178570--17178750 Score: 159
Period size: 50 Copynumber: 3.6 Consensus size: 50
17178560 GATAATAACA
* * ** * *** **
17178570 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTC-CGGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTGG
* * * **
17178619 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTGG
* * * * *
17178669 TGCCCAA-GTCGTGTTCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTGG
17178719 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
17178751 TGAGATCTCT
Statistics
Matches: 104, Mismatches: 25, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
49 41 0.39
50 59 0.57
51 4 0.04
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTGG
Found at i:17183034 original size:12 final size:12
Alignment explanation
Indices: 17183017--17183042 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17183007 GCCAGTTCTC
17183017 CAATATGTCATG
1 CAATATGTCATG
17183029 CAATATGTCATG
1 CAATATGTCATG
17183041 CA
1 CA
17183043 TAAGCCTTAT
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:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (12 bp):
CAATATGTCATG
Found at i:17183393 original size:5 final size:5
Alignment explanation
Indices: 17183383--17183414 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
17183373 TAGACAGACG
*
17183383 TAAAT TAAAT TATAT TAAAT TAAAT TAAAT TA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TA
17183415 GTATAGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAAAT
Found at i:17188022 original size:135 final size:135
Alignment explanation
Indices: 17187776--17188045 Score: 486
Period size: 135 Copynumber: 2.0 Consensus size: 135
17187766 TCAACACAGA
17187776 GATATATGAGAAAAGGTTGTGATGCATACCTTGCCTATGTATTTGATTCTAGAGTTTCTAAGTTG
1 GATATATGAGAAAAGGTTGTGATGCATACCTTGCCTATGTATTTGATTCTAGAGTTTCTAAGTTG
* * * *
17187841 AAGGTAGAATCAGTTCTTGTGGTTTGCGAGTATCTAGATCTGTTTCCAGAAGAATTACCTGGGTT
66 AAGGTAGAATCAGTTCTCGTGGTTTGCGACTATCTAGATCTATTTCCAAAAGAATTACCTGGGTT
17187906 ACCGC
131 ACCGC
* *
17187911 GATATATGAGAAAATGTTGTGTTGCATACCTTGCCTATGTATTTGATTCTAGAGTTTCTAAGTTG
1 GATATATGAGAAAAGGTTGTGATGCATACCTTGCCTATGTATTTGATTCTAGAGTTTCTAAGTTG
17187976 AAGGTAGAATCAGTTCTCGTGGTTTGCGACTATCTAGATCTATTTCCAAAAGAATTACCTGGGTT
66 AAGGTAGAATCAGTTCTCGTGGTTTGCGACTATCTAGATCTATTTCCAAAAGAATTACCTGGGTT
17188041 ACCGC
131 ACCGC
17188046 TGATCAGAGA
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 129 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (135 bp):
GATATATGAGAAAAGGTTGTGATGCATACCTTGCCTATGTATTTGATTCTAGAGTTTCTAAGTTG
AAGGTAGAATCAGTTCTCGTGGTTTGCGACTATCTAGATCTATTTCCAAAAGAATTACCTGGGTT
ACCGC
Found at i:17193588 original size:22 final size:21
Alignment explanation
Indices: 17193563--17193616 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
17193553 TTTTTGAATT
*
17193563 TTTTTATTTCACTTTTCTTATC
1 TTTTTATTTCACTCTTCTT-TC
*
17193585 TTTTTCATTT-TCTCTTCTTTC
1 TTTTT-ATTTCACTCTTCTTTC
*
17193606 TTTTTCTTTCA
1 TTTTTATTTCA
17193617 TTTGGGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 3 0.12
21 7 0.27
22 12 0.46
23 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTATTTCACTCTTCTTTC
Found at i:17198496 original size:18 final size:18
Alignment explanation
Indices: 17198460--17198499 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17198450 GCAAATGTTC
*
17198460 TTTCATTCTTTACGTTTT
1 TTTCATTCTTTACGATTT
17198478 TTTCATTCTTT-CAGATTT
1 TTTCATTCTTTAC-GATTT
17198496 TTTC
1 TTTC
17198500 TACCAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.12, C:0.17, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTCATTCTTTACGATTT
Found at i:17199439 original size:7 final size:6
Alignment explanation
Indices: 17199418--17199460 Score: 50
Period size: 7 Copynumber: 6.5 Consensus size: 6
17199408 AAAAATGATG
17199418 AAATGA AAATGA AAAGTGA AAATGAA AAATGA AGAATGGA AAA
1 AAATGA AAATGA AAA-TGA AAATG-A AAATGA A-AAT-GA AAA
17199461 GTAAAGTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 13 0.39
7 17 0.52
8 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (6 bp):
AAATGA
Found at i:17199439 original size:13 final size:13
Alignment explanation
Indices: 17199421--17199462 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
17199411 AATGATGAAA
17199421 TGAAAATGAAAAG
1 TGAAAATGAAAAG
*
17199434 TGAAAATGAAAAA
1 TGAAAATGAAAAG
17199447 TGAAGAATGGAAAAG
1 TGAA-AAT-GAAAAG
17199462 T
1 T
17199463 AAAGTGGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 3 0.12
15 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.17
Consensus pattern (13 bp):
TGAAAATGAAAAG
Found at i:17201007 original size:132 final size:132
Alignment explanation
Indices: 17200675--17202056 Score: 2066
Period size: 132 Copynumber: 10.4 Consensus size: 132
17200665 GGTTGACGGC
* * * *
17200675 AGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCTAGTAACTCTCTCTCCCTGGGCAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
17200740 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGTTG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA-G--G
17200805 ATGGCT
128 ATGG-T
* * * *
17200811 -GATTTTACCTCCCTCAGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCTCCCTAGGTAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
*
17200875 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
17200940 GT
131 GT
* * * *
17200942 GGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTATCTTCCTGGGTAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
17201007 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-AGACAGTAGTGGAGCAGATCAAGGAT
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCAAGGAT
* *
17201071 AGC
130 GGT
* * *
17201074 GGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* *
17201139 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCCAAGCAGTAGAGGAGCAGATCAAGGATG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
*
17201204 GC
131 GT
* * *
17201206 AGATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCGCTCGGCAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
*
17201271 CAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
*
17201336 GC
131 GT
* *
17201338 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCGCTCGGCAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
*
17201403 CAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGTTG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA-G--G
*
17201468 ATGGC
128 ATGGT
* *** *
17201473 GGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTTTGTAATTCTATCTCCCTGGGAAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* * * * * *
17201538 CAGTGGAATAGATTTAAGATTACAGATCTTATCTCCCTAAGAAGTGGCGGAGTAGATCAAAGATG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
17201603 GT
131 GT
* * ** * * * * *
17201605 GGATTTTAGCTCATTGAGGTTACAGTGGAGTACATTGAATCTAATAAATCTATCTCCCTAGGCAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* * ** * * *
17201670 CAGAGTAATAGAGCGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATA
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
17201735 GT
131 GT
* * * *
17201737 AGATTTTACCTCCCTAAGGTTACAGTGGAGTACCTTGAAGCCAGTAATTCTATCTACCTGAGCAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* * *
17201802 TAGTTGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAGGATG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
17201867 GT
131 GT
* * *
17201869 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACAATGAAGCCAATAATTCTATCTCCCAGGGCAG
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
*
17201934 CAGTGGGATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
66 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
17201999 GT
131 GT
17202001 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
1 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
17202057 NNNNNNNNNN
Statistics
Matches: 1135, Mismatches: 105, Indels: 16
0.90 0.08 0.01
Matches are distributed among these distances:
131 3 0.00
132 895 0.79
133 3 0.00
135 234 0.21
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
GT
Found at i:17201733 original size:44 final size:44
Alignment explanation
Indices: 17201655--17201861 Score: 111
Period size: 44 Copynumber: 4.7 Consensus size: 44
17201645 CTAATAAATC
* * * * * *
17201655 TATCTCCCTAGGCAGCAGAGTAATAGAGCGAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAATAGATCAAAGATTACAGATCT
* * *
17201699 TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGA-TAGTAGATTT
1 TATCTCCCTAAGCAGTAGTGGAATAGATCAAAGATTA-CAGATCT
* * ** ** * *
17201743 TACCTCCCTAAG--GTTACAGTGGAGTACCTTGAAGCCAGTA-A-TTC-
1 TATCTCCCTAAGCAG-T--AGTGGAATAGATCAAAG--ATTACAGATCT
* * * **
17201787 TATCTACCTGAGCAGTAGTTGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAATAGATCAAAGATTACAGATCT
*
17201831 TATCTCCCTAAGCAGTAGTGGAACAGATCAA
1 TATCTCCCTAAGCAGTAGTGGAATAGATCAA
17201862 GGATGGTAGA
Statistics
Matches: 120, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 18 0.15
44 77 0.64
45 15 0.12
46 2 0.02
47 1 0.01
48 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAATAGATCAAAGATTACAGATCT
Found at i:17201938 original size:663 final size:663
Alignment explanation
Indices: 17200672--17202056 Score: 2243
Period size: 663 Copynumber: 2.1 Consensus size: 663
17200662 GCAGGTTGAC
* * * * *
17200672 GGCAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCTAGTAACTCTCTCTCCCTGGG
1 GGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTCGG
*
17200737 CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGG
66 CAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGG
* *
17200802 TTGATGGCTGATTTTACCTCCCTCAGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCTCC
131 TTGATGGCGGATTTTACCTCCCTCAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCC
* * *
17200867 CTAGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
196 CTAGGAAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGAT
* * *
17200932 CAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTATCT
261 CAAAGATGGTGGATTTTACCTCACTGAGGTTACAGTGGAGTACATTGAAGTCAATAAATCTATCT
* * * * **
17200997 TCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGCAG
326 CCCTAGGCAGCAGAGGAATAGAGCGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGCAG
* *
17201062 ATCAAGGATAGCGGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
391 ATCAAAGATAGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
* * *
17201127 CTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCCAAGCAGTAGAGGAGC
456 CTACCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCCAAGCAGTAGAGGAAC
* * *
17201192 AGATCAAGGATGGCAGATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCT
521 AGATCAAGGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACAATGAAGCCAATAATTCT
* *
17201257 ATCTCGCTCGGCAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGA
586 ATCTCCCACGGCAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGA
17201322 GCAGATCAAGGAT
651 GCAGATCAAGGAT
*
17201335 GGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCGCTCGG
1 GGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTCGG
17201400 CAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGG
66 CAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGG
* ***
17201465 TTGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTTTGTAATTCTATCTCC
131 TTGATGGCGGATTTTACCTCCCTCAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCC
* * * *
17201530 CTGGGAAGCAGTGGAATAGATTTAAGATTACAGATCTTATCTCCCTAAGAAGTGGCGGAGTAGAT
196 CTAGGAAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGAT
* *
17201595 CAAAGATGGTGGATTTTAGCTCATTGAGGTTACAGTGGAGTACATTGAA-TCTAATAAATCTATC
261 CAAAGATGGTGGATTTTACCTCACTGAGGTTACAGTGGAGTACATTGAAGTC-AATAAATCTATC
* *
17201659 TCCCTAGGCAGCAGAGTAATAGAGCGAAGATTACAGATCTTATCTCCCTA-AGCAGTAGTGGAGT
325 TCCCTAGGCAGCAGAGGAATAGAGCGAAGATTACAGATCTTATCTCCCTAGA-CAGTAGTGGAGC
* *
17201723 AGATCAAAGATAGTAGATTTTACCTCCCTAAGGTTACAGTGGAGTACCTTGAAGCCAGTAATTCT
389 AGATCAAAGATAGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
** * * *
17201788 ATCTACCTGAGCAGTAGTTGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
454 ATCTACCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCCAAGCAGTAGAGGA
*
17201853 ACAGATCAAGGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACAATGAAGCCAATAATT
519 ACAGATCAAGGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACAATGAAGCCAATAATT
* * *
17201918 CTATCTCCCAGGGCAGCAGTGGGATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTG
584 CTATCTCCCACGGCAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTG
17201983 GAGCAGATCAAGGAT
649 GAGCAGATCAAGGAT
*
17201998 GGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
1 GGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
17202057 NNNNNNNNNN
Statistics
Matches: 665, Mismatches: 55, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
662 3 0.00
663 662 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (663 bp):
GGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTCGG
CAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGG
TTGATGGCGGATTTTACCTCCCTCAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCC
CTAGGAAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGAT
CAAAGATGGTGGATTTTACCTCACTGAGGTTACAGTGGAGTACATTGAAGTCAATAAATCTATCT
CCCTAGGCAGCAGAGGAATAGAGCGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGCAG
ATCAAAGATAGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT
CTACCTGAGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCCAAGCAGTAGAGGAAC
AGATCAAGGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACAATGAAGCCAATAATTCT
ATCTCCCACGGCAGCAGTGGAATAGATTGAAGATTACAGAACTTATCTCCCTAAGCAGTAGTGGA
GCAGATCAAGGAT
Done.