Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 8 of 226
Found at i:2836223 original size:25 final size:25
Alignment explanation
Indices: 2836195--2836251 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
2836185 ATACATAGCT
2836195 TACATAACTTACATAACTCACATAA
1 TACATAACTTACATAACTCACATAA
* *
2836220 TACACAACTTACATAACTTACATAA
1 TACATAACTTACATAACTCACATAA
2836245 TACATAA
1 TACATAA
2836252 AAATATATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (25 bp):
TACATAACTTACATAACTCACATAA
Found at i:2842499 original size:28 final size:28
Alignment explanation
Indices: 2842457--2842520 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
2842447 GGGTCCAAAA
* *
2842457 TCTAGAGTCTGTGGTCCAAGGTTTAAGG
1 TCTAGAGTCTCTGGTCCAAAGTTTAAGG
* * *
2842485 TTTAGAGTCTCTGGTCTAAAGTTTAGGG
1 TCTAGAGTCTCTGGTCCAAAGTTTAAGG
2842513 TCTAGAGT
1 TCTAGAGT
2842521 TCGTAATCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (28 bp):
TCTAGAGTCTCTGGTCCAAAGTTTAAGG
Found at i:2848462 original size:22 final size:23
Alignment explanation
Indices: 2848409--2848464 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
2848399 CCCGTTTTTA
* * *
2848409 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
2848432 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
2848454 ATTAAAATTAA
1 ATTAAAATTAA
2848465 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:2848477 original size:16 final size:16
Alignment explanation
Indices: 2848440--2848479 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2848430 TTAATAAAAT
* *
2848440 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
2848456 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
2848472 TAAAATTA
1 TAAAATTA
2848480 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:2848558 original size:59 final size:58
Alignment explanation
Indices: 2848482--2848669 Score: 232
Period size: 59 Copynumber: 3.1 Consensus size: 58
2848472 TAAAATTATC
*
2848482 AAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATTAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
* *
2848540 AAATTATCAAATTATTAATTTTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAA
1 AAATTAT-TAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGT---A
* *
2848602 TAAACTTGATGTTTTATTATTATTTTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 -AAA-TT-A---TTAATTATTA-ATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
2848667 AAA
1 AAA
2848670 CAAACTTGAT
Statistics
Matches: 112, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
58 7 0.06
59 47 0.42
62 1 0.01
63 3 0.03
64 5 0.04
65 2 0.02
67 7 0.06
68 40 0.36
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (58 bp):
AAATTATTAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:2848700 original size:14 final size:14
Alignment explanation
Indices: 2848681--2848712 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2848671 AAACTTGATG
2848681 TTTTATTATTATTA
1 TTTTATTATTATTA
2848695 TTTTATTATTATTA
1 TTTTATTATTATTA
2848709 TTTT
1 TTTT
2848713 GTAACAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:2867844 original size:13 final size:13
Alignment explanation
Indices: 2867826--2867850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2867816 TTTTAGGTGC
2867826 CTAAAATGAAAAT
1 CTAAAATGAAAAT
2867839 CTAAAATGAAAA
1 CTAAAATGAAAA
2867851 CTTTTTATAG
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:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
CTAAAATGAAAAT
Found at i:2870202 original size:18 final size:18
Alignment explanation
Indices: 2870161--2870204 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2870151 CGCAACCGTG
* *
2870161 ATAGGGAACGTGATCGAG
1 ATAGGGAACGGGATCGAC
* *
2870179 ACAGGGATCGGGATCGAC
1 ATAGGGAACGGGATCGAC
2870197 ATAGGGAA
1 ATAGGGAA
2870205 GACAAAGACA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.39, T:0.14
Consensus pattern (18 bp):
ATAGGGAACGGGATCGAC
Found at i:2875681 original size:122 final size:122
Alignment explanation
Indices: 2875469--2875712 Score: 465
Period size: 122 Copynumber: 2.0 Consensus size: 122
2875459 GAATGCCTGT
2875469 CTTCTAATTTCTTCTCATTTCTAAAATCTAACCACCCTATACAATCTCTTTTCTATGATTGGCTA
1 CTTCTAATTTCTTCTCATTTCTAAAATCTAACCACCCTATACAATCTCTTTTCTATGATTGGCTA
2875534 CTGTCAAAAAAAATCTCCATCTTTTTTCCAGGAGAAAAAAAGAACTAAAATGAAAAAA
66 CTGTCAAAAAAAATCTCCATCTTTTTTCCAGGAG-AAAAAAGAACTAAAATGAAAAAA
2875592 CTTCTAATTTCTTCTCATTTCTAAAATCTAA-CACCCTATACAATCTCTTTTCTATGATTGGCTA
1 CTTCTAATTTCTTCTCATTTCTAAAATCTAACCACCCTATACAATCTCTTTTCTATGATTGGCTA
2875656 CTGTC-AAAAAAATCTCCATCTTTTTTCCAGGAGAAAAAAGAACTAAAATGAAAAAA
66 CTGTCAAAAAAAATCTCCATCTTTTTTCCAGGAGAAAAAAGAACTAAAATGAAAAAA
2875712 C
1 C
2875713 AAAAAAATGA
Statistics
Matches: 121, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
120 24 0.20
121 28 0.23
122 38 0.31
123 31 0.26
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (122 bp):
CTTCTAATTTCTTCTCATTTCTAAAATCTAACCACCCTATACAATCTCTTTTCTATGATTGGCTA
CTGTCAAAAAAAATCTCCATCTTTTTTCCAGGAGAAAAAAGAACTAAAATGAAAAAA
Found at i:2879551 original size:6 final size:6
Alignment explanation
Indices: 2879542--2879573 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2879532 GGCTCTGGCA
2879542 AAAAAG AAAAAG -AAAAG -AAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
2879574 TGCAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2879564 original size:16 final size:16
Alignment explanation
Indices: 2879543--2879573 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2879533 GCTCTGGCAA
2879543 AAAAGAAAAAGAAAAG
1 AAAAGAAAAAGAAAAG
2879559 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
2879574 TGCAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAG
Found at i:2883633 original size:33 final size:33
Alignment explanation
Indices: 2883576--2883723 Score: 196
Period size: 33 Copynumber: 4.6 Consensus size: 33
2883566 AGGGCCAGGA
2883576 GCTCCTCCTCCAGGA--TGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
*
2883607 GCTCCTCCACCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
2883640 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
* * *
2883673 GCTCCTCC-CCTGGAGGT-GTGGTGGCGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
* ** *
2883704 GGTCCAACTCCAAGAGGTGG
1 GCTCCTCCTCCAGGAGGTGG
2883724 CTGGAAGTGG
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.30
32 15 0.15
33 57 0.55
ACGTcount: A:0.11, C:0.25, G:0.43, T:0.21
Consensus pattern (33 bp):
GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
Found at i:2884207 original size:79 final size:78
Alignment explanation
Indices: 2884120--2884288 Score: 288
Period size: 79 Copynumber: 2.2 Consensus size: 78
2884110 CATCGATGGG
* * *
2884120 GGAGGAGGTGGGGTGTTAGATGTTGATGGGGGTGGTGGAGATGGAGAGGTGGGGCACTAGTTGTC
1 GGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGG-GAGGTGGGGCACTAGTCGTC
2884185 AAAGTGGTTGTGAA
65 AAAGTGGTTGTGAA
2884199 GGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGGAGGTGGGGCACTAGTCGTCA
1 GGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGGAGGTGGGGCACTAGTCGTCA
2884264 AAGTGGTTGTGAA
66 AAGTGGTTGTGAA
2884277 -G-GGAGGTGGGGT
1 GGAGGAGGTGGGGT
2884289 TGAAGATTGG
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
76 11 0.13
77 1 0.01
78 33 0.38
79 42 0.48
ACGTcount: A:0.20, C:0.05, G:0.52, T:0.24
Consensus pattern (78 bp):
GGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGGAGGTGGGGCACTAGTCGTCA
AAGTGGTTGTGAA
Found at i:2884281 original size:36 final size:37
Alignment explanation
Indices: 2884165--2884287 Score: 104
Period size: 39 Copynumber: 3.2 Consensus size: 37
2884155 TGGAGATGGA
*
2884165 GAGGTGGGGCACTAGTTGTCAAAGTGGTTGTGAAGGAG
1 GAGGTGGGGCACTAGTAGTCAAAGTGGTTGTGAAGG-G
** * * ** * * *
2884203 GAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGG
1 GAGGTGGGGCACTAG-TAGTCAAAGTGGTTGT-GA-AGGG
*
2884243 GAGGTGGGGCACTAGTCGTCAAAGTGGTTGTGAA-GG
1 GAGGTGGGGCACTAGTAGTCAAAGTGGTTGTGAAGGG
2884279 GAGGTGGGG
1 GAGGTGGGG
2884288 TTGAAGATTG
Statistics
Matches: 63, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
36 11 0.17
37 1 0.02
38 15 0.24
39 18 0.29
40 16 0.25
41 2 0.03
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.23
Consensus pattern (37 bp):
GAGGTGGGGCACTAGTAGTCAAAGTGGTTGTGAAGGG
Found at i:2884371 original size:38 final size:38
Alignment explanation
Indices: 2884308--2884428 Score: 162
Period size: 34 Copynumber: 3.2 Consensus size: 38
2884298 GTAGATGAGG
2884308 GAGGAGGTGGGGT-CTAGTATTGATGGGGTGGTGAGAT
1 GAGGAGGTGGGGTGCTAGTATTGATGGGGTGGTGAGAT
2884345 GAGGAGGTGGGGTGCTAGTATTGAT--GGTGGTGA-A-
1 GAGGAGGTGGGGTGCTAGTATTGATGGGGTGGTGAGAT
*
2884379 GAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGAT
1 GAGGAGGTGGGGTGCTAG-TATTGATG-GGGTGGT-GAGAT
2884420 GGAGGAGGT
1 -GAGGAGGT
2884429 AGGGCACTAG
Statistics
Matches: 74, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
34 18 0.24
35 7 0.09
36 8 0.11
37 13 0.18
38 17 0.23
39 2 0.03
40 1 0.01
42 8 0.11
ACGTcount: A:0.21, C:0.03, G:0.52, T:0.24
Consensus pattern (38 bp):
GAGGAGGTGGGGTGCTAGTATTGATGGGGTGGTGAGAT
Found at i:2884400 original size:179 final size:189
Alignment explanation
Indices: 2884114--2884584 Score: 498
Period size: 179 Copynumber: 2.5 Consensus size: 189
2884104 ACTAGACATC
* * *
2884114 GATGGGGGAGGAGGTGGGGTGTTAGATGTTGATGGGGGTGGTGGAGATGGAGAGGTGGGGCACTA
1 GATGAGGGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGAGAGGTGGGGCACTA
* * *
2884179 GTTGTCAAAGTGGTTGTGAAGGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGAT-G-
66 GTTGT-AAAGTGGTGGTGAAGGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGGA
*
2884242 GGAGGTGGGGCACTAGTCGTCAAAGTGGTT-GTGAAGGGAGGTGGGGTTGAAGATTGGTA
130 GGAGGTAGGGCACTAGTCGTCAAAGTGGTTGGTGAAGGGAGGTGGGGTTGAAGATTGGTA
**
2884301 GATGAGGGAGGAGGTGGGGT-CTAG-TATTGAT-GGGGTGGT-GAGAT-GAGGAGGTGGGGTGCT
1 GATGAGGGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGA-GAGGTGGGGCACT
*
2884361 AGTAT-T-GA-TGGTGGTGAA-GAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGG
65 AGT-TGTAAAGTGGTGGTGAAGGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGG
* * * ** * *
2884422 AGGAGGTAGGGCACTAGTTGTCAAAGTGGTTGGTGAAGGAGAACGAGGAATTGAAGCACTAGACA
129 AGGAGGTAGGGCACTAGTCGTCAAAGTGGTTGGTGAAGG-G-AGGTGGGGTTGAAG-A-TTG--G
*
2884487 TC
188 TA
* * * * ***
2884489 GATGAGGGAAGAGGTTGGATGCTAGATATTGATAGGGGTGGTGGAGACAAAAGAGGTGGGGCACT
1 GATGAGGGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGA-TGGAGAGGTGGGGCACT
* *
2884554 AGTTGTTGCAGAGTGGTGGTGAAGGTGGAGG
65 AGTTG-T--AAAGTGGTGGTGAAGGAGGAGG
2884585 AGGAAGTGGG
Statistics
Matches: 234, Mismatches: 26, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
179 39 0.17
180 10 0.04
181 29 0.12
182 9 0.04
183 21 0.09
184 19 0.08
185 7 0.03
186 5 0.02
187 19 0.08
188 18 0.08
189 4 0.02
190 7 0.03
191 8 0.03
192 5 0.02
193 14 0.06
194 2 0.01
197 2 0.01
198 10 0.04
199 6 0.03
ACGTcount: A:0.23, C:0.05, G:0.48, T:0.23
Consensus pattern (189 bp):
GATGAGGGAGGAGGTGGGGTGCTAGATATTGATGGGGGTGGTGGAGATGGAGAGGTGGGGCACTA
GTTGTAAAGTGGTGGTGAAGGAGGAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGGAG
GAGGTAGGGCACTAGTCGTCAAAGTGGTTGGTGAAGGGAGGTGGGGTTGAAGATTGGTA
Found at i:2884602 original size:117 final size:117
Alignment explanation
Indices: 2884382--2884614 Score: 265
Period size: 117 Copynumber: 2.0 Consensus size: 117
2884372 TGGTGAAGAG
* * *** *
2884382 GAGGTGGGGTGCTAGATATTGACGAGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTTGTCAAA
1 GAGGTGGGATGCTAGATATTGAAGAGGGTGGTGGAGACAAAAGAGGTAGGGCACTAGTTGTCAAA
* *
2884447 GTGGTTGGTGAAGGAGAACGAGGAATTGAAGCACTAGACATCGATGAGGGAA
66 GTGGTTGGTGAAGGAGAACGAGGAAGTGAAGCACTAGACATCAATGAGGGAA
* *
2884499 GAGGTTGGATGCTAGATATTGATAG-GGGTGGTGGAGACAAAAGAGGTGGGGCACTAGTTGTTGC
1 GAGGTGGGATGCTAGATATTGA-AGAGGGTGGTGGAGACAAAAGAGGTAGGGCACTAGTTG-T-C
* * * * * * *
2884563 AGAGTGG-TGGTGAAGGTGGAGGAGGAAGTG-GGCAGTAGACATCAATGTGGGA
63 AAAGTGGTTGGTGAAGGAGAACGAGGAAGTGAAGCACTAGACATCAATGAGGGA
2884615 GGTGGAGATG
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
117 68 0.71
118 21 0.22
119 7 0.07
ACGTcount: A:0.28, C:0.08, G:0.44, T:0.21
Consensus pattern (117 bp):
GAGGTGGGATGCTAGATATTGAAGAGGGTGGTGGAGACAAAAGAGGTAGGGCACTAGTTGTCAAA
GTGGTTGGTGAAGGAGAACGAGGAAGTGAAGCACTAGACATCAATGAGGGAA
Found at i:2884815 original size:216 final size:216
Alignment explanation
Indices: 2884422--2884871 Score: 573
Period size: 216 Copynumber: 2.1 Consensus size: 216
2884412 GTGGAGATGG
** * * *
2884422 AGGAGGTAGGGCACTAGTTGTCAAAGTGGTTGGTGAAGGAGAACGAGGAATTGAAGCACTAGACA
1 AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGCGAAGGAGAAAGAGGAAGTGAAGCACTAGACA
* * * *
2884487 TCGATGAGGGAAGAGGTTGGATGCTAGATATTGATAGGGGTGGTGGAGACAAAAGAGGTGGGGCA
66 CCGACGAGGGAAGAAGTGGGATGCTAGATATTGATAGGGGTGGTGGAGACAAAAGAGGTGGGGCA
*** **
2884552 CTAGTTGTTGCAGAGTGGTGGTGAAGGTGGAGGAGGAAGTGGGCAGTAGACATCAAT-GTGGGAG
131 CTAGTTGTCAAAGAGTGGTGGTGAAGGTGGAGGAGGAAACGGGCAGTAGACATCAATAG-GGGAG
*
2884616 GTGGAGATGGTAGT-GAAGGTGA
195 GTGGAGATAGTAGTGGAA-GTGA
* * * *
2884638 AGGAGGTGGGGCACTAGTCATCAAAGTGGTTGGCGAAGGTGAAAGAGGAAGTGGAGCACTAGATA
1 AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGCGAAGGAGAAAGAGGAAGTGAAGCACTAGACA
* * * * * *** *
2884703 CCGACGGGGGAGGAAGTGGGGTGTTAGATATTGATGGGGGTGGTGGAGATGGAGGAGGTGGGGCA
66 CCGACGAGGGAAGAAGTGGGATGCTAGATATTGATAGGGGTGGTGGAGACAAAAGAGGTGGGGCA
2884768 CTAGTTGTCAAAGAG-GGTGGTGAAGGTGGAGGAGGAAACGAGGCAGTAGACATCAATAGGGGAG
131 CTAGTTGTCAAAGAGTGGTGGTGAAGGTGGAGGAGGAAACG-GGCAGTAGACATCAATAGGGGAG
* *
2884832 GTGGAGATAGTGGTGGAATTGA
195 GTGGAGATAGTAGTGGAAGTGA
*
2884854 AGGAGGTAAGGCACTAGT
1 AGGAGGTAGGGCACTAGT
2884872 AACCGAAGAG
Statistics
Matches: 199, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
215 23 0.12
216 172 0.86
217 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.44, T:0.19
Consensus pattern (216 bp):
AGGAGGTAGGGCACTAGTCATCAAAGTGGTTGGCGAAGGAGAAAGAGGAAGTGAAGCACTAGACA
CCGACGAGGGAAGAAGTGGGATGCTAGATATTGATAGGGGTGGTGGAGACAAAAGAGGTGGGGCA
CTAGTTGTCAAAGAGTGGTGGTGAAGGTGGAGGAGGAAACGGGCAGTAGACATCAATAGGGGAGG
TGGAGATAGTAGTGGAAGTGA
Found at i:2885001 original size:84 final size:85
Alignment explanation
Indices: 2884877--2885156 Score: 286
Period size: 84 Copynumber: 3.3 Consensus size: 85
2884867 CTAGTAACCG
* * * * * * * * *
2884877 AAGAGGGTGATGAAGGTCGAAGAAGT-GAGGCACTAGACATTGATGGGAGTTGTGGAGCTAGAGG
1 AAGAGGGTGGTGAAGGTGGAGGAAGTGGA-GTACTACACATTGGTGGGAGTGGTAGAGATAGAGG
** *
2884941 AGA-TGGGACAATATTAG-TCA
65 AGACAAGG-CAATAGTAGTTCA
* *
2884961 AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGGGTGGTAGAGATGGAGGA
1 AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGGTAGAGATAGAGGA
*
2885026 GACAAGGCAATAGTAGTTGA
66 GACAAGGCAATAGTAGTTCA
** * *
2885046 AA-AGGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGGTGGT-GAAGATGGAGG
1 AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGGTAG-AGATAGAGG
*
2885109 AGACAAGGCAATAGTAGTTGA
65 AGACAAGGCAATAGTAGTTCA
*
2885130 AA-AAGGTGGTG-AGGTTGGAGGAAGTGG
1 AAGAGGGTGGTGAAGG-TGGAGGAAGTGG
2885157 GGTAGTAGTC
Statistics
Matches: 171, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
83 2 0.01
84 161 0.94
85 8 0.05
ACGTcount: A:0.32, C:0.06, G:0.42, T:0.19
Consensus pattern (85 bp):
AAGAGGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGAGTGGTAGAGATAGAGGA
GACAAGGCAATAGTAGTTCA
Found at i:2885012 original size:42 final size:42
Alignment explanation
Indices: 2884965--2885109 Score: 127
Period size: 42 Copynumber: 3.5 Consensus size: 42
2884955 TAGTCAAAGA
*
2884965 GGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGG
1 GGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGG
** * * * ****
2885007 GGGTGGT-AGAGATGGAGGAGACAAGGCAATAGT--A-GTTGAAAA
1 GGGTGGTGA-AGATGGAGGA-A-GTGG-AGTACTACACATTGGTGG
*
2885049 GGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGG
1 GGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGG
2885091 GGGTGGTGAAGATGGAGGA
1 GGGTGGTGAAGATGGAGGA
2885110 GACAAGGCAA
Statistics
Matches: 74, Mismatches: 21, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
39 4 0.05
40 2 0.03
41 3 0.04
42 56 0.76
43 3 0.04
44 2 0.03
45 4 0.05
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.19
Consensus pattern (42 bp):
GGGTGGTGAAGATGGAGGAAGTGGAGTACTACACATTGGTGG
Found at i:2885179 original size:84 final size:84
Alignment explanation
Indices: 2884966--2885194 Score: 280
Period size: 84 Copynumber: 2.7 Consensus size: 84
2884956 AGTCAAAGAG
** ** *
2884966 GGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGGGTGGT-AGAGATGGAGGAGACA
1 GGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGAAGAGGGTGGTGA-AGATGGAGGAGACA
*
2885030 AGGCAATAGTAGTTGAAAAG
65 AGGCAATAGTAGTTGAAAAA
** *
2885050 GGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGGTGGTGAAGATGGAGGAGACAA
1 GGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGAAGAGGGTGGTGAAGATGGAGGAGACAA
2885115 GGCAATAGTAGTTGAAAAA
66 GGCAATAGTAGTTGAAAAA
*** * * ** * *
2885134 GGTGGTGAGGTTGGAGGAAGTGGGGTAGTAGTCGTTGAAGAGGGTGGTGAAGGTGGAGGAG
1 GGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGAAGAGGGTGGTGAAGATGGAGGAG
2885195 GATGTGGGGC
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
84 128 0.99
85 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.46, T:0.20
Consensus pattern (84 bp):
GGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGAAGAGGGTGGTGAAGATGGAGGAGACAA
GGCAATAGTAGTTGAAAAA
Found at i:2886842 original size:54 final size:54
Alignment explanation
Indices: 2886760--2886871 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
2886750 TTGGAGAGCC
* *
2886760 TGAAGGCTTTGTAAGGTCAACCTTCTGACCTTTTTGCTCGGATGAAAAATCCTT
1 TGAAGGCTTTGTAACGTCAACCTTCTGACATTTTTGCTCGGATGAAAAATCCTT
* * * *
2886814 TGAAGTCTTTGTATCGTCAACCTTCTGACATTTTTGCTTGGATGAAACATCCTT
1 TGAAGGCTTTGTAACGTCAACCTTCTGACATTTTTGCTCGGATGAAAAATCCTT
2886868 TGAA
1 TGAA
2886872 ATCACAGCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (54 bp):
TGAAGGCTTTGTAACGTCAACCTTCTGACATTTTTGCTCGGATGAAAAATCCTT
Found at i:2887643 original size:93 final size:93
Alignment explanation
Indices: 2887510--2887790 Score: 463
Period size: 93 Copynumber: 3.0 Consensus size: 93
2887500 CTTGAATTCT
*
2887510 ATGGGGATCTACATCTTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
1 ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
* *
2887575 TGTCATAATCCACCTTTCCATCCAGTGC
66 TGTCGTAATCCACCTTTCCATCCAGCGC
** *
2887603 ATGGGGATCTACATCCTCCCTTGAGATATCTTTCTGCTCTGGCTTGTTTTCATGGACTATCTGAC
1 ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
* **
2887668 TGTTGTAATCCACCTTTCCATCCAGCAA
66 TGTCGTAATCCACCTTTCCATCCAGCGC
* *
2887696 ATGGGAATCTACATCCTCTCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
1 ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
2887761 TGTCGTAATCCACCTTTCCATCCAGCGC
66 TGTCGTAATCCACCTTTCCATCCAGCGC
2887789 AT
1 AT
2887791 CGACTTTTCC
Statistics
Matches: 171, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 171 1.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (93 bp):
ATGGGGATCTACATCCTCCCTCAAGATATCTTTCTGCTCTGGCTTGTTTTCATGAACTATCTGAC
TGTCGTAATCCACCTTTCCATCCAGCGC
Found at i:2887799 original size:21 final size:21
Alignment explanation
Indices: 2887772--2887836 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
2887762 GTCGTAATCC
*
2887772 ACCTTTCCATCCAGCGCATCG
1 ACCTTTCCATCCAGCGCATCA
* *
2887793 ACTTTTCCATCCAGCACATCA
1 ACCTTTCCATCCAGCGCATCA
* *
2887814 ACCTTTCCCTCCACCGCATCA
1 ACCTTTCCATCCAGCGCATCA
2887835 AC
1 AC
2887837 TGCATTGCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.45, G:0.08, T:0.25
Consensus pattern (21 bp):
ACCTTTCCATCCAGCGCATCA
Found at i:2894972 original size:16 final size:16
Alignment explanation
Indices: 2894951--2894982 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2894941 GCAATAAATG
2894951 AATTTGAAACTACTTA
1 AATTTGAAACTACTTA
2894967 AATTTGAAACTACTTA
1 AATTTGAAACTACTTA
2894983 GGACCAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
AATTTGAAACTACTTA
Found at i:2898008 original size:28 final size:28
Alignment explanation
Indices: 2897953--2898021 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
2897943 ATTTAGAAAT
* *** *
2897953 ATAATAATATATGATCTTACTTTCAAAA
1 ATAATAATATATGATATTAAAATAAAAA
2897981 ATAATAATATATGATATTAAAATAAAAA
1 ATAATAATATATGATATTAAAATAAAAA
*
2898009 TTAATATATATAT
1 ATAATA-ATATAT
2898022 TAAGTTTGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAATAATATATGATATTAAAATAAAAA
Found at i:2898238 original size:14 final size:14
Alignment explanation
Indices: 2898216--2898249 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2898206 AGCTGTGTTT
*
2898216 GTTTATTTGTAAAA
1 GTTTTTTTGTAAAA
2898230 GTTTTTTTGTAAAA
1 GTTTTTTTGTAAAA
2898244 GTTTTT
1 GTTTTT
2898250 CAACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
GTTTTTTTGTAAAA
Found at i:2898462 original size:18 final size:19
Alignment explanation
Indices: 2898441--2898478 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2898431 TTATAAATGA
2898441 TTTAATCA-AAATAATTTT
1 TTTAATCATAAATAATTTT
*
2898459 TTTAATTATTAAATAATTTT
1 TTTAATCA-TAAATAATTTT
2898479 ATCATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAATCATAAATAATTTT
Found at i:2899569 original size:30 final size:30
Alignment explanation
Indices: 2899505--2899570 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
2899495 TTTTTCTGAT
*
2899505 TTAT-TTTGATTTAAATTTCATAATATATA
1 TTATATTTGATTTAAACTTCATAATATATA
* *
2899534 -AATATTTGATTTTAACTTCA-AATATATTA
1 TTATATTTGATTTAAACTTCATAATATA-TA
2899563 TTATATTT
1 TTATATTT
2899571 ATTCTGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 8 0.27
29 16 0.53
30 6 0.20
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TTATATTTGATTTAAACTTCATAATATATA
Found at i:2902601 original size:19 final size:18
Alignment explanation
Indices: 2902563--2902597 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2902553 TAAATTTTAA
2902563 ATTTTAAATAATATAAAT
1 ATTTTAAATAATATAAAT
2902581 ATTTATAAA-AATATAAA
1 ATTT-TAAATAATATAAA
2902598 ATATAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTTAAATAATATAAAT
Found at i:2903859 original size:20 final size:20
Alignment explanation
Indices: 2903833--2903878 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
2903823 AATTTTTTCT
*
2903833 TATAAAAAATAAT-TAAAAA
1 TATAAAAAATAATCAAAAAA
*
2903852 TATAAAAAATCATCAAAAAA
1 TATAAAAAATAATCAAAAAA
2903872 TATAAAA
1 TATAAAA
2903879 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
TATAAAAAATAATCAAAAAA
Found at i:2903860 original size:10 final size:9
Alignment explanation
Indices: 2903833--2903897 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
2903823 AATTTTTTCT
2903833 TATAAAAAA
1 TATAAAAAA
*
2903842 TAATTAAAAA
1 T-ATAAAAAA
2903852 TATAAAAAA
1 TATAAAAAA
2903861 TCATCAAAAAA
1 T-AT-AAAAAA
**
2903872 TATAAAATT
1 TATAAAAAA
2903881 TATTAAAAAA
1 TA-TAAAAAA
*
2903891 GATAAAA
1 TATAAAA
2903898 TTTAATAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
9 20 0.44
10 18 0.40
11 7 0.16
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (9 bp):
TATAAAAAA
Found at i:2903888 original size:19 final size:19
Alignment explanation
Indices: 2903847--2903907 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
2903837 AAAAATAATT
* * *
2903847 AAAAATATAAAAAATCATCA
1 AAAAATAT-AAAATTTATTA
2903867 AAAAATATAAAATTTATTA
1 AAAAATATAAAATTTATTA
* *
2903886 AAAAAGATAAAATTTAATA
1 AAAAATATAAAATTTATTA
2903905 AAA
1 AAA
2903908 CTTATTTACA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 28 0.78
20 8 0.22
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATATAAAATTTATTA
Found at i:2903960 original size:21 final size:21
Alignment explanation
Indices: 2903922--2903961 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2903912 TTTACATTTT
*
2903922 TATAAAAACATATTAAAATTC
1 TATAAAAACATATAAAAATTC
2903943 TATAAAAATCATA-AAAAAT
1 TATAAAAA-CATATAAAAAT
2903962 ATTAAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
TATAAAAACATATAAAAATTC
Found at i:2904433 original size:20 final size:18
Alignment explanation
Indices: 2904408--2904460 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 18
2904398 TTAATTCAAG
2904408 TTTTATAGTCTTTTAATAGT
1 TTTTATA-TCTTTTAATA-T
2904428 TTTTATAAAT-TTTTAATAT
1 TTTTAT--ATCTTTTAATAT
2904447 TTTTAATATCTTTT
1 TTTT-ATATCTTTT
2904461 TTACAATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.07
19 9 0.31
20 16 0.55
21 1 0.03
22 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTATATCTTTTAATAT
Found at i:2904460 original size:10 final size:9
Alignment explanation
Indices: 2904418--2904460 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
2904408 TTTTATAGTC
2904418 TTTTAATAGT
1 TTTTAATA-T
*
2904428 TTTTATAAAT
1 TTTTA-ATAT
2904438 TTTTAATAT
1 TTTTAATAT
2904447 TTTTAATAT
1 TTTTAATAT
2904456 CTTTT
1 -TTTT
2904461 TTACAATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 12 0.41
10 15 0.52
11 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:2904469 original size:21 final size:20
Alignment explanation
Indices: 2904437--2904503 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
2904427 TTTTTATAAA
*
2904437 TTTTTAATATTTTTAATATCT
1 TTTTTAA-ATTTTTATTATCT
2904458 TTTTTACAATTTCTTATTA--T
1 TTTTTA-AATTT-TTATTATCT
*
2904478 TTTTTAAGAATTTTATTA-CT
1 TTTTTAA-ATTTTTATTATCT
2904498 TTTTTA
1 TTTTTA
2904504 TTTTAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 7 0.17
20 17 0.43
21 10 0.25
22 6 0.15
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTTTAAATTTTTATTATCT
Found at i:2907826 original size:43 final size:43
Alignment explanation
Indices: 2907779--2907906 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
2907769 CAGTTGTATA
* *
2907779 TATTAAGAACGTATTTTATTTTAATAATGTATATTTCATATGC
1 TATTAATAATGTATTTTATTTTAATAATGTATATTTCATATGC
*
2907822 TATTAATAATGTATTTTA-TTTCATAATG------T-ATA---
1 TATTAATAATGTATTTTATTTTAATAATGTATATTTCATATGC
2907854 TATTAATAATGTATTTTATTTTAATAATGTATATTTCATATGC
1 TATTAATAATGTATTTTATTTTAATAATGTATATTTCATATGC
*
2907897 TATTATTAAT
1 TATTAATAAT
2907907 TAATTTCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
32 18 0.26
33 9 0.13
35 3 0.04
36 1 0.01
39 1 0.01
40 3 0.04
42 9 0.13
43 25 0.36
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (43 bp):
TATTAATAATGTATTTTATTTTAATAATGTATATTTCATATGC
Found at i:2907842 original size:28 final size:30
Alignment explanation
Indices: 2907799--2907888 Score: 100
Period size: 32 Copynumber: 3.1 Consensus size: 30
2907789 GTATTTTATT
*
2907799 TTAATAATGTA---TATTTCAT-ATG-CTA
1 TTAATAATGTATTTTATTTCATAATGTATA
2907824 TTAATAATGTATTTTATTTCATAATGTATATA
1 TTAATAATGTATTTTATTTCATAATG--TATA
*
2907856 TTAATAATGTATTTTATTTTAATAATGTATA
1 TTAATAATGTATTTTA-TTTCATAATGTATA
2907887 TT
1 TT
2907889 TCATATGCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
25 11 0.20
28 8 0.15
29 3 0.05
31 6 0.11
32 18 0.33
33 9 0.16
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (30 bp):
TTAATAATGTATTTTATTTCATAATGTATA
Found at i:2907862 original size:32 final size:33
Alignment explanation
Indices: 2907822--2907887 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2907812 TTTCATATGC
*
2907822 TATTAATAATGTATTTTA-TTTCATAATGTATA
1 TATTAATAATGTATTTTATTTTAATAATGTATA
2907854 TATTAATAATGTATTTTATTTTAATAATGTATA
1 TATTAATAATGTATTTTATTTTAATAATGTATA
2907887 T
1 T
2907888 TTCATATGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.56
33 14 0.44
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (33 bp):
TATTAATAATGTATTTTATTTTAATAATGTATA
Found at i:2914865 original size:15 final size:14
Alignment explanation
Indices: 2914839--2914870 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
2914829 TCAATTTAAT
2914839 TAAAATTTTAATAA
1 TAAAATTTTAATAA
2914853 TAAAA-TTT-ATAA
1 TAAAATTTTAATAA
2914865 TAAAAT
1 TAAAAT
2914871 ATGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.53
13 3 0.18
14 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATTTTAATAA
Found at i:2931770 original size:4 final size:4
Alignment explanation
Indices: 2931761--2931787 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2931751 GCTCAAAGTT
2931761 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
2931788 TGTATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2945019 original size:74 final size:74
Alignment explanation
Indices: 2944898--2945045 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
2944888 TGGACACATG
* *
2944898 TATATTTACTTCTTTGAAGAGTTTTCATGCGTTTTATGAGTCATTGGAAGATCGTATTTCAATGC
1 TATATTTACTTCTTTGAAGAGTTTTCATGCATTTTATGAGTCATTGGAAGATCATATTTCAATGC
2944963 CCTTGTATA
66 CCTTGTATA
*
2944972 TATATTTGCTTCTTTGAAGAGTTTTCATGCATTTTATGAGTCATTGGAAGATCATATTTCAATGC
1 TATATTTACTTCTTTGAAGAGTTTTCATGCATTTTATGAGTCATTGGAAGATCATATTTCAATGC
2945037 CCTTGTATA
66 CCTTGTATA
2945046 GGGTTAAATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.45
Consensus pattern (74 bp):
TATATTTACTTCTTTGAAGAGTTTTCATGCATTTTATGAGTCATTGGAAGATCATATTTCAATGC
CCTTGTATA
Found at i:2954161 original size:26 final size:26
Alignment explanation
Indices: 2954119--2954174 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
2954109 CTATAAATTG
2954119 ATTAAAATATTTAAAAAATCATAA-AA
1 ATTAAAATATTT-AAAAATCATAATAA
* *
2954145 ATTAAAA-ATTCTTAAAATTATAATAA
1 ATTAAAATATT-TAAAAATCATAATAA
2954171 ATTA
1 ATTA
2954175 TACAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (26 bp):
ATTAAAATATTTAAAAATCATAATAA
Found at i:2955357 original size:21 final size:21
Alignment explanation
Indices: 2955313--2955392 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
2955303 TCATTTCTGT
* * *
2955313 CATAGCCCCCACCACCACCTC
1 CATAGCCACCACCGCCACCAC
* *
2955334 CATAGCCACCACTGCCCCCAC
1 CATAGCCACCACCGCCACCAC
**
2955355 CATAGCTGCCACCGCCACCAC
1 CATAGCCACCACCGCCACCAC
*
2955376 CATATCCACCACCGCCA
1 CATAGCCACCACCGCCA
2955393 TAACCGCTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.25, C:0.56, G:0.09, T:0.10
Consensus pattern (21 bp):
CATAGCCACCACCGCCACCAC
Found at i:2960164 original size:26 final size:26
Alignment explanation
Indices: 2960113--2960165 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2960103 ATTAATCAAA
*
2960113 AAGCCCACAAAGAACATTTAATCGGG
1 AAGCCCACAAAGAACATATAATCGGG
* *
2960139 AAGCTCACAAAGAGCAATATAA-CGGG
1 AAGCCCACAAAGAAC-ATATAATCGGG
2960165 A
1 A
2960166 CGTTTATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (26 bp):
AAGCCCACAAAGAACATATAATCGGG
Found at i:2961205 original size:13 final size:13
Alignment explanation
Indices: 2961187--2961214 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2961177 CTTTATTTTG
2961187 TTATTTTTCATCT
1 TTATTTTTCATCT
2961200 TTATTTTTCATCT
1 TTATTTTTCATCT
2961213 TT
1 TT
2961215 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:2963054 original size:67 final size:67
Alignment explanation
Indices: 2962946--2963077 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
2962936 TTTTCAATTC
* *
2962946 AGAGAGCACATTATCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTACCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
2963011 CA
66 CA
* *
2963013 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGAGATTACTAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTACCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
2963078 TAATATAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTACCGCGAACCTCATTTCTTACAGCGAGATTACCAGTCCAGGCTAAATCCCCTG
CA
Found at i:2975444 original size:23 final size:24
Alignment explanation
Indices: 2975399--2975444 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
2975389 GAAATCTAAA
*
2975399 ATTTATATTTAATTTTACTTTTTGT
1 ATTTATATTT-ATTATACTTTTTGT
2975424 ATTTATATTT-TTATACTTTTT
1 ATTTATATTTATTATACTTTTT
2975445 TAGTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTATATTTATTATACTTTTTGT
Found at i:2988595 original size:4 final size:4
Alignment explanation
Indices: 2988588--2988640 Score: 63
Period size: 4 Copynumber: 13.2 Consensus size: 4
2988578 TATGCATGCG
* **
2988588 TGTA TGTA TGTA TG-A TGTA TGCA TGCG TGTA TGTA TGTA TGTAA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT-A TGTA
2988636 TGTA T
1 TGTA T
2988641 CGAAATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 3 0.07
4 36 0.84
5 4 0.09
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.45
Consensus pattern (4 bp):
TGTA
Found at i:2988604 original size:27 final size:27
Alignment explanation
Indices: 2988574--2988637 Score: 110
Period size: 27 Copynumber: 2.3 Consensus size: 27
2988564 AAATTTCTTG
2988574 GATGTATGCATGCGTGTATGTATGTAT
1 GATGTATGCATGCGTGTATGTATGTAT
2988601 GATGTATGCATGCGTGTATGTATGTAT
1 GATGTATGCATGCGTGTATGTATGTAT
2988628 GTAATGTATG
1 G--ATGTATG
2988638 TATCGAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 28 0.80
29 7 0.20
ACGTcount: A:0.23, C:0.06, G:0.30, T:0.41
Consensus pattern (27 bp):
GATGTATGCATGCGTGTATGTATGTAT
Found at i:2992709 original size:46 final size:46
Alignment explanation
Indices: 2992642--2992825 Score: 278
Period size: 46 Copynumber: 4.0 Consensus size: 46
2992632 GGGGATATAG
2992642 ATCTATTTATTTACCATATTACTTAGCATGATTGAGAGATTATTAC
1 ATCTATTTATTTACCATATTACTTAGCATGATTGAGAGATTATTAC
2992688 ATCTATTTATTTACCATATTACTTAGCATGATTGAGAGATTATTAC
1 ATCTATTTATTTACCATATTACTTAGCATGATTGAGAGATTATTAC
* * * * *
2992734 GTCTATTTATTTTCCCAGATTACTTAGCATGATGGAGAGATTATTAG
1 ATCTATTTA-TTTACCATATTACTTAGCATGATTGAGAGATTATTAC
* * *
2992781 ATCTATTCATTTACCATATTACTTGGTATGATTTGAGAGATTATT
1 ATCTATTTATTTACCATATTACTTAGCATGA-TTGAGAGATTATT
2992826 TCCTTCGTAA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
46 72 0.58
47 52 0.42
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (46 bp):
ATCTATTTATTTACCATATTACTTAGCATGATTGAGAGATTATTAC
Found at i:2993578 original size:15 final size:15
Alignment explanation
Indices: 2993560--2993596 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2993550 TTTATTTATT
2993560 TATTTTTTATAATTA
1 TATTTTTTATAATTA
*
2993575 TATTTATTATAATTA
1 TATTTTTTATAATTA
2993590 TATTTTT
1 TATTTTT
2993597 ACTCACATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTTATAATTA
Found at i:2994749 original size:18 final size:18
Alignment explanation
Indices: 2994726--2994761 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2994716 GTTTATTTTG
2994726 TTTAATAAAGAAAAGGAA
1 TTTAATAAAGAAAAGGAA
2994744 TTTAATAAAGAAAAGGAA
1 TTTAATAAAGAAAAGGAA
2994762 AGTGAAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (18 bp):
TTTAATAAAGAAAAGGAA
Found at i:2999941 original size:96 final size:96
Alignment explanation
Indices: 2999777--2999969 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
2999767 CAATGCTCTC
*
2999777 AGTGACCCTTAGCTCCACTGATGAAGTAAATGACCTTGATTTTTCAAGCTTCACCTTGGTGTTTC
1 AGTGACCCTTAGCTCCAATGATGAAGTAAATGACCTTGATTTTTCAAGCTTCACCTTGGTGTTTC
2999842 CGTCCTTGTAATCTGTAATCCGAAATGAGGT
66 CGTCCTTGTAATCTGTAATCCGAAATGAGGT
*
2999873 AGTGACCCTTAGCTCCAATGATGAAGTAAATGACCTTGATTTTTCAAGCTTCATCTTGGTGTTTC
1 AGTGACCCTTAGCTCCAATGATGAAGTAAATGACCTTGATTTTTCAAGCTTCACCTTGGTGTTTC
2999938 CGTCCTTGTAATCTGTAATCCGAAATGAGGT
66 CGTCCTTGTAATCTGTAATCCGAAATGAGGT
2999969 A
1 A
2999970 TTGCTGCTTG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (96 bp):
AGTGACCCTTAGCTCCAATGATGAAGTAAATGACCTTGATTTTTCAAGCTTCACCTTGGTGTTTC
CGTCCTTGTAATCTGTAATCCGAAATGAGGT
Found at i:3008822 original size:3 final size:3
Alignment explanation
Indices: 3008814--3008850 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3008804 ATAAGCTTTC
3008814 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3008851 ACAGAATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3032928 original size:60 final size:60
Alignment explanation
Indices: 3032809--3032953 Score: 152
Period size: 61 Copynumber: 2.4 Consensus size: 60
3032799 AAAAGAGTAG
** * * * * *
3032809 GTACCAAATTAAG-AAAATTTGTCAAGTTTAGGTACTAAATTGGATCCCCAAAAAGTTTAA
1 GTACCAAATTAAGAAAAAAATGTCAAATTTAGGTACCAAATTGAAT-CCAAAAAAATTTAA
*
3032869 GTACCAACTTAAGAAAAAAATGTCAAATTTAGGTACCAAATTGAAT-CAAAAAATATTTAA
1 GTACCAAATTAAGAAAAAAATGTCAAATTTAGGTACCAAATTGAATCCAAAAAA-ATTTAA
* * *
3032929 ATATCAAATT-AGAAAAAAATATCAA
1 GTACCAAATTAAGAAAAAAATGTCAA
3032954 GTTCGAATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
59 20 0.28
60 24 0.34
61 27 0.38
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.28
Consensus pattern (60 bp):
GTACCAAATTAAGAAAAAAATGTCAAATTTAGGTACCAAATTGAATCCAAAAAAATTTAA
Found at i:3056819 original size:22 final size:21
Alignment explanation
Indices: 3056780--3056823 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
3056770 TATTTTTTAT
*
3056780 TTTTTTTCATCAATCTTTGTTC
1 TTTTTTTCAACAATCTTT-TTC
3056802 TTTTTTTCAAC-ATGCTTTTTC
1 TTTTTTTCAACAAT-CTTTTTC
3056823 T
1 T
3056824 AATAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.14, C:0.18, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTTTTTCAACAATCTTTTTC
Found at i:3061431 original size:20 final size:19
Alignment explanation
Indices: 3061406--3061445 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3061396 TATTATAAAA
3061406 AATATATAAAATTTTTTTTC
1 AATATAT-AAATTTTTTTTC
*
3061426 AATATATAATTTTTTTTTC
1 AATATATAAATTTTTTTTC
3061445 A
1 A
3061446 CTAGAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATATAAATTTTTTTTC
Found at i:3061454 original size:20 final size:19
Alignment explanation
Indices: 3061417--3061455 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3061407 ATATATAAAA
*
3061417 TTTTTTTTCAATATATAAT
1 TTTTTTTTCAATAAATAAT
*
3061436 TTTTTTTTCACTAGAATAAT
1 TTTTTTTTCAATA-AATAAT
3061456 GAGTGTGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTTTTCAATAAATAAT
Found at i:3065437 original size:20 final size:22
Alignment explanation
Indices: 3065412--3065454 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
3065402 TGTTATCAAT
*
3065412 TTAATTA-TATATTT-TAATTA
1 TTAATTATTAAATTTATAATTA
3065432 TTAATTATTAAATTTATAATTA
1 TTAATTATTAAATTTATAATTA
3065454 T
1 T
3065455 AACTGTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTATTAAATTTATAATTA
Found at i:3065737 original size:21 final size:21
Alignment explanation
Indices: 3065699--3065740 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3065689 ACAACCAAAG
*
3065699 TTAAACTATAATTATTAAAAT
1 TTAAAATATAATTATTAAAAT
3065720 TTAAAATA-AATTATTTAAAAT
1 TTAAAATATAATTA-TTAAAAT
3065741 AAGAACCCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAATATAATTATTAAAAT
Found at i:3070235 original size:31 final size:31
Alignment explanation
Indices: 3070211--3070269 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3070201 TATATTATAT
*
3070211 TATAATAAAACAAAAAAATAATATAATAATG
1 TATAATAAAACAAAAAAAGAATATAATAATG
*
3070242 TATAATAAAACAAATAAAGAATA-AATAA
1 TATAATAAAACAAAAAAAGAATATAATAA
3070270 AAAGAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (31 bp):
TATAATAAAACAAAAAAAGAATATAATAATG
Found at i:3071022 original size:24 final size:24
Alignment explanation
Indices: 3070995--3071041 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3070985 ATTGAAATGG
3070995 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
3071019 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
3071042 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:3071324 original size:40 final size:40
Alignment explanation
Indices: 3071202--3071334 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
3071192 CTTCGAGTCG
* * *
3071202 ATGAGACACTGGGTGTCAATTTACTACTTCAGATTAATTTG
1 ATGAGACACTGGGTGTCAATTTATTACTTCAAATTAA-TTA
* * * * * *
3071243 ATGAGGCACTCGGTGCCAA---ATTACTTCGATTTAATTT
1 ATGAGACACTGGGTGTCAATTTATTACTTCAAATTAATTA
*
3071280 ATGAGACACTGGGTGTCAATTTATTACTTCAAATT-ATCCA
1 ATGAGACACTGGGTGTCAATTTATTACTTCAAATTAAT-TA
*
3071320 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
3071335 CCAAATTAGT
Statistics
Matches: 72, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
37 18 0.25
38 11 0.15
39 2 0.03
40 25 0.35
41 16 0.22
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATTACTTCAAATTAATTA
Found at i:3073924 original size:16 final size:16
Alignment explanation
Indices: 3073887--3073928 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3073877 AAATTAAAAG
*
3073887 TTATTTTTTAATTTAA
1 TTATTATTTAATTTAA
3073903 TGTATTATTT-ATTTATA
1 T-TATTATTTAATTTA-A
3073920 TTATTATTT
1 TTATTATTT
3073929 TTCACATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTATTATTTAATTTAA
Found at i:3075550 original size:24 final size:24
Alignment explanation
Indices: 3075500--3075550 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
3075490 AGAATAATTG
** *
3075500 AAAAAATAAAAAACCGATAAGTTA
1 AAAAAATAAAAAACAAATAAGTAA
3075524 AAAAAATAAAAAACAAATCAA-TAA
1 AAAAAATAAAAAACAAAT-AAGTAA
3075548 AAA
1 AAA
3075551 TTGCAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.14
Consensus pattern (24 bp):
AAAAAATAAAAAACAAATAAGTAA
Found at i:3078793 original size:17 final size:20
Alignment explanation
Indices: 3078759--3078794 Score: 51
Period size: 17 Copynumber: 1.9 Consensus size: 20
3078749 TCTATCACTT
3078759 TTTTATTTTCATCGTTAATA
1 TTTTATTTTCATCGTTAATA
3078779 TTTT-TTTT-ATC-TTAAT
1 TTTTATTTTCATCGTTAAT
3078795 TTATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 4 0.25
20 4 0.25
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTATTTTCATCGTTAATA
Found at i:3082657 original size:17 final size:18
Alignment explanation
Indices: 3082635--3082669 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3082625 CTTTGACTTG
3082635 ATGCTTCACAAGA-TTTA
1 ATGCTTCACAAGAGTTTA
*
3082652 ATGCTTCATAAGAGTTTA
1 ATGCTTCACAAGAGTTTA
3082670 TCACCATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
ATGCTTCACAAGAGTTTA
Found at i:3092183 original size:14 final size:15
Alignment explanation
Indices: 3092164--3092200 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
3092154 GATTTGATAC
3092164 AAACAATCAA-CTAT
1 AAACAATCAACCTAT
*
3092178 AAACAA-AAACCTAT
1 AAACAATCAACCTAT
3092192 AAACAATCA
1 AAACAATCA
3092201 CAATCTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 2 0.11
14 16 0.84
15 1 0.05
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACAATCAACCTAT
Found at i:3092930 original size:11 final size:11
Alignment explanation
Indices: 3092914--3092949 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
3092904 AAGCAATCAC
3092914 AAAAAAGAAAA
1 AAAAAAGAAAA
3092925 AAAAAAGAAAA
1 AAAAAAGAAAA
*
3092936 AAAGAAGAAGAA
1 AAAAAAGAA-AA
3092948 AA
1 AA
3092950 TCTAATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:3094198 original size:18 final size:20
Alignment explanation
Indices: 3094173--3094216 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3094163 TCAAAATTTT
3094173 ACTTTAA-TTTATT-TATAC
1 ACTTTAATTTTATTATATAC
*
3094191 ATTTTAATTTTATTATATAC
1 ACTTTAATTTTATTATATAC
3094211 ACTTTA
1 ACTTTA
3094217 TTACCTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 6 0.27
20 10 0.45
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (20 bp):
ACTTTAATTTTATTATATAC
Found at i:3105344 original size:9 final size:9
Alignment explanation
Indices: 3105330--3105362 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
3105320 TTTGGTTAAA
3105330 AATTAACCG
1 AATTAACCG
3105339 AATTAACCG
1 AATTAACCG
*
3105348 AATTACCCG
1 AATTAACCG
3105357 AATTAA
1 AATTAA
3105363 ATCACTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:3105390 original size:17 final size:17
Alignment explanation
Indices: 3105368--3105430 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
3105358 ATTAAATCAC
3105368 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
***
3105385 TACATAAGTCTTTGAATCAT
1 TACATAA-T-TAAAAAT-AT
*
3105405 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
3105422 TACATAATT
1 TACATAATT
3105431 CTTGAAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 18 0.50
18 4 0.11
19 5 0.14
20 9 0.25
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:3105410 original size:37 final size:37
Alignment explanation
Indices: 3105362--3105433 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
3105352 ACCCGAATTA
*
3105362 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
* *
3105399 AATCATTACATAATTAAAAACATTACATAATTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
3105434 GAAATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:3105447 original size:37 final size:37
Alignment explanation
Indices: 3105369--3105447 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
3105359 TTAAATCACT
* **
3105369 ACATAATTAAAAATATTACATAAGTCTTTGAATCATT
1 ACATAATTAAAAACATTACATAAGTCTTTGAATCAAC
* *
3105406 ACATAATTAAAAACATTACATAATTC-TTGAAATTAAC
1 ACATAATTAAAAACATTACATAAGTCTTTG-AATCAAC
3105443 ACATA
1 ACATA
3105448 GTTGAAATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 3 0.08
37 33 0.92
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (37 bp):
ACATAATTAAAAACATTACATAAGTCTTTGAATCAAC
Found at i:3105653 original size:39 final size:39
Alignment explanation
Indices: 3105563--3105677 Score: 171
Period size: 39 Copynumber: 3.0 Consensus size: 39
3105553 ACTTAAGAGT
* * *
3105563 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTCGA
1 TAGACTTTAGTTTTAATTTTATTGGGTTGGGTAATTGGG
*
3105601 T-GACTTTAGTTTTAATTTTATTGTGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAATTTTATTGGGTTGGGTAATTGGG
*
3105639 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAATTTTATTGGGTTGGGTAATTGGG
3105678 CTGGGTTGGA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
37 24 0.35
38 10 0.14
39 35 0.51
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAATTTTATTGGGTTGGGTAATTGGG
Found at i:3105840 original size:18 final size:18
Alignment explanation
Indices: 3105819--3105854 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3105809 TTCGATTAAC
3105819 CGATCGATTAACCGAATT
1 CGATCGATTAACCGAATT
*
3105837 CGATCGGTTAACCGAATT
1 CGATCGATTAACCGAATT
3105855 TTTTCGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (18 bp):
CGATCGATTAACCGAATT
Found at i:3106527 original size:44 final size:44
Alignment explanation
Indices: 3106469--3106563 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
3106459 TGAAACAATT
*
3106469 ATAAAG-A-AAAATTCATTATTTAATTAATATAAAGTATAATGA
1 ATAAAGAACAAAATTCATTATTTAACTAATATAAAGTATAATGA
3106511 ATAAAGAACAAAATTCATTATTTAACTAATATAAAGTATAATGA
1 ATAAAGAACAAAATTCATTATTTAACTAATATAAAGTATAATGA
3106555 ATAAAGAAC
1 ATAAAGAAC
3106564 CGGAAAGAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 6 0.12
43 1 0.02
44 43 0.86
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (44 bp):
ATAAAGAACAAAATTCATTATTTAACTAATATAAAGTATAATGA
Found at i:3119696 original size:14 final size:14
Alignment explanation
Indices: 3119660--3119690 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3119650 GTAGACTCTA
3119660 ACTCTAAATTTTAG
1 ACTCTAAATTTTAG
*
3119674 ACTCTAAATTTTTG
1 ACTCTAAATTTTAG
3119688 ACT
1 ACT
3119691 TCAAATCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (14 bp):
ACTCTAAATTTTAG
Found at i:3121049 original size:23 final size:23
Alignment explanation
Indices: 3121023--3121098 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
3121013 ATAAGTGCCA
3121023 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3121046 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3121069 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3121092 CACTGAT
1 CACTGAT
3121099 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:3121198 original size:8 final size:8
Alignment explanation
Indices: 3121185--3121213 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3121175 ACCCGGGACT
3121185 CACTGTAA
1 CACTGTAA
3121193 CACTGTAA
1 CACTGTAA
3121201 CACTGTAA
1 CACTGTAA
3121209 CACTG
1 CACTG
3121214 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:3121344 original size:18 final size:17
Alignment explanation
Indices: 3121318--3121356 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
3121308 ATTTTCCTTC
3121318 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
3121335 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
3121353 CACA
1 CACA
3121357 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:3128385 original size:23 final size:23
Alignment explanation
Indices: 3128359--3128434 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
3128349 ATAAGTGCCA
3128359 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3128382 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3128405 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3128428 CACTGAT
1 CACTGAT
3128435 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:3128534 original size:8 final size:8
Alignment explanation
Indices: 3128521--3128549 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3128511 ACCCGGGACT
3128521 CACTGTAA
1 CACTGTAA
3128529 CACTGTAA
1 CACTGTAA
3128537 CACTGTAA
1 CACTGTAA
3128545 CACTG
1 CACTG
3128550 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:3128681 original size:18 final size:17
Alignment explanation
Indices: 3128655--3128693 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
3128645 ATTTTCCTTC
3128655 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
3128672 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
3128690 CACA
1 CACA
3128694 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:3134432 original size:16 final size:16
Alignment explanation
Indices: 3134404--3134444 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3134394 GCTTTGATCT
3134404 TTTTCGTTC-TTTCTC-
1 TTTTC-TTCTTTTCTCA
3134419 TCTTTCTTCTTTTCTCA
1 T-TTTCTTCTTTTCTCA
3134436 TTTTCTTCT
1 TTTTCTTCT
3134445 GCTGAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTCTTCTTTTCTCA
Found at i:3135147 original size:6 final size:6
Alignment explanation
Indices: 3135133--3135162 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3135123 TATTTGTTAA
*
3135133 ATATAT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT
3135163 CTTCTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATATTT
Found at i:3148766 original size:19 final size:16
Alignment explanation
Indices: 3148725--3148781 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
3148715 ACATGTCAAC
3148725 ATTTAATTATTTTTAT
1 ATTTAATTATTTTTAT
3148741 ATTTAATTATTTTTGAT
1 ATTTAATTATTTTT-AT
*
3148758 AATTTTAATGATTTTTAT
1 -A-TTTAATTATTTTTAT
*
3148776 TTTTAA
1 ATTTAA
3148782 AATTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 19 0.53
17 2 0.06
18 3 0.08
19 12 0.33
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATTTAATTATTTTTAT
Found at i:3150727 original size:23 final size:26
Alignment explanation
Indices: 3150696--3150745 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
3150686 CATTTAATAT
3150696 TTATATTTTT-A-TTAAA-TTGATTA
1 TTATATTTTTGAGTTAAATTTGATTA
*
3150719 TTATTTTTTTGAGTTAAATTTGATTA
1 TTATATTTTTGAGTTAAATTTGATTA
3150745 T
1 T
3150746 CAACTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
24 1 0.04
25 5 0.22
26 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (26 bp):
TTATATTTTTGAGTTAAATTTGATTA
Found at i:3150764 original size:30 final size:32
Alignment explanation
Indices: 3150730--3150798 Score: 106
Period size: 30 Copynumber: 2.2 Consensus size: 32
3150720 TATTTTTTTG
*
3150730 AGTTAAATTTGATTATCAACTTTTT-AAAA-A
1 AGTTAAATTTGACTATCAACTTTTTGAAAATA
*
3150760 AGTTAAATTTGACTATCAACTTTTTGAAAATG
1 AGTTAAATTTGACTATCAACTTTTTGAAAATA
3150792 AGTTAAA
1 AGTTAAA
3150799 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 24 0.69
31 4 0.11
32 7 0.20
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (32 bp):
AGTTAAATTTGACTATCAACTTTTTGAAAATA
Found at i:3154094 original size:346 final size:345
Alignment explanation
Indices: 3153462--3154153 Score: 1366
Period size: 346 Copynumber: 2.0 Consensus size: 345
3153452 TGACTTCGTC
3153462 GGTGACAGCAGGTAAAGATAAATGGACATCTACAATAACATTAGGGATTAACTCCTGTACTTCGT
1 GGTGACAGCAGGTAAAGATAAATGGACATCTACAATAACATTAGGGATTAACTCCTGTACTTCGT
*
3153527 GCCAAACATATTTTAGCAGTATTGATATATTGCCCCGAGTACATAAATTGTCAAGGGTGTGACTC
66 GCCAAACATATTTTAGCAGTATTGATATATTACCCCGAGTACATAAATTGTCAAGGGTGTGACTC
3153592 TATGATGCATATATAAAAGATCATGTTATTATTTAGGTTGAAAGACTCACATAGATACACAGACC
131 TATGATGCATATATAAAAGATCATGTTATTATTTAGGTTGAAAGACTCACATAGATACACAGACC
3153657 CCAAGTGCATAAATAATCAAGGGCGAGTCATCATTTTCTTTGGTTTTAATTTCTGGGTTCGAGTT
196 CCAAGTGCATAAATAATCAAGGGCGAGTCATCATTTTCTTTGGTTTTAATTTCTGGGTTCGAGTT
3153722 AGTTTAATGGTGTAGGTGGTCTGATAAATACAAGTTAAACTAAAGTGATAATATGTGTGCTCGGT
261 AGTTTAATGGTGTAGGTGGTCTGATAAATACAAGTTAAACTAAAGTGATAATATGTGTGCTCGGT
3153787 TATCCAGGTCGAGTATCTTT
326 TATCCAGGTCGAGTATCTTT
3153807 GGTGACAGCAGGTAAAGATAAATGGACATCTACAATAACATTAGGGATTAACTCCTGTACTTCGT
1 GGTGACAGCAGGTAAAGATAAATGGACATCTACAATAACATTAGGGATTAACTCCTGTACTTCGT
3153872 GCCAAACATATTTTAGCAGTATTGATATATTACCCCGAGTACATAAATTGTCAAGGGTGTGACTC
66 GCCAAACATATTTTAGCAGTATTGATATATTACCCCGAGTACATAAATTGTCAAGGGTGTGACTC
3153937 TTATGATGCATATATAAAAGATCATGTTATTATTTAGGTTGAAAGACTCACATAGATACACAGAC
131 -TATGATGCATATATAAAAGATCATGTTATTATTTAGGTTGAAAGACTCACATAGATACACAGAC
3154002 CCCAAGTGCATAAATAATCAAGGGCGAGTCATCATTTTCTTTGGTTTTAATTTCTGGGTTCGAGT
195 CCCAAGTGCATAAATAATCAAGGGCGAGTCATCATTTTCTTTGGTTTTAATTTCTGGGTTCGAGT
3154067 TAGTTTAATGGTGTAGGTGGTCTGATAAATACAAGTTAAACTAAAGTGATAATATGTGTGCTCGG
260 TAGTTTAATGGTGTAGGTGGTCTGATAAATACAAGTTAAACTAAAGTGATAATATGTGTGCTCGG
3154132 TTATCCAGGTCGAGTATCTTT
325 TTATCCAGGTCGAGTATCTTT
3154153 G
1 G
3154154 ATGCAAAAGC
Statistics
Matches: 345, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
345 129 0.37
346 216 0.63
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (345 bp):
GGTGACAGCAGGTAAAGATAAATGGACATCTACAATAACATTAGGGATTAACTCCTGTACTTCGT
GCCAAACATATTTTAGCAGTATTGATATATTACCCCGAGTACATAAATTGTCAAGGGTGTGACTC
TATGATGCATATATAAAAGATCATGTTATTATTTAGGTTGAAAGACTCACATAGATACACAGACC
CCAAGTGCATAAATAATCAAGGGCGAGTCATCATTTTCTTTGGTTTTAATTTCTGGGTTCGAGTT
AGTTTAATGGTGTAGGTGGTCTGATAAATACAAGTTAAACTAAAGTGATAATATGTGTGCTCGGT
TATCCAGGTCGAGTATCTTT
Found at i:3162902 original size:16 final size:16
Alignment explanation
Indices: 3162881--3162912 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3162871 GTCAAATGTT
*
3162881 TATATATGTATGTATG
1 TATATATGCATGTATG
3162897 TATATATGCATGTATG
1 TATATATGCATGTATG
3162913 CATGTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (16 bp):
TATATATGCATGTATG
Found at i:3164945 original size:33 final size:33
Alignment explanation
Indices: 3164906--3164971 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3164896 TTCATCACAG
* *
3164906 ACCTTCAAATTTTTCTCTTAGATTATGTTTGTT
1 ACCTTCAAATTGTACTCTTAGATTATGTTTGTT
*
3164939 ACCTTCATATTGTACTCTTAGATTATGTTTGTT
1 ACCTTCAAATTGTACTCTTAGATTATGTTTGTT
3164972 TTGTCGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (33 bp):
ACCTTCAAATTGTACTCTTAGATTATGTTTGTT
Found at i:3169845 original size:3 final size:3
Alignment explanation
Indices: 3169837--3169861 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3169827 CACTCTTGGC
3169837 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
3169862 TGTAGTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:3173802 original size:8 final size:8
Alignment explanation
Indices: 3173789--3173813 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3173779 TATTTAATTC
3173789 TTTTAAAT
1 TTTTAAAT
3173797 TTTTAAAT
1 TTTTAAAT
3173805 TTTTAAAT
1 TTTTAAAT
3173813 T
1 T
3173814 AATAAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTAAAT
Found at i:3184315 original size:40 final size:39
Alignment explanation
Indices: 3184260--3184395 Score: 132
Period size: 40 Copynumber: 3.5 Consensus size: 39
3184250 ACCAGTTTGG
* * *
3184260 CACCCAATGGCTCATCGAATAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAATAATCCGAAGT-ATAAATTGA
** * *
3184300 CACCCAGTGTCTCATCGTCTAAACCGAAGT-T-AATTGG
1 CACCCAGTGTCTCATCGAATAATCCGAAGTATAAATTGA
* * *
3184337 TACCCAGTGCCTCATCGAATTAATCCGAAGCAGTAAATTGA
1 CACCCAGTGTCTCATCGAA-TAATCCGAAGTA-TAAATTGA
*
3184378 CACCTAGTGTCTCATCGA
1 CACCCAGTGTCTCATCGA
3184396 CTCGAAGTCG
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 20 0.27
38 10 0.13
40 25 0.33
41 20 0.27
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (39 bp):
CACCCAGTGTCTCATCGAATAATCCGAAGTATAAATTGA
Found at i:3184392 original size:41 final size:40
Alignment explanation
Indices: 3184260--3184395 Score: 120
Period size: 41 Copynumber: 3.5 Consensus size: 40
3184250 ACCAGTTTGG
* * * *
3184260 CACCCAATGGCTCATCGAA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAATTAATCCGAAG-AGTAAATTGA
* * *
3184300 CACCCAGTGTCTCATCG--TCTAAACCG-A-AGTTAATTGG
1 CACCCAGTGTCTCATCGAAT-TAATCCGAAGAGTAAATTGA
* *
3184337 TACCCAGTGCCTCATCGAATTAATCCGAAGCAGTAAATTGA
1 CACCCAGTGTCTCATCGAATTAATCCGAAG-AGTAAATTGA
*
3184378 CACCTAGTGTCTCATCGA
1 CACCCAGTGTCTCATCGA
3184396 CTCGAAGTCG
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
37 22 0.30
38 6 0.08
39 3 0.04
40 20 0.27
41 23 0.31
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
CACCCAGTGTCTCATCGAATTAATCCGAAGAGTAAATTGA
Found at i:3185353 original size:5 final size:5
Alignment explanation
Indices: 3185345--3185398 Score: 92
Period size: 5 Copynumber: 10.8 Consensus size: 5
3185335 ATTTTATCAT
3185345 TATAA TATAA TATAA TGA-AA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA TATAA TATAA TATAA
3185395 TATA
1 TATA
3185399 TACTTAATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
4 1 0.02
5 45 0.96
6 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:3204995 original size:37 final size:37
Alignment explanation
Indices: 3204930--3205075 Score: 215
Period size: 37 Copynumber: 4.0 Consensus size: 37
3204920 TACGTATGAT
* * *
3204930 CACTTATCAC-TTG-TCCCTGATCAAATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* * *
3204965 CACCTATCACTTTGTTTCTTGATCACATAAGTGTATC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
3205002 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
3205039 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
3205076 TAAAGCTATC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 88 0.88
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:3205092 original size:46 final size:46
Alignment explanation
Indices: 3205039--3205360 Score: 367
Period size: 46 Copynumber: 6.6 Consensus size: 46
3205029 TAAGTGTAGC
* **
3205039 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
3205085 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
3205131 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
3205183 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
3205235 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
**
3205281 CACTTATCACTTTATCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-
1 CACTTATCAC----T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
3205333 CTACTTATCACTTTATCACTTGATCAGA
1 C-ACTTATCACTTTGTCACTTGATCAGA
3205361 AGTACTCAAA
Statistics
Matches: 249, Mismatches: 12, Indels: 30
0.86 0.04 0.10
Matches are distributed among these distances:
46 111 0.45
49 2 0.01
50 2 0.01
51 3 0.01
52 91 0.37
53 40 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:3205158 original size:52 final size:52
Alignment explanation
Indices: 3205082--3205354 Score: 389
Period size: 52 Copynumber: 5.3 Consensus size: 52
3205072 TAGCTAAAGC
* * *
3205082 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
3205135 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
3205187 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
3205239 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
**
3205285 TATCACTTTATCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-CTACT
1 TATCACTTT-TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATC-ACT
3205338 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
3205355 ATCAGAAGTA
Statistics
Matches: 201, Mismatches: 11, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
46 43 0.21
50 1 0.00
52 94 0.47
53 63 0.31
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:3205161 original size:98 final size:97
Alignment explanation
Indices: 3205039--3205301 Score: 338
Period size: 98 Copynumber: 2.7 Consensus size: 97
3205029 TAAGTGTAGC
* ** *
3205039 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACT
3205104 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
3205138 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC--T----TTG
* *
3205203 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
3205242 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTG
3205302 TCACTTGATC
Statistics
Matches: 149, Mismatches: 8, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
92 9 0.06
96 1 0.01
98 86 0.58
99 7 0.05
100 3 0.02
101 1 0.01
104 42 0.28
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:3205298 original size:15 final size:15
Alignment explanation
Indices: 3205278--3205312 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3205268 TAGCCGAAGC
3205278 TATCACTTATCACTT
1 TATCACTTATCACTT
*
3205293 TATCACTTGTCACTT
1 TATCACTTATCACTT
*
3205308 GATCA
1 TATCA
3205313 GATAAGTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (15 bp):
TATCACTTATCACTT
Found at i:3205354 original size:53 final size:53
Alignment explanation
Indices: 3205232--3205354 Score: 187
Period size: 53 Copynumber: 2.3 Consensus size: 53
3205222 TAGCTGAAGC
*
3205232 TATCAC-TTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTATCAC-TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
* *
3205285 TATCACTTTATCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-CTACT
1 TATCACTTTATCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATC-ACT
3205338 TATCACTTTATCACTTG
1 TATCACTTTATCACTTG
3205355 ATCAGAAGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
52 1 0.02
53 57 0.88
54 7 0.11
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (53 bp):
TATCACTTTATCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACT
Found at i:3212857 original size:27 final size:27
Alignment explanation
Indices: 3212819--3212873 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3212809 ATTGCAGGTA
3212819 TAGGTCTTAATTCCACCTGAATTTAAT
1 TAGGTCTTAATTCCACCTGAATTTAAT
3212846 TAGGTCTTAATTCCACCTGAATTTAAT
1 TAGGTCTTAATTCCACCTGAATTTAAT
3212873 T
1 T
3212874 TAAGTGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (27 bp):
TAGGTCTTAATTCCACCTGAATTTAAT
Found at i:3237571 original size:28 final size:28
Alignment explanation
Indices: 3237531--3237586 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
3237521 TGTAAAAGAT
3237531 AGGGTGGAAACGAGACATCATGGAAAAA
1 AGGGTGGAAACGAGACATCATGGAAAAA
3237559 AGGGTGGAAACGAGACATCATGGAAAAA
1 AGGGTGGAAACGAGACATCATGGAAAAA
3237587 CTCTATAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.32, T:0.11
Consensus pattern (28 bp):
AGGGTGGAAACGAGACATCATGGAAAAA
Found at i:3238407 original size:35 final size:35
Alignment explanation
Indices: 3238361--3238430 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
3238351 AGTCATGAGT
3238361 AAGTTCACTTAATTCTAACCTGTAAAATTGTGTTC
1 AAGTTCACTTAATTCTAACCTGTAAAATTGTGTTC
3238396 AAGTTCACTTAATTCTAACCTGTAAAATTGTGTTC
1 AAGTTCACTTAATTCTAACCTGTAAAATTGTGTTC
3238431 CTACTGCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (35 bp):
AAGTTCACTTAATTCTAACCTGTAAAATTGTGTTC
Found at i:3240052 original size:13 final size:12
Alignment explanation
Indices: 3240033--3240071 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
3240023 TGAGTATGTA
3240033 TTTTTTATATAT
1 TTTTTTATATAT
3240045 TATTTTTATA-AT
1 T-TTTTTATATAT
*
3240057 TTTTTCATATAT
1 TTTTTTATATAT
3240069 TTT
1 TTT
3240072 AATGATCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 7 0.29
12 9 0.38
13 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTATATAT
Found at i:3252476 original size:31 final size:31
Alignment explanation
Indices: 3252438--3252497 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
3252428 AGAAAACAAA
3252438 TATTTCATGTTATTTAAGATATTTAATATGG
1 TATTTCATGTTATTTAAGATATTTAATATGG
*
3252469 TATTTCATTTTATTTAAGATATTTAATAT
1 TATTTCATGTTATTTAAGATATTTAATAT
3252498 AAAAGAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
TATTTCATGTTATTTAAGATATTTAATATGG
Found at i:3253795 original size:19 final size:18
Alignment explanation
Indices: 3253771--3253809 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3253761 AACAAGATGC
3253771 AATTTTAAAAGTTATTTAA
1 AATTTTAAAAGTT-TTTAA
* *
3253790 AATTTTTATAGTTTTTAA
1 AATTTTAAAAGTTTTTAA
3253808 AA
1 AA
3253810 GAACCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTTTAAAAGTTTTTAA
Found at i:3254945 original size:32 final size:30
Alignment explanation
Indices: 3254899--3254967 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
3254889 AAGAAGCATT
* * *
3254899 AATTTGACTATTTTTGAAAAGGTTGATGGTCA
1 AATTTAACTATTTTT-AAAA-ATTGAGGGTCA
*
3254931 AATTTAACTTTTTTTAAAAATTGAGGGTCA
1 AATTTAACTATTTTTAAAAATTGAGGGTCA
3254961 AATTTAA
1 AATTTAA
3254968 TTAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 16 0.48
31 4 0.12
32 13 0.39
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (30 bp):
AATTTAACTATTTTTAAAAATTGAGGGTCA
Found at i:3255401 original size:31 final size:30
Alignment explanation
Indices: 3255340--3255402 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
3255330 AGATAATTGG
* *
3255340 GTGATCAAAAAGACAAAATTAAATAATTAA
1 GTGACCAAAAAGACAAAATAAAATAATTAA
*
3255370 GTGACCAAAAA-ATAAAATAAAATATAGTTAA
1 GTGACCAAAAAGACAAAATAAAATA-A-TTAA
3255401 GT
1 GT
3255403 TACTACTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.59, C:0.06, G:0.11, T:0.24
Consensus pattern (30 bp):
GTGACCAAAAAGACAAAATAAAATAATTAA
Found at i:3257448 original size:42 final size:42
Alignment explanation
Indices: 3257384--3257495 Score: 170
Period size: 42 Copynumber: 2.7 Consensus size: 42
3257374 CGTCAGCATC
* * *
3257384 TCGCGCTAACGTAGACGCGATTTCCTGACGCGTACCTTGACA
1 TCGCGCTGACGTGGACGCGATTTCCTGACGCGTACCCTGACA
* *
3257426 TCGCGCTGACGTGGATGTGATTTCCTGACGCGTACCCTGACA
1 TCGCGCTGACGTGGACGCGATTTCCTGACGCGTACCCTGACA
*
3257468 TCGCGCTGACATGGACGCGATTTCCTGA
1 TCGCGCTGACGTGGACGCGATTTCCTGA
3257496 AAAAATGACC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (42 bp):
TCGCGCTGACGTGGACGCGATTTCCTGACGCGTACCCTGACA
Found at i:3257784 original size:6 final size:6
Alignment explanation
Indices: 3257773--3257800 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3257763 GAGGTTAACA
3257773 GCAGTG GCAGTG GCAGTG GCAGTG GCAG
1 GCAGTG GCAGTG GCAGTG GCAGTG GCAG
3257801 GTTCTGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.50, T:0.14
Consensus pattern (6 bp):
GCAGTG
Found at i:3268828 original size:15 final size:15
Alignment explanation
Indices: 3268786--3268821 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3268776 CTATACTCTA
*
3268786 GACCTT-AAAACTTG
1 GACCTTGAAACCTTG
3268800 GACCTTGAAACCTTG
1 GACCTTGAAACCTTG
3268815 GACCTTG
1 GACCTTG
3268822 GACCCTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (15 bp):
GACCTTGAAACCTTG
Found at i:3268834 original size:22 final size:23
Alignment explanation
Indices: 3268796--3268848 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
3268786 GACCTTAAAA
* *
3268796 CTTGGA-CCTTGAAACCTTGGAC
1 CTTGGACCCTTGAAACCTAGAAC
*
3268818 CTTGGACCCTT-ACACCTAGAAC
1 CTTGGACCCTTGAAACCTAGAAC
*
3268840 TTTGGACCC
1 CTTGGACCC
3268849 AAGGTTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (23 bp):
CTTGGACCCTTGAAACCTAGAAC
Found at i:3274925 original size:30 final size:30
Alignment explanation
Indices: 3274889--3274975 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
3274879 TTACGAGGAC
3274889 GTTCAGGAACTTGAGAAGACTCGATATCTT
1 GTTCAGGAACTTGAGAAGACTCGATATCTT
* * *
3274919 GTTCAGG-AGTTTAGGAAGACTGGATATCTT
1 GTTCAGGAACTTGA-GAAGACTCGATATCTT
* *
3274949 GTTCAGGATCTTGGGAAGA-TCCGATAT
1 GTTCAGGAACTTGAGAAGACT-CGATAT
3274976 TTGATTTTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 5 0.11
30 39 0.85
31 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (30 bp):
GTTCAGGAACTTGAGAAGACTCGATATCTT
Found at i:3276570 original size:84 final size:86
Alignment explanation
Indices: 3276428--3276922 Score: 705
Period size: 84 Copynumber: 5.9 Consensus size: 86
3276418 AACTCGCACA
* * * *
3276428 ATGCC-ATATCCCAGATATGGTCTTACATGCT-ATCAT-ATATCGATGCTAATGTCCCAGACATG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-TAATC-TCATATCGATGCCAATGTCCCAGACATG
3276490 GTCTTACACGTAATCTCATATCG
64 GTCTTACACGTAATCTCATATCG
*
3276513 ATGCCAATGTCCCAGACATGATCTTACACG-AA--TCATATACGATGCCAATGTCCCAGACATGG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGACATGG
3276575 TCTTACACGTAATCTCATATCG
65 TCTTACACGTAATCTCATATCG
* * * *
3276597 ATGCCAATGTCCCGGACATGATCTTACAAGTAATCTCATATCAATGCCAATGTCCCAGACATGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
3276662 CTTACACG-AA--TCATATACG
66 CTTACACGTAATCTCATAT-CG
*
3276681 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGGCATGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
3276746 CTTACACG-AA--TCATATACG
66 CTTACACGTAATCTCATAT-CG
* *
3276765 ATGCCAATGTCCCAGACATGGTCTTACACATAATCTCATATCGATGCCAATGTCCTAGACATGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
3276830 CTTACACGTAATCTCATATCG
66 CTTACACGTAATCTCATATCG
* *
3276851 ATGCCAATGTCCTAGACATGGTCTTACACG-AA--TCATATACGATGCCAATGTCTCAGACATGG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGACATGG
3276913 TCTTACACGT
65 TCTTACACGT
3276923 TCGAAATTCT
Statistics
Matches: 378, Mismatches: 20, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
82 1 0.00
83 16 0.04
84 254 0.67
85 14 0.04
86 81 0.21
87 12 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (86 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
CTTACACGTAATCTCATATCG
Found at i:3276665 original size:127 final size:125
Alignment explanation
Indices: 3276428--3276921 Score: 721
Period size: 127 Copynumber: 3.9 Consensus size: 125
3276418 AACTCGCACA
* * * *
3276428 ATGCC-ATATCCCAGATATGGTCTTACATGCT-ATCAT-ATATCGATGCTAATGTCCCAGACATG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-TAATC-TCATATCGATGCCAATGTCCCAGACATG
*
3276490 GTCTTACACGTAATC-TCATATCGATGCCAATGTCCCAGACATGATCTTACACGAATCATATACG
64 GTCTTACACG-AATCAT-ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGAATCATATACG
* *
3276554 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCGGACATGAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
* *
3276619 CTTACAAGTAATC-TCATATCAATGCCAATGTCCCAGACATGGTCTTACACGAATCATATACG
66 CTTACACG-AATCAT-ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGAATCATATACG
*
3276681 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGGCATGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
*
3276746 CTTACACGAATCATATACGATGCCAATGTCCCAGACATGGTCTTACACATAATC-TCATATCG
66 CTTACACGAATCATATACGATGCCAATGTCCCAGACATGGTCTTACAC-GAATCAT-ATA-CG
* *
3276808 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCTAGACATGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
*
3276873 CTTACACGAATCATATACGATGCCAATGTCTCAGACATGGTCTTACACG
66 CTTACACGAATCATATACGATGCCAATGTCCCAGACATGGTCTTACACG
3276922 TTCGAAATTC
Statistics
Matches: 341, Mismatches: 20, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
125 31 0.09
126 21 0.06
127 289 0.85
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (125 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGGT
CTTACACGAATCATATACGATGCCAATGTCCCAGACATGGTCTTACACGAATCATATACG
Done.