Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 10 of 438
Found at i:2889078 original size:15 final size:16
Alignment explanation
Indices: 2889050--2889101 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
2889040 TATTTATTTA
2889050 TTTATTTATTTTTATT
1 TTTATTTATTTTTATT
2889066 TTTATTT-TTTTTATTT
1 TTTATTTATTTTTA-TT
*
2889082 TATTATTCTATTTTAATT
1 T-TTATT-TATTTTTATT
2889100 TT
1 TT
2889102 AACATTAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.19
16 10 0.32
17 6 0.19
18 4 0.13
19 5 0.16
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTATTTTTATT
Found at i:2889082 original size:14 final size:15
Alignment explanation
Indices: 2889038--2889085 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
2889028 GTCCCTTTTC
2889038 TTTATTTA--TTTA-
1 TTTATTTATTTTTAT
2889050 TTTATTTATTTTTATT
1 TTTATTTATTTTTA-T
2889066 TTTATTT-TTTTTAT
1 TTTATTTATTTTTAT
2889080 TTTATT
1 TTTATT
2889086 ATTCTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.25
14 11 0.34
15 6 0.19
16 7 0.22
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTATTTTTAT
Found at i:2889238 original size:3 final size:3
Alignment explanation
Indices: 2889232--2889315 Score: 159
Period size: 3 Copynumber: 27.7 Consensus size: 3
2889222 TAGCTTTTAA
2889232 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2889280 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
2889316 GTGAATATTT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 77 0.96
4 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2889433 original size:3 final size:3
Alignment explanation
Indices: 2889419--2889457 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
2889409 TGTATTTCTA
* *
2889419 TAT TAC TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2889458 ATATAGTAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2889651 original size:12 final size:12
Alignment explanation
Indices: 2889634--2889658 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2889624 GTATTATGTT
2889634 TTTTTAATACCA
1 TTTTTAATACCA
2889646 TTTTTAATACCA
1 TTTTTAATACCA
2889658 T
1 T
2889659 GCATGTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTAATACCA
Found at i:2892322 original size:17 final size:18
Alignment explanation
Indices: 2892300--2892337 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
2892290 GAGAAACTTT
2892300 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
2892317 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
2892335 AAA
1 AAA
2892338 CCTGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:2892885 original size:3 final size:3
Alignment explanation
Indices: 2892877--2892927 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
2892867 ATATATGCAT
2892877 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2892925 ATA
1 ATA
2892928 TCTACAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2893042 original size:37 final size:37
Alignment explanation
Indices: 2892971--2893042 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
2892961 AAAAAAATAT
* *
2892971 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
2893008 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
2893043 TAAAAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:2894649 original size:54 final size:54
Alignment explanation
Indices: 2894582--2894785 Score: 345
Period size: 54 Copynumber: 3.8 Consensus size: 54
2894572 ATATGACCCG
2894582 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
2894636 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * *
2894690 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
2894744 AGGTTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA
2894786 CTTAATTTGA
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
54 134 0.94
55 9 0.06
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:2894882 original size:72 final size:72
Alignment explanation
Indices: 2894806--2895089 Score: 426
Period size: 72 Copynumber: 3.9 Consensus size: 72
2894796 AAAGTTGATT
* **
2894806 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
2894871 ACATAAA
66 ACATAAA
** *
2894878 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
*
2894943 ACAGAAA
66 ACATAAA
* * *
2894950 TTGAAATTACCTCAACGTGTCGTGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGA
2895015 CAAACATAAA
64 -AAACATAAA
* *
2895025 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
2895089 A
66 A
2895090 AGTAAAAATT
Statistics
Matches: 195, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
71 3 0.02
72 126 0.65
74 6 0.03
75 60 0.31
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (72 bp):
TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
ACATAAA
Found at i:2895071 original size:147 final size:143
Alignment explanation
Indices: 2894806--2895089 Score: 433
Period size: 147 Copynumber: 2.0 Consensus size: 143
2894796 AAAGTTGATT
* **
2894806 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
* **
2894871 ACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAAT
66 ACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-AAT
2894936 TTTGAAAACAGAAA
130 TTTGAAAACAGAAA
* * *
2894950 TTGAAATTACCTCAACGTGTCGTGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGA
* *
2895015 CAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
64 -AAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
2895080 ATTTTGAAAA
128 ATTTTGAAAA
2895090 AGTAAAAATT
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
144 51 0.40
146 16 0.13
147 59 0.47
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (143 bp):
TTGAAAATACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
ACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
TTGAAAACAGAAA
Found at i:2895179 original size:273 final size:275
Alignment explanation
Indices: 2894834--2895861 Score: 821
Period size: 273 Copynumber: 3.7 Consensus size: 275
2894824 GTCTTGAGGC
** * *
2894834 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACATAAATTGAAATTACCTCAACGTGT
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
* ** *
2894898 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTGAAAACAGAAATTGAAATTACCTC
65 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAATTTTGAAAACAGAAATTGAAAATACCTC
* * *
2894963 AACGTGTCGTGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTG
130 AACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACATAAATTG
2895028 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AA-AAA
194 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACAAA
2895091 GTAAAAATTAA-AAGGT
259 GTAAAAATTAACAAGGT
*
2895107 TCAACCCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
* * * *
2895172 CTGAGGCTCAACTCATCTCTCGCAATATGAGTT-GATTTTGATAA-AG---TAG-AAAT---T-A
66 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAATTTTGAAAACAGAAATTGAAAATACCTCA
* * * * * *
2895227 A--------AAGGTTCAACCCACCTCTCACAATATGAGTTGA-TTCTTGACAAACAGAAATTGAA
131 ACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTGAA
*
2895283 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAACATAAA
196 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAC--AAA
* * * *
2895348 CTAAAAACAAACCTCAGCATGCCCCGAGGC
259 GT---AA-AAA--TTA--A-----CAAGGT
* ** *
2895378 TCAACTCACTTCTCGCAATATGAGTTGATTTT-AGGAA-AGTAA---AAATTA----A-------
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
* * * * * *
2895427 --AAGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCA
66 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAATTTTGAAAACAGAAATTGAAAATACCTCA
* *
2895487 GCGTGCCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGACAAACATAAAT
131 ACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGACAAACATAAAT
*
2895552 TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAA
192 TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTG-A
* *
2895617 AAGCAGAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGC
253 AA-CA-AAGTAAAAATT----A-A---CA----------AGGT
* *
2895660 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTGACAAACAGAAATTGAAATTACCTCAGCGT
** *
2895725 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAAAATTGAAAA
63 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-AATTTTGAAAA-C-AGAAATTGAAAA
* * * *
2895790 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTTTTGAAAAACATA
124 TACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATA
2895855 AATTGAA
189 AATTGAA
2895862 GAAAACAGAA
Statistics
Matches: 596, Mismatches: 69, Indels: 147
0.73 0.08 0.18
Matches are distributed among these distances:
251 3 0.01
252 5 0.01
253 102 0.17
254 2 0.00
255 28 0.05
256 4 0.01
257 4 0.01
259 1 0.00
260 3 0.01
261 3 0.01
262 1 0.00
263 4 0.01
264 1 0.00
265 1 0.00
266 6 0.01
267 3 0.01
268 32 0.05
269 4 0.01
270 3 0.01
271 36 0.06
272 19 0.03
273 155 0.26
274 3 0.01
275 1 0.00
276 6 0.01
277 5 0.01
278 1 0.00
282 30 0.05
285 4 0.01
286 3 0.01
287 3 0.01
290 6 0.01
294 1 0.00
303 27 0.05
304 1 0.00
306 22 0.04
307 3 0.01
308 4 0.01
309 1 0.00
310 55 0.09
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (275 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAATTTTGAAAACAGAAATTGAAAATACCTCA
ACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTGAA
ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACAAAGT
AAAAATTAACAAGGT
Found at i:2895338 original size:127 final size:126
Alignment explanation
Indices: 2894984--2895341 Score: 626
Period size: 126 Copynumber: 2.8 Consensus size: 126
2894974 AGGCTCATCT
*
2894984 CACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTG
1 CACCTCTCGCAATATGAGTTGA---TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
2895049 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACC
63 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACC
2895113 CACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
1 CACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
* * *
2895178 CTCAACTCATCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGTTCAACC
66 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACC
*
2895239 CACCTCTCACAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
1 CACCTCTCGCAATATGAGTTGATT-TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
*
2895304 GCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAA
65 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA
2895342 CATAAACTAA
Statistics
Matches: 220, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
126 123 0.56
127 75 0.34
129 22 0.10
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (126 bp):
CACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACC
Found at i:2895379 original size:199 final size:194
Alignment explanation
Indices: 2895107--2895610 Score: 539
Period size: 199 Copynumber: 2.5 Consensus size: 194
2895097 ATTAAAAGGT
* ** ** * *
2895107 TCAACCCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGA-AAACAGAAATAAAAAAAACCTCAGCATGCC
* * *
2895172 CTGAGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT-GATAAAGTAGAAATTAAAAGG-TT
65 CCGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTTAG-GAAAGTAAAAATTAAAAGGCTT
* * * * * *
2895234 CAACCCACCTCTCACAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
128 -AACCCACCTCTCACAATATGAG-TCAAT-TT-A-AAACAGAAACTAAAAATACCTCAGCGTGCC
2895299 CTGAGGC
188 CTGAGGC
* *
2895306 TCAACTCACCTTTCGCAATATGAGTTGATTTTG-AAACATAAACTAAAAACAAACCTCAGCATGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAA-TAAAAA-AAACCTCAGCATGC
2895370 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGGAAAGTAAAAATTAAAAGGCTTA
64 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGGAAAGTAAAAATTAAAAGGCTTA
* * *
2895435 ACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGCCCTGAGG
129 ACCCACCTCTCACAATATGAGTCAATTTAAAACAGAAACTAAAAATACCTCAGCGTGCCCTGAGG
*
2895500 T
194 C
* ** **
2895501 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGACAAACATAAATTGAAATTACCTCAG
1 TCAACTCACCTCTCGCAATATGAGTTGA------TTTTGA-AAACAGAAATAAAAAAAACCTCAG
* * * * *
2895566 CGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
59 CATGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
2895611 TTTGAAAAGC
Statistics
Matches: 260, Mismatches: 32, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
195 58 0.22
196 1 0.00
197 10 0.04
198 7 0.03
199 115 0.44
200 4 0.02
201 52 0.20
202 4 0.02
203 9 0.03
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (194 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATAAAAAAAACCTCAGCATGCCC
CGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGGAAAGTAAAAATTAAAAGGCTTAAC
CCACCTCTCACAATATGAGTCAATTTAAAACAGAAACTAAAAATACCTCAGCGTGCCCTGAGGC
Found at i:2895524 original size:123 final size:126
Alignment explanation
Indices: 2895302--2895532 Score: 351
Period size: 123 Copynumber: 1.9 Consensus size: 126
2895292 GCGTGTCCTG
* * * *
2895302 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAACATAAACTAAAAACAAACCTCAGCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAACATAAACTAAAAACAAACCTCAGCA
*
2895367 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGGAAAGTAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGGAAAGTAAAAATTAAA
* * *
2895428 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACT-AAAA-ATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAACATAAACTAAAAACAAACCTCAGCA
* *
2895490 TGCCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTT
66 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2895533 TTTTTTGACA
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
123 49 0.52
124 4 0.04
125 16 0.17
126 26 0.27
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAACATAAACTAAAAACAAACCTCAGCA
TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGGAAAGTAAAAATTAAA
Found at i:2895752 original size:75 final size:75
Alignment explanation
Indices: 2895428--2895861 Score: 560
Period size: 75 Copynumber: 5.7 Consensus size: 75
2895418 AAAAATTAAA
* * * * *
2895428 AGGCTTAACTCACCTCTCGCAATATGAG-TCA---ATTT-A-AAACATAAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAATACCTCA
2895487 GCGTGCCCTG
66 GCGTGCCCTG
* *
2895497 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGACAAACATAAATTGAAATTACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGACAAACATAAATTGAAAATACC
*
2895562 TCAGCGTGTCCTG
63 TCAGCGTGCCCTG
* *
2895575 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAGCAGAAGCAAAAATTGAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG---A-CA-AA-CATAAATTGAAAAT
2895640 ACCTCAGCGTGCCCTG
60 ACCTCAGCGTGCCCTG
* *
2895656 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGACAAACATAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAATACCTCA
*
2895721 GCGTGTCCTG
66 GCGTGCCCTG
*
2895731 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAAGCAAAAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAA-C-ATAAATTGAAAATACCT
2895795 CAGCGTGCCCTG
64 CAGCGTGCCCTG
* * *
2895807 AGGCTCAACTCACCTCTCGCAATATAAGCTGA-TTTTTTGAAAAACATAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAA
2895862 GAAAACAGAA
Statistics
Matches: 322, Mismatches: 25, Indels: 31
0.85 0.07 0.08
Matches are distributed among these distances:
69 26 0.08
70 2 0.01
74 12 0.04
75 85 0.26
76 64 0.20
77 3 0.01
78 61 0.19
79 2 0.01
80 2 0.01
81 65 0.20
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAATACCTCA
GCGTGCCCTG
Found at i:2895763 original size:156 final size:152
Alignment explanation
Indices: 2895476--2896168 Score: 799
Period size: 156 Copynumber: 4.4 Consensus size: 152
2895466 ACATAAACTA
*
2895476 AAAATACCTCAGCGTGCCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGA
*
2895541 CAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
63 CAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
2895606 ATTTTTTTGAAAAGCAGAAGCAAAAATTG
128 A--TTTTTGAAAAGCA-AA-CAAAAATTG
*
2895635 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGACAA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA
2895700 ACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
66 ACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
2895765 TTTTTGAAAAGC--A-AAAAATTG
129 TTTTTGAAAAGCAAACAAAAATTG
* *
2895786 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTTTTGAAAAA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT------
* * * *
2895851 CATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATATCCTGAGGCTCAACTCACCTCTCG
58 --T---TTG-A-CAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
*
2895916 CAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACGGAAATTG
116 CAATATGAGTTGATTTTTGAAAAGC----A---AACAA---AAATTG
* *
2895963 AAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGA-AA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA
* * * * * ** *
2896027 AGCATGAATTGAAAATACCTCAACGTGTCTTGAGGCTCGACTCATTTCTCGCAATATGAGTTGAG
66 A-CATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
2896092 TTTTG---A-CAAACAGAAATTG
130 TTTTGAAAAGCAAACAAAAATTG
* * *
2896111 AAATTACCTCAACATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
2896169 GAAAACAGAA
Statistics
Matches: 475, Mismatches: 30, Indels: 69
0.83 0.05 0.12
Matches are distributed among these distances:
148 59 0.12
151 63 0.13
153 5 0.01
154 1 0.00
156 88 0.19
158 1 0.00
159 52 0.11
161 4 0.01
162 57 0.12
163 1 0.00
164 18 0.04
165 1 0.00
166 62 0.13
167 1 0.00
173 1 0.00
174 2 0.00
175 4 0.01
177 55 0.12
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (152 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA
ACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGAAAAGCAAACAAAAATTG
Found at i:2895868 original size:16 final size:16
Alignment explanation
Indices: 2895847--2895877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2895837 GATTTTTTGA
*
2895847 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
2895863 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
2895878 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:2895901 original size:166 final size:173
Alignment explanation
Indices: 2895698--2896039 Score: 482
Period size: 166 Copynumber: 2.0 Consensus size: 173
2895688 TTTTTTTGAC
* * *
2895698 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCATATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
** *
2895763 TTTTT-TTG-A-AAA-G-CAAA-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT
66 TTTTTAAAGCATAAATGAAAAAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT
2895822 CTCGCAATATAAGCTGA-TTTTTTGAAAAACATAAATTGAAGA
131 CTCGCAATATAAGCTGATTTTTTTGAAAAACATAAATTGAAGA
2895864 AAACAGAAATTGAAATTACCTCAGCATATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCATATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
2895929 TTTTTGAAAAGCATAAATTGAAAAACGGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACT
66 TTTTT--AAAGCATAAA-TGAAAAA--GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACT
* * * * *
2895994 CACCTCTCGTAATATGAGTTGATTTTTTTGAAAAGCATGAATTGAA
126 CACCTCTCGCAATATAAGCTGATTTTTTTGAAAAACATAAATTGAA
2896040 AATACCTCAA
Statistics
Matches: 152, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
166 67 0.44
169 1 0.01
170 1 0.01
171 3 0.02
173 1 0.01
174 3 0.02
177 55 0.36
178 21 0.14
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (173 bp):
AAACAGAAATTGAAATTACCTCAGCATATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTAAAGCATAAATGAAAAAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT
CTCGCAATATAAGCTGATTTTTTTGAAAAACATAAATTGAAGA
Found at i:2895933 original size:90 final size:89
Alignment explanation
Indices: 2895780--2896041 Score: 393
Period size: 87 Copynumber: 2.9 Consensus size: 89
2895770 GAAAAGCAAA
* *
2895780 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
2895845 GAAAAACATAAATTGAAGAAAACAG
66 GAAAAGCATAAATTGAA-AAAACAG
* * **
2895870 AAATTGAAATTACCTCAGCATATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
2895934 GAAAAGCATAAATTG-AAAAACGG
66 GAAAAGCATAAATTGAAAAAACAG
* *
2895957 AAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
2896022 TGAAAAGCATGAATTGAAAA
65 TGAAAAGCATAAATTGAAAA
2896042 TACCTCAACG
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
87 59 0.38
88 1 0.01
89 38 0.25
90 56 0.36
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAGCATAAATTGAAAAAACAG
Found at i:2896136 original size:73 final size:72
Alignment explanation
Indices: 2895950--2896180 Score: 302
Period size: 73 Copynumber: 3.2 Consensus size: 72
2895940 CATAAATTGA
* ** *
2895950 AAAACGGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
2896015 ATTTTTTTG
66 A--TTTTTG
* * * **
2896024 AAAAGCATG-AATTGAAAATACCTCAACGTGTCTTGAGGCTCGACTCATTTCTCGCAATATGAGT
1 AAAA-CA-GAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
2896088 TGAGTTTTG
64 TGATTTTTG
* *
2896097 ACAAACAGAAATTGAAATTACCTCAACATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
2896162 GATTTTTG
65 GATTTTTG
2896170 AAAACAGAAAT
1 AAAACAGAAAT
2896181 AAAACATCAA
Statistics
Matches: 135, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
72 11 0.08
73 65 0.48
74 7 0.05
75 51 0.38
76 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:2898331 original size:12 final size:11
Alignment explanation
Indices: 2898308--2898354 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
2898298 ATTTGATTTC
2898308 TTTT-TTGTTT
1 TTTTCTTGTTT
2898318 TTTTCTTGTCTT
1 TTTTCTTGT-TT
2898330 TTTTCTT-TTT
1 TTTTCTTGTTT
2898340 GTTTT-TTGTTT
1 -TTTTCTTGTTT
2898351 TTTT
1 TTTT
2898355 TTCTTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 12 0.36
11 12 0.36
12 9 0.27
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (11 bp):
TTTTCTTGTTT
Found at i:2898333 original size:13 final size:12
Alignment explanation
Indices: 2898315--2898368 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
2898305 TTCTTTTTTG
2898315 TTTTTTTCTTGT
1 TTTTTTTCTTGT
*
2898327 CTTTTTTCTT-T
1 TTTTTTTCTTGT
*
2898338 TTGTTTT-TTGTT
1 TTTTTTTCTTG-T
2898350 TTTTTTTCTT-T
1 TTTTTTTCTTGT
*
2898361 TTATTTTC
1 TTTTTTTC
2898369 ATGACTGTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 14 0.41
12 16 0.47
13 2 0.06
ACGTcount: A:0.02, C:0.09, G:0.06, T:0.83
Consensus pattern (12 bp):
TTTTTTTCTTGT
Found at i:2901974 original size:17 final size:18
Alignment explanation
Indices: 2901952--2901989 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
2901942 GAGAAACTTT
2901952 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
2901969 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
2901987 AAA
1 AAA
2901990 CCTGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:2902539 original size:3 final size:3
Alignment explanation
Indices: 2902531--2902578 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
2902521 ATATATGCAT
2902531 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2902579 TCTACAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2902695 original size:37 final size:37
Alignment explanation
Indices: 2902624--2902695 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
2902614 AAAAATGTAT
* *
2902624 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
2902661 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
2902696 TAAAAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:2903250 original size:2 final size:2
Alignment explanation
Indices: 2903206--2903239 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2903196 TTTCTTAATA
2903206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2903240 GTGTGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2904480 original size:43 final size:43
Alignment explanation
Indices: 2904331--2904472 Score: 198
Period size: 43 Copynumber: 3.3 Consensus size: 43
2904321 TTATTTCAAA
* * * *
2904331 AAACGCCGCTAAAGACCATGACTTTTAGCGGCG--TTTGTGAGA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCA-C
* *
2904373 AAAGCGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCGC
1 AAA-CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
2904417 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
2904460 AAACGCCGCTAAA
1 AAACGCCGCTAAA
2904473 AATCATGAAC
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
42 3 0.03
43 80 0.90
44 3 0.03
45 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
Found at i:2907615 original size:23 final size:23
Alignment explanation
Indices: 2907588--2907633 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2907578 TTTTTAAATG
2907588 CCACCTAATCCGATTTAACAGAT
1 CCACCTAATCCGATTTAACAGAT
2907611 CCACCTAATCCGATTTAACAGAT
1 CCACCTAATCCGATTTAACAGAT
2907634 GTTCTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (23 bp):
CCACCTAATCCGATTTAACAGAT
Found at i:2908747 original size:40 final size:41
Alignment explanation
Indices: 2908703--2908799 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
2908693 GTGAAATGAT
* *
2908703 TTTTTTGTGGCGTTTTT-ATTAAAAATGCTGTTATTGTTAG
1 TTTTTTGTGGCGTTTTTGATTAAAAACGCTGTTATTGTTAA
* *
2908743 TTTTTTGTGGCGTTTTTGGTTAAAAACGTTGTTATTGTTAA
1 TTTTTTGTGGCGTTTTTGATTAAAAACGCTGTTATTGTTAA
2908784 TTTTTTGTGGCGTTTT
1 TTTTTTGTGGCGTTTT
2908800 ACAAATTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 17 0.33
41 35 0.67
ACGTcount: A:0.16, C:0.05, G:0.22, T:0.57
Consensus pattern (41 bp):
TTTTTTGTGGCGTTTTTGATTAAAAACGCTGTTATTGTTAA
Found at i:2909638 original size:8 final size:7
Alignment explanation
Indices: 2909567--2909704 Score: 64
Period size: 7 Copynumber: 19.1 Consensus size: 7
2909557 ACTAATTAAT
2909567 CTAAACC
1 CTAAACC
2909574 CTAAATCC
1 CTAAA-CC
*
2909582 CT-GACC
1 CTAAACC
*
2909588 TCTAACCC
1 -CTAAACC
2909596 CTAAACC
1 CTAAACC
* *
2909603 TTAAATC
1 CTAAACC
* *
2909610 ATAAAAC
1 CTAAACC
*
2909617 ATAAACC
1 CTAAACC
*
2909624 CTTAACCC
1 C-TAAACC
2909632 CTAAACC
1 CTAAACC
*
2909639 TTAAACC
1 CTAAACC
* *
2909646 CCAATCCC
1 CTAA-ACC
*
2909654 TCTAAAAC
1 -CTAAACC
*
2909662 TTAAACC
1 CTAAACC
2909669 CT-AACC
1 CTAAACC
*
2909675 CTTAACC
1 CTAAACC
2909682 CATAAACC
1 C-TAAACC
* *
2909690 ATAATCC
1 CTAAACC
2909697 CTAAACC
1 CTAAACC
2909704 C
1 C
2909705 ATAATCTATA
Statistics
Matches: 96, Mismatches: 27, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
6 8 0.08
7 65 0.68
8 20 0.21
9 3 0.03
ACGTcount: A:0.40, C:0.38, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:2909689 original size:44 final size:45
Alignment explanation
Indices: 2909611--2909698 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 45
2909601 CCTTAAATCA
* *
2909611 TAAAACATAAACCCTTAACCCCTAAACCTTAAACCCCAATCCCTC
1 TAAAACATAAACCCTTAACCCCTAAACCATAAACCACAATCCCTC
* * * *
2909656 TAAAACTTAAACCC-TAACCCTTAACCCATAAACCATAATCCCT
1 TAAAACATAAACCCTTAACCCCTAAACCATAAACCACAATCCCT
2909699 AAACCCATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 24 0.65
45 13 0.35
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (45 bp):
TAAAACATAAACCCTTAACCCCTAAACCATAAACCACAATCCCTC
Found at i:2909715 original size:22 final size:22
Alignment explanation
Indices: 2909663--2909708 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2909653 CTCTAAAACT
* *
2909663 TAAACCCTAA-CCCTTAACCCA
1 TAAACCATAATCCCTAAACCCA
2909684 TAAACCATAATCCCTAAACCCA
1 TAAACCATAATCCCTAAACCCA
2909706 TAA
1 TAA
2909709 TCTATAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCATAATCCCTAAACCCA
Found at i:2910213 original size:25 final size:25
Alignment explanation
Indices: 2910185--2910233 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
2910175 CGCCGCTAAA
2910185 ACCTCGATCTATAGCGGCGTTTTTG
1 ACCTCGATCTATAGCGGCGTTTTTG
* *
2910210 ACCTTGATCTATGGCGGCGTTTTT
1 ACCTCGATCTATAGCGGCGTTTTT
2910234 TCAAAAGCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.39
Consensus pattern (25 bp):
ACCTCGATCTATAGCGGCGTTTTTG
Found at i:2910369 original size:81 final size:82
Alignment explanation
Indices: 2910210--2910407 Score: 256
Period size: 81 Copynumber: 2.4 Consensus size: 82
2910200 GGCGTTTTTG
* * * * *
2910210 ACCTTGATCTATGGCGGCGTTTTTTCAAAAGCGCCACTAAAACCTCGATCTATAGCGGCGTTTTC
1 ACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCACTAAAAACTCGAGCTACAGCGGCGTTTTC
*
2910275 CCAAAAGCGCCGCTAAA
66 CAAAAAGCGCCGCTAAA
* * *
2910292 ACCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCTACTAAAAACT-GAGC-ACCAGCGGCGTTTT
1 ACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCACTAAAAACTCGAGCTA-CAGCGGCGTTTT
*
2910355 TCAAAAAGCGCCGCTAAA
65 CCAAAAAGCGCCGCTAAA
* * *
2910373 AGCTCGACCTATAGCGGCGTTTTTTTAAAAGCGCC
1 ACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCC
2910408 GCTATTGTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 59 0.60
82 39 0.39
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (82 bp):
ACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCACTAAAAACTCGAGCTACAGCGGCGTTTTC
CAAAAAGCGCCGCTAAA
Found at i:2910408 original size:41 final size:41
Alignment explanation
Indices: 2910210--2910411 Score: 237
Period size: 41 Copynumber: 5.0 Consensus size: 41
2910200 GGCGTTTTTG
* * * *
2910210 ACCTTGATCTATGGCGGCGTTTTTTCAAAAGCGCCACTAAA
1 ACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAA
*
2910251 ACCTCGATCTATAGCGGCGTTTTCCCAAAAGCGCCGCTAAA
1 ACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAA
* **
2910292 ACCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCTACTAAA
1 ACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAA
* * * *
2910333 AACT-GAGC-ACCAGCGGCGTTTTTCAAAAAGCGCCGCTAAA
1 ACCTCGATCTA-TAGCGGCGTTTTTCCAAAAGCGCCGCTAAA
* * **
2910373 AGCTCGACCTATAGCGGCGTTTTTTTAAAAGCGCCGCTA
1 ACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTA
2910412 TTGTTCAGTT
Statistics
Matches: 137, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 31 0.23
41 104 0.76
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
ACCTCGATCTATAGCGGCGTTTTTCCAAAAGCGCCGCTAAA
Found at i:2910429 original size:81 final size:82
Alignment explanation
Indices: 2910344--2910517 Score: 183
Period size: 82 Copynumber: 2.1 Consensus size: 82
2910334 ACTGAGCACC
* ** *
2910344 AGCGGCGTTTTT-C-AAAAAGCGCCGCTAAAAGCTCGACCTATAGCGGCGTTT-TTTTAAAAGCG
1 AGCGGCGTTTTTACTAAAAA-CGCCACTAAAA-CTCGACCTATAGCGGCGTTTGGATCAAAAGCG
*
2910406 CCGCTATTGTTCAGTTTTT
64 CCGCTATTGCTCAGTTTTT
* * ** * ** *
2910425 AGCGGTGTTTTTACTGAAAACGCCACTATTACTCTATTTTTAGCGGCGTTTGGATCAAAAGCGCC
1 AGCGGCGTTTTTACTAAAAACGCCACTAAAACTCGACCTATAGCGGCGTTTGGATCAAAAGCGCC
2910490 GCTATTGCTCAGTTTTT
66 GCTATTGCTCAGTTTTT
*
2910507 TGCGGCGTTTT
1 AGCGGCGTTTT
2910518 ATTGCAAACG
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
81 27 0.36
82 44 0.59
83 4 0.05
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (82 bp):
AGCGGCGTTTTTACTAAAAACGCCACTAAAACTCGACCTATAGCGGCGTTTGGATCAAAAGCGCC
GCTATTGCTCAGTTTTT
Found at i:2910495 original size:41 final size:42
Alignment explanation
Indices: 2910399--2910516 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 42
2910389 GCGTTTTTTT
* * ** *
2910399 AAAAGCGCCGCTATTGTTCAGTTTTTAGCGGTGTTTTTACTG
1 AAAAGCGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGACTC
* *
2910441 AAAA-CGCCACTATTACTCTA-TTTTTAGCGGCGTTTGGA-TC
1 AAAAGCGCCGCTATTGCTC-AGTTTTTAGCGGCGTTTGGACTC
*
2910481 AAAAGCGCCGCTATTGCTCAGTTTTTTGCGGCGTTT
1 AAAAGCGCCGCTATTGCTCAGTTTTTAGCGGCGTTT
2910517 TATTGCAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 6 0.10
41 52 0.83
42 5 0.08
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (42 bp):
AAAAGCGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGACTC
Found at i:2915448 original size:31 final size:31
Alignment explanation
Indices: 2915413--2915485 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
2915403 ACCCAGCTTC
*
2915413 AAAAAGTTATTAAATG-AGCAA-TAAATTATTT
1 AAAAA-TT-TTAAATGAAGCAACTAAACTATTT
* *
2915444 AAAAATTTTCATTGAAGCAACTAAACTATTT
1 AAAAATTTTAAATGAAGCAACTAAACTATTT
2915475 AAAAGATTTTA
1 AAAA-ATTTTA
2915486 TTTAATTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 5 0.14
30 7 0.20
31 18 0.51
32 5 0.14
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (31 bp):
AAAAATTTTAAATGAAGCAACTAAACTATTT
Found at i:2921144 original size:37 final size:38
Alignment explanation
Indices: 2921014--2921160 Score: 190
Period size: 38 Copynumber: 3.9 Consensus size: 38
2921004 ATAAAGTATG
* * *
2921014 GTTTTAATTAATAATAAAACAAAATGGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGAAGTA
*
2921053 GTTTTAATTAACAATAAAACAAAATA-TATGGGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCAT-GGGAAGTA
*
2921091 GTTTTAATTAACAATAAAACAAAATAGCATGGG-AGTG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGAAGTA
* * *
2921128 GTTTTGATTAATAATAAAACAAAGTAGCATGGG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGG
2921161 GGGAGTGGAA
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
37 33 0.33
38 39 0.39
39 27 0.27
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGAAGTA
Found at i:2921526 original size:19 final size:19
Alignment explanation
Indices: 2921502--2921543 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
2921492 AATAAACATG
2921502 TTTCTACATATTATTTTGA
1 TTTCTACATATTATTTTGA
2921521 TTTCTACATATTATTTTGA
1 TTTCTACATATTATTTTGA
2921540 TTTC
1 TTTC
2921544 ATACTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTCTACATATTATTTTGA
Found at i:2921714 original size:13 final size:13
Alignment explanation
Indices: 2921698--2921756 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
2921688 TACCATGTAA
2921698 ATATTTTAATATT
1 ATATTTTAATATT
* *
2921711 ATATTAT-GTA-T
1 ATATTTTAATATT
*
2921722 ACATTTTATATATAT
1 ATATTTTA-ATAT-T
2921737 ATATTTTAATATT
1 ATATTTTAATATT
*
2921750 GTATTTT
1 ATATTTT
2921757 TATTGTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
11 6 0.17
12 2 0.06
13 15 0.43
14 4 0.11
15 8 0.23
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (13 bp):
ATATTTTAATATT
Found at i:2921719 original size:24 final size:26
Alignment explanation
Indices: 2921692--2921741 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
2921682 TGTATATACC
*
2921692 ATGTAAATATTTTA-ATAT-TATATT
1 ATGTAAACATTTTATATATATATATT
*
2921716 ATGTATACATTTTATATATATATATT
1 ATGTAAACATTTTATATATATATATT
2921742 TTAATATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 4 0.18
26 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
ATGTAAACATTTTATATATATATATT
Found at i:2925658 original size:15 final size:15
Alignment explanation
Indices: 2925638--2925668 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2925628 TTTACTTTCC
2925638 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
2925653 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
2925668 A
1 A
2925669 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:2934329 original size:419 final size:413
Alignment explanation
Indices: 2933525--2934705 Score: 1646
Period size: 419 Copynumber: 2.8 Consensus size: 413
2933515 CTTCATCGGG
* * ** * * * * *
2933525 GCAGATCTAAGATGACAGATCTTATCTCTCTATATTCGGTGGGGAGTATATCGAAGATATAGTTA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGATATAGCTG
*
2933590 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGCCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACG-GTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
2933655 GAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTGACCTTCA
130 GAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCA
*
2933720 GATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATC-CT-TGTGTT-TACAAGGAACAAATC
195 GATGTTTATGCTGAAGC-GATCCAAGATGGTTT---ATCTCTCTGTATTCTACAAGGAACAAATC
* * *
2933782 GAAGACATAGCTAATTTGGCTTTCACGTATTTAT-GTTGCAA-CAAATCTAAGATGATTTGTCGT
256 GAAGATATAGCTGATTTGGCTTTCACGTGTTT-TCGTTG-AAGCAAATCTAAGATGATTTGTCGT
2933845 CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAG
319 CTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAG
* *
2933910 CAGATCTTGCCTTCAGATATTTACGCTGAA
384 CAGATCTTACCCTCAGATATTTACGCTGAA
2933940 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGATATAGCTG
*
2934005 ATTTGGCTTTCACGGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAG
66 ATTTGGCTTTCACGGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
* * * *
2934070 AACAAATCAAAGTCTGGCAT-TTCCACCTTGATGGA-AGGCAGACACATAGCAGATCTCACCCTC
131 AACGAATCAAAGTTTGGCATCTT-CACTTTGATGGAGA-GCAGACACATAGCAGATCTCACCTTC
* ** * *
2934133 AGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAG
194 AGATGTTTATGCTGAAGC-GATCCAAGATG---G-T-TTATCTCTCTGTATTCTACAAGGAACAA
*
2934198 ATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCG
253 ATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTTCGTTGAAGCAAATCTAAGATGATTTGTCG
* * *
2934263 TCTCTGTATTGTCAGAAAACAAATCGAAGTCTGGTATTTCCACTTTGATGGAAGGTAGACACATA
318 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATA
*
2934328 GCAGATCTTACCCTCAGATGTTTACGCTGAA
383 GCAGATCTTACCCTCAGATATTTACGCTGAA
** *
2934359 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGAAAACAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGATATAGCTG
* *
2934424 ATTTGGCTTTCACATGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCAC-GGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
2934489 GAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTCG
130 GAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCA
** * *
2934554 GATGTTTATGCTGAAGCGAATCCAAGATGGTTTGGCATC-CT-TATGCTTACAAGGAGCAAATCG
195 GATGTTTATGCTGAAGCG-ATCCAAGATGGTTTATC-TCTCTGTATTC-TACAAGGAACAAATCG
* * * * * *
2934617 -A-ATCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCT
257 AAGAT-ATAGCTGATTTGGCTTTCACGTGTTTTCGTTGAAGCAAATCTAAGATGATTTGTCGTCT
*
2934680 CTGTATTGTCAGGGAACAAATCGAAG
321 CTGTATTGTCAGAGAACAAATCGAAG
2934706 AAGCAGATTT
Statistics
Matches: 683, Mismatches: 64, Indels: 39
0.87 0.08 0.05
Matches are distributed among these distances:
413 5 0.01
414 210 0.31
415 86 0.13
416 6 0.01
417 4 0.01
418 9 0.01
419 232 0.34
420 128 0.19
421 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (413 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGATATAGCTG
ATTTGGCTTTCACGGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
AACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCAG
ATGTTTATGCTGAAGCGATCCAAGATGGTTTATCTCTCTGTATTCTACAAGGAACAAATCGAAGA
TATAGCTGATTTGGCTTTCACGTGTTTTCGTTGAAGCAAATCTAAGATGATTTGTCGTCTCTGTA
TTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCT
TACCCTCAGATATTTACGCTGAA
Found at i:2934334 original size:210 final size:210
Alignment explanation
Indices: 2933525--2934705 Score: 1492
Period size: 210 Copynumber: 5.7 Consensus size: 210
2933515 CTTCATCGGG
* * ** ** * * *
2933525 GCAGATCTAAGATGACAGATCTTATCTCTCTATATTCGGTGGGGAGTATATCGAAGATATAGTTA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
*
2933590 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGCCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
2933655 GAACGAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTCACCTT
*
2933718 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* * ** * * *
2933735 GCGGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTT-TACAAGGAACAAATCGAAGACATAG
1 GCAGATCCAAGATGACAGATCTT---ATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAG
* * * *
2933792 CTAATTTGGCTTTCACGTATTTATGTTGCAA-CAAATCTAAGATGATTTGTCGTCTCTGTATTGT
63 CTGATTTGGCTTTCACGTGTTTACGATG-AAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGT
**
2933856 CAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTGCC
127 CAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACC
*
2933921 TTCAGATATTTACGCTGAA
192 TTCAGATGTTTACGCTGAA
* *
2933940 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
*
2934005 ATTTGGCTTTCACG-GTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
2934069 GAACAAATCAAAGTCTGGCATTTCCACCTTGATGGAAGGCAGACACATAGCAGATCTCACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
2934134 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
2934149 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
*
2934214 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * *
2934279 AAACAAATCGAAGTCTGGTATTTCCACTTTGATGGAAGGTAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
2934344 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
** *
2934359 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGAAAACAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
* *
2934424 ATTTGGCTTTCACATGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * *
2934489 GAACGAATCAAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTCGCCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTCACCTT
* *
2934552 CGGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
** * ** * * *
2934569 GC-GAATCCAAGATG---G-T-TTGGCATC-CT-TATGCTTACAAGGAGCAAATCG-A-ATCATA
1 GCAG-ATCCAAGATGACAGATCTTATC-TCTCTGTATTC-GGCAGGGAACAGATCGAAGAT-ATA
* * * * * *
2934624 GTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
62 GCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGT
*
2934689 CAGGGAACAAATCGAAG
127 CAGAGAACAAATCGAAG
2934706 AAGCAGATTT
Statistics
Matches: 858, Mismatches: 91, Indels: 50
0.86 0.09 0.05
Matches are distributed among these distances:
203 2 0.00
204 81 0.09
205 172 0.20
206 12 0.01
207 7 0.01
208 8 0.01
209 203 0.24
210 371 0.43
211 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACGCTGAA
Found at i:2934865 original size:45 final size:45
Alignment explanation
Indices: 2934799--2934884 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
2934789 GAAGAAGCAA
* * *
2934799 ATTTGGCGTCTCTGTATTAGACGGGGATCAGATCATAGATAATAG
1 ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATAATAG
* *
2934844 ATTTGGTGTCTCTGTAGTAGACGGGGGGCAGATCAAAGATA
1 ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATA
2934885 GCAGATATCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATAATAG
Found at i:2936070 original size:18 final size:19
Alignment explanation
Indices: 2936047--2936083 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
2936037 TTTTTTTGTT
2936047 GTTTTTTTT-TAAAAAAAA
1 GTTTTTTTTATAAAAAAAA
2936065 GTTTTTTTTGATAAAAAAA
1 GTTTTTTTT-ATAAAAAAA
2936084 TAAAATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
GTTTTTTTTATAAAAAAAA
Found at i:2936230 original size:38 final size:39
Alignment explanation
Indices: 2936098--2936245 Score: 183
Period size: 39 Copynumber: 3.8 Consensus size: 39
2936088 ATAAAGTATG
* * * *
2936098 GTTTTAATTTATAATAAAACAAAATGGTAT-GAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATGGA-GAAGTA
* *
2936137 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATGGAGAAGTA
*
2936176 GTTTTAATTAACAATAAAACAAAATAGCATGGAG-AGTG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGAGAAGTA
* * *
2936214 GTTTTGATTAATAATAAAACAAAGTAGCATGG
1 GTTTTAATTAACAATAAAACAAAATAGCATGG
2936246 GGGGAGTGGA
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 32 0.33
39 65 0.66
40 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGAGAAGTA
Found at i:2936231 original size:77 final size:78
Alignment explanation
Indices: 2936098--2936247 Score: 196
Period size: 77 Copynumber: 1.9 Consensus size: 78
2936088 ATAAAGTATG
* * * *
2936098 GTTTTAATTTATAATAAAACAAAATGGTATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
*
2936163 GTATGGGGAAGTA
66 GCATGGGGAAGTA
* * * *
2936176 GTTTTAATTAACAATAAAACAAAATAGCAT--GGAGAGTGGTTTTGATTAATAATAAAACAAAGT
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGA-AGTAGTTTTAATTAACAATAAAACAAAAT
2936239 AGCATGGGG
65 AGCATGGGG
2936248 GGAGTGGAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
76 3 0.05
77 33 0.53
78 26 0.42
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.29
Consensus pattern (78 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
GCATGGGGAAGTA
Found at i:2936787 original size:24 final size:26
Alignment explanation
Indices: 2936760--2936808 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
2936750 TGTATATACC
*
2936760 ATGTAAATATTTTA-ATAT-TATATT
1 ATGTAAACATTTTATATATATATATT
*
2936784 ATGTATACATTTTATATATATATAT
1 ATGTAAACATTTTATATATATATAT
2936809 ATATATATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
ATGTAAACATTTTATATATATATATT
Found at i:2941703 original size:18 final size:19
Alignment explanation
Indices: 2941680--2941715 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2941670 TTATGTTATT
2941680 TACATTTC-CTTTTATTTA
1 TACATTTCACTTTTATTTA
*
2941698 TACATTTCATTTTTATTT
1 TACATTTCACTTTTATTT
2941716 TACCCTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (19 bp):
TACATTTCACTTTTATTTA
Found at i:2951867 original size:23 final size:24
Alignment explanation
Indices: 2951809--2951875 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 24
2951799 AAACCTTCTT
*
2951809 AATTTTTACTAATATATCAAACAA
1 AATTTTTATTAATATATCAAACAA
*
2951833 AATCAATATTTATTTAT-TATCAAACAA
1 AAT---T-TTTATTAATATATCAAACAA
2951860 AATTTTTATTAATATA
1 AATTTTTATTAATATA
2951876 ATAAATGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
23 8 0.23
24 6 0.17
27 14 0.40
28 7 0.20
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTTTTATTAATATATCAAACAA
Found at i:2960142 original size:2 final size:2
Alignment explanation
Indices: 2960137--2960174 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2960127 TATATATATA
2960137 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2960175 CATTTCAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2980414 original size:44 final size:45
Alignment explanation
Indices: 2980326--2980452 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 45
2980316 AGAACATAAA
*
2980326 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
* * *
2980372 TGAGCCATGTAAGTCTATATT-ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
* ** * * *
2980416 TAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 TGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
2980453 CAGGATATTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.52
45 1 0.01
46 31 0.46
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:2987737 original size:46 final size:44
Alignment explanation
Indices: 2987678--2987792 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
2987668 ACAGGACAGA
* *
2987678 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
2987724 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
2987768 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
2987793 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:2987773 original size:44 final size:45
Alignment explanation
Indices: 2987678--2987811 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
2987668 ACAGGACAGA
* *
2987678 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
2987724 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
2987768 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
2987812 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:3003033 original size:21 final size:21
Alignment explanation
Indices: 3003007--3003047 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3002997 ATCTGCTCAA
* *
3003007 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3003028 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3003048 TCGTTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3015788 original size:7 final size:7
Alignment explanation
Indices: 3015734--3015770 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
3015724 GTAAGTCATT
3015734 TAATCAA
1 TAATCAA
3015741 TAATCAA
1 TAATCAA
3015748 TAATCAA
1 TAATCAA
3015755 TAAT-AA
1 TAATCAA
3015761 TAATCAA
1 TAATCAA
3015768 TAA
1 TAA
3015771 GATAAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATCAA
Found at i:3023749 original size:19 final size:19
Alignment explanation
Indices: 3023718--3023765 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
3023708 TTTATGTGCA
3023718 TATATATGTATGTATATATT
1 TATATA-GTATGTATATATT
3023738 TATATAGTATGTATATATT
1 TATATAGTATGTATATATT
3023757 TATATAGTA
1 TATATAGTA
3023766 CTATTAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (19 bp):
TATATAGTATGTATATATT
Found at i:3024012 original size:10 final size:11
Alignment explanation
Indices: 3023997--3024073 Score: 66
Period size: 12 Copynumber: 6.6 Consensus size: 11
3023987 CTATTTCATG
3023997 TATATT-TTCT
1 TATATTATTCT
3024007 TATATTATTCT
1 TATATTATTCT
*
3024018 TATTATTATTAT
1 TA-TATTATTCT
*
3024030 TATTATTATTAT
1 TA-TATTATTCT
*
3024042 TATTATTATTAT
1 TA-TATTATTCT
*
3024054 TATTATTATTAT
1 TA-TATTATTCT
3024066 TAATATTA
1 T-ATATTA
3024074 ATATATGTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
10 6 0.10
11 6 0.10
12 50 0.79
13 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTATTCT
Found at i:3024023 original size:3 final size:3
Alignment explanation
Indices: 3024009--3024073 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
3023999 TATTTTCTTA
*
3024009 TAT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
3024057 TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TA
3024074 ATATATGTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3024311 original size:20 final size:19
Alignment explanation
Indices: 3024249--3024315 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
3024239 ATACTTTTTA
* *
3024249 ATATTGTATTTTTATATATC
1 ATATTATATTTTTA-ATATT
* * *
3024269 ATGTATATATTTTGAATACT
1 ATAT-TATATTTTTAATATT
3024289 ATATTATATTTTTACATATT
1 ATATTATATTTTTA-ATATT
3024309 ATATTAT
1 ATATTAT
3024316 GTATATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 9 0.24
20 20 0.54
21 8 0.22
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
ATATTATATTTTTAATATT
Found at i:3024341 original size:25 final size:24
Alignment explanation
Indices: 3024308--3024390 Score: 86
Period size: 23 Copynumber: 3.6 Consensus size: 24
3024298 TTTTACATAT
*
3024308 TATATTATGTATATATATTTTTCAC
1 TATATTATGTATATATATTTTT-AA
* *
3024333 TATATTATG--TACATACTTTTAA
1 TATATTATGTATATATATTTTTAA
3024355 TATTATTATGTAT-T-TATTTTTAA
1 TA-TATTATGTATATATATTTTTAA
3024378 TATA-TATGTATAT
1 TATATTATGTATAT
3024391 TTATGTAGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 7 0.14
22 6 0.12
23 26 0.53
25 10 0.20
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (24 bp):
TATATTATGTATATATATTTTTAA
Found at i:3024390 original size:53 final size:58
Alignment explanation
Indices: 3024333--3024451 Score: 133
Period size: 60 Copynumber: 2.1 Consensus size: 58
3024323 TATTTTTCAC
*
3024333 TATATTATGTACATACT-TT-TA-ATATTATTATG-TATT-TATTTTTAATATATAT-G
1 TATATTATGTA-ATACTATTATATATATTATTATGTTATTATATTTATAATATATATGG
* *
3024386 TATATTTATGTAGTACTATTAATATATATTTTTATGTTATTAGTATTTATAATATATATGG
1 TATA-TTATGTAATACTATT-ATATATATTATTATGTTATTA-TATTTATAATATATATGG
3024447 TATAT
1 TATAT
3024452 GTTCATTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
53 8 0.15
54 9 0.17
56 2 0.04
57 10 0.19
58 4 0.07
60 16 0.30
61 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (58 bp):
TATATTATGTAATACTATTATATATATTATTATGTTATTATATTTATAATATATATGG
Found at i:3024391 original size:23 final size:23
Alignment explanation
Indices: 3024249--3024394 Score: 76
Period size: 23 Copynumber: 6.3 Consensus size: 23
3024239 ATACTTTTTA
3024249 ATATTGTATTTTT-ATATATCATGT
1 ATATT-TATTTTTAATATAT-ATGT
*
3024273 ATA--TATTTTGAATACTATAT-T
1 ATATTTATTTTTAATA-TATATGT
** *
3024294 ATATTT-TTACATATTATATTATGT
1 ATATTTATT-TTTAATATA-TATGT
* *
3024318 ATATATATTTTTCACTATATTATGT
1 ATATTTATTTTT-AATATA-TATGT
* *
3024343 ACA--TACTTTTAATAT-TAT-T
1 ATATTTATTTTTAATATATATGT
3024362 ATGTATTTATTTTTAATATATATGT
1 A--TATTTATTTTTAATATATATGT
3024387 ATATTTAT
1 ATATTTAT
3024395 GTAGTACTAT
Statistics
Matches: 93, Mismatches: 14, Indels: 31
0.67 0.10 0.22
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 11 0.12
22 13 0.14
23 34 0.37
24 13 0.14
25 17 0.18
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTTATTTTTAATATATATGT
Found at i:3024410 original size:30 final size:29
Alignment explanation
Indices: 3024374--3024454 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
3024364 GTATTTATTT
3024374 TTAATATATATGTATAT-TTATGTAGTACTA
1 TTAATATATATGTATATGTTAT-TAGTA-TA
* * *
3024404 TTAATATATATTTTTATGTTATTAGTATT
1 TTAATATATATGTATATGTTATTAGTATA
3024433 TATAATATATATGGTATATGTT
1 T-TAATATATAT-GTATATGTT
3024455 CATTTTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 2 0.05
30 30 0.70
31 11 0.26
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.54
Consensus pattern (29 bp):
TTAATATATATGTATATGTTATTAGTATA
Found at i:3024480 original size:15 final size:15
Alignment explanation
Indices: 3024462--3024490 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3024452 GTTCATTTTT
3024462 TATATATTATGTATA
1 TATATATTATGTATA
3024477 TATATATTATGTAT
1 TATATATTATGTAT
3024491 GTATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TATATATTATGTATA
Found at i:3024493 original size:19 final size:19
Alignment explanation
Indices: 3024466--3024513 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
3024456 ATTTTTTATA
3024466 TATTATGTATATAT-ATAT
1 TATTATGTATATATAATAT
*
3024484 TATGTATGTAT-TTTAATAT
1 TAT-TATGTATATATAATAT
3024503 TATTATGTATA
1 TATTATGTATA
3024514 CACTTTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
TATTATGTATATATAATAT
Found at i:3025229 original size:30 final size:30
Alignment explanation
Indices: 3025193--3025337 Score: 186
Period size: 30 Copynumber: 4.8 Consensus size: 30
3025183 ACTTTTCTCA
*
3025193 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
3025223 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
3025253 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* ** *
3025283 ATTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
3025313 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
3025338 CTTTTACCTA
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 99 0.97
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:3025935 original size:57 final size:57
Alignment explanation
Indices: 3025844--3025967 Score: 130
Period size: 59 Copynumber: 2.2 Consensus size: 57
3025834 TTCTTAATAT
*
3025844 TATAT-TATATATATTCTTTTAATATATTAGGTATAT-T-TTAAAT-TCTATATTACG
1 TATATATATATATATTATTTTAATATATTAGGTATATATCTTAAATAT-TATATTACG
* * * * **
3025898 TATATATATATATATATATTTATACTATTTTATGTATATATCTTTAATATTATATTATT
1 TATATATATATATAT-TATTT-TAATATATTAGGTATATATCTTAAATATTATATTACG
3025957 TATATATATAT
1 TATATATATAT
3025968 TTTACATGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
54 5 0.09
55 9 0.16
56 4 0.07
57 14 0.25
58 1 0.02
59 23 0.40
60 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (57 bp):
TATATATATATATATTATTTTAATATATTAGGTATATATCTTAAATATTATATTACG
Found at i:3025962 original size:27 final size:29
Alignment explanation
Indices: 3025932--3025992 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
3025922 CTATTTTATG
*
3025932 TATATAT-CTTTA-ATATTATATTATTTA
1 TATATATACTTTACATATTATATTATGTA
* * *
3025959 TATATATATTTTACATGTTATCTTATGTA
1 TATATATACTTTACATATTATATTATGTA
3025988 TATAT
1 TATAT
3025993 CTTAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.25
28 4 0.14
29 17 0.61
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (29 bp):
TATATATACTTTACATATTATATTATGTA
Found at i:3026006 original size:27 final size:26
Alignment explanation
Indices: 3025926--3026006 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 26
3025916 TTTATACTAT
*
3025926 TTTATGTATATATCTTTAATATTATATTA
1 TTTATGTATATATC-TT-A-ACTATATTA
* * *
3025955 TTTATATATATAT-TTTAC-ATGTTA
1 TTTATGTATATATCTTAACTATATTA
3025979 TCTTATGTATATATCTTAACTATATTA
1 T-TTATGTATATATCTTAACTATATTA
3026006 T
1 T
3026007 ATATATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 6 0.14
25 12 0.29
26 4 0.10
27 8 0.19
29 12 0.29
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTATGTATATATCTTAACTATATTA
Found at i:3026027 original size:23 final size:24
Alignment explanation
Indices: 3025997--3026043 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
3025987 ATATATCTTA
*
3025997 ACTATATTA-TATATATTTTTAAC
1 ACTATATTAGTACATATTTTTAAC
3026020 ACTATATTATGTACATATTTTTAA
1 ACTATATTA-GTACATATTTTTAA
3026044 TATTATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
ACTATATTAGTACATATTTTTAAC
Found at i:3026221 original size:16 final size:15
Alignment explanation
Indices: 3026197--3026244 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3026187 TAATTATTAT
*
3026197 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3026213 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3026228 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3026244 T
1 T
3026245 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3026232 original size:7 final size:8
Alignment explanation
Indices: 3026197--3026248 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3026187 TAATTATTAT
*
3026197 TATTCTAA
1 TATTTTAA
*
3026205 TATTTTGA
1 TATTTTAA
3026213 TATTTTAA
1 TATTTTAA
3026221 TATTTT-A
1 TATTTTAA
3026228 TATTTTATA
1 TATTTTA-A
*
3026237 TATTTTAT
1 TATTTTAA
3026245 TATT
1 TATT
3026249 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3028321 original size:15 final size:15
Alignment explanation
Indices: 3028301--3028341 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
3028291 ATATTTATAT
*
3028301 ATTATTTTATAAAGA
1 ATTATTTTATAAAAA
3028316 ATTA--TTATAAAAA
1 ATTATTTTATAAAAA
3028329 ATTATTTTA-AAAA
1 ATTATTTTATAAAA
3028342 TTGATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATTTTATAAAAA
Found at i:3028647 original size:17 final size:17
Alignment explanation
Indices: 3028625--3028657 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3028615 ATAATATACG
3028625 TTCAAATATTGAAAATC
1 TTCAAATATTGAAAATC
3028642 TTCAAATATTGAAAAT
1 TTCAAATATTGAAAAT
3028658 GACATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
TTCAAATATTGAAAATC
Found at i:3030199 original size:14 final size:15
Alignment explanation
Indices: 3030160--3030200 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
3030150 TTGAATAGTT
3030160 ATAATTATTATTTAA
1 ATAATTATTATTTAA
3030175 A-AATGTGATTATTTAA
1 ATAAT-T-ATTATTTAA
3030191 ATAA-TATTAT
1 ATAATTATTAT
3030201 GAATATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.35
15 3 0.13
16 10 0.43
17 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
ATAATTATTATTTAA
Found at i:3038434 original size:24 final size:26
Alignment explanation
Indices: 3038390--3038445 Score: 89
Period size: 24 Copynumber: 2.2 Consensus size: 26
3038380 CATGAAATTC
3038390 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
3038416 TTATCATG-AA-ATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3038440 TTATCA
1 TTATCA
3038446 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 19 0.66
25 2 0.07
26 8 0.28
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3044151 original size:26 final size:26
Alignment explanation
Indices: 3044115--3044172 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
3044105 CATGAAATTC
3044115 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
3044141 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3044167 TTATCA
1 TTATCA
3044173 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3049534 original size:18 final size:18
Alignment explanation
Indices: 3049528--3049567 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3049518 CCAAAGTTGT
3049528 GAGCTCACCTAAAGATGC
1 GAGCTCACCTAAAGATGC
* * *
3049546 GAGCTCAACTCAAGTTGC
1 GAGCTCACCTAAAGATGC
3049564 GAGC
1 GAGC
3049568 ACGTCAAAGT
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:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (18 bp):
GAGCTCACCTAAAGATGC
Found at i:3055429 original size:15 final size:15
Alignment explanation
Indices: 3055392--3055441 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
3055382 ATTTACTATA
3055392 TTATTTAT-TTTA-G
1 TTATTTATATTTATG
3055405 -TATTTAATATTTATG
1 TTATTT-ATATTTATG
3055420 TTATTTATATTTCAT-
1 TTATTTATATTT-ATG
3055435 TTATTTA
1 TTATTTA
3055442 CACCTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.16
13 2 0.06
14 4 0.12
15 14 0.44
16 7 0.22
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (15 bp):
TTATTTATATTTATG
Found at i:3055477 original size:20 final size:19
Alignment explanation
Indices: 3055444--3055482 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
3055434 TTTATTTACA
*
3055444 CCTTTTATTTTTATGTTAT
1 CCTTTTATTATTATGTTAT
*
3055463 CCTTGTTATTATTATTTTAT
1 CCTT-TTATTATTATGTTAT
3055483 TTACTCGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
CCTTTTATTATTATGTTAT
Found at i:3057626 original size:29 final size:30
Alignment explanation
Indices: 3057594--3057650 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
3057584 ATAATGACAA
*
3057594 AATTTTATACTTCAAAAA-TATAAAAATTT
1 AATTTAATACTTCAAAAATTATAAAAATTT
* *
3057623 AATTTAATTCTTTAAAAATTATAAAAAT
1 AATTTAATACTTCAAAAATTATAAAAAT
3057651 ATAAATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (30 bp):
AATTTAATACTTCAAAAATTATAAAAATTT
Found at i:3064966 original size:28 final size:28
Alignment explanation
Indices: 3064911--3065009 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
3064901 AGCATAGCTG
* * *
3064911 CCAGA-ACAGAT-ATTGTGACAGAGTCA
1 CCAGATACAGATAATTGTGGCAGGGCCA
3064937 CCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGATACAGATAATTGTGGCAGGGCCA
* * * *
3064965 CCAGAAACAAATATTTGTGGCAAGGCCA
1 CCAGATACAGATAATTGTGGCAGGGCCA
* *
3064993 CCAAAT-CAGATATTTGT
1 CCAGATACAGATAATTGT
3065010 AGCATAGCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.08
27 16 0.26
28 40 0.66
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (28 bp):
CCAGATACAGATAATTGTGGCAGGGCCA
Found at i:3065019 original size:27 final size:27
Alignment explanation
Indices: 3064951--3065026 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
3064941 ATACAGATAA
* *
3064951 TTGTGGCAGGGCCACCAGAAACAAATAT
1 TTGTAGCAAGGCCACCA-AAACAAATAT
* * *
3064979 TTGTGGCAAGGCCACCAAATCAGATAT
1 TTGTAGCAAGGCCACCAAAACAAATAT
*
3065006 TTGTAGCATA-GCCATCAAAAC
1 TTGTAGCA-AGGCCACCAAAAC
3065027 GCTTCCTCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
TTGTAGCAAGGCCACCAAAACAAATAT
Found at i:3066245 original size:18 final size:19
Alignment explanation
Indices: 3066198--3066246 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
3066188 GGCTATAGAG
3066198 GAAAAGAAGAAGAAGAGGA
1 GAAAAGAAGAAGAAGAGGA
* *
3066217 -AATAGATGAAGAA-AGGA
1 GAAAAGAAGAAGAAGAGGA
3066234 GAAAAGAAGAAGA
1 GAAAAGAAGAAGA
3066247 GAAAAGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (19 bp):
GAAAAGAAGAAGAAGAGGA
Found at i:3066254 original size:18 final size:17
Alignment explanation
Indices: 3066198--3066254 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
3066188 GGCTATAGAG
* *
3066198 GAAAAGAAGAAGAAGAG
1 GAAAAGAAGAAGAAAAA
* *
3066215 GAAATAGATGAAGAAAGGA
1 GAAA-AGAAGAAGAAA-AA
3066234 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGA-AAAA
3066252 GAA
1 GAA
3066255 TTGTCAGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 4 0.13
18 21 0.68
19 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (17 bp):
GAAAAGAAGAAGAAAAA
Found at i:3066890 original size:15 final size:15
Alignment explanation
Indices: 3066867--3066896 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3066857 TAAACTAACC
*
3066867 TAAACATAATAATAA
1 TAAAAATAATAATAA
3066882 TAAAAATAATAATAA
1 TAAAAATAATAATAA
3066897 CAATAACGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATAATAATAA
Found at i:3070201 original size:39 final size:39
Alignment explanation
Indices: 3070081--3070201 Score: 215
Period size: 39 Copynumber: 3.1 Consensus size: 39
3070071 AATTATATTA
*
3070081 CCAGCACAAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
* *
3070120 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
3070159 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
3070198 CCAG
1 CCAG
3070202 TGTCTTGAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
Found at i:3073382 original size:28 final size:28
Alignment explanation
Indices: 3073326--3073440 Score: 119
Period size: 28 Copynumber: 4.2 Consensus size: 28
3073316 CAGCATGGCT
* *
3073326 ACCAGA-ACAGAT-ATTGTGACAGAGTC
1 ACCAGATACAGATAATTGTGGCAGAGCC
*
3073352 ACCAGATACAGATAATTGTGGCAGGGCC
1 ACCAGATACAGATAATTGTGGCAGAGCC
* * * *
3073380 ACCAGAAACAGATATTTGTCGCAGGGCC
1 ACCAGATACAGATAATTGTGGCAGAGCC
* * *
3073408 ACCAGAT-CAGATATTTATGGCATAGCC
1 ACCAGATACAGATAATTGTGGCAGAGCC
3073435 ACCAGA
1 ACCAGA
3073441 ATGCTTCCTC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.08
27 28 0.37
28 42 0.55
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (28 bp):
ACCAGATACAGATAATTGTGGCAGAGCC
Found at i:3073419 original size:55 final size:55
Alignment explanation
Indices: 3073326--3073441 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 55
3073316 CAGCATGGCT
* * *
3073326 ACCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATAATTGTGGCAGGGCC
1 ACCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATAATTATGGCAGAGCC
* * *
3073380 ACCAGAAACAGATATTTGTCG-CAGGGCCACCAGAT-CAGATATTTATGGCATAGCC
1 ACCAGAAACAGATA-TTGT-GACAGAGCCACCAGATACAGATAATTATGGCAGAGCC
3073435 ACCAGAA
1 ACCAGAA
3073442 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 5 0.09
55 31 0.58
56 16 0.30
57 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (55 bp):
ACCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATAATTATGGCAGAGCC
Found at i:3075350 original size:15 final size:15
Alignment explanation
Indices: 3075327--3075356 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3075317 TAAACTAACC
*
3075327 TAAACATAATAATAA
1 TAAAAATAATAATAA
3075342 TAAAAATAATAATAA
1 TAAAAATAATAATAA
3075357 CAATAACACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATAATAATAA
Found at i:3077984 original size:3 final size:3
Alignment explanation
Indices: 3077976--3078034 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
3077966 ACTGTCTATG
3077976 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3078024 TAA TAA TAA TA
1 TAA TAA TAA TA
3078035 GTAGACAAGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3078997 original size:19 final size:19
Alignment explanation
Indices: 3078973--3079015 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3078963 TAAAATCCGG
*
3078973 GGCACTCCCACACGGCCTA
1 GGCACTCCCACACGGCCGA
3078992 GGCACTCCCACACGGCCGA
1 GGCACTCCCACACGGCCGA
3079011 GGCAC
1 GGCAC
3079016 ATAGCCTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.47, G:0.26, T:0.07
Consensus pattern (19 bp):
GGCACTCCCACACGGCCGA
Found at i:3080566 original size:22 final size:23
Alignment explanation
Indices: 3080531--3080579 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
3080521 AATATAACCT
*
3080531 ATTCTGAAATAAAATTTAAACAG
1 ATTCTGAAAAAAAATTTAAACAG
*
3080554 ATTCT-AAAAAAAATTTAAATAG
1 ATTCTGAAAAAAAATTTAAACAG
3080576 ATTC
1 ATTC
3080580 CCTAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (23 bp):
ATTCTGAAAAAAAATTTAAACAG
Found at i:3081681 original size:30 final size:30
Alignment explanation
Indices: 3081647--3081705 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
3081637 ACTTAACAAG
*
3081647 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
* *
3081677 CAAATGCCTTTAAAATAATAAAAAAATTA
1 CAAATACCTCTAAAATAATAAAAAAATTA
3081706 TTAATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAAAAAAATTAA
Found at i:3082566 original size:24 final size:24
Alignment explanation
Indices: 3082530--3082611 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
3082520 AATTAGTGAG
* *
3082530 TATTTATTAAATTATTTTATTCAT
1 TATTTTTTCAATTATTTTATTCAT
*
3082554 TATTTTTTCAATT-TTTTATTAAAT
1 TATTTTTTCAATTATTTTATT-CAT
*
3082578 TATTTTATTC-ATTATTTTTTTCAAT
1 TATTTT-TTCAATTATTTTATTC-AT
*
3082603 TTTTTTTTC
1 TATTTTTTC
3082612 TTTTGTTCGA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 7 0.15
24 25 0.52
25 16 0.33
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTTTTCAATTATTTTATTCAT
Found at i:3082579 original size:36 final size:37
Alignment explanation
Indices: 3082532--3082607 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 37
3082522 TTAGTGAGTA
3082532 TTTATTAAATTATTTTATTCATTA-TTTTTTCAATTT
1 TTTATTAAATTATTTTATTCATTATTTTTTTCAATTT
3082568 TTTATTAAATTATTTTATTCATTATTTTTTTCAATTT
1 TTTATTAAATTATTTTATTCATTATTTTTTTCAATTT
3082605 TTT
1 TTT
3082608 TTTCTTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
36 24 0.62
37 15 0.38
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (37 bp):
TTTATTAAATTATTTTATTCATTATTTTTTTCAATTT
Found at i:3082607 original size:12 final size:13
Alignment explanation
Indices: 3082539--3082611 Score: 75
Period size: 12 Copynumber: 6.0 Consensus size: 13
3082529 GTATTTATTA
*
3082539 AATTATTTTATTC
1 AATTATTTTTTTC
3082552 -ATTA-TTTTTTC
1 AATTATTTTTTTC
* *
3082563 AATT-TTTTATTA
1 AATTATTTTTTTC
*
3082575 AATTATTTTATTC
1 AATTATTTTTTTC
3082588 -ATTATTTTTTTC
1 AATTATTTTTTTC
3082600 AATT-TTTTTTTC
1 AATTATTTTTTTC
3082612 TTTTGTTCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.12
12 35 0.69
13 10 0.20
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (13 bp):
AATTATTTTTTTC
Found at i:3083418 original size:52 final size:53
Alignment explanation
Indices: 3083356--3083456 Score: 195
Period size: 52 Copynumber: 1.9 Consensus size: 53
3083346 GGGCAAACCG
3083356 AAGGAGTTGTGAAAAGGTTGAAAGGTATGATTTAGACTTAA-TTAACACAATT
1 AAGGAGTTGTGAAAAGGTTGAAAGGTATGATTTAGACTTAAGTTAACACAATT
3083408 AAGGAGTTGTGAAAAGGTTGAAAGGTATGATTTAGACTTAAGTTAACAC
1 AAGGAGTTGTGAAAAGGTTGAAAGGTATGATTTAGACTTAAGTTAACAC
3083457 CATTTGTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 41 0.85
53 7 0.15
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (53 bp):
AAGGAGTTGTGAAAAGGTTGAAAGGTATGATTTAGACTTAAGTTAACACAATT
Found at i:3089078 original size:25 final size:24
Alignment explanation
Indices: 3089048--3089230 Score: 217
Period size: 25 Copynumber: 7.5 Consensus size: 24
3089038 GACTTCAGCA
* *
3089048 TGCTCTCTGAATATTAGCATGTCAG
1 TGCTCTCTG-ATATTAGCACGCCAG
****
3089073 TGCTCTCTG--ATTAGCACATTTG
1 TGCTCTCTGATATTAGCACGCCAG
3089095 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATA-TTAGCACGCCAG
*
3089120 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGA-TATTAGCACGCCAG
3089145 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATA-TTAGCACGCCAG
*
3089170 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGA-TATTAGCACGCCAG
*
3089195 TGCTCTCTGATATCTAGCACGTCAG
1 TGCTCTCTGATAT-TAGCACGCCAG
3089220 TGCTCTCTGAT
1 TGCTCTCTGAT
3089231 TAGCACATTT
Statistics
Matches: 138, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.13
24 5 0.04
25 111 0.80
26 4 0.03
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (24 bp):
TGCTCTCTGATATTAGCACGCCAG
Found at i:3089159 original size:50 final size:50
Alignment explanation
Indices: 3089048--3089232 Score: 261
Period size: 50 Copynumber: 3.8 Consensus size: 50
3089038 GACTTCAGCA
* * ****
3089048 TGCTCTCTGA-ATATTAGCATGTCAGTGCTCTCTGA-T--TAGCACATTTG
1 TGCTCTCTGATAT-TTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAG
3089095 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAG
3089145 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAG
* *
3089195 TGCTCTCTGATATCTAGCACGTCAGTGCTCTCTGATTA
1 TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTA
3089233 GCACATTTGT
Statistics
Matches: 126, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
47 30 0.24
48 3 0.02
50 93 0.74
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (50 bp):
TGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAG
Found at i:3089244 original size:22 final size:22
Alignment explanation
Indices: 3089069--3089273 Score: 103
Period size: 25 Copynumber: 8.6 Consensus size: 22
3089059 TATTAGCATG
3089069 TCAGTGCTCTCTG-ATTAGCACAT
1 TCAGTGCTCTCTGTA-TAGCAC-T
* *
3089092 T-TGTGCTCTCTGATATTTAGCACG
1 TCAGTGCTCTCTG-TA--TAGCACT
* *
3089116 CCAGTGCTCTCTGATTACTAGCACG
1 TCAGTGCTCTCTG--TA-TAGCACT
* *
3089141 CCAGTGCTCTCTGATATTTAGCACG
1 TCAGTGCTCTCTG-TA--TAGCACT
* *
3089166 CCAGTGCTCTCTGATTACTAGCACG
1 TCAGTGCTCTCTG--TA-TAGCACT
* *
3089191 CCAGTGCTCTCTGATATCTAGCACG
1 TCAGTGCTCTCTG-TA--TAGCACT
3089216 TCAGTGCTCTCTG-ATTAGCACAT
1 TCAGTGCTCTCTGTA-TAGCAC-T
* *
3089239 T-TGTGCTCCCTGTATAGCACT
1 TCAGTGCTCTCTGTATAGCACT
3089260 TCAGTGCTCTCTGT
1 TCAGTGCTCTCTGT
3089274 TCATTAGTGC
Statistics
Matches: 153, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.01
22 41 0.27
23 4 0.03
24 5 0.03
25 97 0.63
26 4 0.03
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.34
Consensus pattern (22 bp):
TCAGTGCTCTCTGTATAGCACT
Found at i:3113932 original size:136 final size:136
Alignment explanation
Indices: 3113688--3113972 Score: 543
Period size: 136 Copynumber: 2.1 Consensus size: 136
3113678 CATTGGGCCT
**
3113688 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
3113753 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
3113818 ATATGC
131 ATATGC
3113824 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
3113889 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
3113954 ATATGC
131 ATATGC
3113960 AAGCCCATTTGGG
1 AAGCCCATTTGGG
3113973 AGACTACTCA
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 146 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:3114256 original size:25 final size:26
Alignment explanation
Indices: 3114219--3114270 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3114209 TCAAACATGC
3114219 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
3114245 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
3114270 A
1 A
3114271 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:3115842 original size:25 final size:26
Alignment explanation
Indices: 3115748--3115856 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
3115738 CATGAAATTC
3115748 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3115774 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
3115800 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
3115826 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3115851 TTATCA
1 TTATCA
3115857 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3118706 original size:10 final size:10
Alignment explanation
Indices: 3118679--3118708 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
3118669 TACAGACAAT
3118679 AATTCAGAAA
1 AATTCAGAAA
3118689 ATATTCAGAAA
1 A-ATTCAGAAA
3118700 AATTCAGAA
1 AATTCAGAA
3118709 TACTTACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (10 bp):
AATTCAGAAA
Found at i:3118718 original size:21 final size:23
Alignment explanation
Indices: 3118669--3118719 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
3118659 AGGGTTTCAG
3118669 TACAGACAATAATTCAGAAAATAT
1 TACAGACAATAATTCAG-AAATAT
3118693 T-CAGA-AA-AATTCAG-AATACT
1 TACAGACAATAATTCAGAAATA-T
3118713 TACAGAC
1 TACAGAC
3118720 TTGAGCCGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
19 4 0.17
20 2 0.08
21 11 0.46
22 2 0.08
23 4 0.17
24 1 0.04
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.24
Consensus pattern (23 bp):
TACAGACAATAATTCAGAAATAT
Found at i:3119822 original size:136 final size:136
Alignment explanation
Indices: 3119578--3119862 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
3119568 TATTGGGCCT
**
3119578 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
3119643 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
3119708 ATATGC
131 ATATGC
3119714 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
3119779 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
3119844 ATATGC
131 ATATGC
3119850 AAGCCCATTTGGG
1 AAGCCCATTTGGG
3119863 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:3119902 original size:21 final size:20
Alignment explanation
Indices: 3119869--3119915 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
3119859 TGGGGAGACT
*
3119869 ACTCAACCCACCAACCACTAC
1 ACTCCACCCACCAACCA-TAC
* *
3119890 ACTCCACCTACCAGCCATAC
1 ACTCCACCCACCAACCATAC
3119910 ACTCCA
1 ACTCCA
3119916 TGTGGGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.34, C:0.51, G:0.02, T:0.13
Consensus pattern (20 bp):
ACTCCACCCACCAACCATAC
Found at i:3120145 original size:25 final size:26
Alignment explanation
Indices: 3120108--3120159 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3120098 TCAAACATGC
3120108 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
3120134 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
3120159 A
1 A
3120160 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:3121679 original size:26 final size:26
Alignment explanation
Indices: 3121643--3121752 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
3121633 CATGAAATTC
3121643 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3121669 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
3121695 TTATCAGGGAACATTTACCTGACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
3121721 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
3121747 TTATCA
1 TTATCA
3121753 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 76 0.99
27 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:3124321 original size:2 final size:2
Alignment explanation
Indices: 3124316--3124346 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3124306 GATATTGAAA
3124316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3124347 AATAATCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3131732 original size:29 final size:31
Alignment explanation
Indices: 3131684--3131754 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 31
3131674 TTTAATAATT
3131684 TATATATTTTTTTAATTTTTAAAAAATT-AAA
1 TATA-ATTTTTTTAATTTTTAAAAAATTAAAA
3131715 T-TAATTTTTTATAATTTTT-AAAAATTCAAAA
1 TATAATTTTTT-TAATTTTTAAAAAATT-AAAA
3131746 TATAATTTT
1 TATAATTTT
3131755 ATAATTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
29 14 0.39
30 10 0.28
31 5 0.14
32 7 0.19
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (31 bp):
TATAATTTTTTTAATTTTTAAAAAATTAAAA
Found at i:3131755 original size:30 final size:28
Alignment explanation
Indices: 3131662--3131765 Score: 88
Period size: 30 Copynumber: 3.6 Consensus size: 28
3131652 AATAATAATG
* * *
3131662 TAATTTTATTA-TTTTAATAATT-TATA
1 TAATTTTATAATTTTTAAAAATTAAATA
* *
3131688 TATTTTTTTAATTTTTAAAAAATTAAAT-
1 TAATTTTATAATTTTT-AAAAATTAAATA
3131716 TAATTTTTTATAATTTTTAAAAATTCAAAATA
1 TAA--TTTTATAATTTTTAAAAATT--AAATA
3131748 TAATTTTATAATTATTTA
1 TAATTTTATAATT-TTTA
3131766 TTTAAAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
26 8 0.13
27 4 0.06
28 8 0.13
29 9 0.15
30 22 0.35
31 8 0.13
32 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATTTTATAATTTTTAAAAATTAAATA
Found at i:3135544 original size:3 final size:3
Alignment explanation
Indices: 3135524--3135595 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
3135514 AGACGTATAC
* *
3135524 TAA TGA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3135572 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
3135596 GGGAAAGATA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3135942 original size:9 final size:9
Alignment explanation
Indices: 3135930--3135974 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
3135920 GATAAAAATA
*
3135930 ATAATATAC
1 ATAATATAT
3135939 ATAATATAT
1 ATAATATAT
* *
3135948 AAAATACAT
1 ATAATATAT
3135957 ATAATATAT
1 ATAATATAT
3135966 AT-ATATAT
1 ATAATATAT
3135974 A
1 A
3135975 CACTAGAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAATATAT
Found at i:3136092 original size:17 final size:19
Alignment explanation
Indices: 3136070--3136111 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3136060 AGAAATACTT
*
3136070 AATATATA-ATAAT-TTAA
1 AATATATACATAATATGAA
3136087 AATATATACATAATATGAA
1 AATATATACATAATATGAA
3136106 AATATA
1 AATATA
3136112 CATAGAACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 5 0.23
19 9 0.41
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
AATATATACATAATATGAA
Done.