Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 67 of 129
Found at i:12792082 original size:21 final size:21
Alignment explanation
Indices: 12792036--12792082 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
12792026 CTTATTCTCA
*
12792036 AATTTTATTTTATTTTTTATT
1 AATTTTATTTTATTTTTTATC
*
12792057 TATTTTATTTTTATTTTTT-TC
1 AATTTTA-TTTTATTTTTTATC
12792078 AATTT
1 AATTT
12792083 AATCATGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (21 bp):
AATTTTATTTTATTTTTTATC
Found at i:12793182 original size:41 final size:41
Alignment explanation
Indices: 12793127--12793245 Score: 154
Period size: 38 Copynumber: 3.0 Consensus size: 41
12793117 TAAAATTAAA
*
12793127 CTCCTCTAAGCAGAGGCACAACAACTTTGAAAAATAAAAGG
1 CTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAGG
* *
12793168 CTCCTCTAATCAGAGG--CAAC-ACTTTGAAAAATAAAATG
1 CTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAGG
* * *
12793206 CTTCTCTAAACAAAGGCATAACAACTTTGAAAAAATAAAA
1 CTCCTCTAAACAGAGGCACAACAACTTTG-AAAAATAAAA
12793246 AGGTCCTAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
38 30 0.44
39 4 0.06
40 3 0.04
41 21 0.31
42 10 0.15
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (41 bp):
CTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAGG
Found at i:12793738 original size:22 final size:22
Alignment explanation
Indices: 12793713--12793795 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
12793703 GGTTTCCCAT
12793713 CTCAAAGATTCCCATTTGAAAA
1 CTCAAAGATTCCCATTTGAAAA
* * *
12793735 CTCAAAGTTTCTCATTTAAAAA
1 CTCAAAGATTCCCATTTGAAAA
*
12793757 CTCAAA-AATCCTCATTTG-AAA
1 CTCAAAGATTCC-CATTTGAAAA
* *
12793778 CTCAAATATTCTCATTTG
1 CTCAAAGATTCCCATTTG
12793796 GGGATTTCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 17 0.34
22 33 0.66
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.34
Consensus pattern (22 bp):
CTCAAAGATTCCCATTTGAAAA
Found at i:12793836 original size:47 final size:46
Alignment explanation
Indices: 12793720--12793979 Score: 256
Period size: 46 Copynumber: 5.7 Consensus size: 46
12793710 CATCTCAAAG
* * ** * *
12793720 ATTCCCATTTGAAAACTCAAAGTTTCTCATTT-AA-A-AACTCAAAA
1 ATTCTCATTT-AAAACTCAAAGATTCTCATTTGAAGATTTCTTAAAT
* * * **
12793764 ATCCTCATTTGAAACTCAAATATTCTCATTTGGGGATTTCTTAAAT
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAGATTTCTTAAAT
* *
12793810 ATTCCCATTTAATAACTCAATGATTCTCATTTGAAGATTTCTTAAAT
1 ATTCTCATTTAA-AACTCAAAGATTCTCATTTGAAGATTTCTTAAAT
* * *
12793857 ATTCTCATTTAAGACTCAAAGATTCTTATTTGAAGATTTTTTAAAT
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAGATTTCTTAAAT
* * * * *
12793903 ATTCTCATTTAAGACTCAAAGATTATCATTTGAGGATTTTTTAAAG
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAGATTTCTTAAAT
* * * *
12793949 ATTCTTATTTAAGACTAAAAAATTCTCATTT
1 ATTCTCATTTAAAACTCAAAGATTCTCATTT
12793980 AAGGATTCAT
Statistics
Matches: 181, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
43 18 0.10
44 8 0.04
45 1 0.01
46 113 0.62
47 41 0.23
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (46 bp):
ATTCTCATTTAAAACTCAAAGATTCTCATTTGAAGATTTCTTAAAT
Found at i:12793881 original size:21 final size:22
Alignment explanation
Indices: 12793713--12793979 Score: 130
Period size: 21 Copynumber: 11.8 Consensus size: 22
12793703 GGTTTCCCAT
* *
12793713 CTCAAAGATTCCCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAGA
* * *
12793735 CTCAAAGTTTCTCATTTAAAAA
1 CTCAAAGATTCTCATTTGAAGA
* *
12793757 CTCAAAAATCCTCATTTGAA-A
1 CTCAAAGATTCTCATTTGAAGA
* **
12793778 CTCAAATATTCTCATTTGGGGA
1 CTCAAAGATTCTCATTTGAAGA
* * * *
12793800 TTTCTTAAATATTCCCATTT-AATAA
1 ---CTCAAAGATTCTCATTTGAA-GA
*
12793825 CTCAATGATTCTCATTTGAAGA
1 CTCAAAGATTCTCATTTGAAGA
* *
12793847 TTTCTTAAATATTCTCATTT-AAGA
1 ---CTCAAAGATTCTCATTTGAAGA
*
12793871 CTCAAAGATTCTTATTTGAAGA
1 CTCAAAGATTCTCATTTGAAGA
* * *
12793893 TTTTTTAAATATTCTCATTT-AAGA
1 ---CTCAAAGATTCTCATTTGAAGA
* *
12793917 CTCAAAGATTATCATTTGAGGA
1 CTCAAAGATTCTCATTTGAAGA
* * *
12793939 TTTTTTAAAGATTCTTATTT-AAGA
1 ---CTCAAAGATTCTCATTTGAAGA
* *
12793963 CTAAAAAATTCTCATTT
1 CTCAAAGATTCTCATTT
12793980 AAGGATTCAT
Statistics
Matches: 183, Mismatches: 45, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
21 57 0.31
22 57 0.31
23 2 0.01
24 11 0.06
25 56 0.31
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.40
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAAGA
Found at i:12793986 original size:46 final size:46
Alignment explanation
Indices: 12793767--12793979 Score: 266
Period size: 46 Copynumber: 4.6 Consensus size: 46
12793757 CTCAAAAATC
* ** *
12793767 CTCATTTGAA-ACTCAAATATTCTCATTTGGGGATTTCTTAAATATT
1 CTCATTT-AAGACTCAAAGATTCTCATTTGAAGATTTTTTAAATATT
* * * *
12793813 CCCATTTAATAACTCAATGATTCTCATTTGAAGATTTCTTAAATATT
1 CTCATTTAA-GACTCAAAGATTCTCATTTGAAGATTTTTTAAATATT
*
12793860 CTCATTTAAGACTCAAAGATTCTTATTTGAAGATTTTTTAAATATT
1 CTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTTTTAAATATT
* * *
12793906 CTCATTTAAGACTCAAAGATTATCATTTGAGGATTTTTTAAAGATT
1 CTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTTTTAAATATT
* * *
12793952 CTTATTTAAGACTAAAAAATTCTCATTT
1 CTCATTTAAGACTCAAAGATTCTCATTT
12793980 AAGGATTCAT
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 2 0.01
46 105 0.71
47 40 0.27
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (46 bp):
CTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTTTTAAATATT
Found at i:12795216 original size:8 final size:8
Alignment explanation
Indices: 12795202--12795281 Score: 76
Period size: 8 Copynumber: 10.0 Consensus size: 8
12795192 AATTTAAGTG
12795202 TTCTTTTT
1 TTCTTTTT
*
12795210 CTCTTTTT
1 TTCTTTTT
*
12795218 TT-TATTT
1 TTCTTTTT
*
12795225 TTCATTTT
1 TTCTTTTT
*
12795233 CTCATTTTT
1 TTC-TTTTT
12795242 TTCTTTTT
1 TTCTTTTT
12795250 TTCCTTTTT
1 TT-CTTTTT
12795259 TTCTTTTT
1 TTCTTTTT
12795267 TT-TTTCTT
1 TTCTTT-TT
12795275 TT-TTTTT
1 TTCTTTTT
12795282 CATTTTTCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
7 11 0.18
8 35 0.58
9 14 0.23
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (8 bp):
TTCTTTTT
Found at i:12795227 original size:17 final size:17
Alignment explanation
Indices: 12795205--12795296 Score: 54
Period size: 15 Copynumber: 5.7 Consensus size: 17
12795195 TTAAGTGTTC
12795205 TTTTTCTCTTTTTTTTA
1 TTTTTCTCTTTTTTTTA
* * *
12795222 -TTTT-TCATTTTCTCA
1 TTTTTCTCTTTTTTTTA
* *
12795237 TTTTTTTC-TTTTTTTC
1 TTTTTCTCTTTTTTTTA
* *
12795253 CTTTT-T-TTCTTTTT-
1 TTTTTCTCTTTTTTTTA
12795267 TTTTTCT-TTTTTTTTCA
1 TTTTTCTCTTTTTTTT-A
12795284 TTTTTCATCTTTT
1 TTTTTC-TCTTTT
12795297 GATTTTTTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
14 4 0.07
15 23 0.40
16 17 0.30
17 8 0.14
18 1 0.02
19 4 0.07
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTA
Found at i:12795240 original size:23 final size:23
Alignment explanation
Indices: 12795206--12795249 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
12795196 TAAGTGTTCT
*
12795206 TTTTCTCTTTTTTTTATTTTTCA
1 TTTTCTCATTTTTTTATTTTTCA
*
12795229 TTTTCTCATTTTTTTCTTTTT
1 TTTTCTCATTTTTTTATTTTT
12795250 TTCCTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTCTCATTTTTTTATTTTTCA
Found at i:12795249 original size:9 final size:9
Alignment explanation
Indices: 12795205--12795280 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
12795195 TTAAGTGTTC
*
12795205 TTTTTCTCT
1 TTTTTCTTT
*
12795214 TTTTT-TTA
1 TTTTTCTTT
*
12795222 TTTTTC-AT
1 TTTTTCTTT
* *
12795230 TTTCTCATT
1 TTTTTCTTT
12795239 TTTTTCTTT
1 TTTTTCTTT
*
12795248 TTTTCCTTT
1 TTTTTCTTT
*
12795257 TTTTCTTTTT
1 TTTT-TCTTT
12795267 TTTTTCTTT
1 TTTTTCTTT
12795276 TTTTT
1 TTTTT
12795281 TCATTTTTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
8 11 0.21
9 34 0.65
10 7 0.13
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:12795287 original size:8 final size:8
Alignment explanation
Indices: 12795222--12795304 Score: 50
Period size: 8 Copynumber: 10.6 Consensus size: 8
12795212 CTTTTTTTTA
12795222 TTTTTCAT
1 TTTTTCAT
*
12795230 TTTCTCATT
1 TTTTTCA-T
*
12795239 TTTTTCTT
1 TTTTTCAT
*
12795247 TTTTTCCTT
1 TTTTT-CAT
12795256 TTTTTC-T
1 TTTTTCAT
12795263 TTTTT--T
1 TTTTTCAT
*
12795269 TTTCTT-TT
1 TTT-TTCAT
12795277 TTTTTCA-
1 TTTTTCAT
12795284 TTTTTCAT
1 TTTTTCAT
* *
12795292 CTTTTGAT
1 TTTTTCAT
12795300 TTTTT
1 TTTTT
12795305 ATCCATTAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
6 4 0.06
7 17 0.27
8 27 0.44
9 14 0.23
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.80
Consensus pattern (8 bp):
TTTTTCAT
Found at i:12795287 original size:9 final size:9
Alignment explanation
Indices: 12795222--12795288 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
12795212 CTTTTTTTTA
12795222 TTTTTCA-T
1 TTTTTCATT
*
12795230 TTTCTCATT
1 TTTTTCATT
12795239 TTTTTC-TT
1 TTTTTCATT
*
12795247 TTTTTCCTT
1 TTTTTCATT
*
12795256 TTTTTCTTTTT
1 TTTTTC--ATT
*
12795267 TTTTTCTTTT
1 TTTTTC-ATT
12795277 TTTTTCATT
1 TTTTTCATT
12795286 TTT
1 TTT
12795289 CATCTTTTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
8 14 0.27
9 19 0.37
10 10 0.20
11 8 0.16
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTCATT
Found at i:12795287 original size:11 final size:10
Alignment explanation
Indices: 12795205--12795288 Score: 73
Period size: 10 Copynumber: 8.1 Consensus size: 10
12795195 TTAAGTGTTC
12795205 TTTTTCTCTTT
1 TTTTTCT-TTT
*
12795216 TTTTTATTTT
1 TTTTTCTTTT
*
12795226 TCATTTTCTCATT
1 T--TTTTCT-TTT
12795239 TTTTTC-TTT
1 TTTTTCTTTT
*
12795248 TTTTCCTTTT
1 TTTTTCTTTT
*
12795258 TTTCT-TTTT
1 TTTTTCTTTT
12795267 TTTTTCTTTT
1 TTTTTCTTTT
12795277 TTTTTCATTTT
1 TTTTTC-TTTT
12795288 T
1 T
12795289 CATCTTTTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
9 15 0.25
10 20 0.34
11 16 0.27
12 5 0.08
13 3 0.05
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:12800572 original size:11 final size:11
Alignment explanation
Indices: 12800556--12800588 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
12800546 CCCATTTTTC
12800556 ATTTTTTTATT
1 ATTTTTTTATT
12800567 ATTTTTTT-TT
1 ATTTTTTTATT
12800577 ATTTTTTTATT
1 ATTTTTTTATT
12800588 A
1 A
12800589 ATAGAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
ATTTTTTTATT
Found at i:12802914 original size:19 final size:19
Alignment explanation
Indices: 12802878--12802915 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12802868 TTTAAATTAA
*
12802878 TTTATATTTATATATATTT
1 TTTATATTTACATATATTT
12802897 TTTATATTTAACAT-TATTT
1 TTTATATTT-ACATATATTT
12802916 ATAATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATATTTACATATATTT
Found at i:12806606 original size:27 final size:27
Alignment explanation
Indices: 12806568--12806630 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
12806558 GAGAAAAAAT
* * *
12806568 AAAAAA-TAAAAAAATAAT-GATTTTA
1 AAAAAATTAAAAAAAAAATAAATTATA
12806593 AAAAAATTAAAAAAAAAATAAATTATA
1 AAAAAATTAAAAAAAAAATAAATTATA
*
12806620 AAATAATTAAA
1 AAAAAATTAAA
12806631 TATTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 6 0.19
26 11 0.34
27 15 0.47
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAAATTAAAAAAAAAATAAATTATA
Found at i:12806622 original size:25 final size:26
Alignment explanation
Indices: 12806566--12806622 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
12806556 TAGAGAAAAA
* **
12806566 ATAAAAAATAAAAAAATAATGATTTT
1 ATAAAAAATAAAAAAAAAATGAAATT
12806592 A-AAAAAATTAAAAAAAAAAT-AAATT
1 ATAAAAAA-TAAAAAAAAAATGAAATT
12806617 ATAAAA
1 ATAAAA
12806623 TAATTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
ATAAAAAATAAAAAAAAAATGAAATT
Found at i:12812298 original size:24 final size:24
Alignment explanation
Indices: 12812271--12812378 Score: 61
Period size: 24 Copynumber: 4.6 Consensus size: 24
12812261 AACAATTTTT
12812271 ATAAAATAATAAAATTTCTAAAAA
1 ATAAAATAATAAAATTTCTAAAAA
**
12812295 ATAAAACTAGA-AAAA-TAATAAAAA
1 ATAAAA-TA-ATAAAATTTCTAAAAA
* ** *
12812319 CTAAAA-AATAAAATAAGCTGAAAA
1 ATAAAATAATAAAAT-TTCTAAAAA
12812343 ATAAAATCAAATAAAA--TC-AAAAA
1 ATAAAAT--AATAAAATTTCTAAAAA
12812366 AT-AAA-AATAAAAT
1 ATAAAATAATAAAAT
12812379 GAAAAAAGGA
Statistics
Matches: 65, Mismatches: 10, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
19 7 0.11
21 1 0.02
22 8 0.12
23 6 0.09
24 29 0.45
25 6 0.09
26 1 0.02
27 7 0.11
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (24 bp):
ATAAAATAATAAAATTTCTAAAAA
Found at i:12812347 original size:17 final size:17
Alignment explanation
Indices: 12812292--12812349 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
12812282 AAATTTCTAA
12812292 AAAATAAAACTAGAAAAAT
1 AAAAT-AAACT-GAAAAAT
*
12812311 AATAA-AAACTAAAAAAT
1 AA-AATAAACTGAAAAAT
*
12812328 AAAATAAGCTGAAAAAT
1 AAAATAAACTGAAAAAT
12812345 AAAAT
1 AAAAT
12812350 CAAATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.06
17 23 0.68
18 5 0.15
19 2 0.06
20 2 0.06
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAATAAACTGAAAAAT
Found at i:12812348 original size:23 final size:24
Alignment explanation
Indices: 12812290--12812383 Score: 70
Period size: 24 Copynumber: 3.9 Consensus size: 24
12812280 TAAAATTTCT
*
12812290 AAAAAATAAAACTAGAAA-AATAAT-
1 AAAAAATAAAAATA-AAATAA-AATC
* **
12812314 AAAAACTAAAAAATAAAATAAGCT-
1 AAAAAAT-AAAAATAAAATAAAATC
* *
12812338 GAAAAAT-AAAATCAAATAAAATC
1 AAAAAATAAAAATAAAATAAAATC
12812361 AAAAAATAAAAATAAAATGAAAA
1 AAAAAATAAAAATAAAAT-AAAA
12812384 AAGGAAACCT
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
22 12 0.22
23 6 0.11
24 24 0.44
25 12 0.22
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.16
Consensus pattern (24 bp):
AAAAAATAAAAATAAAATAAAATC
Found at i:12813189 original size:3 final size:3
Alignment explanation
Indices: 12813183--12813311 Score: 71
Period size: 3 Copynumber: 45.3 Consensus size: 3
12813173 AAAAAAAGAA
* * *
12813183 AAT AAT AAT AAT AAT AAT AAT AGT AAT -AT GAT -AT AAC ACCAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT
* * * *
12813227 AAT ATCT AAT AAT AAT AAT -AT AAT AAT GAT ACT -AT AAT -AT AGT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
12813270 AAT AAT AAT ACT -AT AAT -AT AAT -AT AAC AAA AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12813312 CGGTCTAATT
Statistics
Matches: 96, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
2 18 0.19
3 75 0.78
4 2 0.02
5 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12813265 original size:19 final size:19
Alignment explanation
Indices: 12813184--12813292 Score: 82
Period size: 20 Copynumber: 5.6 Consensus size: 19
12813174 AAAAAAGAAA
*
12813184 ATAATAATAATAATAATAAT
1 ATAAT-ATAATAATAATACT
* *
12813204 AGTAATATGAT-ATAACACCAT
1 A-TAATATAATAATAATA-C-T
*
12813225 ATAATAT-CTAATAATA--
1 ATAATATAATAATAATACT
*
12813241 ATAATATAATAATGATACT
1 ATAATATAATAATAATACT
12813260 ATAATATAGTAATAATAATACT
1 AT-A-ATA-TAATAATAATACT
12813282 ATAATATAATA
1 ATAATATAATA
12813293 TAACAAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
16 7 0.10
17 7 0.10
19 13 0.18
20 20 0.28
21 10 0.14
22 14 0.20
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATAATACT
Found at i:12813272 original size:22 final size:21
Alignment explanation
Indices: 12813238--12813289 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
12813228 ATATCTAATA
*
12813238 ATAATAATATAATAATGATACT
1 ATAAT-ATATAATAATAATACT
12813260 ATAATATAGTAATAATAATACT
1 ATAATATA-TAATAATAATACT
12813282 ATAATATA
1 ATAATATA
12813290 ATATAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAATATATAATAATAATACT
Found at i:12813883 original size:119 final size:118
Alignment explanation
Indices: 12813660--12813918 Score: 277
Period size: 119 Copynumber: 2.2 Consensus size: 118
12813650 ACCAAAACTA
*
12813660 AGTCGAGGTCGAAGATGACTAACCAGGATGAAATGCAAGTCAAAAAATGATCTGTATGAAATTAA
1 AGTCGAGGTCGAAGATGACTAACCAGGATGAAATGCAAGTCAAAAAATGATATGTATGAAATTAA
* * * * * * * * *
12813725 GATTGAATGACCAGGATAAAATCACGTGTTTAAAGATAAAATAATCAGGACCG
66 AATTGAATAACCAGGATAAAACCACGAGTCTAAAAATAAAACAACCAAGACCG
* * * * ** *
12813778 AGTCGAGGTCGAAGATGACTGATCAGGATTGAATTGCAAGTTAGGAAATGATATG-AGTGGAATT
1 AGTCGAGGTCGAAGATGACTAACCAGGA-TGAAATGCAAGTCAAAAAATGATATGTA-TGAAATT
* * * **
12813842 AAAATTGAATAATCAGGATGAAACCATGAGTCTAAAAATAAAACAACCAAGATTG
64 AAAATTGAATAACCAGGATAAAACCACGAGTCTAAAAATAAAACAACCAAGACCG
* *
12813897 AGTCGAGGTTGAATATGACTAA
1 AGTCGAGGTCGAAGATGACTAA
12813919 TCGAAATAGA
Statistics
Matches: 114, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
118 27 0.24
119 87 0.76
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.23
Consensus pattern (118 bp):
AGTCGAGGTCGAAGATGACTAACCAGGATGAAATGCAAGTCAAAAAATGATATGTATGAAATTAA
AATTGAATAACCAGGATAAAACCACGAGTCTAAAAATAAAACAACCAAGACCG
Found at i:12815455 original size:14 final size:14
Alignment explanation
Indices: 12815436--12815468 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12815426 CACTTTGACA
12815436 TTTTTTTTT-CATTT
1 TTTTTTTTTGC-TTT
12815450 TTTTTTTTTGCTTT
1 TTTTTTTTTGCTTT
12815464 TTTTT
1 TTTTT
12815469 AAGGTAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTGCTTT
Found at i:12818461 original size:4 final size:4
Alignment explanation
Indices: 12818454--12818505 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
12818444 AGATATATAC
* * *
12818454 AATA AATA AATG AATA ACT- AATA AATA TAAGA AATA AA-A AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA -AATA AATA AATA AATA AATA
12818501 AATA A
1 AATA A
12818506 GAGAAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 5 0.13
4 31 0.79
5 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:12818922 original size:27 final size:27
Alignment explanation
Indices: 12818883--12818937 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
12818873 ATCCCAATAG
12818883 TTTGGTAGAAATTTAAGATAATTCTCT
1 TTTGGTAGAAATTTAAGATAATTCTCT
12818910 TTTGGTA-ACAATTTAAGATAATTCTCT
1 TTTGGTAGA-AATTTAAGATAATTCTCT
12818937 T
1 T
12818938 ACTTTAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (27 bp):
TTTGGTAGAAATTTAAGATAATTCTCT
Found at i:12819250 original size:19 final size:18
Alignment explanation
Indices: 12819228--12819277 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
12819218 ATTTTGCAAG
12819228 GATTTTTTTATTTGAAAAA
1 GATTTTTTTATTT-AAAAA
*
12819247 GATTATTTTT-TAATAAAAA
1 GATT-TTTTTAT-TTAAAAA
12819266 GA-TTTTTTATTT
1 GATTTTTTTATTT
12819278 TTGTTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
17 6 0.23
18 2 0.08
19 12 0.46
20 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
GATTTTTTTATTTAAAAA
Found at i:12819781 original size:20 final size:20
Alignment explanation
Indices: 12819756--12819794 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12819746 TATTCTTCCC
12819756 AAAATTTCAAAATTTTTTAG
1 AAAATTTCAAAATTTTTTAG
12819776 AAAATTTCAAAATTTTTTA
1 AAAATTTCAAAATTTTTTA
12819795 AATTTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (20 bp):
AAAATTTCAAAATTTTTTAG
Found at i:12820259 original size:3 final size:3
Alignment explanation
Indices: 12820245--12820394 Score: 86
Period size: 3 Copynumber: 52.3 Consensus size: 3
12820235 TAAAAACAAA
* * *
12820245 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AGT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
12820292 GAT -AT AAC ACCAT -AT AAT -AT ACT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
12820335 AAC AAT ACT -GT AAT -AT AGT AAT AAT AAT ACT -AT AAAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
12820377 AAC AAA AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT A
12820395 CTATCTAATT
Statistics
Matches: 114, Mismatches: 20, Indels: 26
0.71 0.12 0.16
Matches are distributed among these distances:
2 18 0.16
3 93 0.82
4 2 0.02
5 1 0.01
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12825647 original size:9 final size:9
Alignment explanation
Indices: 12825628--12825667 Score: 66
Period size: 8 Copynumber: 4.7 Consensus size: 9
12825618 TAATTCCAAA
12825628 ATTTTTA-T
1 ATTTTTATT
12825636 ATTTTTATT
1 ATTTTTATT
12825645 ATTTTTATT
1 ATTTTTATT
12825654 A-TTTTATT
1 ATTTTTATT
12825662 ATTTTT
1 ATTTTT
12825668 CTTTTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
ATTTTTATT
Found at i:12825650 original size:17 final size:17
Alignment explanation
Indices: 12825628--12825667 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
12825618 TAATTCCAAA
12825628 ATTTTTA-TATTTTTATT
1 ATTTTTATTA-TTTTATT
12825645 ATTTTTATTATTTTATT
1 ATTTTTATTATTTTATT
12825662 ATTTTT
1 ATTTTT
12825668 CTTTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTATTATTTTATT
Found at i:12825937 original size:20 final size:21
Alignment explanation
Indices: 12825883--12825940 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 21
12825873 TTAATCATGC
12825883 AAAAATACTAAAAATAATACATA
1 AAAAATA-TAAAAA-AATACATA
12825906 AAAAATA-AAAAAAATAC-TA
1 AAAAATATAAAAAAATACATA
12825925 AAAAATATCAAAAAAA
1 AAAAATAT-AAAAAAA
12825941 AATACGGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.27
20 5 0.15
21 12 0.36
23 7 0.21
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAATATAAAAAAATACATA
Found at i:12825938 original size:19 final size:20
Alignment explanation
Indices: 12825891--12825931 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12825881 GCAAAAATAC
*
12825891 TAAAAATAATACATAAAAAA
1 TAAAAAAAATACATAAAAAA
12825911 TAAAAAAAATAC-TAAAAAA
1 TAAAAAAAATACATAAAAAA
12825930 TA
1 TA
12825932 TCAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAAAAATACATAAAAAA
Found at i:12834092 original size:232 final size:232
Alignment explanation
Indices: 12833681--12834381 Score: 1226
Period size: 232 Copynumber: 3.0 Consensus size: 232
12833671 GCTTTTGGAA
*
12833681 GAGGAAGATTTGAGGGGCTTTTCTTCAAATGTATAAAGAGAAAGAGAGAAAAAAGGCTAAAATCC
1 GAGGGAGATTTGAGGGGCTTTTCTTCAAATGTATAAAGAGAAAGAGAGAAAAAAGGCTAAAATCC
12833746 CTCAATGGCAAGACGAGATCTTGAAAATGTCCTAGATCTGCGATTGTTAGTTCTTCCTCTCTGCT
66 CTCAATGGCAAGACGAGATCTTGAAAATGTCCTAGATCTGCGATTGTTAGTTCTTCCTCTCTGCT
*
12833811 GCATCACATACAAAAACGCAAAATAACGGAACTACGATGGTACTTCCCTTCCTTTAATTGTGGGA
131 GCATCACATACAAAAACGCAAAATAACGGAACTACGATGCTACTTCCCTTCCTTTAATTGTGGGA
12833876 TTTTAGATCTCACTTCACCTGACCTTTAAAAGTCAGG
196 TTTTAGATCTCACTTCACCTGACCTTTAAAAGTCAGG
*
12833913 GAGGGAGATTTGAGGGGCTTTTCTTCAAATGTATAAAGAGAAAGAGAGAAAAAGGGCTAAAATCC
1 GAGGGAGATTTGAGGGGCTTTTCTTCAAATGTATAAAGAGAAAGAGAGAAAAAAGGCTAAAATCC
*
12833978 CTCGATGGCAAGACGAGATCTTGAAAATGTCCTAGATCTGCGATTGTTAGTTCTTCCTCTCTGCT
66 CTCAATGGCAAGACGAGATCTTGAAAATGTCCTAGATCTGCGATTGTTAGTTCTTCCTCTCTGCT
12834043 GCATCACATACAAAAACGCAAAATAACGGAACTACGATGCTACTTCCCTTCCTTTAATTGTGGGA
131 GCATCACATACAAAAACGCAAAATAACGGAACTACGATGCTACTTCCCTTCCTTTAATTGTGGGA
*
12834108 TTTTAGATCTCACTTCACCTGAACTTTAAAAGTCAGG
196 TTTTAGATCTCACTTCACCTGACCTTTAAAAGTCAGG
12834145 GAGGGAGATTTGAGGGGCTTTTCTTCAAATGTATAAAGAGAAAGAGAGAAAAAAGGCTAAAATCC
1 GAGGGAGATTTGAGGGGCTTTTCTTCAAATGTATAAAGAGAAAGAGAGAAAAAAGGCTAAAATCC
*
12834210 CTCAATGGCAAGACGAGATCTTG-AAATGTCCTAGATCTGCGATTGTTAGCTCTTCCTCTCTGCT
66 CTCAATGGCAAGACGAGATCTTGAAAATGTCCTAGATCTGCGATTGTTAGTTCTTCCTCTCTGCT
* * * * * *
12834274 ACATCACATA-GAAAACTGCAAAATAACGGAACTACGATGCTACTTCTCTTGCTTCAGTTGTGGG
131 GCATCACATACAAAAAC-GCAAAATAACGGAACTACGATGCTACTTCCCTTCCTTTAATTGTGGG
* * * *
12834338 ATTTTTGATCTTACTTCGCCCGACCTTTTAAAAGTCAGG
195 ATTTTAGATCTCACTTCACCTGACC-TTTAAAAGTCAGG
12834377 GAGGG
1 GAGGG
12834382 GCATCCTTTT
Statistics
Matches: 448, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
230 5 0.01
231 112 0.25
232 331 0.74
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (232 bp):
GAGGGAGATTTGAGGGGCTTTTCTTCAAATGTATAAAGAGAAAGAGAGAAAAAAGGCTAAAATCC
CTCAATGGCAAGACGAGATCTTGAAAATGTCCTAGATCTGCGATTGTTAGTTCTTCCTCTCTGCT
GCATCACATACAAAAACGCAAAATAACGGAACTACGATGCTACTTCCCTTCCTTTAATTGTGGGA
TTTTAGATCTCACTTCACCTGACCTTTAAAAGTCAGG
Found at i:12835125 original size:7 final size:7
Alignment explanation
Indices: 12835113--12835184 Score: 51
Period size: 7 Copynumber: 10.0 Consensus size: 7
12835103 TTGAGTTCGG
12835113 TTTTAAA
1 TTTTAAA
12835120 TTTTAAA
1 TTTTAAA
12835127 TTTTAAA
1 TTTTAAA
12835134 -TTT-AA
1 TTTTAAA
*
12835139 TTTAAAA
1 TTTTAAA
12835146 TTTAATAAA
1 TTT--TAAA
*
12835155 -TTTAAT
1 TTTTAAA
*
12835161 TTTTATA
1 TTTTAAA
12835168 TTTAATAAAA
1 TTT--T-AAA
12835178 TTTTAAA
1 TTTTAAA
12835185 ATATTTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
5 2 0.04
6 8 0.16
7 29 0.57
8 3 0.06
9 4 0.08
10 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTTAAA
Found at i:12835165 original size:34 final size:33
Alignment explanation
Indices: 12835116--12835180 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
12835106 AGTTCGGTTT
12835116 TAAATTTTAAATTTTAAATTTAATTTAAAATTTAA
1 TAAATTTTAAATTTTAAATTTAA--TAAAATTTAA
* *
12835151 TAAA-TTTAATTTTTATATTTAATAAAATTT
1 TAAATTTTAAATTTTAAATTTAATAAAATTT
12835181 TAAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 8 0.29
34 16 0.57
35 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TAAATTTTAAATTTTAAATTTAATAAAATTTAA
Found at i:12835193 original size:27 final size:27
Alignment explanation
Indices: 12835161--12835215 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
12835151 TAAATTTAAT
* *
12835161 TTTTA-TATTTAATAAAATTTTAAAATA
1 TTTTATTAATTAA-AAAATATTAAAATA
*
12835188 TTTTATTAATTAAAATATATTAAAATA
1 TTTTATTAATTAAAAAATATTAAAATA
12835215 T
1 T
12835216 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTATTAATTAAAAAATATTAAAATA
Found at i:12835231 original size:18 final size:16
Alignment explanation
Indices: 12835210--12835252 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
12835200 AAATATATTA
12835210 AAATATAAAAATTTAATT
1 AAAT-TAAAAA-TTAATT
*
12835228 AAATTCAAAAATTATTT
1 AAATT-AAAAATTAATT
12835245 AAATTAAA
1 AAATTAAA
12835253 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 11 0.48
18 9 0.39
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTAAAAATTAATT
Found at i:12835251 original size:22 final size:20
Alignment explanation
Indices: 12835216--12835275 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
12835206 ATTAAAATAT
12835216 AAAA-ATTTAATTAAATTCA
1 AAAATATTTAATTAAATTCA
*
12835235 AAAATTATTTAAATTAAATTTA
1 AAAA-TATTT-AATTAAATTCA
*
12835257 AAAATATTTTAATTTAATT
1 AAAATA-TTTAATTAAATT
12835276 TAATATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.11
21 14 0.40
22 17 0.49
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATATTTAATTAAATTCA
Found at i:12835276 original size:21 final size:22
Alignment explanation
Indices: 12835221--12835278 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
12835211 AATATAAAAA
*
12835221 TTTAATTAAATTCAAAAATTAT
1 TTTAATTAAATTTAAAAATTAT
*
12835243 TTAAATTAAATTTAAAAA-TAT
1 TTTAATTAAATTTAAAAATTAT
*
12835264 TTTAATTTAATTTAA
1 TTTAATTAAATTTAA
12835279 TATATAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAATTAAATTTAAAAATTAT
Found at i:12835792 original size:5 final size:5
Alignment explanation
Indices: 12835784--12835817 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
12835774 TTTGGTAAAA
*
12835784 ATATT ATATT ATATT CTA-T ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT
12835818 TTTCTTACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:12836012 original size:20 final size:19
Alignment explanation
Indices: 12835989--12836054 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
12835979 ATTATTAATA
12835989 ATTTAAATTAAACATTATTT
1 ATTTAAATTAAA-ATTATTT
* *
12836009 ATTTAATAATAAAATTTTTT
1 ATTTAA-ATTAAAATTATTT
**
12836029 AATTTTTATTAAAA-TATTT
1 -ATTTAAATTAAAATTATTT
12836048 ATTTAAA
1 ATTTAAA
12836055 AATATATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 5 0.14
19 4 0.11
20 18 0.50
21 9 0.25
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAAATTAAAATTATTT
Found at i:12836050 original size:12 final size:12
Alignment explanation
Indices: 12836033--12836080 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 12
12836023 TTTTTTAATT
12836033 TTTATTAAAATA
1 TTTATTAAAATA
12836045 TTTATTTAAAA-A
1 TTTA-TTAAAATA
*
12836057 TATA-TAAAATA
1 TTTATTAAAATA
12836068 --TATTAAAATA
1 TTTATTAAAATA
12836078 TTT
1 TTT
12836081 TAATTTTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
9 2 0.07
10 12 0.40
11 1 0.03
12 9 0.30
13 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTATTAAAATA
Found at i:12836135 original size:6 final size:6
Alignment explanation
Indices: 12836114--12836160 Score: 76
Period size: 6 Copynumber: 7.5 Consensus size: 6
12836104 TAATAAAATC
12836114 TTTTAA TTTATTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA -TT-TTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
12836161 AATAATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 31 0.79
7 4 0.10
8 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:12844150 original size:44 final size:44
Alignment explanation
Indices: 12844087--12844171 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
12844077 TTAGTGGCTC
12844087 TTAAATGATGTTGTAAGATGGAATCTAGACCTTGGAAACTACTT
1 TTAAATGATGTTGTAAGATGGAATCTAGACCTTGGAAACTACTT
12844131 TTAAATGATGTTGTAAGATGGAATCTAGACCTTGGAAACTA
1 TTAAATGATGTTGTAAGATGGAATCTAGACCTTGGAAACTA
12844172 TGGCCCTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (44 bp):
TTAAATGATGTTGTAAGATGGAATCTAGACCTTGGAAACTACTT
Found at i:12846018 original size:14 final size:14
Alignment explanation
Indices: 12845999--12846041 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 14
12845989 TTGATTCTTT
12845999 TGAAATTCTAAAGA
1 TGAAATTCTAAAGA
12846013 TGAAATTATTCTAAAGA
1 TG-AA--ATTCTAAAGA
12846030 TGAAATTCTAAA
1 TGAAATTCTAAA
12846042 AAATCAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.38
15 2 0.08
16 2 0.08
17 12 0.46
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.33
Consensus pattern (14 bp):
TGAAATTCTAAAGA
Found at i:12846025 original size:17 final size:17
Alignment explanation
Indices: 12846003--12846036 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12845993 TTCTTTTGAA
12846003 ATTCTAAAGATGAAATT
1 ATTCTAAAGATGAAATT
12846020 ATTCTAAAGATGAAATT
1 ATTCTAAAGATGAAATT
12846037 CTAAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
ATTCTAAAGATGAAATT
Found at i:12851944 original size:18 final size:18
Alignment explanation
Indices: 12851909--12851959 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
12851899 GGAAACATGC
* *
12851909 AAAAAAAGATAAGCAAAAA
1 AAAAAAAAAAAAG-AAAAA
12851928 AAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAGAAAAA
**
12851946 AAAGCAAAAAAAGA
1 AAAAAAAAAAAAGA
12851960 GAGAAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAAGAAAAA
Found at i:12851948 original size:22 final size:22
Alignment explanation
Indices: 12851909--12851968 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
12851899 GGAAACATGC
*
12851909 AAAAAAAGATAAGCAAAAAAAAAA
1 AAAAAAAGA-AA-AAAAAAAAAAA
**
12851933 AAAAAAAGAAAAAAAAGCAAAA
1 AAAAAAAGAAAAAAAAAAAAAA
* *
12851955 AAAGAGAGAAAAAA
1 AAAAAAAGAAAAAA
12851969 GATGAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 20 0.65
23 2 0.06
24 9 0.29
ACGTcount: A:0.83, C:0.03, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAAAAAAAA
Found at i:12851949 original size:9 final size:9
Alignment explanation
Indices: 12851923--12851970 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
12851913 AAAGATAAGC
*
12851923 AAAAAAAAA
1 AAAAAAAAG
12851932 AAAAAAAAG
1 AAAAAAAAG
12851941 AAAAAAAAG
1 AAAAAAAAG
12851950 CAAAAAAAGAG
1 -AAAAAAA-AG
*
12851961 AGAAAAAAG
1 AAAAAAAAG
12851970 A
1 A
12851971 TGAAAAATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 20 0.57
10 13 0.37
11 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:12851977 original size:11 final size:10
Alignment explanation
Indices: 12851923--12851977 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
12851913 AAAGATAAGC
12851923 AAAAAAA-A-
1 AAAAAAAGAG
*
12851931 AAAAAAAAAG
1 AAAAAAAGAG
12851941 AAAAAAA-AG
1 AAAAAAAGAG
12851950 CAAAAAAAGAG
1 -AAAAAAAGAG
12851961 AGAAAAAAGATG
1 A-AAAAAAGA-G
12851973 AAAAA
1 AAAAA
12851978 TGCTTGTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.17
9 3 0.07
10 15 0.37
11 14 0.34
12 2 0.05
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:12853224 original size:27 final size:27
Alignment explanation
Indices: 12853194--12853246 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
12853184 TTTCATGCAT
**
12853194 TATATTCATTGCATACATTCCATGTAG
1 TATATTCATCACATACATTCCATGTAG
*
12853221 TATATTTATCACATACATTCCATGTA
1 TATATTCATCACATACATTCCATGTA
12853247 TCACATTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (27 bp):
TATATTCATCACATACATTCCATGTAG
Found at i:12853534 original size:22 final size:22
Alignment explanation
Indices: 12853495--12853536 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12853485 GCATAATCTC
*
12853495 TAAGACCTCTAGATATGATCAA
1 TAAGACCTCTAGACATGATCAA
* *
12853517 TAAGACCTTTAGGCATGATC
1 TAAGACCTCTAGACATGATC
12853537 TCTAAAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (22 bp):
TAAGACCTCTAGACATGATCAA
Found at i:12855927 original size:3 final size:3
Alignment explanation
Indices: 12855887--12855993 Score: 54
Period size: 3 Copynumber: 38.3 Consensus size: 3
12855877 TAGTCTCTTA
* * * **
12855887 TAT TAT ATAG TAT TA- TAT TAG TAT CAT TAT GCT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
12855932 TA- TAT T-G TATT TAT TA- TAC TA- TAG TAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12855973 T-T TAT T-T TAT T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
12855994 TTCTTGCTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
2 19 0.24
3 56 0.71
4 4 0.05
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:12855948 original size:32 final size:33
Alignment explanation
Indices: 12855885--12855971 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 33
12855875 TATAGTCTCT
* *
12855885 TATATTATATAGTATTATATTAGTATCATTATGC
1 TATATTAT-TATTATTATATTAGTATCATTATAC
*
12855919 T-TATTATTATTATTATATT-GTATTTATTATAC
1 TATATTATTATTATTATATTAGTA-TCATTATAC
*
12855951 TATAGTATT-TTATTATTATTA
1 TATATTATTATTATTA-TATTA
12855972 TTTTATTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 3 0.07
32 25 0.56
33 16 0.36
34 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (33 bp):
TATATTATTATTATTATATTAGTATCATTATAC
Found at i:12855993 original size:5 final size:5
Alignment explanation
Indices: 12855963--12855995 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
12855953 TAGTATTTTA
12855963 TTATT ATTATT TTATT TTATT TTATT TTATT TT
1 TTATT -TTATT TTATT TTATT TTATT TTATT TT
12855996 CTTGCTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:12856830 original size:22 final size:21
Alignment explanation
Indices: 12856786--12856836 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
12856776 ATGTTTTAAG
**
12856786 TTTTATTTTATTTTGATTTTT
1 TTTTATTTTATTTTGATAGTT
12856807 TTATTATTTTATTTT-ACTAGTT
1 TT-TTATTTTATTTTGA-TAGTT
12856829 TTTTATTT
1 TTTTATTT
12856837 CATCTAGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTTTGATAGTT
Found at i:12857720 original size:4 final size:4
Alignment explanation
Indices: 12857713--12857764 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
12857703 TTCTCTTTCC
* *
12857713 TATT TATT TATT TATT T-TT TACTT ATATT TA-T TAGT TATT CATT TATT
1 TATT TATT TATT TATT TATT TA-TT -TATT TATT TATT TATT TATT TATT
12857761 TATT
1 TATT
12857765 GTCTATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 6 0.15
4 29 0.71
5 4 0.10
6 2 0.05
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:12857758 original size:25 final size:25
Alignment explanation
Indices: 12857713--12857763 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
12857703 TTCTCTTTCC
* *
12857713 TATTTATTTATTTATTTTTTACTTA
1 TATTTATTTAGTTATTATTTACTTA
*
12857738 TATTTA-TTAGTTATTCATTTATTTA
1 TATTTATTTAGTTATT-ATTTACTTA
12857763 T
1 T
12857764 TGTCTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (25 bp):
TATTTATTTAGTTATTATTTACTTA
Found at i:12866029 original size:59 final size:60
Alignment explanation
Indices: 12865929--12866060 Score: 171
Period size: 59 Copynumber: 2.2 Consensus size: 60
12865919 TCGCTTGAAC
* *
12865929 AAAA-AAAAAGAGCTTAAGTTGAAAACCCAAAAAGGTAGCTTGAACAACAA-AAAAAA-A
1 AAAAGAAAAAGAGATCAAGTTGAAAACCCAAAAAGGTAGCTTGAACAACAACAAAAAAGA
*** * *
12865986 AAAAGAGAAAAGAGATCAAGTTGAAAACTTGAAATGGTGGCTTGAACAACAACAAAAAAGA
1 AAAAGA-AAAAGAGATCAAGTTGAAAACCCAAAAAGGTAGCTTGAACAACAACAAAAAAGA
12866047 AAAAGAAAAAGAGA
1 AAAAGAAAAAGAGA
12866061 AAGTTTCAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 4 0.06
58 1 0.02
59 38 0.59
60 14 0.22
61 7 0.11
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.12
Consensus pattern (60 bp):
AAAAGAAAAAGAGATCAAGTTGAAAACCCAAAAAGGTAGCTTGAACAACAACAAAAAAGA
Found at i:12867143 original size:116 final size:116
Alignment explanation
Indices: 12866801--12867170 Score: 356
Period size: 116 Copynumber: 3.2 Consensus size: 116
12866791 CACAATCTCA
* * * * *
12866801 ACTCGATCTTGGTCATTTTTAGACTCACGGCATCATCCTAATCATCCGAT-TTCGGCTCAAGTCA
1 ACTCGATCTTGGTCACTTTTAGACTCATGGCATCATCCTAGTCATTCGATCTT-AGCTCAAGTCA
** * ** * * **
12866865 GATCATTTTTAAACACGTTGCATCATCCTGATCATTCATTCATTTGACCTCA
65 GATCATTTTTAAACTTGTAGCATTGTCCCGATCATTCATTCATTCGACCTTG
* * * * *
12866917 ACTC-AGCCTTGGTCACTTTTAGACTCATGACATCATCCTAGTCATTCAATCTTAACTCAAGTTA
1 ACTCGA-TCTTGGTCACTTTTAGACTCATGGCATCATCCTAGTCATTCGATCTTAGCTCAAGTCA
* * * * *
12866981 TATCATTTTTCAAACTTGTGGCATTGTCTCAATCATTCA--AAGTTCGACCTTG
65 GATCATTTTT-AAACTTGTAGCATTGTCCCGATCATTCATTCA-TTCGACCTTG
* *
12867033 ACTCGATCTTGGTCACTTTTAGACTCATGGCATCAT-TTCAGTCATTCGATCTTAGCTCAGGTCA
1 ACTCGATCTTGGTCACTTTTAGACTCATGGCATCATCCT-AGTCATTCGATCTTAGCTCAAGTCA
* * * * *
12867097 GATCATTTTTAGACTTGCAGCGTTGTCCCGGTCATTCATTCATTCGATCTTG
65 GATCATTTTTAAACTTGTAGCATTGTCCCGATCATTCATTCATTCGACCTTG
*
12867149 GCTCTG-TCTTGGTCACTTTTAG
1 ACTC-GATCTTGGTCACTTTTAG
12867171 GCTTACAACA
Statistics
Matches: 204, Mismatches: 41, Indels: 18
0.78 0.16 0.07
Matches are distributed among these distances:
115 24 0.12
116 155 0.76
117 25 0.12
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (116 bp):
ACTCGATCTTGGTCACTTTTAGACTCATGGCATCATCCTAGTCATTCGATCTTAGCTCAAGTCAG
ATCATTTTTAAACTTGTAGCATTGTCCCGATCATTCATTCATTCGACCTTG
Found at i:12867495 original size:3 final size:3
Alignment explanation
Indices: 12867489--12867548 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
12867479 ATCATTTTGC
12867489 TTA TTA TTA TTA -TA TTA -TA TTTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
12867532 TTA TT- TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TT
12867549 TTTTTGCTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
2 12 0.24
3 37 0.73
4 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:12867512 original size:14 final size:16
Alignment explanation
Indices: 12867493--12867532 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
12867483 TTTTGCTTAT
12867493 TATTATTATATTA-TA
1 TATTATTATATTATTA
12867508 T-TTATTATTATTATTA
1 TATTATTA-TATTATTA
12867524 TATTATTAT
1 TATTATTAT
12867533 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 6 0.27
16 4 0.18
17 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTATTATATTATTA
Found at i:12867514 original size:17 final size:16
Alignment explanation
Indices: 12867490--12867548 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
12867480 TCATTTTGCT
12867490 TATTATTATTATATTA
1 TATTATTATTATATTA
12867506 TATTTATTATTATTATTA
1 TA-TTATTATTA-TATTA
* *
12867524 TATTATTATTATTTTT
1 TATTATTATTATATTA
12867540 TATT-TTATT
1 TATTATTATT
12867549 TTTTTGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 18 0.46
18 7 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTATTATTATATTA
Found at i:12867547 original size:23 final size:23
Alignment explanation
Indices: 12867489--12867548 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
12867479 ATCATTTTGC
*
12867489 TTATTATTATTATATTA-TATTTA
1 TTATTATTATTTTATTATTA-TTA
*
12867512 TTATTATTATTATATTATTATTA
1 TTATTATTATTTTATTATTATTA
12867535 TT-TT-TTATTTTATT
1 TTATTATTATTTTATT
12867549 TTTTTGCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 9 0.26
22 2 0.06
23 22 0.63
24 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTATTATTTTATTATTATTA
Found at i:12868118 original size:19 final size:20
Alignment explanation
Indices: 12868089--12868129 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
12868079 AGTTTTTAAT
12868089 GAAATTCGATGAAATTTCTA
1 GAAATTCGATGAAATTTCTA
*
12868109 GAAA-TCGATGAAGTTTCTA
1 GAAATTCGATGAAATTTCTA
12868128 GA
1 GA
12868130 TTTTGGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
GAAATTCGATGAAATTTCTA
Found at i:12868367 original size:19 final size:18
Alignment explanation
Indices: 12868343--12868383 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
12868333 ACAAGGTTTC
12868343 TTTTTTCATTTTCATTGTA
1 TTTTTTCATTTTCATT-TA
*
12868362 TTTTTTTATTTTCATTTA
1 TTTTTTCATTTTCATTTA
12868380 TTTT
1 TTTT
12868384 CATGTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTCATTTTCATTTA
Found at i:12868381 original size:10 final size:10
Alignment explanation
Indices: 12868350--12868386 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12868340 TTCTTTTTTC
12868350 ATTTTCATTGT
1 ATTTTCATT-T
12868361 ATTTT--TTT
1 ATTTTCATTT
12868369 ATTTTCATTT
1 ATTTTCATTT
12868379 ATTTTCAT
1 ATTTTCAT
12868387 GTTTTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 11 0.46
11 5 0.21
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (10 bp):
ATTTTCATTT
Found at i:12868391 original size:18 final size:19
Alignment explanation
Indices: 12868350--12868391 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
12868340 TTCTTTTTTC
**
12868350 ATTTTCATTGTATTTTTTT
1 ATTTTCATTGTATTTTCAT
12868369 ATTTTCATT-TATTTTCAT
1 ATTTTCATTGTATTTTCAT
*
12868387 GTTTT
1 ATTTT
12868392 AAGTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (19 bp):
ATTTTCATTGTATTTTCAT
Found at i:12868391 original size:25 final size:24
Alignment explanation
Indices: 12868363--12868428 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 24
12868353 TTCATTGTAT
12868363 TTTTTTATTTTCATTTATTTTCATG
1 TTTTTTATTTT-ATTTATTTTCATG
* *
12868388 -TTTTAAGTTTTATTTTATTTTCATT
1 TTTTTTA-TTTTA-TTTATTTTCATG
12868413 TTTTATTATTTTATTT
1 TTTT-TTATTTTATTT
12868429 TACTAGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 6 0.18
25 18 0.53
26 8 0.24
27 2 0.06
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (24 bp):
TTTTTTATTTTATTTATTTTCATG
Found at i:12868423 original size:21 final size:24
Alignment explanation
Indices: 12868397--12868443 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 24
12868387 GTTTTAAGTT
12868397 TTATTTTATTTT-C-A-TTTTTTA
1 TTATTTTATTTTACTAGTTTTTTA
12868418 TTATTTTATTTTACTAGTTTTTTA
1 TTATTTTATTTTACTAGTTTTTTA
12868442 TT
1 TT
12868444 TCATCTAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.52
22 1 0.04
23 1 0.04
24 9 0.39
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (24 bp):
TTATTTTATTTTACTAGTTTTTTA
Found at i:12871194 original size:19 final size:19
Alignment explanation
Indices: 12871170--12871215 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
12871160 ACAAAAGAGT
12871170 AAGTGTCTTGTCCCTTTCA
1 AAGTGTCTTGTCCCTTTCA
*
12871189 AAGTGTCTTGTCCTTTTCA
1 AAGTGTCTTGTCCCTTTCA
*
12871208 AAATGTCT
1 AAGTGTCT
12871216 ATCTAATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
AAGTGTCTTGTCCCTTTCA
Found at i:12872924 original size:19 final size:19
Alignment explanation
Indices: 12872902--12872939 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12872892 TTCTTTCCCT
12872902 TTTGGTTGGTTTGGACATC
1 TTTGGTTGGTTTGGACATC
12872921 TTTGGTTGGTTTGGACATC
1 TTTGGTTGGTTTGGACATC
12872940 ACCATGGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.32, T:0.47
Consensus pattern (19 bp):
TTTGGTTGGTTTGGACATC
Found at i:12886418 original size:22 final size:22
Alignment explanation
Indices: 12886390--12886453 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 22
12886380 AATGATAAGT
12886390 AAAATAACAAATAAAAAGAA-TA
1 AAAATAA-AAATAAAAAGAATTA
*
12886412 AAAATAAGAATAAAGTAAAAAGAATTT
1 AAAAT---AA-AAA-TAAAAAGAATTA
12886439 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
12886454 TCAAAGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
22 10 0.29
23 3 0.09
24 2 0.06
25 5 0.14
26 9 0.26
27 6 0.17
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (22 bp):
AAAATAAAAATAAAAAGAATTA
Found at i:12886434 original size:26 final size:27
Alignment explanation
Indices: 12886401--12886477 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 27
12886391 AAATAACAAA
*
12886401 TAAAAAGAA-TAAAAATAAGAATAAAG
1 TAAAAAGAATTAAAAATAAAAATAAAG
* *
12886427 TAAAAAGAATTTAAAATAAAAATAAAA
1 TAAAAAGAATTAAAAATAAAAATAAAG
* * *
12886454 T-CAAAGAAAT-AAAATCAAAATAAA
1 TAAAAAGAATTAAAAATAAAAATAAA
12886478 ATGAAAAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 13 0.30
26 16 0.36
27 15 0.34
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (27 bp):
TAAAAAGAATTAAAAATAAAAATAAAG
Found at i:12886452 original size:11 final size:11
Alignment explanation
Indices: 12886408--12886485 Score: 52
Period size: 11 Copynumber: 6.7 Consensus size: 11
12886398 AAATAAAAAG
12886408 AATAAAAATAA
1 AATAAAAATAA
*
12886419 GAAT-AAAGTAA
1 -AATAAAAATAA
**
12886430 AA-AGAATTTAA
1 AATA-AAAATAA
12886441 AATAAAAATAA
1 AATAAAAATAA
12886452 AATCAAAGAAATAA
1 AAT--AA-AAATAA
*
12886466 AATCAAAATAA
1 AATAAAAATAA
12886477 AATGAAAAA
1 AAT-AAAAA
12886486 AGAAAAGCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
10 2 0.04
11 30 0.58
12 9 0.17
13 2 0.04
14 9 0.17
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:12886465 original size:14 final size:14
Alignment explanation
Indices: 12886446--12886472 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12886436 TTTAAAATAA
12886446 AAATAAAATCAAAG
1 AAATAAAATCAAAG
12886460 AAATAAAATCAAA
1 AAATAAAATCAAA
12886473 ATAAAATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAATAAAATCAAAG
Found at i:12886497 original size:25 final size:25
Alignment explanation
Indices: 12886445--12886497 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
12886435 ATTTAAAATA
* *
12886445 AAAATAAAATCAAAGAAATAAAATC
1 AAAATAAAATCAAAGAAAGAAAACC
*
12886470 AAAATAAAATGAAA-AAAGAAAAGCC
1 AAAATAAAATCAAAGAAAGAAAA-CC
12886495 AAA
1 AAA
12886498 CCTTGCGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.11
Consensus pattern (25 bp):
AAAATAAAATCAAAGAAAGAAAACC
Found at i:12887734 original size:18 final size:18
Alignment explanation
Indices: 12887711--12887769 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
12887701 AGTAAAGTTT
*
12887711 GGTTTGATTTTGATTTAG
1 GGTTTGATTTTGGTTTAG
**
12887729 GGTTTGAAGTTGGTTT--
1 GGTTTGATTTTGGTTTAG
*
12887745 GGTTTGGTTTTGGTTTAG
1 GGTTTGATTTTGGTTTAG
12887763 GGTTTGA
1 GGTTTGA
12887770 GGTTAGGGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
16 13 0.41
18 19 0.59
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.53
Consensus pattern (18 bp):
GGTTTGATTTTGGTTTAG
Found at i:12887779 original size:20 final size:20
Alignment explanation
Indices: 12887756--12887820 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
12887746 GTTTGGTTTT
12887756 GGTTTAGGGTTTGAGGTTAG
1 GGTTTAGGGTTTGAGGTTAG
* *
12887776 GGTTTGGGGATTT-AGTTTAG
1 GGTTTAGGG-TTTGAGGTTAG
*
12887796 GGTTTAGAGTTTG-GGTTTAG
1 GGTTTAGGGTTTGAGG-TTAG
12887816 GGTTT
1 GGTTT
12887821 GCATGAGGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.11
20 30 0.81
21 3 0.08
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.45
Consensus pattern (20 bp):
GGTTTAGGGTTTGAGGTTAG
Found at i:12887820 original size:13 final size:13
Alignment explanation
Indices: 12887750--12887821 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 13
12887740 GGTTTGGTTT
*
12887750 GGTTTTGGTTTAG
1 GGTTTGGGTTTAG
12887763 GGTTTGAGG-TTAG
1 GGTTTG-GGTTTAG
12887776 GGTTTGGGGATTTA-
1 GGTTT-GGG-TTTAG
12887790 -GTTTAGGGTTTAG
1 GGTTT-GGGTTTAG
*
12887803 AGTTTGGGTTTAG
1 GGTTTGGGTTTAG
12887816 GGTTTG
1 GGTTTG
12887822 CATGAGGGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.08
13 36 0.72
14 7 0.14
15 3 0.06
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (13 bp):
GGTTTGGGTTTAG
Found at i:12887837 original size:7 final size:7
Alignment explanation
Indices: 12887756--12887820 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
12887746 GTTTGGTTTT
12887756 GGTTTAG
1 GGTTTAG
12887763 GGTTT-G
1 GGTTTAG
12887769 AGG-TTAG
1 -GGTTTAG
*
12887776 GGTTTGG
1 GGTTTAG
12887783 GGATTTA-
1 GG-TTTAG
12887790 -GTTTAG
1 GGTTTAG
12887796 GGTTTAG
1 GGTTTAG
*
12887803 AGTTT-G
1 GGTTTAG
12887809 GGTTTAG
1 GGTTTAG
12887816 GGTTT
1 GGTTT
12887821 GCATGAGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
5 4 0.09
6 11 0.23
7 29 0.62
8 3 0.06
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:12889447 original size:143 final size:141
Alignment explanation
Indices: 12889297--12889636 Score: 361
Period size: 141 Copynumber: 2.4 Consensus size: 141
12889287 CATGATTTGG
*
12889297 AGCTTTTTTTGAAAAACCAACCTCAAGAATGTCAAATTATAAAAATA-TCCTTAAAAGGCATTTT
1 AGCTTTTTATGAAAAACCAACCTCAA-AA-GTCAAATTATAAAAATACTCC-TAAAAGGCATTTT
*
12889361 -AGTAATTTTATACCTTCTAAAGTACGATTAAGGTTTTTAATGCAT-AAGAAGTATGAAATAATA
63 GA-TAATTTCATACCTTCTAAAGTACGATTAAGGTTTTTAATGCATCAA-AAGTATGAAATAATA
*
12889424 T-AACAACATCATCTAA
126 TCAA-AACATCAACTAA
* * * * ** * *
12889440 AGTTTTTTGTGAAAATGACC-A-C-AAAAAGGTTAAATTACGAAAATACTCCTAAAGGGTATTTT
1 AGCTTTTTATGAAAA--ACCAACCTCAAAA-GTCAAATTATAAAAATACTCCTAAAAGGCATTTT
* * * *
12889502 GATAATTTCATATCTTTTAAGGTACGATTAAGGTTTTTAATGCATCAAAATTATGAAATAATATC
63 GATAATTTCATACCTTCTAAAGTACGATTAAGGTTTTTAATGCATCAAAAGTATGAAATAATATC
*
12889567 AAAACATCAACTGA
128 AAAACATCAACTAA
* * *
12889581 AGCTTTTTACGAAAAACCTACCTTGAAAAGATCAAATTATAAAAATACTCCTAAAA
1 AGCTTTTTATGAAAAACCAACC-TCAAAAG-TCAAATTATAAAAATACTCCTAAAA
12889637 CATAGGGATA
Statistics
Matches: 162, Mismatches: 24, Indels: 22
0.78 0.12 0.11
Matches are distributed among these distances:
139 3 0.02
140 1 0.01
141 104 0.64
142 11 0.07
143 39 0.24
144 1 0.01
145 3 0.02
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (141 bp):
AGCTTTTTATGAAAAACCAACCTCAAAAGTCAAATTATAAAAATACTCCTAAAAGGCATTTTGAT
AATTTCATACCTTCTAAAGTACGATTAAGGTTTTTAATGCATCAAAAGTATGAAATAATATCAAA
ACATCAACTAA
Found at i:12893479 original size:3 final size:3
Alignment explanation
Indices: 12893471--12893497 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12893461 CGCAAATAGA
12893471 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
12893498 TTAAGACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12896947 original size:40 final size:40
Alignment explanation
Indices: 12896850--12896940 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
12896840 CTCCTTTAAG
* ** *
12896850 ATGAAGGCACACAATTTTAAAAATTAAAAGCTTTTTCAAT
1 ATGAAGGCACACAACTTTAAAAATTAAAAGCTCATTCAAC
* * **
12896890 ATGAAGGTACATAACTTTAAAAATTAAGGGCTCATTCAAC
1 ATGAAGGCACACAACTTTAAAAATTAAAAGCTCATTCAAC
12896930 ATGAAGGCACA
1 ATGAAGGCACA
12896941 AGACTTTTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (40 bp):
ATGAAGGCACACAACTTTAAAAATTAAAAGCTCATTCAAC
Found at i:12896974 original size:105 final size:106
Alignment explanation
Indices: 12896864--12897054 Score: 251
Period size: 106 Copynumber: 1.8 Consensus size: 106
12896854 AGGCACACAA
* * ** * * **
12896864 TTTTAAAAATTAAAAGCTTTTTCAATATGAAGGTACATAAC-TTTAAAAATTAAGGGCTCATTCA
1 TTTTAAAAATCAAAAGCTTCTTCAATACAAAGGCACACAACTTTTAAAAATTAAAAGCTCATTCA
**
12896928 ACATGAAGGCACA-AGACTTTTTCAACACAAAGACACAAAAC
66 ACACAAAGGCACACA-ACTTTTTCAACACAAAGACACAAAAC
* *
12896969 TTTTAAAAATCGAAAGCTTCTTCAATACAAAGGCACACAACTTTTAAAAATTAAAAGCTCTTTCA
1 TTTTAAAAATCAAAAGCTTCTTCAATACAAAGGCACACAACTTTTAAAAATTAAAAGCTCATTCA
12897034 ACACAAAGGCACACAACTTTT
66 ACACAAAGGCACACAACTTTT
12897055 AAAAATTAAG
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
105 34 0.47
106 37 0.51
107 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (106 bp):
TTTTAAAAATCAAAAGCTTCTTCAATACAAAGGCACACAACTTTTAAAAATTAAAAGCTCATTCA
ACACAAAGGCACACAACTTTTTCAACACAAAGACACAAAAC
Found at i:12897061 original size:41 final size:40
Alignment explanation
Indices: 12896946--12897063 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 40
12896936 GCACAAGACT
* * **
12896946 TTTTCAACACAAAGACACAAAACTTTTAAAAATCGAAAGC
1 TTTTCAACACAAAGGCACACAACTTTTAAAAATTAAAAGC
*
12896986 TTCTTCAATACAAAGGCACACAACTTTTAAAAATTAAAAGC
1 TT-TTCAACACAAAGGCACACAACTTTTAAAAATTAAAAGC
12897027 TCTTTCAACACAAAGGCACACAACTTTTAAAAATTAA
1 T-TTTCAACACAAAGGCACACAACTTTTAAAAATTAA
12897064 GGGCAGCACC
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
40 2 0.03
41 67 0.96
42 1 0.01
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (40 bp):
TTTTCAACACAAAGGCACACAACTTTTAAAAATTAAAAGC
Found at i:12898402 original size:15 final size:16
Alignment explanation
Indices: 12898382--12898411 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12898372 GAGCCTAATT
12898382 TTTCTTTT-TCTTTTA
1 TTTCTTTTCTCTTTTA
12898397 TTTCTTTTCTCTTTT
1 TTTCTTTTCTCTTTT
12898412 TTTTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTCTTTTCTCTTTTA
Found at i:12898404 original size:20 final size:20
Alignment explanation
Indices: 12898381--12898418 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12898371 AGAGCCTAAT
12898381 TTTTCT-TTTTCTTTTATTTC
1 TTTTCTCTTTT-TTTTATTTC
12898401 TTTTCTCTTTTTTTTATT
1 TTTTCTCTTTTTTTTATT
12898419 ATTATTCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTCTTTTTTTTATTTC
Found at i:12898412 original size:22 final size:22
Alignment explanation
Indices: 12898380--12898421 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12898370 TAGAGCCTAA
12898380 TTTTTCTTTTTCTT-TTATTTC
1 TTTTTCTTTTTCTTATTATTTC
*
12898401 TTTTCTCTTTTTTTTATTATT
1 TTTT-TCTTTTTCTTATTATT
12898422 ATTCCACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTTCTTATTATTTC
Found at i:12903002 original size:20 final size:20
Alignment explanation
Indices: 12902961--12903025 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
12902951 TTGATTTTAA
* *
12902961 TTATTTAATTATTAATGT-TT
1 TTATTTAATT-TTCATTTATT
12902981 TTATTTAATTTTCATTTATTT
1 TTATTTAATTTTCATTTA-TT
*
12903002 TTATTTTGA-TTTC-TTTATT
1 TTA-TTTAATTTTCATTTATT
12903021 TTATT
1 TTATT
12903026 AAAAATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 14 0.36
21 9 0.23
22 4 0.10
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTATTTAATTTTCATTTATT
Found at i:12904575 original size:61 final size:61
Alignment explanation
Indices: 12904491--12904611 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
12904481 TAGTAAAATT
* * *
12904491 TCACAAATTAGCACTATAAATGATGGAATTATGGAATACATAAAAATTAGTAAATTAAAAC
1 TCACAAATTAGCACCATAAATGATGGAATTATGAAATACATAAAAATTAGTAAACTAAAAC
** * *
12904552 TCACAAATTCTCACCATAGATGATGGAATTATGAAATACATAAAACTTAGTAAACTAAAA
1 TCACAAATTAGCACCATAAATGATGGAATTATGAAATACATAAAAATTAGTAAACTAAAA
12904612 TTCAAACATC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (61 bp):
TCACAAATTAGCACCATAAATGATGGAATTATGAAATACATAAAAATTAGTAAACTAAAAC
Found at i:12905065 original size:15 final size:13
Alignment explanation
Indices: 12905015--12905086 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
12905005 AAATGAAATT
12905015 ATAAAATATTAACAA
1 ATAAAATA-TAAC-A
*
12905030 ATAATATATAACA
1 ATAAAATATAACA
*
12905043 ATAAAATATAATA
1 ATAAAATATAACA
12905056 ACTAACAATAT-AC-
1 A-TAA-AATATAACA
*
12905069 -TAAAATAGAA-A
1 ATAAAATATAACA
12905080 ATAAAAT
1 ATAAAAT
12905087 TGCATAACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
10 4 0.09
11 4 0.09
12 6 0.13
13 13 0.28
14 8 0.17
15 12 0.26
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.26
Consensus pattern (13 bp):
ATAAAATATAACA
Found at i:12910160 original size:146 final size:142
Alignment explanation
Indices: 12909906--12910304 Score: 455
Period size: 146 Copynumber: 2.8 Consensus size: 142
12909896 GGGAAGTACA
* * * * * ** *
12909906 AAATTACCAAAATACCCTATAAGGGCATTTTCATAATTTATCTTTCTCGAGCTTGAATTTTCATG
1 AAATTATCAAAATACCCTATAAAGGTATTTTCGTAATTTA-CCTTCTCGAGCTCAAATTTTTATG
* * * * * *
12909971 AAACTTTTTAGACCTTACTTTCATAATATTTCATGATTTTTGGTGTATTTGAAATCACAATAGTA
65 AAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAA-CACAACAATA
* *
12910036 CCCT-AAGAAGTGTG
129 CCCTGAA-AAATATG
* *
12910050 AAATTATCAAAATACCTCTATAAAGGTATTTCTTGTAATTTGGCCTTCTCGAGCTCAAATTTTTA
1 AAATTATCAAAATACC-CTATAAAGGTATTT-TCGTAATTT-ACCTTCTCGAGCTCAAATTTTTA
* *
12910115 TGAAACTTTTCAGATCTTAATTTCATAATATTTTATAATTTTTGGTGCATTTGAAACACAACAAT
63 TGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAACACAACAAT
*
12910180 ACCTTGAAAAATATG
128 ACCCTGAAAAATATG
*
12910195 AAATTATCAAAATACCCT-TATAAGGTTATTTTCGTAATTTACCTTCAT-GAGCTCAGATTTTTA
1 AAATTATCAAAATACCCTATA-AAGG-TATTTTCGTAATTTACCTTC-TCGAGCTCAAATTTTTA
* * * *
12910258 TGAAA-TTTTGATATCATAATTTTATAATATTTCATGATTTTTGGTGC
63 TGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGC
12910305 TTTAAAATCC
Statistics
Matches: 218, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
142 36 0.17
143 26 0.12
144 30 0.14
145 49 0.22
146 77 0.35
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (142 bp):
AAATTATCAAAATACCCTATAAAGGTATTTTCGTAATTTACCTTCTCGAGCTCAAATTTTTATGA
AACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAACACAACAATACC
CTGAAAAATATG
Found at i:12912185 original size:2 final size:2
Alignment explanation
Indices: 12912178--12912220 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
12912168 TGTATACTTT
* * * *
12912178 TA TA TA TA TG TA TG TA TA TA TA AA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12912220 T
1 T
12912221 CTAACAATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:12913906 original size:3 final size:3
Alignment explanation
Indices: 12913890--12913961 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
12913880 TAATTCTTTC
* * * *
12913890 TAA TAA TAG CAA TAA TAG TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
12913938 TAA CAA CAA CAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
12913962 AAGGGAAACA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:12913917 original size:15 final size:15
Alignment explanation
Indices: 12913890--12913958 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
12913880 TAATTCTTTC
*
12913890 TAATAATAGCAATAA
1 TAATAATAACAATAA
*
12913905 TAGTAATAACAATAA
1 TAATAATAACAATAA
*
12913920 TAATAATAATAATAA
1 TAATAATAACAATAA
* *
12913935 TAATAACAACAACAA
1 TAATAATAACAATAA
*
12913950 TAGTAATAA
1 TAATAATAA
12913959 TAAAAGGGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.26
Consensus pattern (15 bp):
TAATAATAACAATAA
Found at i:12914043 original size:3 final size:3
Alignment explanation
Indices: 12914035--12914074 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
12914025 TTTTGTACTG
12914035 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12914075 GAAGTGCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12924235 original size:23 final size:23
Alignment explanation
Indices: 12924209--12924253 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12924199 TTTGCCTAGA
12924209 AAAAAAAT-AACAAACAAATAAAC
1 AAAAAAATGAACAAA-AAATAAAC
*
12924232 AAAAAAATGAATAAAAAATAAA
1 AAAAAAATGAACAAAAAATAAA
12924254 AGAGGACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (23 bp):
AAAAAAATGAACAAAAAATAAAC
Found at i:12924727 original size:63 final size:63
Alignment explanation
Indices: 12924631--12924760 Score: 215
Period size: 63 Copynumber: 2.1 Consensus size: 63
12924621 AATGTTAATT
* * *
12924631 CATTACATTATTCATGGAATTTGGAATATGATAAATGATTGACGATATTCGTAAAAGGTTTTA
1 CATTACATTATTCATGAAATTTGGAATATGATAAATGATTGACAATATTCATAAAAGGTTTTA
* *
12924694 CATTACATTATTCATGAAATTTGGTATATGATAAATGATTGATAATATTCATAAAAGGTTTTA
1 CATTACATTATTCATGAAATTTGGAATATGATAAATGATTGACAATATTCATAAAAGGTTTTA
12924757 CATT
1 CATT
12924761 TTTTGTGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (63 bp):
CATTACATTATTCATGAAATTTGGAATATGATAAATGATTGACAATATTCATAAAAGGTTTTA
Found at i:12925336 original size:11 final size:13
Alignment explanation
Indices: 12925310--12925342 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
12925300 AAGGGGAGCC
12925310 ATTTTCAAACAAG
1 ATTTTCAAACAAG
12925323 ATTTT-AAA-AAG
1 ATTTTCAAACAAG
12925334 ATTTTCAAA
1 ATTTTCAAA
12925343 GCCCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 6 0.32
13 5 0.26
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (13 bp):
ATTTTCAAACAAG
Found at i:12925340 original size:53 final size:51
Alignment explanation
Indices: 12925266--12925385 Score: 147
Period size: 53 Copynumber: 2.3 Consensus size: 51
12925256 GAGAAAAGAA
*
12925266 AAACAAGATTTT-TAAAGTTTCAAAA-CCTCTATTTAAGGGG-AGCCATTTTC
1 AAACAAGATTTTAAAAAGTTTCAAAACCCT-TATTT-AGGGGAAGCCATTTTC
*
12925316 AAACAAGATTTTAAAAAGATTTTCAAAGCCCTTATTTAGGGGAAGCCATTTTC
1 AAACAAGATTTTAAAAAG--TTTCAAAACCCTTATTTAGGGGAAGCCATTTTC
12925369 AAACAAGAACTTTTAAA
1 AAACAAG-A-TTTTAAA
12925386 GCTTTAATAC
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
50 12 0.20
51 4 0.07
52 5 0.08
53 29 0.48
54 4 0.07
55 7 0.11
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (51 bp):
AAACAAGATTTTAAAAAGTTTCAAAACCCTTATTTAGGGGAAGCCATTTTC
Found at i:12926304 original size:145 final size:145
Alignment explanation
Indices: 12926097--12926506 Score: 442
Period size: 145 Copynumber: 2.8 Consensus size: 145
12926087 GAGAAGTACA
* * * * * * * *
12926097 AAATTTCCAAAATGCCATT-TAAA-GGTATTTTCGTAATTTTCCTTTTTGAAGCTTAGACTTTCA
1 AAATTACCAAAATACCCTTATAAAGGGTATTTTTGTAATTTGCCTTTATG-AGCTCAGATTTTCA
* * * **
12926160 TAAAAATTTTCAAATCTTATTTTCATAATATTTCTTGATTTTTTATGCATTTGAAATCATAGTAG
65 TAAAAATTTTCAAATCTTATTTTCATAATATTTCATGATTTTTTATGCATTTAAAATCACAACAG
* * *
12926225 TACCTCGAGAAGTGTG
130 TACCCCAAAAAGTGTG
*
12926241 AAATTACCAAAATATCCTTAT-AAGGGTATTTTTGTAATTTGGCCTTTATGAGCTCAGATTTTCA
1 AAATTACCAAAATACCCTTATAAAGGGTATTTTTGTAATTT-GCCTTTATGAGCTCAGATTTTCA
* * * * * * *
12926305 TGAAACTTTGCAGATCTTATGTTCATAATATTTCATGATTTTTGATGCATTTTAAATCACAACAG
65 TAAAAATTTTCAAATCTTATTTTCATAATATTTCATGATTTTTTATGCATTTAAAATCACAACAG
12926370 TACCCCAAAAAGTGTG
130 TACCCCAAAAAGTGTG
**
12926386 AAATTACCAAAATACCCTTATAAAGGGTATTTTTGTAATTTGCCATTCCCT-A-CTC-GAATTTT
1 AAATTACCAAAATACCCTTATAAAGGGTATTTTTGTAATTTGCC-TT-TATGAGCTCAG-ATTTT
* *
12926448 CATGAAAAATTTT-AAATCTCAATTTT-ATAATATTTCATGATTTTTTGTG-ATTTAAAATC
63 CAT-AAAAATTTTCAAATCT-TATTTTCATAATATTTCATGATTTTTTATGCATTTAAAATC
12926507 CCAAAAATGA
Statistics
Matches: 222, Mismatches: 35, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
144 27 0.12
145 155 0.70
146 39 0.18
147 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (145 bp):
AAATTACCAAAATACCCTTATAAAGGGTATTTTTGTAATTTGCCTTTATGAGCTCAGATTTTCAT
AAAAATTTTCAAATCTTATTTTCATAATATTTCATGATTTTTTATGCATTTAAAATCACAACAGT
ACCCCAAAAAGTGTG
Found at i:12928394 original size:3 final size:3
Alignment explanation
Indices: 12928386--12928428 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
12928376 GTATGTATAT
12928386 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12928429 AATTAAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12931234 original size:21 final size:22
Alignment explanation
Indices: 12931210--12931263 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
12931200 AAACCAGAGG
* *
12931210 AAAAATGAAAAAT-AGAGGAAAA
1 AAAAAAGAAAAATCAGAAG-AAA
*
12931232 AAAAAAGAAAAATCATAAG-AA
1 AAAAAAGAAAAATCAGAAGAAA
12931253 AAAAAAGAAAA
1 AAAAAAGAAAA
12931264 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.46
22 12 0.43
23 3 0.11
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (22 bp):
AAAAAAGAAAAATCAGAAGAAA
Found at i:12931241 original size:22 final size:23
Alignment explanation
Indices: 12931210--12931258 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
12931200 AAACCAGAGG
* *
12931210 AAAAATGAAAAAT-AGAGGAAAA
1 AAAAAAGAAAAATCAGAAGAAAA
*
12931232 AAAAAAGAAAAATCATAAGAAAA
1 AAAAAAGAAAAATCAGAAGAAAA
12931255 AAAA
1 AAAA
12931259 GAAAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAAAAGAAAAATCAGAAGAAAA
Found at i:12932272 original size:7 final size:7
Alignment explanation
Indices: 12932262--12932295 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
12932252 CCTAAACAAG
12932262 ACCCTAA
1 ACCCTAA
12932269 ACCCTAA
1 ACCCTAA
12932276 ACCCT-A
1 ACCCTAA
12932282 A-CCTAA
1 ACCCTAA
12932288 ACCCTAA
1 ACCCTAA
12932295 A
1 A
12932296 GCCAATCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 3 0.12
6 4 0.16
7 18 0.72
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:12932286 original size:12 final size:12
Alignment explanation
Indices: 12932247--12932294 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
12932237 CTTAAATTCT
*
12932247 TAAACCCTAAAC
1 TAAACCCTAACC
12932259 -AAGACCCTAAACCC
1 TAA-ACCCT-AA-CC
12932273 TAAACCCTAACC
1 TAAACCCTAACC
12932285 TAAACCCTAA
1 TAAACCCTAA
12932295 AGCCAATCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 2 0.06
12 17 0.55
13 4 0.13
14 6 0.19
15 2 0.06
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.15
Consensus pattern (12 bp):
TAAACCCTAACC
Found at i:12932286 original size:19 final size:19
Alignment explanation
Indices: 12932264--12932315 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
12932254 TAAACAAGAC
12932264 CCTAAACCCTAAACCCTAA-
1 CCTAAACCCTAAACCC-AAT
*
12932283 CCTAAACCCTAAAGCCAAT
1 CCTAAACCCTAAACCCAAT
12932302 CCTCAAACCCTAAA
1 CCT-AAACCCTAAA
12932316 ATCAATCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 18 0.60
20 10 0.33
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.15
Consensus pattern (19 bp):
CCTAAACCCTAAACCCAAT
Found at i:12939584 original size:3 final size:3
Alignment explanation
Indices: 12939571--12939607 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
12939561 AGTGCGTGCT
* *
12939571 TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12939608 ATAAAACTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12943120 original size:2 final size:2
Alignment explanation
Indices: 12943113--12943157 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
12943103 TGGATCCCTC
*
12943113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12943155 AT A
1 AT A
12943158 CGCATTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12943167 original size:14 final size:14
Alignment explanation
Indices: 12943119--12943168 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
12943109 CCTCATATAT
* *
12943119 ATATATATATATAT
1 ATATATATATACAC
*
12943133 ATATATATATATAC
1 ATATATATATACAC
*
12943147 ATATATATATACGC
1 ATATATATATACAC
*
12943161 ATTTATAT
1 ATATATAT
12943169 GAGGGATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (14 bp):
ATATATATATACAC
Found at i:12943375 original size:2 final size:2
Alignment explanation
Indices: 12943368--12943396 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12943358 ATTTCTCCTC
12943368 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 A
12943397 ATAGGCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12950972 original size:30 final size:32
Alignment explanation
Indices: 12950938--12951003 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 32
12950928 TATAGTATTC
*
12950938 TTTTTCA-TGAAATTTATTATTTGA-TCC-TCT
1 TTTTTCATTG-AATTTACTATTTGATTCCTTCT
12950968 TTTTTCATTGAATTTACTATTTGATTCCTTCT
1 TTTTTCATTGAATTTACTATTTGATTCCTTCT
12951000 TTTT
1 TTTT
12951004 ATACCTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 20 0.62
31 5 0.16
32 7 0.22
ACGTcount: A:0.20, C:0.14, G:0.06, T:0.61
Consensus pattern (32 bp):
TTTTTCATTGAATTTACTATTTGATTCCTTCT
Found at i:12951358 original size:2 final size:2
Alignment explanation
Indices: 12951351--12951376 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12951341 TTATTGCAAG
12951351 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
12951377 GTTACACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12952917 original size:13 final size:13
Alignment explanation
Indices: 12952899--12952923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12952889 TTTCACAATA
12952899 AGTAAAGATAAAC
1 AGTAAAGATAAAC
12952912 AGTAAAGATAAA
1 AGTAAAGATAAA
12952924 ACAAAGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGTAAAGATAAAC
Found at i:12952993 original size:15 final size:14
Alignment explanation
Indices: 12952969--12953013 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
12952959 AAATTAGGAT
12952969 AAATAAGATAAATA
1 AAATAAGATAAATA
12952983 AAATAAAGATAAATA
1 AAAT-AAGATAAATA
*
12952998 AGAT-AGATCAAATA
1 AAATAAGAT-AAATA
12953012 AA
1 AA
12953014 TCAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.15
14 10 0.37
15 13 0.48
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.20
Consensus pattern (14 bp):
AAATAAGATAAATA
Found at i:12952993 original size:24 final size:24
Alignment explanation
Indices: 12952966--12953013 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12952956 ATTAAATTAG
12952966 GATAAATAAGATAAATAAAATAAA
1 GATAAATAAGATAAATAAAATAAA
* *
12952990 GATAAATAAGATAGATCAAATAAA
1 GATAAATAAGATAAATAAAATAAA
12953014 TCAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (24 bp):
GATAAATAAGATAAATAAAATAAA
Found at i:12953089 original size:22 final size:23
Alignment explanation
Indices: 12953054--12953103 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
12953044 AAAACATCAT
*
12953054 AATAAAAAGAAAATATAAAGACA
1 AATAAAAAGAAAATAAAAAGACA
* *
12953077 AATACAAA-AAAATAAAAAGATA
1 AATAAAAAGAAAATAAAAAGACA
12953099 AATAA
1 AATAA
12953104 TAAAATATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (23 bp):
AATAAAAAGAAAATAAAAAGACA
Done.