Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005644.1 Hibiscus syriacus cultivar Beakdansim tig00013158_pilon, 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: 65298
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:2503 original size:21 final size:20
Alignment explanation
Indices: 2471--2509 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2461 TTTTCAAAGG
2471 CATGCACGATGCATCAATAC
1 CATGCACGATGCATCAATAC
2491 CATGCATCGATGCATCAAT
1 CATGCA-CGATGCATCAAT
2510 GAATAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (20 bp):
CATGCACGATGCATCAATAC
Found at i:2554 original size:17 final size:18
Alignment explanation
Indices: 2534--2569 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2524 ATCGAATGAA
2534 TTCCATGCA-CAATGCAC
1 TTCCATGCATCAATGCAC
*
2551 TTCCATGCATCGATGCAC
1 TTCCATGCATCAATGCAC
2569 T
1 T
2570 CTGATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (18 bp):
TTCCATGCATCAATGCAC
Found at i:2564 original size:63 final size:64
Alignment explanation
Indices: 2471--2632 Score: 179
Period size: 62 Copynumber: 2.5 Consensus size: 64
2461 TTTTCAAAGG
* *
2471 CATGCA-CGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGAA
1 CATGCATCAATGCA-CAAT-CCATGCATCGATGCACTC--TGAATAAATTAAAACATCGAATGAA
2534 TTC
62 TTC
* * * * *
2537 CATGCA-CAATGCAC-TTCCATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTT
1 CATGCATCAATGCACAATCCATGCATCGATGCACTCTGAATAAATTAAAACATCGAATGAATTC
* *
2599 GATGCATCGATGCACAATCCATGCATCGATGCAC
1 CATGCATCAATGCACAATCCATGCATCGATGCAC
2633 CAGGCTATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
62 28 0.34
63 22 0.27
64 20 0.24
65 1 0.01
66 12 0.14
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (64 bp):
CATGCATCAATGCACAATCCATGCATCGATGCACTCTGAATAAATTAAAACATCGAATGAATTC
Found at i:2669 original size:65 final size:62
Alignment explanation
Indices: 2471--2678 Score: 174
Period size: 65 Copynumber: 3.2 Consensus size: 62
2461 TTTTCAAAGG
** ** *
2471 CATGCA-CGATGCATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATG-AA
1 CATGCATCGATGCA-C-AT-CCATGCATCGATGCA-CGCTG-ATTTATTAAAACATCGAATGCAA
2534 TT
61 TT
* * * *
2536 CCATGCA-CAATGCACTTCCATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTT
1 -CATGCATCGATGCACATCCATGCATCGATGCACGCTGATTT-ATTAAAACATCGAATGCAATT
* *
2599 GATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TTCAAAACATCGAATGCAC
1 CATGCATCGATGCAC-ATCCATGCATCGATGCA-C--GCTGATTTATT-AAAACATCGAATGCAA
2662 TT
61 TT
2664 CATGCATCGATGCAC
1 CATGCATCGATGCAC
2679 TCTTATGCAC
Statistics
Matches: 120, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
61 2 0.02
62 23 0.19
63 25 0.21
64 19 0.16
65 33 0.28
66 16 0.13
67 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (62 bp):
CATGCATCGATGCACATCCATGCATCGATGCACGCTGATTTATTAAAACATCGAATGCAATT
Found at i:2673 original size:18 final size:19
Alignment explanation
Indices: 2650--2697 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
2640 TTTTTCAAAA
2650 CATCGAATGCACT-TCATG
1 CATCGAATGCACTCTCATG
*
2668 CATCG-ATGCACTCTTATG
1 CATCGAATGCACTCTCATG
*
2686 CA-CCAATGCACT
1 CATCGAATGCACT
2698 AGGAGTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (19 bp):
CATCGAATGCACTCTCATG
Found at i:4255 original size:19 final size:20
Alignment explanation
Indices: 4231--4278 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4221 AACGATTTTC
*
4231 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
4250 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
4270 TTTTGAAAA
1 TTTTGAAAA
4279 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:5620 original size:30 final size:30
Alignment explanation
Indices: 5549--5608 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
5539 ACAATTTAAG
5549 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
5579 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
5609 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:5839 original size:23 final size:21
Alignment explanation
Indices: 5790--5848 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
5780 ATGCAATTAG
*
5790 TGCATCGATGCATCATTGTCA
1 TGCATCGATGCATCATTGCCA
*
5811 TGCATCGATGCATCCTCCTGCCA
1 TGCATCGATGCATCAT--TGCCA
*
5834 TGCATCCATGCATCA
1 TGCATCGATGCATCA
5849 AGGCTACAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 15 0.47
23 17 0.53
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCATTGCCA
Found at i:10978 original size:65 final size:64
Alignment explanation
Indices: 10872--11050 Score: 233
Period size: 65 Copynumber: 2.8 Consensus size: 64
10862 GAAGCAACAT
* * *
10872 AACTTAATCAAGATTGGATTTTAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
1 AACTTACTTAAGA-TGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
* * *
10937 AACTTACTTAAGATCGGATTTCGACTTCACAACAAAAGATATCCAACTCAAAGCCAATTTGGTGA
1 AACTTACTTAAGAT-GGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
*
11002 AACAATAC-T----TGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
1 AAC-TTACTTAAGATGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
11051 TCAACTTCAC
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
60 36 0.35
61 1 0.01
64 1 0.01
65 61 0.60
66 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (64 bp):
AACTTACTTAAGATGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGA
Found at i:11811 original size:2 final size:2
Alignment explanation
Indices: 11804--11841 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11794 TATGACGAAC
11804 AT AT 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 AT AT
11842 TATTTTACAG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13154 original size:15 final size:15
Alignment explanation
Indices: 13124--13162 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
13114 TATATATATA
*
13124 TTCTTTGTTTTTTATT
1 TTCTTT-TTCTTTATT
13140 TTCTTTTTCTTTATT
1 TTCTTTTTCTTTATT
13155 TTCTTTTT
1 TTCTTTTT
13163 ATTCCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (15 bp):
TTCTTTTTCTTTATT
Found at i:13172 original size:16 final size:15
Alignment explanation
Indices: 13153--13248 Score: 52
Period size: 19 Copynumber: 5.9 Consensus size: 15
13143 TTTTTCTTTA
*
13153 TTTTCTTTTTATTCC
1 TTTTTTTTTTATTCC
13168 TTTTTATTTTTA--CC
1 TTTTT-TTTTTATTCC
*
13182 TTATTTTTTTATCTCC
1 TTTTTTTTTTAT-TCC
*
13198 TTTATATTTATTTTATTTCT
1 -TT-T-TTT-TTTTA-TTCC
13218 TTATTTTTACTTTATTCC
1 TT-TTTTT--TTTATTCC
*
13236 TTTTTTATTTATT
1 TTTTTTTTTTATT
13249 TATTATATGT
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
13 6 0.09
14 6 0.09
15 10 0.16
16 8 0.12
17 7 0.11
18 8 0.12
19 11 0.17
20 7 0.11
21 1 0.02
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTTTTTATTCC
Found at i:13205 original size:19 final size:18
Alignment explanation
Indices: 13183--13252 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 18
13173 ATTTTTACCT
13183 TATTTTTTTATCTCCTTTA
1 TATTTTTTTAT-TCCTTTA
*
13202 TATTTATTTTATTTCTTTA
1 TATTT-TTTTATTCCTTTA
*
13221 T-TTTTACTTTATTCCTTTTT
1 TATTTT--TTTATTCC-TTTA
*
13241 TATTTATTTATT
1 TATTTTTTTATT
13253 ATATGTATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.02
18 3 0.07
19 25 0.60
20 10 0.24
21 3 0.07
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (18 bp):
TATTTTTTTATTCCTTTA
Found at i:13214 original size:9 final size:9
Alignment explanation
Indices: 13202--13419 Score: 101
Period size: 9 Copynumber: 23.1 Consensus size: 9
13192 ATCTCCTTTA
13202 TATTTATTT
1 TATTTATTT
*
13211 TATTTCTTT
1 TATTTATTT
* *
13220 ATTTTTACTT
1 -TATTTATTT
**
13230 TA-TTCCTT
1 TATTTATTT
13238 T-TTTA-TT
1 TATTTATTT
*
13245 TATTTATTA
1 TATTTATTT
* *
13254 TATGTATAT
1 TATTTATTT
13263 TATTAGTATTT
1 TATT--TATTT
13274 T-TTATATCTT
1 TATT-TAT-TT
13284 TATTTTTATTTT
1 TA--TTTA-TTT
*
13296 TATTTTTTTT
1 TA-TTTATTT
*
13306 TATTCT-CTT
1 TATT-TATTT
*
13315 TATCTT-TAT
1 TAT-TTATTT
13324 TATTTATTT
1 TATTTATTT
13333 TATTTACTCTT
1 TATTTA-T-TT
13344 TATTTATCTT
1 TATTTAT-TT
13354 TATTTTATTTT
1 TA-TTTA-TTT
13365 TATTT-TCTT
1 TATTTAT-TT
*
13374 TATTTTATCT
1 TA-TTTATTT
13384 TATTTATTT
1 TATTTATTT
*
13393 CATTTATTT
1 TATTTATTT
13402 T-TTTATTT
1 TATTTATTT
13410 TATTTATTT
1 TATTTATTT
13419 T
1 T
13420 CATTACATTT
Statistics
Matches: 164, Mismatches: 23, Indels: 44
0.71 0.10 0.19
Matches are distributed among these distances:
7 3 0.02
8 23 0.14
9 68 0.41
10 34 0.21
11 26 0.16
12 7 0.04
13 3 0.02
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (9 bp):
TATTTATTT
Found at i:13231 original size:30 final size:29
Alignment explanation
Indices: 13198--13419 Score: 117
Period size: 30 Copynumber: 7.5 Consensus size: 29
13188 TTTTATCTCC
13198 TTTATATTTATTTTATTTCTTTATTTTTA
1 TTTATATTTATTTTATTTCTTTATTTTTA
*
13227 CTTTAT-TCCTT-TTTTATTTATTTATTATATGTA
1 -TTTATAT--TTATTTTATTTCTTTATT-T-T-TA
*
13260 TATTATTAGTATT-TTTTATATCTTTATTTTTA
1 T-TTA-TA-T-TTATTTTATTTCTTTATTTTTA
* *
13292 TTTTTATTTTTTTTTATTCTCTTTATCTTTATTA
1 TTTATA-TTTATTTTATT-TCTTTA--TTT-TTA
* * *
13326 TTTAT-TTTA-TTTA-CTCTTTATTTATC
1 TTTATATTTATTTTATTTCTTTATTTTTA
13352 TTTAT-TTTATTTTTATTTTCTTTA-TTTTA
1 TTTATATTTA-TTTTA-TTTCTTTATTTTTA
* * *
13381 TCT-TATTTATTTCATTT-ATT-TTTTTA
1 TTTATATTTATTTTATTTCTTTATTTTTA
13407 TTT-TATTTATTTT
1 TTTATATTTATTTT
13420 CATTACATTT
Statistics
Matches: 152, Mismatches: 20, Indels: 44
0.70 0.09 0.20
Matches are distributed among these distances:
26 28 0.18
27 6 0.04
28 9 0.06
29 18 0.12
30 34 0.22
31 15 0.10
32 8 0.05
33 9 0.06
34 9 0.06
35 15 0.10
36 1 0.01
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (29 bp):
TTTATATTTATTTTATTTCTTTATTTTTA
Found at i:13291 original size:6 final size:6
Alignment explanation
Indices: 13272--13370 Score: 60
Period size: 6 Copynumber: 15.7 Consensus size: 6
13262 TTATTAGTAT
* * * *
13272 TTTTTA TATCTTTA TTTTTA TTTTTA TTTTTT TTTATTC TCTTTA TCTTTA
1 TTTTTA T-T-TTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
*
13323 TTATTTA -TTTTA TTTACTCT- TTATTTA TCTTTA -TTTTA TTTTTA TTTT
1 TT-TTTA TTTTTA TTT--T-TA TT-TTTA TTTTTA TTTTTA TTTTTA TTTT
13371 CTTTATTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
5 8 0.11
6 45 0.60
7 12 0.16
8 8 0.11
9 2 0.03
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:13306 original size:31 final size:31
Alignment explanation
Indices: 13198--13379 Score: 121
Period size: 30 Copynumber: 5.9 Consensus size: 31
13188 TTTTATCTCC
* *
13198 TTTATATTTATTTTATT-TCTTTATTTTTA-C
1 TTTAT-TTTTTTTTATTCTCTTTATTTTTATT
* *
13228 TTTATTCCTTTTTTATT-TATTTATTATATGTATAT
1 TTTATT-TTTTTTTATTCTCTTTATT-T-T-TAT-T
* * *
13263 TATTAGTATTTTTTA-TATCTTTATTTTTATT
1 T-TTATTTTTTTTTATTCTCTTTATTTTTATT
*
13294 TTTATTTTTTTTTATTCTCTTTATCTTTATT
1 TTTATTTTTTTTTATTCTCTTTATTTTTATT
* *
13325 ATTTA-TTTTATTTA--CTCTTTA--TTTATC
1 -TTTATTTTTTTTTATTCTCTTTATTTTTATT
*
13352 TTTATTTTATTTTTATTTTCTTTATTTT
1 TTTATTTT-TTTTTATTCTCTTTATTTT
13380 ATCTTATTTA
Statistics
Matches: 121, Mismatches: 15, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
26 4 0.03
27 8 0.07
28 5 0.04
29 8 0.07
30 37 0.31
31 25 0.21
32 10 0.08
33 3 0.02
34 2 0.02
35 15 0.12
36 4 0.03
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (31 bp):
TTTATTTTTTTTTATTCTCTTTATTTTTATT
Found at i:13334 original size:37 final size:37
Alignment explanation
Indices: 13132--13419 Score: 139
Period size: 37 Copynumber: 7.5 Consensus size: 37
13122 TATTCTTTGT
* * * **
13132 TTTTTATTTTCTTT-TTCTTTATTT-TCTTTTTATTCC
1 TTTTTATTTTATTTATT-TTTATTTATCTTTATCTTTA
* * *
13168 TTTTTATTTTTACCTTATTTTT-TTATCTCCTTTATATTTA
1 TTTTTA-TTTTA-TTTATTTTTATT-TAT-CTTTATCTTTA
* * *
13208 -TTTTA-TTTCTTTATTTTTACTTTATTCCTTTTTTATTTA
1 TTTTTATTTTATTTATTTTTA-TTTA-T-C-TTTATCTTTA
* **
13247 TTTATTATATGTATATTATTAGTATTT-T-TTATATCTTTA
1 TTT-TTAT-TTTAT-TTATTTTTATTTATCTT-TATCTTTA
* *
13286 TTTTTATTTTTATTTTTTTTTA-TTCTCTTTATCTTTA
1 TTTTTA-TTTTATTTATTTTTATTTATCTTTATCTTTA
*
13323 TTATTTATTTTATTTACTCTTTATTTATCTTTAT-TTTA
1 TT-TTTATTTTATTTA-TTTTTATTTATCTTTATCTTTA
* *
13361 TTTTTATTTTCTTTA-TTTTATCTTAT-TTATTTCATTTA
1 TTTTTATTTTATTTATTTTTAT-TTATCTT-TATC-TTTA
13399 TTTTTTTATTTTATTTATTTT
1 --TTTTTATTTTATTTATTTT
13420 CATTACATTT
Statistics
Matches: 197, Mismatches: 26, Indels: 53
0.71 0.09 0.19
Matches are distributed among these distances:
35 7 0.04
36 22 0.11
37 47 0.24
38 41 0.21
39 36 0.18
40 24 0.12
41 7 0.04
43 6 0.03
44 7 0.04
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (37 bp):
TTTTTATTTTATTTATTTTTATTTATCTTTATCTTTA
Found at i:13431 original size:26 final size:25
Alignment explanation
Indices: 13198--13423 Score: 111
Period size: 26 Copynumber: 8.8 Consensus size: 25
13188 TTTTATCTCC
13198 TTTATATTTATTT-TATTTC-TTTATT
1 TTTAT-TTTATTTAT-TTTCATTTATT
* *
13223 TTTACTTTATTCCT-TTTTTATTTATT
1 TTTATTTTATT--TATTTTCATTTATT
* *
13249 TATTATATGTATATTATTAGT-ATTT-TT
1 T-TTAT-TTTAT-TTATT-TTCATTTATT
*
13276 TATATCTTTATTT-TTATT--TTTATT
1 TTTAT-TTTATTTATT-TTCATTTATT
*
13300 TTT-TTTTATTCTCTTTATC-TTTATT
1 TTTATTTTATT-TATTT-TCATTTATT
*
13325 ATTTATTTTATTTACTCTTT-ATTTATC
1 -TTTATTTTATTTA-T-TTTCATTTATT
13352 TTTATTTTATTTTTATTTTC-TTTA-T
1 TTTATTTTA--TTTATTTTCATTTATT
*
13377 TTTATCTTATTTA-TTTCATTTATTTT
1 TTTATTTTATTTATTTTCATTTA--TT
13403 TTTATTTTATTTATTTTCATT
1 TTTATTTTATTTATTTTCATT
13424 ACATTTTTTC
Statistics
Matches: 160, Mismatches: 15, Indels: 50
0.71 0.07 0.22
Matches are distributed among these distances:
22 10 0.06
23 14 0.09
24 17 0.11
25 23 0.14
26 49 0.31
27 29 0.18
28 16 0.10
29 2 0.01
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (25 bp):
TTTATTTTATTTATTTTCATTTATT
Found at i:22026 original size:71 final size:70
Alignment explanation
Indices: 21896--22109 Score: 200
Period size: 71 Copynumber: 3.0 Consensus size: 70
21886 AAAACGTAAA
* * * * * * * *
21896 ATATATAGTTTTT-AAAACGGTTTTGAAAACATGTAGTATATAGTTTTTCAGATAATTTTGAAAA
1 ATATATAGTTTTTAAAAATGGTTTTGAAAACGTGTAATATATATTTTTTAAAACAGTTTTGAAAA
*
21960 -ATGT
66 TATAT
* *
21964 AGTATATAGTTTTTTAAAAATAGTTTTGAAAACGTATAATATATATTTTTTAAAACAGTTTTGAA
1 A-TATATAG-TTTTTAAAAATGGTTTTGAAAACGTGTAATATATATTTTTTAAAACAGTTTTGAA
22029 AATATAT
64 AATATAT
* * * *
22036 ATAATATAGTTTCTAAAAATGGTTTTTTTAAAACGTGTGATATAT-TTTTTTAAGAAACGGTTTT
1 AT-ATATAGTTTTTAAAAATGG--TTTTGAAAACGTGTAATATATATTTTTT-A-AAACAGTTTT
*
22100 GAAAACATAT
61 GAAAATATAT
22110 TATTTTATTA
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
68 1 0.01
69 7 0.06
70 5 0.04
71 53 0.45
72 16 0.13
73 19 0.16
74 18 0.15
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (70 bp):
ATATATAGTTTTTAAAAATGGTTTTGAAAACGTGTAATATATATTTTTTAAAACAGTTTTGAAAA
TATAT
Found at i:22039 original size:37 final size:37
Alignment explanation
Indices: 21843--22109 Score: 162
Period size: 35 Copynumber: 7.4 Consensus size: 37
21833 CAAATGTAGT
* * ** *
21843 TTTTAAAAATATATAATATATAG-TTTTTGGAAACTTAC
1 TTTTGAAAACATATAATATATAGTTTTTTAAAAAC--AG
* * *
21881 TTTTGAAAACGTAAAATATATAG-TTTTT-AAAACGG
1 TTTTGAAAACATATAATATATAGTTTTTTAAAAACAG
* * * * *
21916 TTTTGAAAACATGTAGTATATAGTTTTTCAGATA-A-
1 TTTTGAAAACATATAATATATAGTTTTTTAAAAACAG
* * *
21951 TTTTGAAAA-ATGTAGTATATAGTTTTTTAAAAATAG
1 TTTTGAAAACATATAATATATAGTTTTTTAAAAACAG
*
21987 TTTTGAAAACGTATAATATATA-TTTTTT-AAAACAG
1 TTTTGAAAACATATAATATATAGTTTTTTAAAAACAG
* * **
22022 TTTTGAAAATATAT-ATAATATAG-TTTCTAAAAATGG
1 TTTTGAAAACATATAAT-ATATAGTTTTTTAAAAACAG
* * * * *
22058 TTTTTTTAAAACGTGTGATATAT--TTTTTTAAGAAACGG
1 --TTTTGAAAACATATAATATATAGTTTTTTAA-AAACAG
22096 TTTTGAAAACATAT
1 TTTTGAAAACATAT
22110 TATTTTATTA
Statistics
Matches: 180, Mismatches: 36, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
34 23 0.13
35 56 0.31
36 35 0.19
37 21 0.12
38 43 0.24
39 2 0.01
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.43
Consensus pattern (37 bp):
TTTTGAAAACATATAATATATAGTTTTTTAAAAACAG
Found at i:22160 original size:20 final size:21
Alignment explanation
Indices: 22107--22160 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
22097 TTTGAAAACA
22107 TATTATTTTATTACATAGTTTT
1 TATT-TTTTATTACATAGTTTT
* ** *
22129 TATATTACATTA-ATATTTTT
1 TATTTTTTATTACATAGTTTT
22149 TATTTTTTATTA
1 TATTTTTTATTA
22161 TTATATTATA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 16 0.64
21 6 0.24
22 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTTTTTATTACATAGTTTT
Found at i:25217 original size:21 final size:21
Alignment explanation
Indices: 25193--25267 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
25183 ATTTCAACTT
25193 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
* *
25214 CGTTGCGATTTATTCTAAGTT--
1 CGTTGCGA--TAGTCGAAGTTCG
*
25235 CGTTGCGATAGTCGAAATTCG
1 CGTTGCGATAGTCGAAGTTCG
*
25256 CTTTGCGATAGT
1 CGTTGCGATAGT
25268 TCAAAATCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 8 0.18
21 27 0.61
23 9 0.20
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (21 bp):
CGTTGCGATAGTCGAAGTTCG
Found at i:25220 original size:42 final size:42
Alignment explanation
Indices: 25173--25264 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
25163 ATCAATATTT
*
25173 GTTGCGATTTATT-TCAACTTCGTTGCGATAGTCGAAGTTCGC
1 GTTGCGATTTATTCT-AACTTCGTTGCGATAGTCGAAATTCGC
*
25215 GTTGCGATTTATTCTAAGTTCGTTGCGATAGTCGAAATTCGC
1 GTTGCGATTTATTCTAACTTCGTTGCGATAGTCGAAATTCGC
*
25257 TTTGCGAT
1 GTTGCGAT
25265 AGTTCAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (42 bp):
GTTGCGATTTATTCTAACTTCGTTGCGATAGTCGAAATTCGC
Found at i:25372 original size:6 final size:6
Alignment explanation
Indices: 25361--25403 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
25351 GACACGTATT
25361 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
25404 GACGAGACGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:26033 original size:5 final size:5
Alignment explanation
Indices: 26023--26050 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
26013 CCGCCGCCGC
26023 CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGT
26051 GGTCGTGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.39, G:0.21, T:0.39
Consensus pattern (5 bp):
CGTCT
Found at i:26058 original size:6 final size:6
Alignment explanation
Indices: 26047--26077 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
26037 TCGTCTCGTC
26047 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
26078 AATATGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:31367 original size:35 final size:35
Alignment explanation
Indices: 31311--31461 Score: 247
Period size: 35 Copynumber: 4.4 Consensus size: 35
31301 AAGCTATAAG
*
31311 GAATCAAACGTCCATGGCAATAGCCCTGTTGTAAA
1 GAATCAAACATCCATGGCAATAGCCCTGTTGTAAA
*
31346 GAATAAAACATCCATGGCAATAGCCCTGTTGTAAA
1 GAATCAAACATCCATGGCAATAGCCCTGTTGTAAA
*
31381 GAGT----CATCCATGGCAATAGCCCTGTTGTAAA
1 GAATCAAACATCCATGGCAATAGCCCTGTTGTAAA
31412 GAATCAAACATCCATGGCAATAGCCCTGTTGTAAA
1 GAATCAAACATCCATGGCAATAGCCCTGTTGTAAA
31447 GAATCAAACATCCAT
1 GAATCAAACATCCAT
31462 TGCTTGAGTA
Statistics
Matches: 108, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
31 30 0.28
35 78 0.72
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (35 bp):
GAATCAAACATCCATGGCAATAGCCCTGTTGTAAA
Found at i:31427 original size:66 final size:66
Alignment explanation
Indices: 31321--31448 Score: 247
Period size: 66 Copynumber: 1.9 Consensus size: 66
31311 GAATCAAACG
31321 TCCATGGCAATAGCCCTGTTGTAAAGAATAAAACATCCATGGCAATAGCCCTGTTGTAAAGAGTC
1 TCCATGGCAATAGCCCTGTTGTAAAGAATAAAACATCCATGGCAATAGCCCTGTTGTAAAGAGTC
31386 A
66 A
*
31387 TCCATGGCAATAGCCCTGTTGTAAAGAATCAAACATCCATGGCAATAGCCCTGTTGTAAAGA
1 TCCATGGCAATAGCCCTGTTGTAAAGAATAAAACATCCATGGCAATAGCCCTGTTGTAAAGA
31449 ATCAAACATC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (66 bp):
TCCATGGCAATAGCCCTGTTGTAAAGAATAAAACATCCATGGCAATAGCCCTGTTGTAAAGAGTC
A
Found at i:33028 original size:216 final size:216
Alignment explanation
Indices: 32652--33343 Score: 1101
Period size: 216 Copynumber: 3.2 Consensus size: 216
32642 TTAATAATTC
* *
32652 AATTGAACAAATATGAAATCACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGATGG
1 AATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAAGG
* * *
32717 ATCAAATCGAAATAATTTTAAATTGTGATGCTGAAATTAATACAAAAAAGTATTAAATTATACCC
66 ATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
* * * * * *
32782 ATTTAAAAAGTTATGGGCCAATTAAAAAATATAATTAAGTAAAAAGTATGGATCAATTTCATATA
131 ATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATG
32847 CAAATAAAATTTGGAGGACTA
196 CAAATAAAATTTGGAGGACTA
*
32868 AATTGAACAAATATGAAATTACAAATAAAAATTTAAATTAATTAAACAACACACATTGATGAAGG
1 AATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAAGG
32933 ATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
66 ATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
32998 ATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATG
131 ATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATG
33063 CAAATAAAATTTGGAGGACTA
196 CAAATAAAATTTGGAGGACTA
* * * *
33084 AATTGAACAAATATAAAATTTCAAATAAAAATTTAAATAAACTAAACAACACA-A---A--AGGG
1 AATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAAGG
* * * *
33143 ATCAAATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATACTC
66 ATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
* *
33208 ATTTAAAAAGTTATGGGCTAA-TTAATAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAAAT
131 ATTTAAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGTATGGGTCAATTTCATAT
*
33272 GCAAATAAAATGTGGAGGACTA
195 GCAAATAAAATTTGGAGGACTA
* *
33294 AATTGAACAAATATGAAATTACAAACAAAAATTTTAATAAATTAAACAAC
1 AATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAAC
33344 TATTGTAATA
Statistics
Matches: 446, Mismatches: 29, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
209 4 0.01
210 187 0.42
212 1 0.00
215 1 0.00
216 253 0.57
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (216 bp):
AATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAAGG
ATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
ATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCATATG
CAAATAAAATTTGGAGGACTA
Found at i:33116 original size:13 final size:13
Alignment explanation
Indices: 33091--33124 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
33081 CTAAATTGAA
33091 CAAATATAAAATTT
1 CAAATA-AAAATTT
33105 CAAATAAAAATTT
1 CAAATAAAAATTT
33118 -AAATAAA
1 CAAATAAA
33125 CTAAACAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 7 0.35
14 6 0.30
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
CAAATAAAAATTT
Found at i:33415 original size:2 final size:2
Alignment explanation
Indices: 33408--33500 Score: 73
Period size: 2 Copynumber: 45.0 Consensus size: 2
33398 AAATCAACTA
* *
33408 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AA ACT AT AT AGT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* * * *
33451 AT AT AA AGT AT AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
33493 AT AT AT AT
1 AT AT AT AT
33501 TATGTATAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
1 2 0.03
2 65 0.90
3 5 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:33478 original size:42 final size:44
Alignment explanation
Indices: 33415--33497 Score: 143
Period size: 42 Copynumber: 1.9 Consensus size: 44
33405 CTAATATATA
33415 TATATATATATATATAATATAAACTATATAGTTTATATATAAAG
1 TATATATATATATATAATATAAACTATATAGTTTATATATAAAG
*
33459 TATATGTAT-TATAT-ATATAAACTATATAGTTTATATATA
1 TATATATATATATATAATATAAACTATATAGTTTATATATA
33498 TATTATGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 25 0.66
43 5 0.13
44 8 0.21
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (44 bp):
TATATATATATATATAATATAAACTATATAGTTTATATATAAAG
Found at i:33493 original size:20 final size:20
Alignment explanation
Indices: 33409--33497 Score: 94
Period size: 20 Copynumber: 4.4 Consensus size: 20
33399 AATCAACTAA
* *
33409 TATATATATA-TATATA-TA
1 TATATATAAACTATATAGTT
33427 TATAATATAAACTATATAGTT
1 TAT-ATATAAACTATATAGTT
*
33448 TATATATAAAGTATAT-GTATT
1 TATATATAAACTATATAG--TT
33469 ATATATATAAACTATATAGTT
1 -TATATATAAACTATATAGTT
33490 TATATATA
1 TATATATA
33498 TATTATGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.05
19 7 0.12
20 26 0.43
21 8 0.13
22 15 0.25
23 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:33532 original size:27 final size:28
Alignment explanation
Indices: 33492--33552 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
33482 ATATAGTTTA
** *
33492 TATATATATTATGTATAAACTATAGT-C
1 TATATATACCATGTATAAACTATAATAC
*
33519 TATATATACCATGTATAAATTATAATAC
1 TATATATACCATGTATAAACTATAATAC
33547 TATATA
1 TATATA
33553 GTTTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (28 bp):
TATATATACCATGTATAAACTATAATAC
Found at i:33593 original size:39 final size:39
Alignment explanation
Indices: 33550--33640 Score: 182
Period size: 39 Copynumber: 2.3 Consensus size: 39
33540 ATAATACTAT
33550 ATAGTTTATATATGAACTATTGAACTATATAGAACCTAC
1 ATAGTTTATATATGAACTATTGAACTATATAGAACCTAC
33589 ATAGTTTATATATGAACTATTGAACTATATAGAACCTAC
1 ATAGTTTATATATGAACTATTGAACTATATAGAACCTAC
33628 ATAGTTTATATAT
1 ATAGTTTATATAT
33641 AAATTATATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (39 bp):
ATAGTTTATATATGAACTATTGAACTATATAGAACCTAC
Found at i:33600 original size:20 final size:20
Alignment explanation
Indices: 33575--33639 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
33565 ACTATTGAAC
33575 TATATAGAACCTACATAGTT
1 TATATAGAACCTACATAGTT
* **
33595 TATATATGAA-CT--ATTGAAC
1 TATATA-GAACCTACATAG-TT
33614 TATATAGAACCTACATAGTT
1 TATATAGAACCTACATAGTT
33634 TATATA
1 TATATA
33640 TAAATTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 14 0.41
21 6 0.18
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (20 bp):
TATATAGAACCTACATAGTT
Found at i:33647 original size:11 final size:11
Alignment explanation
Indices: 33633--33750 Score: 59
Period size: 11 Copynumber: 10.8 Consensus size: 11
33623 CCTACATAGT
33633 TTATATATAAA
1 TTATATATAAA
*
33644 TTATATATGAA
1 TTATATATAAA
33655 TTATATATAAA
1 TTATATATAAA
* *
33666 --CTATA-CAA
1 TTATATATAAA
*
33674 TTATATTTATATA
1 TTATA--TATAAA
*
33687 TTATGTAT-AA
1 TTATATATAAA
*
33697 TTATAAATAACA
1 TTATATATAA-A
*
33709 -TATTGTATAAA
1 TTA-TATATAAA
**
33720 TTATATAGTTTA
1 TTATATA-TAAA
33732 TTA-ATATAAA
1 TTATATATAAA
*
33742 CTATATATA
1 TTATATATA
33751 TGGTTTGGGG
Statistics
Matches: 77, Mismatches: 19, Indels: 22
0.65 0.16 0.19
Matches are distributed among these distances:
8 2 0.03
9 4 0.05
10 13 0.17
11 38 0.49
12 15 0.19
13 5 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (11 bp):
TTATATATAAA
Found at i:33777 original size:14 final size:14
Alignment explanation
Indices: 33758--33792 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33748 ATATGGTTTG
33758 GGGTTTAAATATTA
1 GGGTTTAAATATTA
*
33772 GGGTTTAAGTATTA
1 GGGTTTAAATATTA
33786 GGGTTTA
1 GGGTTTA
33793 GGGTGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GGGTTTAAATATTA
Found at i:33878 original size:13 final size:11
Alignment explanation
Indices: 33841--33872 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
33831 CTATAATTTA
*
33841 TATTTATGTAC
1 TATTTATATAC
33852 TATTTATATAC
1 TATTTATATAC
33863 TATTTATATA
1 TATTTATATA
33873 AACTATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (11 bp):
TATTTATATAC
Found at i:33885 original size:44 final size:43
Alignment explanation
Indices: 33830--33946 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 43
33820 TAAACTACAT
* *
33830 ACTATAATTTATATTTATGTACTATTTATATACTATTTATATAA
1 ACTATAGTTTATATTTATGTACTA-TTATATACTATATATATAA
* *
33874 ACTATAGTTTATATTTATATACTA-TATATA--ATATATATGA
1 ACTATAGTTTATATTTATGTACTATTATATACTATATATATAA
* *
33914 ACTATAGTTTACA--TATGAACTATATATATACTA
1 ACTATAGTTTATATTTATGTACTAT-TATATACTA
33947 ACATTGATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
38 7 0.11
40 26 0.42
42 7 0.11
44 22 0.35
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (43 bp):
ACTATAGTTTATATTTATGTACTATTATATACTATATATATAA
Found at i:34053 original size:91 final size:89
Alignment explanation
Indices: 33858--34092 Score: 228
Period size: 91 Copynumber: 2.6 Consensus size: 89
33848 GTACTATTTA
* * *
33858 TATACTATTTATATAAACTATAGTTTATATTTATATACTATATATAATATATATGAACTATAGTT
1 TATA-TATATATATAAACTATAGTTTACA--TATAAACTATATAT-ATATATATGAACTATAGTT
* *
33923 TACATATGAACTATATATATACTAACAT
62 TAAATATGAACTATATATATACTAACAC
* *
33951 TGATATTTATATATAAACTATAGTTTACATATAAACTATATAGTTTATATACT-AACTATAGTTT
1 T-ATATATATATATAAACTATAGTTTACATATAAACTATATA-TATATATA-TGAACTATAGTTT
34015 AAATATGAACTATAGT-T-TACATATGA-AC
63 AAATATGAACTATA-TATATAC-TA--ACAC
* * * *
34043 TATATATATATA-AACAATAGAGTTTACATATGACCTATATATATATATAT
1 TATATATATATATAA-ACTATAGTTTACATATAAACTATATATATATATAT
34093 TAGAGTTTAT
Statistics
Matches: 121, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
89 1 0.01
90 12 0.10
91 77 0.64
92 5 0.04
93 23 0.19
94 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (89 bp):
TATATATATATATAAACTATAGTTTACATATAAACTATATATATATATATGAACTATAGTTTAAA
TATGAACTATATATATACTAACAC
Found at i:34085 original size:2 final size:2
Alignment explanation
Indices: 34078--34518 Score: 69
Period size: 2 Copynumber: 213.0 Consensus size: 2
34068 ACATATGACC
* * *
34078 TA TA TA TA TA TA TA T- TA GA GTT TA TA TT TA TA TA CTA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* * *
34120 TA TA TA TA TA AA T- TA TA TA TA CTA TA TA GTA TA -A TT TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * *
34162 TGA -A CTA TA TA TA -A AA CCA AA TA AA CTA TA TA CTA TA GT- TGA
1 T-A TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA -TA T-A
* * *
34204 TA TT TA TA TA CTA TA TA -A AA TA -A TT TA TA CTA TA T- TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
34245 TA AA CTA TA TA -A TA TA TA TA AA CTA TA GA T- TA TA TA GT- TCA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA T-A
* * *
34286 T- TA GTA TA TA TA AA CTA TA TA GTA TA TG TA AA CTA TA TA T- TA
1 TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* ** *
34328 TA TA GTT TA T- TA GTA TA TA TA -A CC TA TA TA GTA TA TA GA CTA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* * * * *
34370 TA TA GTA TA TA TA AA CTA TA TA GTA CA TG TA TG TA TA AA CTA TA
1 TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * * *
34414 TG TA GTA TA TA TA AA CTA TG TA TA -A TA TA TA TA AA CTA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
** *
34456 TA TA TA -A CC TA TA GTA TA TG TA TA TA TCA -A CTA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA T-A TA -TA TA TA TA TA
** *
34497 -A CC TA TA GTA TA TG TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA
34519 CAATCTATTT
Statistics
Matches: 313, Mismatches: 69, Indels: 114
0.63 0.14 0.23
Matches are distributed among these distances:
1 21 0.07
2 242 0.77
3 50 0.16
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (2 bp):
TA
Found at i:34087 original size:33 final size:35
Alignment explanation
Indices: 33919--34089 Score: 118
Period size: 35 Copynumber: 4.8 Consensus size: 35
33909 TATGAACTAT
*
33919 AGTTTACATATGAACTATATATATACT-AAC-ATTG
1 AGTTTACATATGAACTATATATATA-TAAACAATAG
* * * * * *
33953 ATATTTATATATAAACTATAGTTTACATATAAACTATAT
1 A-GTTTACATATGAACTATA---TATATATAAACAATAG
* * * *
33992 AGTTTATATACT-AACTATAGTTTAAATATGAAC--TAT
1 AGTTTACATA-TGAACTATA---TATATATAAACAATAG
34028 AGTTTACATATGAACTATATATATATAAACAATAG
1 AGTTTACATATGAACTATATATATATAAACAATAG
*
34063 AGTTTACATATGACCTATATATATATA
1 AGTTTACATATGAACTATATATATATA
34090 TATTAGAGTT
Statistics
Matches: 113, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
33 9 0.08
34 1 0.01
35 44 0.39
36 19 0.17
37 1 0.01
38 35 0.31
39 4 0.04
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (35 bp):
AGTTTACATATGAACTATATATATATAAACAATAG
Found at i:34145 original size:7 final size:6
Alignment explanation
Indices: 34078--34518 Score: 69
Period size: 7 Copynumber: 71.0 Consensus size: 6
34068 ACATATGACC
* * *
34078 TATATA TATATA TAT-TA GAGTTTA TATTTA TATACTA TAT-TA TATATA
1 TATATA TATATA TATATA TA-TATA TATATA TATA-TA TATATA TATATA
* * *
34126 TATAAA T-TATA TATACTA TATAGTA TA-ATT TACATA TGA-ACTA TATATA
1 TATATA TATATA TATA-TA TATA-TA TATATA TATATA T-ATA-TA TATATA
* * * * *
34175 -AAACCA AATAAA CTATATA CTATAGT- TGATATT TATATA CTATATA
1 TATA-TA TATATA -TATATA -TATA-TA T-ATATA TATATA -TATATA
* * * *
34221 -AAATA -ATTTA TACTATA T-TATA TATAAA CTATATA -ATATA TATAAA
1 TATATA TATATA TA-TATA TATATA TATATA -TATATA TATATA TATATA
* *
34267 CTATAGA T-TATA TAGT-TCA T-TAGTA TATATA AACTATA TAGTATA
1 -TATATA TATATA TA-TAT-A TATA-TA TATATA TA-TATA TA-TATA
* * * **
34312 TGTAAA CTATATA T-TATA TAGTTTA T-TAGTA TATATA -ACCTA TATAGTA
1 TATATA -TATATA TATATA TA-TATA TATA-TA TATATA TATATA TATA-TA
* * * * * *
34361 TATAGA CTATATA GTATATA TAAACTA TATAGTA CATGTA TGTATA AACTATA
1 TATATA -TATATA -TATATA TATA-TA TATA-TA TATATA TATATA TA-TATA
* * * *
34414 TGTAGTA TATATA AACTATG TATA-A TATATA TAAACTA TATATA TATA-A
1 TATA-TA TATATA TA-TATA TATATA TATATA TATA-TA TATATA TATATA
** * ** *
34463 CCTATA GTATATG TATATA TCA-ACTA TATATA TA-ACC TATAGTA TATGTA
1 TATATA -TATATA TATATA T-ATA-TA TATATA TATATA TATA-TA TATATA
34513 TATATA
1 TATATA
34519 CAATCTATTT
Statistics
Matches: 313, Mismatches: 71, Indels: 102
0.64 0.15 0.21
Matches are distributed among these distances:
5 58 0.19
6 115 0.37
7 139 0.44
8 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (6 bp):
TATATA
Found at i:34260 original size:18 final size:18
Alignment explanation
Indices: 34203--34461 Score: 137
Period size: 18 Copynumber: 14.4 Consensus size: 18
34193 ACTATAGTTG
* *
34203 ATATTTATATACTATATA
1 ATATATATAAACTATATA
* * *
34221 AAATAATTTATACTATAT-
1 ATAT-ATATAAACTATATA
34239 -TATATATAAACTATATA
1 ATATATATAAACTATATA
*
34256 ATATATATAAACTATA-G
1 ATATATATAAACTATATA
**
34273 AT-TATAT-AGTTCAT-TA
1 ATATATATAAACT-ATATA
*
34289 GTATATATAAACTATATA
1 ATATATATAAACTATATA
* *
34307 GTATATGTAAACTATAT-
1 ATATATATAAACTATATA
***
34324 AT-TATATAGTTTAT-TA
1 ATATATATAAACTATATA
* *
34340 GTATATATAACCTATAT-
1 ATATATATAAACTATATA
* *
34357 A-GTATATAGACTATATA
1 ATATATATAAACTATATA
*
34374 GTATATATAAACTATATAGTA
1 ATATATATAAAC--TATA-TA
*
34395 CATGTATGTATAAACTATATGTA
1 -A--TATATATAAACTATA--TA
*
34418 GTATATATAAACTATGTATA
1 ATATATATAAACTA--TATA
34438 ATATATATAAACTATAT-
1 ATATATATAAACTATATA
34455 ATATATA
1 ATATATA
34462 ACCTATAGTA
Statistics
Matches: 184, Mismatches: 35, Indels: 45
0.70 0.13 0.17
Matches are distributed among these distances:
15 3 0.02
16 40 0.22
17 28 0.15
18 50 0.27
19 11 0.06
20 31 0.17
21 2 0.01
22 6 0.03
23 3 0.02
24 10 0.05
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:34294 original size:51 final size:51
Alignment explanation
Indices: 34239--34364 Score: 207
Period size: 51 Copynumber: 2.5 Consensus size: 51
34229 TATACTATAT
*
34239 TATATATAAACTATATAATATATATAAACTATAGATTATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATAGATTATATAGTTCATTAG
* * *
34290 TATATATAAACTATATAGTATATGTAAACTATATATTATATAGTTTATTAG
1 TATATATAAACTATATAGTATATATAAACTATAGATTATATAGTTCATTAG
*
34341 TATATATAACCTATATAGTATATA
1 TATATATAAACTATATAGTATATA
34365 GACTATATAG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (51 bp):
TATATATAAACTATATAGTATATATAAACTATAGATTATATAGTTCATTAG
Found at i:34364 original size:9 final size:9
Alignment explanation
Indices: 34275--34426 Score: 51
Period size: 9 Copynumber: 17.7 Consensus size: 9
34265 AACTATAGAT
34275 TATATAGT-
1 TATATAGTA
34283 TCAT-TAGTA
1 T-ATATAGTA
*
34292 TATATA-AA
1 TATATAGTA
34300 CTATATAGTA
1 -TATATAGTA
* *
34310 TATGTA-AA
1 TATATAGTA
34318 CTATATA-T-
1 -TATATAGTA
*
34326 TATATAGTT
1 TATATAGTA
34335 TAT-TAGTA
1 TATATAGTA
***
34343 TATATAACC
1 TATATAGTA
34352 TATATAG--
1 TATATAGTA
34359 TATATAG-A
1 TATATAGTA
34367 CTATATAGTA
1 -TATATAGTA
*
34377 TATATA-AA
1 TATATAGTA
34385 CTATATAGTA
1 -TATATAGTA
* *
34395 CATGTATGTA
1 TATATA-GTA
*
34405 TA-A-ACTA
1 TATATAGTA
*
34412 TATGTAGTA
1 TATATAGTA
34421 TATATA
1 TATATA
34427 AACTATGTAT
Statistics
Matches: 106, Mismatches: 21, Indels: 33
0.66 0.13 0.21
Matches are distributed among these distances:
7 17 0.16
8 19 0.18
9 63 0.59
10 7 0.07
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (9 bp):
TATATAGTA
Found at i:34381 original size:51 final size:51
Alignment explanation
Indices: 34239--34382 Score: 179
Period size: 51 Copynumber: 2.8 Consensus size: 51
34229 TATACTATAT
* *
34239 TATATATAAACTATATAATATATATAAACTATAGA-T-TATATAGTTCATTAG
1 TATATATAAACTATAT-A-GTATATAAACTATATAGTATATATAGTTCATTAG
*
34290 TATATATAAACTATATAGTATATGTAAACTATATA-T-TATATAGTTTATTAG
1 TATATATAAACTATATAGTATA--TAAACTATATAGTATATATAGTTCATTAG
* *
34341 TATATATAACCTATATAGTATATAGACTATATAGTATATATA
1 TATATATAAACTATATAGTATATAAACTATATAGTATATATA
34383 AACTATATAG
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
49 14 0.17
50 2 0.02
51 68 0.81
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (51 bp):
TATATATAAACTATATAGTATATAAACTATATAGTATATATAGTTCATTAG
Found at i:34456 original size:15 final size:15
Alignment explanation
Indices: 34438--34474 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
34428 ACTATGTATA
34438 ATATATATAAACTAT
1 ATATATATAAACTAT
*
34453 ATATATATAACCTAT
1 ATATATATAAACTAT
34468 AGTATAT
1 A-TATAT
34475 GTATATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (15 bp):
ATATATATAAACTAT
Found at i:34469 original size:111 final size:110
Alignment explanation
Indices: 34275--34550 Score: 250
Period size: 111 Copynumber: 2.5 Consensus size: 110
34265 AACTATAGAT
* * ***
34275 TATATAGTTCATTAGTATATATAAACTATATAGTATATGTAAACTATATATTATATAGTTTATTA
1 TATATAGTACATTAGTATATATAAACTATATAGTATATATAAACTATATATTATATAAACTATTA
34340 GTATATATAACCTATATAGTATATAGACTATATAGTATATATAAAC
66 GTATATATAACC-ATATAGTATATAGACTATATAGTATATATAAAC
*
34386 TATATAGTACA-T-GTATGTATAAACTATATGTAGTATATATAAACTATGTATAATATATATAAA
1 TATATAGTACATTAGTATATATAAACTATA--TAGTATATATAAACTA--TAT-AT-TATATAAA
*
34449 CTA-TA-TATATATAACC-TATAGTATAT-GTA-TATATCAACTATATATATAAC
60 CTATTAGTATATATAACCATATAGTATATAG-ACTATAT--AGTATATATA-AAC
* *
34499 -CTATAGTATA-T-GTATATATACAATCTATTTATATGT-TATATAAACTATATAT
1 TATATAGTACATTAGTATATATA-AA-CTA--TATA-GTATATATAAACTATATAT
34551 GTAACCTATA
Statistics
Matches: 140, Mismatches: 10, Indels: 30
0.78 0.06 0.17
Matches are distributed among these distances:
109 15 0.11
110 7 0.05
111 38 0.27
112 29 0.21
113 19 0.14
114 20 0.14
115 10 0.07
116 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (110 bp):
TATATAGTACATTAGTATATATAAACTATATAGTATATATAAACTATATATTATATAAACTATTA
GTATATATAACCATATAGTATATAGACTATATAGTATATATAAAC
Found at i:34473 original size:18 final size:18
Alignment explanation
Indices: 33867--34514 Score: 119
Period size: 18 Copynumber: 36.3 Consensus size: 18
33857 ATATACTATT
33867 TATATAAACTATAGTTTATA
1 TATATAAACTATAG--TATA
* *
33887 TTTATATACTATA-TATAA
1 TATATAAACTATAGTAT-A
*
33905 TATATATGAACTATAGTTTA
1 TATATA--AACTATAGTATA
* *
33925 CATATGAACTATA-TATA
1 TATATAAACTATAGTATA
* * *
33942 TACTA-ACATTGATA-TTTA
1 TA-TATAAACT-ATAGTATA
*
33960 TATATAAACTATAGTTTA
1 TATATAAACTATAGTATA
* *
33978 CATATAAACTATA-TAGTT
1 TATATAAACTATAGTA-TA
*
33996 TATATACTAACTATAGTTTA
1 TATATA--AACTATAGTATA
* * *
34016 AATATGAACTATAGTTTA
1 TATATAAACTATAGTATA
* *
34034 CATATGAACTATA-TATA
1 TATATAAACTATAGTATA
* * *
34051 TATA-AACAATAGAGTTTA
1 TATATAA-ACTATAGTATA
* * *
34069 CATATGACCTATA-TATA
1 TATATAAACTATAGTATA
* *
34086 TATAT--ATTAGAGTTTATA
1 TATATAAACTATAG--TATA
* * *
34104 TTTATATACTATATTATA
1 TATATAAACTATAGTATA
34122 TATATATAA--AT--TATA
1 TATATA-AACTATAGTATA
34137 TATACT--A-TATAGTATA
1 TATA-TAAACTATAGTATA
* * *
34153 -ATTTACA-TAT-GAACTA
1 TATATAAACTATAGTA-TA
*
34169 TATATAAAACCA-A--ATA
1 TATAT-AAACTATAGTATA
* *
34185 AACTATATACTATAGTTGATA
1 TA-TATAAACTATAG-T-ATA
* * *
34206 TTTATATACTATA-TAAAA
1 TATATAAACTATAGT-ATA
* *
34224 TAATTTATACTATA-T-TA
1 T-ATATAAACTATAGTATA
34241 TATATAAACTATA-TAATA
1 TATATAAACTATAGT-ATA
34259 TATATAAACTATAG-AT-
1 TATATAAACTATAGTATA
* *
34275 TATAT--AGT-TCATTAGTA
1 TATATAAACTAT-AGTA-TA
34292 TATATAAACTATA-TAGTA
1 TATATAAACTATAGTA-TA
*
34310 TATGTAAACTATA-TAT-
1 TATATAAACTATAGTATA
* * *
34326 TATAT--AGTTTATTAGTA
1 TATATAAACTATAGTA-TA
* *
34343 TATATAACCTATA-TA-G
1 TATATAAACTATAGTATA
*
34359 TATATAGACTATA-TAGTA
1 TATATAAACTATAGTA-TA
34377 TATATAAACTATATAGTACATGTA
1 TATATAAAC--TATAGT--A--TA
*
34401 TGTATAAACTATATGTAGTA
1 TATATAAACTATA-GTA-TA
34421 TATATAAACTAT-GTATAA
1 TATATAAACTATAGTAT-A
34439 TATATATAA--ACTA-TATA
1 TATATA-AACTA-TAGTATA
*
34456 TATATAACCTATAGTATA
1 TATATAAACTATAGTATA
* * *
34474 TGTATATA-TCA-ACTATA
1 TATATAAACT-ATAGTATA
*
34491 TATATAACCTATAGTATA
1 TATATAAACTATAGTATA
*
34509 TGTATA
1 TATATA
34515 TATACAATCT
Statistics
Matches: 465, Mismatches: 90, Indels: 148
0.66 0.13 0.21
Matches are distributed among these distances:
13 2 0.00
14 10 0.02
15 18 0.04
16 55 0.12
17 80 0.17
18 184 0.40
19 22 0.05
20 68 0.15
21 8 0.02
22 4 0.01
23 3 0.01
24 11 0.02
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (18 bp):
TATATAAACTATAGTATA
Found at i:34497 original size:35 final size:35
Alignment explanation
Indices: 34419--34532 Score: 142
Period size: 35 Copynumber: 3.2 Consensus size: 35
34409 CTATATGTAG
* * *
34419 TATATATAAACTAT-GTATA-ATATATATAAACTATA
1 TATATATAACCTATAGTATATGTATATATCAAC--TA
34454 TATATATAACCTATAGTATATGTATATATCAACTA
1 TATATATAACCTATAGTATATGTATATATCAACTA
34489 TATATATAACCTATAGTATATGTATATATACAATCTA
1 TATATATAACCTATAGTATATGTATATAT-CAA-CTA
*
34526 TTTATAT
1 TATATAT
34533 GTTATATAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
35 44 0.62
36 8 0.11
37 19 0.27
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (35 bp):
TATATATAACCTATAGTATATGTATATATCAACTA
Found at i:34546 original size:20 final size:22
Alignment explanation
Indices: 34368--34495 Score: 91
Period size: 20 Copynumber: 6.2 Consensus size: 22
34358 GTATATAGAC
34368 TATATAGTATATATAAACTATATAG
1 TATAT-GTATATATAAAC--TATAG
* *
34393 TACATGTATGTATAAACTATA-
1 TATATGTATATATAAACTATAG
*
34414 TGTA-GTATATATAAACTAT-G
1 TATATGTATATATAAACTATAG
*
34434 TATA-ATATATATAAAC-----
1 TATATGTATATATAAACTATAG
*
34450 TATA--TATATATAACCTATAG
1 TATATGTATATATAAACTATAG
*
34470 TATATGTATATATCAACTATA-
1 TATATGTATATATAAACTATAG
34491 TATAT
1 TATAT
34496 AACCTATAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
15 10 0.12
16 4 0.05
20 32 0.38
21 7 0.08
22 17 0.20
24 11 0.13
25 4 0.05
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (22 bp):
TATATGTATATATAAACTATAG
Found at i:34597 original size:22 final size:21
Alignment explanation
Indices: 34572--34673 Score: 84
Period size: 22 Copynumber: 4.8 Consensus size: 21
34562 TTTATAAACA
34572 ATAGTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTAC-AT
* * *
34594 ATAGTTTATACTTTAT-AACCT
1 ATAGTTTATA-TTAATGTACAT
* **
34615 ATAGTATATAATT-ATAAAC-T
1 ATAGTTTAT-ATTAATGTACAT
34635 ATAGTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTAC-AT
*
34657 ATAATTTATATTAATGT
1 ATAGTTTATATTAATGT
34674 TAATTATCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.05
20 15 0.23
21 14 0.21
22 30 0.45
23 4 0.06
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (21 bp):
ATAGTTTATATTAATGTACAT
Found at i:34631 original size:20 final size:20
Alignment explanation
Indices: 34606--34644 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34596 AGTTTATACT
*
34606 TTATAACCTATAGTATATAA
1 TTATAAACTATAGTATATAA
*
34626 TTATAAACTATAGTTTATA
1 TTATAAACTATAGTATATA
34645 TTAATGTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (20 bp):
TTATAAACTATAGTATATAA
Found at i:34694 original size:31 final size:31
Alignment explanation
Indices: 34656--34911 Score: 158
Period size: 31 Copynumber: 8.2 Consensus size: 31
34646 TAATGTACTA
* *
34656 TATAATTTATATTAATGTTAATTATCTTAAC
1 TATAATTTATATTAATATTAATTATATTAAC
* *
34687 TATAATTTATATTAATATAGTATATAGTTTATAAAC
1 TATAATTTATATTAATAT--TA-AT--TATATTAAC
*
34723 TAT-A-CTATATTAATATTAATTATATTAAC
1 TATAATTTATATTAATATTAATTATATTAAC
*
34752 TATAATTTATAAACTATACTATATAATT-TA-TAAC
1 TATAATTTAT--A-T-TAATAT-TAATTATATTAAC
* * *
34786 ATATAGTTTATATTAATATTAATTTTATAAAC
1 -TATAATTTATATTAATATTAATTATATTAAC
* * * *
34818 TATATTTTATATTAATTTTAATTACA--AAT
1 TATAATTTATATTAATATTAATTATATTAAC
**
34847 TATAAACTATATT-ATATTAATTATATTAA-
1 TATAATTTATATTAATATTAATTATATTAAC
* *
34876 TATTAA-TTATAAT-ATA-TAATTATTTTAA-
1 TA-TAATTTATATTAATATTAATTATATTAAC
34904 TATTAATT
1 TA-TAATT
34912 ATAAATATTT
Statistics
Matches: 181, Mismatches: 25, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
28 27 0.15
29 33 0.18
30 11 0.06
31 51 0.28
32 6 0.03
33 4 0.02
34 18 0.10
35 17 0.09
36 14 0.08
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (31 bp):
TATAATTTATATTAATATTAATTATATTAAC
Found at i:34764 original size:43 final size:40
Alignment explanation
Indices: 34685--34775 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 40
34675 AATTATCTTA
* *
34685 ACTATAATTTATATTAATATAGTATATAGTTTATAAACTAT
1 ACTAT-ATTAATATTAATATAGTATATAATTTATAAACTAT
*
34726 ACTATATTAATATTAATTATATTAACTATAATTTATAAACTAT
1 ACTATATTAATATTAA-TATAGT-A-TATAATTTATAAACTAT
34769 ACTATAT
1 ACTATAT
34776 AATTTATAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 10 0.23
41 10 0.23
42 1 0.02
43 23 0.52
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (40 bp):
ACTATATTAATATTAATATAGTATATAATTTATAAACTAT
Found at i:34776 original size:14 final size:14
Alignment explanation
Indices: 34716--34777 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
34706 GTATATAGTT
34716 TATAAACTATACTA
1 TATAAACTATACTA
* *
34730 TATTAA-TATTAATTA
1 TATAAACTA-T-ACTA
* * *
34745 TATTAACTATAATT
1 TATAAACTATACTA
34759 TATAAACTATACTA
1 TATAAACTATACTA
34773 TATAA
1 TATAA
34778 TTTATAACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 24 0.63
15 10 0.26
16 2 0.05
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAAACTATACTA
Found at i:34796 original size:131 final size:132
Alignment explanation
Indices: 34621--34894 Score: 308
Period size: 131 Copynumber: 2.1 Consensus size: 132
34611 ACCTATAGTA
* * * * * *
34621 TATAA-TTATAAACTATAGTTTATATTAATGTACTATATAATTTATATTAATGTTAATTATCTTA
1 TATAATTTATAAACTATACTATATATTAATGAACTATATAATTTATATTAATATTAATTATATAA
* * **
34685 ACTATAATTTATATTAA-TATAGTATATAGTTTATAAACTATACTATATTAA-TATTAATT-ATA
66 ACTATAATTTATATTAATTATAAT-TACAAATTATAAACTATACTATATTAATTA-T-ATTAATA
34747 TTAAC
128 TTAAC
* * *
34752 TATAATTTATAAACTATACTATATAATTTAT-AAC-ATATAGTTTATATTAATATTAATTTTATA
1 TATAATTTATAAACTATACTATAT-ATTAATGAACTATATAATTTATATTAATATTAATTATATA
* * *
34815 AACTATATTTTATATTAATTTTAATTACAAATTATAAACTATATTATATTAATTATATTAATATT
65 AACTATAATTTATATTAATTATAATTACAAATTATAAACTATACTATATTAATTATATTAATATT
*
34880 AAT
130 AAC
*
34883 TATAATATATAA
1 TATAATTTATAA
34895 TTATTTTAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
130 3 0.03
131 88 0.73
132 24 0.20
133 5 0.04
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.49
Consensus pattern (132 bp):
TATAATTTATAAACTATACTATATATTAATGAACTATATAATTTATATTAATATTAATTATATAA
ACTATAATTTATATTAATTATAATTACAAATTATAAACTATACTATATTAATTATATTAATATTA
AC
Found at i:34797 original size:21 final size:21
Alignment explanation
Indices: 34687--34784 Score: 85
Period size: 21 Copynumber: 4.6 Consensus size: 21
34677 TTATCTTAAC
*
34687 TATAATTTATATTAA-TATAGTA
1 TATAATTTATA--AACTATACTA
*
34709 TATAGTTTATAAACTATACTA
1 TATAATTTATAAACTATACTA
* * *
34730 TATTAA--TATTAATTATATTAA
1 TA-TAATTTATAAACTATACT-A
34751 CTATAATTTATAAACTATACTA
1 -TATAATTTATAAACTATACTA
34773 TATAATTTATAA
1 TATAATTTATAA
34785 CATATAGTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 12 0.20
21 24 0.39
22 15 0.25
23 10 0.16
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATTTATAAACTATACTA
Found at i:34819 original size:66 final size:65
Alignment explanation
Indices: 34621--34828 Score: 219
Period size: 66 Copynumber: 3.2 Consensus size: 65
34611 ACCTATAGTA
* * * * *
34621 TATAA-TTATAAACTATAGTTTAT-ATTAATGTACTATATAATTTATATTAATGTTAATTATCTT
1 TATAATTTATAAACTATAGTATATAATTTAT-AAC-ATAT-ATTTATATTAATATTAATTATATT
34684 AAC
63 AAC
* *
34687 TATAATTTATATTAA-TATAGTATATAGTTTATAA-ACTATA-CTATATTAATATTAATTATATT
1 TATAATTTATA--AACTATAGTATATAATTTATAACA-TATATTTATATTAATATTAATTATATT
34749 AAC
63 AAC
* * *
34752 TATAATTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAATTTTATAAA
1 TATAATTTATAAACTATAGTATATAATTTATAACATATA-TTTATATTAATATTAATTATATTAA
34817 C
65 C
*
34818 TATATTTTATA
1 TATAATTTATA
34829 TTAATTTTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
63 2 0.02
64 21 0.17
65 34 0.28
66 39 0.32
67 8 0.07
68 10 0.08
69 6 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (65 bp):
TATAATTTATAAACTATAGTATATAATTTATAACATATATTTATATTAATATTAATTATATTAAC
Found at i:34869 original size:21 final size:21
Alignment explanation
Indices: 34844--34935 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 21
34834 TTTAATTACA
*
34844 AATTATAAACTATATTATATT
1 AATTATAAATTATATTATATT
34865 AATTAT--ATTAATATTA-ATT
1 AATTATAAATT-ATATTATATT
* *
34884 ATAATATATAATTATTTTAATATT
1 A-ATTATA-AATTATATT-ATATT
34908 AATTATAAA-TAT-TT-TATT
1 AATTATAAATTATATTATATT
34926 AA-TATAAATT
1 AATTATAAATT
34936 TTATACGGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
17 6 0.10
18 7 0.12
19 6 0.10
20 12 0.20
21 9 0.15
22 6 0.10
23 9 0.15
24 4 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATAAATTATATTATATT
Found at i:34872 original size:43 final size:43
Alignment explanation
Indices: 34824--34914 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
34814 AAACTATATT
*
34824 TTATATTAATTTTAATTACAAAT-TATAAACTATATT-ATATTAA
1 TTATATTAATATTAATTA-AAATATAT-AACTATATTAATATTAA
* * *
34867 TTATATTAATATTAATTATAATATATAATTATTTTAATATTAA
1 TTATATTAATATTAATTAAAATATATAACTATATTAATATTAA
34910 TTATA
1 TTATA
34915 AATATTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 10 0.24
43 32 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (43 bp):
TTATATTAATATTAATTAAAATATATAACTATATTAATATTAA
Found at i:34895 original size:28 final size:28
Alignment explanation
Indices: 34854--34935 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
34844 AATTATAAAC
*
34854 TATATTATATTAATTATATTAATATTAAT
1 TATAATATA-TAATTATATTAATATTAAT
*
34883 TATAATATATAATTATTTTAATATTAAT
1 TATAATATATAATTATATTAATATTAAT
*
34911 TATAA-ATAT--TT-TATTAATATAAAT
1 TATAATATATAATTATATTAATATTAAT
34935 T
1 T
34936 TTATACGGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 12 0.24
25 2 0.04
27 4 0.08
28 23 0.47
29 8 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TATAATATATAATTATATTAATATTAAT
Found at i:34914 original size:131 final size:128
Alignment explanation
Indices: 34621--34940 Score: 289
Period size: 131 Copynumber: 2.5 Consensus size: 128
34611 ACCTATAGTA
* * * * * *
34621 TATAAT-TATAAACTATAGTTTATATTAATGTACT-ATATAATTTATATTAATGTTAATTATCTT
1 TATAATATATAAACTATA--ATATA-TAATTTA-TAATAT-ATTTATATTAATATTAATTTTATA
* * **
34684 AACTATAATTTATATTAATATAGTATATAGTTTATAAACTATACTATATTAATATTAATTATATT
61 AACTATAATTTATATTAATATAATATACAAATTATAAACTATACTATATTAATATTAATTATATT
34749 AAC
126 AAC
* *
34752 TATAATTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAATTTTATAAA
1 TATAATATATAAACTATAATATATAATTTAT-A-ATATA-TTTATATTAATATTAATTTTATAAA
* * *
34817 CTATATTTTATATTAATTTTAAT-TACAAATTATAAACTATATTATATT-A-ATTATATTAATAT
63 CTATAATTTATATTAA-TATAATATACAAATTATAAACTATACTATATTAATATTA-ATT-ATAT
*
34879 TAAT
125 TAAC
* * *
34883 TATAATATATAATTATTTTAATAT-TAA-TTATAA-ATATTT-TATTAATATAAATTTTATA
1 TATAATATATAA--ACTATAATATATAATTTATAATATATTTATATTAATATTAATTTTATA
34941 CGGATGAAAT
Statistics
Matches: 160, Mismatches: 19, Indels: 25
0.78 0.09 0.12
Matches are distributed among these distances:
126 18 0.11
127 3 0.02
128 4 0.03
129 11 0.07
130 10 0.06
131 89 0.56
132 18 0.11
133 7 0.04
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (128 bp):
TATAATATATAAACTATAATATATAATTTATAATATATTTATATTAATATTAATTTTATAAACTA
TAATTTATATTAATATAATATACAAATTATAAACTATACTATATTAATATTAATTATATTAAC
Found at i:34939 original size:15 final size:18
Alignment explanation
Indices: 34844--34934 Score: 60
Period size: 21 Copynumber: 4.6 Consensus size: 18
34834 TTTAATTACA
34844 AATTATAAACTATATTATATT
1 AATTATAAA-TAT-TT-TATT
34865 AATTATATTAATATTAATTA-T
1 AATTATA--AATATT--TTATT
*
34886 AATATATAATTATTTTAATATT
1 AAT-TATAAATA-TTT--TATT
34908 AATTATAAATATTTTATT
1 AATTATAAATATTTTATT
34926 AA-TATAAAT
1 AATTATAAAT
34935 TTTATACGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 22
0.71 0.02 0.27
Matches are distributed among these distances:
17 7 0.12
18 6 0.10
19 1 0.02
20 6 0.10
21 23 0.39
22 13 0.22
23 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTATAAATATTTTATT
Found at i:37337 original size:23 final size:22
Alignment explanation
Indices: 37290--37343 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
37280 TTAATGCAGA
*
37290 ATGCTTGCTGAATTGATGTAATG
1 ATGCTTGTTGAATTGA-GTAATG
37313 ATGCTTGTTGAATTG-GTACATTG
1 ATGCTTGTTGAATTGAGTA-A-TG
37336 ATGCTTGT
1 ATGCTTGT
37344 CGGTTGTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 3 0.11
22 1 0.04
23 24 0.86
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (22 bp):
ATGCTTGTTGAATTGAGTAATG
Found at i:37931 original size:13 final size:13
Alignment explanation
Indices: 37912--37949 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
37902 TAATTTAGTG
37912 ATTATAAATAA-A
1 ATTATAAATAAGA
37924 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
37939 ATTATAAATAA
1 ATTATAAATAA
37950 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:37959 original size:19 final size:19
Alignment explanation
Indices: 37928--37974 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
37918 AATAAAATTT
37928 ATAATAT-AAGAATT-ATAA
1 ATAATATAAAGAATTGA-AA
37946 ATAATATAAAGAATTGAAA
1 ATAATATAAAGAATTGAAA
*
37965 TTAATATAAA
1 ATAATATAAA
37975 AATCAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 18 0.69
20 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAATATAAAGAATTGAAA
Found at i:38015 original size:18 final size:17
Alignment explanation
Indices: 37929--38021 Score: 78
Period size: 18 Copynumber: 5.1 Consensus size: 17
37919 ATAAAATTTA
* *
37929 TAATATAAGAATTATAAA
1 TAATATAAAAATTA-AAT
37947 TAATATAAAGAATTGAAAT
1 TAATATAAA-AATT-AAAT
*
37966 TAATATAAAAATCAAATTT
1 TAATATAAAAATTAAA--T
**
37985 ATAATATGCAAATTATAAT
1 -TAATATAAAAATTA-AAT
38004 TAATATAAAAATTAAAT
1 TAATATAAAAATTAAAT
38021 T
1 T
38022 TCAAAAAGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
17 7 0.11
18 23 0.38
19 17 0.28
20 12 0.20
21 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
TAATATAAAAATTAAAT
Found at i:41609 original size:15 final size:16
Alignment explanation
Indices: 41582--41611 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
41572 CTTAGGGTTT
41582 TCGGGTCTTGGGCTTC
1 TCGGGTCTTGGGCTTC
41598 TCGGGT-TTGGGCTT
1 TCGGGTCTTGGGCTT
41612 GGATCAGGTC
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:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (16 bp):
TCGGGTCTTGGGCTTC
Found at i:41711 original size:3 final size:3
Alignment explanation
Indices: 41703--41737 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
41693 TAAAATTATT
41703 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41738 AATGGGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:41727 original size:17 final size:17
Alignment explanation
Indices: 41705--41737 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
41695 AAATTATTTA
41705 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
41722 ATAATAATAATAATAA
1 ATAATAATAATAATAA
41738 AATGGGAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:42394 original size:26 final size:26
Alignment explanation
Indices: 42344--42394 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
42334 GTCACGCTCA
*
42344 ATGAGCACCGCTGAACACTACTAATG
1 ATGAGCACCGCTGAACACCACTAATG
* *
42370 ATGAGCACCGCTGAGCACCATTAAT
1 ATGAGCACCGCTGAACACCACTAAT
42395 TTAATTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (26 bp):
ATGAGCACCGCTGAACACCACTAATG
Found at i:47553 original size:17 final size:17
Alignment explanation
Indices: 47515--47547 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47505 GTGAGCCGTG
*
47515 AGGAGAGGAAGCCATGA
1 AGGAGAGGAAGCCAGGA
47532 AGGAGAGGAAGCCAGG
1 AGGAGAGGAAGCCAGG
47548 GTGGAGTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.45, T:0.03
Consensus pattern (17 bp):
AGGAGAGGAAGCCAGGA
Found at i:48942 original size:16 final size:17
Alignment explanation
Indices: 48915--48954 Score: 73
Period size: 16 Copynumber: 2.4 Consensus size: 17
48905 AATTCAATCC
48915 ATATATACATGCATACA
1 ATATATACATGCATACA
48932 ATATA-ACATGCATACA
1 ATATATACATGCATACA
48948 ATATATA
1 ATATATA
48955 TTAACTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (17 bp):
ATATATACATGCATACA
Found at i:49029 original size:22 final size:22
Alignment explanation
Indices: 48978--49033 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
48968 CAACTCTATC
* *
48978 TTCAAATTAA-ATCAAAGAAAA
1 TTCAAATAAATATTAAAGAAAA
* *
48999 TT-AATTAAATATTAAAGGAAA
1 TTCAAATAAATATTAAAGAAAA
49020 TTCAAATAAATATT
1 TTCAAATAAATATT
49034 TTGGATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (22 bp):
TTCAAATAAATATTAAAGAAAA
Found at i:51778 original size:13 final size:13
Alignment explanation
Indices: 51746--51775 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
51736 GTGCTTTCAA
51746 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
51759 CTTTTCTTT-TTT
1 CTTTTCTTTCTTT
51771 CTTTT
1 CTTTT
51776 TCTGAGTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:51796 original size:23 final size:23
Alignment explanation
Indices: 51766--51809 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
51756 TTTCTTTTCT
51766 TTTTTCTT-TTTCTGAGTGCTTGA
1 TTTTTCTTCTTT-TGAGTGCTTGA
51789 TTTTTCTTCTTTTGAGTGCTT
1 TTTTTCTTCTTTTGAGTGCTT
51810 CAATTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.07, C:0.14, G:0.16, T:0.64
Consensus pattern (23 bp):
TTTTTCTTCTTTTGAGTGCTTGA
Found at i:51815 original size:24 final size:23
Alignment explanation
Indices: 51766--51815 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
51756 TTTCTTTTCT
*
51766 TTTTTCTTTTTCTGAGTGCTTGA
1 TTTTTCTTTTTCTGAGTGCTTAA
51789 TTTTTCTTCTTT-TGAGTGCTTCAA
1 TTTTTCTT-TTTCTGAGTGCTT-AA
51813 TTT
1 TTT
51816 CTTTGCCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.62
Consensus pattern (23 bp):
TTTTTCTTTTTCTGAGTGCTTAA
Found at i:55317 original size:23 final size:23
Alignment explanation
Indices: 55291--55390 Score: 92
Period size: 23 Copynumber: 4.3 Consensus size: 23
55281 GAACAAAACC
* *
55291 ATGTGCTCATTCGGGACAATTCT
1 ATGTGGTCCTTCGGGACAATTCT
* *
55314 ATGTGGTCCTTGGGGAAAATTCT
1 ATGTGGTCCTTCGGGACAATTCT
*
55337 ATGTGGTCCTTCAGGACAAATTTCT
1 ATGTGGTCCTTCGGGAC-AA-TTCT
** * * *
55362 ACATGATCCTTCGGTACAAATCT
1 ATGTGGTCCTTCGGGACAATTCT
55385 ATGTGG
1 ATGTGG
55391 AACTTCGGTG
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
23 39 0.66
24 4 0.07
25 16 0.27
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (23 bp):
ATGTGGTCCTTCGGGACAATTCT
Found at i:58563 original size:25 final size:25
Alignment explanation
Indices: 58518--58572 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
58508 TTTCAAAAAC
* * *
58518 TTCAACAAATATTTTTCAAAATTCT
1 TTCATCAAACATTTTTCAAAAGTCT
58543 TTCATCAAACATTATTT-AAAAGTCT
1 TTCATCAAACATT-TTTCAAAAGTCT
58568 TTCAT
1 TTCAT
58573 TATTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
TTCATCAAACATTTTTCAAAAGTCT
Found at i:58575 original size:18 final size:18
Alignment explanation
Indices: 58552--58590 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
58542 TTTCATCAAA
58552 CATTATTTAAAAGTCTTT
1 CATTATTTAAAAGTCTTT
*
58570 CATTATTTAAAATTCTTT
1 CATTATTTAAAAGTCTTT
58588 CAT
1 CAT
58591 AAAGCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (18 bp):
CATTATTTAAAAGTCTTT
Found at i:58610 original size:25 final size:23
Alignment explanation
Indices: 58578--58627 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
58568 TTCATTATTT
58578 AAAATTCTTTCAT-AAAGCATTTTC
1 AAAATTC-TTCATCAAA-CATTTTC
*
58602 AAAACTTCTTCATCAAACTTTTTC
1 AAAA-TTCTTCATCAAACATTTTC
58626 AA
1 AA
58628 CTTTTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAATTCTTCATCAAACATTTTC
Found at i:60695 original size:7 final size:7
Alignment explanation
Indices: 60678--60717 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
60668 AGCTATTTTT
60678 TATTATAA
1 TATTAT-A
60686 TATTATA
1 TATTATA
*
60693 TATTAAA
1 TATTATA
*
60700 TATTAAA
1 TATTATA
60707 TATTATA
1 TATTATA
60714 TATT
1 TATT
60718 TTTTATAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TATTATA
Found at i:62027 original size:2 final size:2
Alignment explanation
Indices: 62020--62074 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
62010 TGGGTGTGAG
*
62020 TA TA TA TA TA T- TGG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62062 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
62075 TATTTATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
1 1 0.02
2 48 0.96
3 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63035 original size:17 final size:18
Alignment explanation
Indices: 63004--63041 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
62994 TTCATGGTGT
63004 TTTTATTTATCTTG-TTA
1 TTTTATTTATCTTGTTTA
63021 TTTTAGTTTAT-TTGTTTA
1 TTTTA-TTTATCTTGTTTA
63039 TTT
1 TTT
63042 GTCATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.74
Consensus pattern (18 bp):
TTTTATTTATCTTGTTTA
Found at i:63544 original size:13 final size:13
Alignment explanation
Indices: 63526--63553 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63516 CTTAAAATTG
63526 TTTTAAAAGATAT
1 TTTTAAAAGATAT
63539 TTTTAAAAGATAT
1 TTTTAAAAGATAT
63552 TT
1 TT
63554 AATATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTAAAAGATAT
Found at i:63939 original size:23 final size:24
Alignment explanation
Indices: 63913--63970 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
63903 AATTTAGTAA
*
63913 AATATTAATAAAATTAAATAT-TT
1 AATATTTATAAAATTAAATATATT
* * *
63936 AATATTTTTAATATTCAATATATT
1 AATATTTATAAAATTAAATATATT
63960 AATATTTATAA
1 AATATTTATAA
63971 TTTATTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATTTATAAAATTAAATATATT
Found at i:63948 original size:16 final size:15
Alignment explanation
Indices: 63929--63967 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
63919 AATAAAATTA
*
63929 AATATTTAATATTTTT
1 AATATTTAATA-TATT
*
63945 AATATTCAATATATT
1 AATATTTAATATATT
63960 AATATTTA
1 AATATTTA
63968 TAATTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
AATATTTAATATATT
Found at i:65011 original size:13 final size:13
Alignment explanation
Indices: 64993--65047 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
64983 TGCGTCATAA
*
64993 ATTTATGACGCGC
1 ATTTATGACGCAC
*
65006 ATTTATGACACAC
1 ATTTATGACGCAC
*
65019 ATTTATTACGCAC
1 ATTTATGACGCAC
*
65032 ATTTATGACGCTC
1 ATTTATGACGCAC
65045 ATT
1 ATT
65048 GTGCTTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCAC
Found at i:65214 original size:2 final size:2
Alignment explanation
Indices: 65207--65233 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65197 TTTGTAAATT
65207 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
65234 TGTAGATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.