Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007217.1 Hibiscus syriacus cultivar Beakdansim tig00019086_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: 91047
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:640 original size:22 final size:22
Alignment explanation
Indices: 615--680 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 22
605 CCACAGCTCG
615 TAATTTGCACCGAAGTGCCACA
1 TAATTTGCACCGAAGTGCCACA
637 TAA-TTGTC-CCGAA-TGACCACA
1 TAATTTG-CACCGAAGTG-CCACA
*
658 TAAGTTTGTA-CGAAGTGCCACA
1 TAA-TTTGCACCGAAGTGCCACA
680 T
1 T
681 TTGTCCCGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
20 2 0.05
21 16 0.43
22 14 0.38
23 5 0.14
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (22 bp):
TAATTTGCACCGAAGTGCCACA
Found at i:879 original size:21 final size:21
Alignment explanation
Indices: 853--924 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
843 CATAGAGTTT
853 GTTCACATTCACTGGTTCAAA
1 GTTCACATTCACTGGTTCAAA
874 GTTCACATTCACTGGTTCAAA
1 GTTCACATTCACTGGTTCAAA
* *
895 GTTCACATTCACTTGTTCAAG
1 GTTCACATTCACTGGTTCAAA
916 GTTCACATT
1 GTTCACATT
925 TCCATAACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (21 bp):
GTTCACATTCACTGGTTCAAA
Found at i:1380 original size:54 final size:54
Alignment explanation
Indices: 1311--1441 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
1301 GATACCACCC
* * *
1311 TTCAAGGGTATCGATACCTCCTCATGGCACTGATACCAAAAC-GATATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGCACCGATACC-AAACTGACATTCGATGT
* * *
1365 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATACCAATCTGGCATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGCACCGATACCAAACTGACATTCGATGT
*
1419 TTTAAGGGTATCGATACCATCCT
1 TTCAAGGGTATCGATACC-TCCT
1442 TCAGGTATCG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.04
54 61 0.90
55 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCAAGGCACCGATACCAAACTGACATTCGATGT
Found at i:1450 original size:20 final size:21
Alignment explanation
Indices: 1425--1477 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
1415 ATGTTTTAAG
*
1425 GGTATCGATACCATCCTT-CA
1 GGTATCGATACCACCCTTACA
*
1445 GGTATCGATACTACCCTTACA
1 GGTATCGATACCACCCTTACA
1466 -GTATCGATACCA
1 GGTATCGATACCA
1478 ATATCAACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
GGTATCGATACCACCCTTACA
Found at i:2795 original size:330 final size:330
Alignment explanation
Indices: 2194--2857 Score: 1148
Period size: 330 Copynumber: 2.0 Consensus size: 330
2184 CACTAAGTTT
** * *
2194 AAAAGTCTTTTATTTTGGCCACTGACCCGATAATTGGGTTGTTATAATTACCCTCTGTTGAACCT
1 AAAAGTCTTACATTTTGGCCACTGACCCGATAATTGGGTTGTTACAATTACCCTCCGTTGAACCT
*
2259 CATCCTCAACATAAAGAACATTGTACAACTCCTTAAGAAATTGTAATTTATATCGAGGATAAAGT
66 CATCCTCAACATAAAGAACATTATACAACTCCTTAAGAAATTGTAATTTATATCGAGGATAAAGT
*
2324 AAAATAGCAAAAGACAGAATCATAGAGTGATCATACCAATATTTCTCATATAGTTCAAGCATGGG
131 AAAATAGCAAAAGACAGAATCATAGAGTGATCAGACCAATATTTCTCATATAGTTCAAGCATGGG
2389 TCATGCCATTGCAGAAATACCTTCACAAGGATCATTATGAGCATCACACAACAATTTCTCAATTG
196 TCATGCCATTGCAGAAATACCTTCACAAGGATCATTATGAGCATCACACAACAATTTCTCAATTG
* * *
2454 CAACAACGGTAGCCAAATACAAGTTAGAAGTGGGATACTTAGAACCAGATAACAGAGTAGTAATT
261 CAACAACGGTAGCCAAATACAAGCTAGAAGTGGGATACTTAGAACCAGAGAACAAAGTAGTAATT
2519 TCATA
326 TCATA
** * *
2524 AAAAGTCTTACATTTTGGTTACTGACCCGATAATTGGGTTGTTACACTTACCCTCCGTTTAACCT
1 AAAAGTCTTACATTTTGGCCACTGACCCGATAATTGGGTTGTTACAATTACCCTCCGTTGAACCT
** * *
2589 CATCCTCAACATAAAGAACATTATACAACTCCTTACTAAGTTGTAATTTATATCGAGGATCAAGT
66 CATCCTCAACATAAAGAACATTATACAACTCCTTAAGAAATTGTAATTTATATCGAGGATAAAGT
2654 AAAATAGCAAAAGACAGAATCATAGAGTGATCAGACCAATATTTCTCATATAGTTCAAGCATGGG
131 AAAATAGCAAAAGACAGAATCATAGAGTGATCAGACCAATATTTCTCATATAGTTCAAGCATGGG
* * *
2719 TCCTGCCATTGTAGAAATACCTTCACAAGGATCATTATGAGTATCACACAACAATTTCTCAATTG
196 TCATGCCATTGCAGAAATACCTTCACAAGGATCATTATGAGCATCACACAACAATTTCTCAATTG
2784 CAACAACGGTAGCCAAATACAAGCTAGAAGTGGGATACTTAGAACCAGAGAACAAAGTAGTAATT
261 CAACAACGGTAGCCAAATACAAGCTAGAAGTGGGATACTTAGAACCAGAGAACAAAGTAGTAATT
2849 TCATA
326 TCATA
2854 AAAA
1 AAAA
2858 AAGCTCAAGA
Statistics
Matches: 314, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
330 314 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (330 bp):
AAAAGTCTTACATTTTGGCCACTGACCCGATAATTGGGTTGTTACAATTACCCTCCGTTGAACCT
CATCCTCAACATAAAGAACATTATACAACTCCTTAAGAAATTGTAATTTATATCGAGGATAAAGT
AAAATAGCAAAAGACAGAATCATAGAGTGATCAGACCAATATTTCTCATATAGTTCAAGCATGGG
TCATGCCATTGCAGAAATACCTTCACAAGGATCATTATGAGCATCACACAACAATTTCTCAATTG
CAACAACGGTAGCCAAATACAAGCTAGAAGTGGGATACTTAGAACCAGAGAACAAAGTAGTAATT
TCATA
Found at i:4456 original size:24 final size:24
Alignment explanation
Indices: 4427--4472 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4417 TCAGATTTTG
4427 GATTCGGGTTCGGATTCGGGTTCA
1 GATTCGGGTTCGGATTCGGGTTCA
* *
4451 GATTCGGGTTCGGGTTTGGGTT
1 GATTCGGGTTCGGATTCGGGTT
4473 TGGGTTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.09, C:0.13, G:0.41, T:0.37
Consensus pattern (24 bp):
GATTCGGGTTCGGATTCGGGTTCA
Found at i:4464 original size:6 final size:6
Alignment explanation
Indices: 4429--4478 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
4419 AGATTTTGGA
* * * * *
4429 TTCGGG TTCGGA TTCGGG TTCAGA TTCGGG TTCGGG TTTGGG TTTGGG
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG
4477 TT
1 TT
4479 TAGGTTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.06, C:0.12, G:0.42, T:0.40
Consensus pattern (6 bp):
TTCGGG
Found at i:4472 original size:12 final size:12
Alignment explanation
Indices: 4426--4463 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
4416 TTCAGATTTT
4426 GGATTCGGGTTC
1 GGATTCGGGTTC
4438 GGATTCGGGTTC
1 GGATTCGGGTTC
*
4450 AGATTCGGGTTC
1 GGATTCGGGTTC
4462 GG
1 GG
4464 GTTTGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.11, C:0.16, G:0.42, T:0.32
Consensus pattern (12 bp):
GGATTCGGGTTC
Found at i:4840 original size:10 final size:10
Alignment explanation
Indices: 4825--4849 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4815 GGGTTTTGGT
4825 ATGAACAAGG
1 ATGAACAAGG
4835 ATGAACAAGG
1 ATGAACAAGG
4845 ATGAA
1 ATGAA
4850 ATTTCGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (10 bp):
ATGAACAAGG
Found at i:4931 original size:21 final size:22
Alignment explanation
Indices: 4893--4936 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4883 TTTGATTTGG
*
4893 TTTTTTTAAAGATCAAATGAAGA
1 TTTTTTCAAAGA-CAAATGAAGA
4916 TTTTTTCAAAGA-AAATGAAGA
1 TTTTTTCAAAGACAAATGAAGA
4937 ACACAGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
TTTTTTCAAAGACAAATGAAGA
Found at i:5249 original size:24 final size:24
Alignment explanation
Indices: 5213--5324 Score: 79
Period size: 24 Copynumber: 4.6 Consensus size: 24
5203 TTCATCACTA
** *
5213 TATAATTTTTATTAATTAACTATT
1 TATAATTAATATTAATTAAATATT
*
5237 TATAATTAATATTAAAATAATTATATAT
1 TATAATTAATATT-AATTAA--ATAT-T
* *
5265 TATAATTAATATTAATATAATTA-A
1 TATAATTAATATTAAT-TAAATATT
*
5289 TATAATTAATATTAA-TATA-ATT
1 TATAATTAATATTAATTAAATATT
*
5311 AAT-ATTAATATTAA
1 TATAATTAATATTAA
5325 CTTATATTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
21 12 0.17
22 4 0.06
24 26 0.37
25 5 0.07
26 2 0.03
27 5 0.07
28 17 0.24
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATAATTAATATTAATTAAATATT
Found at i:5256 original size:15 final size:15
Alignment explanation
Indices: 5238--5340 Score: 73
Period size: 15 Copynumber: 6.3 Consensus size: 15
5228 TTAACTATTT
5238 ATAATTAATATTAAA
1 ATAATTAATATTAAA
5253 ATAATTATATATTATAA
1 ATAATTA-ATATTA-AA
* *
5270 TTAATATTAATATAATTAAT
1 AT-A-ATT-A-AT-ATTAAA
*
5290 ATAATTAATATTAAT
1 ATAATTAATATTAAA
5305 ATAATTAATATTAATA
1 ATAATTAATATTAA-A
* *
5321 TTAACTT-ATATTAAT
1 ATAA-TTAATATTAAA
5336 ATAAT
1 ATAAT
5341 ATAGTTTATA
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
14 1 0.01
15 30 0.41
16 18 0.25
17 6 0.08
18 4 0.05
19 4 0.05
20 6 0.08
21 4 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTAATATTAAA
Found at i:5278 original size:6 final size:6
Alignment explanation
Indices: 5227--5342 Score: 61
Period size: 6 Copynumber: 19.3 Consensus size: 6
5217 ATTTTTATTA
*
5227 ATTAACT ATTTAT AATTAAT ATTAAAAT AATTATAT ATT-AT AATTAAT
1 ATTAA-T ATTAAT -ATTAAT ATT--AAT -ATTA-AT ATTAAT -ATTAAT
*
5275 ATTAAT A-TAAT -TAATAT AATTAAT ATTAAT A-T-A- ATTAAT ATTAAT
1 ATTAAT ATTAAT ATTA-AT -ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
*
5320 ATTAA- CTT-AT ATTAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT ATTAAT AT
5343 AGTTTATAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 35
0.68 0.05 0.28
Matches are distributed among these distances:
3 1 0.01
4 3 0.03
5 18 0.21
6 37 0.43
7 17 0.20
8 7 0.08
9 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:5289 original size:9 final size:9
Alignment explanation
Indices: 5275--5315 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
5265 TATAATTAAT
5275 ATTAATATA
1 ATTAATATA
5284 ATTAATATA
1 ATTAATATA
5293 ATT-A-AT-
1 ATTAATATA
5299 ATTAATATA
1 ATTAATATA
5308 ATTAATAT
1 ATTAATAT
5316 TAATATTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 3 0.10
7 3 0.10
8 3 0.10
9 20 0.69
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTAATATA
Found at i:5396 original size:31 final size:30
Alignment explanation
Indices: 5357--5469 Score: 104
Period size: 31 Copynumber: 3.5 Consensus size: 30
5347 TATAATTTGT
5357 AATTAATATTAATATAAAATATA-GTCTATA
1 AATTAATATTAATATAAAATATATGT-TATA
*
5387 ACATTAATATTAATATAAACTATATGTTATA
1 A-ATTAATATTAATATAAAATATATGTTATA
* *
5418 AATTATATAGTATAGTTTATAAACTATA-GTTAATA
1 AATTA-ATA-T-TA--ATATAAAATATATGTT-ATA
5453 TAATTAATATTAATATA
1 -AATTAATATTAATATA
5470 GTAAAGTTTA
Statistics
Matches: 71, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
30 5 0.07
31 33 0.46
32 3 0.04
33 4 0.06
34 4 0.06
35 17 0.24
36 5 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATATGTTATA
Found at i:5409 original size:24 final size:25
Alignment explanation
Indices: 5364--5410 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
5354 TGTAATTAAT
**
5364 ATTAATATAAAATATAGTCTATAAC
1 ATTAATATAAAATATAAACTATAAC
*
5389 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
5411 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAC
Found at i:5471 original size:43 final size:40
Alignment explanation
Indices: 5422--5512 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 40
5412 GTTATAAATT
* *
5422 ATATAGTATAGTTTATAAACTATAGTTAATATAATTAATATTA
1 ATATAGTAAAGTTTATAAACTATA--TAATAT-ATTAATATAA
*
5465 ATATAGTAAAGTTTATAAACTATATACTATATTAATATAA
1 ATATAGTAAAGTTTATAAACTATATAATATATTAATATAA
5505 ATTATAGT
1 A-TATAGT
5513 TAAGATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 10 0.23
41 11 0.25
43 23 0.52
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (40 bp):
ATATAGTAAAGTTTATAAACTATATAATATATTAATATAA
Found at i:5515 original size:65 final size:65
Alignment explanation
Indices: 5297--5535 Score: 226
Period size: 65 Copynumber: 3.7 Consensus size: 65
5287 AATATAATTA
* *
5297 ATATTAATAT-AATTAATA-TTAATATTAACTT-ATATTAATATAATATAGTTTATAATTTGTA-
1 ATATTAATATAAATT-ATAGTTAATA-TAA-TTAATATTAATATAATATAGTTTATAAATTATAT
*
5358 ATT
63 ACT
*
5361 AATATTAATATAAAATATAGTCT-ATA-ACATTAATATTAATATAAACTATA-TGTTATAAATTA
1 -ATATTAATATAAATTATAGT-TAATATA-ATTAATATTAATAT-AA-TATAGT-TTATAAATTA
*
5423 TATAGT
60 TATACT
* * * *
5429 ATAGTT--TATAAACTATAGTTAATATAATTAATATTAATATAGTAAAGTTTATAAACTATATAC
1 ATA-TTAATATAAATTATAGTTAATATAATTAATATTAATATAATATAGTTTATAAATTATATAC
5492 T
65 T
* *
5493 ATATTAATATAAATTATAGTTAAGATAATTAACATTAATATAA
1 ATATTAATATAAATTATAGTTAATATAATTAATATTAATATAA
5536 ACTATATAGT
Statistics
Matches: 146, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
63 2 0.01
64 23 0.16
65 59 0.40
66 39 0.27
67 19 0.13
68 4 0.03
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (65 bp):
ATATTAATATAAATTATAGTTAATATAATTAATATTAATATAATATAGTTTATAAATTATATACT
Found at i:5549 original size:22 final size:22
Alignment explanation
Indices: 5524--5626 Score: 90
Period size: 22 Copynumber: 4.8 Consensus size: 22
5514 AAGATAATTA
5524 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
*
5546 ACATTAATATAAACTATAGTTTGT
1 ACATTAATATAAACTATA--TAGT
* *
5570 AAATT-ATAT--ACTATA-GGT
1 ACATTAATATAAACTATATAGT
* *
5588 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAACTATATAGT
*
5610 ACACTAATATAAACTAT
1 ACATTAATATAAACTAT
5627 TGATTATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
17 2 0.03
18 3 0.05
19 3 0.05
21 12 0.19
22 30 0.47
23 7 0.11
24 7 0.11
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:5582 original size:21 final size:21
Alignment explanation
Indices: 5553--5605 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5543 AGTACATTAA
* * *
5553 TATAAACTATAGTTTGTAAAT
1 TATAAACTATAGGTTATAAAG
*
5574 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
5595 TATAAACTATA
1 TATAAACTATA
5606 TAGTACACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:5727 original size:20 final size:20
Alignment explanation
Indices: 5648--5743 Score: 74
Period size: 20 Copynumber: 5.0 Consensus size: 20
5638 TATAGGTTAC
5648 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATAC-T
* * *
5668 ATAAATAGATTGTATATA-T
1 ATATATAGTTTATATATACT
* * **
5687 ATATATACTATAGGT-TA-T
1 ATATATAGTTTATATATACT
5705 ATATATAGTTTATATATACT
1 ATATATAGTTTATATATACT
* *
5725 ATACATAGTTTATACATAC
1 ATATATAGTTTATATATAC
5744 ATGTACTATA
Statistics
Matches: 57, Mismatches: 16, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
18 14 0.25
19 11 0.19
20 31 0.54
21 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATATAGTTTATATATACT
Found at i:5768 original size:35 final size:36
Alignment explanation
Indices: 5729--5802 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
5719 TATACTATAC
* *
5729 ATAGTTT-ATACATACATGTACTATAAGTTAGATAT
1 ATAGTTTAATACATACATATACTATAAGTTACATAT
*
5764 ATAGTTTACATATATACATATACTATAAGTTACATAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACATAT
5801 AT
1 AT
5803 TAATTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.21
37 27 0.79
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACATAT
Found at i:5777 original size:55 final size:58
Alignment explanation
Indices: 5636--5785 Score: 191
Period size: 57 Copynumber: 2.6 Consensus size: 58
5626 TTGATTATAA
* *
5636 ACTATAGGTTACATATATAGTTTATATA-ACATATAAATAGATTGTATATATATATAT
1 ACTATAGGTTACATATATAGTTTATATATACATATAAATAGATTGTATACATACATAT
* * *
5693 ACTATAGGTTATATATATAGTTTATATATAC-TATACATAG-TT-TATACATACATGT
1 ACTATAGGTTACATATATAGTTTATATATACATATAAATAGATTGTATACATACATAT
* *
5748 ACTATAAGTTAGATATATAGTTTACATATATACATATA
1 ACTATAGGTTACATATATAGTTT--ATATATACATATA
5786 CTATAAGTTA
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
55 31 0.38
56 2 0.02
57 43 0.52
58 6 0.07
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (58 bp):
ACTATAGGTTACATATATAGTTTATATATACATATAAATAGATTGTATACATACATAT
Found at i:5868 original size:21 final size:21
Alignment explanation
Indices: 5844--5883 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5834 TAATGTTTAT
*
5844 GGTTTAAGATTTATGATTTTG
1 GGTTCAAGATTTATGATTTTG
* *
5865 GGTTCATGGTTTATGATTT
1 GGTTCAAGATTTATGATTT
5884 AAGATTTAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.53
Consensus pattern (21 bp):
GGTTCAAGATTTATGATTTTG
Found at i:5868 original size:35 final size:35
Alignment explanation
Indices: 5824--5891 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
5814 TATGTATAAT
*
5824 ATTTAGGGTTTAAT-GTTTATGGTTTAAGATTTATG
1 ATTTAGGG-TTAATGGTTTATGATTTAAGATTTATG
* *
5859 ATTTTGGGTTCATGGTTTATGATTTAAGATTTA
1 ATTTAGGGTTAATGGTTTATGATTTAAGATTTA
5892 GGGTTTAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.51
Consensus pattern (35 bp):
ATTTAGGGTTAATGGTTTATGATTTAAGATTTATG
Found at i:5903 original size:28 final size:28
Alignment explanation
Indices: 5838--5904 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
5828 AGGGTTTAAT
* *
5838 GTTTATGGTTTAAGATTTATGATTTTGG
1 GTTTATGGTTTAAGATTTAAGATTTAGG
* *
5866 GTTCATGGTTTATGATTTAAGATTTAGG
1 GTTTATGGTTTAAGATTTAAGATTTAGG
*
5894 GTTTAAGGTTT
1 GTTTATGGTTT
5905 TTATAAACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.01, G:0.25, T:0.51
Consensus pattern (28 bp):
GTTTATGGTTTAAGATTTAAGATTTAGG
Found at i:6033 original size:20 final size:20
Alignment explanation
Indices: 6010--6049 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6000 TTATTTTGTA
* *
6010 TATATATAGTTTATATATAC
1 TATACATAGTTTATACATAC
6030 TATACATAGTTTATACATAC
1 TATACATAGTTTATACATAC
6050 ATGTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TATACATAGTTTATACATAC
Found at i:6096 original size:24 final size:24
Alignment explanation
Indices: 6068--6128 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
6058 TAAGTTACTT
6068 ATATAGTTTACATGTATACATATA
1 ATATAGTTTACATGTATACATATA
6092 ATATAGTTTACATGTATACATATA
1 ATATAGTTTACATGTATACATATA
* *
6116 CTATAGGTTACAT
1 ATATAGTTTACAT
6129 ATATTAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (24 bp):
ATATAGTTTACATGTATACATATA
Found at i:6357 original size:2 final size:2
Alignment explanation
Indices: 6352--6731 Score: 59
Period size: 2 Copynumber: 198.5 Consensus size: 2
6342 TTTTTTAAAC
* *
6352 TA TA TA TA TA TA TA T- TC TA TA GA T- TA CT- TA TA T- TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
6389 TA TA CA TA CA TA TA TA T- TA TA T- TA -A TA TA AA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
6426 TT TA TA AA GTA TA TA T- TT TA TA TA GTT TA TA CA TA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* *
6468 TA TA TA CA TA TA TA TA TA TA TA TA CTA TA T- TA -A TA TA AA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
6508 TA TA T- TT TA TA -A AA TA TA T- TA -A TA TA AA T- TA TA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
6544 TA TA AA CTA GA TA -A TT TT TA TA GTT TA TA CA TA TA TA GTT TA
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* * * * * *
6586 TA TA CA TA GTT TT TA TA TA TA TA TA TA GT- TCA CA TA AA CA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA
* ** *
6628 -A TT TA TA TA TA TA GC T- TA TA -A TA -A T- TA TA TA GTT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
6665 TA TA TA AA TA TA GTT TA TA TA TA TA GTT TA TA TA TA AA CT- TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
6707 TA T- TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6732 TTTTTTAATT
Statistics
Matches: 266, Mismatches: 65, Indels: 94
0.63 0.15 0.22
Matches are distributed among these distances:
1 32 0.12
2 220 0.83
3 14 0.05
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6449 original size:25 final size:24
Alignment explanation
Indices: 6421--6589 Score: 93
Period size: 25 Copynumber: 7.2 Consensus size: 24
6411 TAATATAAAT
6421 TATAATTTATAAAGTATATATTTTA
1 TATAATTTATAAA-TATATATTTTA
* * *
6446 TATAGTTTATACATATATAGTTTA
1 TATAATTTATAAATATATATTTTA
* * **
6470 TATACATATATATATATATATACTA
1 TATA-ATTTATAAATATATATTTTA
6495 TATTAA--TATAAAT-TATATTTTA
1 TA-TAATTTATAAATATATATTTTA
* * * *
6517 TAAAATATATTAATATA-A-ATTA
1 TATAATTTATAAATATATATTTTA
* *
6539 TAT--TTTATAAACTAGATAATTTT-
1 TATAATTTAT-AAATATAT-ATTTTA
* * *
6562 TATAGTTTATACATATATAGTTTA
1 TATAATTTATAAATATATATTTTA
6586 TATA
1 TATA
6590 CATAGTTTTT
Statistics
Matches: 107, Mismatches: 25, Indels: 25
0.68 0.16 0.16
Matches are distributed among these distances:
20 4 0.04
21 6 0.06
22 14 0.13
23 21 0.20
24 27 0.25
25 33 0.31
26 2 0.02
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (24 bp):
TATAATTTATAAATATATATTTTA
Found at i:6473 original size:17 final size:15
Alignment explanation
Indices: 6444--6481 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
6434 GTATATATTT
6444 TATATAGTTTATACA
1 TATATAGTTTATACA
6459 TATATAGTTTATATACA
1 TATATAG-TT-TATACA
6476 TATATA
1 TATATA
6482 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 12 0.57
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:6518 original size:29 final size:29
Alignment explanation
Indices: 6406--6552 Score: 124
Period size: 29 Copynumber: 5.1 Consensus size: 29
6396 ACATATATAT
* *
6406 TATATTAATATAAATTATAATTTATAAAG
1 TATATTAATATAAATTATATTTTATAAAC
** *
6435 TATA-T-AT-TTTA-TATAGTTTATACATA-
1 TATATTAATATAAATTATATTTTATA-A-AC
* * * *
6461 TATAGTTTATATACATATATATATATATATAC
1 TATA-TTAATATAAAT-TATAT-TTTATAAAC
*
6493 TATATTAATATAAATTATATTTTATAAAA
1 TATATTAATATAAATTATATTTTATAAAC
6522 TATATTAATATAAATTATATTTTATAAAC
1 TATATTAATATAAATTATATTTTATAAAC
6551 TA
1 TA
6553 GATAATTTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
25 10 0.11
26 7 0.07
27 3 0.03
28 2 0.02
29 42 0.45
30 7 0.07
31 10 0.11
32 8 0.09
33 5 0.05
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
TATATTAATATAAATTATATTTTATAAAC
Found at i:6657 original size:116 final size:116
Alignment explanation
Indices: 6406--6634 Score: 329
Period size: 116 Copynumber: 2.0 Consensus size: 116
6396 ACATATATAT
* * *
6406 TATATTAATATAAATTATAATTTATAAAGTATATATTTTATATAGTTTATACATATATAGTTTAT
1 TATATTAATATAAATTATATTTTATAAACTAGATATTTTATATAGTTTATACATATATAGTTTAT
* * *
6471 ATACATATATATATATATATACTATATTAATATAAATTATATTTTATAAAA
66 ATACATATATATATATATATACTATATTAACATAAATCATAATTTATAAAA
6522 TATATTAATATAAATTATATTTTATAAACTAGATAATTTT-TATAGTTTATACATATATAGTTTA
1 TATATTAATATAAATTATATTTTATAAACTAGAT-ATTTTATATAGTTTATACATATATAGTTTA
* * *
6586 TATACATAGTTTTTATATATATA-TATAGTTCACATAAA-CATAATTTATA
65 TATACATA-TATATATATATATACTATA-TTAACATAAATCATAATTTATA
6635 TATATAGCTT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
116 76 0.75
117 25 0.25
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (116 bp):
TATATTAATATAAATTATATTTTATAAACTAGATATTTTATATAGTTTATACATATATAGTTTAT
ATACATATATATATATATATACTATATTAACATAAATCATAATTTATAAAA
Found at i:6675 original size:18 final size:19
Alignment explanation
Indices: 6654--6689 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6644 TATAATAATT
6654 ATATAGTTTAT-TATATAA
1 ATATAGTTTATATATATAA
6672 ATATAGTTTATATATATA
1 ATATAGTTTATATATATA
6690 GTTTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
ATATAGTTTATATATATAA
Found at i:6688 original size:13 final size:13
Alignment explanation
Indices: 6562--6725 Score: 70
Period size: 13 Copynumber: 13.3 Consensus size: 13
6552 AGATAATTTT
6562 TATAGTTTATACATA
1 TATAGTTTAT--ATA
6577 TATAGTTTATATA
1 TATAGTTTATATA
*
6590 CATAG-TT-T-T-
1 TATAGTTTATATA
6599 TATA---TATATA
1 TATAGTTTATATA
* *
6609 TATAGTTCACATAAA
1 TATAGTT--TATATA
* *
6624 CATAATTTATATA
1 TATAGTTTATATA
*
6637 TATAGCTTATA-A
1 TATAGTTTATATA
6649 TA-A--TTATATA
1 TATAGTTTATATA
* *
6659 GTTTA-TTATATAAA
1 -TATAGTT-TATATA
6673 TATAGTTTATATA
1 TATAGTTTATATA
6686 TATAGTTTATATA
1 TATAGTTTATATA
**
6699 TA-AACTTATAT-
1 TATAGTTTATATA
*
6710 TATA-TATATATA
1 TATAGTTTATATA
6722 TATA
1 TATA
6726 TTATATTTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 35
0.68 0.11 0.21
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 9 0.08
10 6 0.05
11 10 0.09
12 18 0.16
13 43 0.38
14 7 0.06
15 19 0.17
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:6731 original size:15 final size:15
Alignment explanation
Indices: 6352--6724 Score: 94
Period size: 15 Copynumber: 25.0 Consensus size: 15
6342 TTTTTTAAAC
6352 TATATATATATATAT
1 TATATATATATATAT
* * *
6367 TCTATAGAT-TA-CT
1 TATATATATATATAT
6380 TATAT-TA-AT-TA-
1 TATATATATATATAT
* *
6391 TACATACATATATAT
1 TATATATATATATAT
*
6406 TATAT-TAATATAAAT
1 TATATAT-ATATATAT
* * *
6421 TATA-ATTTATAAAG
1 TATATATATATATAT
*
6435 TATATATTTTATATAGT
1 TATATA-TATATATA-T
*
6452 T-TATACATATATAGT
1 TATATATATATATA-T
*
6467 T-TATATACATATAT
1 TATATATATATATAT
6481 ATATATATATACTATAT
1 -TATATATATA-TATAT
*
6498 TA-ATATAAATTATAT
1 TATATATATA-TATAT
* *
6513 TTTATA-AAATATAT
1 TATATATATATATAT
*
6527 TA-ATATAAATTATAT
1 TATATATATA-TATAT
* * *
6542 TTTATAAACTAGATAAT
1 TATATATA-TATAT-AT
*
6559 T-T-T-TATA-GT-T
1 TATATATATATATAT
*
6569 TATACATATATAGT-T
1 TATATATATATA-TAT
* *
6584 TATATACATAGT-TTT
1 TATATATATA-TATAT
6599 TATATATATATATAGT
1 TATATATATATATA-T
* * *
6615 TCACATAAACATA-AT
1 T-ATATATATATATAT
**
6630 T-TATATATATAGCT
1 TATATATATATATAT
6644 TATA-ATAATTATATAGTT
1 TATATAT-A-TATATA--T
*
6662 TATTATATAAATATAGT
1 TA-TATATATATATA-T
6679 T-TATATATATAGT-T
1 TATATATATATA-TAT
*
6693 TATATATAAACTTATAT
1 TATATATATA--TATAT
6710 TATATATATATATAT
1 TATATATATATATAT
6725 ATTATATTTT
Statistics
Matches: 265, Mismatches: 50, Indels: 86
0.66 0.12 0.21
Matches are distributed among these distances:
10 2 0.01
11 5 0.02
12 4 0.02
13 23 0.09
14 33 0.12
15 113 0.43
16 40 0.15
17 32 0.12
18 8 0.03
19 3 0.01
20 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:15087 original size:2 final size:2
Alignment explanation
Indices: 15080--15106 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15070 TAACCTGAAT
15080 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
15107 GGTAAATGTG
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
Found at i:15170 original size:17 final size:18
Alignment explanation
Indices: 15130--15170 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
15120 CACTTGTGAA
15130 ACTT-AAATGCATATTTT
1 ACTTAAAATGCATATTTT
15147 A--TAAAATGC-TATTTT
1 ACTTAAAATGCATATTTT
15162 ACTTAAAAT
1 ACTTAAAAT
15171 ATAAACCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (18 bp):
ACTTAAAATGCATATTTT
Found at i:17027 original size:22 final size:22
Alignment explanation
Indices: 16999--17065 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
16989 AAGACTTGTT
*
16999 GAAAGTCAATCAAGGGGTTAAG
1 GAAAGTCAATTAAGGGGTTAAG
*
17021 GAAAGTCAATTAAGAGGTTAAG
1 GAAAGTCAATTAAGGGGTTAAG
*
17043 GAAAGTCAATTAAGGGGCTAAG
1 GAAAGTCAATTAAGGGGTTAAG
17065 G
1 G
17066 GGCACCGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.42, C:0.07, G:0.31, T:0.19
Consensus pattern (22 bp):
GAAAGTCAATTAAGGGGTTAAG
Found at i:17552 original size:16 final size:17
Alignment explanation
Indices: 17531--17565 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
17521 TACTATTTAC
17531 GTGAATAGT-AAATTTT
1 GTGAATAGTAAAATTTT
17547 GTGAATAGTAAAATTTT
1 GTGAATAGTAAAATTTT
17564 GT
1 GT
17566 CGGCGATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (17 bp):
GTGAATAGTAAAATTTT
Found at i:19373 original size:23 final size:23
Alignment explanation
Indices: 19347--19393 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
19337 GGAGATTGTT
*
19347 GAAAGTCAATTAAGGGGGCTAAG
1 GAAAGTCAATTAAGAGGGCTAAG
*
19370 GAAATTCAATTAAGAGGGCTAAG
1 GAAAGTCAATTAAGAGGGCTAAG
19393 G
1 G
19394 GCCCCCCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.32, T:0.19
Consensus pattern (23 bp):
GAAAGTCAATTAAGAGGGCTAAG
Found at i:25308 original size:20 final size:20
Alignment explanation
Indices: 25283--25330 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
25273 TAGAGATATT
25283 TAATTTTAAAGGTAAATTGA
1 TAATTTTAAAGGTAAATTGA
*
25303 TAATTTTAAGGGTAAATTGA
1 TAATTTTAAAGGTAAATTGA
25323 TAATTTTA
1 TAATTTTA
25331 TATTAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TAATTTTAAAGGTAAATTGA
Found at i:28993 original size:13 final size:13
Alignment explanation
Indices: 28975--29000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28965 TTATAGATGC
28975 GCATATGAAGACT
1 GCATATGAAGACT
28988 GCATATGAAGACT
1 GCATATGAAGACT
29001 TTTCAACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:29175 original size:3 final size:3
Alignment explanation
Indices: 29167--29192 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29157 GAATAGGGTT
29167 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
29193 TATATGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:31343 original size:15 final size:14
Alignment explanation
Indices: 31323--31373 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
31313 GATGATGGTG
31323 AAGAAAGATGAAGAA
1 AAGAAAGA-GAAGAA
31338 AAGAAAGAGAAGAA
1 AAGAAAGAGAAGAA
*
31352 AA-ACA-AGAAGAA
1 AAGAAAGAGAAGAA
31364 GAAGAAAGAG
1 -AAGAAAGAG
31374 GAGGAGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 7 0.23
13 4 0.13
14 10 0.32
15 10 0.32
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (14 bp):
AAGAAAGAGAAGAA
Found at i:33054 original size:21 final size:21
Alignment explanation
Indices: 33015--33053 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33005 AAATAATTGG
33015 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
33036 TAACAATTGATAT-ATTTT
1 TAACAATTGATATCATTTT
33054 TCATTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:34769 original size:48 final size:48
Alignment explanation
Indices: 34578--34809 Score: 212
Period size: 48 Copynumber: 4.8 Consensus size: 48
34568 GTAGAGCATT
* * *
34578 TAGCACGTCTGACGTCTTTGTGACGGTGGTGTTACTATTAATGATGACT
1 TAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTAATGAT-ACC
** * * **
34627 TAGCATATCTGACGTCTTTGTGACAGTGGTGCTACTATTAATGATAAA
1 TAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTAATGATACC
* * * * *
34675 TAGCACGCCTGACGTCTGTGTGACGGTGGTGCTATTATGAACGGTACC
1 TAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTAATGATACC
* * * ** *
34723 TAGCACGTCTGACTTCTGTGTGATGGTGGTGTTACTATCGATGGTACC
1 TAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTAATGATACC
* * * *
34771 TAGCATGTCTGATGTTACTTATGTAACGGTGGTGCTACT
1 TAGCACGTCTGACG-T-C-TGTGTGACGGTGGTGCTACT
34810 TATGTATATG
Statistics
Matches: 148, Mismatches: 32, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
48 89 0.60
49 42 0.28
50 1 0.01
51 16 0.11
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (48 bp):
TAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTAATGATACC
Found at i:34980 original size:30 final size:30
Alignment explanation
Indices: 34878--34986 Score: 109
Period size: 30 Copynumber: 3.7 Consensus size: 30
34868 TGAAATGAAA
* * *
34878 AAGTGAATAATATATGCTATG-AATGAA--
1 AAGTGAATGATACATGCTATGAAATAAATG
* * * *
34905 AAGTGAATGATACAGGCTACGAAATGAATT
1 AAGTGAATGATACATGCTATGAAATAAATG
*
34935 AAATGAATGATACATGCTATGAAATAAATG
1 AAGTGAATGATACATGCTATGAAATAAATG
34965 AAGTGAATG-TAACATGCTATGA
1 AAGTGAATGAT-ACATGCTATGA
34987 TATGATATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
27 17 0.25
28 6 0.09
29 1 0.01
30 44 0.65
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (30 bp):
AAGTGAATGATACATGCTATGAAATAAATG
Found at i:37862 original size:60 final size:60
Alignment explanation
Indices: 37793--37909 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
37783 CTCGGAGGAT
* * * *
37793 TTTTGTAACTTGTAATAGTCGAGAGACTTAATAAAATAATATCCTATAGTTGAAGGATTA
1 TTTTATAACTTCTAATAATCGAGAGACTTAATAAAACAATATCCTATAGTTGAAGGATTA
* * *
37853 TTTTATAACTTCTAATAATCGAGAGAGTTAGTAAAACAATATCCTATAGTTGGAGGA
1 TTTTATAACTTCTAATAATCGAGAGACTTAATAAAACAATATCCTATAGTTGAAGGA
37910 CCATTTGTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (60 bp):
TTTTATAACTTCTAATAATCGAGAGACTTAATAAAACAATATCCTATAGTTGAAGGATTA
Found at i:38261 original size:13 final size:12
Alignment explanation
Indices: 38243--38285 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
38233 CCTTTTAAGG
38243 TTAATTTCATATT
1 TTAATTT-ATATT
*
38256 TTAATTTATAAGT
1 TTAATTTAT-ATT
*
38269 TAAATTTATATT
1 TTAATTTATATT
38281 TTAAT
1 TTAAT
38286 CAAATTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (12 bp):
TTAATTTATATT
Found at i:42582 original size:160 final size:162
Alignment explanation
Indices: 42310--42632 Score: 568
Period size: 160 Copynumber: 2.0 Consensus size: 162
42300 ACAATTTGGA
42310 CCTTTGAAAGCTAAAATGGAGACGAAAATGAGTGTGGAGAAGGCTTATGATCCTGATCTCATCTC
1 CCTTTGAAAGCTAAAATGGAGACGAAAATGAGTGTGGAGAAGGCTTATGATCCTGATCTCATCTC
42375 TAGATTTCGAATACTATTTTTTATTATTCCTTTCTATACATTTATATGTTTAATCATTTTTTAA-
66 TAGATTTCGAATACTATTTTTTATTATTCCTTTCTATACATTTATATGTTTAATCA-TTTTTAAT
42439 TTATGATAAATTATTTATCATTTTTTTATAGTT
130 TTATGATAAATTATTTATCATTTTTTTATAGTT
42472 CCTTTGAAAGCTAAAATGGAGACGAAAAT-AGTG-GGAGAAGGCTGTATGAT-CTGATCTCATCT
1 CCTTTGAAAGCTAAAATGGAGACGAAAATGAGTGTGGAGAAGGCT-TATGATCCTGATCTCATCT
42534 CTAGATTTCGAATACTA-TTTTTATTATTCCTTTCTATATACA-TTATATGTTTAATCATTTTTA
65 CTAGATTTCGAATACTATTTTTTATTATTCCTTTC--TATACATTTATATGTTTAATCATTTTTA
42597 ATTTATGATAAATTATTTATCATTTTTTTATAGTT
128 ATTTATGATAAATTATTTATCATTTTTTTATAGTT
42632 C
1 C
42633 ATAATCACGT
Statistics
Matches: 157, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
159 24 0.15
160 88 0.56
161 16 0.10
162 29 0.18
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (162 bp):
CCTTTGAAAGCTAAAATGGAGACGAAAATGAGTGTGGAGAAGGCTTATGATCCTGATCTCATCTC
TAGATTTCGAATACTATTTTTTATTATTCCTTTCTATACATTTATATGTTTAATCATTTTTAATT
TATGATAAATTATTTATCATTTTTTTATAGTT
Found at i:45650 original size:21 final size:21
Alignment explanation
Indices: 45624--45668 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
45614 ACTCAACAAT
45624 CTCCTCCTTAAGCTTGTTGTC
1 CTCCTCCTTAAGCTTGTTGTC
45645 CTCCTCCTTAAGCTTGTTGTC
1 CTCCTCCTTAAGCTTGTTGTC
45666 CTC
1 CTC
45669 TACTGACGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.36, G:0.13, T:0.42
Consensus pattern (21 bp):
CTCCTCCTTAAGCTTGTTGTC
Found at i:51467 original size:2 final size:2
Alignment explanation
Indices: 51460--51489 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51450 CAAATGATGT
51460 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51490 ACAAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57394 original size:100 final size:100
Alignment explanation
Indices: 57239--57426 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
57229 AAAAAATGGA
* *
57239 GGAAGTTACCAAAATGCAAAATAAGAAGGAAATAAAAAGCACATGACTGAAAACAAGTTAATAAG
1 GGAAGTTACCAAAATGAAAAATAAGAAGGAAATAAAAAGCACATGACTAAAAACAAGTTAATAAG
57304 GAAATATAATTTAGATTAAAATGGAGGAAGTTACG
66 GAAATATAATTTAGATTAAAATGGAGGAAGTTACG
**
57339 GGAAGTTACCAAAATGAAAAATAAGAAGGAAATAAAAAGCATGTGACTAAAAACAAGTTAATAAG
1 GGAAGTTACCAAAATGAAAAATAAGAAGGAAATAAAAAGCACATGACTAAAAACAAGTTAATAAG
57404 GAAATATAATTTAGATTAAAATG
66 GAAATATAATTTAGATTAAAATG
57427 AATCAAGATG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.54, C:0.07, G:0.19, T:0.21
Consensus pattern (100 bp):
GGAAGTTACCAAAATGAAAAATAAGAAGGAAATAAAAAGCACATGACTAAAAACAAGTTAATAAG
GAAATATAATTTAGATTAAAATGGAGGAAGTTACG
Found at i:64055 original size:21 final size:21
Alignment explanation
Indices: 64029--64089 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
64019 ATATAAAATT
* *
64029 TGTCCCGAATGACCTCGTATA
1 TGTCCCGAAGGACCTCATATA
64050 TGTCCCGAAGGACCTCATATA
1 TGTCCCGAAGGACCTCATATA
* *
64071 TATCCCGAAGGACATCATA
1 TGTCCCGAAGGACCTCATA
64090 GAACCCTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (21 bp):
TGTCCCGAAGGACCTCATATA
Found at i:65649 original size:35 final size:36
Alignment explanation
Indices: 65587--65659 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 36
65577 TATTTCAAAA
* ** *
65587 TGGTATCGATACTTGCCTTAAGGTATCGGTAC-CCT
1 TGGTATCAATACTACCCTTAAGGTATCGATACTCCT
* *
65622 TGGTATCAATACTACCCTTTAGTTATCGATACTCCT
1 TGGTATCAATACTACCCTTAAGGTATCGATACTCCT
65658 TG
1 TG
65660 AGTAACTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
35 26 0.84
36 5 0.16
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (36 bp):
TGGTATCAATACTACCCTTAAGGTATCGATACTCCT
Found at i:71924 original size:30 final size:30
Alignment explanation
Indices: 71869--71951 Score: 98
Period size: 31 Copynumber: 2.8 Consensus size: 30
71859 TAGGATTGGT
*
71869 GACT-AAAAAGTAAATTTTGAAAGTTTAGG
1 GACTAAAAAAGTAAATTTTAAAAGTTTAGG
* * *
71898 GA-TCAAAATGTAAATTTGTAAAAGTTTTGG
1 GACTAAAAAAGTAAATTT-TAAAAGTTTAGG
71928 GACTAAAAAAGTAAATTTTTAAAA
1 GACTAAAAAAGTAAA-TTTTAAAA
71952 CTTATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 14 0.31
30 12 0.27
31 15 0.33
32 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.33
Consensus pattern (30 bp):
GACTAAAAAAGTAAATTTTAAAAGTTTAGG
Found at i:74418 original size:25 final size:25
Alignment explanation
Indices: 74344--74485 Score: 198
Period size: 25 Copynumber: 5.8 Consensus size: 25
74334 ACAGGTTAGA
* *
74344 GCACTTTGTATGCA-ATTCTACGAG
1 GCACTTTGTGTGCATATTCTACAAG
* * **
74368 GCAATTTGTCTGCA-ATTCTATGAG
1 GCACTTTGTGTGCATATTCTACAAG
74392 GCACTTTGTGTGCATATTCTACAAG
1 GCACTTTGTGTGCATATTCTACAAG
*
74417 GCACTTTGTGTGCATATTCTATAAG
1 GCACTTTGTGTGCATATTCTACAAG
74442 GCACTTTGTGTGCATATTCTACAAG
1 GCACTTTGTGTGCATATTCTACAAG
*
74467 GAACTTTGTGTGCATATTC
1 GCACTTTGTGTGCATATTC
74486 CACGTGGCAC
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 33 0.31
25 74 0.69
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (25 bp):
GCACTTTGTGTGCATATTCTACAAG
Found at i:74514 original size:50 final size:49
Alignment explanation
Indices: 74390--74499 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 49
74380 CAATTCTATG
* * * *
74390 AGGCACTTTGTGTGCATATTCTACAAGGCACTTTGTGTGCATATTCTATA
1 AGGCACATTGTGTG-ATATTCTACAAGGAACTTTGTGTGCATATTCCACA
* *
74440 AGGCACTTTGTGTGCATATTCTACAAGGAACTTTGTGTGCATATTCCACG
1 AGGCACATTGTGTG-ATATTCTACAAGGAACTTTGTGTGCATATTCCACA
*
74490 TGGCACATTG
1 AGGCACATTG
74500 ATGTTGTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (49 bp):
AGGCACATTGTGTGATATTCTACAAGGAACTTTGTGTGCATATTCCACA
Found at i:74821 original size:9 final size:9
Alignment explanation
Indices: 74797--74868 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
74787 GATAAATATG
*
74797 TTTTATTAC
1 TTTTATTAA
*
74806 TTCTATTAA
1 TTTTATTAA
*
74815 TTTTATTTA
1 TTTTATTAA
74824 TATTTA-T-A
1 T-TTTATTAA
*
74832 TTTTATTTA
1 TTTTATTAA
74841 TTATTATT-A
1 TT-TTATTAA
*
74850 TTTTATTTA
1 TTTTATTAA
*
74859 TGTTATTAA
1 TTTTATTAA
74868 T
1 T
74869 AATAGAACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
7 4 0.08
8 8 0.15
9 31 0.60
10 9 0.17
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATTAA
Found at i:74851 original size:18 final size:18
Alignment explanation
Indices: 74809--74859 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
74799 TTATTACTTC
74809 TATTAATTTTATTTA-TAT
1 TATT-ATTTTATTTATTAT
74827 T-TATATTTTATTTATTAT
1 TAT-TATTTTATTTATTAT
74845 TATTATTTTATTTAT
1 TATTATTTTATTTAT
74860 GTTATTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.37
18 18 0.60
19 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTATTTTATTTATTAT
Found at i:74864 original size:17 final size:17
Alignment explanation
Indices: 74809--74866 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 17
74799 TTATTACTTC
74809 TATTAATTTTATTTATAT
1 TATT-ATTTTATTTATAT
74827 T-TATATTTTATTTATTAT
1 TAT-TATTTTATTTA-TAT
*
74845 TATTATTTTATTTATGT
1 TATTATTTTATTTATAT
74862 TATTA
1 TATTA
74867 ATAATAGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 18 0.50
18 17 0.47
19 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTATTTTATTTATAT
Found at i:79666 original size:45 final size:45
Alignment explanation
Indices: 79606--79916 Score: 349
Period size: 45 Copynumber: 7.0 Consensus size: 45
79596 GTGCACTTTA
* * *
79606 AACTATAACAT-CTTTTCTGTTGATAATGCACCCATTTGCATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * *
79650 AATTATAGTATACTTTT-TGTTGATAATGTACCCATATACATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * *
79694 AACCATAGTATACTTTTCTGTTGACAATGTACCCATATACATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * * *
79739 AACTCTAGCATGCTCTTATGTTGATAATGAACCCATATACATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * *
79784 AACTCTAGCACATTTTTCTGTTGATAATGCACCCATATGCATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * *
79829 AACTCTAGCATATTTTTCTGTTGATAATGTACCCATATACATCTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * *
79874 AACTATAGCAT-CCTTTCATGCTAATAATGCACCCATATGCATT
1 AACTATAGCATACTTTTC-TGTTGATAATGCACCCATATACATT
79917 AATATTTTCT
Statistics
Matches: 228, Mismatches: 36, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
44 51 0.22
45 177 0.78
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.39
Consensus pattern (45 bp):
AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
Found at i:79864 original size:135 final size:134
Alignment explanation
Indices: 79606--79916 Score: 394
Period size: 135 Copynumber: 2.3 Consensus size: 134
79596 GTGCACTTTA
* * * * * *
79606 AACTATAACATCTTTTC-TGTTGATAATGCACCCATTTGCATTTCAATTATAGTATACTTTTTGT
1 AACTATAGCATCCTTTCATGTTGATAATGCACCCATATGCATTTCAACTATAGCACACTTTTTGT
* *
79670 TGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCTGTTGACAATGTACCCATATACA
66 TGATAATGCACCCATATACATTTCAACCATAGCATACTTTTCTGTTGACAATGTACCCATATACA
*
79735 TTTC
131 TCTC
* * * * * *
79739 AACTCTAGCATGCTCTT-ATGTTGATAATGAACCCATATACATTTCAACTCTAGCACATTTTTCT
1 AACTATAGCATCCT-TTCATGTTGATAATGCACCCATATGCATTTCAACTATAGCACACTTTT-T
* * *
79803 GTTGATAATGCACCCATATGCATTTCAACTC-TAGCATATTTTTCTGTTGATAATGTACCCATAT
64 GTTGATAATGCACCCATATACATTTCAAC-CATAGCATACTTTTCTGTTGACAATGTACCCATAT
79867 ACATCTC
128 ACATCTC
* *
79874 AACTATAGCATCCTTTCATGCTAATAATGCACCCATATGCATT
1 AACTATAGCATCCTTTCATGTTGATAATGCACCCATATGCATT
79917 AATATTTTCT
Statistics
Matches: 149, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
133 10 0.07
134 40 0.27
135 98 0.66
136 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.39
Consensus pattern (134 bp):
AACTATAGCATCCTTTCATGTTGATAATGCACCCATATGCATTTCAACTATAGCACACTTTTTGT
TGATAATGCACCCATATACATTTCAACCATAGCATACTTTTCTGTTGACAATGTACCCATATACA
TCTC
Found at i:80357 original size:20 final size:20
Alignment explanation
Indices: 80329--80385 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 20
80319 TAACCCTTCA
80329 GTATCGATACCCCTACTATG
1 GTATCGATACCCCTACTATG
* *
80349 GTATTGATACTACCCTATTATG
1 GTATCGATAC--CCCTACTATG
80371 GTATCGATAACCCCT
1 GTATCGAT-ACCCCT
80386 TCCAGTATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 9 0.29
21 4 0.13
22 16 0.52
23 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:80447 original size:20 final size:20
Alignment explanation
Indices: 80422--80474 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
80412 TGATGTAGTC
80422 TGGTATCGATACCCTCACCA
1 TGGTATCGATACCCTCACCA
80442 TGGTATCGATACCCTCACCA
1 TGGTATCGATACCCTCACCA
80462 TGGTATCGATACC
1 TGGTATCGATACC
80475 ACTATATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
TGGTATCGATACCCTCACCA
Found at i:88112 original size:36 final size:36
Alignment explanation
Indices: 88065--88327 Score: 364
Period size: 36 Copynumber: 7.1 Consensus size: 36
88055 TGATGCGCTT
*
88065 CTTGAATCGGAAGTGTCGATGCCTCATTCCGTTCGA
1 CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
* *
88101 CTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGA
1 CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
*
88137 CTTGAATCGGAAGTGCCGATGCTTCATTCCGTTCGA
1 CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
88173 CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
1 CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
* * *
88209 CTTGAATCGGAAATACCGATGCCTCCTTCCGTTCGA
1 CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
*
88245 CTTGAATCGGAAGTGCCGATGCCTCCTTCCGTTCCGATTCGA
1 CTTGAATCGGAAGTGCCGATG---CC-T-CATTCCG-TTCGA
** * *
88287 CTTGAATCGGAAGTGCCGATGATTCTTTCCGTTCAA
1 CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
88323 CTTGA
1 CTTGA
88328 GAGAGAGCAG
Statistics
Matches: 206, Mismatches: 15, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
36 164 0.80
37 6 0.03
38 1 0.00
39 2 0.01
40 1 0.00
41 6 0.03
42 26 0.13
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (36 bp):
CTTGAATCGGAAGTGCCGATGCCTCATTCCGTTCGA
Done.