Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005746.1 Hibiscus syriacus cultivar Beakdansim tig00013439_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: 100209
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:551 original size:29 final size:30
Alignment explanation
Indices: 481--557 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
471 ACCTATGCCT
* *
481 TTCGGGACATATGGATAGTATACCTATGTTC
1 TTCGGGAC-TATGGACAATATACCTATGTTC
** *
512 -TAAGGAATATGGACAATATACCTA-GTTC
1 TTCGGGACTATGGACAATATACCTATGTTC
540 TTCGGGACTATGGACAAT
1 TTCGGGACTATGGACAAT
558 TGCCGAGGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 4 0.11
29 29 0.78
30 4 0.11
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (30 bp):
TTCGGGACTATGGACAATATACCTATGTTC
Found at i:5667 original size:78 final size:78
Alignment explanation
Indices: 5524--5669 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 78
5514 TGGGTGTTAC
* **
5524 ATTACCGTTTTCTCTCCAATCAATATTGATTTTAAGACGGAATAGGATATCTCTTAATTTCGATT
1 ATTACCGTTTTCACTCCAATCAATATTGATTTTAAGACAAAATA-GATATCTCTTAATTTCGATT
5589 GGAAATCATTAGAT
65 GGAAATCATTAGAT
* * * *
5603 ATTATCGTTTTCACTCGAATCGAT-TTGAATTTTAAGACAAAATA-ATAATCTCTTCATTTCGAT
1 ATTACCGTTTTCACTCCAATCAATATTG-ATTTTAAGACAAAATAGAT-ATCTCTTAATTTCGAT
5666 TGGA
64 TGGA
5670 GTAATAAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
77 2 0.03
78 22 0.38
79 34 0.59
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (78 bp):
ATTACCGTTTTCACTCCAATCAATATTGATTTTAAGACAAAATAGATATCTCTTAATTTCGATTG
GAAATCATTAGAT
Found at i:20232 original size:3 final size:3
Alignment explanation
Indices: 20224--20290 Score: 102
Period size: 3 Copynumber: 22.3 Consensus size: 3
20214 CATTTTCCTG
20224 TAT TAT TATT TAT TA- TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20268 ATAT TAT TAT TAT TAT TAT TAT T
1 -TAT TAT TAT TAT TAT TAT TAT T
20291 TATTTTTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.07
3 50 0.83
4 6 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20261 original size:22 final size:23
Alignment explanation
Indices: 20224--20303 Score: 112
Period size: 22 Copynumber: 3.6 Consensus size: 23
20214 CATTTTCCTG
20224 TATTATTATTTATTA-TATTATTA
1 TATTATTA-TTATTATTATTATTA
20247 TATTATTATTATTATTATTA-TA
1 TATTATTATTATTATTATTATTA
20269 TATTATTATTATTATTATTATT-
1 TATTATTATTATTATTATTATTA
* *
20291 TATTTTTTTTATT
1 TATTATTATTATT
20304 TTCCTATTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
22 39 0.74
23 14 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTATTATTATTATTATTATTA
Found at i:20313 original size:6 final size:6
Alignment explanation
Indices: 20304--20412 Score: 94
Period size: 6 Copynumber: 19.5 Consensus size: 6
20294 TTTTTTTATT
*
20304 TTCCTA TTCCTA TTCCTA -T--TA TTCCTA TT-ATA TTCCTA TTCCTA
1 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA
* *
20348 -T--TA TTCCTA TTCCTA TTCCTA TT-ATT TCCTCCTA TTCCTA TTCCTA
1 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA T--TCCTA TTCCTA TTCCTA
*
20394 TT-ATA TTCCTA TT-CTA TTC
1 TTCCTA TTCCTA TTCCTA TTC
20413 TATGTTTTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
3 4 0.05
4 2 0.02
5 17 0.20
6 57 0.69
7 1 0.01
8 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (6 bp):
TTCCTA
Found at i:20328 original size:9 final size:9
Alignment explanation
Indices: 20314--20389 Score: 59
Period size: 9 Copynumber: 8.1 Consensus size: 9
20304 TTCCTATTCC
20314 TATTCCTAT
1 TATTCCTAT
20323 TATTCCTATT
1 TATTCCTA-T
20333 ATATTCC---
1 -TATTCCTAT
20340 TATTCCTAT
1 TATTCCTAT
20349 TATTCCTATT
1 TATTCCTA-T
20359 CCTATTCCTAT
1 --TATTCCTAT
**
20370 TATTTCCTCC
1 TA-TTCCTAT
20380 TATTCCTAT
1 TATTCCTAT
20389 T
1 T
20390 CCTATTATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
6 6 0.11
9 24 0.44
10 9 0.17
11 7 0.13
12 8 0.15
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (9 bp):
TATTCCTAT
Found at i:20328 original size:15 final size:15
Alignment explanation
Indices: 20308--20411 Score: 92
Period size: 15 Copynumber: 7.1 Consensus size: 15
20298 TTTATTTTCC
20308 TATTCCTATTCCTAT
1 TATTCCTATTCCTAT
20323 TATTCCTA-T--TA-
1 TATTCCTATTCCTAT
20334 TATTCCTATTCCTAT
1 TATTCCTATTCCTAT
20349 TATTCCTATTCCTAT
1 TATTCCTATTCCTAT
** ** **
20364 TCCTATTATTTCCTCC
1 TATTCCTA-TTCCTAT
20380 TATTCCTATTCCTATT
1 TATTCCTATTCCTA-T
20396 ATATTCCTATT-CTAT
1 -TATTCCTATTCCTAT
20411 T
1 T
20412 CTATGTTTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
11 8 0.11
12 3 0.04
14 4 0.06
15 33 0.47
16 12 0.17
17 10 0.14
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTCCTATTCCTAT
Found at i:20341 original size:26 final size:27
Alignment explanation
Indices: 20308--20395 Score: 110
Period size: 26 Copynumber: 3.4 Consensus size: 27
20298 TTTATTTTCC
20308 TATTCCTATTCCTATTATTCCTATT-A
1 TATTCCTATTCCTATTATTCCTATTCA
*
20334 TATTCCTATTCCTATTATTCCTATTCC
1 TATTCCTATTCCTATTATTCCTATTCA
* ** *
20361 TATTCCTATT-AT-TTCCTCCTATTCC
1 TATTCCTATTCCTATTATTCCTATTCA
20386 TATTCCTATT
1 TATTCCTATT
20396 ATATTCCTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
25 21 0.37
26 26 0.46
27 10 0.18
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.53
Consensus pattern (27 bp):
TATTCCTATTCCTATTATTCCTATTCA
Found at i:20432 original size:46 final size:46
Alignment explanation
Indices: 20300--20412 Score: 151
Period size: 47 Copynumber: 2.4 Consensus size: 46
20290 TTATTTTTTT
**
20300 TATT-TTCCTATTCCTATTCCTATTA-TTCCTATTATATTCCTATTCC
1 TATTATTCCTATTCCTATTCCTATTATTTCC--TCCTATTCCTATTCC
20346 TATTATTCCTATTCCTATTCCTATTATTTCCTCCTATTCCTATTCC
1 TATTATTCCTATTCCTATTCCTATTATTTCCTCCTATTCCTATTCC
20392 TATTATATTCCTATT-CTATTC
1 TA-T-TATTCCTATTCCTATTC
20413 TATGTTTTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
46 19 0.31
47 28 0.46
48 14 0.23
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (46 bp):
TATTATTCCTATTCCTATTCCTATTATTTCCTCCTATTCCTATTCC
Found at i:20436 original size:7 final size:6
Alignment explanation
Indices: 20410--22183 Score: 2627
Period size: 6 Copynumber: 303.3 Consensus size: 6
20400 TCCTATTCTA
20410 TTCTATG TT-TTG TTCTTG TTCCTTG -T-TTG -TCTTG TT-TTG -T-TTG
1 TTCT-TG TTCTTG TTCTTG TT-CTTG TTCTTG TTCTTG TTCTTG TTCTTG
*
20453 TTTTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG -TTCTTG
* *
20502 TTTGTTTG TTCTTG TTCTTG TT-TTG TT-GTG -T-TTG TTC-TG TTCTTG
1 -TT-CTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
*
20547 TTCTTG TTC-TG -T-TTG TTTGTTTG TTCTTG TTCTTGTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG -TT-CTTG TTCTTG TTC-T-TG TTCTTG TTCTTG
20596 -T-TTG TTCTTTG TT-TTG TTCTTG -T-TTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTC-TTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
* *
20640 TTCTTG TTCTTG TTGTTTG TTCTTG TTCTTG TTGTTGTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TT-CTTG TTCTTG TTCTTG TT-CT-TG TTCTTG TTCTTG
20691 TTCTTG -TCTTG TTCTTG TTCTTG TTCTTG TT-TTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
* *
20737 TTCTTG -TCTTG TTCTTG TTCTTT TTGTTG TTCTTG -T-TTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
20782 -T-TTG TT-TTG -T-TTG -TCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
*
20824 TTTCTTGG TTTTTTG TTCTTG TTCTTG TTCTTG -T-TTG TTCTTG TTCTTG
1 -TTCTT-G -TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
* *
20873 TTCTTG TTCTTG TTCTTG -T-TTG TTCTTG TTCTTTT TTTTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTC-TTG TTCTTG TTCTTG
20920 TTCTTG TTCTTG TTCTTG TT-TTG -T-TTG -TCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
*
20964 TT-TTG TTCTTG TTCTTG TTCTTG TTCTTG -T-TTG TTATTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21009 -TCTTG TTCTTG TTTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG -TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
*
21057 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG -TCTTG TTCTTG TTTTTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG -TTCTTG
21105 TTCTTG TTCTTG TTCTTG TTCTTG -TCTTG TTCTTG TTCTTG TTC-TG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21151 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG -T-TTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21197 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21245 TTCTTG TTCTTG ---TTG TTCTTG -T-TTG TT-TTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21287 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TT-TTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21334 TTCTTG TTCTTGTG TTCTTG TTCTTG TT-TTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTC-T-TG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
*
21383 TTCTTG TTC-TG TTTTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21430 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TT-TTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21477 TTCTTG TTCTTG ---TTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21522 TTCTTG TTCTTG TTCTTG -TCTTG TTCTTG TTCTTG TTTCTTG -T-TTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG -TTCTTG TTCTTG
21568 TTCTTG TTC-TG TTCTTG TTCTTG TTCTTG -T-TTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21613 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21661 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
*
21709 TTCTCTTG TTCTTG TTCTTG TTCTTG TGT-TTG TTCTT- TCTGTTTG TTCTTG
1 -T-TCTTG TTCTTG TTCTTG TTCTTG T-TCTTG TTCTTG T-T-CTTG TTCTTG
21760 TTCTTG TT-TTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21807 TTCTTG TTCTTG TT-TTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21854 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21902 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21950 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG ---TTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
21995 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTGTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTC-T-TG TTCTTG TTCTTG
22045 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTC-TG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
22092 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG
22140 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TT
1 TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TTCTTG TT
22184 ATTAGTAGTA
Statistics
Matches: 1649, Mismatches: 27, Indels: 183
0.89 0.01 0.10
Matches are distributed among these distances:
3 9 0.01
4 57 0.03
5 156 0.09
6 1320 0.80
7 70 0.04
8 37 0.02
ACGTcount: A:0.00, C:0.15, G:0.18, T:0.68
Consensus pattern (6 bp):
TTCTTG
Found at i:22194 original size:3 final size:3
Alignment explanation
Indices: 22186--22220 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
22176 TTCTTGTTAT
*
22186 TAG TAG TAG TAG TAG TAG TAA TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
22221 ATATAATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:24199 original size:131 final size:131
Alignment explanation
Indices: 23960--24274 Score: 414
Period size: 131 Copynumber: 2.4 Consensus size: 131
23950 CCATTTATTT
* * * * *
23960 GGCATGAGAGATCATTTATTATCGATTGGAAATAATTTGATATTACCGTTTTCTCTCGAATCAAT
1 GGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAAT
* * * * *
24025 ATTGATTTTTAAGACGGAATAGCGATATCTCTTTATTTTGATTGGAGTAATAAATGACTACTTTA
66 ATTGAATTTTAAGACGAAATAGCAATATATCTTTATTTCGATTGGAGTAATAAATGACTACTTTA
24090 A
131 A
* * * **
24091 GGTATGAGAGGTCATTTATTCTCGATTGGAAATCATTGGATATTATCGTTTTCACTCGAATTGAT
1 GGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAAT
* * **
24156 ATTGAATTTTAAGACGAAATAGTAATATATCTTTGTTTCGATTGGAGTAATAAATGACTGTTTTA
66 ATTGAATTTTAAGACGAAATAGCAATATATCTTTATTTCGATTGGAGTAATAAATGACTACTTTA
24221 A
131 A
* * * * *
24222 GGCATGAAAGGTTATTTATTCTCAATTAGAAATTATTAGATATTATCGTTTTC
1 GGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTC
24275 TCTCTTAAAA
Statistics
Matches: 159, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
131 159 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (131 bp):
GGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAAT
ATTGAATTTTAAGACGAAATAGCAATATATCTTTATTTCGATTGGAGTAATAAATGACTACTTTA
A
Found at i:27987 original size:69 final size:69
Alignment explanation
Indices: 27907--28037 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 69
27897 TTTGAGAACA
* * * * * **
27907 AAAAATGCCGCAATAGGTCAAGATATATCCCGGCGTTTTTGGAACAATCGTCGCAAAAGGTCGAT
1 AAAAACGCCGCAAAAGGTCAAGATATATACCAGCGTTTTTGGAACAAACACCGCAAAAGGTCGAT
27972 ATCC
66 ATCC
* * *
27976 AAAAACGCCGCAAAAGGTCAAGATCTATAGCAGTGTTTTTGGAACAAACACCGCAAAAGGTC
1 AAAAACGCCGCAAAAGGTCAAGATATATACCAGCGTTTTTGGAACAAACACCGCAAAAGGTC
28038 AAATCTATAG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 52 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (69 bp):
AAAAACGCCGCAAAAGGTCAAGATATATACCAGCGTTTTTGGAACAAACACCGCAAAAGGTCGAT
ATCC
Found at i:28058 original size:43 final size:42
Alignment explanation
Indices: 27978--28159 Score: 247
Period size: 43 Copynumber: 4.3 Consensus size: 42
27968 CGATATCCAA
* *
27978 AAACGCCGCAAAAGGTCAAGATCTATAGCAGTGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAA-ATCTATAGCGGCGTTTTTGGAAC
* *
28021 AAACACCGCAAAAGGTCAAATCTATAGCGGCGTTTTTTGAAC
1 AAACGCCGCAAAAGGTCAAATCTATAGCGGCGTTTTTGGAAC
* * *
28063 AAACGCCGCAAAATGTCAGATCTATAGCGGCGCTTTTTGAAAC
1 AAACGCCGCAAAAGGTCAAATCTATAGCGGCG-TTTTTGGAAC
* * *
28106 AAACACCGCAAAAGGTCAGATCTATAGCGGTGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAAATCTATAGCGGCGTTTTTGGA-AC
28149 AAACGCCGCAA
1 AAACGCCGCAA
28160 TAGGGCTCAT
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 56 0.46
43 67 0.54
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAAATCTATAGCGGCGTTTTTGGAAC
Found at i:28121 original size:85 final size:86
Alignment explanation
Indices: 27978--28159 Score: 278
Period size: 85 Copynumber: 2.1 Consensus size: 86
27968 CGATATCCAA
* *
27978 AAACGCCGCAAAAGGTCAAGATCTATAGCAGTGTTTTTGGAACAAACACCGCAAAAGGTCAAATC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCAGCGTTTTTGAAACAAACACCGCAAAAGGTCAAATC
*
28043 TATAGCGGCGTTTTTTGA-AC
66 TATAGCGGCGTTTTTGGATAC
* * *
28063 AAACGCCGCAAAATGTC-AGATCTATAGCGGCGCTTTTTGAAACAAACACCGCAAAAGGTCAGAT
1 AAACGCCGCAAAAGGTCAAGATCTATAGCAGCG-TTTTTGAAACAAACACCGCAAAAGGTCAAAT
*
28127 CTATAGCGGTGTTTTTGGATAC
65 CTATAGCGGCGTTTTTGGATAC
28149 AAACGCCGCAA
1 AAACGCCGCAA
28160 TAGGGCTCAT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
84 13 0.15
85 62 0.70
86 13 0.15
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (86 bp):
AAACGCCGCAAAAGGTCAAGATCTATAGCAGCGTTTTTGAAACAAACACCGCAAAAGGTCAAATC
TATAGCGGCGTTTTTGGATAC
Found at i:31001 original size:14 final size:14
Alignment explanation
Indices: 30984--31013 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30974 GCCCCTCATT
30984 TTTCAATACTTTAA
1 TTTCAATACTTTAA
*
30998 TTTCAATCCTTTAA
1 TTTCAATACTTTAA
31012 TT
1 TT
31014 ATTGCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTCAATACTTTAA
Found at i:32380 original size:13 final size:13
Alignment explanation
Indices: 32351--32385 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
32341 ATAACTAATA
*
32351 ATATTAAAT-ATT
1 ATATTAAATAAAT
32363 ATATTAAATAAAT
1 ATATTAAATAAAT
32376 ATATTAAATA
1 ATATTAAATA
32386 TATTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:35385 original size:8 final size:8
Alignment explanation
Indices: 35372--35411 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
35362 TCATTTTCAT
35372 AGAATTTG
1 AGAATTTG
35380 AGAATTT-
1 AGAATTTG
*
35387 AGAGTTTG
1 AGAATTTG
*
35395 GGAATTTG
1 AGAATTTG
35403 AGAATTTG
1 AGAATTTG
35411 A
1 A
35412 AAGATTGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (8 bp):
AGAATTTG
Found at i:35394 original size:15 final size:15
Alignment explanation
Indices: 35371--35411 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
35361 CTCATTTTCA
35371 TAGAATTTGAGAATT
1 TAGAATTTGAGAATT
* *
35386 TAGAGTTTGGGAATT
1 TAGAATTTGAGAATT
35401 TGAGAATTTGA
1 T-AGAATTTGA
35412 AAGATTGTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (15 bp):
TAGAATTTGAGAATT
Found at i:35704 original size:126 final size:126
Alignment explanation
Indices: 35479--35955 Score: 931
Period size: 126 Copynumber: 3.8 Consensus size: 126
35469 CTATAATCGG
35479 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
35544 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
35605 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
35670 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
35731 TTCACTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
35794 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
35855 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
35920 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGA
35956 ATAACTTAAA
Statistics
Matches: 348, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
124 91 0.26
125 66 0.19
126 191 0.55
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:35922 original size:250 final size:252
Alignment explanation
Indices: 35479--35955 Score: 931
Period size: 250 Copynumber: 1.9 Consensus size: 252
35469 CTATAATCGG
35479 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
35544 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
35609 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
*
35674 TGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
196 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
35731 TTCACTATTCACGTGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
35794 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
35859 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
35924 TGCCCTATTATGTCACTCATGTCCCTCGGGGA
196 TGCCCTATTATGTCACTCATGTCCCTCGGGGA
35956 ATAACTTAAA
Statistics
Matches: 224, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
250 163 0.73
251 33 0.15
252 28 0.12
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (252 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:36436 original size:33 final size:32
Alignment explanation
Indices: 36333--36437 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 32
36323 TAAGTTGAAA
*
36333 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAAT-TTAAATTTCGAATAATATAATTT-TAT
*
36367 TTTAAATTTAAATTT-GAATAATATTATTTTATT
1 TTT-AATTTAAATTTCGAATAATATAATTTTA-T
*
36400 TTTATTTTAAATTTCGAATAATATAATTTGTAT
1 TTTAATTTAAATTTCGAATAATATAATTT-TAT
36433 TTTAA
1 TTTAA
36438 AAACATTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
32 12 0.19
33 34 0.55
34 13 0.21
35 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (32 bp):
TTTAATTTAAATTTCGAATAATATAATTTTAT
Found at i:36971 original size:21 final size:21
Alignment explanation
Indices: 36947--37040 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
36937 CATGGTATAA
* *
36947 AACCCTGCAGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
36968 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
36989 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
37010 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
37031 AACCCTGCGG
1 AACCCTGCGG
37041 AGATGGCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 3 0.04
21 62 0.91
22 3 0.04
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:37070 original size:21 final size:21
Alignment explanation
Indices: 37044--37091 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
37034 CCTGCGGAGA
*
37044 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
37065 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
37086 GGGCAT
1 TGGCAT
37092 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:38850 original size:33 final size:30
Alignment explanation
Indices: 38808--38894 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 30
38798 TTAATAATTC
38808 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTATATAAATA-TA--TTAA
* *
38842 TAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAATAATAATTATATAAATATATTAA
* *
38872 TATAAAAATAATAACTATTTAAA
1 TA-AAAAATAATAATTATATAAA
38895 AAAATACTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
30 6 0.13
31 16 0.35
32 2 0.04
33 18 0.39
34 4 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAAAAATAATAATTATATAAATATATTAA
Found at i:38872 original size:30 final size:32
Alignment explanation
Indices: 38808--38885 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
38798 TTAATAATTC
*
38808 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTACATAAATATTA-TTTAA
*
38842 TAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAATAATAATTACATAAATATTATTTAA
38872 TATAAAAATAATAA
1 TA-AAAAATAATAA
38886 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 6 0.15
31 10 0.25
32 2 0.05
33 18 0.45
34 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAAATAATAATTACATAAATATTATTTAA
Found at i:38915 original size:33 final size:34
Alignment explanation
Indices: 38843--38915 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
38833 TTATTTTAAT
* * *
38843 AAAA-AATAATATTTACATAAATATATTAATATA
1 AAAATAATAATATTTACATAAAAATACTAACATA
38876 AAAATAATAACTATTTA-A-AAAAATACTAACATA
1 AAAATAATAA-TATTTACATAAAAATACTAACATA
38909 AAAATAA
1 AAAATAA
38916 ATTTCTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 23 0.66
34 6 0.17
35 6 0.17
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
AAAATAATAATATTTACATAAAAATACTAACATA
Found at i:40109 original size:14 final size:14
Alignment explanation
Indices: 40092--40121 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
40082 GCCCCTCATT
40092 TTTCAATACTTTAA
1 TTTCAATACTTTAA
*
40106 TTTCAATCCTTTAA
1 TTTCAATACTTTAA
40120 TT
1 TT
40122 ATTGCACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTCAATACTTTAA
Found at i:46364 original size:22 final size:22
Alignment explanation
Indices: 46336--47044 Score: 963
Period size: 22 Copynumber: 32.2 Consensus size: 22
46326 TGCAATATTG
46336 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*
46358 AAATCAATCCATATATTAAAAT
1 AAATCAATCCATATTTTAAAAT
46380 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
**
46402 AAAAT-TTTCCATATTTTAAAAT
1 -AAATCAATCCATATTTTAAAAT
*
46424 AAATCAATTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46446 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46468 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46490 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
* *
46512 GAATCAATTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
* ***
46534 AATTTTTTCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*
46556 AAATCAATTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*** *
46578 AAATTTTTTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*** *
46600 AAATTTTTTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46622 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46644 AAATCAATCCATATTTTTAAAAT
1 AAATCAATCCATA-TTTTAAAAT
*
46667 AAATCAATCCATATTCTAAAAT
1 AAATCAATCCATATTTTAAAAT
* *
46689 AAATCTATCCATATTTGAAAAT
1 AAATCAATCCATATTTTAAAAT
46711 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*
46733 AAATCAATCTATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
***
46755 AAATTTTTCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*
46777 AAATCAATCAATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*** **
46799 AAATTTTTTTATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46821 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*
46843 AAATCAATCCATATTTTATAAT
1 AAATCAATCCATATTTTAAAAT
46865 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*** *
46887 AAATTTTTTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46909 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*** *
46931 AAATTTTTTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
46953 AAATCAATCCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
** *
46975 AAAAT-TTTCAATATTTTAAAAT
1 -AAATCAATCCATATTTTAAAAT
*
46997 AAATCAATTCATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
*
47019 AAATCAATCTATATTTTAAAAT
1 AAATCAATCCATATTTTAAAAT
47041 AAAT
1 AAAT
47045 TTTAAAATAG
Statistics
Matches: 602, Mismatches: 80, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
21 8 0.01
22 564 0.94
23 30 0.05
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATCAATCCATATTTTAAAAT
Found at i:50165 original size:23 final size:23
Alignment explanation
Indices: 50129--50226 Score: 132
Period size: 23 Copynumber: 4.4 Consensus size: 23
50119 CAGGAAGAAC
50129 CGATTCCCCC-TTGAAGGGGAAT
1 CGATTCCCCCTTTGAAGGGGAAT
* *
50151 CGATTCCCCCTTTGAAGCGGAAC
1 CGATTCCCCCTTTGAAGGGGAAT
*
50174 CGATTCCCCCTTTGAATGGGAAT
1 CGATTCCCCCTTTGAAGGGGAAT
50197 CGATTCCCCCTTT--A-GGGAAT
1 CGATTCCCCCTTTGAAGGGGAAT
50217 CGATATCCCC
1 CGAT-TCCCC
50227 ATCGGGTTCT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
20 10 0.14
21 6 0.09
22 10 0.14
23 43 0.62
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (23 bp):
CGATTCCCCCTTTGAAGGGGAAT
Found at i:56550 original size:117 final size:116
Alignment explanation
Indices: 56371--56593 Score: 329
Period size: 117 Copynumber: 1.9 Consensus size: 116
56361 GAAGAAGGTG
* * *
56371 GATCAACATTCCAGTGGAGAGTTCATAATGAGAAGAACTCACATGACGAGGGAGAAGAAGTTCAT
1 GATCAAAATTCCAGTGGAGAGTTCATAATGAGAAGAACTAACACGACGAGGGAGAAGAAGTTCAT
* * * *
56436 AATGATAAGAACTTGTTTAATCTTAGTTCGATTCCATCACAAAATGAGTAT
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCCATCACAAAATGAGTAT
* *
56487 GATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTAATACGATGAGGGAGAAGAAGTTCA
1 GATCAAAA-TTCCAGTGGAGAGTTCATAATGAGAAGAACTAACACGACGAGGGAGAAGAAGTTCA
* * *
56552 TAATGAGAAGGATTTGTTCAACCTTAGCTCGTTTCCATCACA
65 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCCATCACA
56594 TATGAAGTTG
Statistics
Matches: 94, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
116 7 0.07
117 87 0.93
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (116 bp):
GATCAAAATTCCAGTGGAGAGTTCATAATGAGAAGAACTAACACGACGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCCATCACAAAATGAGTAT
Found at i:56771 original size:319 final size:319
Alignment explanation
Indices: 56169--57370 Score: 1982
Period size: 319 Copynumber: 3.8 Consensus size: 319
56159 ACATAAACTA
* *
56169 ATCAACATTTCCAGTGGAGAGTTCATAATAAGAAGAACTCATCCGATGAGGGAGAAGAAGCTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * *
56234 AATGAGAAGAACTTGTTGAACCTTAGCTCGTTTCCATCACATAAGGAGTTAGAACAACACCAATA
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAAGAGTTGGAACAACACCAATA
* *
56299 CTTGGCTCATCCATCGCATATGGAGTTGGATCAACATCATCACTTTGTTCGATTCCATAACAGAA
131 CTTGGCTCAACCATCGCATATGGAGTTGGATCAACATCATCACTTTGTTCGATTCCATCACAGAA
*
56364 GAAGGTGGATCAACA-TTCCAGTGGAGAGTTCATAATGAGAAGAACTCACATGACGAGGGAGAAG
196 GAAGGTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCTGACGAGGGAGAAG
* * * * * *
56428 AAGTTCATAATGATAAGAACTTGTTTAATCTTAGTTCGATTCCATCACAAAATGAGTATG
261 AAGTTCATATTGAGAAG-ACTTGTTTAACCTTAGTTCAATTCCATCACAGAATGAGTAGG
* * *
56488 ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTAATACGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * *
56553 AATGAGAAGGATTTGTTCAACCTTAGCTCGTTTCCATCACAT-ATGAAGTTGGAACAACACCAAT
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAAG-AGTTGGAACAACACCAAT
* * * * *
56617 ACTTGGCTCATCCATCGTATATAGAGTTGGATCAGCAGCATCACTTTGTTCGATTCCATCACAGA
130 ACTTGGCTCAACCATCGCATATGGAGTTGGATCAACATCATCACTTTGTTCGATTCCATCACAGA
*
56682 A-AGAGGTGGATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCTGACGAGGGAGA
195 AGA-AGGTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCTGACGAGGGAGA
56746 AGAAGTTCATATTGAGAAGACTTGTTTAACCTTAGTTCAATTCCATCACAGAATGAGTAGG
259 AGAAGTTCATATTGAGAAGACTTGTTTAACCTTAGTTCAATTCCATCACAGAATGAGTAGG
* * *
56807 ATTAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCACCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
*
56872 AATGAGAAGAACTTGTTCAACCTTAGCTCGTTTTCATCACATAAAGAGTTGGAACAACACCAATA
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAAGAGTTGGAACAACACCAATA
*
56937 CTTGGCTCAACCATCGCATATGGAGTTGGATCAGCATCATCACTTTGTTCGATTCCATCACAGAA
131 CTTGGCTCAACCATCGCATATGGAGTTGGATCAACATCATCACTTTGTTCGATTCCATCACAGAA
*
57002 -AGAGGTGGATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCTGACGAGGGAGAA
196 GA-AGGTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCTGACGAGGGAGAA
57066 GAAGTTCATATTGAGAAGACTTGTTTAACCTTAGTTCAATTCCATCACAGAATGAGTAGG
260 GAAGTTCATATTGAGAAGACTTGTTTAACCTTAGTTCAATTCCATCACAGAATGAGTAGG
*
57126 ATTAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
*
57191 AATGAGAAGAACTTGTTCAACCTTAGCTCGTTTTCATCACATAAAGAGTTGGAACAACACCAATA
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAAGAGTTGGAACAACACCAATA
57256 CTTGGCTCAACCATCGCATATGGAGTTGGATCAACATCATCACTTTGTTCGATTCCATCACAGAA
131 CTTGGCTCAACCATCGCATATGGAGTTGGATCAACATCATCACTTTGTTCGATTCCATCACAGAA
* * *
57321 GAAGGTGGATCAACATTTCTAAT-GAAAGGTTTCATAATGAGAAGAACTCA
196 GAAGGTGGATCAACATTTCCAGTGGAGA-G-TTCATAATGAGAAGAACTCA
57371 TTCGATAAGG
Statistics
Matches: 832, Mismatches: 44, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
318 6 0.01
319 740 0.89
320 86 0.10
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (319 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAAGAGTTGGAACAACACCAATA
CTTGGCTCAACCATCGCATATGGAGTTGGATCAACATCATCACTTTGTTCGATTCCATCACAGAA
GAAGGTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCTGACGAGGGAGAAG
AAGTTCATATTGAGAAGACTTGTTTAACCTTAGTTCAATTCCATCACAGAATGAGTAGG
Found at i:56878 original size:116 final size:117
Alignment explanation
Indices: 56664--56930 Score: 367
Period size: 116 Copynumber: 2.3 Consensus size: 117
56654 GCATCACTTT
* * *
56664 GTTCGATTCCATCACAGAAAGAGGTGGATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAAC
1 GTTCAATTCCATCACAGAAAGAGGTGGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAAC
* * *
56729 TCACCTGACGAGGGAGAAGAAGTTCATATTGAGAAG-ACTTGTTTAACCTTA
66 TCACCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
* *
56780 GTTCAATTCCATCACAGAATGA-GTAGGATTAACATTTCCAGTGAAGAGTTCATAATGAGAAGAA
1 GTTCAATTCCATCACAGAAAGAGGT-GGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAA
*
56844 CTCACCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
65 CTCACCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
* ** * * * *
56897 GCTCGTTTTCATCACATAAAGAGTTGGAACAACA
1 GTTCAATTCCATCACAGAAAGAGGTGGATCAACA
56931 CCAATACTTG
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
115 2 0.02
116 90 0.69
117 37 0.28
118 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (117 bp):
GTTCAATTCCATCACAGAAAGAGGTGGATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAAC
TCACCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
Found at i:57197 original size:116 final size:117
Alignment explanation
Indices: 56983--57249 Score: 369
Period size: 116 Copynumber: 2.3 Consensus size: 117
56973 TCATCACTTT
* *
56983 GTTCGATTCCATCACAGAAAGAGGTGGATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAAC
1 GTTCAATTCCATCACAGAAAGAGGTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAAC
* *
57048 TCACCTGACGAGGGAGAAGAAGTTCATATTGAGAAG-ACTTGTTTAACCTTA
66 TCACCTGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
* *
57099 GTTCAATTCCATCACAGAATGA-GTAGGATTAACATTTCCAGTGGAGAGTTCATAATGAGAAGAA
1 GTTCAATTCCATCACAGAAAGAGGT-GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAA
*
57163 CTCATCC-GATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
65 CTCA-CCTGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
* ** * * * *
57216 GCTCGTTTTCATCACATAAAGAGTTGGAACAACA
1 GTTCAATTCCATCACAGAAAGAGGTGGATCAACA
57250 CCAATACTTG
Statistics
Matches: 131, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
115 2 0.02
116 89 0.68
117 39 0.30
118 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (117 bp):
GTTCAATTCCATCACAGAAAGAGGTGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAAC
TCACCTGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
Found at i:57488 original size:91 final size:92
Alignment explanation
Indices: 57326--57510 Score: 252
Period size: 91 Copynumber: 2.0 Consensus size: 92
57316 CAGAAGAAGG
* * *
57326 TGGATCAACATTTCTAATGAAAGGTTTCATAATGAGAAGAACTCATTCGATAAGGGAAAATAAGT
1 TGGATCAACATTTCCAATGAAAGGTTTCATAATGAGAAGAACTCATTCAATAAGGGAAAAGAAGT
* *
57391 GTATAATGAGAAGAACTTGTTCAACCT
66 GTATAATAAGAAGAACTTATTCAACCT
* *
57418 TGGATCAACATTTCCAATG-AAGAG-TTCATAATGAGAAGAACTCA-TCAAATGAGGGAGAAGAA
1 TGGATCAACATTTCCAATGAAAG-GTTTCATAATGAGAAGAACTCATTC-AATAAGGGAAAAGAA
57480 GT-TCATAATAAGAAGAACTTATTCAACCT
64 GTGT-ATAATAAGAAGAACTTATTCAACCT
57509 TG
1 TG
57511 TTTCGTCCAT
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
90 3 0.04
91 61 0.73
92 19 0.23
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (92 bp):
TGGATCAACATTTCCAATGAAAGGTTTCATAATGAGAAGAACTCATTCAATAAGGGAAAAGAAGT
GTATAATAAGAAGAACTTATTCAACCT
Found at i:57838 original size:11 final size:11
Alignment explanation
Indices: 57818--57850 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57808 GTAATCACCA
57818 TTTTTT-TTAT
1 TTTTTTATTAT
57828 TTTTTTATTAT
1 TTTTTTATTAT
*
57839 TATTTTATTAT
1 TTTTTTATTAT
57850 T
1 T
57851 AAGAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:60157 original size:138 final size:139
Alignment explanation
Indices: 59908--60186 Score: 533
Period size: 138 Copynumber: 2.0 Consensus size: 139
59898 TGCAAACCCT
*
59908 AAAATTTGTTATTTTAATAAAAATATATTTTTTATTAAAATCATCCGATTTTTATGGTGGCTCAA
1 AAAATTTGTTATTTTAATAAAAATATATTTTTTATTAAAATCATCCGATTTTTATGATGGCTCAA
59973 TGACACCTTAAAATAATTGGTGGCGACTCCTTATATTTCAAAACTTTTTCAAATAAAAACCCGTA
66 TGACACCTTAAAATAATTGGTGGCGACTCCTTATATTTCAAAACTTTTTCAAATAAAAACCCGTA
60038 AGTTGTACA
131 AGTTGTACA
60047 AAAATTTGTTATTTTAATAAAAATATA-TTTTTATTAAAATCATCCGATTTTTATGATGGCTCAA
1 AAAATTTGTTATTTTAATAAAAATATATTTTTTATTAAAATCATCCGATTTTTATGATGGCTCAA
*
60111 TGACACCTTAAAATGATTGGTGGCGACTCCTTATATTTCAAAACTTTTTCAAATAAAAACCCGTA
66 TGACACCTTAAAATAATTGGTGGCGACTCCTTATATTTCAAAACTTTTTCAAATAAAAACCCGTA
60176 AGTTGTACA
131 AGTTGTACA
60185 AA
1 AA
60187 TTTTTCCCAG
Statistics
Matches: 138, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
138 111 0.80
139 27 0.20
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (139 bp):
AAAATTTGTTATTTTAATAAAAATATATTTTTTATTAAAATCATCCGATTTTTATGATGGCTCAA
TGACACCTTAAAATAATTGGTGGCGACTCCTTATATTTCAAAACTTTTTCAAATAAAAACCCGTA
AGTTGTACA
Found at i:67702 original size:11 final size:11
Alignment explanation
Indices: 67686--67715 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
67676 GGATCTGAAC
67686 CCGACCTGCAT
1 CCGACCTGCAT
*
67697 CCGACCTACAT
1 CCGACCTGCAT
67708 CCGACCTG
1 CCGACCTG
67716 AGAATAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.20, C:0.47, G:0.17, T:0.17
Consensus pattern (11 bp):
CCGACCTGCAT
Found at i:68861 original size:20 final size:20
Alignment explanation
Indices: 68838--68881 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
68828 AATATCAAGT
*
68838 AGAAGCAAGCAATATAAAAC
1 AGAAGCAAACAATATAAAAC
* *
68858 AGAAGCAAATAATATAAAAT
1 AGAAGCAAACAATATAAAAC
68878 AGAA
1 AGAA
68882 TAAAGCAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.64, C:0.09, G:0.14, T:0.14
Consensus pattern (20 bp):
AGAAGCAAACAATATAAAAC
Found at i:71296 original size:66 final size:65
Alignment explanation
Indices: 71195--71392 Score: 269
Period size: 66 Copynumber: 3.0 Consensus size: 65
71185 ATCCCCTTGC
* *
71195 AAAAAAAAATCATGGTTAGTTT-TCATTAAATGCTTCTGACAGTATATCATTTACATCAACAGCA
1 AAAAAAAAACCAGGGTTAGTTTAT--TTAAATGCTTCTGACAGTATATCATTTACATCAACAGCA
71259 AT
64 AT
*
71261 AAAAAAAAACCAGGGTTAGTTTATTTGAAATGCTTCTGACAGTATATCATTTACATCAGCAGCAA
1 AAAAAAAAACCAGGGTTAGTTTATTT-AAATGCTTCTGACAGTATATCATTTACATCAACAGCAA
71326 T
65 T
* * * *
71327 ---AAAAAACCAGAGTTAGTTTACATTAAATGTTTCTGACAGTATATCATTTACATCAACAACAA
1 AAAAAAAAACCAGGGTTAGTTTA-TTTAAATGCTTCTGACAGTATATCATTTACATCAACAGCAA
71389 T
65 T
71390 AAA
1 AAA
71393 CCAGTATATA
Statistics
Matches: 118, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
63 55 0.47
64 2 0.02
65 2 0.02
66 58 0.49
67 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (65 bp):
AAAAAAAAACCAGGGTTAGTTTATTTAAATGCTTCTGACAGTATATCATTTACATCAACAGCAAT
Found at i:71355 original size:63 final size:62
Alignment explanation
Indices: 71168--71392 Score: 281
Period size: 63 Copynumber: 3.5 Consensus size: 62
71158 AATTGCTTTG
** * * * *
71168 GACAGTATATCATTTACATCCCCTTGCAAAAAAAAATCATGGTTAGTTTTCATTAAATGCTTCT
1 GACAGTATATCATTTACATCAAC-AGCAATAAAAAACCA-GGTTAGTTTACATTAAATGCTTCT
*
71232 GACAGTATATCATTTACATCAACAGCAATAAAAAAAAACCAGGGTTAGTTTA-TTTGAAATGCTT
1 GACAGTATATCATTTACATCAACAGCAAT---AAAAAACCA-GGTTAGTTTACATT-AAATGCTT
71296 CT
61 CT
* *
71298 GACAGTATATCATTTACATCAGCAGCAATAAAAAACCAGAGTTAGTTTACATTAAATGTTTCT
1 GACAGTATATCATTTACATCAACAGCAATAAAAAACCAG-GTTAGTTTACATTAAATGCTTCT
*
71361 GACAGTATATCATTTACATCAACAACAATAAA
1 GACAGTATATCATTTACATCAACAGCAATAAA
71393 CCAGTATATA
Statistics
Matches: 142, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
62 1 0.01
63 61 0.43
64 23 0.16
65 2 0.01
66 55 0.39
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (62 bp):
GACAGTATATCATTTACATCAACAGCAATAAAAAACCAGGTTAGTTTACATTAAATGCTTCT
Found at i:71647 original size:6 final size:6
Alignment explanation
Indices: 71638--71789 Score: 65
Period size: 6 Copynumber: 25.5 Consensus size: 6
71628 TCGAGTATGA
* * * * * *
71638 GTTTGG GTTTGG GTTCGG GGTGGG GTTTAG GTTTGG GTTCAGG G-TAGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTT-TGG GTTTGG
* ** * * * * **
71686 GTTCGG GTTTAT GTTCGG G-GTGG GTTCGG GTTTGG GTTTCG GTTCCG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
** * ** * * *
71733 GTTCCG GTTTTG GTTCAG GTTCGG GTTTGG GTTTGG GATCGG GTTTGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
*
71781 GTTCGG GTT
1 GTTTGG GTT
71790 AAGGGTTAGA
Statistics
Matches: 110, Mismatches: 33, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
5 7 0.06
6 100 0.91
7 3 0.03
ACGTcount: A:0.04, C:0.09, G:0.47, T:0.40
Consensus pattern (6 bp):
GTTTGG
Found at i:71721 original size:12 final size:12
Alignment explanation
Indices: 71620--71789 Score: 121
Period size: 12 Copynumber: 14.2 Consensus size: 12
71610 GTTTCGAATA
*
71620 GTTTGGGTTCGA
1 GTTTGGGTTCGG
* * *
71632 GTATGAGTTTGG
1 GTTTGGGTTCGG
71644 GTTTGGGTTCGG
1 GTTTGGGTTCGG
* * **
71656 GGTGGGGTTTAG
1 GTTTGGGTTCGG
71668 GTTTGGGTTCAGG
1 GTTTGGGTTC-GG
*
71681 G-TAGGGTTCGG
1 GTTTGGGTTCGG
**
71692 GTTTATGTTCGG
1 GTTTGGGTTCGG
*
71704 G-GTGGGTTCGG
1 GTTTGGGTTCGG
71715 GTTTGGGTTTC-G
1 GTTTGGG-TTCGG
** *
71727 GTTCCGGTTCCG
1 GTTTGGGTTCGG
* *
71739 GTTTTGGTTCAG
1 GTTTGGGTTCGG
* *
71751 GTTCGGGTTTGG
1 GTTTGGGTTCGG
*
71763 GTTTGGGATCGG
1 GTTTGGGTTCGG
71775 GTTTGGGTTCGG
1 GTTTGGGTTCGG
71787 GTT
1 GTT
71790 AAGGGTTAGA
Statistics
Matches: 117, Mismatches: 36, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
11 14 0.12
12 98 0.84
13 5 0.04
ACGTcount: A:0.05, C:0.09, G:0.46, T:0.40
Consensus pattern (12 bp):
GTTTGGGTTCGG
Found at i:72115 original size:113 final size:112
Alignment explanation
Indices: 71924--72208 Score: 396
Period size: 113 Copynumber: 2.5 Consensus size: 112
71914 GAAGAACACA
* *
71924 GATGAACAATAGATGAAT-TTATGGGTGTTTGATCGAAAAAATATGAAATGGTTTGGGTTTCGGT
1 GATGAAC-ATAGATGAATATT-TGGGTGTTTGATC-AAAAAACATGAAATGGCTTGGGTTTCGGT
*
71988 GTTTTTGAAGATCAAATGAGGGTTTTGGAGAAGAACTGGGATGAAC-AAG
63 GTTTTCGAAGATCAAATGAGGGTTTTGGAGAAGAACTGGGATGAACAAAG
* *
72037 GATGAACATGGATGAATATTTGGGTGTTTGATCCAAAACAACATGAAATGGCTTGTGTTTCGGTG
1 GATGAACATAGATGAATATTTGGGTGTTTGAT-CAAAA-AACATGAAATGGCTTGGGTTTCGGTG
* *
72102 TTTTCGAAGATCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAAT
64 TTTTCGAAGATCAAATGAGGGTTTTGGAGAAGAACTGGGATGAACAAAG
* * * *
72151 GAAGAACACAGATGAATATTTGGGTGTTTGAT-ATAAAAACATGAAATTGTTTGGGTTT
1 GATGAACATAGATGAATATTTGGGTGTTTGATCA-AAAAACATGAAATGGCTTGGGTTT
72209 TTGAAGATCA
Statistics
Matches: 154, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
112 44 0.29
113 79 0.51
114 31 0.20
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (112 bp):
GATGAACATAGATGAATATTTGGGTGTTTGATCAAAAAACATGAAATGGCTTGGGTTTCGGTGTT
TTCGAAGATCAAATGAGGGTTTTGGAGAAGAACTGGGATGAACAAAG
Found at i:72228 original size:104 final size:109
Alignment explanation
Indices: 71935--72271 Score: 377
Period size: 113 Copynumber: 3.1 Consensus size: 109
71925 ATGAACAATA
* *
71935 GATGAAT-TTATGGGTGTTTGATCGAAAA-AATATGAAATGGTTTGGGTTTCGGTGTTTTTGAAG
1 GATGAATATT-TGGGTGTTTGATC-AAAACAACATGAAA--G--TGTGTTTCGGTGTTTTTGAAG
* * * *
71998 ATCAAATGAGGGTTTTGGAGAAGAACTGGGATGAAC-AAGGATGAACATG
60 ATCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAATGAAGAACACG
*
72047 GATGAATATTTGGGTGTTTGATCCAAAACAACATGAAATGGCTTGTGTTTCGGTGTTTTCGAAGA
1 GATGAATATTTGGGTGTTTGAT-CAAAACAACATGAAA--G--TGTGTTTCGGTGTTTTTGAAGA
*
72112 TCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAATGAAGAACACA
61 TCAAATGAGGGTTTTGGGGAAGAACTGGGATGAACAAATGAAGAACACG
*
72161 GATGAATATTTGGGTGTTTGAT-ATAAA-AACATGAAA-T-TGTTT-GG-GTTTTTGAAGATCAG
1 GATGAATATTTGGGTGTTTGATCA-AAACAACATGAAAGTGTGTTTCGGTGTTTTTGAAGATCAA
* * * * *
72220 ATGAGGGTTTTAGGGAATAACTAGGATGAAAAAATGAATAACACG
65 ATGAGGGTTTTGGGGAAGAACTGGGATGAACAAATGAAGAACACG
72265 GATGAAT
1 GATGAAT
72272 TTCTAGAGAG
Statistics
Matches: 203, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
104 59 0.29
105 2 0.01
106 5 0.02
107 1 0.00
112 33 0.16
113 72 0.35
114 31 0.15
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.30
Consensus pattern (109 bp):
GATGAATATTTGGGTGTTTGATCAAAACAACATGAAAGTGTGTTTCGGTGTTTTTGAAGATCAAA
TGAGGGTTTTGGGGAAGAACTGGGATGAACAAATGAAGAACACG
Found at i:72593 original size:61 final size:61
Alignment explanation
Indices: 72460--72596 Score: 170
Period size: 61 Copynumber: 2.2 Consensus size: 61
72450 TCCTGGTTTT
* *
72460 AAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTATATTTCA
1 AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTATATTTCA
** * * * *
72521 ACTTTTTTTCAATTTAGTCCAAATTT-ATTATTACAGTTTATTAATTTAAGCTTCATATTT-A
1 AAATTTATTCAATTTAGTCCAAATTTAATGA-TACAATATATTAATTTAAGCTT-ATATTTCA
72582 AAATTTATTCAATTT
1 AAATTTATTCAATTT
72597 GATCCTTATA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 3 0.05
61 55 0.86
62 6 0.09
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (61 bp):
AAATTTATTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTATATTTCA
Found at i:72691 original size:33 final size:33
Alignment explanation
Indices: 72653--72953 Score: 232
Period size: 33 Copynumber: 9.6 Consensus size: 33
72643 ATTAATAAAT
* *
72653 TAATATATAGGTTATATATACTAATGAACT-TT
1 TAATATATAGTTTATATATACTAATGAACTATA
72685 TCAATATATAGTTTATATATACTAATGAACTATA
1 T-AATATATAGTTTATATATACTAATGAACTATA
*
72719 TAATATATAGTTTGTATATAC-------C-ATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* * * *
72744 TACTACATAGGTTATATATACTAATGCACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
72777 TAATATATAGTTTGTATATAC-------C-ATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
72802 TACTATATAG-GT-TATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
72833 TAATATATAGTTTATATATACTAATGAAATATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* * * **
72866 T-ATGTATAATTTATATACCATA-TAGTTTA-TATA
1 TAATATATAGTTTATAT---ATACTAATGAACTATA
* *
72899 TATTATATAGTTTATATATACTAATAAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
72932 TAATGTATAGTTTTATATATAC
1 TAATATATAG-TTTATATATAC
72954 CATATAGTTT
Statistics
Matches: 213, Mismatches: 29, Indels: 52
0.72 0.10 0.18
Matches are distributed among these distances:
23 7 0.03
24 1 0.00
25 32 0.15
26 2 0.01
30 1 0.00
31 15 0.07
32 20 0.09
33 103 0.48
34 29 0.14
35 3 0.01
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:72759 original size:58 final size:56
Alignment explanation
Indices: 72689--73007 Score: 313
Period size: 58 Copynumber: 6.0 Consensus size: 56
72679 AACTTTTCAA
72689 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTATATACCATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTT-TATATA-CATATAC
* * *
72747 TACATAGGTTATATATACTAATGCACTATATAATATATAGTTTGTATATACCATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTT-TATATA-CATATAC
*
72805 TATATAG-GT-TATATACTAATGAACTATATAATATATAGTTTATATATAC-TA-A-
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTT-TATATACATATAC
* * * **
72857 TGA-A-A-TATATATGTA-TAAT---TTATATACCATATAG-TTTATAT--ATAT--
1 T-ATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATACATATAC
* *
72902 TATATAGTTTATATATACTAATAAACTATATAATGTATAG-TTT-TAT--ATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATACATATAC
* *
72954 CATATAGTTTATATATACTAATGAACTATATAATATATAG-TTTATATATATATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATACATATA
73008 GTTTATATAT
Statistics
Matches: 223, Mismatches: 21, Indels: 37
0.79 0.07 0.13
Matches are distributed among these distances:
44 1 0.00
45 4 0.02
46 6 0.03
47 10 0.04
48 16 0.07
50 7 0.03
51 20 0.09
52 47 0.21
53 5 0.02
54 2 0.01
55 6 0.03
56 37 0.17
57 1 0.00
58 61 0.27
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (56 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATACATATAC
Found at i:72834 original size:2 final size:2
Alignment explanation
Indices: 72829--73201 Score: 60
Period size: 2 Copynumber: 179.0 Consensus size: 2
72819 ACTAATGAAC
* * *
72829 TA TA TA -A TA TA TA GTT TA TA TA TA CTA -A TGA AA TA TA TA TG
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA
* * * *
72870 TA TA -A TT TA TA TA CCA TA TA GTT TA TA TA TA T- 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
* * *
72911 TA TA TA TA CTA -A TA AA CTA TA TA -A TG TA TA GT- TT TA TA TA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
* *
72951 TA CCA TA TA GTT TA TA TA TA CTA -A TGA -A CTA TA TA -A TA TA TA
1 TA -TA TA TA -TA TA TA TA TA -TA TA T-A TA -TA TA TA TA TA TA TA
* * *
72993 GTT TA TA TA TA TA TA GTT TA TA TA TA TA GTA TA AA T- TA TA T-
1 -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
73034 TA TA TA TA TA AA TA TCA -A CTA TA GTA TA TA GTT TA TA TGG TT TT
1 TA TA TA TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA TA T-A TA TA
* * *
73078 TA TA TA TA GT- TCA TA TG GA AA T- TA TA CTA TA TA GTA TA TA TA
1 TA TA TA TA -TA T-A TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
73120 GTT TA TA TA GA TA -A TA TA TA GTT TA TA TA TA TA -A AA TA TA GTA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * *
73163 TG TA GTA TA TA AA TA TA AA CTA TA GTT TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA
73202 GTTCATATGT
Statistics
Matches: 266, Mismatches: 56, Indels: 98
0.63 0.13 0.23
Matches are distributed among these distances:
1 17 0.06
2 208 0.78
3 41 0.15
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (2 bp):
TA
Found at i:72852 original size:18 final size:18
Alignment explanation
Indices: 72829--73655 Score: 129
Period size: 18 Copynumber: 45.2 Consensus size: 18
72819 ACTAATGAAC
72829 TATATAATATATAGTTTA
1 TATATAATATATAGTTTA
* **
72847 TATATACTA-AT-G-AAA
1 TATATAATATATAGTTTA
* *
72862 TATAT-ATGTATA-ATT-
1 TATATAATATATAGTTTA
**
72877 TATATACCATATAGTTTA
1 TATATAATATATAGTTTA
*
72895 TATATATTATATAGTTTA
1 TATATAATATATAGTTTA
* *
72913 TATATACTA-ATA---AA
1 TATATAATATATAGTTTA
*
72927 CTATATAATGTATAGTTTTA
1 -TATATAATATATAG-TTTA
**
72947 TATATACCATATAGTTTA
1 TATATAATATATAGTTTA
* *
72965 TATATACTA-AT-G--AA
1 TATATAATATATAGTTTA
72979 CTATATAATATATAG-TT-
1 -TATATAATATATAGTTTA
72996 TATAT-ATATATAGTTTA
1 TATATAATATATAGTTTA
**
73013 TATAT-ATAGTATAAATTA
1 TATATAATA-TATAGTTTA
**
73031 TAT-TATATATATA-AATA
1 TATATA-ATATATAGTTTA
*
73048 TCAACTATAGTATATAGTTTA
1 T--A-TATAATATATAGTTTA
* * *
73069 TATGGTTTTTATATATAGTTCA
1 TA----TATAATATATAGTTTA
*
73091 TATGGA-AAT-TATA--CTA
1 TAT--ATAATATATAGTTTA
73107 TATAGT-ATATATAGTTTA
1 TATA-TAATATATAGTTTA
73125 TATAGATAATATATAGTTTATA
1 TAT--ATAATATATAG-TT-TA
*
73147 TATATAAAATATAGTATGTA
1 TATATAATATATAGT-T-TA
* * *
73167 GTATATAAATATAAACTATA
1 -TATAT-AATATATAGTTTA
* *
73187 GTTTATATATATATAGTTCA
1 -TATATA-ATATATAGTTTA
*
73207 TATGTAA-ACTATAGTTCATA
1 TATATAATA-TATAGTT--TA
* * *
73227 TGTAAATATCAACTATATTTTA
1 TATATA-AT--A-TATAGTTTA
*
73249 TATGTAA-ACTATAG-TTA
1 TATATAATA-TATAGTTTA
73266 GTATATAAACTATATAGTTTA
1 -TATAT-AA-TATATAGTTTA
* *
73287 TATGTAA-ACTATAGTTCA
1 TATATAATA-TATAGTTTA
**
73305 TATATAA-ATATCA-ACTA
1 TATATAATATAT-AGTTTA
*
73322 TAGTAT-ATATATAGTTCA
1 TA-TATAATATATAGTTTA
*
73340 TATGTAAACTATATAG--T-
1 TATAT-AA-TATATAGTTTA
*
73357 T-TAT-ATATATAGTTCA
1 TATATAATATATAGTTTA
* *
73373 TATGTAAAATATAGTTCATA
1 TATATAATATATAGTT--TA
* *
73393 TGTAAATATCAACTATAGTTTA
1 TATATA-AT--A-TATAGTTTA
*
73415 TATGTAA-ACTATAG-TTA
1 TATATAATA-TATAGTTTA
73432 GTATATAAACTATATAGTTTA
1 -TATAT-AA-TATATAGTTTA
* *
73453 TATGTAA-ACTATAGTTCA
1 TATATAATA-TATAGTTTA
**
73471 TATATAA-ATATTA-ACTA
1 TATATAATATA-TAGTTTA
*
73488 TAT-TATATATATAGTTCA
1 TATATA-ATATATAGTTTA
*
73506 TATGTAAACTATATAG--T-
1 TATAT-AA-TATATAGTTTA
*
73523 T-TAT-ATATATAGTTCA
1 TATATAATATATAGTTTA
*
73539 TATGTAA-ACTATAGTTCATA
1 TATATAATA-TATAGTT--TA
* * *
73559 TATATAGTATATAAATATA
1 TATATAATATAT-AGTTTA
* * *
73578 AACTATAGTATGTAGTATATA
1 TA-TATAATATATAGT-T-TA
*
73599 TATATAA-ACTATAATTTA
1 TATATAATA-TATAGTTTA
* *
73617 TATATTATATATAGTATA
1 TATATAATATATAGTTTA
73635 TACTAT-ATA-ATAGTTTA
1 TA-TATAATATATAGTTTA
73652 TATA
1 TATA
73656 GTTCACTAAT
Statistics
Matches: 586, Mismatches: 118, Indels: 212
0.64 0.13 0.23
Matches are distributed among these distances:
13 14 0.02
14 6 0.01
15 38 0.06
16 36 0.06
17 67 0.11
18 184 0.31
19 47 0.08
20 112 0.19
21 30 0.05
22 36 0.06
23 1 0.00
24 15 0.03
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (18 bp):
TATATAATATATAGTTTA
Found at i:72906 original size:66 final size:69
Alignment explanation
Indices: 72829--72970 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 69
72819 ACTAATGAAC
72829 TATATAATATATAGTTTATATATACTAATGAAA-TATAT-ATGTATA-ATT-TATATACCATATA
1 TATATAATATATAGTTTATATATACTAAT-AAACTATATAATGTATAGATTATATATACCATATA
72890 GTTTA
65 GTTTA
* *
72895 TATATATTATATAGTTTATATATACTAATAAACTATATAATGTATAGTTTTATATATACCATATA
1 TATATAATATATAGTTTATATATACTAATAAACTATATAATGTATAG-ATTATATATACCATATA
72960 GTTTA
65 GTTTA
72965 TATATA
1 TATATA
72971 CTAATGAACT
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
65 3 0.04
66 33 0.48
67 7 0.10
69 2 0.03
70 24 0.35
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (69 bp):
TATATAATATATAGTTTATATATACTAATAAACTATATAATGTATAGATTATATATACCATATAG
TTTA
Found at i:72940 original size:26 final size:26
Alignment explanation
Indices: 72902--72992 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
72892 TTATATATAT
*
72902 TATATAGTTTATATATACTAATAAAC
1 TATATAATTTATATATACTAATAAAC
* * *
72928 TATATAATGTATAGT-T-TTATATATAC
1 TATATAATTTATA-TATACTA-ATAAAC
* * *
72954 CATATAGTTTATATATACTAATGAAC
1 TATATAATTTATATATACTAATAAAC
*
72980 TATATAATATATA
1 TATATAATTTATA
72993 GTTTATATAT
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
25 3 0.06
26 42 0.88
27 3 0.06
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (26 bp):
TATATAATTTATATATACTAATAAAC
Found at i:72950 original size:19 final size:20
Alignment explanation
Indices: 72928--72976 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
72918 ACTAATAAAC
72928 TATATAATGTATAGTTT-TA
1 TATATAATGTATAGTTTATA
***
72947 TATATACCATATAGTTTATA
1 TATATAATGTATAGTTTATA
72967 TATACTAATG
1 TATA-TAATG
72977 AACTATATAA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
19 14 0.64
20 6 0.27
21 2 0.09
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (20 bp):
TATATAATGTATAGTTTATA
Found at i:73002 original size:13 final size:13
Alignment explanation
Indices: 72986--73043 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
72976 GAACTATATA
72986 ATATATAGTTTATAT
1 ATATATAG-TT-TAT
73001 ATATATAGTTTAT
1 ATATATAGTTTAT
* *
73014 ATATATAGTATAA
1 ATATATAGTTTAT
73027 AT-TATA--TTAT
1 ATATATAGTTTAT
73037 ATATATA
1 ATATATA
73044 AATATCAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
10 4 0.11
11 4 0.11
12 4 0.11
13 16 0.42
14 2 0.05
15 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (13 bp):
ATATATAGTTTAT
Found at i:73070 original size:38 final size:36
Alignment explanation
Indices: 72980--73071 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 36
72970 ACTAATGAAC
* **
72980 TATATAATATATAGTTTATA-TATATATAGTTTATA
1 TATATAGTATATAGTTTATATTATATATAGTAAATA
*
73015 TATATAGTATA-A-ATTATATTATATATA-TAAATA
1 TATATAGTATATAGTTTATATTATATATAGTAAATA
73048 TCAACTATAGTATATAGTTTATAT
1 T--A-TATAGTATATAGTTTATAT
73072 GGTTTTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
33 10 0.22
34 9 0.20
35 11 0.24
36 9 0.20
37 1 0.02
38 6 0.13
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (36 bp):
TATATAGTATATAGTTTATATTATATATAGTAAATA
Found at i:73119 original size:9 final size:9
Alignment explanation
Indices: 73105--73152 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
73095 GAAATTATAC
73105 TATATAGTA
1 TATATAGTA
*
73114 TATATAGTT
1 TATATAGTA
73123 TATATAGATAA
1 TATATAG-T-A
*
73134 TATATAGTT
1 TATATAGTA
73143 TATATA-TA
1 TATATAGTA
73151 TA
1 TA
73153 AAATATAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 3 0.09
9 21 0.64
10 2 0.06
11 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (9 bp):
TATATAGTA
Found at i:73126 original size:11 final size:10
Alignment explanation
Indices: 73105--73150 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
73095 GAAATTATAC
73105 TATATAG-TA
1 TATATAGTTA
73114 TATATAGTT-
1 TATATAGTTA
*
73123 TATATAGATAA
1 TATATAG-TTA
73134 TATATAGTTTA
1 TATATAG-TTA
73145 TATATA
1 TATATA
73151 TAAAATATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 14 0.45
10 2 0.06
11 15 0.48
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (10 bp):
TATATAGTTA
Found at i:73290 original size:80 final size:75
Alignment explanation
Indices: 73178--73323 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 75
73168 TATATAAATA
*
73178 TAAACTATAGTTTATATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTAT
1 TAAACTATAGTTTATATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
73243 ATTTTATATG
66 ATTTTATATG
*
73253 TAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAATATCA
1 TAAACTATAGTT--TATAT--A-TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCA
73318 ACTATA
61 ACTATA
73324 GTATATATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
75 12 0.19
77 5 0.08
79 1 0.02
80 46 0.72
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (75 bp):
TAAACTATAGTTTATATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
ATTTTATATG
Found at i:73296 original size:38 final size:37
Alignment explanation
Indices: 73232--73571 Score: 133
Period size: 38 Copynumber: 9.4 Consensus size: 37
73222 TCATATGTAA
*
73232 ATATCAACTATAT--TTTATATGTAAACTATAGTTAGT
1 ATATAAACTATATAGTTTATATGTAAACTATAGTTA-T
73268 ATATAAACTATATAGTTTATATGTAAACTATAGTTCAT
1 ATATAAACTATATAGTTTATATGTAAACTATAGTT-AT
*
73306 ATATAAA-TATCA-A--CTATA-GTATATA-TATAGTTCAT
1 ATATAAACTAT-ATAGTTTATATGTA-A-ACTATAGTT-AT
*
73341 ATGTAAACTATATAGTTTATA--T--A-TATAGTTCAT
1 ATATAAACTATATAGTTTATATGTAAACTATAGTT-AT
* *
73374 ATGTAAA--ATATAGTTCATATGTAAATATCAACTATAGTTTAT
1 ATATAAACTATATAGTTTATATG----TA--AACTATAG-TTAT
* *
73416 ATGTAAAC--TATAG-TTAGTATATAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTA-TATGTAAAC--TATAG-TTAT
* * * **
73454 ATGTAAAC--TATAGTTCATATATAAA-TATTAACTAT
1 ATATAAACTATATAGTTTATATGTAAACTA-TAGTTAT
* *
73489 AT-TATA-TATATAGTTCATATGTAAACTATA--TAGT
1 ATATAAACTATATAGTTTATATGTAAACTATAGTTA-T
* *
73523 -T-TATA-TATATAGTTCATATGTAAACTATAGTTCAT
1 ATATAAACTATATAGTTTATATGTAAACTATAGTT-AT
* *
73558 ATATATAGTATATA
1 ATATAAACTATATA
73572 AATATAAACT
Statistics
Matches: 254, Mismatches: 12, Indels: 74
0.75 0.04 0.22
Matches are distributed among these distances:
31 11 0.04
33 49 0.19
34 7 0.03
35 49 0.19
36 26 0.10
37 10 0.04
38 72 0.28
39 3 0.01
41 3 0.01
42 22 0.09
43 2 0.01
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (37 bp):
ATATAAACTATATAGTTTATATGTAAACTATAGTTAT
Found at i:73340 original size:35 final size:33
Alignment explanation
Indices: 73324--73602 Score: 162
Period size: 33 Copynumber: 8.3 Consensus size: 33
73314 ATCAACTATA
73324 GTATATATATAGTTCATATGTAAACTATATAGT
1 GTATATATATAGTTCATATGTAAACTATATAGT
* * *
73357 TTATATATATAGTTCATATGTAAAATATAGTTCATAT
1 GTATATATATAGTTCATATGTAAACTATA--T-A-GT
*
73394 GTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGT
1 GT--ATAT--A-TATAGTTCATATGTAAACTATA--TAGT
* *
73434 ATATAAACTATATAGTTTATATGTAAAC--TATAGT
1 GTAT--A-TATATAGTTCATATGTAAACTATATAGT
73468 -TCATATATA-A----ATAT-T-AAC--TATA-T
1 GT-ATATATATAGTTCATATGTAAACTATATAGT
73491 -TATATATATAGTTCATATGTAAACTATATAGT
1 GTATATATATAGTTCATATGTAAACTATATAGT
*
73523 TTATATATATAGTTCATATGTAAAC--TATAGT
1 GTATATATATAGTTCATATGTAAACTATATAGT
*
73554 -TCATATATATAGTAT-ATAAATATAAACTATAGTATGT
1 GT-ATATATATAGT-TCAT--ATGTAAACTATA-TA-GT
73591 AGTATATATATA
1 -GTATATATATA
73603 TAAACTATAA
Statistics
Matches: 203, Mismatches: 9, Indels: 63
0.74 0.03 0.23
Matches are distributed among these distances:
22 7 0.03
23 3 0.01
24 7 0.03
25 1 0.00
26 4 0.02
27 4 0.02
28 1 0.00
29 3 0.01
30 2 0.01
31 27 0.13
32 3 0.01
33 59 0.29
34 6 0.03
35 3 0.01
36 5 0.02
37 4 0.02
38 29 0.14
39 6 0.03
40 3 0.01
41 3 0.01
42 23 0.11
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (33 bp):
GTATATATATAGTTCATATGTAAACTATATAGT
Found at i:73343 original size:53 final size:53
Alignment explanation
Indices: 73276--73518 Score: 212
Period size: 53 Copynumber: 4.5 Consensus size: 53
73266 GTATATAAAC
*
73276 TATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
1 TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
* *
73329 TATATAGTTCATATGTAAACTATATAGTTTATATATATAGT-TC-A-TAT-GTA-A
1 TATATAGTTCATATGTAAAC--TATAGTTCATATATA-AATATCAACTATAGTATA
* * * * *
73380 AATATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTAT-AGTTAGTATA-TAAA
1 TATATAGTTCATATG----TA--AACTATAGTTCATATATAAA-TATCA---ACTATAGTATA
* * *
73441 CTATATAGTTTATATGTAAACTATAGTTCATATATAAATATTAACTATATTATA
1 -TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
73495 TATATAGTTCATATGTAAACTATA
1 TATATAGTTCATATGTAAACTATA
73519 TAGTTTATAT
Statistics
Matches: 156, Mismatches: 13, Indels: 42
0.74 0.06 0.20
Matches are distributed among these distances:
51 15 0.10
52 3 0.02
53 50 0.32
54 5 0.03
55 36 0.23
56 22 0.14
57 3 0.02
58 2 0.01
59 1 0.01
60 5 0.03
61 1 0.01
62 13 0.08
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (53 bp):
TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
Found at i:73369 original size:166 final size:166
Alignment explanation
Indices: 73183--73559 Score: 700
Period size: 166 Copynumber: 2.3 Consensus size: 166
73173 AAATATAAAC
*
73183 TATAGTTTATATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATATTTT
1 TATAG-TT-TATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTT
73248 ATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAA
64 ATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAA
73313 TATCAACTATAGTATATATATAGTTCATATGTAAACTA
129 TATCAACTATAGTATATATATAGTTCATATGTAAACTA
*
73351 TATAGTTTATATATATAGTTCATATGTAAAATATAGTTCATATGTAAATATCAACTATAGTTTAT
1 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTAT
73416 ATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAATA
66 ATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAATA
* *
73481 TTAACTATATTATATATATAGTTCATATGTAAACTA
131 TCAACTATAGTATATATATAGTTCATATGTAAACTA
73517 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATAT
1 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATAT
73560 ATATAGTATA
Statistics
Matches: 204, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
166 197 0.97
167 2 0.01
168 5 0.02
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.43
Consensus pattern (166 bp):
TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTAT
ATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAATA
TCAACTATAGTATATATATAGTTCATATGTAAACTA
Found at i:73387 original size:86 final size:90
Alignment explanation
Indices: 73248--73562 Score: 389
Period size: 86 Copynumber: 3.7 Consensus size: 90
73238 ACTATATTTT
* *
73248 ATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAA
1 ATATGTAAACTATAG-TAGTATATAAACTATATAGTTCATATGTAAAATATAGTTCATATATAAA
73313 TATCAACTATAGTATATATATAGTTC
65 TATCAACTATAGTATATATATAGTTC
* *
73339 ATATGTAAACTATA-TAGT-T-TATA-TATATAGTTCATATGTAAAATATAGTTCATATGTAAAT
1 ATATGTAAACTATAGTAGTATATAAACTATATAGTTCATATGTAAAATATAGTTCATATATAAAT
73400 ATCAACTATAG--------T--TT-
66 ATCAACTATAGTATATATATAGTTC
* *
73414 ATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAA
1 ATATGTAAACTATAG-TAGTATATAAACTATATAGTTCATATGTAAAATATAGTTCATATATAAA
* *
73479 TATTAACTATATTATATATATAGTTC
65 TATCAACTATAGTATATATATAGTTC
* *
73505 ATATGTAAACTATA-TAGT-T-TATA-TATATAGTTCATATGTAAACTATAGTTCATATATA
1 ATATGTAAACTATAGTAGTATATAAACTATATAGTTCATATGTAAAATATAGTTCATATATA
73563 TAGTATATAA
Statistics
Matches: 196, Mismatches: 12, Indels: 37
0.80 0.05 0.15
Matches are distributed among these distances:
75 14 0.07
76 2 0.01
77 4 0.02
78 2 0.01
79 3 0.02
80 44 0.22
86 80 0.41
87 6 0.03
88 3 0.02
89 8 0.04
90 2 0.01
91 28 0.14
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (90 bp):
ATATGTAAACTATAGTAGTATATAAACTATATAGTTCATATGTAAAATATAGTTCATATATAAAT
ATCAACTATAGTATATATATAGTTC
Found at i:73430 original size:42 final size:42
Alignment explanation
Indices: 73198--73331 Score: 179
Period size: 42 Copynumber: 3.3 Consensus size: 42
73188 TTTATATATA
* *
73198 TATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAAC
1 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
* *
73240 TATATTTTATATGTAAACTATAGTT-AGTATAT-AA-A-CTA-
1 TATAGTTTATATGTAAACTATAGTTCA-TATATAAATATCAAC
73278 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
1 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
*
73320 TATAGTATATAT
1 TATAGTTTATAT
73332 ATAGTTCATA
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
38 29 0.37
39 5 0.06
40 2 0.03
41 5 0.06
42 38 0.48
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (42 bp):
TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
Found at i:73479 original size:80 final size:79
Alignment explanation
Indices: 73331--73528 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 79
73321 ATAGTATATA
* * *
73331 TATAGTTCATATGTAAACTATA--TAGT-TTATA-TATATAGTTCATATGTAAAATATAGTTCAT
1 TATAGTTTATATGTAAACTATAGTTAGTATTAAACTATATAGTTTATATGTAAAATATAGTTCAT
*
73392 ATGTAAATATCAAC
66 ATATAAATATCAAC
*
73406 TATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
1 TATAGTTTATATGTAAACTATAGTTAGTAT-TAAACTATATAGTTTATATGTAAAATATAGTTCA
*
73471 TATATAAATATTAAC
65 TATATAAATATCAAC
73486 TATA--TTATA--T--A-TATAGTTCA-TATGTAAACTATATAGTTTATAT
1 TATAGTTTATATGTAAACTATAGTT-AGTAT-TAAACTATATAGTTTATAT
73529 ATATAGTTCA
Statistics
Matches: 110, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
73 29 0.26
74 2 0.02
75 21 0.19
76 1 0.01
77 4 0.04
78 6 0.05
79 3 0.03
80 44 0.40
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (79 bp):
TATAGTTTATATGTAAACTATAGTTAGTATTAAACTATATAGTTTATATGTAAAATATAGTTCAT
ATATAAATATCAAC
Found at i:73533 original size:13 final size:13
Alignment explanation
Indices: 73515--73566 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 13
73505 ATATGTAAAC
*
73515 TATATAGTTTATA
1 TATATAGTTCATA
73528 TATATAGTTCATA
1 TATATAGTTCATA
73541 TGTAAACTATAGTTCATA
1 --T--A-TATAGTTCATA
73559 TATATAGT
1 TATATAGT
73567 ATATAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
13 18 0.55
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 11 0.33
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (13 bp):
TATATAGTTCATA
Found at i:73571 original size:7 final size:6
Alignment explanation
Indices: 73556--73643 Score: 54
Period size: 7 Copynumber: 13.8 Consensus size: 6
73546 ACTATAGTTC
* * * *
73556 ATATAT ATAGTAT ATAAAT ATAAACT ATAGTAT GTAGTAT ATATAT ATAAACT
1 ATATAT ATA-TAT ATATAT ATATA-T ATA-TAT ATA-TAT ATATAT ATATA-T
*
73609 ATA-AT TTATAT AT-TAT ATATAGT ATATACT ATATA
1 ATATAT ATATAT ATATAT ATATA-T ATATA-T ATATA
73644 ATAGTTTATA
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
5 8 0.12
6 23 0.34
7 35 0.52
8 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:73580 original size:33 final size:32
Alignment explanation
Indices: 73471--73636 Score: 118
Period size: 33 Copynumber: 5.2 Consensus size: 32
73461 CTATAGTTCA
*
73471 TATATAAATATTAACTATA-TTATATATATAG
1 TATATAAATATAAACTATAGTTATATATATAG
*
73502 T-TCAT--ATGTAAACTATATAGTTTATATATATAG
1 TAT-ATAAATATAAAC--TATAG-TTATATATATAG
*
73535 T-TCAT--ATGTAAACTATAGTTCATATATATAG
1 TAT-ATAAATATAAACTATAGTT-ATATATATAG
*
73566 TATATAAATATAAACTATAGTATGTAGTATATA-
1 TATATAAATATAAACTATAGT-TATA-TATATAG
**
73599 TATATAAACTATAATTTATA--TATTATATATAG
1 TATATAAA-TATAAACTATAGTTA-TATATATAG
73631 TATATA
1 TATATA
73637 CTATATAATA
Statistics
Matches: 114, Mismatches: 7, Indels: 27
0.77 0.05 0.18
Matches are distributed among these distances:
29 6 0.05
30 3 0.03
31 32 0.28
32 9 0.08
33 48 0.42
34 16 0.14
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (32 bp):
TATATAAATATAAACTATAGTTATATATATAG
Found at i:73627 original size:16 final size:17
Alignment explanation
Indices: 73615--73653 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
73605 AACTATAATT
*
73615 TATATATTATAT-ATAG
1 TATATACTATATAATAG
73631 TATATACTATATAATAG
1 TATATACTATATAATAG
*
73648 TTTATA
1 TATATA
73654 TAGTTCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TATATACTATATAATAG
Found at i:73655 original size:2 final size:2
Alignment explanation
Indices: 73556--73643 Score: 54
Period size: 2 Copynumber: 41.5 Consensus size: 2
73546 ACTATAGTTC
* * *
73556 AT AT AT AT AGT AT AT AA AT AT AA ACT AT AGT AT GT AGT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT A-T AT A-T AT AT A-T AT AT AT
* *
73600 AT AT AA ACT AT A- AT TT AT AT AT -T AT AT AT AGT AT AT ACT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT
73641 AT A
1 AT A
73644 ATAGTTTATA
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
1 2 0.03
2 53 0.79
3 12 0.18
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:73677 original size:24 final size:24
Alignment explanation
Indices: 73650--73699 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
73640 TATAATAGTT
*
73650 TATATAGTTCACTA-ATAAACTATA
1 TATATAGGTCA-TATATAAACTATA
*
73674 TATATAGGTCATATGTAAACTATA
1 TATATAGGTCATATATAAACTATA
73698 TA
1 TA
73700 GTTTACGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (24 bp):
TATATAGGTCATATATAAACTATA
Found at i:73873 original size:14 final size:14
Alignment explanation
Indices: 73854--73895 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
73844 TCAATAAATT
73854 AACCTTAAATCATA
1 AACCTTAAATCATA
* *
73868 AACCTTAAACCTTA
1 AACCTTAAATCATA
73882 AACCTTAAATCATA
1 AACCTTAAATCATA
73896 TATACTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (14 bp):
AACCTTAAATCATA
Found at i:73876 original size:7 final size:7
Alignment explanation
Indices: 73854--73890 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
73844 TCAATAAATT
73854 AACCTTA
1 AACCTTA
* *
73861 AATCATA
1 AACCTTA
73868 AACCTTA
1 AACCTTA
73875 AACCTTA
1 AACCTTA
73882 AACCTTA
1 AACCTTA
73889 AA
1 AA
73891 TCATATATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (7 bp):
AACCTTA
Found at i:73939 original size:22 final size:25
Alignment explanation
Indices: 73887--73965 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 25
73877 CCTTAAACCT
*
73887 TAAATCATATATACTATATATATATATA
1 TAAA-CATATATAGT-T-TATATATATA
73915 TAAAC-TATATAGTTTATAT-TA-A
1 TAAACATATATAGTTTATATATATA
*
73937 TAAACTATATATAGTTTATACAATATA
1 TAAAC-ATATATAGTTTATA-TATATA
73964 TA
1 TA
73966 TTATTTATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
22 6 0.14
23 2 0.05
24 18 0.41
25 1 0.02
26 9 0.20
27 4 0.09
28 4 0.09
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (25 bp):
TAAACATATATAGTTTATATATATA
Found at i:74035 original size:9 final size:10
Alignment explanation
Indices: 73959--74040 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
73949 AGTTTATACA
73959 ATATAT-ATT
1 ATATATAATT
*
73968 ATTTATAATT
1 ATATATAATT
*
73978 ATACATAATAT
1 ATATATAAT-T
73989 ATAAATATAAATT
1 AT--ATAT-AATT
*
74002 GTATAGT--TT
1 ATATA-TAATT
74011 ATATATAATT
1 ATATATAATT
74021 CATATATAATTT
1 -ATATATAA-TT
74033 ATATATAA
1 ATATATAA
74041 ACTATGTAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:74038 original size:13 final size:11
Alignment explanation
Indices: 74003--74040 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
73993 ATATAAATTG
*
74003 TATAGTTTATA
1 TATAATTTATA
*
74014 TATAATTCATA
1 TATAATTTATA
74025 TATAATTTATA
1 TATAATTTATA
74036 TATAA
1 TATAA
74041 ACTATGTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:74124 original size:20 final size:20
Alignment explanation
Indices: 74084--74127 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
74074 TATATAGTAT
***
74084 TATAGTTTATACATGTTATA
1 TATAGTTTATACATAACATA
74104 TATAGTTTATACATAACATA
1 TATAGTTTATACATAACATA
74124 TATA
1 TATA
74128 TAAACTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (20 bp):
TATAGTTTATACATAACATA
Found at i:74587 original size:202 final size:206
Alignment explanation
Indices: 74238--74924 Score: 1010
Period size: 202 Copynumber: 3.3 Consensus size: 206
74228 TTGATCCCTT
* *
74238 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCACCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
74303 TTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
66 TTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
*
74368 TTTTTAAATGTGTATAATTTAGTACTTTTTTGTATTAATTTCAACCT-C-A-A-TCGATTTGATC
131 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTACAATATTCGATTTGATC
*
74429 CCCCATCAATG
196 CCTCATCAATG
*
74440 TGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * * *
74505 TTTTATTTGCATCTGAAATAT-ACCCATACTTGTTACTTATTTCTATTTTTTAATTGGCTCGTAA
66 TTTTATTTGCATCTAAAAT-TGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAA
74569 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
130 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCT-AC-------AA-TA-T
*
74634 TTGATTTGATCCCTCATCAATG
185 TCGATTTGATCCCTCATCAATG
74656 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
*
74721 TTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTTTATTTTTTAATTGGCCCATAAC
66 TTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
*
74786 -TTTTAAATGGGTATAATTTAGTATTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCT-AC-------AA-TA-TT
74850 CGATTTGATCCCTCATCAATG
186 CGATTTGATCCCTCATCAATG
* *
74871 TTTGTT-TTTAATTTATTTAATTTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
74925 ATTTTTAAAT
Statistics
Matches: 449, Mismatches: 20, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
202 167 0.37
203 1 0.00
204 1 0.00
212 1 0.00
214 48 0.11
215 89 0.20
216 142 0.32
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (206 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTACAATATTCGATTTGATC
CCTCATCAATG
Found at i:74671 original size:216 final size:215
Alignment explanation
Indices: 74418--74924 Score: 883
Period size: 216 Copynumber: 2.4 Consensus size: 215
74408 TCAACCTCAA
* *
74418 TCGATTTGATCCCCCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTCATAT
1 TCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATAT
* *
74483 TTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATAT-ACCCATACTTGTTACTTATTT
66 TTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAAT-TGACCCATACTTATTACTTATTT
* *
74547 CTATTTTTTAATTGGCTCGTAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTC
130 CTATTTTTTAATTGGCCCATAAC-TTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTC
74612 AACCTCACAATTTAAAATTATT
194 AACCTCACAATTTAAAATTATT
*
74634 TTGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATAT
1 TCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATAT
*
74699 TTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTT
66 TTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTC
*
74764 TATTTTTTAATTGGCCCATAACTTTTAAATGGGTATAATTTAGTATTTTTTTGTATTAATTTCAA
131 TATTTTTTAATTGGCCCATAACTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAA
74829 CCTCACAATTTAAAATTATT
196 CCTCACAATTTAAAATTATT
* *
74849 TCGATTTGATCCCTCATCAATGTTTGTT-TTTAATTTATTTAATTTTTTATTTGTAATTTCATAT
1 TCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATAT
74913 TTGTTCAATTTA
66 TTGTTCAATTTA
74925 ATTTTTAAAT
Statistics
Matches: 278, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
214 47 0.17
215 89 0.32
216 142 0.51
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.51
Consensus pattern (215 bp):
TCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATAT
TTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACCCATACTTATTACTTATTTC
TATTTTTTAATTGGCCCATAACTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAA
CCTCACAATTTAAAATTATT
Found at i:77746 original size:18 final size:18
Alignment explanation
Indices: 77704--77747 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
77694 AATTGATTCT
* *
77704 CCCAAACTAGTCAACAAC
1 CCCAAATTAGCCAACAAC
*
77722 CCCAAATTAGCCAACAGC
1 CCCAAATTAGCCAACAAC
77740 CCCAAATT
1 CCCAAATT
77748 GGTTCATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.39, G:0.07, T:0.14
Consensus pattern (18 bp):
CCCAAATTAGCCAACAAC
Found at i:78207 original size:25 final size:23
Alignment explanation
Indices: 78175--78239 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
78165 TTTAAGAATA
78175 TGCGTGTATGTATATATGTATTATG
1 TGCGTGTATGTATATAT-T-TTATG
*
78200 TGCGTGTATATGCATATATTTTATG
1 TGCGTG--TATGTATATATTTTATG
* *
78225 TGTGTGTATATATAT
1 TGCGTGTATGTATAT
78240 TATAGTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 7 0.21
25 16 0.47
26 1 0.03
27 10 0.29
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.49
Consensus pattern (23 bp):
TGCGTGTATGTATATATTTTATG
Found at i:85039 original size:45 final size:45
Alignment explanation
Indices: 84983--85088 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 45
84973 TGCACCAATC
*
84983 CATGCATCGATGCAC-CATGAATTAAATTG-AACATGGAATGCATTT
1 CATGCATCGATGCACTCA-GAATTAAA-TGAAACATCGAATGCATTT
* **
85028 CATGCATCGATGCACTGAGAATTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGAATTAAATG-AAACATCGAATGCATTT
*
85074 GATGCATCGATGCAC
1 CATGCATCGATGCAC
85089 AAGCCATGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 2 0.04
45 21 0.40
46 30 0.57
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGCATCGATGCACTCAGAATTAAATGAAACATCGAATGCATTT
Found at i:93137 original size:2 final size:2
Alignment explanation
Indices: 93130--93174 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
93120 CAGCTTAAGC
*
93130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93172 TA T
1 TA T
93175 TTAATCAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:95773 original size:2 final size:2
Alignment explanation
Indices: 95768--95792 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95758 TCTAAATTGT
95768 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 T
95793 GAAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99964 original size:2 final size:2
Alignment explanation
Indices: 99957--99996 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
99947 GTGTCAATTA
99957 AT 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 AT
99997 CCTTAGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.