Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008794.1 Hibiscus syriacus cultivar Beakdansim tig00111938_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: 88206
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2404 original size:18 final size:18
Alignment explanation
Indices: 2362--2407 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
2352 TAGTTTGATT
*
2362 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
2380 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
2398 AATGAACTAA
1 AATGAACTAA
2408 ATGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:3343 original size:17 final size:16
Alignment explanation
Indices: 3321--3354 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3311 TAAAAACAGT
3321 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
3338 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
3354 A
1 A
3355 TCATCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:3869 original size:23 final size:23
Alignment explanation
Indices: 3826--3871 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3816 ATAAAGAACC
*
3826 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
3849 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
3872 CACCAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:6854 original size:19 final size:20
Alignment explanation
Indices: 6827--6869 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6817 GAGAAAATGT
* *
6827 AAAAGTTAA-AATGAAAGAG
1 AAAAATTAATAATGAAAGAC
6846 AAAAATTAATAATGAAAGAC
1 AAAAATTAATAATGAAAGAC
6866 AAAA
1 AAAA
6870 GAAAAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.16
Consensus pattern (20 bp):
AAAAATTAATAATGAAAGAC
Found at i:13757 original size:24 final size:24
Alignment explanation
Indices: 13713--13759 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13703 ATAAAGAACC
*
13713 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
13737 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
13760 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:15210 original size:19 final size:19
Alignment explanation
Indices: 15159--15215 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
15149 AATGCGCTCA
15159 TTTTC-ACTCTCAATTCTG
1 TTTTCAACTCTCAATTCTG
15177 TTTTCAATGCTCTCAATGTCT-
1 TTTTCAA--CTCTCAAT-TCTG
*
15198 TTTTCAACTCTCATTTCT
1 TTTTCAACTCTCAATTCT
15216 TCTTCTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
21 15 0.44
22 3 0.09
ACGTcount: A:0.18, C:0.26, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTCAACTCTCAATTCTG
Found at i:17619 original size:18 final size:18
Alignment explanation
Indices: 17577--17622 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
17567 TAGTTTGATT
*
17577 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
17595 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
17613 AATGAACTAA
1 AATGAACTAA
17623 ATGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:17698 original size:17 final size:17
Alignment explanation
Indices: 17678--17719 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
17668 ACTACTTGCC
17678 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
17695 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
17712 TTAATGAA
1 TAAATGAA
17720 CAACATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:22205 original size:21 final size:21
Alignment explanation
Indices: 22181--22233 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
22171 GTAGATTAAT
* *
22181 TACCTTAGTAAGTAGACGAAG
1 TACCTTGGTAAATAGACGAAG
*
22202 TACCTTGGTAAATAGGCGAAG
1 TACCTTGGTAAATAGACGAAG
22223 TACCTTGGTAA
1 TACCTTGGTAA
22234 TTGTCTCTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (21 bp):
TACCTTGGTAAATAGACGAAG
Found at i:22625 original size:29 final size:29
Alignment explanation
Indices: 22583--22646 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
22573 GGTTAGTGCC
22583 CAAATTGTAAGATTTTAATATTTCGTGAT
1 CAAATTGTAAGATTTTAATATTTCGTGAT
22612 CAAATTGTAAGATTTTAATATTTCGTGAT
1 CAAATTGTAAGATTTTAATATTTCGTGAT
22641 CAAATT
1 CAAATT
22647 AGATAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (29 bp):
CAAATTGTAAGATTTTAATATTTCGTGAT
Found at i:24087 original size:44 final size:44
Alignment explanation
Indices: 23996--24091 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
23986 ATGAAAACAA
* * * *
23996 GATATAAGCTATGTGATATGATCTACGTGATTACATGAGCATGT
1 GATATAAGCCATGTGACATGACCTACGTGATTACATGAGCATAT
* *
24040 GATATAAGCCATGTGACATGACCTACGTGATTACTTG-TCTATAT
1 GATATAAGCCATGTGACATGACCTACGTGATTACATGAGC-ATAT
24084 GATATAAG
1 GATATAAG
24092 ATACAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.02
44 44 0.98
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (44 bp):
GATATAAGCCATGTGACATGACCTACGTGATTACATGAGCATAT
Found at i:24252 original size:23 final size:22
Alignment explanation
Indices: 24175--24235 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
24165 GAGTCTAGGG
*
24175 TTCTACGTGGTCCTTCGGGACA
1 TTCTACGTGGTCCTTTGGGACA
24197 TTCTACGTGGTCCTTTGGGACAA
1 TTCTACGTGGTCCTTTGGGAC-A
* *
24220 TACTATGTGGTCCTTT
1 TTCTACGTGGTCCTTT
24236 AGGATATTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (22 bp):
TTCTACGTGGTCCTTTGGGACA
Found at i:24276 original size:24 final size:24
Alignment explanation
Indices: 24241--24297 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
24231 CCTTTAGGAT
* *
24241 ATTTCTATGTGGCACCTCGGTGTA
1 ATTTCTACGTGGCACCTCGATGTA
*
24265 ATTTCTACGTGGCACTTCGATGTA
1 ATTTCTACGTGGCACCTCGATGTA
*
24289 ATTTATACG
1 ATTTCTACG
24298 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (24 bp):
ATTTCTACGTGGCACCTCGATGTA
Found at i:24447 original size:31 final size:31
Alignment explanation
Indices: 24412--24472 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
24402 CATAACGGGA
*
24412 TATGTCATTATTGGTTAAATACATGATGATG
1 TATGTCATTATTGATTAAATACATGATGATG
* * * *
24443 TATGTTATTGTTGATTAGATATATGATGAT
1 TATGTCATTATTGATTAAATACATGATGAT
24473 TCCTATACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (31 bp):
TATGTCATTATTGATTAAATACATGATGATG
Found at i:28417 original size:19 final size:19
Alignment explanation
Indices: 28368--28417 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
28358 ATATACATTT
* *
28368 TATGAACAGTAAAATATGG
1 TATGAACAGTACAATATGA
* *
28387 TATGAATAGTACTATATGA
1 TATGAACAGTACAATATGA
28406 TATGAACAGTAC
1 TATGAACAGTAC
28418 CATGAACAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (19 bp):
TATGAACAGTACAATATGA
Found at i:29251 original size:21 final size:20
Alignment explanation
Indices: 29200--29252 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
29190 AGGTGTCTCA
* *
29200 AAAGACCTCATACATGTTCC
1 AAAGACCACATACATGTACC
** *
29220 AAAGAATACATATATGTACC
1 AAAGACCACATACATGTACC
29240 GAAAGACCACATA
1 -AAAGACCACATA
29253 GAATTTATCC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (20 bp):
AAAGACCACATACATGTACC
Found at i:35428 original size:19 final size:20
Alignment explanation
Indices: 35404--35450 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
35394 ATACATTTTG
35404 TGAACAGTAA-AATACGGTA
1 TGAACAGTAACAATACGGTA
*
35423 TGAACAG-AACTATACGGTA
1 TGAACAGTAACAATACGGTA
35442 TGAACAGTA
1 TGAACAGTA
35451 CCATGAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 22 0.88
20 1 0.04
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
TGAACAGTAACAATACGGTA
Found at i:35549 original size:11 final size:11
Alignment explanation
Indices: 35533--35597 Score: 78
Period size: 11 Copynumber: 5.9 Consensus size: 11
35523 GATTCCCCTA
35533 CTACAGTACTG
1 CTACAGTACTG
*
35544 CTACAGTATTG
1 CTACAGTACTG
35555 -TATCAGTACTG
1 CTA-CAGTACTG
*
35566 TTACAGTACTG
1 CTACAGTACTG
* *
35577 ATACAATACTG
1 CTACAGTACTG
35588 CTACAGTACT
1 CTACAGTACT
35598 TCCGTAAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
10 2 0.04
11 42 0.91
12 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (11 bp):
CTACAGTACTG
Found at i:36152 original size:25 final size:24
Alignment explanation
Indices: 36124--36181 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
36114 CACCACATCT
*
36124 CGTATAAATTTG-CACCGAAGTACCA
1 CGTA-AAATTTGTC-CCGAAGGACCA
*
36149 CGTAGAATTTGTCCCGAAGGACCA
1 CGTAAAATTTGTCCCGAAGGACCA
36173 CGTAGAAAT
1 CGTA-AAAT
36182 GCACCGTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (24 bp):
CGTAAAATTTGTCCCGAAGGACCA
Found at i:36157 original size:24 final size:24
Alignment explanation
Indices: 36130--36187 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
36120 ATCTCGTATA
*
36130 AATTTGCACCGAAGTACCACGTAG
1 AATTTGCACCGAAGGACCACGTAG
36154 AATTTGTC-CCGAAGGACCACGTAG
1 AATTTG-CACCGAAGGACCACGTAG
*
36178 AA-ATGCACCG
1 AATTTGCACCG
36188 TAGTGCCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 1 0.03
23 5 0.17
24 23 0.77
25 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (24 bp):
AATTTGCACCGAAGGACCACGTAG
Found at i:47310 original size:15 final size:17
Alignment explanation
Indices: 47290--47333 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
47280 GTATTAATAA
47290 ATTAAAATTTTAA-T-T
1 ATTAAAATTTTAATTCT
*
47305 ATTAAAATATTAATTCT
1 ATTAAAATTTTAATTCT
47322 ATATAAAATTTT
1 AT-TAAAATTTT
47334 TAATGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 1 0.04
17 3 0.12
18 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAAATTTTAATTCT
Found at i:48109 original size:24 final size:24
Alignment explanation
Indices: 48077--48160 Score: 77
Period size: 23 Copynumber: 3.6 Consensus size: 24
48067 TAATATTATG
*
48077 AAATTATATTTATTTATATT-TTTA
1 AAATAATATTTATTTAT-TTATTTA
* *
48101 AAATCATA-TTGTTTATTTATTTA
1 AAATAATATTTATTTATTTATTTA
* *
48124 AAATAATA-TTAATTATTTATTTT
1 AAATAATATTTATTTATTTATTTA
*
48147 ACATAATA-TTATTT
1 AAATAATATTTATTT
48161 TTAAATTATC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
22 2 0.04
23 42 0.82
24 7 0.14
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (24 bp):
AAATAATATTTATTTATTTATTTA
Found at i:48285 original size:16 final size:16
Alignment explanation
Indices: 48261--48317 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
48251 TAATTTACTC
*
48261 TAAACTTAAAATTATT
1 TAAAATTAAAATTATT
48277 TAAAATTAAATATATAATT
1 TAAAATTAAA-AT-T-ATT
* *
48296 TAAAAATAATATTATT
1 TAAAATTAAAATTATT
*
48312 TCAAAT
1 TAAAAT
48318 AAATAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 16 0.48
17 3 0.09
18 3 0.09
19 11 0.33
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATTAAAATTATT
Found at i:48323 original size:19 final size:18
Alignment explanation
Indices: 48271--48324 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
48261 TAAACTTAAA
48271 ATTATTTAAAATTAAAT-AT
1 ATTATTT-AAA-TAAATAAT
*
48290 ATAATTT-AA-AAATAAT
1 ATTATTTAAATAAATAAT
48306 ATTATTTCAAATAAATAAT
1 ATTATTT-AAATAAATAAT
48325 TAATTCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.14
16 8 0.28
17 2 0.07
18 2 0.07
19 13 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTATTTAAATAAATAAT
Found at i:48379 original size:24 final size:25
Alignment explanation
Indices: 48352--48409 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
48342 TAAATAAATA
48352 TTTTTATAA-TATTAT-AAATATACT
1 TTTTTATAATTATT-TCAAATATACT
* *
48376 TTTTTATAATTATTTCATATATATT
1 TTTTTATAATTATTTCAAATATACT
48401 TTTTTATAA
1 TTTTTATAA
48410 AAACATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTTATAATTATTTCAAATATACT
Found at i:48432 original size:31 final size:31
Alignment explanation
Indices: 48397--48472 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
48387 ATTTCATATA
**
48397 TATTTTTTTATAAAAACATATAAATTATTTT
1 TATTTTTAAATAAAAACATATAAATTATTTT
48428 TATTTTTAAATAAAAACATATAAATTATTTT
1 TATTTTTAAATAAAAACATATAAATTATTTT
48459 TATTTTTAAATAAA
1 TATTTTTAAATAAA
48473 GTGAAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
TATTTTTAAATAAAAACATATAAATTATTTT
Found at i:49474 original size:12 final size:11
Alignment explanation
Indices: 49454--49491 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
49444 AAAATGTTTT
49454 TTAAAAAAATA
1 TTAAAAAAATA
*
49465 TTAAATAAA-A
1 TTAAAAAAATA
49475 TTAGAAAAAATA
1 TTA-AAAAAATA
49487 TTAAA
1 TTAAA
49492 TATTTAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.17
11 15 0.65
12 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:50748 original size:14 final size:13
Alignment explanation
Indices: 50701--50751 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
50691 ATAGACTTGA
*
50701 AAAAAATAAAAAT
1 AAAAAATAAATAT
50714 -AAAAAT-AA-AT
1 AAAAAATAAATAT
*
50724 AAATAATAAATAT
1 AAAAAATAAATAT
50737 AAAAAATGAAATAT
1 AAAAAAT-AAATAT
50751 A
1 A
50752 TAACTATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 2 0.06
11 7 0.22
12 8 0.25
13 8 0.25
14 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAAAATAAATAT
Found at i:50877 original size:34 final size:36
Alignment explanation
Indices: 50806--50914 Score: 134
Period size: 35 Copynumber: 3.0 Consensus size: 36
50796 AAATATAACG
* *
50806 TTTTCAAAAACAATT-TCCAAACTATATATTATATATA
1 TTTTCAAAAAC-GTTGTCAAAACTATAT-TTATATATA
50843 TTTTC-AAAACGTTGT-AAAACTATATTTATATATA
1 TTTTCAAAAACGTTGTCAAAACTATATTTATATATA
* *
50877 TTTTCAAAAATGTTTTCAAAACTATATTATATATATA
1 TTTTCAAAAACGTTGTCAAAACTATATT-TATATATA
50914 T
1 T
50915 ATATTATATA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
34 14 0.22
35 19 0.30
36 17 0.27
37 14 0.22
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTTCAAAAACGTTGTCAAAACTATATTTATATATA
Found at i:50919 original size:15 final size:15
Alignment explanation
Indices: 50899--50927 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50889 TTTTCAAAAC
50899 TATATTATATATATA
1 TATATTATATATATA
50914 TATATTATATATAT
1 TATATTATATATAT
50928 TCAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATATATATA
Found at i:51043 original size:2 final size:2
Alignment explanation
Indices: 51036--51088 Score: 90
Period size: 2 Copynumber: 26.5 Consensus size: 2
51026 ATATTTGGAA
51036 AT 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 AT
51078 -T AT ACT AT AT A
1 AT AT A-T AT AT A
51089 ATAATACAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 46 0.94
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60002 original size:4 final size:4
Alignment explanation
Indices: 59995--60035 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
59985 AAAAAAAGAA
*
59995 AAAT AAAT AAAT --AT AAAT AAAT AAAT AAAT GAAAT ATAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AA
60036 CTATATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.06
4 26 0.81
5 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:60014 original size:14 final size:14
Alignment explanation
Indices: 59995--60021 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59985 AAAAAAAGAA
59995 AAATAAATAAATAT
1 AAATAAATAAATAT
60009 AAATAAATAAATA
1 AAATAAATAAATA
60022 AATGAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAAATAAATAT
Found at i:60230 original size:110 final size:108
Alignment explanation
Indices: 60105--60403 Score: 414
Period size: 110 Copynumber: 2.8 Consensus size: 108
60095 ACGATTTCCA
*
60105 AAAACTATATATTATATATATTTTCAAAACGTTTT-AAAACTATATATTATATATATTTTCAAAA
1 AAAACTATATATTATATATATTTTCAAAATGTTTTCAAAACTATATATTATATATA-TTTC-AAA
* *
60169 AT-GTTTTCAAAGCTATATATTATATATATTTTCAAAAAGTGTTTTC
64 ATCGTTTTCAAAACTATATATTATATATATTTTC-AAAA-TGTTCTC
*
60215 AAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAATTATATA-T-TATATATTTCAAAA
1 AAAACTATATATTATATATATTTTC-AAAATGTTTTCAAAACTATATATTATATATATTTCAAAA
60278 TCCGTTTTCAAAACTATATATTATATATATTTTCAAAATGTTCTC
65 T-CGTTTTCAAAACTATATATTATATATATTTTCAAAATGTTCTC
* *
60323 AAAACTATATATTATATTTATTTT-AAAATATTTTCAAAACTATATA-T-TATATATTTCAAAAT
1 AAAACTATATATTATATATATTTTCAAAATGTTTTCAAAACTATATATTATATATATTTCAAAAT
* *
60385 CCATTTTAAAAACTATATA
66 -CGTTTTCAAAACTATATA
60404 CGCTTTCAAA
Statistics
Matches: 176, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
106 53 0.30
108 34 0.19
109 8 0.05
110 61 0.35
111 10 0.06
112 10 0.06
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (108 bp):
AAAACTATATATTATATATATTTTCAAAATGTTTTCAAAACTATATATTATATATATTTCAAAAT
CGTTTTCAAAACTATATATTATATATATTTTCAAAATGTTCTC
Found at i:60403 original size:35 final size:36
Alignment explanation
Indices: 60105--60376 Score: 401
Period size: 35 Copynumber: 7.5 Consensus size: 36
60095 ACGATTTCCA
*
60105 AAAACTATATATTATATATATTTTCAAAACGTTTT-
1 AAAACTATATATTATATATATTTTCAAAATGTTTTC
60140 AAAACTATATATTATATATATTTTCAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTC-AAAATGTTTTC
*
60177 AAAGCTATATATTATATATATTTTCAAAAAGTGTTTTC
1 AAAACTATATATTATATATATTTTC-AAAA-TGTTTTC
60215 AAAACTATATATTATATATATTTTCAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTC-AAAATGTTTTC
*
60252 AAAATTATATA-T-TATATA-TTTCAAAATCCGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAT--GTTTTC
*
60287 AAAACTATATATTATATATATTTTCAAAATGTTCTC
1 AAAACTATATATTATATATATTTTCAAAATGTTTTC
* *
60323 AAAACTATATATTATATTTATTTT-AAAATATTTTC
1 AAAACTATATATTATATATATTTTCAAAATGTTTTC
60358 AAAACTATATATTATATAT
1 AAAACTATATATTATATAT
60377 TTCAAAATCC
Statistics
Matches: 219, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
33 5 0.02
34 4 0.02
35 74 0.34
36 39 0.18
37 52 0.24
38 45 0.21
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (36 bp):
AAAACTATATATTATATATATTTTCAAAATGTTTTC
Found at i:60439 original size:106 final size:102
Alignment explanation
Indices: 60198--60441 Score: 287
Period size: 106 Copynumber: 2.3 Consensus size: 102
60188 TTATATATAT
* * *
60198 TTTCAAAAAGTGTTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAATTATATA
1 TTTCAAAAAATGTTTTCAAAACTATATATTATATATATTTT-AAAAATATTTTCAAAACTATATA
* * **
60263 TTATATATTTCAAAATCCGTTTTCAAAACTATATATTA
65 TTATATATTTCAAAATCCATTTTAAAAACTATATACGA
* * *
60301 TATAT-ATTTTCAAAATGTTCTCAAAACTATATATTATATTTATTTT-AAAATATTTTCAAAACT
1 T-T-TCA----AAAAATGTTTTCAAAACTATATATTATATATATTTTAAAAATATTTTCAAAACT
*
60364 ATATATTATATATTTCAAAATCCATTTTAAAAACTATATACGC
60 ATATATTATATATTTCAAAATCCATTTTAAAAACTATATACGA
*
60407 TTTCAAAAATATGTTTTCAAAAC-ATATAATATATA
1 TTTCAAAAA-ATGTTTTCAAAACTATATATTATATA
60442 CTTTCAAAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
101 13 0.11
102 12 0.10
103 1 0.01
104 3 0.03
105 3 0.03
106 54 0.46
108 32 0.27
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (102 bp):
TTTCAAAAAATGTTTTCAAAACTATATATTATATATATTTTAAAAATATTTTCAAAACTATATAT
TATATATTTCAAAATCCATTTTAAAAACTATATACGA
Found at i:61907 original size:2 final size:2
Alignment explanation
Indices: 61902--61930 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
61892 TCTATCTATC
61902 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61931 GTTTGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62004 original size:36 final size:36
Alignment explanation
Indices: 61915--62326 Score: 345
Period size: 36 Copynumber: 11.4 Consensus size: 36
61905 ATATATATAT
* * *** *
61915 ATATATATATTATATAGTTTGTAAATGGTTTTCGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTT-TAAA
*
61952 ATACGTATATAGTATATAGTTTTTAAAACATTTTTAAA
1 ATA--TATATAATATATAGTTTTTAAAACATTTTTAAA
*
61990 ATATATATATTATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTT-AAA
* **
62027 AT-TATGTAATATATAGTTTTTAAAA-AAATTTAGAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTA-AA
62062 A-ATATATAATATATAGTTTTTTGAAAACATTTTTTAAA
1 ATATATATAATATATAG-TTTTT-AAAACA-TTTTTAAA
* * * *
62100 A-ACATATATTATATAATTTTGAAAA-A-TTTTAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTAAA
62133 ATATATATAATATATAGTTTTTGAAAACATTTTTAAA
1 ATATATATAATATATAGTTTTT-AAAACATTTTTAAA
62170 ATATATATAATATA-AGTTTTTGAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTT-AAAACATTTTT-AAA
* * * * *
62207 ACATATATATTACATGGTTTTGAAAACA--TTT---
1 ATATATATAATATATAGTTTTTAAAACATTTTTAAA
*
62238 ATATAT-T-ATAT-T-GTTTTTAAAACCTTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTT-AAA
* *
62271 ACTTATATATAATATATAG-TTTAAAAATCATTTTGAAA
1 A--TATATATAATATATAGTTTTTAAAA-CATTTTTAAA
62309 TATATATATATATATATA
1 -ATATATATA-ATATATA
62327 TACATAGTTT
Statistics
Matches: 310, Mismatches: 35, Indels: 59
0.77 0.09 0.15
Matches are distributed among these distances:
27 10 0.03
28 1 0.00
29 5 0.02
30 1 0.00
31 5 0.02
33 9 0.03
34 17 0.05
35 33 0.11
36 80 0.26
37 69 0.22
38 45 0.15
39 35 0.11
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTAAA
Found at i:62079 original size:107 final size:109
Alignment explanation
Indices: 61957--62237 Score: 362
Period size: 107 Copynumber: 2.6 Consensus size: 109
61947 CGAAAATACG
* *
61957 TATATAGTATATAGTTTTT-AAAACATTTTTAAAATATATATATTATATAGTTTTTAAAACATTT
1 TATATAATATATAGTTTTTGAAAACATTTTTAAAA-ATATATATTATATAGTTTTGAAAACATTT
*
62021 TTGAAAAT-TATGTAATATATAGTTTTT-AAAA-AAATTTAGAAA-A
65 TT-AAAATATATATAATATATAGTTTTTGAAAACAAATTTA-AAATA
* *
62064 TATATAATATATAGTTTTTTGAAAACATTTTTTAAAAACATATATTATATAATTTTGAAAA-A-T
1 TATATAATATATAG-TTTTTGAAAACA-TTTTTAAAAATATATATTATATAGTTTTGAAAACATT
**
62127 TTTAAAATATATATAATATATAGTTTTTGAAAACATTTTTAAAATA
64 TTTAAAATATATATAATATATAGTTTTTGAAAACAAATTTAAAATA
* *
62173 TATATAATATA-AGTTTTTGAAAACATTTTTGAAAACATATATATTACATGGTTTTGAAAACATT
1 TATATAATATATAGTTTTTGAAAACATTTTT-AAAA-ATATATATTATATAGTTTTGAAAACATT
62237 T
64 T
62238 ATATATTATA
Statistics
Matches: 152, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
106 10 0.07
107 51 0.34
108 35 0.23
109 45 0.30
110 11 0.07
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (109 bp):
TATATAATATATAGTTTTTGAAAACATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTT
TAAAATATATATAATATATAGTTTTTGAAAACAAATTTAAAATA
Found at i:62203 original size:12 final size:12
Alignment explanation
Indices: 62186--62210 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62176 ATAATATAAG
62186 TTTTTGAAAACA
1 TTTTTGAAAACA
62198 TTTTTGAAAACA
1 TTTTTGAAAACA
62210 T
1 T
62211 ATATATTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:62227 original size:25 final size:26
Alignment explanation
Indices: 62199--62260 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
62189 TTGAAAACAT
62199 TTTTGAAAACA-TATATATTACATGG
1 TTTTGAAAACATTATATATTACATGG
* *
62224 TTTTGAAAACATTTATATATTATATTG
1 TTTTGAAAACA-TTATATATTACATGG
*
62251 TTTTTAAAAC
1 TTTTGAAAAC
62261 CTTTTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 11 0.34
27 21 0.66
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (26 bp):
TTTTGAAAACATTATATATTACATGG
Found at i:62314 original size:101 final size:100
Alignment explanation
Indices: 62136--62319 Score: 239
Period size: 103 Copynumber: 1.8 Consensus size: 100
62126 TTTTAAAATA
*
62136 TATATAATATATAGTTTTTGAAAACATTTTTAAAATATATATAATATAAGTTTTTGAAAACATTT
1 TATATAATATATAGTTTTTGAAAACATTTTTAAAATATATATAATATAAG-TTTTAAAAACATTT
62201 TTGAAAACATATATATTACATGGTTTTGAAAACATT
65 TTGAAAACATATATATTACATGGTTTTGAAAACATT
* * *
62237 TATATATTATATTGTTTTT-AAAACCTTTTTGAAAACTTATATATAATATATAG-TTTAAAAATC
1 TATATAATATATAGTTTTTGAAAACATTTTT-AAAA--TATATATAATATA-AGTTTTAAAAA-C
*
62300 A-TTTTGAAATATATATATAT
61 ATTTTTGAAA-ACATATATAT
62320 ATATATATAC
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
100 10 0.14
101 21 0.29
102 15 0.21
103 24 0.33
104 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (100 bp):
TATATAATATATAGTTTTTGAAAACATTTTTAAAATATATATAATATAAGTTTTAAAAACATTTT
TGAAAACATATATATTACATGGTTTTGAAAACATT
Found at i:62351 original size:3 final size:3
Alignment explanation
Indices: 62339--62380 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
62329 CATAGTTTAC
62339 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
62381 TATTTTTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:62392 original size:10 final size:11
Alignment explanation
Indices: 62340--62395 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
62330 ATAGTTTACA
62340 TTATATTATTA-
1 TTAT-TTATTAT
62351 TTA-TTATTA-
1 TTATTTATTAT
62360 TTA-TTATTA-
1 TTATTTATTAT
62369 TTATTTATTAT
1 TTATTTATTAT
*
62380 TTATTT-TTGT
1 TTATTTATTAT
62390 TTATTT
1 TTATTT
62396 GTTTATCACA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
9 18 0.43
10 15 0.36
11 9 0.21
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:63246 original size:5 final size:5
Alignment explanation
Indices: 63236--63336 Score: 57
Period size: 5 Copynumber: 19.4 Consensus size: 5
63226 CTCTAAGTTG
* *
63236 TTATT TTATT TTATT TTGAATT TT-TT TTCTT TCATATT TT-CT TTATT
1 TTATT TTATT TTATT TT--ATT TTATT TTATT T--TATT TTATT TTATT
* * *
63283 TCATT GTT-TT TTAAAAT TTATT TAATT ATT-TT TTATT TTATT TTATT
1 TTATT -TTATT TT--ATT TTATT TTATT -TTATT TTATT TTATT TTATT
63330 TTATT TT
1 TTATT TT
63337 TCTTCTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
4 11 0.15
5 50 0.67
6 2 0.03
7 12 0.16
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:63376 original size:74 final size:76
Alignment explanation
Indices: 63236--63378 Score: 186
Period size: 79 Copynumber: 1.9 Consensus size: 76
63226 CTCTAAGTTG
*
63236 TTATTTTATTTTATTTTGAATTTTTTTTCTTTCATATTTTCTTTATTTCATTGTTTTTTAAAATT
1 TTATTTTATTTTATTTT-AATTTTTCTTCTTTCATATTTTCTTTATTTCATTGTTTTTT--AATT
63301 TATTTAATTATTTT
63 TATTTAATTATTTT
**
63315 TTATTTTATTTTATTTT-ATTTTTCTTCTTTTTTCATTTTCTTTGATTTC-TT-TTTTTT-ATTT
1 TTATTTTATTTTATTTTAATTTTTCTTCTTTCAT-ATTTTCTTT-ATTTCATTGTTTTTTAATTT
63376 ATT
64 ATT
63379 ATATTTTTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
74 7 0.12
77 19 0.32
78 11 0.19
79 22 0.37
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (76 bp):
TTATTTTATTTTATTTTAATTTTTCTTCTTTCATATTTTCTTTATTTCATTGTTTTTTAATTTAT
TTAATTATTTT
Found at i:63384 original size:22 final size:22
Alignment explanation
Indices: 63299--63384 Score: 52
Period size: 24 Copynumber: 3.7 Consensus size: 22
63289 TTTTTTAAAA
* *
63299 TTTATTTAAT-TATTT-TTTAT
1 TTTATTTATTATATTTCTTTTT
*
63319 TTTATTTTATTTTATTTTTCTTCTTT
1 TTTA-TTTA--TTATATTTCTT-TTT
*
63345 TTTCATTT-TCTTTGATTTCTTTTT
1 TTT-ATTTAT-TAT-ATTTCTTTTT
63369 TTTATTTATTATATTT
1 TTTATTTATTATATTT
63385 TTTCCTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
20 4 0.08
21 4 0.08
22 4 0.08
23 8 0.16
24 13 0.26
25 8 0.16
26 8 0.16
27 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (22 bp):
TTTATTTATTATATTTCTTTTT
Found at i:63413 original size:15 final size:16
Alignment explanation
Indices: 63395--63429 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
63385 TTTCCTTTGA
63395 CTTTTTCTT-TCTTTT
1 CTTTTTCTTATCTTTT
*
63410 CTTTTTCTTATTTTTT
1 CTTTTTCTTATCTTTT
63426 CTTT
1 CTTT
63430 ATTTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTCTTATCTTTT
Found at i:63469 original size:14 final size:14
Alignment explanation
Indices: 63447--63495 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
63437 AATTAATTAA
63447 TTATTTA-TTTATT
1 TTATTTATTTTATT
63460 TTATTTTATTTT-TT
1 TTA-TTTATTTTATT
*
63474 TGATTTATTTTCATT
1 TTATTTATTTT-ATT
63489 TT-TTTAT
1 TTATTTAT
63496 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 11 0.37
14 13 0.43
15 6 0.20
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (14 bp):
TTATTTATTTTATT
Found at i:66264 original size:94 final size:94
Alignment explanation
Indices: 66150--66333 Score: 273
Period size: 95 Copynumber: 2.0 Consensus size: 94
66140 ATTATAATTA
* *
66150 TATATATACAATAAACCTTGAGTTGTCCCTCT-AGAGTAATTGGTT-AACGCCCCAGCTTTACGG
1 TATATATACAATAAACCTTGAGCTGTCCCTCTAAGA-CAATTGGTTAAACGCCCCAGCTTTACGG
* * *
66213 ATAATATTCAGCTAGCCTGTTAAAGGCGAT
65 ATAAGATTCAGCTAACCTGATAAAGGCGAT
* *
66243 TATACTATACAATAAAGCTTGAGCTGTCCCTCTAAGACAATTGGTTAAACGCCCCAGCTTTATGG
1 TATA-TATACAATAAACCTTGAGCTGTCCCTCTAAGACAATTGGTTAAACGCCCCAGCTTTACGG
66308 ATAAGATTCAGCTAACCTGATAAAGG
65 ATAAGATTCAGCTAACCTGATAAAGG
66334 TGTTTACATA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
93 4 0.05
94 34 0.42
95 43 0.53
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (94 bp):
TATATATACAATAAACCTTGAGCTGTCCCTCTAAGACAATTGGTTAAACGCCCCAGCTTTACGGA
TAAGATTCAGCTAACCTGATAAAGGCGAT
Found at i:67672 original size:84 final size:84
Alignment explanation
Indices: 67526--68798 Score: 1356
Period size: 84 Copynumber: 15.2 Consensus size: 84
67516 TTCTTTATTT
* * * *
67526 ATTTGCAGCATAACTCAAGGCTAGAAGAGTTATCTG--AAGACAAAGACCTTTGAGTTCGATTAC
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAA-CCAAAGACCTTCGAGTTCGATTAC
67589 ACTCAGCTCAAAGGCACATC
65 ACTCAGCTCAAAGGCACATC
* * * * * * ** *
67609 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTACCAACCAAAGACCTTTAAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
* *
67674 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCAAAGGCACATC
* *
67694 ATTTGCAGCATAACTCAAGCCTAGAAGGGTTATCTGCCAA-CAAA-ACCTTC-ACGTTCGACTAC
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGA-GTTCGATTAC
*
67756 GCTCAGCTCAAAGGCACATC
65 ACTCAGCTCAAAGGCACATC
* * * * *
67776 ATTTACAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
* *
67841 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCAAAGGCACATC
* * * * *
67861 ATTTGCATCATAACTCAGAG-CTATAAGGGTTATCTGCCAA-CAAAGACCTTCGATTTTGACTAC
1 ATTTGCAGCATAACTCA-AGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* *
67924 GCTCAGCTCAAAGGCACATT
65 ACTCAGCTCAAAGGCACATC
* * * ** * * *
67944 ATTTGTAGCATAACTTAAGTCGAGAAAAGCTATCTGCCAACCAATGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
****
68009 CTCAGCTTTGGGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * *
68028 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAAACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
68092 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * * *
68111 ATTTGTAGTATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
***
68176 CTCAGCTTCGGGGGCACATC
66 CTCAGC-TCAAAGGCACATC
* * * * * * *
68196 ATTTGTAACAAAACTCAAGGCTAGAAGGGTTATCTACCAA-CAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
68260 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * * * * * * * * *
68279 ATTTGTAGCATAGCTTAAGTCGATAAGGGCTATCTGCCTACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
* *
68344 CTCAGCTCCAAGGCATATC
66 CTCAGCTCAAAGGCACATC
** * * **
68363 ATTTGCAGCATAACTCAAGGATAGAAGGGTTATCTTCCAACCAAAGGCCTTCGAGTTCGATTATG
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
68428 CTCAGCTCAAAGGCACATC
66 CTCAGCTCAAAGGCACATC
* * *
68447 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
* *
68512 CTCAGCTTTAAGGGCACATC
66 CTCAGC-TCAAAGGCACATC
* * * *
68532 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGATCTTTGAGTTCAATTACA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
* *
68596 CTCAACTCAATGGCACATC
66 CTCAGCTCAAAGGCACATC
* *
68615 ATTTG-AG-ATATAGCTCAAGGCTAGAA-GGTTATCTG----CCAAAGACCCTCGAGTTCGATTA
1 ATTTGCAGCATA-A-CTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTA
* * * *
68673 CACTCATCTTTTAATGGCATATC
64 CACTCAGC--TCAAAGGCACATC
* * *
68696 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
* * *
68761 CTCAGCTCCAAGGAATATC
66 CTCAGCTCAAAGGCACATC
* * *
68780 ATTTACAGTATAGCTCAAG
1 ATTTGCAGCATAACTCAAG
68799 GCAATAAGGG
Statistics
Matches: 984, Mismatches: 179, Indels: 53
0.81 0.15 0.04
Matches are distributed among these distances:
79 25 0.03
81 32 0.03
82 72 0.07
83 229 0.23
84 420 0.43
85 177 0.18
86 29 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCACATC
Found at i:68006 original size:168 final size:168
Alignment explanation
Indices: 67526--68812 Score: 1707
Period size: 168 Copynumber: 7.7 Consensus size: 168
67516 TTCTTTATTT
* * * * *
67526 ATTTGCAGCATAACTCAAGGCTAGAAGAGTTATCTG-AAGACAAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGACTACG
* *
67590 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTACCAACCAAAG
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAG
** *
67655 ACCTTTAAGTTTGATTACACTCAGCTTCGAGGGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
*
67694 ATTTGCAGCATAACTCAAGCCTAGAAGGGTTATCTGCCAACAAA-ACCTTC-ACGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGA-GTTCGACTACG
* * *
67757 CTCAGCTCAAAGGCACATCATTTACAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAG
67822 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * *
67861 ATTTGCATCATAACTC-AGAGCTATAAGGGTTATCTGCCAACAAAGACCTTCGATTTTGACTACG
1 ATTTGCAGCATAACTCAAG-GCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
* * * ** *
67925 CTCAGCTCAAAGGCACATTATTTGTAGCATAACTTAAGTCGAGAAAAGCTATCTGCCAACCAATG
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAG
* *
67990 ACCTTTGAGTTCGATTACACTCAGCTTTG-GGGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
*
68028 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
* * *
68093 TCAGCTCAAAGGCACATCATTTGTAGTATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGA
*
68158 CCTTCGAGTTCGATTACACTCAGCTTCGGGGGCACATC
131 CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * *
68196 ATTTGTAACAAAACTCAAGGCTAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
* * * *
68261 TCAGCTCAAAGGCACATCATTTGTAGCATAGCTTAAGTCGATAAGGGCTATCTGCCTACAAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGA
* * * * *
68326 CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATC
131 CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * *
68363 ATTTGCAGCATAACTCAAGGATAGAAGGGTTATCTTCCAACCAAAGGCCTTCGAGTTCGATTATG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACG
*
68428 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAG
**
68493 ACCTTCGAGTTCGATTACACTCAGCTTTAAGGGCACATC
130 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * *
68532 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGATCTTTGAGTTCAATTACAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
* * * * * * *
68597 TCAACTCAATGGCACATCATTTG-AGATATAGCTCAAGGCTAGAA-GGTTATCTG----CCAAAG
66 TCAGCTCAAAGGCACATCATTTGCAG-CATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAG
* * ** * *
68656 ACCCTCGAGTTCGATTACACTCATCTTTTAATGGCATATC
130 ACCTTCGAGTTCGATTACACTCAGC-TTCGAGGGCACATC
*
68696 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACG
* * * * * * * * *
68761 CTCAGCTCCAAGGAATATCATTTACAGTATAGCTCAAGGCAATAAGGGCTAT
65 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
68813 ATGTCAATAA
Statistics
Matches: 995, Mismatches: 110, Indels: 30
0.88 0.10 0.03
Matches are distributed among these distances:
163 29 0.03
164 53 0.05
165 53 0.05
166 10 0.01
167 353 0.35
168 448 0.45
169 49 0.05
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (168 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
TCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGA
CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
Found at i:68139 original size:335 final size:335
Alignment explanation
Indices: 67526--68808 Score: 1688
Period size: 335 Copynumber: 3.8 Consensus size: 335
67516 TTCTTTATTT
* * * *
67526 ATTTGCAGCATAACTCAAGGCTAGAAGAGTTATCTG-AAGACAAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGACTACA
* * * * *
67590 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTACCAACCAAAG
65 CTCAGCTCAAAGGCACATCATTTGTAGCATAACTTAAGTCGAGAAAGGCTATCTGCCAACCAAAG
** * *
67655 ACCTTTAAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGCCTAGAA
130 ACCTTCGAGTTCGATTACACTCAGCTTC-AGGGCACATCATTTGCAGCATAACTCAAGGCTAGAA
67720 GGGTTATCTGCCAAC-AAAACCTTC-ACGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACA
194 GGGTTATCTGCCAACAAAAACCTTCGA-GTTCGACTACGCTCAGCTCAAAGGCACATCATTTACA
* *
67783 ACATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCT
258 GCATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCT
67848 TCGAGGGCACATC
323 TCGAGGGCACATC
* * * * *
67861 ATTTGCATCATAACTC-AGAGCTATAAGGGTTATCTGCCAACAAAGACCTTCGATTTTGACTACG
1 ATTTGCAGCATAACTCAAG-GCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACA
* * *
67925 CTCAGCTCAAAGGCACATTATTTGTAGCATAACTTAAGTCGAGAAAAGCTATCTGCCAACCAATG
65 CTCAGCTCAAAGGCACATCATTTGTAGCATAACTTAAGTCGAGAAAGGCTATCTGCCAACCAAAG
* **
67990 ACCTTTGAGTTCGATTACACTCAGCTTTGGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAG
130 ACCTTCGAGTTCGATTACACTCAGCTTCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAG
** *
68055 GGTTATCTGCCAACAAAAACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGTAGT
195 GGTTATCTGCCAACAAAAACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAGC
*
68120 ATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTTC
260 ATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTTC
*
68185 GGGGGCACATC
325 GAGGGCACATC
* * * * *
68196 ATTTGTAACAAAACTCAAGGCTAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACAC
* * * * *
68261 TCAGCTCAAAGGCACATCATTTGTAGCATAGCTTAAGTCGATAAGGGCTATCTGCCTACAAAAGA
66 TCAGCTCAAAGGCACATCATTTGTAGCATAACTTAAGTCGAGAAAGGCTATCTGCCAACCAAAGA
* * * * * *
68326 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTCAAGGATAGAAGG
131 CCTTCGAGTTCGATTACACTCAGCTTCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGG
* ** * * *
68391 GTTATCTTCCAACCAAAGGCCTTCGAGTTCGATTATGCTCAGCTCAAAGGCACATCATTTGCAGC
196 GTTATCTGCCAA-CAAAAACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAGC
* *
68456 ATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTTT
260 ATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTTC
*
68521 AAGGGCACATC
325 GAGGGCACATC
* * * *
68532 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGATCTTTGAGTTCAATTACAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACAC
* * * * * *
68597 TCAACTCAATGGCACATCATTTG-AG-ATATAGCTCAAGGCTAG-AAGGTTATCTG----CCAAA
66 TCAGCTCAAAGGCACATCATTTGTAGCATA-A-CTTAAGTCGAGAAAGGCTATCTGCCAACCAAA
* * * * *
68655 GACCCTCGAGTTCGATTACACTCATCTTTTAATGGCATATCATTTGCAGCATAACTCAAGGCTAG
129 GACCTTCGAGTTCGATTACACTCAGC--TTCAGGGCACATCATTTGCAGCATAACTCAAGGCTAG
* * * *
68720 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGAATATCATTTA
192 AAGGGTTATCTGCCAACAAAA-ACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTA
* * * *
68785 CAGTATAGCTCAAGGCAATAAGGG
256 CAGCATAGCTTAAGTCAAGAAGGG
68809 CTATATGTCA
Statistics
Matches: 830, Mismatches: 107, Indels: 24
0.86 0.11 0.02
Matches are distributed among these distances:
331 26 0.03
332 4 0.00
333 102 0.12
334 54 0.07
335 439 0.53
336 205 0.25
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (335 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACAC
TCAGCTCAAAGGCACATCATTTGTAGCATAACTTAAGTCGAGAAAGGCTATCTGCCAACCAAAGA
CCTTCGAGTTCGATTACACTCAGCTTCAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGG
GTTATCTGCCAACAAAAACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAGCA
TAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTTCG
AGGGCACATC
Found at i:69429 original size:33 final size:37
Alignment explanation
Indices: 69350--69432 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
69340 ATATGTCTAT
69350 ATATATATATTA-TATAGTTTGCAAATAGTTTTCTAAA
1 ATATATATA-TAGTATAGTTTGCAAATAGTTTTCTAAA
**
69387 ATACGTATATAGTATAGTTTGC-AA-A-TTTT-TAAA
1 ATATATATATAGTATAGTTTGCAAATAGTTTTCTAAA
69420 ATATATATATAGT
1 ATATATATATAGT
69433 TTTTAAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 15 0.37
34 4 0.10
35 1 0.02
36 4 0.10
37 17 0.41
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.45
Consensus pattern (37 bp):
ATATATATATAGTATAGTTTGCAAATAGTTTTCTAAA
Found at i:69550 original size:13 final size:13
Alignment explanation
Indices: 69532--69558 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69522 ATATATATAG
69532 TTTTTTGAAAACA
1 TTTTTTGAAAACA
69545 TTTTTTGAAAACA
1 TTTTTTGAAAACA
69558 T
1 T
69559 ATATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTTTTGAAAACA
Found at i:69581 original size:70 final size:68
Alignment explanation
Indices: 69420--69671 Score: 255
Period size: 70 Copynumber: 3.6 Consensus size: 68
69410 AATTTTTAAA
* *
69420 ATATATATATAGTTTTTAAAACA-TTTAGAAAATATATTATATAG-TTTTT-AAAACATTTTTGA
1 ATATATATATAATTTTGAAAACATTTTAGAAAATATA-TATATAGTTTTTTGAAAACATTTTTGA
69482 AAATT
65 AAA-T
* * *
69487 ATGTAATATATAGTTTTTAAAACATTTTAGAAAATATATATATAGTTTTTTGAAAACATTTTTTG
1 ATAT-ATATATAATTTTGAAAACATTTTAGAAAATATATATATAGTTTTTTGAAAACA-TTTTTG
*
69552 AAAAC
64 AAAAT
* *
69557 ATATATTATATAATTTTGAAAACATTTTA-AAAATATATATAATATATAGTTTTTGGAAACA-TT
1 ATATA-TATATAATTTTGAAAACATTTTAGAAAATATATAT-ATA-GT--TTTTTGAAAACATTT
69620 TT-AAAAT
61 TTGAAAAT
* * *
69627 ATGTATACTATAAGTTTTTGAAAACATTTTTGAAAACATATATAT
1 ATATATA-TATAA--TTTTGAAAACATTTTAGAAAATATATATAT
69672 TACATGGTTT
Statistics
Matches: 160, Mismatches: 11, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
67 3 0.02
68 26 0.16
69 32 0.20
70 46 0.29
71 15 0.09
72 17 0.11
73 21 0.13
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (68 bp):
ATATATATATAATTTTGAAAACATTTTAGAAAATATATATATAGTTTTTTGAAAACATTTTTGAA
AAT
Found at i:69658 original size:12 final size:12
Alignment explanation
Indices: 69641--69665 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69631 ATACTATAAG
69641 TTTTTGAAAACA
1 TTTTTGAAAACA
69653 TTTTTGAAAACA
1 TTTTTGAAAACA
69665 T
1 T
69666 ATATATTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:69691 original size:37 final size:37
Alignment explanation
Indices: 69420--69692 Score: 238
Period size: 36 Copynumber: 7.7 Consensus size: 37
69410 AATTTTTAAA
* *
69420 ATATA-TATATAGTTTTTAAAACA--TTT-AGAA-A-
1 ATATATTATATAGTTTTGAAAACATTTTTGAAAATAT
*
69451 ATATATTATATAGTTTTTAAAACATTTTTGAAAAT-T
1 ATATATTATATAGTTTTGAAAACATTTTTGAAAATAT
* * * *
69487 ATGTAATATATAGTTTTTAAAACATTTTAGAAAATAT
1 ATATATTATATAGTTTTGAAAACATTTTTGAAAATAT
*
69524 ATATA-TAGT-T--TTTTGAAAACATTTTTTG-AAA-AC
1 ATATATTA-TATAGTTTTGAAAACA-TTTTTGAAAATAT
* *
69557 ATATATTATATAATTTTGAAAACA-TTTTAAAAATAT
1 ATATATTATATAGTTTTGAAAACATTTTTGAAAATAT
* *
69593 ATATAATATATAGTTTTTGGAAACA-TTTT-AAAATAT
1 ATATATTATATAG-TTTTGAAAACATTTTTGAAAATAT
* * *
69629 GTATACTATA-AGTTTTTGAAAACATTTTTGAAAACAT
1 ATATATTATATAG-TTTTGAAAACATTTTTGAAAATAT
* *
69666 ATATATTACATGGTTTTGAAAACATTT
1 ATATATTATATAGTTTTGAAAACATTT
69693 ATATTGTATA
Statistics
Matches: 202, Mismatches: 21, Indels: 32
0.79 0.08 0.13
Matches are distributed among these distances:
31 5 0.02
32 18 0.09
33 7 0.03
34 23 0.11
35 24 0.12
36 77 0.38
37 47 0.23
38 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
ATATATTATATAGTTTTGAAAACATTTTTGAAAATAT
Found at i:69706 original size:25 final size:25
Alignment explanation
Indices: 69654--69713 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
69644 TTGAAAACAT
*
69654 TTTTGAAAACATATATATTACATGG
1 TTTTGAAAACATATATATTACATAG
* **
69679 TTTTGAAAACATTTATATTGTATAG
1 TTTTGAAAACATATATATTACATAG
*
69704 TTTTTAAAAC
1 TTTTGAAAAC
69714 TTTTTTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (25 bp):
TTTTGAAAACATATATATTACATAG
Found at i:69745 original size:35 final size:36
Alignment explanation
Indices: 69679--69748 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
69669 TATTACATGG
* *
69679 TTTTGAAAACATTTATATTGTATAGTTTTTAAAACTT
1 TTTTGAAAACATTTATAATATATAG-TTTTAAAACTT
*
69716 TTTTGAAAAC-TTATATAATATATAGTTTAAAAA
1 TTTTGAAAACATT-TATAATATATAGTTTTAAAA
69749 TCATTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 9 0.31
37 20 0.69
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (36 bp):
TTTTGAAAACATTTATAATATATAGTTTTAAAACTT
Found at i:69782 original size:19 final size:19
Alignment explanation
Indices: 69758--69801 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
69748 ATCATTTTGA
*
69758 AATATA-TATATATATATAT
1 AATATAGTATACAT-TATAT
*
69777 AATATAGTTTACATTATAT
1 AATATAGTATACATTATAT
69796 AATATA
1 AATATA
69802 ATAATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AATATAGTATACATTATAT
Found at i:71226 original size:20 final size:20
Alignment explanation
Indices: 71201--71239 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71191 TTTTCAAGGG
71201 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
71221 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
71240 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:76415 original size:24 final size:24
Alignment explanation
Indices: 76387--76468 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
76377 TACACTTAAC
76387 TGTGCATCGATGCATCCCTTTGAA
1 TGTGCATCGATGCATCCCTTTGAA
* *
76411 TGTGCATCGATTCAT-CATGTTG-A
1 TGTGCATCGATGCATCCCT-TTGAA
*
76434 --TGCACCGATGCA-CGCC-TTGAA
1 TGTGCATCGATGCATC-CCTTTGAA
76455 TGTGCATCGATGCA
1 TGTGCATCGATGCA
76469 CAGGGTCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.30
24 17 0.37
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (24 bp):
TGTGCATCGATGCATCCCTTTGAA
Found at i:79245 original size:46 final size:45
Alignment explanation
Indices: 79155--79245 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 45
79145 GAACATCGAA
* * *
79155 TGCATTTTATGCATCGATACAGATACGATGCATCAATGCACTCAG
1 TGCATTTGATGCATCGATACAGAGACCATGCATCAATGCACTCAG
*
79200 TGCATTTGATGCATCGATGCACA-AGACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGAT--ACAGAGACCATGCATCAATGCACTCAG
79246 GCTTTTTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 17 0.43
46 20 0.50
47 3 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (45 bp):
TGCATTTGATGCATCGATACAGAGACCATGCATCAATGCACTCAG
Found at i:80066 original size:17 final size:17
Alignment explanation
Indices: 80044--80232 Score: 60
Period size: 16 Copynumber: 11.1 Consensus size: 17
80034 TATTATTTAA
80044 TTATTTTTTATTTTATT
1 TTATTTTTTATTTTATT
* *
80061 TTA-TTTTTCTTCT-TT
1 TTATTTTTTATTTTATT
*** * *
80076 TTCCGTTTTCTTTGA-T
1 TTATTTTTTATTTTATT
80092 TT--TTT-TATT-TATT
1 TTATTTTTTATTTTATT
* *
80105 TTATTTTTTCCTTTGACTTT
1 TTATTTTTT-ATTTTA--TT
*
80125 TTATTTCTTTCATTTT-TC
1 TTATTT-TTT-ATTTTATT
80143 TTATTTTTT-TCTTTATT
1 TTATTTTTTAT-TTTATT
*
80160 TAATTTATTTAATTTTTATT
1 TTATTT-TTT-A-TTTTATT
* *
80180 TAATTTTTGA-TTTATT
1 TTATTTTTTATTTTATT
80196 TTCATTTTTTA-TTT-TT
1 TT-ATTTTTTATTTTATT
*
80212 TTATATATTTATTTATATT
1 TTAT-TTTTTATTT-TATT
80231 TT
1 TT
80233 CTCTCTCTCT
Statistics
Matches: 130, Mismatches: 20, Indels: 42
0.68 0.10 0.22
Matches are distributed among these distances:
12 1 0.01
13 6 0.05
14 2 0.02
15 10 0.08
16 38 0.29
17 26 0.20
18 13 0.10
19 6 0.05
20 20 0.15
21 8 0.06
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (17 bp):
TTATTTTTTATTTTATT
Found at i:80113 original size:16 final size:16
Alignment explanation
Indices: 80092--80227 Score: 78
Period size: 16 Copynumber: 7.8 Consensus size: 16
80082 TTTCTTTGAT
80092 TTTTTTATTTATTTTA
1 TTTTTTATTTATTTTA
*
80108 TTTTTTCCTTTGACTTTTTA
1 TTTTTT-ATTT-A--TTTTA
80128 TTTCTTTCATTT-TTCTTA
1 TTT-TTT-ATTTATT-TTA
* *
80146 TTTTTTTCTTTATTTAA
1 -TTTTTTATTTATTTTA
*
80163 TTTATTTAATTTTTATTTAA
1 TTT-TTT-A--TTTATTTTA
*
80183 TTTTTGATTTATTTTCA
1 TTTTTTATTTATTTT-A
80200 TTTTTTATTT-TTTTA
1 TTTTTTATTTATTTTA
*
80215 TATATTTATTTAT
1 T-TTTTTATTTAT
80228 ATTTTCTCTC
Statistics
Matches: 96, Mismatches: 9, Indels: 29
0.72 0.07 0.22
Matches are distributed among these distances:
15 2 0.02
16 28 0.29
17 24 0.25
18 10 0.10
19 5 0.05
20 20 0.21
21 7 0.07
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.74
Consensus pattern (16 bp):
TTTTTTATTTATTTTA
Found at i:80126 original size:30 final size:28
Alignment explanation
Indices: 80081--80141 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
80071 TCTTTTTCCG
* *
80081 TTTTCTTTGATTTTTTTATTTATTTTATT
1 TTTTCTTTGA-CTTTTTATTTATTTCATT
*
80110 TTTTCCTTTGACTTTTTATTTCTTTCATT
1 TTTT-CTTTGACTTTTTATTTATTTCATT
80139 TTT
1 TTT
80142 CTTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.11, C:0.10, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTTCTTTGACTTTTTATTTATTTCATT
Found at i:80169 original size:4 final size:4
Alignment explanation
Indices: 80124--80295 Score: 68
Period size: 4 Copynumber: 42.8 Consensus size: 4
80114 CCTTTGACTT
* * * * *
80124 TTTA TTTC TTTCA TTTT TCTTA TTTT TTTC TTTA TTTAA TTTA TTTA ATT-
1 TTTA TTTA TTT-A TTTA T-TTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA
* * *
80174 TTTA TTTAA TTT- TTGA TTTA TTTTCA TTT- TTTA TTTT TTTA TATA TTTA
1 TTTA TTT-A TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * * **
80223 TTTA TAT- TTTC TCTC TCTC TTGA TTTA -ACA TTTA TTTA TTTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
* *
80269 CTTA TTTA TTTA TTTA TTTA TTCA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
80296 TTTGTCTAAC
Statistics
Matches: 125, Mismatches: 30, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
3 12 0.10
4 88 0.70
5 24 0.19
6 1 0.01
ACGTcount: A:0.20, C:0.08, G:0.01, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:80273 original size:16 final size:15
Alignment explanation
Indices: 80254--80283 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
80244 GATTTAACAT
80254 TTATTTATTTTATTTC
1 TTATTTA-TTTATTTC
80270 TTATTTATTTATTT
1 TTATTTATTTATTT
80284 ATTTATTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTTATTTC
Found at i:84038 original size:21 final size:21
Alignment explanation
Indices: 84017--84056 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
84007 ATTAAAATTA
*
84017 AAATAAT-ACATAATATATTT
1 AAATAATAAAATAATATATTT
84037 AAATAATAAAATAATATATT
1 AAATAATAAAATAATATATT
84057 ACCGGTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAATAAAATAATATATTT
Found at i:84086 original size:15 final size:15
Alignment explanation
Indices: 84066--84137 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 15
84056 TACCGGTGAA
84066 TTTTATATAAATAAT
1 TTTTATATAAATAAT
*
84081 TTTTATTTAAAT-A-
1 TTTTATATAAATAAT
* *
84094 -TAT-TATAGATGAAT
1 TTTTATATAAAT-AAT
84108 TTTTATATAAATAAT
1 TTTTATATAAATAAT
* *
84123 TTGTAT-TTAATAAT
1 TTTTATATAAATAAT
84137 T
1 T
84138 AGAATTTTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
11 5 0.11
12 2 0.05
13 1 0.02
14 9 0.20
15 21 0.48
16 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (15 bp):
TTTTATATAAATAAT
Found at i:84094 original size:41 final size:42
Alignment explanation
Indices: 84049--84132 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
84039 ATAATAAAAT
* * *
84049 AATATATTACCGGTGAA-TTTTATATAAATAATTTTTATTTA
1 AATATATTACAGATGAATTTTTATATAAATAATTTGTATTTA
*
84090 AATATATTATAGATGAATTTTTATATAAATAATTTGTATTTA
1 AATATATTACAGATGAATTTTTATATAAATAATTTGTATTTA
84132 A
1 A
84133 TAATTAGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 14 0.37
42 24 0.63
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (42 bp):
AATATATTACAGATGAATTTTTATATAAATAATTTGTATTTA
Found at i:84780 original size:15 final size:15
Alignment explanation
Indices: 84760--84791 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84750 GTAACTCACG
84760 TTGGAATATAATGCT
1 TTGGAATATAATGCT
*
84775 TTGGAATATGATGCT
1 TTGGAATATAATGCT
84790 TT
1 TT
84792 AGTTTTGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (15 bp):
TTGGAATATAATGCT
Found at i:85418 original size:16 final size:16
Alignment explanation
Indices: 85393--85423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85383 CTTTTAATTT
*
85393 TTTTTTGAGTTCAAGC
1 TTTTTCGAGTTCAAGC
85409 TTTTTCGAGTTCAAG
1 TTTTTCGAGTTCAAG
85424 TTTCAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (16 bp):
TTTTTCGAGTTCAAGC
Found at i:86605 original size:22 final size:21
Alignment explanation
Indices: 86572--86616 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
86562 TAAATGACTA
86572 AAATAAGCAGCGTTGTTATTT
1 AAATAAGCAGCGTTGTTATTT
*
86593 AAATAAAGTAGCGTTGTTATTT
1 AAAT-AAGCAGCGTTGTTATTT
86615 AA
1 AA
86617 CATGTTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (21 bp):
AAATAAGCAGCGTTGTTATTT
Done.