Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007437.1 Hibiscus syriacus cultivar Beakdansim tig00020272_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: 91850
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:261 original size:30 final size:30
Alignment explanation
Indices: 220--298 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
210 CATTAATATG
*
220 TGAAAGTGTTCTATGTGAAAATGATTTACA
1 TGAATGTGTTCTATGTGAAAATGATTTACA
* * *
250 TGAATGTGTTCTATGTGAAGATGCTTTATA
1 TGAATGTGTTCTATGTGAAAATGATTTACA
*
280 TGAATGTGTTCTACGTGAA
1 TGAATGTGTTCTATGTGAA
299 TAAAGGATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (30 bp):
TGAATGTGTTCTATGTGAAAATGATTTACA
Found at i:299 original size:15 final size:15
Alignment explanation
Indices: 216--299 Score: 57
Period size: 15 Copynumber: 5.6 Consensus size: 15
206 ATTTCATTAA
*
216 TATGTGAAAGTGTTC
1 TATGTGAATGTGTTC
**
231 TATGTGAAAATGATT-
1 TATGTGAATGTG-TTC
**
246 TACATGAATGTGTTC
1 TATGTGAATGTGTTC
261 TATGTGAA-GATGCTT-
1 TATGTGAATG-TG-TTC
*
276 TATATGAATGTGTTC
1 TATGTGAATGTGTTC
*
291 TACGTGAAT
1 TATGTGAAT
300 AAAGGATACC
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
14 5 0.09
15 43 0.81
16 5 0.09
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
TATGTGAATGTGTTC
Found at i:440 original size:24 final size:24
Alignment explanation
Indices: 401--472 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
391 AGGGCGAAGG
*
401 TTCTACGCGGTACTTCGGGACAAT
1 TTCTACGCGGTCCTTCGGGACAAT
* * * *
425 TTCTACGTGGTCCTTCAGGATAAA
1 TTCTACGCGGTCCTTCGGGACAAT
449 TTCTACGCGGTCCTTCGGGACAAT
1 TTCTACGCGGTCCTTCGGGACAAT
473 CTATGTGGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAT
Found at i:525 original size:24 final size:24
Alignment explanation
Indices: 474--525 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
464 CGGGACAATC
* * ** *
474 TATGTGGCACTTCGGTGCATGTTC
1 TATGTGGCACATCGGTGAAAATTA
498 TATGTGGCACATCGGTGAAAATTA
1 TATGTGGCACATCGGTGAAAATTA
522 TATG
1 TATG
526 AGCTGTGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGTGGCACATCGGTGAAAATTA
Found at i:2685 original size:22 final size:22
Alignment explanation
Indices: 2660--2710 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2650 ACTCTAATTT
2660 GTGGTTTATCGATAATCTTTTA
1 GTGGTTTATCGATAATCTTTTA
*
2682 GTGGTTTGTCGATAATCTTTTA
1 GTGGTTTATCGATAATCTTTTA
*
2704 GTAGTTT
1 GTGGTTT
2711 GATCCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.08, G:0.22, T:0.51
Consensus pattern (22 bp):
GTGGTTTATCGATAATCTTTTA
Found at i:3536 original size:20 final size:20
Alignment explanation
Indices: 3492--3546 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
3482 CTTTGACAAG
3492 AAGTTTCGAAAC-TTCTACA
1 AAGTTTCGAAACTTTCTACA
*
3511 ATAGTTTCGAAACTTTC-CCTA
1 A-AGTTTCGAAACTTTCTAC-A
*
3532 AAGTTTCGATACTTT
1 AAGTTTCGAAACTTT
3547 GGCTCCAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 25 0.81
21 5 0.16
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (20 bp):
AAGTTTCGAAACTTTCTACA
Found at i:7006 original size:15 final size:15
Alignment explanation
Indices: 6988--7046 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
6978 ATGAATGTGT
6988 TCTATGTGAAAGTGC
1 TCTATGTGAAAGTGC
* *
7003 TCTATGTGAATGTGT
1 TCTATGTGAAAGTGC
* *
7018 TCTACGTGAAAATGC
1 TCTATGTGAAAGTGC
* *
7033 TTTATGCGAAAGTG
1 TCTATGTGAAAGTG
7047 TTATATGTGG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (15 bp):
TCTATGTGAAAGTGC
Found at i:7013 original size:30 final size:30
Alignment explanation
Indices: 6979--7055 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
6969 TATTAACATA
*
6979 TGAATGTGTTCTATGTGAAAGTGCTCTATG
1 TGAATGTGTTCTATGTGAAAATGCTCTATG
* *
7009 TGAATGTGTTCTACGTGAAAATGCTTTATG
1 TGAATGTGTTCTATGTGAAAATGCTCTATG
* * *
7039 CGAAAGTGTTATATGTG
1 TGAATGTGTTCTATGTG
7056 GATAAAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (30 bp):
TGAATGTGTTCTATGTGAAAATGCTCTATG
Found at i:7264 original size:24 final size:23
Alignment explanation
Indices: 7228--7276 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
7218 TTTTTCGGGA
*
7228 CATATCTATGTGGCACTTCAGTG
1 CATATCTACGTGGCACTTCAGTG
* *
7251 CATATTCTACGTGGTACTTTAGTG
1 CATA-TCTACGTGGCACTTCAGTG
7275 CA
1 CA
7277 AATTATATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (23 bp):
CATATCTACGTGGCACTTCAGTG
Found at i:13825 original size:15 final size:15
Alignment explanation
Indices: 13807--13863 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
13797 GGATGTGTTC
13807 TATGTGAATGTGCTT
1 TATGTGAATGTGCTT
13822 TATGTGAATGTG-TT
1 TATGTGAATGTGCTT
* *
13836 ATACGTGAAAGTGCTT
1 -TATGTGAATGTGCTT
*
13852 TTTGTGAATGTG
1 TATGTGAATGTG
13864 TTCTACATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.44
Consensus pattern (15 bp):
TATGTGAATGTGCTT
Found at i:13833 original size:30 final size:30
Alignment explanation
Indices: 13799--13898 Score: 121
Period size: 30 Copynumber: 3.3 Consensus size: 30
13789 TAACATATGG
* *
13799 ATGTGTTCTATGTGAATGTGCTTTATGTGA
1 ATGTGTTCTACGTGAAAGTGCTTTATGTGA
* *
13829 ATGTGTTATACGTGAAAGTGCTTTTTGTGA
1 ATGTGTTCTACGTGAAAGTGCTTTATGTGA
* *
13859 ATGTGTTCTACATGAAAATGCTTTAT-TCGA
1 ATGTGTTCTACGTGAAAGTGCTTTATGT-GA
*
13889 AAGTGTTCTA
1 ATGTGTTCTA
13899 TGTGGATAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
29 1 0.02
30 59 0.98
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (30 bp):
ATGTGTTCTACGTGAAAGTGCTTTATGTGA
Found at i:14067 original size:24 final size:25
Alignment explanation
Indices: 14007--14070 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
13997 GAGTCGAGGG
* *
14007 TTCTACGCGGTCTTTCTGGACAAAT
1 TTCTACGCGGTCCTTCGGGACAAAT
* *
14032 TTCTATGTGGTCCTTCGGGACAAA-
1 TTCTACGCGGTCCTTCGGGACAAAT
14056 TTCTACGCGGTCCTT
1 TTCTACGCGGTCCTT
14071 TTGGGACATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (25 bp):
TTCTACGCGGTCCTTCGGGACAAAT
Found at i:14076 original size:25 final size:26
Alignment explanation
Indices: 14007--14078 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 26
13997 GAGTCGAGGG
14007 TTCTACGCGGT-CTTTCT-GGACAAAT
1 TTCTACGCGGTCCTTT-TGGGACAAAT
* * *
14032 TTCTATGTGGTCC-TTCGGGACAAA-
1 TTCTACGCGGTCCTTTTGGGACAAAT
14056 TTCTACGCGGTCCTTTTGGGACA
1 TTCTACGCGGTCCTTTTGGGACA
14079 TATCTAAGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 11 0.29
25 26 0.68
26 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
TTCTACGCGGTCCTTTTGGGACAAAT
Found at i:24293 original size:29 final size:30
Alignment explanation
Indices: 24214--24300 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 30
24204 AACTATATAG
*
24214 CTTTT-AAAAATTAAAATTTTAGTCC-CTAAA
1 CTTTTCAAAACTT-AAATTTTAG-CCACTAAA
** * *
24244 CTTTTCAAAGTTTATACTTTAGCCACTAAA
1 CTTTTCAAAACTTAAATTTTAGCCACTAAA
*
24274 C-TTTCAAAACTTAAATTTTAGTCACTA
1 CTTTTCAAAACTTAAATTTTAGCCACTA
24301 GTCAAAATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 23 0.50
30 18 0.39
31 5 0.11
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (30 bp):
CTTTTCAAAACTTAAATTTTAGCCACTAAA
Found at i:25246 original size:23 final size:24
Alignment explanation
Indices: 25197--25261 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
25187 CATAAGGAAC
** *
25197 GTGCCACAAGAACAAAGAAAAAGT
1 GTGCCACAAGAGTAGAGAAAAAGT
25221 GTGCCACAAGAGTAGAGAAAAA-T
1 GTGCCACAAGAGTAGAGAAAAAGT
*
25244 GTGTCACAA-AGATAGAGA
1 GTGCCACAAGAG-TAGAGA
25262 TTCTTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 2 0.06
23 15 0.42
24 19 0.53
ACGTcount: A:0.49, C:0.14, G:0.25, T:0.12
Consensus pattern (24 bp):
GTGCCACAAGAGTAGAGAAAAAGT
Found at i:26620 original size:13 final size:13
Alignment explanation
Indices: 26602--26629 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26592 CTTATACTTC
26602 CCTTAGTCCTCTG
1 CCTTAGTCCTCTG
26615 CCTTAGTCCTCTG
1 CCTTAGTCCTCTG
26628 CC
1 CC
26630 AAGGGCCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.43, G:0.14, T:0.36
Consensus pattern (13 bp):
CCTTAGTCCTCTG
Found at i:26844 original size:32 final size:32
Alignment explanation
Indices: 26718--26863 Score: 107
Period size: 32 Copynumber: 4.6 Consensus size: 32
26708 ATTAATACTC
* * *
26718 CTATGCATCATCTGAATGTAACCCTAAACATA
1 CTATGCATTATCTAAATGTAAACCTAAACATA
* * * * * *
26750 TTGTGCAATATCTACATGCAAACCTGAACATA
1 CTATGCATTATCTAAATGTAAACCTAAACATA
* * * *
26782 CGATGAATTATTTGAATGT-AACCTTAAACATA
1 CTATGCATTATCTAAATGTAAACC-TAAACATA
*
26814 CTATGCATTATCTAAAT-TCAAACCTGAACATA
1 CTATGCATTATCTAAATGT-AAACCTAAACATA
* * *
26846 TTGTGTATTATCTAAATG
1 CTATGCATTATCTAAATG
26864 CACCCTGACT
Statistics
Matches: 83, Mismatches: 27, Indels: 7
0.71 0.23 0.06
Matches are distributed among these distances:
31 5 0.06
32 74 0.89
33 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (32 bp):
CTATGCATTATCTAAATGTAAACCTAAACATA
Found at i:27342 original size:21 final size:22
Alignment explanation
Indices: 27181--27435 Score: 196
Period size: 22 Copynumber: 11.1 Consensus size: 22
27171 TTGTTTAAAA
*
27181 ATAATATATGATTTTTGAAAATAT
1 ATAATATA-G-TTTTTGAAAACAT
* *
27205 ATAGTATAGTTTTTAAAAACAT
1 ATAATATAGTTTTTGAAAACAT
*
27227 ATAGTATAGTTTTTGAAAACAT
1 ATAATATAGTTTTTGAAAACAT
* **
27249 ATTATATAGTTTTAAAAAACAT
1 ATAATATAGTTTTTGAAAACAT
27271 ATAATATATAGTTTTT-AAAA-AT
1 AT-A-ATATAGTTTTTGAAAACAT
* * *
27293 GT-ATATTGCTTTTGAAAACAT
1 ATAATATAGTTTTTGAAAACAT
*
27314 ATTATATA-TTTTTGAAAACAT
1 ATAATATAGTTTTTGAAAACAT
*
27335 AAAATATATATTGTTTTTGAAAACAT
1 ---ATA-ATATAGTTTTTGAAAACAT
* *
27361 ATTATATA-TTTTTTAAAACAT
1 ATAATATAGTTTTTGAAAACAT
27382 AAAATATATATAGTTTTTGAAAAACAT
1 ---ATA-ATATAGTTTTTG-AAAACAT
*
27409 ATGTAATATATATTTTTGAAAACAT
1 A--TAATATA-GTTTTTGAAAACAT
27434 AT
1 AT
27436 TGTATTATTT
Statistics
Matches: 188, Mismatches: 24, Indels: 39
0.75 0.10 0.16
Matches are distributed among these distances:
19 9 0.05
20 4 0.02
21 27 0.14
22 63 0.34
23 8 0.04
24 22 0.12
25 22 0.12
26 26 0.14
27 7 0.04
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (22 bp):
ATAATATAGTTTTTGAAAACAT
Found at i:27447 original size:47 final size:46
Alignment explanation
Indices: 27181--27492 Score: 215
Period size: 47 Copynumber: 6.7 Consensus size: 46
27171 TTGTTTAAAA
* *
27181 ATAATATATGATTTTTGAAAATATA-TAGTA-TAGTTTTTAAAAACAT
1 ATAATATAT-ATTTTTGAAAACATATTA-TATTAGTTTTGAAAAACAT
* * *
27227 ATAGTATA-GTTTTTGAAAACATATTATA-TAGTTTTAAAAAACAT
1 ATAATATATATTTTTGAAAACATATTATATTAGTTTTGAAAAACAT
*
27271 ATAATATATAGTTTTT-AAAA-AT-GTATATT-GCTTTTG-AAAACAT
1 ATAATATATA-TTTTTGAAAACATATTATATTAG-TTTTGAAAAACAT
27314 AT--TATATATTTTTGAAAACATAAAATATATATT-GTTTTTG-AAAACAT
1 ATAATATATATTTTTGAAAACAT---AT-TATATTAG-TTTTGAAAAACAT
* *
27361 AT--TATATATTTTTTAAAACATAAAATATATATAGTTTTTGAAAAACAT
1 ATAATATATATTTTTGAAAACAT--ATTATAT-TAG-TTTTGAAAAACAT
* *
27409 ATGTAATATATATTTTTGAAAACATATTGTATTA-TTTTGAAAATATAAT
1 A--TAATATATATTTTTGAAAACATATTATATTAGTTTTGAAAA-A-CAT
* * *
27458 ATATTATATAGTTTTTTTAAATATATATTATATTA
1 ATAATATATA--TTTTTGAAA-ACATATTATATTA
27493 AGCTTATTAT
Statistics
Matches: 222, Mismatches: 20, Indels: 44
0.78 0.07 0.15
Matches are distributed among these distances:
40 5 0.02
41 10 0.05
42 2 0.01
43 14 0.06
44 44 0.20
45 11 0.05
46 16 0.07
47 63 0.28
48 9 0.04
49 13 0.06
50 17 0.08
52 18 0.08
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (46 bp):
ATAATATATATTTTTGAAAACATATTATATTAGTTTTGAAAAACAT
Found at i:27448 original size:21 final size:22
Alignment explanation
Indices: 27177--27464 Score: 177
Period size: 22 Copynumber: 12.8 Consensus size: 22
27167 AGTTTTGTTT
* *
27177 AAAA-ATAATATATGATTTTTG
1 AAAACATATTATATTATTTTTG
* *
27198 AAAATATA-TAGTA-TAGTTTTTA
1 AAAACATATTA-TATTA-TTTTTG
27220 AAAACATA-TAGTA-TAGTTTTTG
1 AAAACATATTA-TATTA-TTTTTG
**
27242 AAAACATATTATA-TAGTTTTAA
1 AAAACATATTATATTA-TTTTTG
*
27264 AAAACATATAATATATAGTTTTT-
1 AAAACATATTATAT-TA-TTTTTG
* **
27287 AAAA-AT-GTATATTGCTTTTG
1 AAAACATATTATATTATTTTTG
27307 AAAACATATTATA-TATTTTTG
1 AAAACATATTATATTATTTTTG
*
27328 AAAACATAAAATATATATTGTTTTTG
1 AAAACAT---AT-TATATTATTTTTG
*
27354 AAAACATATTATA-TATTTTTT
1 AAAACATATTATATTATTTTTG
*
27375 AAAACATAAAATATATATAGTTTTTG
1 AAAACAT--ATTATAT-TA-TTTTTG
27401 AAAAACATATGTAATATATATTTTTG
1 -AAAACATAT-T-ATAT-TATTTTTG
*
27427 AAAACATATTGTATTA-TTTTG
1 AAAACATATTATATTATTTTTG
* *
27448 AAAATATAATATATTAT
1 AAAACATATTATATTAT
27465 ATAGTTTTTT
Statistics
Matches: 219, Mismatches: 25, Indels: 45
0.76 0.09 0.16
Matches are distributed among these distances:
19 4 0.02
20 5 0.02
21 57 0.26
22 71 0.32
23 16 0.07
24 10 0.05
25 16 0.07
26 26 0.12
27 14 0.06
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (22 bp):
AAAACATATTATATTATTTTTG
Found at i:29896 original size:2 final size:2
Alignment explanation
Indices: 29889--29919 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29879 GTATTTATGA
29889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29920 ATTCTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35257 original size:20 final size:21
Alignment explanation
Indices: 35203--35265 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
35193 GATTCCCCTG
35203 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
35227 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
35247 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
35266 TGTACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:39230 original size:33 final size:34
Alignment explanation
Indices: 39160--39231 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
39150 TTTTCAATAC
* *
39160 TTTCAAATTTCATTTTTGAGAGTTCTAAATCCTT
1 TTTCAAATTTCATTTTTGAGAGTTCAAAATCCAT
**
39194 TTTCAAGATTTCA-TTTTGA-TTTTCAAAATCCAT
1 TTTCAA-ATTTCATTTTTGAGAGTTCAAAATCCAT
39227 TTTCA
1 TTTCA
39232 TTTCTAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 15 0.45
34 12 0.36
35 6 0.18
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (34 bp):
TTTCAAATTTCATTTTTGAGAGTTCAAAATCCAT
Found at i:45634 original size:36 final size:36
Alignment explanation
Indices: 45591--45688 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 36
45581 TCTGTTTAAA
45591 ATAGTTTTTCTTCAAACAAAATTTATCTCACTTGAG
1 ATAGTTTTTCTTCAAACAAAATTTATCTCACTTGAG
* * ** * * *
45627 ATTGTTTTCCTAAAAATAAATTTTATCTCGCTTGAG
1 ATAGTTTTTCTTCAAACAAAATTTATCTCACTTGAG
45663 ATAG-TTTTCTCTCGAAACATAAATTT
1 ATAGTTTTTCT-TC-AAACA-AAATTT
45689 TAAAATTGTG
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
35 5 0.11
36 32 0.70
37 4 0.09
38 5 0.11
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (36 bp):
ATAGTTTTTCTTCAAACAAAATTTATCTCACTTGAG
Found at i:46832 original size:104 final size:103
Alignment explanation
Indices: 46481--46822 Score: 291
Period size: 104 Copynumber: 3.3 Consensus size: 103
46471 GTTATCTTTA
* ** ** * * *
46481 AAATTATC-CCGATTGACCCGACTTCCTCAATGAAAAGGAATAACATCATATGAAAGCAGCTAGA
1 AAATTATCTCCGATTTAATCGACTTCCTCAAAAAAAAGGAACAACATCATCTGAAAGTAGCTAGA
* **
46545 ACTCTTCAACATAT-AT-GAGCAATGTTCCCTTCAAAACC
66 ACTCTTCAACA-ATGATGGA-CAGTGTTGTCTTCAAAACC
* * ** * * * ** * *
46583 AAATTATCTCCAGCTTGACCCGACTTCCTCAACAAAAAGAAAGAAGGTCATCTGAAAGTGGCCAG
1 AAATTATCTCC-GATTTAATCGACTTCCTCAAAAAAAAGGAACAACATCATCTGAAAGTAGCTAG
* * * *
46648 AACTCTTCAAC-ATGGATGGGCAGTATCGTCTTCAAAATC
65 AACTCTTCAACAAT-GATGGACAGTGTTGTCTTCAAAACC
* * *
46687 AAATTATCTCC-ATCTTAACTCGA-TATTCTCAAAAATAAGGAACAACTTCATCTGAAAGTAGCT
1 AAATTATCTCCGAT-TTAA-TCGACT-TCCTCAAAAAAAAGGAACAACATCATCTGAAAGTAGCT
*
46750 AGAACTCTTCAACAATGATGGACAGTGTTGTCTTCAACACC
63 AGAACTCTTCAACAATGATGGACAGTGTTGTCTTCAAAACC
*
46791 ATATTATCTCCGGATTTAATCGACTTCCTCAA
1 AAATTATCTCC-GATTTAATCGACTTCCTCAA
46823 GGAGAAGGAA
Statistics
Matches: 190, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
102 11 0.06
103 5 0.03
104 164 0.86
105 8 0.04
106 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (103 bp):
AAATTATCTCCGATTTAATCGACTTCCTCAAAAAAAAGGAACAACATCATCTGAAAGTAGCTAGA
ACTCTTCAACAATGATGGACAGTGTTGTCTTCAAAACC
Found at i:47034 original size:3 final size:3
Alignment explanation
Indices: 47026--47092 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
47016 TTAATTGTTC
47026 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47074 ATT ATT ATT A-T ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
47093 ATAAACTTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:48084 original size:20 final size:19
Alignment explanation
Indices: 48050--48089 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48040 ATTCATTTAT
*
48050 TAGCTCATGTAATGTTATTC
1 TAGCTCATATAATGTT-TTC
*
48070 TAGCTCATATTATGTTTTC
1 TAGCTCATATAATGTTTTC
48089 T
1 T
48090 TTTATAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (19 bp):
TAGCTCATATAATGTTTTC
Found at i:52143 original size:20 final size:19
Alignment explanation
Indices: 52109--52148 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
52099 ATTCATTTAT
*
52109 TAGCTCATGTCATGTTATTC
1 TAGCTCATATCATGTT-TTC
*
52129 TAGCTCATATTATGTTTTC
1 TAGCTCATATCATGTTTTC
52148 T
1 T
52149 TTTATAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.50
Consensus pattern (19 bp):
TAGCTCATATCATGTTTTC
Found at i:60001 original size:24 final size:23
Alignment explanation
Indices: 59940--60032 Score: 98
Period size: 23 Copynumber: 4.0 Consensus size: 23
59930 GAAGTTCCAT
*
59940 GTAGAAATGTCCCGAATGACTAC
1 GTAGAAATGTCCCGAATGACCAC
59963 GTAGAAATGTCCCGACA-GACCAC
1 GTAGAAATGTCCCGA-ATGACCAC
* *
59986 GTAGAATTTGTCCCGAATAACCAC
1 GTAGAA-ATGTCCCGAATGACCAC
* * * *
60010 ATAGAATTGTCCTGAAGGACCAC
1 GTAGAAATGTCCCGAATGACCAC
60033 ATATAACCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 41 0.68
24 19 0.32
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (23 bp):
GTAGAAATGTCCCGAATGACCAC
Found at i:64895 original size:179 final size:174
Alignment explanation
Indices: 64396--64896 Score: 460
Period size: 179 Copynumber: 2.8 Consensus size: 174
64386 ATATATGATA
* * * * *
64396 TCACTATAGTTAAAATTTATAATTACAAATATAATTTATCACAAAAACGTGAATATCATTATTTT
1 TCACTATAATTAAAATATATAATTACAAACATAATTT-TCACAAAAACGTGAATCTCATTATTTG
* * *
64461 TTGTGACAA--TTTTGTAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGACTTT
65 TTGTGACAATTTTTTGTCATAATTA-TAAAACTTATAGTTACAAAACTTGTCACTATATG-CTTT
* *
64524 TTTGCGCA-AAAAAATATGGAGAGAAATCTTTGTGACTATATATTTTG
128 TTTG-GCACCAAAAATATGGAGAGAAATCTTTGTGACTATACATTTTG
* ** * ** * *
64571 TCACTATAATTAAAACATATAACGATAAACATTGTTTTCACTAAAAACTTGACTCTCATTATTTG
1 TCACTATAATTAAAATATATAATTACAAACATAATTTTCAC-AAAAACGTGAATCTCATTATTTG
* *
64636 TTGTGACAAATTTTTTTGTAACGATAATTAT--AGCTTATAGTTACAAAACATGTCACTATATGA
65 TTGTGAC-AA-TTTTTTGT--C-ATAATTATAAAACTTATAGTTACAAAACTTGTCACTATATG-
* * * *
64699 TTTGTTTTTGTACCAAAAAT-TGGAGA-TAATCATTTGTGACTATACATTTTG
124 CTT-TTTTGGCACCAAAAATATGGAGAGAAATC-TTTGTGACTATACATTTTG
* * * * *
64750 TCACTATAATTAAAATATATAATTACAAACAAAATTTGTCGCAACAAATC-TAAATCTTATTATA
1 TCACTATAATTAAAATATATAATTACAAACATAATTT-TCACAA-AAA-CGTGAATCTCATTATT
* * * * *
64814 TGTTGTGACAATTTTTTGTCATAGTTACTAAAACTTTTAATTACAAAAGTTGTCAATATATGCCT
63 TGTTGTGACAATTTTTTGTCATAATTA-TAAAACTTATAGTTACAAAACTTGTCACTATATG-CT
64879 TTAATTTGGCACCAAAAA
126 TT--TTTGGCACCAAAAA
64897 ATAATAGGGA
Statistics
Matches: 260, Mismatches: 47, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
174 4 0.02
175 60 0.23
176 4 0.02
177 1 0.00
178 39 0.15
179 108 0.42
180 35 0.13
181 2 0.01
182 7 0.03
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (174 bp):
TCACTATAATTAAAATATATAATTACAAACATAATTTTCACAAAAACGTGAATCTCATTATTTGT
TGTGACAATTTTTTGTCATAATTATAAAACTTATAGTTACAAAACTTGTCACTATATGCTTTTTT
GGCACCAAAAATATGGAGAGAAATCTTTGTGACTATACATTTTG
Found at i:68489 original size:22 final size:21
Alignment explanation
Indices: 68422--68623 Score: 130
Period size: 22 Copynumber: 9.3 Consensus size: 21
68412 ATAAGATAAT
68422 ATATAATATATAGTTTTGTCTAAAA
1 ATAT-ATATATAG-TTT-T-TAAAA
* *
68447 ATA-ATATATGGTTTTTGAAA
1 ATATATATATAGTTTTTAAAA
*
68467 ATATATGGTATAGTTTTTAAAA
1 ATATAT-ATATAGTTTTTAAAA
*
68489 ACATATAGTATAGTTTTTGAAAA
1 ATATATA-TATAGTTTTT-AAAA
*
68512 CATAT-TATATAGTTTTAAAAA
1 -ATATATATATAGTTTTTAAAA
*
68533 CATATAATATATAGTTTTCAAAA
1 -ATAT-ATATATAGTTTTTAAAA
**
68556 ATATATAATATA-TTTTTTGAA
1 ATATAT-ATATAGTTTTTAAAA
*
68577 A-ACATAT-T-GTTTTTCAAAA
1 ATATATATATAGTTTTT-AAAA
* *
68596 CATAT-TATATAGGTTTGAAAA
1 -ATATATATATAGTTTTTAAAA
*
68617 ACATATA
1 ATATATA
68624 ATAAATATAG
Statistics
Matches: 142, Mismatches: 20, Indels: 34
0.72 0.10 0.17
Matches are distributed among these distances:
18 6 0.04
19 4 0.03
20 17 0.12
21 29 0.20
22 52 0.37
23 28 0.20
24 3 0.02
25 3 0.02
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (21 bp):
ATATATATATAGTTTTTAAAA
Found at i:68541 original size:89 final size:85
Alignment explanation
Indices: 68447--68657 Score: 228
Period size: 89 Copynumber: 2.4 Consensus size: 85
68437 TTGTCTAAAA
** *
68447 ATAATATATGGTTTTTGAAAATATATGGTATAGTTTTTAAAAACATATAGTATAGTTTTTGAAAA
1 ATAATATATGGTTTTTGAAAATATATAATATAGTTTTTAAAAAC--ATA-T-T-GTTTTTCAAAA
*
68512 CATATTATATA-GTTTTAAAAACAT
61 CATATTATATAGGTTTGAAAAACAT
* ** * *
68536 ATAATATATAGTTTTCAAAAATATATAATATATTTTTTGAAAACATATTGTTTTTCAAAACATAT
1 ATAATATATGGTTTTTGAAAATATATAATATAGTTTTTAAAAACATATTGTTTTTCAAAACATAT
68601 TATATAGGTTTGAAAAACAT
66 TATATAGGTTTGAAAAACAT
68621 ATAATAAATATAGG-TTTTGAAAAACATATATAATATA
1 ATAAT--ATAT-GGTTTTTG--AAA-ATATATAATATA
68658 TACATATTTG
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
84 21 0.20
85 18 0.17
86 1 0.01
87 10 0.10
88 1 0.01
89 40 0.39
90 12 0.12
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (85 bp):
ATAATATATGGTTTTTGAAAATATATAATATAGTTTTTAAAAACATATTGTTTTTCAAAACATAT
TATATAGGTTTGAAAAACAT
Found at i:68589 original size:17 final size:17
Alignment explanation
Indices: 68569--68601 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
68559 TATAATATAT
*
68569 TTTTTGAAAACATATTG
1 TTTTTCAAAACATATTG
68586 TTTTTCAAAACATATT
1 TTTTTCAAAACATATT
68602 ATATAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTTTCAAAACATATTG
Found at i:68647 original size:27 final size:27
Alignment explanation
Indices: 68601--68676 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
68591 CAAAACATAT
68601 TATATAGG-TTTGAAAAACATATAATAA
1 TATATAGGTTTTGAAAAACATAT-ATAA
68628 -ATATAGGTTTTGAAAAACATATATAA
1 TATATAGGTTTTGAAAAACATATATAA
**
68654 TATATACATATTTG-AAAACATAT
1 TATATAGGT-TTTGAAAAACATAT
68677 TATATGCTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.25
27 29 0.66
28 4 0.09
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (27 bp):
TATATAGGTTTTGAAAAACATATATAA
Found at i:68701 original size:21 final size:23
Alignment explanation
Indices: 68648--68702 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
68638 TGAAAAACAT
68648 ATATAATATATACATATTTGAAA
1 ATATAATATATACATATTTGAAA
* * *
68671 ACATATTATATGC-T-TTTGAAA
1 ATATAATATATACATATTTGAAA
*
68692 GTATAATATAT
1 ATATAATATAT
68703 TATATAGTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 15 0.58
22 1 0.04
23 10 0.38
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (23 bp):
ATATAATATATACATATTTGAAA
Found at i:71969 original size:17 final size:15
Alignment explanation
Indices: 71946--71984 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
71936 ATAATTGATG
*
71946 GAGAAATGTAGAAGAA
1 GAGAAATGAAG-AGAA
71962 GAAGAAATGAAGAGAA
1 G-AGAAATGAAGAGAA
71978 GAGAAAT
1 GAGAAAT
71985 AGAATTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 6 0.29
17 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (15 bp):
GAGAAATGAAGAGAA
Found at i:73532 original size:17 final size:18
Alignment explanation
Indices: 73510--73554 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
73500 ATGGAATTAA
*
73510 ATTCCAATTCC-TGACAG
1 ATTCCAATTCCTTCACAG
73527 ATTCCAATTCCTTCACAG
1 ATTCCAATTCCTTCACAG
*
73545 ATTCTAATTC
1 ATTCCAATTC
73555 TCTCATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (18 bp):
ATTCCAATTCCTTCACAG
Found at i:76612 original size:41 final size:41
Alignment explanation
Indices: 76550--76630 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
76540 GTTGGTGTTG
* * *
76550 ATACCGGAGTGTTAGTATCCATACCTGATGAACTGATATCT
1 ATACAGGAGTATTAGTATCCATACCAGATGAACTGATATCT
*
76591 ATACAGGAGTATTAGTATCCATACCAGATGAACTGGTATC
1 ATACAGGAGTATTAGTATCCATACCAGATGAACTGATATC
76631 CATATCGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (41 bp):
ATACAGGAGTATTAGTATCCATACCAGATGAACTGATATCT
Found at i:76629 original size:21 final size:21
Alignment explanation
Indices: 76564--76634 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
76554 CGGAGTGTTA
*
76564 GTATCCATACCTGATGAACTG
1 GTATCCATACCAGATGAACTG
* * * * *
76585 ATATCTATA-CAGGA-GTATTA
1 GTATCCATACCA-GATGAACTG
76605 GTATCCATACCAGATGAACTG
1 GTATCCATACCAGATGAACTG
76626 GTATCCATA
1 GTATCCATA
76635 TCGAAGGCTT
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
20 13 0.36
21 23 0.64
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (21 bp):
GTATCCATACCAGATGAACTG
Found at i:80757 original size:2 final size:2
Alignment explanation
Indices: 80750--80816 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
80740 TGTCGTAAAT
80750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80792 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
80817 TGTAGATTGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88866 original size:15 final size:15
Alignment explanation
Indices: 88824--88869 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
88814 AAATAAAATA
88824 AAATAAGTAAATAAT
1 AAATAAGTAAATAAT
*
88839 -AATAATGTTAATAAT
1 AAATAA-GTAAATAAT
*
88854 AAATAAATAAATAAT
1 AAATAAGTAAATAAT
88869 A
1 A
88870 TAAATACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
15 16 0.62
16 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (15 bp):
AAATAAGTAAATAAT
Found at i:88928 original size:2 final size:2
Alignment explanation
Indices: 88923--88984 Score: 51
Period size: 2 Copynumber: 32.5 Consensus size: 2
88913 TTTCAAAAAC
* *
88923 TA TA TA TA TA TC T- TA TA T- TA TA TA CTA TA TA TA TA -A TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
88963 TA TA GA -A TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
88985 TTTTTTCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
1 4 0.08
2 43 0.88
3 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:89065 original size:2 final size:2
Alignment explanation
Indices: 89017--89052 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
89007 ATTTCAAATG
89017 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89053 GTTTGTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90697 original size:46 final size:48
Alignment explanation
Indices: 90575--90703 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 48
90565 ATATAAATTT
* *
90575 CTTACC-TTTTATCCCATAAGCTCATAAGCTTA-TTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
* ** *
90621 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCAATATA
1 CTTACCATTT-AATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
* *
90670 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
90704 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 29 0.41
47 3 0.04
48 22 0.31
49 17 0.24
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (48 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
Found at i:90874 original size:38 final size:39
Alignment explanation
Indices: 90808--90887 Score: 144
Period size: 40 Copynumber: 2.1 Consensus size: 39
90798 ACCGTAGTGC
90808 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCA-ATACACCGAAGTGTAT
90848 TACACATAAGGTCGTGCCCACC-ATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCAATACACCGAAGTGTAT
90886 TA
1 TA
90888 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 18 0.45
40 22 0.55
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (39 bp):
TACACATAAGGTCGTGCCCACCAATACACCGAAGTGTAT
Done.