Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001245.1 Hibiscus syriacus cultivar Beakdansim tig00002447_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: 129817
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Found at i:1463 original size:2 final size:2
Alignment explanation
Indices: 1456--1626 Score: 204
Period size: 2 Copynumber: 86.5 Consensus size: 2
1446 CATGCATGCA
* * * * *
1456 TG TG TG TG TG TA TG TA TG TG TA TA TG TG TG TG TG TG TA TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1498 T- TG TG TG TG TG TG TG TG TG T- TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * * * *
1538 TG TG TG TG TG TG TG TG TG TA TG TG TA TA TG TA TG TG ATA TG TA
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG -TG TG TG
*
1581 TG TG TG TG TG TG TC TG T- TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1622 TG TG T
1 TG TG T
1627 TGGGAATGAC
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
1 3 0.02
2 141 0.97
3 1 0.01
ACGTcount: A:0.07, C:0.01, G:0.42, T:0.51
Consensus pattern (2 bp):
TG
Found at i:4376 original size:16 final size:16
Alignment explanation
Indices: 4357--4402 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
4347 GAGCTGAACG
4357 AGTAACGAGCTTAATA
1 AGTAACGAGCTTAATA
* * *
4373 AGTAACGGGCTTACTG
1 AGTAACGAGCTTAATA
*
4389 AGTAACAAGCTTAA
1 AGTAACGAGCTTAA
4403 CAAACAATAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (16 bp):
AGTAACGAGCTTAATA
Found at i:17338 original size:14 final size:14
Alignment explanation
Indices: 17296--17338 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
17286 AGAATTTCAG
17296 ATAAAGATAAAAAT-
1 ATAAA-ATAAAAATA
17310 ATAAGAAT-AAAATA
1 ATAA-AATAAAAATA
17324 ATAAAATAAAAATA
1 ATAAAATAAAAATA
17338 A
1 A
17339 ATAATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.31
14 17 0.65
15 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
ATAAAATAAAAATA
Found at i:21338 original size:11 final size:11
Alignment explanation
Indices: 21318--21372 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
21308 TTACTAAAAA
*
21318 TAAAATGAAAT
1 TAAAACGAAAT
21329 TAAAACGAAAT
1 TAAAACGAAAT
* *
21340 TAAAACAAAAA
1 TAAAACGAAAT
*
21351 TAAAACGAAAA
1 TAAAACGAAAT
21362 TAAAACGAAAT
1 TAAAACGAAAT
21373 GGGTTGCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.16
Consensus pattern (11 bp):
TAAAACGAAAT
Found at i:21343 original size:22 final size:22
Alignment explanation
Indices: 21314--21372 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
21304 AAGTTTACTA
*
21314 AAAATAAAATGAAATTAAAACG
1 AAAATAAAACGAAATTAAAACG
* * *
21336 AAATTAAAACAAAAATAAAACG
1 AAAATAAAACGAAATTAAAACG
21358 AAAATAAAACGAAAT
1 AAAATAAAACGAAAT
21373 GGGTTGCCTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.15
Consensus pattern (22 bp):
AAAATAAAACGAAATTAAAACG
Found at i:24552 original size:21 final size:21
Alignment explanation
Indices: 24522--24589 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
24512 ACTTTGGAAT
24522 TTTTCATGGGATGCAACCAGC
1 TTTTCATGGGATGCAACCAGC
* *
24543 TTTTCCTGGGATGCAACCAGT
1 TTTTCATGGGATGCAACCAGC
*
24564 TTTTCATGGGATGTAACCAGC
1 TTTTCATGGGATGCAACCAGC
24585 TTTTC
1 TTTTC
24590 TTGTGAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (21 bp):
TTTTCATGGGATGCAACCAGC
Found at i:26026 original size:21 final size:19
Alignment explanation
Indices: 26000--26050 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 19
25990 TATCAAGATA
26000 AAAATATAAGAATAAATTAAT
1 AAAATATAA-AATAAA-TAAT
26021 AAAATAATAAAATAAATAAT
1 AAAAT-ATAAAATAAATAAT
*
26041 TAAATATAAA
1 AAAATATAAA
26051 TCATTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.18
20 8 0.29
21 11 0.39
22 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATATAAAATAAATAAT
Found at i:32216 original size:26 final size:26
Alignment explanation
Indices: 32181--32233 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
32171 ATCGAGGTTG
* * *
32181 ATTTATTCATTTCAGAGCTTGATGGT
1 ATTTAGTCATTCCAGAGCTTGAAGGT
*
32207 ATTTAGTCATTCCAGTGCTTGAAGGT
1 ATTTAGTCATTCCAGAGCTTGAAGGT
32233 A
1 A
32234 CTTTGGGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGTCATTCCAGAGCTTGAAGGT
Found at i:34564 original size:18 final size:18
Alignment explanation
Indices: 34511--34553 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34501 TCTTCTTATT
*
34511 TTTACTTTAATTACTTTTA
1 TTTA-TTTAATCACTTTTA
34530 TTTATTTAATCACTTTTA
1 TTTATTTAATCACTTTTA
34548 -TTATTT
1 TTTATTT
34554 TAATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTAATCACTTTTA
Found at i:37449 original size:6 final size:6
Alignment explanation
Indices: 37438--37465 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
37428 ATTCCATTAC
37438 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
37466 CAATCGAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:40881 original size:94 final size:96
Alignment explanation
Indices: 40715--40895 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 96
40705 ATGAAGAAGG
* * **
40715 TATCGATACCATTGATTTACATAATACAGAAATGGTATCGATACCGTAATAGAGTATTTGTACCA
1 TATCGATACCATGGATTTACATAATACAGAAATGGTATCGATACCGTAAGAGAGTATCGGTACCA
* *
40780 TAGTATAGAAGTATCAGTACTAAGAGACATA
66 CAATATAGAAGTATCAGTACTAAGAGACATA
** * *
40811 TATCGATACCATGGA-TT-CATAATGTAGAAATGGTATCGATACTG-AAGGGGAGTATCGGTACC
1 TATCGATACCATGGATTTACATAATACAGAAATGGTATCGATACCGTAA-GAGAGTATCGGTACC
*
40873 ACAATATAGAAGTATCGGTACTA
65 ACAATATAGAAGTATCAGTACTA
40896 TAGTATAAGT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 2 0.03
94 55 0.75
95 2 0.03
96 14 0.19
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (96 bp):
TATCGATACCATGGATTTACATAATACAGAAATGGTATCGATACCGTAAGAGAGTATCGGTACCA
CAATATAGAAGTATCAGTACTAAGAGACATA
Found at i:40887 original size:22 final size:20
Alignment explanation
Indices: 40861--40915 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
40851 ACTGAAGGGG
40861 AGTATCGGTACCACAATATAGA
1 AGTATCGGTACCACAATAT--A
* * *
40883 AGTATCGGTACTATAGTATA
1 AGTATCGGTACCACAATATA
40903 AGTATCGGTACCA
1 AGTATCGGTACCA
40916 TAGTAGGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (20 bp):
AGTATCGGTACCACAATATA
Found at i:40907 original size:20 final size:20
Alignment explanation
Indices: 40861--40920 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
40851 ACTGAAGGGG
* *
40861 AGTATCGGTACCACAATATAGA
1 AGTATCGGTACCATAGTAT--A
*
40883 AGTATCGGTACTATAGTATA
1 AGTATCGGTACCATAGTATA
40903 AGTATCGGTACCATAGTA
1 AGTATCGGTACCATAGTA
40921 GGGGTATCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 18 0.53
22 16 0.47
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (20 bp):
AGTATCGGTACCATAGTATA
Found at i:41485 original size:53 final size:54
Alignment explanation
Indices: 41259--41538 Score: 337
Period size: 54 Copynumber: 5.2 Consensus size: 54
41249 CTATATGTAC
* * * *
41259 TTTTGGAACTATATGTGCAATCTATGAAATTCATCATAAGTTGATGAACAACCG
1 TTTTGGCACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCG
* * *
41313 TTTTGGCTCTATATGTGCAACCCACGAAATTCATCACAAGTTGATGAATAACCG
1 TTTTGGCACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCG
* * *
41367 TTTTGGCACTATATGTGCAACCCAGGGAATTCATCATAAGTTGATGAACAACCA
1 TTTTGGCACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCG
* * * * *
41421 TTTTGGCACTATGTGTGCAACCCA-GTAACTCGTCATATGTTGATGAACAACCG
1 TTTTGGCACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCG
* * * * * * **
41474 TTTAGGAACTATGTGTGCAACCCACGAAATTCATAATATGTTTATGAATGACCG
1 TTTTGGCACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCG
*
41528 TATTGGCACTA
1 TTTTGGCACTA
41539 CGTGTTCATT
Statistics
Matches: 194, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 46 0.24
54 148 0.76
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (54 bp):
TTTTGGCACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCG
Found at i:41534 original size:107 final size:108
Alignment explanation
Indices: 41263--41543 Score: 339
Period size: 107 Copynumber: 2.6 Consensus size: 108
41253 ATGTACTTTT
* * * * *
41263 GGAACTATATGTGCAATCTATGAAATTCATCATAAGTTGATGAACAACCGTTTTGGCTCTATATG
1 GGAACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCGTTTTGGCACTATGTG
* * *
41328 TGCAACCCACGAAATTCATCACAAGTTGATGAATAACCGTTTT
66 TGCAACCCACGAAACTCATCACAAGTTGATGAACAACCGTTTA
* * * *
41371 GGCACTATATGTGCAACCCAGGGAATTCATCATAAGTTGATGAACAACCATTTTGGCACTATGTG
1 GGAACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCGTTTTGGCACTATGTG
* * * *
41436 TGCAACCCA-GTAACTCGTCATATGTTGATGAACAACCGTTTA
66 TGCAACCCACGAAACTCATCACAAGTTGATGAACAACCGTTTA
* * * * ** * *
41478 GGAACTATGTGTGCAACCCACGAAATTCATAATATGTTTATGAATGACCGTATTGGCACTACGTG
1 GGAACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCGTTTTGGCACTATGTG
41543 T
66 T
41544 TCATTTCAAT
Statistics
Matches: 146, Mismatches: 27, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
107 80 0.55
108 66 0.45
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (108 bp):
GGAACTATATGTGCAACCCACGAAATTCATCATAAGTTGATGAACAACCGTTTTGGCACTATGTG
TGCAACCCACGAAACTCATCACAAGTTGATGAACAACCGTTTA
Found at i:42982 original size:20 final size:20
Alignment explanation
Indices: 42957--43008 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
42947 AGTTAAGGGA
42957 TGTACCGATACCCTATAGAG
1 TGTACCGATACCCTATAGAG
42977 TGTACCGATACCCTATAGAG
1 TGTACCGATACCCTATAGAG
42997 TGTACCGATACC
1 TGTACCGATACC
43009 TACCTTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (20 bp):
TGTACCGATACCCTATAGAG
Found at i:44369 original size:18 final size:18
Alignment explanation
Indices: 44323--44374 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
44313 GGATTATCAA
*
44323 TGGTCCTTCGGGATATAG
1 TGGTCCTTCGGGACATAG
44341 T-GTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
*
44358 TGGTCTTTCGGGACATA
1 TGGTCCTTCGGGACATA
44375 TTTCAGTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (18 bp):
TGGTCCTTCGGGACATAG
Found at i:48682 original size:17 final size:19
Alignment explanation
Indices: 48660--48701 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
48650 TGGTATGTGT
48660 TACATGATA-TGT-ATAAA
1 TACATGATAGTGTAATAAA
*
48677 TACATGTTAGTGTAATAAA
1 TACATGATAGTGTAATAAA
48696 T-CATGA
1 TACATGA
48702 GAATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (19 bp):
TACATGATAGTGTAATAAA
Found at i:49547 original size:30 final size:30
Alignment explanation
Indices: 49488--49547 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
49478 GAGCACATGA
* *
49488 AAATGTTATATGACCATGTGATTACATGTG
1 AAATGTTATACGACCATGTGATGACATGTG
** *
49518 AAATGTTATACGATTATGTGATGATATGTG
1 AAATGTTATACGACCATGTGATGACATGTG
49548 TAACTATGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (30 bp):
AAATGTTATACGACCATGTGATGACATGTG
Found at i:54760 original size:25 final size:22
Alignment explanation
Indices: 54731--54776 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
54721 TTTTTAACCC
54731 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
54756 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
54777 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:58569 original size:1 final size:1
Alignment explanation
Indices: 58565--58611 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
58555 GGTTTTTTGG
* * * *
58565 TTTTTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58612 GAAAAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:58570 original size:10 final size:10
Alignment explanation
Indices: 58557--58611 Score: 74
Period size: 10 Copynumber: 5.5 Consensus size: 10
58547 GAAATTTTGG
58557 TTTTTTGGTT
1 TTTTTTGGTT
*
58567 TTTTTTGTTT
1 TTTTTTGGTT
*
58577 TTTTTTGTTT
1 TTTTTTGGTT
*
58587 TTTTTTTGTT
1 TTTTTTGGTT
*
58597 TTTTTTTGTT
1 TTTTTTGGTT
58607 TTTTT
1 TTTTT
58612 GAAAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTGGTT
Found at i:58577 original size:8 final size:8
Alignment explanation
Indices: 58551--58612 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
58541 TTTTTTGAAA
*
58551 TTTTGGTT
1 TTTTTGTT
*
58559 TTTTGGTTT
1 TTTTTG-TT
58568 TTTTTGTT
1 TTTTTGTT
58576 TTTTT-TT
1 TTTTTGTT
58583 GTTTTT-TT
1 -TTTTTGTT
58591 TTTGTT-TT
1 TTT-TTGTT
58599 TTTTTGTT
1 TTTTTGTT
58607 TTTTTG
1 TTTTTG
58613 AAAAAAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
7 7 0.14
8 35 0.71
9 7 0.14
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTTTTGTT
Found at i:58589 original size:21 final size:21
Alignment explanation
Indices: 58557--58611 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
58547 GAAATTTTGG
*
58557 TTTTTTG-GTTTTTTTTGTTT
1 TTTTTTGTTTTTTTTTTGTTT
58577 TTTTTTGTTTTTTTTTTGTTT
1 TTTTTTGTTTTTTTTTTGTTT
58598 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
58612 GAAAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (21 bp):
TTTTTTGTTTTTTTTTTGTTT
Found at i:59489 original size:25 final size:22
Alignment explanation
Indices: 59460--59505 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
59450 TTTTTAACCC
59460 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
59485 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
59506 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:60855 original size:16 final size:18
Alignment explanation
Indices: 60831--60865 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
60821 ATTTTTACGA
60831 TTATGGATTTTAA-ATGT
1 TTATGGATTTTAAGATGT
60848 TTAT-GATTTTAAGATGT
1 TTATGGATTTTAAGATGT
60865 T
1 T
60866 GATAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (18 bp):
TTATGGATTTTAAGATGT
Found at i:65012 original size:30 final size:28
Alignment explanation
Indices: 64949--65020 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
64939 CATGCCATAC
* * *
64949 GTGGTCCTTCGAGACATATATGTTATAT
1 GTGGTCATTCGGGAGATATATGTTATAT
*
64977 GTGGTCATTTGGGAGATATATGTTATATGT
1 GTGGTCATTCGGGAGATATATGTTATA--T
65007 GTGGTCATTCGGGA
1 GTGGTCATTCGGGA
65021 CATTTACAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.62
30 14 0.38
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (28 bp):
GTGGTCATTCGGGAGATATATGTTATAT
Found at i:65335 original size:21 final size:21
Alignment explanation
Indices: 65311--65350 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65301 GATGTTAGTA
65311 ATAATAAGGATAATAATGAAC
1 ATAATAAGGATAATAATGAAC
* * *
65332 ATAATGAGGTTAATGATGA
1 ATAATAAGGATAATAATGA
65351 GATATGTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.28
Consensus pattern (21 bp):
ATAATAAGGATAATAATGAAC
Found at i:70189 original size:33 final size:32
Alignment explanation
Indices: 70131--70208 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
70121 TTTAAATAGT
* *
70131 TATTATTTTTTATATTAATATATTTATGTAAA
1 TATTATTTTTTATATAAATATATTTATATAAA
*
70163 TATTATTTTATTAT-TAAAATATATTTATATAAT
1 TATTATTTT-TTATAT-AAATATATTTATATAAA
70196 TATTATTTATTTA
1 TATTATTT-TTTA
70209 GAATTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
32 10 0.25
33 29 0.73
34 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (32 bp):
TATTATTTTTTATATAAATATATTTATATAAA
Found at i:70197 original size:19 final size:19
Alignment explanation
Indices: 70160--70197 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
70150 ATATTTATGT
*
70160 AAATATTATTTTATTATTA
1 AAATATTATTTTATAATTA
70179 AAATA-TATTTATATAATTA
1 AAATATTATTT-TATAATTA
70198 TTATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATATTATTTTATAATTA
Found at i:74231 original size:12 final size:13
Alignment explanation
Indices: 74198--74235 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
74188 AAATACATAA
74198 ATATATTTAATAT
1 ATATATTTAATAT
*
74211 ATTTATTTAATAT
1 ATATATTTAATAT
74224 A-ATATTTAATAT
1 ATATATTTAATAT
74236 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:74287 original size:23 final size:23
Alignment explanation
Indices: 74249--74305 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
74239 TAGTTATAAT
74249 TTTTACAT--TATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
74270 TTTTACATAATATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
74293 TTTTACATAATAT
1 TTTTACATAATAT
74306 TATTAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 8 0.24
23 26 0.76
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTTACATAATATAATCGAAACA
Found at i:81267 original size:20 final size:20
Alignment explanation
Indices: 81242--81290 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
81232 TACATTTGGC
81242 TATGAATCTCGAATATGAGA
1 TATGAATCTCGAATATGAGA
* *
81262 TATGAATGTGGAATATGAGA
1 TATGAATCTCGAATATGAGA
*
81282 CATGAATCT
1 TATGAATCT
81291 GAAAAGTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (20 bp):
TATGAATCTCGAATATGAGA
Found at i:85205 original size:27 final size:27
Alignment explanation
Indices: 85170--85233 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
85160 ATTTCAAAAT
85170 TATAATTATGAAATA-AATATTAATTTA
1 TATAATTAT-AAATAGAATATTAATTTA
* *
85197 TATATTTATAAATAGAATATTTATTTA
1 TATAATTATAAATAGAATATTAATTTA
* *
85224 TTTAGTTATA
1 TATAATTATA
85234 TCAGAAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (27 bp):
TATAATTATAAATAGAATATTAATTTA
Found at i:85628 original size:15 final size:14
Alignment explanation
Indices: 85598--85657 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
85588 TATCAAACGT
85598 AATAATAAAA-TAA
1 AATAATAAAATTAA
85611 AATAATAATAATTAA
1 AATAATAA-AATTAA
85626 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
85641 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
85656 AA
1 AA
85658 ACTAATGGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:86982 original size:3 final size:3
Alignment explanation
Indices: 86950--87029 Score: 115
Period size: 3 Copynumber: 26.0 Consensus size: 3
86940 TTGGGTTTTG
* * *
86950 TAA TAT TAA TAAA TAA TATA TAA TAT TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
86997 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
87030 ATTTAAATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:87296 original size:76 final size:76
Alignment explanation
Indices: 87170--87861 Score: 1339
Period size: 76 Copynumber: 9.1 Consensus size: 76
87160 AAATGCTTGA
*
87170 AAACATCATGTACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87235 AGGCTTTTTGG
66 AGGCTTTTTGG
87246 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87311 AGGCTTTTTGG
66 AGGCTTTTTGG
*
87322 AAACATCATGCACTGCATGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87387 AGGCTTTTTGG
66 AGGCTTTTTGG
87398 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87463 AGGCTTTTTGG
66 AGGCTTTTTGG
87474 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87539 AGGCTTTTTGG
66 AGGCTTTTTGG
87550 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87615 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
87626 AAACATCATGCACTGCAAGACTTACAGATGATCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87691 AGGCTTTTTGG
66 AGGCTTTTTGG
87702 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87767 AGGCTTTTTGG
66 AGGCTTTTTGG
87778 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
87843 AGGCTTTTTGG
66 AGGCTTTTTGG
*
87854 AAATATCA
1 AAACATCA
87862 AAAAGCTCCC
Statistics
Matches: 608, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 608 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:87865 original size:31 final size:32
Alignment explanation
Indices: 87818--87893 Score: 127
Period size: 31 Copynumber: 2.4 Consensus size: 32
87808 ACCCTAAGGC
*
87818 TTTGAAAACATCAAAAAGCTCCCGAAGGC-TT
1 TTTGGAAACATCAAAAAGCTCCCGAAGGCTTT
*
87849 TTTGGAAATATCAAAAAGCTCCCGAAGGCTTT
1 TTTGGAAACATCAAAAAGCTCCCGAAGGCTTT
87881 TTTGGAAACATCA
1 TTTGGAAACATCA
87894 TGCACTGCAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 27 0.66
32 14 0.34
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (32 bp):
TTTGGAAACATCAAAAAGCTCCCGAAGGCTTT
Found at i:88784 original size:22 final size:22
Alignment explanation
Indices: 88759--88813 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
88749 AATAAAGCTT
88759 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
88781 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
88803 TCATCTTTGAA
1 TCATCTTTGAA
88814 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:89263 original size:54 final size:54
Alignment explanation
Indices: 89180--89390 Score: 350
Period size: 54 Copynumber: 3.9 Consensus size: 54
89170 AGAATAACTA
* *
89180 GTTCGTAAAACATTTTGACAACGCATTCATCCTTTCCCGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACA-TTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* *
89235 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * *
89289 GTGCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
89343 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
89391 CAAGATTTCT
Statistics
Matches: 148, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
54 136 0.92
55 12 0.08
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:93531 original size:17 final size:15
Alignment explanation
Indices: 93507--93566 Score: 70
Period size: 15 Copynumber: 3.9 Consensus size: 15
93497 CAATTTCTCC
93507 TTTTTTTCTTCTTTT
1 TTTTTTTCTTCTTTT
*
93522 TTCCTTTTTCATC-TTT
1 TT--TTTTTCTTCTTTT
93538 TTTTTTTCTT-TTTCT
1 TTTTTTTCTTCTTT-T
93553 TTTTTTTCTTCTTT
1 TTTTTTTCTTCTTT
93567 GCTGGATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 9 0.24
15 13 0.34
16 8 0.21
17 8 0.21
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTCTTCTTTT
Found at i:93558 original size:20 final size:20
Alignment explanation
Indices: 93504--93559 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
93494 ATTCAATTTC
* *
93504 TCCTTTTT-TTCTTCTTTTT
1 TCCTTTTTCATCTTTTTTTT
93523 TCCTTTTTCATCTTTTTTTT
1 TCCTTTTTCATCTTTTTTTT
*
93543 TTCTTTTTC-T-TTTTTTT
1 TCCTTTTTCATCTTTTTTT
93560 CTTCTTTGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.21
19 9 0.27
20 17 0.52
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (20 bp):
TCCTTTTTCATCTTTTTTTT
Found at i:96437 original size:21 final size:21
Alignment explanation
Indices: 96424--96463 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96414 AAAAGTAAGA
*
96424 ATACAAAATGAAAATGCATAG
1 ATACAAAATGAAAAAGCATAG
* *
96445 ATACAAAATGTAAATGCAT
1 ATACAAAATGAAAAAGCAT
96464 GTATGAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
ATACAAAATGAAAAAGCATAG
Found at i:99116 original size:27 final size:26
Alignment explanation
Indices: 99054--99117 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
99044 ATTTCAAAAT
*
99054 TATAATTATGAAATAAATATCAATTTA
1 TATAGTTAT-AAATAAATATCAATTTA
* **
99081 TATATTTATAAATAGAATATTTATTTA
1 TATAGTTATAAATA-AATATCAATTTA
*
99108 TTTAGTTATA
1 TATAGTTATA
99118 TCAAAAAGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (26 bp):
TATAGTTATAAATAAATATCAATTTA
Found at i:99425 original size:14 final size:15
Alignment explanation
Indices: 99395--99427 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
99385 AATAGAATAA
99395 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
99410 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
99424 ATAA
1 ATAA
99428 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:100046 original size:11 final size:12
Alignment explanation
Indices: 100021--100049 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
100011 AGCAGCCTCA
100021 TTCTCTTCATTC
1 TTCTCTTCATTC
100033 TTCTCTTC-TTC
1 TTCTCTTCATTC
100044 TTCTCT
1 TTCTCT
100050 CTCAAAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (12 bp):
TTCTCTTCATTC
Found at i:104229 original size:53 final size:53
Alignment explanation
Indices: 104166--104282 Score: 182
Period size: 53 Copynumber: 2.2 Consensus size: 53
104156 ATTGCACCTA
* *
104166 AGTGCCGAAAT-GTCAATTCATAAACTCATTATGAATTCCATGGATGAACACAT
1 AGTGCCGAAATGGT-AATTCACAAACTCATTATGAATACCATGGATGAACACAT
* *
104219 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGGTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGAACACAT
104272 AGTGCCGAAAT
1 AGTGCCGAAAT
104283 TACACATAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 57 0.97
54 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (53 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGAACACAT
Found at i:105618 original size:16 final size:15
Alignment explanation
Indices: 105594--105626 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
105584 AGTTTTCATA
105594 TTTTTCTTTTTCCCT
1 TTTTTCTTTTTCCCT
105609 TTTTTCCTTTTTCCCT
1 TTTTT-CTTTTTCCCT
105625 TT
1 TT
105627 CTCAACCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCTTTTTCCCT
Found at i:113520 original size:28 final size:28
Alignment explanation
Indices: 113459--113521 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
113449 ATTCTGGAAT
*
113459 ATGATATATGAATATGTAAAGTGAAAGTA
1 ATGA-ATATGAATATGTAAAGTGAAAGAA
* *
113488 TTGAATATGAATTTG-AAATGTGAAAGAA
1 ATGAATATGAATATGTAAA-GTGAAAGAA
113516 ATGAAT
1 ATGAAT
113522 TGTGATCGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 23 0.79
29 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.32
Consensus pattern (28 bp):
ATGAATATGAATATGTAAAGTGAAAGAA
Found at i:116956 original size:22 final size:23
Alignment explanation
Indices: 116920--116975 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
116910 CAAGAACTAC
116920 TCCTTTCTT-GAAAAATATTTT-T
1 TCCTTTCTTAG-AAAATATTTTCT
116942 CTCC-TTCTTAGAAAATATTTTCT
1 -TCCTTTCTTAGAAAATATTTTCT
116965 TCCTTTCTTAG
1 TCCTTTCTTAG
116976 TTTTTCGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.52
Consensus pattern (23 bp):
TCCTTTCTTAGAAAATATTTTCT
Found at i:121666 original size:18 final size:19
Alignment explanation
Indices: 121603--121656 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 19
121593 ATCCAACATT
*
121603 TTTATTTATTTCTTTGATTTCCT
1 TTTA-TTATTT-TTT-ATTT-CA
*
121626 TTTATTATTTTTTATTTTA
1 TTTATTATTTTTTATTTCA
121645 TTTATTATTTTT
1 TTTATTATTTTT
121657 ATTCACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 3 0.10
22 6 0.21
23 4 0.14
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTATTATTTTTTATTTCA
Done.