Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014446.1 Corchorus capsularis cultivar CVL-1 contig14467, 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: 46990
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:860 original size:21 final size:21
Alignment explanation
Indices: 834--878 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
824 TAAGATCAAT
*
834 GTGTTATATATAGATCAACAA
1 GTGTTATATATAGACCAACAA
855 GTGTTATATATAGACCAACAA
1 GTGTTATATATAGACCAACAA
876 GTG
1 GTG
879 ATTGGTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (21 bp):
GTGTTATATATAGACCAACAA
Found at i:6239 original size:58 final size:59
Alignment explanation
Indices: 6136--6246 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 59
6126 AAGTGGTTAC
*
6136 GGTCTTATAAAATACCCTAGGGAATCCTAATTTCACTACGATAAGGAAGTCTTTTTTAA
1 GGTCTTATAAAATACCCTAGGGAATCCTAATTTCACTACGATAAGGAACTCTTTTTTAA
* * *
6195 GGTCTTATAAAATACCCTA-GTAATCCTAATTTCATTATGATAAGGAACTCTT
1 GGTCTTATAAAATACCCTAGGGAATCCTAATTTCACTACGATAAGGAACTCTT
6247 ATTATTTACT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
58 29 0.60
59 19 0.40
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (59 bp):
GGTCTTATAAAATACCCTAGGGAATCCTAATTTCACTACGATAAGGAACTCTTTTTTAA
Found at i:8911 original size:1 final size:1
Alignment explanation
Indices: 8907--8938 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
8897 TAATTATATT
8907 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8939 GAGGAATCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17685 original size:21 final size:21
Alignment explanation
Indices: 17661--17724 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
17651 TCTTTAGCTT
17661 CCGCTACAATCTCCATCTTCG
1 CCGCTACAATCTCCATCTTCG
* ** *
17682 CCGCGT-C-TTCTTTAGCTT--
1 CCGC-TACAATCTCCATCTTCG
17700 CCGCTACAATCTCCATCTTCG
1 CCGCTACAATCTCCATCTTCG
17721 CCGC
1 CCGC
17725 GTCTTCTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 7 0.23
20 7 0.23
21 9 0.30
22 1 0.03
ACGTcount: A:0.14, C:0.42, G:0.12, T:0.31
Consensus pattern (21 bp):
CCGCTACAATCTCCATCTTCG
Found at i:17702 original size:39 final size:39
Alignment explanation
Indices: 17648--17760 Score: 210
Period size: 39 Copynumber: 2.9 Consensus size: 39
17638 CATAATGACA
17648 TCTTCTTTAGCTTCCGCTACAATCTCCATCTTCGCCGCG
1 TCTTCTTTAGCTTCCGCTACAATCTCCATCTTCGCCGCG
17687 TCTTCTTTAGCTTCCGCTACAATCTCCATCTTCGCCGCG
1 TCTTCTTTAGCTTCCGCTACAATCTCCATCTTCGCCGCG
17726 TCTTCTTTAGCTTCCGC-ATCAATCTCCATCTTCGC
1 TCTTCTTTAGCTTCCGCTA-CAATCTCCATCTTCGC
17761 TGCGCCATTT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
38 1 0.01
39 72 0.99
ACGTcount: A:0.13, C:0.38, G:0.12, T:0.37
Consensus pattern (39 bp):
TCTTCTTTAGCTTCCGCTACAATCTCCATCTTCGCCGCG
Found at i:36012 original size:60 final size:60
Alignment explanation
Indices: 35936--36057 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
35926 GAGATTACAG
35936 AGCCTTTCACACCAAAATTAAACATGGAACCTAATTACCTAATAAACACAAGATAGCAAT
1 AGCCTTTCACACCAAAATTAAACATGGAACCTAATTACCTAATAAACACAAGATAGCAAT
*
35996 AGCCTTTCACGCCAAAATTAAACATGGAACCTAATTACCTAATAAACACAAGATAGCAAT
1 AGCCTTTCACACCAAAATTAAACATGGAACCTAATTACCTAATAAACACAAGATAGCAAT
36056 AG
1 AG
36058 TAGGAGTCGG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (60 bp):
AGCCTTTCACACCAAAATTAAACATGGAACCTAATTACCTAATAAACACAAGATAGCAAT
Found at i:36282 original size:27 final size:27
Alignment explanation
Indices: 36252--36339 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
36242 TCCTTTGCCT
*
36252 TTCTTCTTCCTGTCTTCTGGCCGCTTC
1 TTCTTCTTCCTGTCTTCTGGCTGCTTC
* * ** *
36279 TTCTTCTTCCTCTGCTTCCGTTTGCCT-
1 TTCTTCTTCCTGT-CTTCTGGCTGCTTC
* *
36306 TTCTTCTTCCTGCCTCCTGGCTGCTTC
1 TTCTTCTTCCTGTCTTCTGGCTGCTTC
36333 TTCTTCT
1 TTCTTCT
36340 GCTCGCCTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
26 8 0.17
27 30 0.65
28 8 0.17
ACGTcount: A:0.00, C:0.38, G:0.12, T:0.50
Consensus pattern (27 bp):
TTCTTCTTCCTGTCTTCTGGCTGCTTC
Found at i:36293 original size:54 final size:50
Alignment explanation
Indices: 36235--36436 Score: 257
Period size: 51 Copynumber: 4.0 Consensus size: 50
36225 GGCCTCTTTT
* *
36235 TCTGCTCTCCTTTGCCTTTCTTCTTCCTGTCTTCTGGCCGCTTCTTCTTCTTCC
1 TCTGCTCGCCTTTGCCTTTCTTCTTCCTGTCTCCT-G--GCTTCTTCTTCTT-C
* * *
36289 TCTGCTTC-CGTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCTTCTTC-T-
1 TCTGC-TCGCCTTTGCCTTTCTTCTTCCTGTCTCCTGGCTTCTTCTTCTTC
*
36337 TCTGCTCGCCTTTGCCTTTCTTCTTCCTCTCTCCTGGCTTCTTCTTCTTC
1 TCTGCTCGCCTTTGCCTTTCTTCTTCCTGTCTCCTGGCTTCTTCTTCTTC
* *
36387 TTCAGCTCGCCTTTGCCTTTCTTTTTCCTGTCTCCTGGCTTCTTCTTCTT
1 -TCTGCTCGCCTTTGCCTTTCTTCTTCCTGTCTCCTGGCTTCTTCTTCTT
36437 TTGTTCTCCT
Statistics
Matches: 132, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
47 2 0.02
48 40 0.30
49 1 0.01
50 1 0.01
51 56 0.42
53 1 0.01
54 29 0.22
55 2 0.02
ACGTcount: A:0.00, C:0.38, G:0.12, T:0.50
Consensus pattern (50 bp):
TCTGCTCGCCTTTGCCTTTCTTCTTCCTGTCTCCTGGCTTCTTCTTCTTC
Found at i:36333 original size:24 final size:25
Alignment explanation
Indices: 36306--36488 Score: 87
Period size: 24 Copynumber: 7.4 Consensus size: 25
36296 CCGTTTGCCT
36306 TTCTTCTTCCTGC-CTCCTGGCTGC
1 TTCTTCTTCCTGCTCTCCTGGCTGC
* *
36330 TTCTTCTT-CTGCTCGCCT--TTGCC
1 TTCTTCTTCCTGCTCTCCTGGCTG-C
*
36353 TTTCTTCTTCCT-CTCTCCTGGCTTC
1 -TTCTTCTTCCTGCTCTCCTGGCTGC
* * *
36378 TTCTTCTTCTTCAGCTCGCCT--TTGCC
1 TTCTTCTTC--CTGCTCTCCTGGCTG-C
* *
36404 TTTCTTTTTCCTG-TCTCCTGGCTTC
1 -TTCTTCTTCCTGCTCTCCTGGCTGC
* * ** *
36429 TTCTTCTT-TTGTTCTCCTTCCTTC
1 TTCTTCTTCCTGCTCTCCTGGCTGC
* * *
36453 TTCCTCTTCCTCTCTCCTCCTGGCTTC
1 TTCTTCTTCCT-GCT-CTCCTGGCTGC
36480 TTCTTCTTC
1 TTCTTCTTC
36489 TTCCTCCCTC
Statistics
Matches: 117, Mismatches: 25, Indels: 31
0.68 0.14 0.18
Matches are distributed among these distances:
22 2 0.02
23 7 0.06
24 64 0.55
25 8 0.07
26 5 0.04
27 31 0.26
ACGTcount: A:0.01, C:0.39, G:0.10, T:0.51
Consensus pattern (25 bp):
TTCTTCTTCCTGCTCTCCTGGCTGC
Found at i:36351 original size:48 final size:49
Alignment explanation
Indices: 36229--36436 Score: 233
Period size: 48 Copynumber: 4.1 Consensus size: 49
36219 TCTCCTGGCC
* * * * *
36229 TCTTTTTC-TGCTCTCCTTTGCCTTTCTTCTTCCTGTCTTCTGGCCGCT
1 TCTTCTTCTTGCTCGCCTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
*
36277 TCTTCTTCTTCCTCTGCTTCCGTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
1 TCTTCTTCTTGCTC-G---CC-TTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
*
36331 TCTTCTTC-TGCTCGCCTTTGCCTTTCTTCTTCCT-CTCTCCTGGCTTCT
1 TCTTCTTCTTGCTCGCCTTTGCCTTTCTTCTTCCTGC-CTCCTGGCTGCT
* * *
36379 TCTTCTTCTTCAGCTCGCCTTTGCCTTTCTTTTTCCTGTCTCCTGGCTTCT
1 TCTTCTTCTT--GCTCGCCTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
36430 TCTTCTT
1 TCTTCTT
36437 TTGTTCTCCT
Statistics
Matches: 139, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
47 1 0.01
48 44 0.32
49 7 0.05
51 43 0.31
52 1 0.01
53 6 0.04
54 37 0.27
ACGTcount: A:0.00, C:0.37, G:0.12, T:0.51
Consensus pattern (49 bp):
TCTTCTTCTTGCTCGCCTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
Found at i:36388 original size:27 final size:26
Alignment explanation
Indices: 36354--36718 Score: 160
Period size: 24 Copynumber: 14.5 Consensus size: 26
36344 GCCTTTGCCT
36354 TTCTTCTTCCTCTCTCCTGGCTTCTTC
1 TTCTTCTT-CTCTCTCCTGGCTTCTTC
* * * *
36381 TTCTTCTTCAGCTCGCCTTTGCCT-TTC
1 TTCTTCTTC-TCTCTCC-TGGCTTCTTC
* *
36408 TT-TT-TCCTGTCTCCTGGCTTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* **
36432 TTCTT-TTGT-TCTCCTTCCTTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* *
36456 CTCTTCCTCTCTCCTCCTGGCTTCTTC
1 TTCTTCTTCTCT-CTCCTGGCTTCTTC
*
36483 TTCTTCTTCCTCCCTCCTCCTAGCTTCTTC
1 TTCTTCTT-CT--CT-CTCCTGGCTTCTTC
* * *
36513 TTCTTCCTT-TCTCCTTCTGGCCTCCTC
1 TTCTT-CTTCTCT-CTCCTGGCTTCTTC
* * *
36540 TTCCTC-TCTCGC-CCTCGCTTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* *
36564 TTCCTC-TCTCTC-CCTTGCTTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* * * *
36588 TTCCTC-TCTCT-TTCTAGCCTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* * *
36612 TTCCTC-TCT-TTTTCTGGCTTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* * * *
36636 TTCCTC-TCTCT-TTCTAGCCTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* * *
36660 TTCCTC-TCT-TTTTCTGGCTTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
* * *
36684 TTCCTC-TCTCT-TTCTAGCTTCTTC
1 TTCTTCTTCTCTCTCCTGGCTTCTTC
36708 TTCTTC-TCTCT
1 TTCTTCTTCTCT
36719 TTCTAGCCTC
Statistics
Matches: 276, Mismatches: 45, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
23 6 0.02
24 167 0.61
25 12 0.04
26 7 0.03
27 53 0.19
28 6 0.02
29 1 0.00
30 21 0.08
31 3 0.01
ACGTcount: A:0.01, C:0.41, G:0.07, T:0.52
Consensus pattern (26 bp):
TTCTTCTTCTCTCTCCTGGCTTCTTC
Found at i:36436 original size:99 final size:99
Alignment explanation
Indices: 36229--36491 Score: 307
Period size: 99 Copynumber: 2.6 Consensus size: 99
36219 TCTCCTGGCC
* * * * *
36229 TCTTTTTCTGCTCTCCTTTGCCTTTCTTCTTCCTGTCTTCTGGCCGCTTCTTCTTCTTCCTCTGC
1 TCTTCTTCTGCTCTCCTTTGCCTTTCTTCTTCCTCTCTCCT-G--GCTTCTTCTTCTTCTTCAGC
*
36294 TTCCGTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
63 TTCCCTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
*
36331 TCTTCTTCTGCTCGCCTTTGCCTTTCTTCTTCCTCTCTCCTGGCTTCTTCTTCTTCTTCAGC-TC
1 TCTTCTTCTGCTCTCCTTTGCCTTTCTTCTTCCTCTCTCCTGGCTTCTTCTTCTTCTTCAGCTTC
* * *
36395 GCCTTTGCCTTTCTTTTTCCTGTCTCCTGGCTTCT
66 -CCTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
* * *
36430 TCTTCTTTTGTTCTCC-TT-CCTTCTTCCTCTTCCTCTCTCCTCCTGGCTTCTTCTTCTTCTTC
1 TCTTCTTCTGCTCTCCTTTGCC-T-TTCTTCTT-C-CTCT-CTCCTGGCTTCTTCTTCTTCTTC
36492 CTCCCTCCTC
Statistics
Matches: 141, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
97 2 0.01
98 5 0.04
99 68 0.48
100 1 0.01
101 5 0.04
102 60 0.43
ACGTcount: A:0.00, C:0.38, G:0.10, T:0.51
Consensus pattern (99 bp):
TCTTCTTCTGCTCTCCTTTGCCTTTCTTCTTCCTCTCTCCTGGCTTCTTCTTCTTCTTCAGCTTC
CCTTTGCCTTTCTTCTTCCTGCCTCCTGGCTGCT
Found at i:36463 original size:48 final size:49
Alignment explanation
Indices: 36310--36487 Score: 172
Period size: 51 Copynumber: 3.6 Consensus size: 49
36300 TTGCCTTTCT
* *
36310 TCTTCCTGC-CTCCTGGCTGCTTCTTCTTCTGCTCGCCTTTGCC-T-TTC
1 TCTTCCT-CTCTCCTGGCTTCTTCTTCTTTTGCTCGCCTTTGCCTTCTTC
36357 TTCTTCCTCTCTCCTGGCTTCTTCTTCTTCTTCAGCTCGCCTTTGCCTTTCTT-
1 -TCTTCCTCTCTCCTGGCTTCTTCTTCTT-TT--GCTCGCCTTTGCC-TTCTTC
* * *
36410 T-TTCCTGTCTCCTGGCTTCTTCTTCTTTTGTTCTCC-TT-CCTTCTTCC
1 TCTTCCTCTCTCCTGGCTTCTTCTTCTTTTGCTCGCCTTTGCCTTCTT-C
36457 TCTTCCTCTCTCCTCCTGGCTTCTTCTTCTT
1 TCTT-C-CTCT-CTCCTGGCTTCTTCTTCTT
36488 CTTCCTCCCT
Statistics
Matches: 111, Mismatches: 6, Indels: 23
0.79 0.04 0.16
Matches are distributed among these distances:
45 5 0.05
46 2 0.02
47 4 0.04
48 32 0.29
49 2 0.02
50 5 0.05
51 57 0.51
52 1 0.01
53 1 0.01
54 2 0.02
ACGTcount: A:0.01, C:0.39, G:0.10, T:0.51
Consensus pattern (49 bp):
TCTTCCTCTCTCCTGGCTTCTTCTTCTTTTGCTCGCCTTTGCCTTCTTC
Found at i:36483 original size:30 final size:30
Alignment explanation
Indices: 36449--36594 Score: 117
Period size: 30 Copynumber: 5.4 Consensus size: 30
36439 GTTCTCCTTC
36449 CTTCTTCCTCTTCCTCTCTCCTCCTGGCTT
1 CTTCTTCCTCTTCCTCTCTCCTCCTGGCTT
* * *
36479 CTTCTTCTTCTTCCTCCCTCCTCCTAGCTT
1 CTTCTTCCTCTTCCTCTCTCCTCCTGGCTT
* *
36509 CTTC-T--TCTTCCTTTCTCCTTCTGG---
1 CTTCTTCCTCTTCCTCTCTCCTCCTGGCTT
*
36533 C--C-TCCTCTTCCTCTCTCGC-CCTCGCTT
1 CTTCTTCCTCTTCCTCTCTC-CTCCTGGCTT
36560 CTTCTTCCTC-T-CTCTC-CCT--T-GCTT
1 CTTCTTCCTCTTCCTCTCTCCTCCTGGCTT
36584 CTTCTTCCTCT
1 CTTCTTCCTCT
36595 CTCTTTCTAG
Statistics
Matches: 95, Mismatches: 10, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
22 2 0.02
24 29 0.31
25 2 0.02
26 1 0.01
27 17 0.18
28 5 0.05
29 3 0.03
30 36 0.38
ACGTcount: A:0.01, C:0.47, G:0.05, T:0.47
Consensus pattern (30 bp):
CTTCTTCCTCTTCCTCTCTCCTCCTGGCTT
Found at i:36514 original size:24 final size:24
Alignment explanation
Indices: 36482--36736 Score: 267
Period size: 24 Copynumber: 10.5 Consensus size: 24
36472 CTGGCTTCTT
* * *
36482 CTTCTTCTTCCTCCCTCCTCCTAG
1 CTTCTTCTTCCTCTCTCTTTCTAG
* * *
36506 CTTCTTCTTCTTCCTTTCTCCTTCTGG
1 ---CTTCTTCTTCCTCTCTCTTTCTAG
* * *** *
36533 CCTCCTCTTCCTCTCTCGCCCTCG
1 CTTCTTCTTCCTCTCTCTTTCTAG
** *
36557 CTTCTTCTTCCTCTCTCTCCCTTG
1 CTTCTTCTTCCTCTCTCTTTCTAG
36581 CTTCTTCTTCCTCTCTCTTTCTAG
1 CTTCTTCTTCCTCTCTCTTTCTAG
* * *
36605 CCTCTTCTTCCTCTCTTTTTCTGG
1 CTTCTTCTTCCTCTCTCTTTCTAG
36629 CTTCTTCTTCCTCTCTCTTTCTAG
1 CTTCTTCTTCCTCTCTCTTTCTAG
* * *
36653 CCTCTTCTTCCTCTCTTTTTCTGG
1 CTTCTTCTTCCTCTCTCTTTCTAG
36677 CTTCTTCTTCCTCTCTCTTTCTAG
1 CTTCTTCTTCCTCTCTCTTTCTAG
*
36701 CTTCTTCTTCTTCTCTCTTTCTAG
1 CTTCTTCTTCCTCTCTCTTTCTAG
* *
36725 CCTCCTCTTCCT
1 CTTCTTCTTCCT
36737 GCCTTTCCCT
Statistics
Matches: 194, Mismatches: 34, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
24 174 0.90
27 20 0.10
ACGTcount: A:0.02, C:0.42, G:0.05, T:0.51
Consensus pattern (24 bp):
CTTCTTCTTCCTCTCTCTTTCTAG
Found at i:36525 original size:81 final size:81
Alignment explanation
Indices: 36418--36566 Score: 205
Period size: 81 Copynumber: 1.8 Consensus size: 81
36408 TTTTTCCTGT
* * * * *
36418 CTCCTGGCTTCTTCTTCTTTTGTTCTCCTTCCT-TCTTCCTCTTCCTCTCTC-CTCCTGGCTTCT
1 CTCCTAGCTTCTTCTTCTTCTGTTCTCCTT-CTGGCCTCCTCTTCCTCTCTCGC-CCTCGCTTCT
36481 TCTTCTTCTTCCTCCCTC
64 TCTTCTTCTTCCTCCCTC
36499 CTCCTAGCTTCTTCTTCTTCCT-TTCTCCTTCTGGCCTCCTCTTCCTCTCTCGCCCTCGCTTCTT
1 CTCCTAGCTTCTTCTTCTT-CTGTTCTCCTTCTGGCCTCCTCTTCCTCTCTCGCCCTCGCTTCTT
36563 CTTC
65 CTTC
36567 CTCTCTCTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 2 0.03
81 56 0.93
82 2 0.03
ACGTcount: A:0.01, C:0.44, G:0.07, T:0.48
Consensus pattern (81 bp):
CTCCTAGCTTCTTCTTCTTCTGTTCTCCTTCTGGCCTCCTCTTCCTCTCTCGCCCTCGCTTCTTC
TTCTTCTTCCTCCCTC
Found at i:36719 original size:72 final size:72
Alignment explanation
Indices: 36482--36736 Score: 294
Period size: 72 Copynumber: 3.5 Consensus size: 72
36472 CTGGCTTCTT
* * * * * *
36482 CTTCTTCTTCCTCCCTCCTCCTAGCTTCTTCTTCTTCCTTTCTCCTTCTGGCCTCCTCTTCCTCT
1 CTTCTTCTTCCTCTCTCTTTCTAGC--C-TCTTCTTCCTCTCTCTTTCTGGCCTCTTCTTCCTCT
*** *
36547 CTCGCCCTCG
63 CTCTTTCTAG
** * * * *
36557 CTTCTTCTTCCTCTCTCTCCCTTGCTTCTTCTTCCTCTCTCTTTCTAGCCTCTTCTTCCTCTCTT
1 CTTCTTCTTCCTCTCTCTTTCTAGCCTCTTCTTCCTCTCTCTTTCTGGCCTCTTCTTCCTCTCTC
*
36622 TTTCTGG
66 TTTCTAG
* *
36629 CTTCTTCTTCCTCTCTCTTTCTAGCCTCTTCTTCCTCTCTTTTTCTGGCTTCTTCTTCCTCTCTC
1 CTTCTTCTTCCTCTCTCTTTCTAGCCTCTTCTTCCTCTCTCTTTCTGGCCTCTTCTTCCTCTCTC
36694 TTTCTAG
66 TTTCTAG
* *
36701 CTTCTTCTTCTTCTCTCTTTCTAGCCTCCTCTTCCT
1 CTTCTTCTTCCTCTCTCTTTCTAGCCTCTTCTTCCT
36737 GCCTTTCCCT
Statistics
Matches: 155, Mismatches: 25, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
72 134 0.86
75 21 0.14
ACGTcount: A:0.02, C:0.42, G:0.05, T:0.51
Consensus pattern (72 bp):
CTTCTTCTTCCTCTCTCTTTCTAGCCTCTTCTTCCTCTCTCTTTCTGGCCTCTTCTTCCTCTCTC
TTTCTAG
Found at i:36761 original size:72 final size:72
Alignment explanation
Indices: 36556--36761 Score: 193
Period size: 72 Copynumber: 2.9 Consensus size: 72
36546 TCTCGCCCTC
** * * * * * * *
36556 GCTTCTTCTTCCTCTCTCTCCCTTGCTTCTTCTTCCTCTCTCTT-TCTAGCCTCTTCTTCCTCTC
1 GCTTCTTCTTCCTCTCTCTTTCTAGCCTCCTCTTCCTCTCT-TTCCCTCGCATCTTCCTCCTCTC
* *
36620 TTTTTCTG
65 TCTTTCTA
* ** * * *
36628 GCTTCTTCTTCCTCTCTCTTTCTAGCCTCTTCTTCCTCTCTTTTTCTGGCTTCTTCTTCCTCTCT
1 GCTTCTTCTTCCTCTCTCTTTCTAGCCTCCTCTTCCTCTCTTTCCCTCGCATCTTCCTCCTCTCT
36693 CTTTCTA
66 CTTTCTA
* *
36700 GCTTCTTCTTCTTCTCTCTTTCTAGCCTCCTCTTCCTGC-CTTTCCCTCTCAAT-TTCCTCCTC
1 GCTTCTTCTTCCTCTCTCTTTCTAGCCTCCTCTTCCT-CTCTTTCCCTCGC-ATCTTCCTCCTC
36762 CATTTTGCTT
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
71 2 0.02
72 111 0.97
73 2 0.02
ACGTcount: A:0.03, C:0.40, G:0.05, T:0.51
Consensus pattern (72 bp):
GCTTCTTCTTCCTCTCTCTTTCTAGCCTCCTCTTCCTCTCTTTCCCTCGCATCTTCCTCCTCTCT
CTTTCTA
Found at i:46970 original size:2 final size:2
Alignment explanation
Indices: 46963--46989 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46953 GTTATCCAGG
46963 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 A
46990 G
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.