Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004318.1 Hibiscus syriacus cultivar Beakdansim tig00009469_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: 51451
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Found at i:1518 original size:30 final size:30
Alignment explanation
Indices: 1465--1523 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1455 TTAATTCTTG
* *
1465 AACTTTCCAAAGTTTATACTTTGGCCACTT
1 AACTTTCCAAAATTTACACTTTGGCCACTT
* *
1495 AACTTTCCAAAATTTACATTTTGGTCACT
1 AACTTTCCAAAATTTACACTTTGGCCACT
1524 AACCAATACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (30 bp):
AACTTTCCAAAATTTACACTTTGGCCACTT
Found at i:4380 original size:30 final size:30
Alignment explanation
Indices: 4346--4417 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
4336 AATCTCATGT
* *
4346 AGATGTCAGAATGAGGAATTTATCCTATGC
1 AGATGTCAGAATGAGGAATTTATCCCATAC
* * *
4376 AGATGTCAGAACGGGGAGTTTATCCCATAC
1 AGATGTCAGAATGAGGAATTTATCCCATAC
4406 AGATGTCAGAAT
1 AGATGTCAGAAT
4418 AGGGAACGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (30 bp):
AGATGTCAGAATGAGGAATTTATCCCATAC
Found at i:4497 original size:29 final size:29
Alignment explanation
Indices: 4429--4588 Score: 155
Period size: 29 Copynumber: 5.6 Consensus size: 29
4419 GGGAACGAGG
* * * * *
4429 TCCCATACAGAATCAAGATGAGGACT-AA
1 TCCCATGCAGAATCAGGACGAGAAATAAA
* *
4457 TCCCGTGTAGAATCAGGACGAGAAATAAA
1 TCCCATGCAGAATCAGGACGAGAAATAAA
* *
4486 TCCCATGCAGAATC-GAGACGGGGAATAAA
1 TCCCATGCAGAATCAG-GACGAGAAATAAA
* *
4515 TCCCATGTAGAATCAAGACG-GAGAATAAA
1 TCCCATGCAGAATCAGGACGAGA-AATAAA
* * *
4544 TCCCATACAGAATCGGGACGGGAAATAAA
1 TCCCATGCAGAATCAGGACGAGAAATAAA
4573 TCCCATGCAGAATCAG
1 TCCCATGCAGAATCAG
4589 AATGAGGATT
Statistics
Matches: 107, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.20
29 84 0.79
30 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.16
Consensus pattern (29 bp):
TCCCATGCAGAATCAGGACGAGAAATAAA
Found at i:4526 original size:58 final size:58
Alignment explanation
Indices: 4429--4588 Score: 207
Period size: 58 Copynumber: 2.8 Consensus size: 58
4419 GGGAACGAGG
* * * * *
4429 TCCCATACAGAATCAAGATGAGGACT-AATCCCGTGTAGAATCAGGAC-GAGAAATAAA
1 TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAGGACGGAG-AATAAA
* *
4486 TCCCATGCAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAAGACGGAGAATAAA
1 TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAGGACGGAGAATAAA
* * *
4544 TCCCATACAGAATCGGGACGGGAAATAAATCCCATGCAGAATCAG
1 TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAG
4589 AATGAGGATT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
57 21 0.24
58 65 0.73
59 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.16
Consensus pattern (58 bp):
TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAGGACGGAGAATAAA
Found at i:5305 original size:13 final size:13
Alignment explanation
Indices: 5273--5307 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
5263 ACAAGTCAGA
5273 CAAATGGGTCGGT
1 CAAATGGGTCGGT
*
5286 C-AATGGGTTGGT
1 CAAATGGGTCGGT
5298 CAAATGGGTC
1 CAAATGGGTC
5308 AGTGACTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (13 bp):
CAAATGGGTCGGT
Found at i:6655 original size:30 final size:31
Alignment explanation
Indices: 6616--6678 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
6606 GGAATTTGTT
* *
6616 AGTGACCAAAATGTAAATTTTGGA-AAGTTA
1 AGTGACCAAAATATAAACTTTGGACAAGTTA
* * *
6646 AGTGGCCAAAGTATAAACTTTGGACAATTTA
1 AGTGACCAAAATATAAACTTTGGACAAGTTA
6677 AG
1 AG
6679 GATTAAAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (31 bp):
AGTGACCAAAATATAAACTTTGGACAAGTTA
Found at i:8453 original size:15 final size:16
Alignment explanation
Indices: 8435--8464 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8425 AAAGTTATTT
8435 AAATAAAAA-TAAAGA
1 AAATAAAAATTAAAGA
8450 AAATAAAAATTAAAG
1 AAATAAAAATTAAAG
8465 GTTGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
AAATAAAAATTAAAGA
Found at i:10072 original size:16 final size:16
Alignment explanation
Indices: 10053--10088 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10043 TCTCTTTATG
10053 TTTTCTTTTCTTTT-TT
1 TTTTCTTTT-TTTTCTT
10069 TTTTCTTTTTTTTCTT
1 TTTTCTTTTTTTTCTT
10085 TTTT
1 TTTT
10089 GAACTATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTCTTTTTTTTCTT
Found at i:12411 original size:55 final size:55
Alignment explanation
Indices: 12197--12411 Score: 403
Period size: 55 Copynumber: 3.9 Consensus size: 55
12187 ATTACCAAAT
*
12197 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
*
12252 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
*
12307 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
12362 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTT
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTT
12412 TGACTCGACC
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 155 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
Found at i:12770 original size:13 final size:13
Alignment explanation
Indices: 12732--12785 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
12722 TAGAATAATA
*
12732 TATTGAATATTAT
1 TATTAAATATTAT
*
12745 TTTTATCAATATTAT
1 TATTA--AATATTAT
12760 TATTAAATATTA-
1 TATTAAATATTAT
12772 TATCTAAATATTAT
1 TAT-TAAATATTAT
12786 AACTACAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 3 0.09
13 19 0.56
15 12 0.35
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (13 bp):
TATTAAATATTAT
Found at i:12801 original size:14 final size:13
Alignment explanation
Indices: 12752--12806 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
12742 TATTTTTATC
* *
12752 AATATTATTATTA
1 AATATTATAACTA
*
12765 AATATTATATCTA
1 AATATTATAACTA
12778 AATATTATAACTA
1 AATATTATAACTA
* *
12791 CAATTTTATAAATA
1 -AATATTATAACTA
12805 AA
1 AA
12807 AATATTAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 24 0.69
14 11 0.31
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATTATAACTA
Found at i:12868 original size:37 final size:38
Alignment explanation
Indices: 12827--12926 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 38
12817 TTATTATATG
* *
12827 TTATTAAAATAA-AATTATTATAAATTATATTAATTAT
1 TTATTAAAATAATAATTATTATAAATTAGATTAATTAC
*
12864 TTATTAAAATAAGAATAATATATTATTAATTAGATTAATTAC
1 TTATTAAAAT---AATAAT-TATTATAAATTAGATTAATTAC
*
12906 TTGTTAAAATAATAA-TATTAT
1 TTATTAAAATAATAATTATTAT
12927 TAAAATCTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
37 16 0.30
39 5 0.09
40 2 0.04
41 3 0.06
42 28 0.52
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (38 bp):
TTATTAAAATAATAATTATTATAAATTAGATTAATTAC
Found at i:12901 original size:42 final size:42
Alignment explanation
Indices: 12842--12922 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
12832 AAAATAAAAT
* *
12842 TATTATAAATTATATTAATTATTTATTAAAATAAGAATAATA
1 TATTATAAATTAGATTAATTACTTATTAAAATAAGAATAATA
* * *
12884 TATTATTAATTAGATTAATTACTTGTTAAAATAATAATA
1 TATTATAAATTAGATTAATTACTTATTAAAATAAGAATA
12923 TTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (42 bp):
TATTATAAATTAGATTAATTACTTATTAAAATAAGAATAATA
Found at i:14403 original size:8 final size:8
Alignment explanation
Indices: 14392--14929 Score: 280
Period size: 8 Copynumber: 68.6 Consensus size: 8
14382 TTTTCTACCC
14392 CTCTCTCT
1 CTCTCTCT
14400 CTCT-TC-
1 CTCTCTCT
*
14406 CCCTCTCT
1 CTCTCTCT
* *
14414 CTCCCCCT
1 CTCTCTCT
*
14422 ATCTCTCT
1 CTCTCTCT
14430 CTCT-TC-
1 CTCTCTCT
*
14436 CCCTCTCT
1 CTCTCTCT
14444 CTCTCTCT
1 CTCTCTCT
*
14452 CCCTCTCT
1 CTCTCTCT
*
14460 CCCTCTCT
1 CTCTCTCT
* *
14468 CGCTCTCG
1 CTCTCTCT
*
14476 CTCTCTCC
1 CTCTCTCT
*
14484 CTCTCTCC
1 CTCTCTCT
*
14492 CTCTCTCC
1 CTCTCTCT
*
14500 CTCCCTCT
1 CTCTCTCT
*
14508 CTCCCTCT
1 CTCTCTCT
*
14516 CTCTCCCT
1 CTCTCTCT
* *
14524 CCCTCCCT
1 CTCTCTCT
* *
14532 CCCTCTCC
1 CTCTCTCT
* *
14540 CTCCCTCC
1 CTCTCTCT
*
14548 CTC-CTCC
1 CTCTCTCT
*
14555 CTCCCTCT
1 CTCTCTCT
*
14563 CTCCCTCT
1 CTCTCTCT
*
14571 AT-TCTCT
1 CTCTCTCT
*
14578 CCCTCTCT
1 CTCTCTCT
*
14586 CTCCCTCT
1 CTCTCTCT
* *
14594 CCCTCTCC
1 CTCTCTCT
14602 CTCTCTCT
1 CTCTCTCT
*
14610 CTCCCTCT
1 CTCTCTCT
*
14618 CCCTCTC-
1 CTCTCTCT
*
14625 CT-TATCT
1 CTCTCTCT
* *
14632 CTCTCCCC
1 CTCTCTCT
*
14640 CTTTCTCT
1 CTCTCTCT
*
14648 CCCTCTCT
1 CTCTCTCT
*
14656 CTCCCTCT
1 CTCTCTCT
14664 CTGC-CTCT
1 CT-CTCTCT
*
14672 CTCTCCCT
1 CTCTCTCT
14680 CTCTCTCT
1 CTCTCTCT
14688 CTC-CATCT
1 CTCTC-TCT
*
14696 CTCTCTCC
1 CTCTCTCT
*
14704 CTCTCTCC
1 CTCTCTCT
14712 CTCTCTCT
1 CTCTCTCT
*
14720 CTCCCTCT
1 CTCTCTCT
*
14728 CTCCCTCT
1 CTCTCTCT
*
14736 CTCTCCCT
1 CTCTCTCT
* *
14744 CCCTCTCC
1 CTCTCTCT
*
14752 CATCTC-CC
1 C-TCTCTCT
14760 CATCTCTCT
1 C-TCTCTCT
*
14769 CACTCTCT
1 CTCTCTCT
*
14777 CTTTCTCT
1 CTCTCTCT
***
14785 AGGTCTC-
1 CTCTCTCT
*
14792 CCCTCTCT
1 CTCTCTCT
*
14800 CTCTATCT
1 CTCTCTCT
* *
14808 CCCTCTCC
1 CTCTCTCT
*
14816 CCCTCTCT
1 CTCTCTCT
*
14824 C-CCCTCT
1 CTCTCTCT
* *
14831 CTCTCCCC
1 CTCTCTCT
*
14839 CTTTCTCT
1 CTCTCTCT
*
14847 -TC-CCCT
1 CTCTCTCT
* *
14853 CTCCCTCG
1 CTCTCTCT
*
14861 CTCTCGCT
1 CTCTCTCT
*
14869 CTCCCTCT
1 CTCTCTCT
* *
14877 CACTCCCT
1 CTCTCTCT
*
14885 CTCTCTCA
1 CTCTCTCT
*
14893 CTCCCTCT
1 CTCTCTCT
*
14901 CTCTCACT
1 CTCTCTCT
*
14909 CCCTAC-CT
1 CTCT-CTCT
14917 CTCTCTCT
1 CTCTCTCT
14925 CTCTC
1 CTCTC
14930 AATCCAGTTT
Statistics
Matches: 404, Mismatches: 106, Indels: 40
0.73 0.19 0.07
Matches are distributed among these distances:
6 12 0.03
7 38 0.09
8 346 0.86
9 8 0.02
ACGTcount: A:0.02, C:0.58, G:0.01, T:0.38
Consensus pattern (8 bp):
CTCTCTCT
Found at i:14415 original size:18 final size:18
Alignment explanation
Indices: 14408--14835 Score: 134
Period size: 20 Copynumber: 23.2 Consensus size: 18
14398 CTCTCTTCCC
* *
14408 CTCTCTCTCCCCCTATCT
1 CTCTCTCTTCCCCTCTCT
14426 CTCTCTCTTCCCCTCTCT
1 CTCTCTCTTCCCCTCTCT
14444 CTCTCTC-T-CCCTCTCT
1 CTCTCTCTTCCCCTCTCT
* * *
14460 CCCTCTC-TCGCTCTCGCT
1 CTCTCTCTTC-CCCTCTCT
*
14478 CTCTCCCTCTCTCCCTCTCT
1 CTCTCTCT-TC-CCCTCTCT
* *
14498 CCCTCCCTCTCTCCCTCTCT
1 CTCTCTCT-TC-CCCTCTCT
* * *
14518 CTCCCTCCCTCCCTCCCTCT
1 CTCTCT-CTTCCC-CTCTCT
* * * *
14538 CCCTCCCTCCCTCCTCCCT
1 CTCTCTCTTCC-CCTCTCT
* *
14557 CCCTCTC-T-CCCTCTAT
1 CTCTCTCTTCCCCTCTCT
*
14573 -TCTCTC--CCTCTCTCT
1 CTCTCTCTTCCCCTCTCT
* *
14588 CCCTCTCCCTCTCCCTCTCT
1 CTCTCT-CTTC-CCCTCTCT
*
14608 CTCTC-CCTCTCCCTCTCCTT
1 CTCTCTCTTC-CCCTCT-C-T
* * *
14628 ATCTCTCTCCCCCTTTCT
1 CTCTCTCTTCCCCTCTCT
*
14646 CTCCCTCTCTCTCCCTCTCT
1 CTCTCTCT-TC-CCCTCTCT
14666 GC-CTCTC-TCTCCCTCTCT
1 -CTCTCTCTTC-CCCTCTCT
**
14684 CTCTCTC--CATCTCTCT
1 CTCTCTCTTCCCCTCTCT
*
14700 CTCCCTCTCTCCCTCTCTCT
1 CTCTCTCT-TCCC-CTCTCT
*
14720 CTCCCTCTCTCCCTCTCTCT
1 CTCTCTCT-TCCC-CTCTCT
* * *
14740 CCCTCCCTCTCCCATCTC-
1 CTCTCTCT-TCCCCTCTCT
* *
14758 CCCATCTCTCTCACTCTCTCT
1 CTC-TCTCT-TC-CCCTCTCT
* *
14779 TTCTCTAGGTCTCCCCTCTCT
1 CTCTCT--CT-TCCCCTCTCT
* *
14800 CTCTATC-T-CCCTCTCC
1 CTCTCTCTTCCCCTCTCT
*
14816 CCCTCTC-TCCCCTCTCT
1 CTCTCTCTTCCCCTCTCT
14833 CTC
1 CTC
14836 CCCCTTTCTC
Statistics
Matches: 314, Mismatches: 66, Indels: 61
0.71 0.15 0.14
Matches are distributed among these distances:
15 11 0.04
16 49 0.16
17 15 0.05
18 71 0.23
19 31 0.10
20 117 0.37
21 16 0.05
22 4 0.01
ACGTcount: A:0.02, C:0.59, G:0.01, T:0.38
Consensus pattern (18 bp):
CTCTCTCTTCCCCTCTCT
Found at i:14457 original size:12 final size:12
Alignment explanation
Indices: 14394--14929 Score: 370
Period size: 12 Copynumber: 45.6 Consensus size: 12
14384 TTCTACCCCT
14394 CTCTCTCTCTTCC
1 CTCTCTCTC-TCC
14407 C-CTCTCTCTCC
1 CTCTCTCTCTCC
* *
14418 C-C-CTATCTCT
1 CTCTCTCTCTCC
14428 CTCTCT-TC-CC
1 CTCTCTCTCTCC
*
14438 CTCTCTCTCTCT
1 CTCTCTCTCTCC
*
14450 CTCCCTCTCTCC
1 CTCTCTCTCTCC
*
14462 CTCTCTCGCTCTCG
1 CTCTCT--CTCTCC
* *
14476 CTCTCTCCCTCT
1 CTCTCTCTCTCC
*
14488 CTCCCTCTCTCC
1 CTCTCTCTCTCC
*
14500 CTCCCTCTCT-C
1 CTCTCTCTCTCC
14511 C-CTCTCTCTCC
1 CTCTCTCTCTCC
* *
14522 CTCCCTCCCTCC
1 CTCTCTCTCTCC
14534 CTCTC-C-CTCC
1 CTCTCTCTCTCC
*
14544 CTCCCTC-CTCC
1 CTCTCTCTCTCC
*
14555 CTCCCTCTCTCC
1 CTCTCTCTCTCC
*
14567 CTCTAT-TCTCTC
1 CTCTCTCTCTC-C
14579 C-CTCTCTCTCC
1 CTCTCTCTCTCC
*
14590 CTCTCCCTCTCC
1 CTCTCTCTCTCC
14602 CTCTCTCTCTCC
1 CTCTCTCTCTCC
*
14614 CTCTCCCTCTCC
1 CTCTCTCTCTCC
* *
14626 TTATCTCTCTCC
1 CTCTCTCTCTCC
* *
14638 CCCTTTCTCTCC
1 CTCTCTCTCTCC
*
14650 CTCTCTCTCCCTCT
1 CTCTCTCT--CTCC
14664 CTGCCTCTCTCTCC
1 CT--CTCTCTCTCC
14678 CTCTCTCTCTCTC
1 CTCTCTCTCTC-C
14691 CATCTCTCTCT--
1 C-TCTCTCTCTCC
14702 C-C-CTCTCTCC
1 CTCTCTCTCTCC
14712 CTCTCTCTCTCC
1 CTCTCTCTCTCC
*
14724 CTCTCTC-C-CT
1 CTCTCTCTCTCC
*
14734 CTCTCTCCCTCC
1 CTCTCTCTCTCC
*
14746 CTCTCCCATCTCC
1 CTCTCTC-TCTCC
*
14759 C-CATCTCTCTCA
1 CTC-TCTCTCTCC
*
14771 CTCTCTCT-T-T
1 CTCTCTCTCTCC
***
14781 CTCTAGGTCTCC
1 CTCTCTCTCTCC
*
14793 C-CTCTCTCTCT
1 CTCTCTCTCTCC
* *
14804 ATCTCCCTCTCC
1 CTCTCTCTCTCC
*
14816 CCCTCTCTC-CC
1 CTCTCTCTCTCC
*
14827 CTCTCTCTCCCC
1 CTCTCTCTCTCC
*
14839 CTTTCTCT-TCC
1 CTCTCTCTCTCC
* *
14850 C-CTCTCCCTCG
1 CTCTCTCTCTCC
*
14861 CTCTCGCTCTCC
1 CTCTCTCTCTCC
*
14873 CTCTCACTC-CC
1 CTCTCTCTCTCC
*
14884 TCTCTCTCACTCC
1 -CTCTCTCTCTCC
14897 CTCTCTCTCACTCC
1 CTCTCTCT--CTCC
*
14911 CTAC-CTCTCTCT
1 CT-CTCTCTCTCC
14923 CTCTCTC
1 CTCTCTC
14930 AATCCAGTTT
Statistics
Matches: 413, Mismatches: 70, Indels: 81
0.73 0.12 0.14
Matches are distributed among these distances:
8 6 0.01
9 1 0.00
10 47 0.11
11 67 0.16
12 231 0.56
13 14 0.03
14 40 0.10
15 1 0.00
16 6 0.01
ACGTcount: A:0.02, C:0.58, G:0.01, T:0.38
Consensus pattern (12 bp):
CTCTCTCTCTCC
Found at i:14904 original size:18 final size:18
Alignment explanation
Indices: 14392--14929 Score: 366
Period size: 18 Copynumber: 30.6 Consensus size: 18
14382 TTTTCTACCC
*
14392 CTCTCTCTCTCTTCC-C-
1 CTCTCTCTCTCTCCCTCT
*
14408 CTCTCTCTC-C-CCCTAT
1 CTCTCTCTCTCTCCCTCT
14424 CTCTCTCTCT-TCCC-CT
1 CTCTCTCTCTCTCCCTCT
14440 CTCTCTCTCTCTCCCTCT
1 CTCTCTCTCTCTCCCTCT
*
14458 CTC-C-CTCTCTCGCTCT
1 CTCTCTCTCTCTCCCTCT
* *
14474 CGCTCTCTC-C-CTCTCT
1 CTCTCTCTCTCTCCCTCT
* *
14490 CCCTCTCTCCCTCCCTCT
1 CTCTCTCTCTCTCCCTCT
* *
14508 CTCCCTCTCTCTCCCTCC
1 CTCTCTCTCTCTCCCTCT
* * *
14526 CTCCCTCCCTCTCCCTCC
1 CTCTCTCTCTCTCCCTCT
* *
14544 CTCCCTCCTCCCTCCCTCT
1 CTCTCT-CTCTCTCCCTCT
*
14563 CTCCCTCTATTCTCTCCCTCT
1 CT--CTCT-CTCTCTCCCTCT
14584 CTCTC-C-CTCTCCCTCT
1 CTCTCTCTCTCTCCCTCT
*
14600 CCCTCTCTCTCTCCCTCT
1 CTCTCTCTCTCTCCCTCT
* * *
14618 CCCTCTC-CTTATCTCTCT
1 CTCTCTCTC-TCTCCCTCT
* * *
14636 CCCCCTTTCTCTCCCTCT
1 CTCTCTCTCTCTCCCTCT
* *
14654 CTCTCCCTCTCTGCCTCT
1 CTCTCTCTCTCTCCCTCT
* *
14672 CTCTCCCTCTCTCTCTCT
1 CTCTCTCTCTCTCCCTCT
14690 C-CATCTCTCTCTCCCTCT
1 CTC-TCTCTCTCTCCCTCT
14708 CTCCCTCTCTCTCTCCCTCT
1 CT--CTCTCTCTCTCCCTCT
*
14728 CTCCCTCTCTCTCCCTC-
1 CTCTCTCTCTCTCCCTCT
*
14745 C-CTCTCCCATCTCCC-CAT
1 CTCTCTCTC-TCTCCCTC-T
*
14763 CTCTCTCACTCT--CTCT
1 CTCTCTCTCTCTCCCTCT
* ***
14779 TTCTCTAGGTCTCCC-CT
1 CTCTCTCTCTCTCCCTCT
*
14796 CTCTCTCTATCTCCCTCT
1 CTCTCTCTCTCTCCCTCT
* *
14814 CCCCCTCTCTC-CCCTCT
1 CTCTCTCTCTCTCCCTCT
* * * *
14831 CTCTCCCCCTTTCTCT-T
1 CTCTCTCTCTCTCCCTCT
* * *
14848 C-CCCTCTCCCTCGCTCT
1 CTCTCTCTCTCTCCCTCT
* * * *
14865 CGCTCTCCCTCTCACTCC
1 CTCTCTCTCTCTCCCTCT
*
14883 CTCTCTCTCACTCCCTCT
1 CTCTCTCTCTCTCCCTCT
* * *
14901 CTCTCACTCCCTACCTCT
1 CTCTCTCTCTCTCCCTCT
14919 CTCTCTCTCTC
1 CTCTCTCTCTC
14930 AATCCAGTTT
Statistics
Matches: 411, Mismatches: 79, Indels: 62
0.74 0.14 0.11
Matches are distributed among these distances:
14 2 0.00
15 1 0.00
16 93 0.23
17 51 0.12
18 210 0.51
19 21 0.05
20 17 0.04
21 16 0.04
ACGTcount: A:0.02, C:0.58, G:0.01, T:0.38
Consensus pattern (18 bp):
CTCTCTCTCTCTCCCTCT
Found at i:14919 original size:14 final size:14
Alignment explanation
Indices: 14390--14912 Score: 191
Period size: 14 Copynumber: 37.3 Consensus size: 14
14380 GTTTTTCTAC
*
14390 CCCTCTCTCTCTCTT
1 CCCTCTCTCTCAC-T
14405 CCCCTCTCTCTC-C-
1 -CCCTCTCTCTCACT
*
14418 CCCTATCTCTCTCTCTT
1 CCC--TCTCTCTCAC-T
14435 CCC-CTCTCT--CT
1 CCCTCTCTCTCACT
* * *
14446 CTCTCTCCCTCTCT
1 CCCTCTCTCTCACT
* *
14460 CCCTCTCTCGCTCT
1 CCCTCTCTCTCACT
* *
14474 CGCTCTCTCCCTCTCT
1 C-C-CTCTCTCTCACT
14490 CCCTCTCTC-C-CT
1 CCCTCTCTCTCACT
14502 CCCTCTCTC-C-CT
1 CCCTCTCTCTCACT
* * *
14514 CTCTCTCCCTCCCT
1 CCCTCTCTCTCACT
* *
14528 CCCTCCCTCTCCCT
1 CCCTCTCTCTCACT
14542 CCCTC-C-CTC-CT
1 CCCTCTCTCTCACT
*
14553 CCCTC-C-CTCTCT
1 CCCTCTCTCTCACT
* *
14565 CCCTCTAT-TCTCT
1 CCCTCTCTCTCACT
*
14578 CCCTCTCTCTCCCTCT
1 CCCTCTCTCT--CACT
* *
14594 CCCTCTCCCTCTCT
1 CCCTCTCTCTCACT
* * *
14608 CTCTCCCTCTCCCT
1 CCCTCTCTCTCACT
* *
14622 CTCCT-TATCTCTCT
1 C-CCTCTCTCTCACT
* *
14636 CCC-C-CTTTCTCT
1 CCCTCTCTCTCACT
*
14648 CCCTCTCTCTCCCT
1 CCCTCTCTCTCACT
* *
14662 CTCTGC-CTCTCTCT
1 CCCT-CTCTCTCACT
*
14676 CCCTCTCTCTCTCT
1 CCCTCTCTCTCACT
*
14690 CCATCTCTCT--CT
1 CCCTCTCTCTCACT
* *
14702 CCCTCTCTCCCTCT
1 CCCTCTCTCTCACT
* * *
14716 CTCTCTCCCTCTCT
1 CCCTCTCTCTCACT
*
14730 CCCTCTCTCTCCCT
1 CCCTCTCTCTCACT
14744 CCCTCTC-C-CATCT
1 CCCTCTCTCTCA-CT
14757 CCCCATCTCTCTCACT
1 -CCC-TCTCTCTCACT
* *
14773 CTCTCTTTCTCTAGGTCT
1 CCCTCTCTCTC-A---CT
14791 CCCCTCTCTCTCTATCT
1 -CCCTCTCTCTC-A-CT
* *
14808 CCCTCTCCCCCTCTCT
1 CCCTCT--CTCTCACT
14824 CCCCTCTCTCTC-C-
1 -CCCTCTCTCTCACT
* *
14837 CCCTTTCTCT-TC-
1 CCCTCTCTCTCACT
* *
14849 CCCTCTCCCTCGCT
1 CCCTCTCTCTCACT
14863 CTCGCTCTCCCTCTCACT
1 C-C-CTCT--CTCTCACT
14881 CCCTCTCTCTCACT
1 CCCTCTCTCTCACT
14895 CCCTCTCTCTCACT
1 CCCTCTCTCTCACT
14909 CCCT
1 CCCT
14913 ACCTCTCTCT
Statistics
Matches: 407, Mismatches: 54, Indels: 94
0.73 0.10 0.17
Matches are distributed among these distances:
11 14 0.03
12 78 0.19
13 23 0.06
14 180 0.44
15 19 0.05
16 54 0.13
17 15 0.04
18 13 0.03
19 11 0.03
ACGTcount: A:0.02, C:0.59, G:0.01, T:0.38
Consensus pattern (14 bp):
CCCTCTCTCTCACT
Found at i:17562 original size:64 final size:63
Alignment explanation
Indices: 17491--17614 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 63
17481 AGATATTTAT
* *
17491 TATCTATTTAACTTTAAATA-TTAAAAGA-TAATTATATACTTTTGAATATTTTAAATTAAAATA
1 TATCTATTTAAATTTAAATAGTCAAAAGAGT--TTATAT-CTTTTGAATATTTTAAATTAAAATA
17554 A
63 A
* *
17555 TATCTATTTAAATTTGAATAGTCAAAGGAGTTTATATCTTTTGAATATTTTAAATTAAAA
1 TATCTATTTAAATTTAAATAGTCAAAAGAGTTTATATCTTTTGAATATTTTAAATTAAAA
17615 GATATTCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
63 23 0.43
64 24 0.44
65 6 0.11
66 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (63 bp):
TATCTATTTAAATTTAAATAGTCAAAAGAGTTTATATCTTTTGAATATTTTAAATTAAAATAA
Found at i:17641 original size:33 final size:33
Alignment explanation
Indices: 17603--17689 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 33
17593 TTTTGAATAT
*
17603 TTTAAATTAAAAGATATTCATTATATTTTTAAA
1 TTTAAATTAAAAGATATTCAATATATTTTTAAA
* *
17636 TTTAAATATTAAAGATA-TCAATATCTTTTTAAA
1 TTTAAAT-TAAAAGATATTCAATATATTTTTAAA
*
17669 TATCTCGAATTAAAAGATATT
1 T-T-T-AAATTAAAAGATATT
17690 ATCTTTTAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
33 22 0.50
34 9 0.20
35 9 0.20
36 4 0.09
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (33 bp):
TTTAAATTAAAAGATATTCAATATATTTTTAAA
Found at i:18808 original size:57 final size:57
Alignment explanation
Indices: 18654--18813 Score: 180
Period size: 57 Copynumber: 2.8 Consensus size: 57
18644 GAGGTCTTGA
* * * ** * * **
18654 ATGATTTTATTTTGTAGAATGAAATAAATTGTTAAATTTATTTTCAT-AGAATCTTGT
1 ATGATTCTATTTTGTAAAAAGAAATAAATCATTAAATTTA-TTTCTTGAAAATCAAGT
* * *
18711 ATGATTCTGTTTTGT-AAAAGAATTAAATCATTGAATTTATTTCTTGAAAATCAAGT
1 ATGATTCTATTTTGTAAAAAGAAATAAATCATTAAATTTATTTCTTGAAAATCAAGT
*
18767 ATGATTCTATTTTGTAAAAAGAAATAAATCAATAAATTTATTTCTTG
1 ATGATTCTATTTTGTAAAAAGAAATAAATCATTAAATTTATTTCTTG
18814 GAAGTATCGA
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
55 5 0.06
56 39 0.46
57 41 0.48
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (57 bp):
ATGATTCTATTTTGTAAAAAGAAATAAATCATTAAATTTATTTCTTGAAAATCAAGT
Found at i:22586 original size:23 final size:23
Alignment explanation
Indices: 22536--22639 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 23
22526 ACAAAACCCC
* * *
22536 AGGGGGTATCGATTCCCC-T-AT
1 AGGGGGAATCGGTTCCCCTTCAA
*
22557 AGGGGGAATCAGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
*
22580 AGGGGGAATCGGTTCCCC-T-AC
1 AGGGGGAATCGGTTCCCCTTCAA
22601 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGGTTCCCCTTCAA
* *
22623 AGGGGGTATCGATTCCC
1 AGGGGGAATCGGTTCCC
22640 TCTGCACTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
21 34 0.49
22 18 0.26
23 18 0.26
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:22599 original size:44 final size:43
Alignment explanation
Indices: 22536--22639 Score: 163
Period size: 44 Copynumber: 2.4 Consensus size: 43
22526 ACAAAACCCC
*
22536 AGGGGGTATCGATTCCCCTATAGGGGGAATCAGTTCCCCTTCAA
1 AGGGGGTATCGATTCCCCTACAGGGGGAATCAGTTCCCCTTC-A
* * *
22580 AGGGGGAATCGGTTCCCCTACAGGGGGAATCGGTTCCCCTTCA
1 AGGGGGTATCGATTCCCCTACAGGGGGAATCAGTTCCCCTTCA
22623 AGGGGGTATCGATTCCC
1 AGGGGGTATCGATTCCC
22640 TCTGCACTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
43 16 0.30
44 38 0.70
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (43 bp):
AGGGGGTATCGATTCCCCTACAGGGGGAATCAGTTCCCCTTCA
Found at i:26436 original size:22 final size:21
Alignment explanation
Indices: 26394--26433 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26384 GAGTTTATTT
*
26394 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
26415 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
26434 ACAATTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:30060 original size:19 final size:19
Alignment explanation
Indices: 30001--30068 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
29991 AACCCAACCT
*
30001 GTTGACTTTGACCCGACTC
1 GTTGACTTTGACCTGACTC
* * *
30020 ATTAAC-TTGACTTGACTC
1 GTTGACTTTGACCTGACTC
*
30038 GTTGACTTTGACCTGACTT
1 GTTGACTTTGACCTGACTC
30057 GTTGACTTTGAC
1 GTTGACTTTGAC
30069 TAGAGTTGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.35
19 26 0.65
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (19 bp):
GTTGACTTTGACCTGACTC
Found at i:31434 original size:24 final size:24
Alignment explanation
Indices: 31388--31436 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31378 CATCCTTGTT
* *
31388 TATAAATGTATTTATGCTATATAG
1 TATAAACGTATTTATGATATATAG
31412 TATAAACGTATTATATGATTATATA
1 TATAAACGTATT-TATGA-TATATA
31437 TTTATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (24 bp):
TATAAACGTATTTATGATATATAG
Found at i:47273 original size:7 final size:7
Alignment explanation
Indices: 47223--47388 Score: 83
Period size: 7 Copynumber: 23.3 Consensus size: 7
47213 TAGTATAAAC
47223 ATATTAT
1 ATATTAT
*
47230 ATGACTAT
1 AT-ATTAT
47238 ATATT-T
1 ATATTAT
47244 AT-TTAT
1 ATATTAT
47250 A-ATGTAT
1 ATAT-TAT
47257 AGTA-TAT
1 A-TATTAT
*
47264 ATATTTT
1 ATATTAT
47271 ATATTAT
1 ATATTAT
**
47278 ATAAAAT
1 ATATTAT
* *
47285 AGACTAT
1 ATATTAT
* *
47292 ATGTTGT
1 ATATTAT
* *
47299 GTACTAT
1 ATATTAT
47306 A-ATTAT
1 ATATTAT
47312 ATAATGTAT
1 AT-AT-TAT
47321 ATATTAT
1 ATATTAT
*
47328 GATGTTAT
1 -ATATTAT
*
47336 ATATTAC
1 ATATTAT
**
47343 ATACCAT
1 ATATTAT
47350 ATA-TAT
1 ATATTAT
47356 ATATATAT
1 ATAT-TAT
47364 ATATATAT
1 ATAT-TAT
47372 ATATATAT
1 ATAT-TAT
47380 ATATTAT
1 ATATTAT
47387 AT
1 AT
47389 TGTTACATTA
Statistics
Matches: 120, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
5 2 0.02
6 18 0.15
7 55 0.46
8 39 0.32
9 6 0.05
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (7 bp):
ATATTAT
Found at i:47353 original size:2 final size:2
Alignment explanation
Indices: 47348--47388 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
47338 ATTACATACC
47348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47389 TGTTACATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:47406 original size:23 final size:23
Alignment explanation
Indices: 47347--47437 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
47337 TATTACATAC
* *
47347 CATATATATATATATATATATATATA
1 CATATACATAT-TATAT-TAT-TACA
* * *
47373 TATATATATATTATATTGTTACA
1 CATATACATATTATATTATTACA
* *
47396 -TTATTACATATTATCTTATTACA
1 CATA-TACATATTATATTATTACA
47419 CATATACATATT-TATTATT
1 CATATACATATTATATTATT
47438 TCTTTTTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
22 8 0.15
23 27 0.50
24 4 0.07
25 5 0.09
26 10 0.19
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.51
Consensus pattern (23 bp):
CATATACATATTATATTATTACA
Found at i:48697 original size:14 final size:14
Alignment explanation
Indices: 48678--48705 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48668 TATTTAGTTC
48678 ATTTATTTATTTTT
1 ATTTATTTATTTTT
48692 ATTTATTTATTTTT
1 ATTTATTTATTTTT
48706 TTTCTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTATTTATTTTT
Found at i:48880 original size:12 final size:12
Alignment explanation
Indices: 48851--48885 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
48841 TGACTCCCAA
*
48851 CATTTCATAAAGT
1 CATTTCA-AAAAT
48864 CATTTCAAAAAT
1 CATTTCAAAAAT
48876 CATTTCAAAA
1 CATTTCAAAA
48886 CAACATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (12 bp):
CATTTCAAAAAT
Found at i:49319 original size:16 final size:17
Alignment explanation
Indices: 49287--49320 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49277 AACTCCTTTA
*
49287 TACTCTCATCAATATTT
1 TACTCTCAACAATATTT
49304 TACTCTCAAC-ATATTT
1 TACTCTCAACAATATTT
49320 T
1 T
49321 CTTTAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (17 bp):
TACTCTCAACAATATTT
Found at i:50060 original size:37 final size:38
Alignment explanation
Indices: 50019--50118 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 38
50009 TTATTATATG
* *
50019 TTATTAAAATAA-AATTATTATAAATTATATTAATTAT
1 TTATTAAAATAATAATTATTATAAATTAGATTAATTAC
*
50056 TTATTAAAATAAGAATAATATATTATTAATTAGATTAATTAC
1 TTATTAAAAT---AATAAT-TATTATAAATTAGATTAATTAC
*
50098 TTGTTAAAATAATAA-TATTAT
1 TTATTAAAATAATAATTATTAT
50119 TAAAAATTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
37 16 0.30
39 5 0.09
40 2 0.04
41 3 0.06
42 28 0.52
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (38 bp):
TTATTAAAATAATAATTATTATAAATTAGATTAATTAC
Found at i:50093 original size:42 final size:42
Alignment explanation
Indices: 50034--50163 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
50024 AAAATAAAAT
* *
50034 TATTATAAATTATATTAATTATTTATTAAAATAAGAATAATA
1 TATTATAAATTAGATTAATTACTTATTAAAATAAGAATAATA
* * *
50076 TATTATTAATTAGATTAATTACTTGTTAAAATAATAAT-AT-
1 TATTATAAATTAGATTAATTACTTATTAAAATAAGAATAATA
* * *
50116 TATTAAAAATTTA-A-AAATTA-TAATATT-AAATAAGAATATTA
1 TATTATAAA-TTAGATTAATTACT--TATTAAAATAAGAATAATA
50157 TATTATA
1 TATTATA
50164 TTTTAAATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
38 1 0.01
39 14 0.20
40 12 0.17
41 11 0.15
42 33 0.46
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.45
Consensus pattern (42 bp):
TATTATAAATTAGATTAATTACTTATTAAAATAAGAATAATA
Found at i:50190 original size:22 final size:24
Alignment explanation
Indices: 50162--50215 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
50152 TATTATATTA
*
50162 TATTTTA-AA-TATTCAATAATAT
1 TATTTTAGAATTATTAAATAATAT
50184 TATTTTATGAATTATTAAATAATAT
1 TATTTTA-GAATTATTAAATAATAT
*
50209 AATTTTA
1 TATTTTA
50216 TTATTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
24 2 0.07
25 18 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTTAGAATTATTAAATAATAT
Found at i:50364 original size:30 final size:28
Alignment explanation
Indices: 50315--50385 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 28
50305 AATATAATTT
**
50315 AATAATTAATATTTTTATTAAAATGTTATTAA
1 AATAA-TAATATTAATATT-AAATG-TA-TAA
50347 AATAAT-ATATTAATATTAAATGTATAA
1 AATAATAATATTAATATTAAATGTATAA
50374 AATAATAATATT
1 AATAATAATATT
50386 TTGAGTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 9 0.25
28 7 0.19
29 5 0.14
30 9 0.25
31 1 0.03
32 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
AATAATAATATTAATATTAAATGTATAA
Done.