Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013940.1 Corchorus capsularis cultivar CVL-1 contig13961, 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: 128439
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:2109 original size:2 final size:2
Alignment explanation
Indices: 2102--2133 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2092 GTTTAATCCC
2102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2134 GTCTAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3444 original size:2 final size:2
Alignment explanation
Indices: 3439--3477 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3429 TTTTTCTCTT
3439 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
3478 TATTCTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5360 original size:3 final size:3
Alignment explanation
Indices: 5354--5382 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
5344 TATTTTGATG
5354 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5383 GCAAAGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5940 original size:2 final size:2
Alignment explanation
Indices: 5933--5982 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
5923 CTTTATCAGC
5933 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5975 CT CT CT CT
1 CT CT CT CT
5983 TTTCTGGGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11765 original size:29 final size:29
Alignment explanation
Indices: 11731--11806 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
11721 ATTTGTATCG
* *
11731 TTTGGATGTTTTGTCCCCTGAATTTTAAT
1 TTTGGACGTTTTGTCCCCTGAATTTCAAT
*
11760 TTTGGACATTTTGTCCCCTGAATTTCAAT
1 TTTGGACGTTTTGTCCCCTGAATTTCAAT
11789 TTTGGGACGTTTTG-CCCC
1 TTT-GGACGTTTTGTCCCC
11807 ATCAATCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 33 0.79
30 9 0.21
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (29 bp):
TTTGGACGTTTTGTCCCCTGAATTTCAAT
Found at i:11985 original size:29 final size:29
Alignment explanation
Indices: 11913--11988 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 29
11903 CGTTAGGCTG
* *
11913 AGGGGGTAAAACGTCCAAAATTGAAGTTC
1 AGGGGGCAAAACGTCCAAAACTGAAGTTC
** *
11942 A-GGGGCAAATTGTCCAAGACTGAAGTTC
1 AGGGGGCAAAACGTCCAAAACTGAAGTTC
11970 AGGGGGCAAAACGTCCAAA
1 AGGGGGCAAAACGTCCAAA
11989 CGCTACAAGT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (29 bp):
AGGGGGCAAAACGTCCAAAACTGAAGTTC
Found at i:12445 original size:27 final size:27
Alignment explanation
Indices: 12407--12463 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
12397 TTTGGTCATT
12407 TTTGCACATTCAGGGGCATTCTGGTCA
1 TTTGCACATTCAGGGGCATTCTGGTCA
* *
12434 TTTGCACATTCATGGGCATTTTGGTCA
1 TTTGCACATTCAGGGGCATTCTGGTCA
12461 TTT
1 TTT
12464 TAAGTCTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (27 bp):
TTTGCACATTCAGGGGCATTCTGGTCA
Found at i:15125 original size:21 final size:21
Alignment explanation
Indices: 15101--15149 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
15091 TCTAACTAAG
*
15101 TCTGATTTGAAT-TTGAAAATC
1 TCTGATTTAAATCTTGAAAA-C
15122 TCTGA-TTAAATCTTGAAAAC
1 TCTGATTTAAATCTTGAAAAC
15142 TCTTGATT
1 TC-TGATT
15150 ACCAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 15 0.62
22 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (21 bp):
TCTGATTTAAATCTTGAAAAC
Found at i:17653 original size:12 final size:11
Alignment explanation
Indices: 17625--17655 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
17615 CCTCTTGTCA
17625 TTTTTCTTTTT
1 TTTTTCTTTTT
17636 TTTTTCTCTTTT
1 TTTTTCT-TTTT
17648 TTTTTCTT
1 TTTTTCTT
17656 GGAGGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:19669 original size:50 final size:50
Alignment explanation
Indices: 19517--19829 Score: 457
Period size: 50 Copynumber: 6.2 Consensus size: 50
19507 GGATCAACTT
* * * * ** *
19517 CTTCGAATTGTCTTCCAACTCATTCTTAAAAGGATCGTCTTCCAATCAACTTC
1 CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCT-TA--TC
* * * * *
19570 TTTTGAACTGTCTTCCAATTCAATCCT-AAAGGACTGTCTTCTGCTTATC
1 CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
19619 CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
1 CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
*
19669 CTTCGAACTGTCTTCCAATTCAATCTTAAAAAGACCGTCTTCCGCTTATC
1 CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
*
19719 CTTTGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
1 CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
*
19769 CTTAGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
1 CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
19819 CTTCGAACTGT
1 CTTCGAACTGT
19830 TCCTGATGCG
Statistics
Matches: 237, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
49 26 0.11
50 176 0.74
51 1 0.00
52 13 0.05
53 21 0.09
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.36
Consensus pattern (50 bp):
CTTCGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATC
Found at i:19781 original size:23 final size:23
Alignment explanation
Indices: 19602--19784 Score: 66
Period size: 23 Copynumber: 7.4 Consensus size: 23
19592 ATCCTAAAGG
* *
19602 ACTGTCTTCTGCTTATCCTTCGA
1 ACTGTCTTCCGCTTATCCTTAGA
** *
19625 ACTGTCTTCCAATTCAAT-CTTAAAAGG
1 ACTGTCTTCCGCTT--ATCCTT---AGA
* *
19652 ACCGTCTTCCGCTTATCCTTCGA
1 ACTGTCTTCCGCTTATCCTTAGA
** *
19675 ACTGTCTTCCAATTCAAT-CTTAAAAA
1 ACTGTCTTCCGCTT--ATCCTT--AGA
* *
19701 GACCGTCTTCCGCTTATCCTTTGA
1 -ACTGTCTTCCGCTTATCCTTAGA
** *
19725 ACTGTCTTCCAATTCAAT-CTTAAAAGG
1 ACTGTCTTCCGCTT--ATCCTT---AGA
*
19752 ACCGTCTTCCGCTTATCCTTAGA
1 ACTGTCTTCCGCTTATCCTTAGA
19775 ACTGTCTTCC
1 ACTGTCTTCC
19785 AATTCAATCT
Statistics
Matches: 112, Mismatches: 30, Indels: 36
0.63 0.17 0.20
Matches are distributed among these distances:
23 45 0.40
24 10 0.09
25 12 0.11
26 10 0.09
27 35 0.31
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (23 bp):
ACTGTCTTCCGCTTATCCTTAGA
Found at i:22701 original size:47 final size:45
Alignment explanation
Indices: 22640--22940 Score: 273
Period size: 47 Copynumber: 6.7 Consensus size: 45
22630 CTAATTTATG
*
22640 GTTTCGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTCTAATTACC
1 GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTCT-ATT-CC
* *
22687 GTTTTGCCCTTCCCCACCGAAAGGCGTTGTTTAGTT-TC----CC
1 GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTCTATTCC
* *
22727 AG-TTTGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTGCCTTATTCC
1 -GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTC-TATTCC
* ** *
22773 TGTTTAGCCCTTCCCCATTGGAAGGTGTTGTTTAGTT-TC---TCA
1 -GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTCTATTCC
* * * **
22815 G-TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAATTACCTTATTCTC
1 GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTC-TATTC-C
* * * *
22861 GTTTCGCCCTTCCCCATCAGAAGGTGTTGTTTAGTTATCTCATTCTC
1 GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTCT-ATTC-C
*
22908 GTTTTGCCCTTCCCCACCAGAAGGTGTTGTTTA
1 GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
22941 ATTTTGTCCT
Statistics
Matches: 211, Mismatches: 27, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
40 63 0.30
41 4 0.02
42 2 0.01
45 2 0.01
46 8 0.04
47 132 0.63
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (45 bp):
GTTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTCTATTCC
Found at i:22733 original size:40 final size:40
Alignment explanation
Indices: 22689--22846 Score: 163
Period size: 40 Copynumber: 3.8 Consensus size: 40
22679 TAATTACCGT
* *
22689 TTTGCCCTTCCCCACCGAAAGGCGTTGTTTAGTTTCCCAG
1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTTCCCAG
* * *
22729 TTTGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTGCCTTATTCCTG
1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTA---G--TT-TCCCAG
** *
22775 TTTAGCCCTTCCCCATTGGAAGGTGTTGTTTAGTTTCTCAG
1 TTT-GCCCTTCCCCACCGGAAGGTGTTGTTTAGTTTCCCAG
* *
22816 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTA
1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
22847 ATTACCTTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
40 54 0.55
41 6 0.06
42 2 0.02
43 1 0.01
44 1 0.01
45 2 0.02
46 7 0.07
47 25 0.26
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (40 bp):
TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTTCCCAG
Found at i:22803 original size:87 final size:87
Alignment explanation
Indices: 22640--22896 Score: 347
Period size: 87 Copynumber: 2.9 Consensus size: 87
22630 CTAATTTATG
* * * * *
22640 GTTTCGCCCTTCCCCACCGGAAGGTGTTGTTTAGTTGTCTAATTACC-GTTTTGCCCTTCCCCAC
1 GTTT-GCCCTTCCTCACCGGAAGGTGTTGTTTAGTTGCCTTATT-CCTGTTTAGCCCTTCCCCAT
* *
22704 CGAAAGGCGTTGTTTAGTTTCCCA
64 CGGAAGGTGTTGTTTAGTTTCCCA
*
22728 GTTTGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTGCCTTATTCCTGTTTAGCCCTTCCCCATTG
1 GTTTGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTGCCTTATTCCTGTTTAGCCCTTCCCCATCG
*
22793 GAAGGTGTTGTTTAGTTTCTCA
66 GAAGGTGTTGTTTAGTTTCCCA
* * * *
22815 GTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAATTACCTTATT-CTCGTTTCGCCCTTCCCCATC
1 GTTTGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTGCCTTATTCCT-GTTTAGCCCTTCCCCATC
*
22879 AGAAGGTGTTGTTTAGTT
65 GGAAGGTGTTGTTTAGTT
22897 ATCTCATTCT
Statistics
Matches: 152, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
86 4 0.03
87 144 0.95
88 4 0.03
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.39
Consensus pattern (87 bp):
GTTTGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTGCCTTATTCCTGTTTAGCCCTTCCCCATCG
GAAGGTGTTGTTTAGTTTCCCA
Found at i:23004 original size:49 final size:49
Alignment explanation
Indices: 22942--23053 Score: 116
Period size: 49 Copynumber: 2.3 Consensus size: 49
22932 TGTTGTTTAA
* * * * *
22942 TTTTGTCCTTTCCCATTTGGAAGGTATTGCTTAATTTCGTGTTATTCTTG
1 TTTT-TCCCTTCCCAGTCGGAAGGTATTGCTTAATTTCGTCTTATTCCTG
* * * *
22992 TTTTTCCCTTCCCGGTCGGAAGGTGTTGTTTAATTTTGTCTTATTCCTG
1 TTTTTCCCTTCCCAGTCGGAAGGTATTGCTTAATTTCGTCTTATTCCTG
* *
23041 ATTTGCCCTTCCC
1 TTTTTCCCTTCCC
23054 GATAGGAAGG
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 47 0.92
50 4 0.08
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.49
Consensus pattern (49 bp):
TTTTTCCCTTCCCAGTCGGAAGGTATTGCTTAATTTCGTCTTATTCCTG
Found at i:23054 original size:49 final size:49
Alignment explanation
Indices: 22960--23071 Score: 143
Period size: 49 Copynumber: 2.3 Consensus size: 49
22950 TTTCCCATTT
* * * * * * * *
22960 GGAAGGTATTGCTTAATTTCGTGTTATTCTTGTTTTTCCCTTCCCGGTC
1 GGAAGGTGTTGTTTAATTTCGTCTTATTCCTGATTTGCCCTTCCCGATA
*
23009 GGAAGGTGTTGTTTAATTTTGTCTTATTCCTGATTTGCCCTTCCCGATA
1 GGAAGGTGTTGTTTAATTTCGTCTTATTCCTGATTTGCCCTTCCCGATA
23058 GGAAGGTGTTGTTT
1 GGAAGGTGTTGTTT
23072 TGCCATGATC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (49 bp):
GGAAGGTGTTGTTTAATTTCGTCTTATTCCTGATTTGCCCTTCCCGATA
Found at i:25758 original size:28 final size:28
Alignment explanation
Indices: 25715--25778 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
25705 AAGTATTGTC
* *
25715 CCTCTGAAAAAAAAAAGGAGTGTTAGTAA
1 CCTCTAAAAAAAAAAAGG-GAGTTAGTAA
*
25744 CCTCTAAAAAGAAAAAGGGAGTTAGTAA
1 CCTCTAAAAAAAAAAAGGGAGTTAGTAA
*
25772 CCCCTAA
1 CCTCTAA
25779 GTCATGAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (28 bp):
CCTCTAAAAAAAAAAAGGGAGTTAGTAA
Found at i:25758 original size:29 final size:27
Alignment explanation
Indices: 25715--25778 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
25705 AAGTATTGTC
*
25715 CCTCTGAAAAAAAAAAGGAGTGTTAGTAA
1 CCTCT-AAAAAAAAAAGG-GAGTTAGTAA
25744 CCTCTAAAAAGAAAAAGGGAGTTAGTAA
1 CCTCTAAAAA-AAAAAGGGAGTTAGTAA
*
25772 CCCCTAA
1 CCTCTAA
25779 GTCATGAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 20 0.62
29 12 0.38
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (27 bp):
CCTCTAAAAAAAAAAGGGAGTTAGTAA
Found at i:26967 original size:29 final size:29
Alignment explanation
Indices: 26942--27010 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 29
26932 CCTAGGGGTG
26942 TTTTGGTCATTTTTGCACATTCAGGGGCA
1 TTTTGGTCATTTTTGCACATTCAGGGGCA
* *
26971 TTCTGGTCA--TTTGCACATTCATGGGCA
1 TTTTGGTCATTTTTGCACATTCAGGGGCA
26998 TTTTGGT-ATTTTT
1 TTTTGGTCATTTTT
27011 AAGTCTACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 1 0.03
27 23 0.66
28 3 0.09
29 8 0.23
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (29 bp):
TTTTGGTCATTTTTGCACATTCAGGGGCA
Found at i:30096 original size:81 final size:80
Alignment explanation
Indices: 29999--30402 Score: 453
Period size: 81 Copynumber: 5.0 Consensus size: 80
29989 TTGCCTATTC
* * *
29999 CCAGTTCGCCCTTCCTCACCGAAAGGTGTTGTTTAGATTTACCAGTTTGTCCTTCCCTACTGGAA
1 CCAGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTAG-TTTTCCAGTTTGCCCTTCCCTACTGGAA
30064 GGTGTTGTTTAGTTTA
65 GGTGTTGTTTAGTTTA
* * * *
30080 CCAGTTCGCCCTTCCTCATCGGAAGGTGTTGTTTACTTTTTCCAGTTTGCCCTTCCCCACCGGAA
1 CCAGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTA-GTTTTCCAGTTTGCCCTTCCCTACTGGAA
30145 GGTGTTGTTTAGATTTA
65 GGTGTTGTTTAG-TTTA
* * * * *
30162 CCAATTTGCCCTTCCTTACTGGAAGGTGTTGTTTAGTTTTCCAGTTCGCCCTT-CCT-CATCGGA
1 CCAGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTTTCCAGTTTGCCCTTCCCTAC-T-GGA
* * *
30225 AGATGTTGTTTACTTTTT
64 AGGTGTTGTTTA-GTTTA
* * *
30243 CCAGTATC-CCCTTCCCCACCGGAAGGTGTTGTTTAG-TTTCTCAGTTTGCCATTCCTTACTGGA
1 CCAGT-TCGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTTTC-CAGTTTGCCCTTCCCTACTGGA
30306 AGGTGTTGTTTAGTTTA
64 AGGTGTTGTTTAGTTTA
* * * *
30323 CCAGTTCGCCCTTCCACATCGGAAGGTGTTGTCTT-CTTATTCCAGTTCGCCCTTCCCGGT-C-G
1 CCAGTTCGCCCTTCCTCACCGGAAGGTGTTGT-TTAGTT-TTCCAGTTTGCCCTTCCC--TACTG
30385 GAAGGTGTTGTTTAGTTT
62 GAAGGTGTTGTTTAGTTT
30403 CGTCTTATTC
Statistics
Matches: 272, Mismatches: 36, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
79 3 0.01
80 36 0.13
81 189 0.69
82 42 0.15
83 2 0.01
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (80 bp):
CCAGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTAGTTTTCCAGTTTGCCCTTCCCTACTGGAAG
GTGTTGTTTAGTTTA
Found at i:30155 original size:122 final size:121
Alignment explanation
Indices: 29963--30669 Score: 662
Period size: 122 Copynumber: 5.6 Consensus size: 121
29953 TTAAATACTT
* * * * * * *
29963 AGTTCGCCCTTCCGCACCGGAAGGTGTTG---CCTATTCCCAGTTCGCCCTTCCTCACCGAAAGG
1 AGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTACTTTTTCCAGTTTGCCCTTCCCCACCGGAAGG
*
30025 TGTTGTTTAGATTTACCAGTTTGTCCTTCCCTACTGGAAGGTGTTGTTTAGTTTACC
66 TGTTGTTTAGATTTACCAGTTTGCCCTTCCCTACTGGAAGGTGTTGTTTAGTTT-CC
*
30082 AGTTCGCCCTTCCTCATCGGAAGGTGTTGTTTACTTTTTCCAGTTTGCCCTTCCCCACCGGAAGG
1 AGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTACTTTTTCCAGTTTGCCCTTCCCCACCGGAAGG
* *
30147 TGTTGTTTAGATTTACCAATTTGCCCTTCCTTACTGGAAGGTGTTGTTTAGTTTTCC
66 TGTTGTTTAGATTTACCAGTTTGCCCTTCCCTACTGGAAGGTGTTGTTTAG-TTTCC
* * * *
30204 AGTTCGCCCTTCCTCATCGGAAGATGTTGTTTACTTTTTCCAGTATCCCCTTCCCCACCGGAAGG
1 AGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTACTTTTTCCAGTTTGCCCTTCCCCACCGGAAGG
* *
30269 TGTTGTTTAG-TTT-CTCAGTTTGCCATTCCTTACTGGAAGGTGTTGTTTAGTTTACC
66 TGTTGTTTAGATTTAC-CAGTTTGCCCTTCCCTACTGGAAGGTGTTGTTTAGTTT-CC
* * * * ***
30325 AGTTCGCCCTTCCACATCGGAAGGTGTTGTCTT-CTTATTCCAGTTCGCCCTTCCCGGTCGGAAG
1 AGTTCGCCCTTCCTCACCGGAAGGTGTTGT-TTACTTTTTCCAGTTTGCCCTTCCCCACCGGAAG
*
30389 GTGTTGTTTAGTTTCGTCTTATTCTCAGTTTCCAGTTTGCCCTTCCCT-GTCGGAAGGTGTTGTT
65 GTGTTGTTTA-----G----ATT-T-A----CCAGTTTGCCCTTCCCTACT-GGAAGGTGTTGTT
30453 TA-TATTCC
114 TAGT-TTCC
* * * *
30461 AAGTTCGCCCTTCCCCACCGGAAGGTGTTGTTTA-GTTTTCCAGTTTGCCCTTCCTCACCAGAAG
1 -AGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTACTTTTTCCAGTTTGCCCTTCCCCACCGGAAG
* * * *
30525 GTGTTGTTTAGTTGCCTTATTCCCGTTTAGTCCTTCCCCA-TCGGAAGGTGTTGTTTAGTTTCTC
65 GTGTTGTTTAGAT---TTA--CCAGTTT-GCCCTTCCCTACT-GGAAGGTGTTGTTTAGTTTC-C
* * * *
30589 AGTTTGCCCTTCCTCACCGGAAGGTGTTATTTAATTACCTTATTCTC-GTTTCGCCCTTCCCCAT
1 AGTTCGCCCTTCCTCACCGGAAGGTG-T-TGT--TTA-CTTTTTC-CAGTTT-GCCCTTCCCCAC
30653 CGGAAGGTGTTGTTTAG
59 CGGAAGGTGTTGTTTAG
30670 TTATCTCATT
Statistics
Matches: 495, Mismatches: 50, Indels: 71
0.80 0.08 0.12
Matches are distributed among these distances:
119 27 0.05
120 4 0.01
121 100 0.20
122 151 0.31
123 3 0.01
126 9 0.02
127 53 0.11
128 4 0.01
129 3 0.01
130 1 0.00
131 6 0.01
132 1 0.00
133 8 0.02
134 27 0.05
136 38 0.08
137 59 0.12
138 1 0.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (121 bp):
AGTTCGCCCTTCCTCACCGGAAGGTGTTGTTTACTTTTTCCAGTTTGCCCTTCCCCACCGGAAGG
TGTTGTTTAGATTTACCAGTTTGCCCTTCCCTACTGGAAGGTGTTGTTTAGTTTCC
Found at i:30375 original size:41 final size:40
Alignment explanation
Indices: 29963--30398 Score: 356
Period size: 41 Copynumber: 10.8 Consensus size: 40
29953 TTAAATACTT
* * ** *
29963 AGTTCGCCCTTCCGCACCGGAAGGTGTTGCCTA--TTCCC
1 AGTTCGCCCTTCCACATCGGAAGGTGTTGTTTACTTTTCC
* * * * *
30001 AGTTCGCCCTTCCTCACCGAAAGGTGTTGTTTAGATTTACC
1 AGTTCGCCCTTCCACATCGGAAGGTGTTGTTTA-CTTTTCC
* * * *
30042 AGTTTGTCCTTCC-C-TACTGGAAGGTGTTGTTTAGTTTACC
1 AGTTCGCCCTTCCACAT-C-GGAAGGTGTTGTTTACTTTTCC
*
30082 AGTTCGCCCTTCCTCATCGGAAGGTGTTGTTTACTTTTTCC
1 AGTTCGCCCTTCCACATCGGAAGGTGTTGTTTAC-TTTTCC
* * * * *
30123 AGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGATTTACC
1 AGTTCGCCCTTCCACATCGGAAGGTGTTGTTTA-CTTTTCC
* * *
30164 AATTTGCCCTTCCTTAC-T-GGAAGGTGTTGTTTAGTTTTCC
1 AGTTCGCCCTTCC--ACATCGGAAGGTGTTGTTTACTTTTCC
* *
30204 AGTTCGCCCTTCCTCATCGGAAGATGTTGTTTACTTTTTCC
1 AGTTCGCCCTTCCACATCGGAAGGTGTTGTTTAC-TTTTCC
* * *
30245 AGTATC-CCCTTCCCCACCGGAAGGTGTTGTTTA-GTTTCTC
1 AGT-TCGCCCTTCCACATCGGAAGGTGTTGTTTACTTTTC-C
* * * *
30285 AGTTTGCCATTCCTTAC-T-GGAAGGTGTTGTTTAGTTTACC
1 AGTTCGCCCTTCC--ACATCGGAAGGTGTTGTTTACTTTTCC
30325 AGTTCGCCCTTCCACATCGGAAGGTGTTGTCTT-CTTATTCC
1 AGTTCGCCCTTCCACATCGGAAGGTGTTGT-TTACTT-TTCC
*
30366 AGTTCGCCCTTCC-CGGTCGGAAGGTGTTGTTTA
1 AGTTCGCCCTTCCAC-ATCGGAAGGTGTTGTTTA
30399 GTTTCGTCTT
Statistics
Matches: 328, Mismatches: 44, Indels: 49
0.78 0.10 0.12
Matches are distributed among these distances:
38 32 0.10
39 7 0.02
40 118 0.36
41 166 0.51
42 4 0.01
43 1 0.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (40 bp):
AGTTCGCCCTTCCACATCGGAAGGTGTTGTTTACTTTTCC
Found at i:30472 original size:40 final size:40
Alignment explanation
Indices: 30418--30715 Score: 206
Period size: 40 Copynumber: 6.9 Consensus size: 40
30408 TATTCTCAGT
***
30418 TTCCAGTTTGCCCTTCCCTGTCGGAAGGTGTTGTTTA-TA
1 TTCCAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTA
* *
30457 TTCCAAGTTCGCCCTTCCCCACCGGAAGGTGTTGTTTAGTT
1 TTCC-AGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTA
* *
30498 TTCCAGTTTGCCCTTCCTCACCAGAAGGTGTTGTTTAGTTGCCTTA
1 TTCCAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTA---G---TA
* * *
30544 TTCCCGTTTAGTCCTTCCCCATCGGAAGGTGTTGTTTAGT-
1 TTCCAGTTT-GCCCTTCCCCACCGGAAGGTGTTGTTTAGTA
* * *
30584 TTCTCAGTTTGCCCTTCCTCACCGGAAGGTGTTATTTAATTACCTTA
1 TTC-CAGTTTGCCCTTCCCCACCGGAAGGTG-T-TGT--TTA--GTA
*
30631 TTCTC-GTTTCGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTA
1 TTC-CAGTTT-GCCCTTCCCCACCGGAAGGTGTTGTTTAG-TA
* **
30673 TCTCATTCTCGTTTTGCCCTTCCCCACCAAAAGGTGTTGTTTA
1 T-TC---C-AG-TTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
30716 ATTTTGTCTT
Statistics
Matches: 207, Mismatches: 27, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
39 4 0.02
40 80 0.39
41 12 0.06
42 5 0.02
43 6 0.03
44 4 0.02
45 4 0.02
46 15 0.07
47 74 0.36
48 3 0.01
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (40 bp):
TTCCAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAGTA
Found at i:30492 original size:96 final size:98
Alignment explanation
Indices: 30317--30498 Score: 264
Period size: 96 Copynumber: 1.9 Consensus size: 98
30307 GGTGTTGTTT
* **
30317 AGTTTACCAGTTCGCCCTTCCACATCGGAAGGTGTTGTCTTCTTATTCCAGTTCGCCCTTCCCGG
1 AGTTTACCAGTTCGCCCTTCCACATCGGAAGGTGTTGTCTTCATATTCCAGTTCGCCCTTCCCCA
*
30382 TCGGAAGGTGTTGTTTAGTTTCGTCTTATTCTC
66 CCGGAAGGTGTTGTTTAGTTTCGTCTTATTCTC
* *
30415 AGTTT-CCAGTTTGCCCTTCC-CTGTCGGAAGGTGTTGT-TT-ATATTCCAAGTTCGCCCTTCCC
1 AGTTTACCAGTTCGCCCTTCCAC-ATCGGAAGGTGTTGTCTTCATATTCC-AGTTCGCCCTTCCC
30476 CACCGGAAGGTGTTGTTTAGTTT
64 CACCGGAAGGTGTTGTTTAGTTT
30499 TCCAGTTTGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
95 6 0.08
96 37 0.49
97 28 0.37
98 5 0.07
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (98 bp):
AGTTTACCAGTTCGCCCTTCCACATCGGAAGGTGTTGTCTTCATATTCCAGTTCGCCCTTCCCCA
CCGGAAGGTGTTGTTTAGTTTCGTCTTATTCTC
Found at i:30576 original size:87 final size:88
Alignment explanation
Indices: 30467--30718 Score: 328
Period size: 87 Copynumber: 2.8 Consensus size: 88
30457 TTCCAAGTTC
* *
30467 GCCCTTCCCCACCGGAAGGTGTTGTTTAGTTTTC-CAGTTTGCCCTTCCTCACCAGAAGGTGTTG
1 GCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCTCAGTTTGCCCTTCCTCACCAGAAGGTGTTA
* *
30531 TTTAGTTGCCTTATTCCCGTTTA
66 TTTAATTACCTTATTCCCGTTTA
* *
30554 GTCCTTCCCCATCGGAAGGTGTTGTTTAG-TTTCTCAGTTTGCCCTTCCTCACCGGAAGGTGTTA
1 GCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCTCAGTTTGCCCTTCCTCACCAGAAGGTGTTA
* *
30618 TTTAATTACCTTATTCTCGTTTC
66 TTTAATTACCTTATTCCCGTTTA
* * *
30641 GCCCTTCCCCATCGGAAGGTGTTGTTTAGTTATCTCATTCTCGTTTTGCCCTTCCCCACCAAAAG
1 GCCCTTCCCCATCGGAAGGTGTTGTTTAGTT-T-TC--TC-AG-TTTGCCCTTCCTCACCAGAAG
*
30706 GTGTTGTTTAATT
60 GTGTTATTTAATT
30719 TTGTCTTTTC
Statistics
Matches: 143, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
86 4 0.03
87 102 0.71
88 1 0.01
89 1 0.01
90 2 0.01
92 2 0.01
93 1 0.01
94 30 0.21
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (88 bp):
GCCCTTCCCCATCGGAAGGTGTTGTTTAGTTTTCTCAGTTTGCCCTTCCTCACCAGAAGGTGTTA
TTTAATTACCTTATTCCCGTTTA
Found at i:30578 original size:47 final size:45
Alignment explanation
Indices: 30467--30715 Score: 221
Period size: 47 Copynumber: 5.6 Consensus size: 45
30457 TTCCAAGTTC
*
30467 GCCCTTCCCCACCGGAAGGTGTTGTTTAG----TT-TTCCAGTTT
1 GCCCTTCCCCACCGGAAGGTGTTGTTTAGTTACTTATTCCCGTTT
* * *
30507 GCCCTTCCTCACCAGAAGGTGTTGTTTAGTTGCCTTATTCCCGTTT
1 GCCCTTCCCCACCGGAAGGTGTTGTTTAGTT-ACTTATTCCCGTTT
* * * *
30553 AGTCCTTCCCCATCGGAAGGTGTTGTTTAG-T--TT-CT-CAGTTT
1 -GCCCTTCCCCACCGGAAGGTGTTGTTTAGTTACTTATTCCCGTTT
* * * *
30594 GCCCTTCCTCACCGGAAGGTGTTATTTAATTACCTTATTCTCGTTT
1 GCCCTTCCCCACCGGAAGGTGTTGTTTAGTTA-CTTATTCCCGTTT
* * *
30640 CGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTATCTCATTCTCGTTTT
1 -GCCCTTCCCCACCGGAAGGTGTTGTTTAGTTA-CTTATTCCCG-TTT
**
30688 GCCCTTCCCCACCAAAAGGTGTTGTTTA
1 GCCCTTCCCCACCGGAAGGTGTTGTTTA
30716 ATTTTGTCTT
Statistics
Matches: 168, Mismatches: 26, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
40 51 0.30
41 6 0.04
42 1 0.01
43 2 0.01
44 2 0.01
45 3 0.02
46 13 0.08
47 87 0.52
48 3 0.02
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (45 bp):
GCCCTTCCCCACCGGAAGGTGTTGTTTAGTTACTTATTCCCGTTT
Found at i:30737 original size:16 final size:15
Alignment explanation
Indices: 30716--30750 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
30706 GTGTTGTTTA
*
30716 ATTTTGTCTTTTCCC
1 ATTTTGTCCTTTCCC
30731 TATTTTGTCCTTTCCC
1 -ATTTTGTCCTTTCCC
30747 ATTT
1 ATTT
30751 GGAAGGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.09, C:0.26, G:0.06, T:0.60
Consensus pattern (15 bp):
ATTTTGTCCTTTCCC
Found at i:30816 original size:49 final size:48
Alignment explanation
Indices: 30591--30862 Score: 210
Period size: 49 Copynumber: 5.6 Consensus size: 48
30581 AGTTTCTCAG
* * * * *
30591 TTTGCCCTTCCTCACCGGAAGGTGTTATTTAATTAC-CTTATTCTCGT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTTTAATTTCTCTTATTCTTGT
* * *
30638 TTCGCCCTTCCCCATCGGAAGGTGTTGTTTAGTTATCTC--ATTCTCGT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTTTAATT-TCTCTTATTCTTGT
* ** * * *
30685 TTTGCCCTTCCCCACCAAAAGGTGTTGTTTAATTTTGTCTT-TTCCCTAT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTTTAA-TTTCTCTTATT-CTTGT
* * * * **
30734 TTTGTCCTTTCCCATTTGGAAGGTATTACTTAATTTCGTCTTATTCTTGT
1 TTTGCCCTTCCCCA-TCGGAAGGTGTTGTTTAATTTC-TCTTATTCTTGT
** * * * *
30784 TTTGCCCTTCCCGGTCGGAAGGCGTTGTTTAATTTTATCTTATTCCTGA
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTTTAA-TTTCTCTTATTCTTGT
* *
30833 TTTGCCCTTCCCGATAGGAAGGTGTTGTTT
1 TTTGCCCTTCCCCATCGGAAGGTGTTGTTT
30863 TGCCATGATC
Statistics
Matches: 173, Mismatches: 42, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
47 67 0.39
48 5 0.03
49 68 0.39
50 31 0.18
51 2 0.01
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (48 bp):
TTTGCCCTTCCCCATCGGAAGGTGTTGTTTAATTTCTCTTATTCTTGT
Found at i:36462 original size:21 final size:21
Alignment explanation
Indices: 36436--36488 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
36426 GCACTGGAGT
* * *
36436 ACATGGGTCGCGAGGCAAACC
1 ACATGGGACGCCAAGCAAACC
*
36457 ACATGGGACGCCAAGCAAAGC
1 ACATGGGACGCCAAGCAAACC
36478 ACATGGG-CGCC
1 ACATGGGACGCC
36489 CAGTGCTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.30, C:0.30, G:0.32, T:0.08
Consensus pattern (21 bp):
ACATGGGACGCCAAGCAAACC
Found at i:40682 original size:30 final size:29
Alignment explanation
Indices: 40646--40733 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
40636 TATATTTTTG
40646 GGGACTTTAGTATAGATGCCTCTGTGTTT
1 GGGACTTTAGTATAGATGCCTCTGTGTTT
*
40675 AGGGACTTTAGTATAGATGCC-CTTGTGCTT
1 -GGGACTTTAGTATAGATGCCTC-TGTGTTT
* *
40705 GAGGACTTTGAG-AGAGTTGCCTCTGTGTT
1 G-GGACTTT-AGTATAGATGCCTCTGTGTT
40734 ATATGTGCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 2 0.04
30 45 0.90
31 3 0.06
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.38
Consensus pattern (29 bp):
GGGACTTTAGTATAGATGCCTCTGTGTTT
Found at i:40752 original size:39 final size:39
Alignment explanation
Indices: 40698--40772 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
40688 TAGATGCCCT
*
40698 TGTGCTTGAGGACTTTGAGAGAGTTGCCTCTGTGTTATA
1 TGTGCTTGAGGACTTTGAGAGAGATGCCTCTGTGTTATA
* * * *
40737 TGTGCTTGGGGACTTTTATATAGATGCCTCTGTGTT
1 TGTGCTTGAGGACTTTGAGAGAGATGCCTCTGTGTT
40773 TAGGGACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.16, C:0.13, G:0.29, T:0.41
Consensus pattern (39 bp):
TGTGCTTGAGGACTTTGAGAGAGATGCCTCTGTGTTATA
Found at i:45343 original size:19 final size:19
Alignment explanation
Indices: 45306--45343 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45296 AATTTGGGTG
*
45306 AATAAACCTCAATTTTGTT
1 AATAAACCTCAATTATGTT
45325 AATAAA-CTCAACTTATGTT
1 AATAAACCTCAA-TTATGTT
45344 TTCAAGAGAT
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:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (19 bp):
AATAAACCTCAATTATGTT
Found at i:45868 original size:21 final size:21
Alignment explanation
Indices: 45832--45887 Score: 103
Period size: 21 Copynumber: 2.6 Consensus size: 21
45822 GTGCTGAGGC
45832 ATGGCCGGGTCATGCGATGGTG
1 ATGGCCGGG-CATGCGATGGTG
45854 ATGGCCGGGCATGCGATGGTG
1 ATGGCCGGGCATGCGATGGTG
45875 ATGGCCGGGCATG
1 ATGGCCGGGCATG
45888 TGGCCGGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 25 0.74
22 9 0.26
ACGTcount: A:0.14, C:0.20, G:0.46, T:0.20
Consensus pattern (21 bp):
ATGGCCGGGCATGCGATGGTG
Found at i:48693 original size:13 final size:13
Alignment explanation
Indices: 48675--48717 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
48665 ATCTGACTGT
48675 TTTGGTTTATGA-
1 TTTGGTTTATGAC
*
48687 TTCTGGTTTATTAC
1 TT-TGGTTTATGAC
*
48701 TTTGGTTTATGAA
1 TTTGGTTTATGAC
48714 TTTG
1 TTTG
48718 ATTACGATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.16, C:0.05, G:0.21, T:0.58
Consensus pattern (13 bp):
TTTGGTTTATGAC
Found at i:49721 original size:35 final size:35
Alignment explanation
Indices: 49682--49867 Score: 107
Period size: 35 Copynumber: 5.3 Consensus size: 35
49672 TTTTACTGAG
*
49682 TTACTGATTACCATTACTATTTTACTGATTGTTCT
1 TTACTGATTACCATTACTATTTTACTGATTATTCT
** * * *
49717 TTACTCTTTACTGATTACTA-GTTACCAT-TTTATTCT
1 TTACTGATTAC-CATTACTATTTTA-C-TGATTATTCT
* * *
49753 TTACTAATTGCCATTACT-TTTTACTTATTAATAT-T
1 TTACTGATTACCATTACTATTTTACTGATT-AT-TCT
** * * *
49788 TTACTCTTTACCATT-TTTTCTTTACTGATTACTCT
1 TTACTGATTACCATTACTAT-TTTACTGATTATTCT
* * *
49823 TTACTGATTACCATT--TTTCTTTACTGGTTACTCT
1 TTACTGATTACCATTACTAT-TTTACTGATTATTCT
49857 TTACTGATTAC
1 TTACTGATTAC
49868 TCTTTTACTT
Statistics
Matches: 120, Mismatches: 21, Indels: 21
0.74 0.13 0.13
Matches are distributed among these distances:
33 1 0.01
34 34 0.28
35 52 0.43
36 32 0.27
37 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (35 bp):
TTACTGATTACCATTACTATTTTACTGATTATTCT
Found at i:49741 original size:21 final size:21
Alignment explanation
Indices: 49682--49741 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
49672 TTTTACTGAG
* *
49682 TTACTGATTACCATTACTATT
1 TTACTGATTACTATTACTACT
*
49703 TTACTGATTGTTCT-TTACT-CT
1 TTACTGA-T-TACTATTACTACT
49724 TTACTGATTACTAGTTAC
1 TTACTGATTACTA-TTAC
49742 CATTTTATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
19 3 0.10
20 1 0.03
21 19 0.61
22 6 0.19
23 2 0.06
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.50
Consensus pattern (21 bp):
TTACTGATTACTATTACTACT
Found at i:49823 original size:14 final size:14
Alignment explanation
Indices: 49806--49887 Score: 74
Period size: 14 Copynumber: 5.4 Consensus size: 14
49796 TACCATTTTT
49806 TCTTTACTGATTAC
1 TCTTTACTGATTAC
49820 TCTTTACTGATTACC
1 TCTTTACTGATTA-C
*
49835 ATTTTTCTTTACTGGTTAC
1 -----TCTTTACTGATTAC
49854 TCTTTACTGATTAC
1 TCTTTACTGATTAC
**
49868 TCTTTTACTTTTTAC
1 TC-TTTACTGATTAC
49883 TCTTT
1 TCTTT
49888 TATTATTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
14 31 0.54
15 13 0.23
19 1 0.02
20 12 0.21
ACGTcount: A:0.17, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TCTTTACTGATTAC
Found at i:49845 original size:34 final size:35
Alignment explanation
Indices: 49795--49867 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 35
49785 ATTTTACTCT
49795 TTACCATTTTTTCTTTACTGATTACTCTTTACTGA
1 TTACCATTTTTTCTTTACTGATTACTCTTTACTGA
*
49830 TTACCA-TTTTTCTTTACTGGTTACTCTTTACTGA
1 TTACCATTTTTTCTTTACTGATTACTCTTTACTGA
49864 TTAC
1 TTAC
49868 TCTTTTACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 31 0.84
35 6 0.16
ACGTcount: A:0.19, C:0.21, G:0.07, T:0.53
Consensus pattern (35 bp):
TTACCATTTTTTCTTTACTGATTACTCTTTACTGA
Found at i:49876 original size:22 final size:22
Alignment explanation
Indices: 49850--50230 Score: 187
Period size: 22 Copynumber: 17.8 Consensus size: 22
49840 TCTTTACTGG
49850 TTACTCTTTACTGATTACTC-TT
1 TTACTCTTTACTGATTAC-CATT
* ** **
49872 TTACTTTTTACTCTTTTATTATT
1 TTACTCTTTACT-GATTACCATT
49895 TT--T-TT-ACTGATTACCATT
1 TTACTCTTTACTGATTACCATT
*
49913 TTACTCTTTACTAATTACCATTT
1 TTACTCTTTACTGATTACCA-TT
* *
49936 TTACTTTCTTATTGATTACTC-TT
1 TTACTCT-TTACTGATTAC-CATT
49959 TTACT-TGTTACTGATTACCATT
1 TTACTCT-TTACTGATTACCATT
*
49981 TTACTCTTTACTAATTACCATT
1 TTACTCTTTACTGATTACCATT
* * *
50003 TTACCCTTT-CAGA-TACCTTT
1 TTACTCTTTACTGATTACCATT
* *
50023 TTACTTTTTACTGATTACCTTT
1 TTACTCTTTACTGATTACCATT
* * *
50045 TTACCCTTTTTACTGTTTA-C-TA
1 TTA--CTCTTTACTGATTACCATT
* *
50067 TTACT-TCTTACTGATT-TC-TA
1 TTACTCT-TTACTGATTACCATT
* *
50087 TTACTCTTTACTGATTATCACT
1 TTACTCTTTACTGATTACCATT
*
50109 TTACTCTTT-CTTAATTACCATT
1 TTACTCTTTAC-TGATTACCATT
* * *
50131 TTACCCTTT-CAGA-TACCTTT
1 TTACTCTTTACTGATTACCATT
* * *
50151 TTACCTTTTTACTGTTTA-C-TA
1 TTA-CTCTTTACTGATTACCATT
* *
50172 TTACT-TCTTACTGATT-TC-TA
1 TTACTCT-TTACTGATTACCATT
* **
50192 TTACTCTTTACTAATTGTCATT
1 TTACTCTTTACTGATTACCATT
50214 TTAC-CTTTTACTGATTA
1 TTACTC-TTTACTGATTA
50231 TATCTTTCTT
Statistics
Matches: 284, Mismatches: 45, Indels: 60
0.73 0.12 0.15
Matches are distributed among these distances:
18 8 0.03
19 5 0.02
20 78 0.27
21 26 0.09
22 118 0.42
23 26 0.09
24 22 0.08
25 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (22 bp):
TTACTCTTTACTGATTACCATT
Found at i:50079 original size:20 final size:20
Alignment explanation
Indices: 50054--50102 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
50044 TTTACCCTTT
50054 TTACTG-TTTACTATTACTTC
1 TTACTGATTT-CTATTACTTC
50074 TTACTGATTTCTATTAC-TC
1 TTACTGATTTCTATTACTTC
50093 TTTACTGATT
1 -TTACTGATT
50103 ATCACTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.55
Consensus pattern (20 bp):
TTACTGATTTCTATTACTTC
Found at i:50202 original size:20 final size:19
Alignment explanation
Indices: 50157--50203 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
50147 CTTTTTACCT
50157 TTTTACTGTTTACTATTAC
1 TTTTACTGTTTACTATTAC
50176 TTCTTACTGATTT-CTATTAC
1 TT-TTACTG-TTTACTATTAC
50196 TCTTTACT
1 T-TTTACT
50204 AATTGTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.08
20 19 0.76
21 4 0.16
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTACTGTTTACTATTAC
Found at i:50335 original size:36 final size:33
Alignment explanation
Indices: 50242--50341 Score: 116
Period size: 36 Copynumber: 3.0 Consensus size: 33
50232 ATCTTTCTTA
* *
50242 TTGAACTTAATCACTGATTA--CTTTTT-CTTA
1 TTGAACTTAATTACTGATTACCCTTTTTACTTT
* *
50272 TTGAACTTAATTACTGATTTCCTTTTTTACTTT
1 TTGAACTTAATTACTGATTACCCTTTTTACTTT
50305 TTGGAACTTAATTACTCTGATTACCCTTTTTACTTT
1 TT-GAACTTAATTA--CTGATTACCCTTTTTACTTT
50341 T
1 T
50342 CTGACTGATC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
30 18 0.31
32 5 0.09
33 5 0.09
34 11 0.19
36 19 0.33
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.53
Consensus pattern (33 bp):
TTGAACTTAATTACTGATTACCCTTTTTACTTT
Found at i:51215 original size:12 final size:12
Alignment explanation
Indices: 51198--51249 Score: 104
Period size: 12 Copynumber: 4.3 Consensus size: 12
51188 ACCTGAAGCA
51198 GGTCGGACCGCG
1 GGTCGGACCGCG
51210 GGTCGGACCGCG
1 GGTCGGACCGCG
51222 GGTCGGACCGCG
1 GGTCGGACCGCG
51234 GGTCGGACCGCG
1 GGTCGGACCGCG
51246 GGTC
1 GGTC
51250 ATCAAATTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.08, C:0.33, G:0.50, T:0.10
Consensus pattern (12 bp):
GGTCGGACCGCG
Found at i:59805 original size:13 final size:13
Alignment explanation
Indices: 59787--59829 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
59777 ATCTGATTGT
59787 TTTGGTTTATGA-
1 TTTGGTTTATGAC
*
59799 TTATGGTTTATTAC
1 TT-TGGTTTATGAC
*
59813 TTTGGTTTATGAA
1 TTTGGTTTATGAC
59826 TTTG
1 TTTG
59830 ATTACAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.19, C:0.02, G:0.21, T:0.58
Consensus pattern (13 bp):
TTTGGTTTATGAC
Found at i:60031 original size:13 final size:12
Alignment explanation
Indices: 60013--60051 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
60003 TACTACCGTT
60013 TTTATATAAATG
1 TTTATATAAATG
60025 ATTTATA-AAATG
1 -TTTATATAAATG
*
60037 TTTTTATAAATG
1 TTTATATAAATG
60049 TTT
1 TTT
60052 TGGGTGCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 5 0.21
12 13 0.54
13 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (12 bp):
TTTATATAAATG
Found at i:63607 original size:15 final size:15
Alignment explanation
Indices: 63583--63626 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
63573 TGTTAGGGTG
*
63583 AATGGCGCAAACAAC
1 AATGGTGCAAACAAC
*
63598 AATGGTGCAAACCAC
1 AATGGTGCAAACAAC
*
63613 AATGGTGCGAACAA
1 AATGGTGCAAACAA
63627 ACATGGTACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (15 bp):
AATGGTGCAAACAAC
Found at i:69907 original size:18 final size:17
Alignment explanation
Indices: 69884--69919 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
69874 CTCAACCTAA
69884 AACTAGAAGAAAAACTAG
1 AACTAGAAGAAAAA-TAG
69902 AACTAGAAGAAAAATAG
1 AACTAGAAGAAAAATAG
69919 A
1 A
69920 TGAAGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (17 bp):
AACTAGAAGAAAAATAG
Found at i:70498 original size:22 final size:22
Alignment explanation
Indices: 70468--70519 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
70458 AATTCTTCCT
* *
70468 TCTTGAAATAATTCTTCAAT-GA
1 TCTTCAAATAA-TCTTCAATAAA
*
70490 TCTTCAAATTATCTTCAATAAA
1 TCTTCAAATAATCTTCAATAAA
70512 TCTTCAAA
1 TCTTCAAA
70520 CACGAACTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (22 bp):
TCTTCAAATAATCTTCAATAAA
Found at i:71602 original size:17 final size:18
Alignment explanation
Indices: 71569--71604 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
71559 CTCCTCTTGC
71569 ATGAAAACACTTCTTTTT
1 ATGAAAACACTTCTTTTT
*
71587 ATGAAAACA-TTTTTTTT
1 ATGAAAACACTTCTTTTT
71604 A
1 A
71605 ACTACCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGAAAACACTTCTTTTT
Found at i:72433 original size:52 final size:52
Alignment explanation
Indices: 72374--72477 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
72364 TGGTGATGGT
*
72374 CGGTGTTGGCGCGGCTATGGCATAGGTTGACGCGGCTGTGGCTGGGCGTGGC
1 CGGTGTTGGCGCGGCTATGGCATAGGTTGACGCGGCTATGGCTGGGCGTGGC
*
72426 CGGTGTTGGCGCGGCTATGGCATAGGTTGACGCGGTTATGGCTGGGCGTGGC
1 CGGTGTTGGCGCGGCTATGGCATAGGTTGACGCGGCTATGGCTGGGCGTGGC
72478 GCGTGGGTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.09, C:0.20, G:0.47, T:0.24
Consensus pattern (52 bp):
CGGTGTTGGCGCGGCTATGGCATAGGTTGACGCGGCTATGGCTGGGCGTGGC
Found at i:75184 original size:18 final size:17
Alignment explanation
Indices: 75161--75196 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
75151 CTCAACCTAA
75161 AACTAGAAGAAAAACTAG
1 AACTAGAAGAAAAA-TAG
75179 AACTAGAAGAAAAATAG
1 AACTAGAAGAAAAATAG
75196 A
1 A
75197 TGAAGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (17 bp):
AACTAGAAGAAAAATAG
Found at i:75790 original size:19 final size:18
Alignment explanation
Indices: 75757--75792 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
75747 TTGAAATAAT
75757 TCTTCAATGATCTTCAAA
1 TCTTCAATGATCTTCAAA
*
75775 TCTTCAAATTATCTTCAA
1 TCTTC-AATGATCTTCAA
75793 TAAATCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAA
Found at i:77269 original size:20 final size:21
Alignment explanation
Indices: 77225--77272 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
77215 TAGATTTAGA
* *
77225 TTTAATTTACTTTGCTTTGTT
1 TTTAATTTACATTGCTTTCTT
*
77246 TTTAATTTA-ATTGGTTTCTT
1 TTTAATTTACATTGCTTTCTT
77266 TTTAATT
1 TTTAATT
77273 GATAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTAATTTACATTGCTTTCTT
Found at i:86493 original size:2 final size:2
Alignment explanation
Indices: 86486--86515 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
86476 GGCGCGAACA
86486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86516 TGCTATAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86651 original size:2 final size:2
Alignment explanation
Indices: 86644--86671 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
86634 CTTATAACGA
86644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86672 TGTTACTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88933 original size:12 final size:13
Alignment explanation
Indices: 88918--88946 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
88908 TATTAATTTT
88918 TTTTA-TAAATGA
1 TTTTATTAAATGA
88930 TTTTATTAAATGA
1 TTTTATTAAATGA
88943 TTTT
1 TTTT
88947 GGGTGCATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
TTTTATTAAATGA
Found at i:95201 original size:28 final size:27
Alignment explanation
Indices: 95139--95201 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
95129 TACTTTTGTC
95139 ATTT-TTACTCTTTTCTAACTCTTTTT
1 ATTTATTACTCTTTTCTAACTCTTTTT
*** *
95165 ACCAATTACTCTTTTCTTACTCTCTTTT
1 ATTTATTACTCTTTTCTAACTCT-TTTT
95193 ATTTATTAC
1 ATTTATTAC
95202 CACTTTTTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 1 0.04
27 17 0.61
28 10 0.36
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTTATTACTCTTTTCTAACTCTTTTT
Found at i:95298 original size:21 final size:21
Alignment explanation
Indices: 95269--95346 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
95259 ATCACCCTTT
95269 ACTCTTTACTGATTACTATTTG
1 ACTC-TTACTGATTACTATTTG
* *
95291 ACTCTTACTAATT-GTCACTTTG
1 ACTCTTACTGATTACT-A-TTTG
* *
95313 -CTCTTACTGGTTACTATTTT
1 ACTCTTACTGATTACTATTTG
95333 ACTCTTACTGATTA
1 ACTCTTACTGATTA
95347 TCTTTTACTG
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.09
21 32 0.71
22 9 0.20
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.49
Consensus pattern (21 bp):
ACTCTTACTGATTACTATTTG
Found at i:95354 original size:14 final size:15
Alignment explanation
Indices: 95337--95414 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 15
95327 TATTTTACTC
*
95337 TTACTGATTA-TCTT
1 TTACTGATTACTATT
95351 TTACTGATTACTATT
1 TTACTGATTACTATT
**
95366 TTACTCTTTACTGA--
1 TTACTGATTACT-ATT
**
95380 TTACCTTCTTACT-TT
1 TTA-CTGATTACTATT
*
95395 TTACTGATTACCATT
1 TTACTGATTACTATT
95410 TTACT
1 TTACT
95415 TTTTTACTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
14 19 0.38
15 30 0.60
16 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (15 bp):
TTACTGATTACTATT
Found at i:95355 original size:35 final size:37
Alignment explanation
Indices: 95314--95392 Score: 126
Period size: 35 Copynumber: 2.2 Consensus size: 37
95304 GTCACTTTGC
* *
95314 TCTTACTGGTTACTATTTTACTC-TTACTGATTATCT
1 TCTTACTGATTACTATTTTACTCTTTACTGATTACCT
95350 T-TTACTGATTACTATTTTACTCTTTACTGATTACCT
1 TCTTACTGATTACTATTTTACTCTTTACTGATTACCT
95386 TCTTACT
1 TCTTACT
95393 TTTTACTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
35 20 0.51
36 14 0.36
37 5 0.13
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.53
Consensus pattern (37 bp):
TCTTACTGATTACTATTTTACTCTTTACTGATTACCT
Found at i:95376 original size:22 final size:22
Alignment explanation
Indices: 95350--95640 Score: 199
Period size: 22 Copynumber: 13.1 Consensus size: 22
95340 CTGATTATCT
95350 TTTACTGATTACTATTTTACTC
1 TTTACTGATTACTATTTTACTC
* *
95372 TTTACTGATTACCT-TCTTACTT
1 TTTACTGATTA-CTATTTTACTC
* *
95394 TTTACTGATTACCATTTTACTTT
1 TTTACTGATTACTATTTTAC-TC
* *
95417 TTTACTGATTACCATTTTCTGCTCC
1 TTTACTGATTACTA-TTT-TACT-C
* *
95442 TTTTTTACTGATTACTCTTTTACTT
1 ---TTTACTGATTACTATTTTACTC
* * * *
95467 TTTACTGATT-GTCTTTTGCTT
1 TTTACTGATTACTATTTTACTC
*
95488 TTTACTGATTACCT-TTTTA-TT
1 TTTACTGATTA-CTATTTTACTC
95509 TCTTACTGATTAGCT-TTTTACTC
1 T-TTACTGATTA-CTATTTTACTC
*
95532 TTTACTGATCACCT-TTTTACTC
1 TTTACTGATTA-CTATTTTACTC
* * *
95554 -TTATTGATT-TTCTTTTACT-
1 TTTACTGATTACTATTTTACTC
*
95573 TCTTACTTG-TTACTTTTTTACTC
1 T-TTAC-TGATTACTATTTTACTC
*
95596 -TTACTGATTACTATTTTACTT
1 TTTACTGATTACTATTTTACTC
*
95617 TTTACTGACTACTATTTTACTC
1 TTTACTGATTACTATTTTACTC
95639 TT
1 TT
95641 GTTGATAACC
Statistics
Matches: 220, Mismatches: 28, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.00
20 9 0.04
21 51 0.23
22 114 0.52
23 21 0.10
24 4 0.02
25 2 0.01
26 3 0.01
27 3 0.01
28 12 0.05
ACGTcount: A:0.18, C:0.19, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTACTGATTACTATTTTACTC
Found at i:95428 original size:15 final size:15
Alignment explanation
Indices: 95410--95465 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
95400 GATTACCATT
95410 TTACTTTTTTACTGA
1 TTACTTTTTTACTGA
**
95425 TTACCATTTT-CTG-
1 TTACTTTTTTACTGA
* *
95438 CTCCTTTTTTACTGA
1 TTACTTTTTTACTGA
*
95453 TTACTCTTTTACT
1 TTACTTTTTTACT
95466 TTTTACTGAT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
13 6 0.20
14 6 0.20
15 18 0.60
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.57
Consensus pattern (15 bp):
TTACTTTTTTACTGA
Found at i:95468 original size:21 final size:21
Alignment explanation
Indices: 95444--95672 Score: 148
Period size: 22 Copynumber: 10.7 Consensus size: 21
95434 TCTGCTCCTT
95444 TTTTACTGATTACTCTTTTAC
1 TTTTACTGATTACTCTTTTAC
* *
95465 TTTTTACTGATT-GTCTTTTGC
1 -TTTTACTGATTACTCTTTTAC
*
95486 TTTTTACTGATTAC-CTTTTTAT
1 -TTTTACTGATTACTC-TTTTAC
95508 TTCTTACTGATTAGCT-TTTTAC
1 TT-TTACTGATTA-CTCTTTTAC
*
95530 TCTTTACTGATCAC-CTTTTTAC
1 T-TTTACTGATTACTC-TTTTAC
* * *
95552 TCTTATTGATT-TTCTTTTAC
1 TTTTACTGATTACTCTTTTAC
*
95572 TTCTTACTTG-TTACTTTTTTAC
1 TT-TTAC-TGATTACTCTTTTAC
* *
95594 TCTTACTGATTACTATTTTAC
1 TTTTACTGATTACTCTTTTAC
* *
95615 TTTTTACTGACTACTATTTTAC
1 -TTTTACTGATTACTCTTTTAC
* ** *
95637 TCTTGTTGATAAC-CTTCTTAC
1 TTTTACTGATTACTCTT-TTAC
*
95658 TTTTTATTGATTACT
1 -TTTTACTGATTACT
95673 AATTACCATT
Statistics
Matches: 162, Mismatches: 28, Indels: 33
0.73 0.13 0.15
Matches are distributed among these distances:
20 11 0.07
21 63 0.39
22 86 0.53
23 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTACTGATTACTCTTTTAC
Found at i:95490 original size:43 final size:44
Alignment explanation
Indices: 95443--95672 Score: 183
Period size: 43 Copynumber: 5.3 Consensus size: 44
95433 TTCTGCTCCT
* *
95443 TTTTTACTGATTACTCTTTTACTTTTTACTGATT-GTCTTTTGC
1 TTTTTACTGATTACTCTTTTACTTCTTACTGATTAGTCTTTTAC
*
95486 TTTTTACTGATTAC-CTTTTTATTTCTTACTGATTAG-CTTTTTAC
1 TTTTTACTGATTACTC-TTTTACTTCTTACTGATTAGTC-TTTTAC
* * * *
95530 TCTTTACTGATCAC-CTTTTTAC-TCTTATTGATT-TTCTTTTAC
1 TTTTTACTGATTACTC-TTTTACTTCTTACTGATTAGTCTTTTAC
* * * *
95572 TTCTTACTTG-TTACTTTTTTAC-TCTTACTGATTACTATTTTAC
1 TTTTTAC-TGATTACTCTTTTACTTCTTACTGATTAGTCTTTTAC
* * ** **
95615 TTTTTACTGACTACTATTTTAC-TCTTGTTGA-TAACCTTCTTAC
1 TTTTTACTGATTACTCTTTTACTTCTTACTGATTAGTCTT-TTAC
*
95658 TTTTTATTGATTACT
1 TTTTTACTGATTACT
95673 AATTACCATT
Statistics
Matches: 153, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
42 37 0.24
43 91 0.59
44 25 0.16
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.58
Consensus pattern (44 bp):
TTTTTACTGATTACTCTTTTACTTCTTACTGATTAGTCTTTTAC
Found at i:96016 original size:22 final size:20
Alignment explanation
Indices: 95971--96022 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
95961 TAATTACTGA
95971 TTTACTGATTTCTATTTCTC
1 TTTACTGATTTCTATTTCTC
95991 TTTACTGATTATC-ACTTTACTC
1 TTTACTGATT-TCTA-TTT-CTC
96013 TTTACTGATT
1 TTTACTGATT
96023 GCCATTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.38
21 5 0.17
22 13 0.45
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTACTGATTTCTATTTCTC
Found at i:98775 original size:9 final size:9
Alignment explanation
Indices: 98751--98791 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
98741 GTAAAAGATA
98751 TTTC-TTTT
1 TTTCTTTTT
98759 TTTC-TTTT
1 TTTCTTTTT
*
98767 TGTCTTTTT
1 TTTCTTTTT
98776 TTTCTTTTT
1 TTTCTTTTT
98785 TTTCTTT
1 TTTCTTT
98792 CTGATTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 11 0.37
9 19 0.63
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:98799 original size:25 final size:25
Alignment explanation
Indices: 98751--98799 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
98741 GTAAAAGATA
* *
98751 TTTCTTTTTTTCTTTTTGTCTTTTT
1 TTTCTTTTTTTCTTTCTGTATTTTT
98776 TTTCTTTTTTTTCTTTCTG-ATTTT
1 TTTC-TTTTTTTCTTTCTGTATTTT
98800 GTAAATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (25 bp):
TTTCTTTTTTTCTTTCTGTATTTTT
Found at i:100955 original size:40 final size:39
Alignment explanation
Indices: 100883--101002 Score: 147
Period size: 40 Copynumber: 3.1 Consensus size: 39
100873 AAGCATTTTC
* *
100883 AAAAAAAATGTTTTTAAATAACTCCAAAAGAAGACTTTTGG
1 AAAATAAATGTTTTTAGA-AA-TCCAAAAGAAGACTTTTGG
* *
100924 AAGATAAATGTTTTTAGCAAATCCAAAAGAAGATTTTTGG
1 AAAATAAATGTTTTTAG-AAATCCAAAAGAAGACTTTTGG
*
100964 AAAATAAATG--TTT-GAAATCCAAGAGAAGACTTTTGG
1 AAAATAAATGTTTTTAGAAATCCAAAAGAAGACTTTTGG
101000 AAA
1 AAA
101003 TTAATAAATC
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
36 23 0.32
37 1 0.01
38 3 0.04
40 27 0.38
41 16 0.23
42 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (39 bp):
AAAATAAATGTTTTTAGAAATCCAAAAGAAGACTTTTGG
Found at i:102235 original size:38 final size:40
Alignment explanation
Indices: 102190--102294 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 40
102180 ACCAATTTTA
* ** *
102190 TTATTTTCCAAAAGTTTTCTCTTGGATTT-TTCAA-ACTT
1 TTATTTTCCAAAAGTCTTCTCTTGGATTTCTAAAAGACAT
*
102228 TTATTTTCCAAAAGTCTTCTTTTGGATTTGCTAAAAGACAT
1 TTATTTTCCAAAAGTCTTCTCTTGGATTT-CTAAAAGACAT
*
102269 TCATTTTCCAAAAGTCTTCTCTTGGA
1 TTATTTTCCAAAAGTCTTCTCTTGGA
102295 ATTGTGTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
38 27 0.47
40 3 0.05
41 27 0.47
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (40 bp):
TTATTTTCCAAAAGTCTTCTCTTGGATTTCTAAAAGACAT
Found at i:102280 original size:41 final size:38
Alignment explanation
Indices: 102192--102294 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 38
102182 CAATTTTATT
* ** * *
102192 ATTTTCCAAAAGTTTTCTCTTGGATTTTTCAAACTTTT
1 ATTTTCCAAAAGTCTTCTCTTGGATTTTAAAAACATTC
*
102230 ATTTTCCAAAAGTCTTCTTTTGGATTTGCTAAAAGACATTC
1 ATTTTCCAAAAGTCTTCTCTTGGATTT--TAAAA-ACATTC
102271 ATTTTCCAAAAGTCTTCTCTTGGA
1 ATTTTCCAAAAGTCTTCTCTTGGA
102295 ATTGTGTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
38 25 0.45
40 3 0.05
41 27 0.49
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (38 bp):
ATTTTCCAAAAGTCTTCTCTTGGATTTTAAAAACATTC
Found at i:102491 original size:13 final size:13
Alignment explanation
Indices: 102475--102500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102465 ATTTTTTCAC
102475 TTTTCCTTTTCTT
1 TTTTCCTTTTCTT
102488 TTTTCCTTTTCTT
1 TTTTCCTTTTCTT
102501 CAAATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCCTTTTCTT
Found at i:104687 original size:105 final size:106
Alignment explanation
Indices: 104510--104769 Score: 402
Period size: 107 Copynumber: 2.5 Consensus size: 106
104500 TTTTTCTAAG
* **
104510 CCTTAAAATAAAATTTTAATTTTAATTT-GGGCTAAACTTAGTG-AATTAGTTATATATTTTATT
1 CCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTATATATTTTATT
104573 TCTAAAACCCTATAACAAT-ATTATTAATTATAG-AATTTAC
66 TCTAAAACCCTATAACAATAATTATTAATT-TAGAAATTTAC
* *
104613 CCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTTTATTTTATT
1 CCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTATATATTTTATT
*
104678 TCTAAAACCCTATAACAATAAATTATTAATTTTGAAATTTAC
66 TCTAAAACCCTATAACAAT-AATTATTAATTTAGAAATTTAC
* *
104720 CCTTAAAATAAAAATAAAATTTTAAATTGGGGCTAAACTCAGTGAAATTA
1 CCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTA
104770 AGGCTAAACT
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
103 25 0.17
104 15 0.10
105 37 0.26
106 2 0.01
107 65 0.45
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (106 bp):
CCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTATATATTTTATT
TCTAAAACCCTATAACAATAATTATTAATTTAGAAATTTAC
Found at i:114048 original size:23 final size:23
Alignment explanation
Indices: 114022--114074 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
114012 GGCCTTGGTA
*
114022 GTTAATTATAG-AGGTTAATAGT-G
1 GTTAATTA-AGTAAGTTAATA-TCG
114045 GTTAATTAAGTAAGTTAATATCG
1 GTTAATTAAGTAAGTTAATATCG
114068 GTTAATT
1 GTTAATT
114075 CCAGTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.42
Consensus pattern (23 bp):
GTTAATTAAGTAAGTTAATATCG
Found at i:114751 original size:11 final size:11
Alignment explanation
Indices: 114735--114769 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
114725 TTGACAACGC
114735 AACAAAAACAA
1 AACAAAAACAA
**
114746 AACAAAAATGA
1 AACAAAAACAA
114757 AACAAAAACAA
1 AACAAAAACAA
114768 AA
1 AA
114770 AACAGAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.80, C:0.14, G:0.03, T:0.03
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:119171 original size:50 final size:50
Alignment explanation
Indices: 119054--119294 Score: 448
Period size: 50 Copynumber: 4.8 Consensus size: 50
119044 AGGGCTCTTC
119054 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAA-TGTCTCG
1 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
119103 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
1 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
119153 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
1 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
119203 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
1 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
* * *
119253 ATCCGGTCATACTACCTGTCAAGGGGATGTTACTGCCGATAA
1 ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAA
119295 GAAGTGTGAT
Statistics
Matches: 188, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
49 42 0.22
50 146 0.78
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.29
Consensus pattern (50 bp):
ATCCGGTCTTACTACCCGTCAAGGGGGTGTTACTGCCGATAATTGTCTCG
Found at i:120025 original size:93 final size:90
Alignment explanation
Indices: 119662--120168 Score: 753
Period size: 90 Copynumber: 5.6 Consensus size: 90
119652 CAAGTACTAG
** * * * * *
119662 GCATATACCACCATCAAAATATGATAAAACATGTAAGCATGTTTAAACGATGCTCTTGCATAATC
1 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAACGATGCTCTTGCATGATC
* * *
119727 ATATTAGCTCAATTTATGTATATAA
66 ATAATATCTCAATTTATGCATATAA
119752 GCATATACTTCCATCAAAAAATGATAAAAACATGTTATCATGCTTAAACGATGCTCTTGCATGAT
1 GCATATACTTCCATCAAAAAATGAT-AAAACATGTTATCATGCTTAAACGATGCTCTTGCATGAT
119817 CATAATATCTCAATTTATGCATATAA
65 CATAATATCTCAATTTATGCATATAA
* *
119843 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTTTTGCATGATC
1 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAACGATGCTCTTGCATGATC
119908 ATAATATCTCAATTTATGCATATAA
66 ATAATATCTCAATTTATGCATATAA
** * *
119933 GCATATACTTTTACCAAAAAATGATAAAAAGGCATGTTATCATGCTTAAACGATGCTTTTGCATG
1 GCATATACTTCCATCAAAAAATGAT-AAAA--CATGTTATCATGCTTAAACGATGCTCTTGCATG
119998 ATCATAATATCTCAATTTATGCATATAA
63 ATCATAATATCTCAATTTATGCATATAA
* ** *
120026 GTATATACTTCCATCGGAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTCTTGCATGATC
1 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAACGATGCTCTTGCATGATC
120091 ATAATATCTCAATTTATGCATATAA
66 ATAATATCTCAATTTATGCATATAA
* * *
120116 GCATATACTTCTACCAAAAAAAGATAAAAGTCATGTTATCATGCTTAAACGAT
1 GCATATACTTCCATCAAAAAATGATAAAA--CATGTTATCATGCTTAAACGAT
120169 CATATTAGCT
Statistics
Matches: 380, Mismatches: 31, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
90 189 0.50
91 87 0.23
92 25 0.07
93 79 0.21
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (90 bp):
GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAACGATGCTCTTGCATGATC
ATAATATCTCAATTTATGCATATAA
Found at i:120034 original size:183 final size:182
Alignment explanation
Indices: 119662--120168 Score: 802
Period size: 183 Copynumber: 2.8 Consensus size: 182
119652 CAAGTACTAG
** * * * * * *
119662 GCATATACCACCATCAAAATATGATAAAACATGTAAGCATGTTTAAACGATGCTCTTGCATAATC
1 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTCTTGCATGATC
* * * * *
119727 ATATTAGCTCAATTTATGTATATAAGCATATACTTCCATCAAAAAATGATAAAAA-CATGTTATC
66 ATAATATCTCAATTTATGCATATAAGCATATACTTCTACCAAAAAATGATAAAAAGCATGTTATC
119791 ATGCTTAAACGATGCTCTTGCATGATCATAATATCTCAATTTATGCATATAA
131 ATGCTTAAACGATGCTCTTGCATGATCATAATATCTCAATTTATGCATATAA
*
119843 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTTTTGCATGATC
1 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTCTTGCATGATC
*
119908 ATAATATCTCAATTTATGCATATAAGCATATACTTTTACCAAAAAATGATAAAAAGGCATGTTAT
66 ATAATATCTCAATTTATGCATATAAGCATATACTTCTACCAAAAAATGATAAAAA-GCATGTTAT
*
119973 CATGCTTAAACGATGCTTTTGCATGATCATAATATCTCAATTTATGCATATAA
130 CATGCTTAAACGATGCTCTTGCATGATCATAATATCTCAATTTATGCATATAA
* **
120026 GTATATACTTCCATCGGAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTCTTGCATGATC
1 GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTCTTGCATGATC
*
120091 ATAATATCTCAATTTATGCATATAAGCATATACTTCTACCAAAAAAAGAT-AAAAGTCATGTTAT
66 ATAATATCTCAATTTATGCATATAAGCATATACTTCTACCAAAAAATGATAAAAAG-CATGTTAT
120155 CATGCTTAAACGAT
130 CATGCTTAAACGAT
120169 CATATTAGCT
Statistics
Matches: 301, Mismatches: 22, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
181 106 0.35
182 26 0.09
183 169 0.56
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (182 bp):
GCATATACTTCCATCAAAAAATGATAAAACATGTTATCATGCTTAAAGGATGCTCTTGCATGATC
ATAATATCTCAATTTATGCATATAAGCATATACTTCTACCAAAAAATGATAAAAAGCATGTTATC
ATGCTTAAACGATGCTCTTGCATGATCATAATATCTCAATTTATGCATATAA
Found at i:127590 original size:30 final size:30
Alignment explanation
Indices: 127499--127632 Score: 153
Period size: 30 Copynumber: 4.4 Consensus size: 30
127489 ATAGCTCAAT
* *
127499 TGCTCAAATAAGGGCCTAACGTTTGTGTAAA
1 TGCTCAAATAAGGGCCTAAC-ATTGTGAAAA
*****
127530 TGCTCAAATAAGGGCCTAA-AGAAAAAAAAA
1 TGCTCAAATAAGGGCCTAACA-TTGTGAAAA
127560 TGCTCAAATAAGGGCCTAACATTGTGAAAA
1 TGCTCAAATAAGGGCCTAACATTGTGAAAA
*
127590 TGCTCAAATAAGGACCTAACATTGTGAAAA
1 TGCTCAAATAAGGGCCTAACATTGTGAAAA
*
127620 TTGCTCAACTAAG
1 -TGCTCAAATAAG
127633 TCCTTGTCGT
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
30 55 0.64
31 31 0.36
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (30 bp):
TGCTCAAATAAGGGCCTAACATTGTGAAAA
Found at i:128197 original size:2 final size:2
Alignment explanation
Indices: 128186--128214 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
128176 GGGTTATCAT
128186 TA TA TA -A 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
128215 AGTAACCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.