Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 97 of 345
Found at i:26320284 original size:2 final size:2
Alignment explanation
Indices: 26320277--26320306 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26320267 AGAAGATCAT
26320277 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26320307 AACTTTTCTA
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):
TA
Found at i:26325667 original size:27 final size:27
Alignment explanation
Indices: 26325629--26325681 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
26325619 AGCTGATCAA
26325629 ACTAGTATTTTATTACAATATAGATAT
1 ACTAGTATTTTATTACAATATAGATAT
26325656 ACTAGTATTTTATTACAATATAGATA
1 ACTAGTATTTTATTACAATATAGATA
26325682 AATTACTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (27 bp):
ACTAGTATTTTATTACAATATAGATAT
Found at i:26325696 original size:27 final size:27
Alignment explanation
Indices: 26325639--26325696 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
26325629 ACTAGTATTT
* * ***
26325639 TATTACAATATAGATATACTAGTATTT
1 TATTACAATATAGATAAACTACTAGAA
*
26325666 TATTACAATATAGATAAATTACTAGAA
1 TATTACAATATAGATAAACTACTAGAA
26325693 TATT
1 TATT
26325697 TTTAATGGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (27 bp):
TATTACAATATAGATAAACTACTAGAA
Found at i:26326982 original size:31 final size:31
Alignment explanation
Indices: 26326945--26327071 Score: 99
Period size: 31 Copynumber: 4.3 Consensus size: 31
26326935 CAAGTTAGTT
26326945 CCTGAACTTGATAATTGTTCTCACATTGAGG
1 CCTGAACTTGATAATTGTTCTCACATTGAGG
* *
26326976 CTTGAACTT--T--TT-TTC-CA-AGTT-AGTC
1 CCTGAACTTGATAATTGTTCTCACA-TTGAG-G
* *
26327001 CCTGAACTTGATAATTGTTCTCATATTGGGG
1 CCTGAACTTGATAATTGTTCTCACATTGAGG
** * *
26327032 CCTGAACTTGGCAAATGTTCCCACATTGAGG
1 CCTGAACTTGATAATTGTTCTCACATTGAGG
*
26327063 CTTGAACTT
1 CCTGAACTT
26327072 TAGAGTTCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
24 3 0.04
25 12 0.16
26 3 0.04
27 3 0.04
29 3 0.04
30 3 0.04
31 45 0.61
32 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (31 bp):
CCTGAACTTGATAATTGTTCTCACATTGAGG
Found at i:26326982 original size:62 final size:58
Alignment explanation
Indices: 26326900--26327040 Score: 171
Period size: 56 Copynumber: 2.4 Consensus size: 58
26326890 TTAGCAATAA
* *
26326900 TTCTCACATTGAGG-TCTGAACTTTTTTTTTTTGGTCAAGTTAGTTCCTGAACTTGATAATTG
1 TTCTCACATTGAGGCT-TGAAC--TTTTTTTTT--CCAAGTTAGTCCCTGAACTTGATAATTG
26326962 TTCTCACATTGAGGCTTGAAC--TTTTTTTCCAAGTTAGTCCCTGAACTTGATAATTG
1 TTCTCACATTGAGGCTTGAACTTTTTTTTTCCAAGTTAGTCCCTGAACTTGATAATTG
* * *
26327018 TTCTCATATTGGGGCCTGAACTT
1 TTCTCACATTGAGGCTTGAACTT
26327041 GGCAAATGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
56 44 0.62
58 7 0.10
62 19 0.27
63 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (58 bp):
TTCTCACATTGAGGCTTGAACTTTTTTTTTCCAAGTTAGTCCCTGAACTTGATAATTG
Found at i:26326998 original size:56 final size:56
Alignment explanation
Indices: 26326935--26327040 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 56
26326925 TTTTTTTGGT
* *
26326935 CAAGTTAGTTCCTGAACTTGATAATTGTTCTCACATTGAGGCTTGAACTTTTTTTC
1 CAAGTTAGTCCCTGAACTTGATAATTGTTCTCACATTGAGGCCTGAACTTTTTTTC
* *
26326991 CAAGTTAGTCCCTGAACTTGATAATTGTTCTCATATTGGGGCCTGAACTT
1 CAAGTTAGTCCCTGAACTTGATAATTGTTCTCACATTGAGGCCTGAACTT
26327041 GGCAAATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (56 bp):
CAAGTTAGTCCCTGAACTTGATAATTGTTCTCACATTGAGGCCTGAACTTTTTTTC
Found at i:26332167 original size:2 final size:2
Alignment explanation
Indices: 26332160--26332191 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26332150 CATAAATACC
26332160 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
26332192 GAAAACCCTT
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:26332956 original size:18 final size:18
Alignment explanation
Indices: 26332910--26332958 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
26332900 TTTTTATTAC
*
26332910 AGTTTAAATTA-TTTTAG
1 AGTTTAAATTATTTTTAA
**
26332927 A-TTTTGATTATTTTTAA
1 AGTTTAAATTATTTTTAA
26332944 AGTTTAAATTATTTT
1 AGTTTAAATTATTTT
26332959 GAGTTTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 7 0.28
17 7 0.28
18 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
AGTTTAAATTATTTTTAA
Found at i:26335066 original size:9 final size:9
Alignment explanation
Indices: 26335049--26335085 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
26335039 TAGATTACTG
26335049 AAATT-ATT
1 AAATTAATT
26335057 AAATTAATT
1 AAATTAATT
26335066 AAATTAA-T
1 AAATTAATT
*
26335074 AAAATAATT
1 AAATTAATT
26335083 AAA
1 AAA
26335086 ATAAAAACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 12 0.46
9 14 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAATTAATT
Found at i:26335082 original size:17 final size:17
Alignment explanation
Indices: 26335049--26335085 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
26335039 TAGATTACTG
* *
26335049 AAATTATTAAATTAATT
1 AAATTAATAAAATAATT
26335066 AAATTAATAAAATAATT
1 AAATTAATAAAATAATT
26335083 AAA
1 AAA
26335086 ATAAAAACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAATAAAATAATT
Found at i:26335600 original size:13 final size:13
Alignment explanation
Indices: 26335582--26335606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26335572 CAAGAAATAT
26335582 ATTATAATAAAAA
1 ATTATAATAAAAA
26335595 ATTATAATAAAA
1 ATTATAATAAAA
26335607 TAAGAAACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTATAATAAAAA
Found at i:26338084 original size:21 final size:21
Alignment explanation
Indices: 26338054--26338093 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26338044 TAACGGGAGC
*
26338054 GCTGATGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
26338075 GCTGACGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
26338094 TTGCCACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:26338572 original size:18 final size:18
Alignment explanation
Indices: 26338549--26338621 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
26338539 ATTTAGGGTT
26338549 ATTTCGATTTCAATTTTG
1 ATTTCGATTTCAATTTTG
*
26338567 ATTTCGA-TTCTGATTTTG
1 ATTTCGATTTC-AATTTTG
* **
26338585 ATTTCGATTTCTATTTCA
1 ATTTCGATTTCAATTTTG
**
26338603 ATTTTAATTTCAATTTTG
1 ATTTCGATTTCAATTTTG
26338621 A
1 A
26338622 AACACTCATT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
17 3 0.07
18 38 0.86
19 3 0.07
ACGTcount: A:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (18 bp):
ATTTCGATTTCAATTTTG
Found at i:26338595 original size:6 final size:6
Alignment explanation
Indices: 26338549--26338606 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
26338539 ATTTAGGGTT
* * * *
26338549 ATTTCG ATTTCA ATTTTG ATTTCG A-TTCTG ATTTTG ATTTCG ATTTCT
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTC-G ATTTCG ATTTCG ATTTCG
*
26338597 ATTTCA ATTT
1 ATTTCG ATTT
26338607 TAATTTCAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 3 0.07
6 37 0.88
7 2 0.05
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (6 bp):
ATTTCG
Found at i:26338701 original size:18 final size:18
Alignment explanation
Indices: 26338639--26338708 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
26338629 ATTGATTCTG
* *
26338639 ATTTTGATTTTGATTTCA
1 ATTTTGATTTAGATTTAA
* * *
26338657 ATTTCGATCTCA-ATTTAG
1 ATTTTGAT-TTAGATTTAA
* *
26338675 CTTTAGATTTAGATTTAA
1 ATTTTGATTTAGATTTAA
*
26338693 ATTTTGATTTCGATTT
1 ATTTTGATTTAGATTT
26338709 GGGGTTATTT
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
17 2 0.05
18 35 0.92
19 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTTGATTTAGATTTAA
Found at i:26338821 original size:48 final size:48
Alignment explanation
Indices: 26338760--26338936 Score: 246
Period size: 48 Copynumber: 3.6 Consensus size: 48
26338750 GCCATGTGCA
* * *
26338760 TGATATTTATTGTTTTTATCTGCCATTGTATGGATGTCATTATCAAAC
1 TGATGTTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAAC
26338808 TGATGTTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAAC
1 TGATGTTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAAC
* *
26338856 TGATGTTTGTTTATTGTTTGTATCTGTCATTATATGGATGCCATTATCAAAC
1 TGA----TGTTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAAC
* * *
26338908 TGATGTTTATTGTGTATATCTACCATTGT
1 TGATGTTTATTGTTTGTATCTGCCATTGT
26338937 TTGTATCCAA
Statistics
Matches: 115, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
48 69 0.60
52 46 0.40
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (48 bp):
TGATGTTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAAC
Found at i:26338892 original size:52 final size:52
Alignment explanation
Indices: 26338765--26338915 Score: 238
Period size: 52 Copynumber: 3.0 Consensus size: 52
26338755 GTGCATGATA
* *
26338765 TTTATTGTTTTTATCTGCCATTGTATGGATGTCATTATCAAACTGA----TG
1 TTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAACTGATGTTTG
26338813 TTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAACTGATGTTTG
1 TTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAACTGATGTTTG
* *
26338865 TTTATTGTTTGTATCTGTCATTATATGGATGCCATTATCAAACTGATGTTT
1 TTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAACTGATGTTT
26338916 ATTGTGTATA
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
48 44 0.46
52 51 0.54
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.48
Consensus pattern (52 bp):
TTTATTGTTTGTATCTGCCATTGTATGGATGCCATTATCAAACTGATGTTTG
Found at i:26343710 original size:16 final size:16
Alignment explanation
Indices: 26343685--26343715 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26343675 TTCGCCACAA
26343685 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
*
26343701 AAAAAGAAAGAAAAA
1 AAAAAAAAAGAAAAA
26343716 CATTACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:26348120 original size:24 final size:23
Alignment explanation
Indices: 26348059--26348120 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
26348049 TTGTTTAAAA
26348059 AATTTAAAATATTTTTTATGAAAT
1 AATTTAAAAT-TTTTTTATGAAAT
* *
26348083 AATATAAATTTTTTTTTAT-AATAT
1 AATTTAAA-ATTTTTTTATGAA-AT
26348107 AATTTTAAAATTTT
1 AA-TTTAAAATTTT
26348121 AAAATAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 2 0.06
24 23 0.74
25 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTTAAAATTTTTTTATGAAAT
Found at i:26349521 original size:15 final size:15
Alignment explanation
Indices: 26349501--26349532 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26349491 CATTTCACTA
*
26349501 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
26349516 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
26349531 TT
1 TT
26349533 TGCATACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:26354894 original size:8 final size:8
Alignment explanation
Indices: 26354863--26354910 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
26354853 AGATTAAAAC
26354863 ATAATTTT
1 ATAATTTT
*
26354871 GTAA-TTT
1 ATAATTTT
* *
26354878 ATTACTTT
1 ATAATTTT
26354886 ATAATTTT
1 ATAATTTT
26354894 ATAATTTT
1 ATAATTTT
*
26354902 ATATTTTT
1 ATAATTTT
26354910 A
1 A
26354911 AAGGACTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 5 0.15
8 28 0.85
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
ATAATTTT
Found at i:26358783 original size:3 final size:3
Alignment explanation
Indices: 26358775--26358811 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
26358765 CAGTTTTGCA
26358775 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26358812 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26369617 original size:13 final size:14
Alignment explanation
Indices: 26369593--26369619 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26369583 AGTTTACGAA
26369593 TTAAATTTTTTTTT
1 TTAAATTTTTTTTT
26369607 TTAAATTTTTTTT
1 TTAAATTTTTTTT
26369620 CAATTCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTAAATTTTTTTTT
Found at i:26373176 original size:2 final size:2
Alignment explanation
Indices: 26373169--26373193 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26373159 TTATCTACCA
26373169 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 A
26373194 CTTATGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26375028 original size:20 final size:21
Alignment explanation
Indices: 26374999--26375043 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
26374989 CTTATTATGT
26374999 TATATCATATGAAAAT-TAAA
1 TATATCATATGAAAATCTAAA
* * *
26375019 TATATTATATTATAATCTAAA
1 TATATCATATGAAAATCTAAA
26375040 TATA
1 TATA
26375044 AAAAATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
TATATCATATGAAAATCTAAA
Found at i:26380375 original size:33 final size:31
Alignment explanation
Indices: 26380337--26380400 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
26380327 GACACTACAG
*
26380337 ATATTACTAGACAGTAATGGATTGTCAAAATAT
1 ATATTACTAGACAG--ATGGATTATCAAAATAT
* * *
26380370 ATATTAGTTGATAGATGGATTATCAAAATAT
1 ATATTACTAGACAGATGGATTATCAAAATAT
26380401 TTGATTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 16 0.59
33 11 0.41
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (31 bp):
ATATTACTAGACAGATGGATTATCAAAATAT
Found at i:26384933 original size:29 final size:29
Alignment explanation
Indices: 26384898--26384969 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
26384888 TAACTGGATC
* *
26384898 TAAATTTTGAAATCTGAAAAATAAAAAAAT
1 TAAATTTTAAAATAT-AAAAATAAAAAAAT
* * * *
26384928 TAATTTTTTAAATATAAAAGTATAAAAAT
1 TAAATTTTAAAATATAAAAATAAAAAAAT
26384957 TAAATTTTAAAAT
1 TAAATTTTAAAAT
26384970 TTTCAAGAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (29 bp):
TAAATTTTAAAATATAAAAATAAAAAAAT
Found at i:26385252 original size:21 final size:22
Alignment explanation
Indices: 26385222--26385268 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
26385212 TTTAATAATT
26385222 AAAA-TTAAATT-TGAAAATGA
1 AAAATTTAAATTCTGAAAATGA
*
26385242 AAAATTTAAATTCTGAAAATTA
1 AAAATTTAAATTCTGAAAATGA
26385264 AAAAT
1 AAAAT
26385269 ACAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 13 0.54
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (22 bp):
AAAATTTAAATTCTGAAAATGA
Found at i:26385655 original size:13 final size:12
Alignment explanation
Indices: 26385628--26385658 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
26385618 AAGTTTAAAT
26385628 TTATATTTTTTA
1 TTATATTTTTTA
26385640 TTATATTTTATTA
1 TTATATTTT-TTA
26385653 TTATAT
1 TTATAT
26385659 GCTGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATATTTTTTA
Found at i:26386957 original size:29 final size:30
Alignment explanation
Indices: 26386903--26386982 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
26386893 ATTTGTTGTT
* * *
26386903 TTTTTAATATAATTAAA-ATTGACACTCAA-
1 TTTTT-ATATTATTAAATTTTGACACTAAAC
*
26386932 TTTTTATATTATTAAATTTTGCCACTAAAC
1 TTTTTATATTATTAAATTTTGACACTAAAC
** *
26386962 TTTAAATTTTATTAAATTTTG
1 TTTTTATATTATTAAATTTTG
26386983 GCACCAACTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 10 0.24
29 14 0.33
30 18 0.43
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.50
Consensus pattern (30 bp):
TTTTTATATTATTAAATTTTGACACTAAAC
Found at i:26394462 original size:20 final size:21
Alignment explanation
Indices: 26394437--26394476 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
26394427 TCATGATAGG
*
26394437 TTTTTTATTTATT-TTTTGAT
1 TTTTTTATTAATTATTTTGAT
26394457 TTTTTTATTAATTATTTTGA
1 TTTTTTATTAATTATTTTGA
26394477 ATATCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTTTATTAATTATTTTGAT
Found at i:26395204 original size:21 final size:21
Alignment explanation
Indices: 26395165--26395204 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26395155 AAATAATTTT
*
26395165 GGTTCAGAGTTTGAAGTTTGA
1 GGTTCAGAGTTTCAAGTTTGA
* *
26395186 GGTTCAGGGTTTCAGGTTT
1 GGTTCAGAGTTTCAAGTTT
26395205 AGCGTTCGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.35, T:0.40
Consensus pattern (21 bp):
GGTTCAGAGTTTCAAGTTTGA
Found at i:26396083 original size:31 final size:31
Alignment explanation
Indices: 26396045--26396105 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
26396035 TATTTTGGTC
*
26396045 ATTAAATTATTAGAAAGTTTTCATTTAAGTT
1 ATTAAATTATTAGAAAGTTTTCAATTAAGTT
* * *
26396076 ATTAAATTATTTGAGAGTTTTTAATTAAGT
1 ATTAAATTATTAGAAAGTTTTCAATTAAGT
26396106 CTTTAGATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTAAATTATTAGAAAGTTTTCAATTAAGTT
Found at i:26399216 original size:16 final size:15
Alignment explanation
Indices: 26399180--26399216 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
26399170 TCAAAACCAA
*
26399180 TATTTTTATAACATT
1 TATTTTTATAACACT
*
26399195 TATTTTTATAATACT
1 TATTTTTATAACACT
26399210 TATTTTT
1 TATTTTT
26399217 CTTTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTATAACACT
Found at i:26399234 original size:13 final size:13
Alignment explanation
Indices: 26399213--26399256 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 13
26399203 TAATACTTAT
26399213 TTTTC-TTTAAAA
1 TTTTCATTTAAAA
26399225 TTTTCATTTAAAA
1 TTTTCATTTAAAA
*
26399238 TTATGTCATATAAAA
1 TT-T-TCATTTAAAA
26399253 TTTT
1 TTTT
26399257 TAACAGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 2 0.07
15 11 0.39
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (13 bp):
TTTTCATTTAAAA
Found at i:26404488 original size:20 final size:19
Alignment explanation
Indices: 26404460--26404497 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
26404450 CCAAAAAATA
26404460 AAAAAGAGAAAAAGATTAAC
1 AAAAAGAGAAAAA-ATTAAC
*
26404480 AAAAGGAGAAAAAATTAA
1 AAAAAGAGAAAAAATTAA
26404498 ATTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.71, C:0.03, G:0.16, T:0.11
Consensus pattern (19 bp):
AAAAAGAGAAAAAATTAAC
Found at i:26405116 original size:16 final size:16
Alignment explanation
Indices: 26405095--26405127 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
26405085 TGGTTTACTA
26405095 TGCTGATACTCTGATC
1 TGCTGATACTCTGATC
26405111 TGCTGATACTCTGATC
1 TGCTGATACTCTGATC
26405127 T
1 T
26405128 AGGCTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (16 bp):
TGCTGATACTCTGATC
Found at i:26409519 original size:29 final size:29
Alignment explanation
Indices: 26409486--26409545 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
26409476 AAATTTTGAC
*
26409486 TTAATAAAATTTAAACTACTTAATATCAA
1 TTAATAAAATTTAAACTAATTAATATCAA
* *
26409515 TTAATGAAATTTAAATTAATTAATATCAA
1 TTAATAAAATTTAAACTAATTAATATCAA
26409544 TT
1 TT
26409546 TAAAACTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (29 bp):
TTAATAAAATTTAAACTAATTAATATCAA
Found at i:26416569 original size:11 final size:11
Alignment explanation
Indices: 26416555--26416581 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26416545 GAATGAAAAT
26416555 AAAAAATTAAA
1 AAAAAATTAAA
26416566 AAAAAATTAAA
1 AAAAAATTAAA
26416577 AAAAA
1 AAAAA
26416582 CCTGAGTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:26417470 original size:22 final size:22
Alignment explanation
Indices: 26417424--26417466 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
26417414 ATACAGTTAT
*
26417424 TAAATATTAAAATAATATAATA
1 TAAATATTAAAATAATATAAAA
26417446 TAAATATTTAAAA-AAT-TAAAA
1 TAAATA-TTAAAATAATATAAAA
26417467 ATAATATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATATTAAAATAATATAAAA
Found at i:26420563 original size:22 final size:21
Alignment explanation
Indices: 26420490--26420559 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
26420480 TTTCTTTGGA
26420490 ATTAATTT-AATATTTTAAAAT
1 ATTAATTTAAATA-TTTAAAAT
26420511 -TATAATTTCAAAT-TTTAAAAT
1 AT-TAATTT-AAATATTTAAAAT
26420532 ATTTTAA-TTAAATATTTAAAAT
1 A--TTAATTTAAATATTTAAAAT
26420554 ATTAAT
1 ATTAAT
26420560 ATTATATCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
20 5 0.12
21 18 0.44
22 11 0.27
23 6 0.15
24 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAATTTAAATATTTAAAAT
Found at i:26425887 original size:3 final size:3
Alignment explanation
Indices: 26425879--26426176 Score: 200
Period size: 3 Copynumber: 97.3 Consensus size: 3
26425869 CTATTTTACC
* * * * *
26425879 ATT ATT ATT ATT ATT ATT ATT ATC ATT -TT TTGT ATC CTT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* ** * *
26425924 A-T ATT ATT ATT GTT -TCCT CCT ATT ATT ATT AACCT ATT ATT ATT CTT
1 ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT -A-TT ATT ATT ATT ATT
* *
26425971 ATT AGT A-T ATT ATT ATT -TCCT ATT CTT -TAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT--T ATT ATT AT-T ATT ATT ATT ATT ATT
*
26426016 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * *
26426062 CATGT ATAT ATT ATT ATT -TAT ATT ATT GTT ATT ATT -TAT ACT CTT
1 -AT-T AT-T ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * *
26426107 ATC GTT ACT ATT GTT TTT ATT CCTT -TT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
26426152 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
26426177 CCTTATTTTA
Statistics
Matches: 235, Mismatches: 37, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
2 13 0.06
3 199 0.85
4 20 0.09
5 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:26427090 original size:28 final size:28
Alignment explanation
Indices: 26427050--26427105 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
26427040 GCAAGCTCAT
26427050 TCTCAAAAGTTCGAGATATCGTGTCCTA
1 TCTCAAAAGTTCGAGATATCGTGTCCTA
*
26427078 TCTCAAAAGTTCGAGATGTCGTGTCCTA
1 TCTCAAAAGTTCGAGATATCGTGTCCTA
26427106 ACTTACTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (28 bp):
TCTCAAAAGTTCGAGATATCGTGTCCTA
Found at i:26430466 original size:21 final size:21
Alignment explanation
Indices: 26430440--26430491 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
26430430 TCACTTCGTT
26430440 TCTTTTTGTCCAAATTACTTC
1 TCTTTTTGTCCAAATTACTTC
* *
26430461 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAATTACTTC
26430482 TCTTTTTGTC
1 TCTTTTTGTC
26430492 TAACTCAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.23, G:0.10, T:0.56
Consensus pattern (21 bp):
TCTTTTTGTCCAAATTACTTC
Found at i:26431805 original size:29 final size:28
Alignment explanation
Indices: 26431743--26431798 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
26431733 GTATTTGATA
* * *
26431743 AATTAGACTTGGTTTACGTAAAAATATC
1 AATTAGACTTGGTTTACCTAAAAAAAAC
26431771 AATTAGACTTGGTTTACCTAAAAAAAAC
1 AATTAGACTTGGTTTACCTAAAAAAAAC
26431799 TGATTAGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (28 bp):
AATTAGACTTGGTTTACCTAAAAAAAAC
Found at i:26437512 original size:8 final size:8
Alignment explanation
Indices: 26437496--26437527 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
26437486 ATATATATTA
26437496 TTATATTTT
1 TTAT-TTTT
26437505 TTATTTTT
1 TTATTTTT
26437513 TTATTTTT
1 TTATTTTT
26437521 TTATTTT
1 TTATTTT
26437528 CTTAATGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTATTTTT
Found at i:26441948 original size:14 final size:16
Alignment explanation
Indices: 26441929--26441967 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
26441919 AAGAAAATGA
*
26441929 TGATATATGACA-A-G
1 TGATATATGAAATATG
26441943 TGATATATGAAATATG
1 TGATATATGAAATATG
26441959 TGATATATG
1 TGATATATG
26441968 TTATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (16 bp):
TGATATATGAAATATG
Found at i:26442350 original size:49 final size:49
Alignment explanation
Indices: 26442276--26442463 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 49
26442266 TGAGGTCACG
* *
26442276 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * ** * * * *
26442325 TATGTAGTACTAAGTGCAGGCTACTATGCGTACTTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
26442376 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
26442425 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
26442464 GCTTCGGCTA
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 73 0.65
50 2 0.02
51 37 0.33
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:26442444 original size:100 final size:100
Alignment explanation
Indices: 26442271--26442457 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 100
26442261 TATTGTGAGG
**
26442271 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATAATTGGTCGCATATGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAAATAATTGGTCGCATATGTAGTACT
26442336 AAGTGCAGGCTACTATGCGTACTTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACTTGAAAACTGTGA
* * *
26442371 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAAATAATTGGTCGCATATGTAGTACT
26442436 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGGCTACTATGCGTAC
26442458 CAGATAGCTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAAATAATTGGTCGCATATGTAGTACT
AAGTGCAGGCTACTATGCGTACTTGAAAACTGTGA
Found at i:26444992 original size:24 final size:24
Alignment explanation
Indices: 26444971--26445025 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
26444961 AGCTTAATCC
26444971 TAAATTAATAAAA-TAAAATAATAA
1 TAAA-TAATAAAACTAAAATAATAA
26444995 TAAATAATAAAACT-AAATAA-AA
1 TAAATAATAAAACTAAAATAATAA
*
26445017 CAAATAATA
1 TAAATAATA
26445026 TCTTCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.34
23 14 0.48
24 5 0.17
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAATAATAAAACTAAAATAATAA
Found at i:26445324 original size:17 final size:18
Alignment explanation
Indices: 26445292--26445325 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26445282 AGTTTTAAAT
*
26445292 ATTTTTATAAAGTATTTA
1 ATTTTTATAAAATATTTA
26445310 ATTTTTA-AAAATATTT
1 ATTTTTATAAAATATTT
26445326 TTAGACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTTTATAAAATATTTA
Found at i:26448024 original size:91 final size:89
Alignment explanation
Indices: 26447885--26448054 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 89
26447875 CCAGTGTTGC
* * *
26447885 AGGTTAATAAGCTACCAGTAGTTTTGAATACACAACGAGTTTACAGATAAAAGTTGCTAGTAAAA
1 AGGTTAATAAGCTACCAGTAGTTGTGAATACACAACAAGTTTACAGATAAAAGTTACTAGT--AA
26447950 ATTGTGGATAAACCACAGGTGTTTGT
64 ATTGTGGATAAACCACAGGTGTTTGT
* * * * *
26447976 AGGTTAATACGCTGCCAGTGGTTGTGAATACACAACAAGTTTGCAGATAAAAGTTACTAGTAATT
1 AGGTTAATAAGCTACCAGTAGTTGTGAATACACAACAAGTTTACAGATAAAAGTTACTAGTAAAT
*
26448041 TGTGGGTAAACCAC
66 TGTGGATAAACCAC
26448055 CAATGTTTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
89 16 0.23
91 54 0.77
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (89 bp):
AGGTTAATAAGCTACCAGTAGTTGTGAATACACAACAAGTTTACAGATAAAAGTTACTAGTAAAT
TGTGGATAAACCACAGGTGTTTGT
Found at i:26452009 original size:42 final size:43
Alignment explanation
Indices: 26451963--26452053 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
26451953 AGATATAGTA
* *
26451963 TAATAATGAAAATATAAATA-GATAAGAATCATAATA-AATGAG
1 TAATAATGAAAATAAAAATATAATAAGAATCATAATACAATG-G
* *
26452005 TAATAA-GAAAATAAAAATATAATAATAGTCATAATACAATGG
1 TAATAATGAAAATAAAAATATAATAAGAATCATAATACAATGG
26452047 TAATAAT
1 TAATAAT
26452054 AATTACAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 12 0.29
42 26 0.62
43 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.27
Consensus pattern (43 bp):
TAATAATGAAAATAAAAATATAATAAGAATCATAATACAATGG
Found at i:26452012 original size:23 final size:23
Alignment explanation
Indices: 26451984--26452052 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
26451974 ATATAAATAG
26451984 ATAAGAATCATAATAAATGAGTA
1 ATAAGAATCATAATAAATGAGTA
*
26452007 ATAAGAA-AATAA-AAAT-A-TA
1 ATAAGAATCATAATAAATGAGTA
* *
26452026 ATAATAGTCATAATACAATG-GTA
1 ATAAGAATCATAATA-AATGAGTA
26452049 ATAA
1 ATAA
26452053 TAATTACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
19 7 0.19
20 5 0.14
21 5 0.14
22 7 0.19
23 13 0.35
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.26
Consensus pattern (23 bp):
ATAAGAATCATAATAAATGAGTA
Found at i:26452027 original size:19 final size:19
Alignment explanation
Indices: 26451961--26452029 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 19
26451951 ATAGATATAG
*
26451961 TATAATAATGAAAATATAAA
1 TATAATAA-GAAAATAAAAA
* *
26451981 TA-GATAAGAATCATAATAAA
1 TATAATAAGAA-AATAA-AAA
26452001 TGAGTAATAAGAAAATAAAAA
1 T-A-TAATAAGAAAATAAAAA
26452022 TATAATAA
1 TATAATAA
26452030 TAGTCATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 3 0.08
19 13 0.33
20 7 0.18
21 5 0.13
22 4 0.10
23 7 0.18
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (19 bp):
TATAATAAGAAAATAAAAA
Found at i:26452119 original size:2 final size:2
Alignment explanation
Indices: 26452112--26452141 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
26452102 AAAATAATAC
*
26452112 TA TA TA TA AA 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
26452142 ATGAAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:26452168 original size:3 final size:3
Alignment explanation
Indices: 26452162--26452194 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
26452152 ACACTACTAT
*
26452162 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26452195 TAAAATACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:26452258 original size:2 final size:2
Alignment explanation
Indices: 26452253--26452287 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
26452243 AAAATAATAC
* *
26452253 TA TA TA TA AA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26452288 GTACATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:26452292 original size:10 final size:10
Alignment explanation
Indices: 26452249--26452294 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
26452239 ATAAAAAATA
26452249 ATAC-TATAT
1 ATACATATAT
*
26452258 ATAAATATAT
1 ATACATATAT
*
26452268 ATATATATAT
1 ATACATATAT
26452278 ATACATATAT
1 ATACATATAT
*
26452288 GTACATA
1 ATACATA
26452295 AAAATATACC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
9 3 0.09
10 29 0.91
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (10 bp):
ATACATATAT
Found at i:26452372 original size:155 final size:141
Alignment explanation
Indices: 26452084--26452474 Score: 371
Period size: 141 Copynumber: 2.7 Consensus size: 141
26452074 TGATAATAAC
*
26452084 ATTAAAGTAAAGTAA-ATAAAAATAATACTATATATAAATATATATATATATATATATAATGAAA
1 ATTAAAATAAAGTAATA-AAAAATAATACTATATATAAATATATATATATATATATATAATGAAA
* * *
26452148 ATACACACTACTATATAATAATAATAACAATAATAATAATAATAATATAAAATACAAAGAGCAAA
65 ATACACACTAATATATAATAATAATAACAATAATAATAATAATAATATAAAATAAAAAGAACAAA
26452213 TATAATAAAAAT
130 TATAATAAAAAT
*
26452225 ATTAAATTAAAGTAATAAAAAATAATACTATATATAAATATATATATATATATATACATATATGT
1 ATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATATATATATAT--ATA-ATG-
* * * * * *
26452290 ACATAAAAATATACCCTAATATAT-ATGATAATAATAGTAATAATAATAATAGTATTAAAATGCA
62 -----AAAATACACACTAATATATAATAATAATAACAATAATAATAATAATAATA-TAAAAT--A
* **
26452354 AAAAGTAAATATAATATAATAGTAAT
119 AAAAG--AACA-AATATAATAAAAAT
* * * * *
26452380 ATTAAAATAAAGTAAT-TAAAATAGTACTATATATAAAAATATATATACGTACATATGTAAT-AA
1 ATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATATA--TATATATATAATGAA
* * *
26452443 AACATACA-TCAATAT-TAATAGTAATAACAATA
64 AATACACACT-AATATATAATAATAATAACAATA
26452475 GAAGTGATAA
Statistics
Matches: 205, Mismatches: 25, Indels: 35
0.77 0.09 0.13
Matches are distributed among these distances:
141 52 0.25
142 1 0.00
143 3 0.01
144 3 0.01
145 2 0.01
146 24 0.12
149 26 0.13
150 22 0.11
152 5 0.02
153 2 0.01
154 32 0.16
155 27 0.13
156 6 0.03
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (141 bp):
ATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATATATATATATATAATGAAAA
TACACACTAATATATAATAATAATAACAATAATAATAATAATAATATAAAATAAAAAGAACAAAT
ATAATAAAAAT
Found at i:26452393 original size:16 final size:17
Alignment explanation
Indices: 26452355--26452395 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
26452345 TAAAATGCAA
*
26452355 AAAGTAA-ATATAATAT
1 AAAGTAATATATAAAAT
26452371 AATAGTAATAT-TAAAAT
1 AA-AGTAATATATAAAAT
26452388 AAAGTAAT
1 AAAGTAAT
26452396 TAAAATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 12 0.55
18 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (17 bp):
AAAGTAATATATAAAAT
Found at i:26455844 original size:27 final size:27
Alignment explanation
Indices: 26455812--26455863 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
26455802 ATAACCATCC
*
26455812 AAAATTGCCATGGCTTTGAAGTCTTCA
1 AAAATTGCCATGGCTTTGAACTCTTCA
*
26455839 AAAATTGCCATGGTTTTGAACTCTT
1 AAAATTGCCATGGCTTTGAACTCTT
26455864 TGAAACCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (27 bp):
AAAATTGCCATGGCTTTGAACTCTTCA
Found at i:26457165 original size:30 final size:31
Alignment explanation
Indices: 26457093--26457169 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
26457083 TTAAAATTAC
26457093 ACATGAAA-TTTAATTTAATATGCAATTGTAT
1 ACATGAAATTTTAATTTAATA-GCAATTGTAT
* * *
26457124 ATATG-AATTTTAATTTAGTA-CAATTTTAT
1 ACATGAAATTTTAATTTAATAGCAATTGTAT
26457153 ACATGAAATTTTAATTT
1 ACATGAAATTTTAATTT
26457170 GATCAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.30
30 13 0.32
31 15 0.38
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (31 bp):
ACATGAAATTTTAATTTAATAGCAATTGTAT
Found at i:26457696 original size:76 final size:78
Alignment explanation
Indices: 26457549--26457697 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 78
26457539 AAAACTGACA
* * *
26457549 TAAAATTGACTTAGCATATAATAATTTATTTTTTGTCGATCTATTTTTGAAAAAATAATTAATGA
1 TAAAATTCACTTAGCATATAATAATTTATTTTTTGTCAATCTATATTTGAAAAAATAATTAATGA
26457614 TTTAAATTATAAT
66 TTTAAATTATAAT
* *
26457627 TAAAATTCACTTAGCATATAATTA-TTA-TTTTT-TCAATCTATATTTGAAAAAATTAATTGATG
1 TAAAATTCACTTAGCATATAATAATTTATTTTTTGTCAATCTATATTTGAAAAAA-TAATTAATG
26457689 ATTTAAATT
65 ATTTAAATT
26457698 GGGATAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
75 18 0.28
76 22 0.34
77 3 0.05
78 22 0.34
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (78 bp):
TAAAATTCACTTAGCATATAATAATTTATTTTTTGTCAATCTATATTTGAAAAAATAATTAATGA
TTTAAATTATAAT
Found at i:26463014 original size:39 final size:39
Alignment explanation
Indices: 26462978--26463050 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
26462968 GTAATATACG
*
26462978 CATATA-GTGTATTATAT-TTATATTATATATATATATA
1 CATATATGTGTATTAAATATTATATTATATATATATATA
* * *
26463015 TATATATGTGTTTTAAATATTATGTTATATATATAT
1 CATATATGTGTATTAAATATTATATTATATATATAT
26463051 GGGTGTGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 5 0.17
38 9 0.30
39 16 0.53
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.53
Consensus pattern (39 bp):
CATATATGTGTATTAAATATTATATTATATATATATATA
Found at i:26475799 original size:74 final size:75
Alignment explanation
Indices: 26475701--26475920 Score: 277
Period size: 74 Copynumber: 2.9 Consensus size: 75
26475691 TGTTCCAAAG
** * * *
26475701 ATCAACTCATAGGGAGAGATGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAAATTCT-TT
1 ATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTGTT
26475765 TTTCAAAAAA
66 TTTCAAAAAA
* * *
26475775 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTGTT
*
26475840 TGTC--AAAA
66 TTTCAAAAAA
* * *
26475848 ATCAACTCATATCGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTAAGGTCTTTTCAATTTCT
1 ATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGG---ACATGCTGAGGTATTTTCAATTTCT
26475912 GTTTTTCAA
63 GTTTTTCAA
26475921 TTTCTGTTCG
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
72 2 0.02
73 36 0.29
74 55 0.44
75 32 0.26
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (75 bp):
ATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTGTT
TTTCAAAAAA
Found at i:26475919 original size:14 final size:14
Alignment explanation
Indices: 26475900--26475928 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26475890 TGCTAAGGTC
26475900 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
26475914 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
26475928 T
1 T
26475929 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:26476011 original size:89 final size:91
Alignment explanation
Indices: 26475844--26476093 Score: 299
Period size: 93 Copynumber: 2.7 Consensus size: 91
26475834 TCTGTTTGTC
* * * * *
26475844 AAAAATCAACTCATATCGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTAAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
* * **
26475908 TTCTGTTTTTCAATTTCTG-TTC-GTAAA
63 TTCTGCTTTCCAATTTCTGCTTCAAAAAA
* *
26475935 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
26476000 TGCTTTCCAATTTCTGCTCTTCAAAAAA
66 TGCTTTCCAATTTCTG--CTTCAAAAAA
* * * *
26476028 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
26476093 T
66 T
26476094 ATTTGTCAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
89 33 0.24
91 36 0.26
92 5 0.04
93 63 0.46
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (91 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGCTTTCCAATTTCTGCTTCAAAAAA
Found at i:26476177 original size:75 final size:73
Alignment explanation
Indices: 26476028--26476236 Score: 232
Period size: 73 Copynumber: 2.9 Consensus size: 73
26476018 CTTCAAAAAA
*
26476028 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAG-CTTCAGGACACACTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGGACACACTGAGGTAATTTCAATTT
*
26476092 CTATTTGTC
65 CTATTCGTC
* * **
26476101 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTT-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACACA--CTGAGGTAATTTCAAT
*
26476165 TTCTGTTCGTC
63 TTCTATTCGTC
* * *
26476176 --AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGG-CACGCTGAGGT-ATTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGGACACACTGAGGTAATT-TCAATT
26476237 AATGTTTTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
70 2 0.02
71 13 0.11
72 2 0.02
73 72 0.62
74 3 0.03
75 25 0.21
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACACTGAGGTAATTTCAATTTC
TATTCGTC
Found at i:26478245 original size:29 final size:31
Alignment explanation
Indices: 26478213--26478278 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
26478203 TAATATACGC
*
26478213 ATATA-GTGTATTATAT-TTATATTATATAT
1 ATATATGTGTATTAAATATTATATTATATAT
* *
26478242 ATATATGTGTTTTAAATATTATGTTATATAT
1 ATATATGTGTATTAAATATTATATTATATAT
26478273 ATATAT
1 ATATAT
26478279 ATATGGGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 5 0.16
30 9 0.28
31 18 0.56
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (31 bp):
ATATATGTGTATTAAATATTATATTATATAT
Found at i:26479941 original size:44 final size:45
Alignment explanation
Indices: 26479888--26479990 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
26479878 TGTCTTTGAC
* * *
26479888 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
26479932 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
26479978 CTGGACTTACATG
1 ATGGACTTACATG
26479991 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:26491007 original size:21 final size:20
Alignment explanation
Indices: 26490957--26491008 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
26490947 TAACGTGATG
26490957 GTGAGATTAATTACTGTAGC
1 GTGAGATTAATTACTGTAGC
*
26490977 GATGAAATTAGA-TACTGTAGC
1 G-TGAGATTA-ATTACTGTAGC
26490998 AGTGAGATTAA
1 -GTGAGATTAA
26491009 AAATAACGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (20 bp):
GTGAGATTAATTACTGTAGC
Found at i:26491238 original size:22 final size:21
Alignment explanation
Indices: 26491177--26491238 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
26491167 AAATTTATTT
*
26491177 AATAAAATATTAATTAAAAAA
1 AATAAAATATTCATTAAAAAA
* * *
26491198 AATTAAATCA-TCCTGTAAAATAC
1 AATAAAAT-ATTCAT-TAAAA-AA
26491221 AATAAAATATTCATTAAA
1 AATAAAATATTCATTAAA
26491239 TTAAAAGCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAATATTCATTAAAAAA
Found at i:26494549 original size:16 final size:15
Alignment explanation
Indices: 26494523--26494557 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
26494513 TGATGTGAAT
26494523 AATATAAAATATTAA
1 AATATAAAATATTAA
*
26494538 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
26494554 AATA
1 AATA
26494558 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:26494743 original size:22 final size:22
Alignment explanation
Indices: 26494715--26494771 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
26494705 GATAATATTA
* *
26494715 AAAATATTTACATAATATAATT
1 AAAATATATACATAAGATAATT
26494737 AAAATATATACATAAGATAACATGT
1 AAAATATATACATAAGAT-A-AT-T
26494762 AAAATATATA
1 AAAATATATA
26494772 TATATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 16 0.53
23 1 0.03
24 2 0.07
25 11 0.37
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATATACATAAGATAATT
Found at i:26494772 original size:2 final size:2
Alignment explanation
Indices: 26494765--26494838 Score: 59
Period size: 2 Copynumber: 38.5 Consensus size: 2
26494755 AACATGTAAA
*
26494765 AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT AGT AT -T AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
26494805 AG AT AT AT AC AT A- AA AT AGT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A
26494839 CGTAATATAG
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
1 5 0.08
2 50 0.85
3 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (2 bp):
AT
Found at i:26494824 original size:25 final size:25
Alignment explanation
Indices: 26494783--26494915 Score: 102
Period size: 25 Copynumber: 5.6 Consensus size: 25
26494773 ATATATATAT
26494783 ATATATA-ATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
26494807 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
26494832 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
26494856 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
26494878 AATATATATATAATATAATATT-AAG
1 -ATATATACATAATATAGTATTAAAG
*
26494903 AAATATA-ATAATA
1 ATATATACATAATA
26494916 ACAAAAAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 20 0.23
24 30 0.35
25 31 0.36
26 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:26494915 original size:47 final size:47
Alignment explanation
Indices: 26494706--26494915 Score: 127
Period size: 47 Copynumber: 4.5 Consensus size: 47
26494696 TAAATACGTG
* * * *
26494706 ATAATATTAA-AAATATTTACATAATATAAT-TAAAATATATACATAAG
1 ATAATATTAAGAAATA--TACATAATATAGTAAAAAATATATATATAAT
* * * *
26494753 ATAACATGT-A-AAATATATAT-ATATA-T-ATATATATATA-ATAAT
1 ATAATAT-TAAGAAATATACATAATATAGTAAAAAATATATATATAAT
* * * * *
26494795 ATAGTATTAAAGATATATACATAAAATAGTATAATATATATATACGTAAT
1 ATAATATT-AAGAAATATACATAATATAGTAAAAAATATATATA--TAAT
* * *
26494845 ATAGA-ATTTAG-AATATACCTAATATATTAAAAGAATATATATATAAT
1 ATA-ATATTAAGAAATATACATAATATAGTAAAA-AATATATATATAAT
26494892 ATAATATTAAGAAATATA-ATAATA
1 ATAATATTAAGAAATATACATAATA
26494916 ACAAAAAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
41 1 0.01
42 9 0.07
43 10 0.08
44 13 0.10
45 8 0.06
46 2 0.02
47 38 0.30
48 24 0.19
49 11 0.09
50 10 0.08
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (47 bp):
ATAATATTAAGAAATATACATAATATAGTAAAAAATATATATATAAT
Found at i:26495435 original size:30 final size:30
Alignment explanation
Indices: 26495394--26495492 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
26495384 TAGGTACAAG
26495394 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
26495424 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
26495454 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
26495484 TGGTGGTGG
1 TGGTGGTGG
26495493 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:26496568 original size:78 final size:77
Alignment explanation
Indices: 26496407--26496902 Score: 527
Period size: 78 Copynumber: 6.5 Consensus size: 77
26496397 ACATGTCCTA
* * * * *
26496407 AGGCTCAACTCACCTCTCGTAACATGAGTTGATTTTTTTGAAAAACAGAAGTTGAAAACACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACCTCA
26496472 GCGTGTGACCCG
66 GCGTGTGACCCG
26496484 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTG-AAAATACCTC
26496549 AGCGTGTGACCCG
65 AGCGTGTGACCCG
*
26496562 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAATAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTG-AAAATACCTC
* * * *
26496627 AGTGTGTAAGCCA
65 AGCGTGTGACCCG
* *
26496640 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAACACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACCTCA
*
26496703 GCATGT-----G
66 GCGTGTGACCCG
***
26496710 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTGAC---AA---A-CAGAAATTGAA
* * **
26496775 AATACCTCAACG-G-GTCTTG
57 AATACCTCAGCGTGTGACCCG
** *
26496794 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG---ATGATAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACCTCA
* **
26496855 --ATGTGACTTG
66 GCGTGTGACCCG
* * *
26496865 AGGTTCAACTCAACTCTTGCAATATGAGTTGATTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
26496903 GAATTAAAAC
Statistics
Matches: 365, Mismatches: 34, Indels: 45
0.82 0.08 0.10
Matches are distributed among these distances:
70 33 0.09
71 52 0.14
72 8 0.02
74 1 0.00
75 15 0.04
76 18 0.05
77 52 0.14
78 127 0.35
80 2 0.01
81 20 0.05
83 4 0.01
84 33 0.09
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACCTCA
GCGTGTGACCCG
Found at i:26496887 original size:71 final size:71
Alignment explanation
Indices: 26496767--26496904 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 71
26496757 AATTGAGCAG
* *
26496767 AAATTGAAAATACCTCAACGGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGGGACTTGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTT
26496832 GATGAT
66 GATGAT
* * * *
26496838 AAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCAACTCTTGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGGGACTTGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTT
26496903 GA
66 GA
26496905 ATTAAAACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGGGACTTGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTT
GATGAT
Found at i:26496929 original size:13 final size:13
Alignment explanation
Indices: 26496908--26496939 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
26496898 TTTTTGAATT
26496908 AAAACAGAAATGG
1 AAAACAGAAATGG
*
26496921 AAAATAGAAATGG
1 AAAACAGAAATGG
26496934 AAAACA
1 AAAACA
26496940 CCTCAGCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.19, T:0.09
Consensus pattern (13 bp):
AAAACAGAAATGG
Found at i:26496980 original size:159 final size:152
Alignment explanation
Indices: 26496640--26496993 Score: 410
Period size: 159 Copynumber: 2.3 Consensus size: 152
26496630 GTGTAAGCCA
26496640 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAACACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---AACAGAAATTGAAAACACCTCAG
* * * *
26496704 CATGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAA
63 CATGTGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATGGAACAGAA
* * *
26496769 ATTGAAAATACCTCAACGGGTCTTG
128 ATGGAAAACACCTCAACGCGTCTTG
** * *
26496794 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAGAAATTGAAAACACCTC-A-G-
* * *
26496859 GACT-TGAGGTTCAACTCAACTCTTGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATGGAA
63 CA-TGTGAGGCTCAACTCAACTCTCGCAATATGAGTTGA-TTTTTG-A--AAAACAGAAATGG--
*
26496923 AATAGAAATGGAAAACACCTC-A-GCGTCTTG
121 AACAGAAATGGAAAACACCTCAACGCGTCTTG
* *
26496953 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
26496994 ACACATAAAT
Statistics
Matches: 171, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
152 17 0.10
153 1 0.01
154 33 0.19
155 38 0.22
156 7 0.04
157 1 0.01
159 56 0.33
160 1 0.01
161 17 0.10
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (152 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAGAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATGGAACAGAAATG
GAAAACACCTCAACGCGTCTTG
Found at i:26497223 original size:77 final size:77
Alignment explanation
Indices: 26497019--26497403 Score: 408
Period size: 77 Copynumber: 4.9 Consensus size: 77
26497009 AAAAAGAAAT
* ** * * * *
26497019 TAAAAATAGAATTTGAAAGGACCTCAACGTATGGCCCGAGACTCAACTCACCTCTCGCAATATGA
1 TAAAAATAGAAATTGAAAATACCTCAGCG--TGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
26497084 GTTGATTCTTTTGA
64 GTTGATTTTTTTGA
** *
26497098 -AAAGCT-GAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
26497161 TGATTTTTTTGA
66 TGATTTTTTTGA
* *
26497173 TAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
26497238 TGA--TTTTTGA
66 TGATTTTTTTGA
* * * * *
26497248 CAAACA-A-AAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
26497309 TGATTTTTTTTGAAACATAAA
66 TGA-TTTTTTTG--------A
* *
26497330 TTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATG
1 -TAAAAATA-G-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
26497395 AGTTGATTT
63 AGTTGATTT
26497404 GAAAAGCAGA
Statistics
Matches: 259, Mismatches: 27, Indels: 31
0.82 0.09 0.10
Matches are distributed among these distances:
71 36 0.14
73 16 0.06
74 7 0.03
75 56 0.22
76 4 0.02
77 74 0.29
78 4 0.02
82 1 0.00
83 4 0.02
84 1 0.00
87 18 0.07
88 3 0.01
89 35 0.14
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (77 bp):
TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGA
Found at i:26497541 original size:14 final size:13
Alignment explanation
Indices: 26497506--26497550 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
26497496 TTGATTTTTG
26497506 AAAAACAGAAATT
1 AAAAACAGAAATT
*
26497519 AAAAGCAGAAATT
1 AAAAACAGAAATT
26497532 GAAAAACAGAAATT
1 -AAAAACAGAAATT
26497546 AAAAA
1 AAAAA
26497551 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:26497571 original size:100 final size:101
Alignment explanation
Indices: 26497334--26497609 Score: 407
Period size: 100 Copynumber: 2.8 Consensus size: 101
26497324 CATAAATTAA
* *
26497334 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
26497398 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
26497433 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
26497498 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* * * * *
26497533 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGATTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
26497598 GATTTTTGAAAA
66 GATTTTTGAAAA
26497610 GCATAAATCA
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
99 63 0.39
100 84 0.52
101 15 0.09
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
Found at i:26497653 original size:73 final size:72
Alignment explanation
Indices: 26497530--26497901 Score: 406
Period size: 75 Copynumber: 5.0 Consensus size: 72
26497520 AAAGCAGAAA
* * * * * *
26497530 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAA-TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
26497595 TTTGATTT
65 GTTGATTT
* *
26497603 TTGAAAAGCATAAATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
26497668 GTTGATTATT
65 GTTGA-T-TT
* * *
26497678 TTG-AAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATCTG
1 TTGAAAAG-CAGAAA-TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
26497742 AGTTGATTTT
64 AGTTGA-TTT
* * * * *
26497752 TTG-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTGAAAAG-CAGAAA-TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
26497816 AGTTGATTT
64 AGTTGATTT
* * * * *
26497825 TTGAAAGGCAGAAATTGAAAATACCTCAACATGTCAGTCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAA-TGAAAATACCTCAGCGTGTC-CT-GAGGCTCAACTCACCTCTCGCAATAT
**
26497890 GACCTGATTT
63 GAGTTGATTT
26497900 TT
1 TT
26497902 TGAACCGTAG
Statistics
Matches: 263, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
72 5 0.02
73 88 0.33
74 75 0.29
75 91 0.35
76 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (72 bp):
TTGAAAAGCAGAAATGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:26497720 original size:75 final size:74
Alignment explanation
Indices: 26497530--26497905 Score: 463
Period size: 73 Copynumber: 5.1 Consensus size: 74
26497520 AAAGCAGAAA
* * * * ** *
26497530 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
26497595 TTTGA-TTT
66 GTTGATTTT
* * *
26497603 TTGAAA-AGCATAAA-TCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGA-CAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
26497666 GAGTTGATTATT
64 GAGTTGATT-TT
* *
26497678 TTGAAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATCTGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
26497743 GTTGATTTT
66 GTTGATTTT
* * * *
26497752 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
26497817 GTTGA-TTT
66 GTTGATTTT
* * * **
26497825 TTGAAAGGCAGAAATTGAAAATACCTCAACATGTCAGTCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTC--TTGAGGCTCAACTCACCTCTCGCAATAT
**
26497890 GACCTGATTTT
64 GAGTTGATTTT
26497901 TTGAA
1 TTGAA
26497906 CCGTAGAAAT
Statistics
Matches: 267, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
72 6 0.02
73 91 0.34
74 67 0.25
75 90 0.34
76 13 0.05
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (74 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:26497916 original size:149 final size:149
Alignment explanation
Indices: 26497530--26497905 Score: 447
Period size: 149 Copynumber: 2.5 Consensus size: 149
26497520 AAAGCAGAAA
* * ** * * * * *
26497530 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAACATGTCTCAAGGCTCAACTCACCTCTCGCAATATGA
* * *
26497595 TTTGA-TTTTTGAAAAGCATAAA-TCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 CTTGATTTTTTG-AAAGCAGAAATTCAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
26497658 CGCAATATGAGTTGATTATT
130 CGCAATATGAGTTGATTATT
* * * ** *
26497678 TTGAAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATCTGA
1 TTGAAAGACAGAAATTGAAAATACCTCAACATGTCTCAAGGCTCAACTCACCTCTCGCAATATGA
* * * *
26497743 GTTGATTTTTTGAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACTTCT
66 CTTGATTTTTTGAAAG-CAGAAATTCAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
* *
26497807 TGCAGTATGAGTTGA-T-TT
130 CGCAATATGAGTTGATTATT
*
26497825 TTGAAAGGCAGAAATTGAAAATACCTCAACATGTCAGTCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAACATGTC--TCAAGGCTCAACTCACCTCTCGCAATAT
*
26497890 GACCTGATTTTTTGAA
64 GACTTGATTTTTTGAA
26497906 CCGTAGAAAT
Statistics
Matches: 197, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
147 33 0.17
148 65 0.33
149 94 0.48
150 5 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (149 bp):
TTGAAAGACAGAAATTGAAAATACCTCAACATGTCTCAAGGCTCAACTCACCTCTCGCAATATGA
CTTGATTTTTTGAAAGCAGAAATTCAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTATT
Found at i:26505225 original size:6 final size:6
Alignment explanation
Indices: 26505214--26505266 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
26505204 TATTCCAATT
26505214 TTATTA TTATTA TTATTA TTATTA TTATTTA TT-TTA TT-TTA TT-TTA
1 TTATTA TTATTA TTATTA TTATTA TTA-TTA TTATTA TTATTA TTATTA
26505260 TT-TTA TT
1 TTATTA TT
26505267 TCTTTTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 20 0.43
6 21 0.46
7 5 0.11
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (6 bp):
TTATTA
Found at i:26505228 original size:9 final size:9
Alignment explanation
Indices: 26505214--26505266 Score: 69
Period size: 9 Copynumber: 6.2 Consensus size: 9
26505204 TATTCCAATT
26505214 TTATTATTA
1 TTATTATTA
26505223 TTATTATTA
1 TTATTATTA
26505232 TTATTATTA
1 TTATTATTA
26505241 TTTATT-TTA
1 -TTATTATTA
26505250 TT-TTATT-
1 TTATTATTA
26505257 TTATT-TTA
1 TTATTATTA
26505265 TT
1 TT
26505267 TCTTTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 6 0.15
8 8 0.20
9 21 0.52
10 5 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTATTA
Found at i:26505267 original size:15 final size:16
Alignment explanation
Indices: 26505211--26505266 Score: 80
Period size: 15 Copynumber: 3.5 Consensus size: 16
26505201 AAGTATTCCA
26505211 ATTTTATTATTATTATT
1 ATTTTATTATTATT-TT
26505228 ATTATTATTATTA-TTT
1 ATT-TTATTATTATTTT
26505244 ATTTTATT-TTATTTT
1 ATTTTATTATTATTTT
26505259 ATTTTATT
1 ATTTTATT
26505267 TCTTTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.08
15 16 0.43
16 5 0.14
17 4 0.11
18 9 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTATTATTATTTT
Found at i:26505273 original size:10 final size:10
Alignment explanation
Indices: 26505211--26505267 Score: 71
Period size: 10 Copynumber: 5.4 Consensus size: 10
26505201 AAGTATTCCA
26505211 ATTTTATTATT
1 ATTTTATT-TT
26505222 ATTATTATTATT
1 ATT-TTATT-TT
26505234 ATTATTA-TTT
1 ATT-TTATTTT
26505244 ATTTTATTTT
1 ATTTTATTTT
26505254 ATTTTATTTT
1 ATTTTATTTT
26505264 ATTT
1 ATTT
26505268 CTTTTTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
9 3 0.07
10 22 0.50
11 4 0.09
12 15 0.34
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTATTTT
Found at i:26506010 original size:6 final size:6
Alignment explanation
Indices: 26505999--26506029 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
26505989 TCGAAGCCGG
26505999 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
26506030 CGGTACACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:26506134 original size:12 final size:12
Alignment explanation
Indices: 26506117--26506141 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26506107 AGTGTCGAAT
26506117 CGGTAACAGTAA
1 CGGTAACAGTAA
26506129 CGGTAACAGTAA
1 CGGTAACAGTAA
26506141 C
1 C
26506142 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:26507226 original size:5 final size:5
Alignment explanation
Indices: 26507216--26507268 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
26507206 TTTATATATA
26507216 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
26507266 ATA
1 ATA
26507269 CTTAATTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:26512498 original size:16 final size:15
Alignment explanation
Indices: 26512472--26512506 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
26512462 TGATGTGAAT
26512472 AATATAAAATATTAA
1 AATATAAAATATTAA
*
26512487 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
26512503 AATA
1 AATA
26512507 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:26512684 original size:20 final size:20
Alignment explanation
Indices: 26512627--26512686 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
26512617 AATACTACAT
26512627 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
26512646 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
26512669 AAATATGTACATAATATA
1 AAATATGTACATAATATA
26512687 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:26512727 original size:47 final size:50
Alignment explanation
Indices: 26512642--26512785 Score: 125
Period size: 48 Copynumber: 2.8 Consensus size: 50
26512632 TGTACATATA
* * * * *
26512642 TAAAAAATAAATACGTGATA-ATATTAAAAATATGTACATAATAT-A-GTG
1 TAAAAAATAAATACATAATATA-ATTAAAAATATATACATAAGATAACATG
*
26512690 TAAAAAATACATACATAATATAATT-AAAATATATACATAAGATAACATG
1 TAAAAAATAAATACATAATATAATTAAAAATATATACATAAGATAACATG
* *
26512739 TAAAAAATATATATATAAATAATATAGTATTAAAGATATATACATAA
1 T-AAAAA-ATA-A-ATACATAATATA--ATTAAAAATATATACATAA
26512786 AATAGTATAA
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
47 16 0.21
48 21 0.27
49 4 0.05
50 5 0.06
51 3 0.04
53 11 0.14
55 3 0.04
56 14 0.18
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (50 bp):
TAAAAAATAAATACATAATATAATTAAAAATATATACATAAGATAACATG
Found at i:26512745 original size:27 final size:25
Alignment explanation
Indices: 26512667--26512761 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 25
26512657 TGATAATATT
* *
26512667 AAAAATATGTACATAATATAGTGTA
1 AAAAATATATACATAATATAATGTA
*
26512692 AAAAATACATACATAATATAAT-T-
1 AAAAATATATACATAATATAATGTA
*
26512715 -AAAATATATACATAAGATAACATGTA
1 AAAAATATATACATAATAT-A-ATGTA
*
26512741 AAAAATATATATATAA-ATAAT
1 AAAAATATATACATAATATAAT
26512762 ATAGTATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
22 16 0.27
23 1 0.02
24 5 0.08
25 21 0.36
26 2 0.03
27 14 0.24
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
AAAAATATATACATAATATAATGTA
Found at i:26512777 original size:29 final size:28
Alignment explanation
Indices: 26512679--26512786 Score: 104
Period size: 27 Copynumber: 4.0 Consensus size: 28
26512669 AAATATGTAC
* *
26512679 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
26512704 ATAATATA--ATTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* * *
26512730 GATAACAT-GTA-AAAAATATATATATAA
1 -ATAATATAGTATTAAAATATATACATAA
26512757 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
26512786 A
1 A
26512787 ATAGTATAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
24 5 0.08
25 9 0.14
26 13 0.20
27 23 0.35
28 4 0.06
29 12 0.18
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:26512785 original size:25 final size:25
Alignment explanation
Indices: 26512663--26512879 Score: 98
Period size: 23 Copynumber: 8.9 Consensus size: 25
26512653 TACGTGATAA
* *
26512663 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
26512688 TGTAAAAAATACATACATAATATA-
1 TATTAAAGATATATACATAATATAG
*
26512712 -ATTAAA-ATATATACATAAGATAACATG
1 TATTAAAGATATATACAT-A-AT-ATA-G
** * *
26512739 TAAAAAATATATATATAAATAATATAG
1 T-ATTAA-AGATATATACATAATATAG
*
26512766 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
26512791 TA-T-AATATATATACGTAATATAG
1 TATTAAAGATATATACATAATATAG
* * *
26512814 AATT-TAGA-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
26512836 T-TAAAAGA-ATATATATAAATATAA
1 TATTAAAGATATATACAT-AATATAG
*
26512860 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
26512880 ACAAAAAAAA
Statistics
Matches: 147, Mismatches: 30, Indels: 32
0.70 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 18 0.12
23 46 0.31
24 13 0.09
25 46 0.31
26 3 0.02
27 2 0.01
28 2 0.01
29 5 0.03
30 2 0.01
31 9 0.06
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:26513384 original size:18 final size:18
Alignment explanation
Indices: 26513361--26513414 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
26513351 ACAAGTGGTG
26513361 GTGGAGCAAGTATGGCTA
1 GTGGAGCAAGTATGGCTA
26513379 GT-G-G--AGTA-GG-TA
1 GTGGAGCAAGTATGGCTA
*
26513391 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTATGGCTA
26513409 GTGGAG
1 GTGGAG
26513415 TTGGTGGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 12
0.69 0.02 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.10
14 5 0.17
16 4 0.14
17 3 0.10
18 10 0.34
ACGTcount: A:0.24, C:0.07, G:0.46, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTATGGCTA
Found at i:26513397 original size:30 final size:30
Alignment explanation
Indices: 26513356--26513454 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
26513346 TAGGTACAAG
*
26513356 TGGTGGTGGAGCAAGTATGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
26513386 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
26513416 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
26513446 TGGTGGTGG
1 TGGTGGTGG
26513455 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:26514040 original size:27 final size:27
Alignment explanation
Indices: 26514000--26514056 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
26513990 TCCACCAACG
*
26514000 CTCCTCCAGCTCTAAAATACTCTCTAA
1 CTCCTCAAGCTCTAAAATACTCTCTAA
*
26514027 CTCCTCAAGGTCTAAAATACTCTCTAA
1 CTCCTCAAGCTCTAAAATACTCTCTAA
26514054 CTC
1 CTC
26514057 AGTTCTGAGT
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:0.30, C:0.35, G:0.05, T:0.30
Consensus pattern (27 bp):
CTCCTCAAGCTCTAAAATACTCTCTAA
Found at i:26515836 original size:37 final size:37
Alignment explanation
Indices: 26515794--26515914 Score: 167
Period size: 37 Copynumber: 3.2 Consensus size: 37
26515784 AAAAAAAATA
26515794 AAAATTTATGATTATCTTTCTGAATAATATAATCCTT
1 AAAATTTATGATTATCTTTCTGAATAATATAATCCTT
26515831 AAAA-TT-TGAATATATCTTTCTGAATAATATAATCCTT
1 AAAATTTATG-AT-TATCTTTCTGAATAATATAATCCTT
26515868 AAAATTTGAAT-ATTTTATCTTTCTGAATAATATAATCCTT
1 AAAATTT--ATGA--TTATCTTTCTGAATAATATAATCCTT
26515908 AAAATTT
1 AAAATTT
26515915 GAATATTTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 13
0.85 0.00 0.15
Matches are distributed among these distances:
35 2 0.03
36 4 0.05
37 33 0.43
38 2 0.03
39 1 0.01
40 32 0.42
41 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (37 bp):
AAAATTTATGATTATCTTTCTGAATAATATAATCCTT
Found at i:26515844 original size:20 final size:20
Alignment explanation
Indices: 26515819--26515880 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
26515809 CTTTCTGAAT
26515819 AATATAATCCTTAAAATTTG
1 AATATAATCCTTAAAATTTG
* **
26515839 AATAT-ATCTTTCTGAA--T-
1 AATATAATCCTT-AAAATTTG
26515856 AATATAATCCTTAAAATTTG
1 AATATAATCCTTAAAATTTG
26515876 AATAT
1 AATAT
26515881 TTTATCTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
17 7 0.23
18 6 0.19
19 6 0.19
20 12 0.39
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (20 bp):
AATATAATCCTTAAAATTTG
Found at i:26515898 original size:40 final size:40
Alignment explanation
Indices: 26515805--26515923 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
26515795 AAATTTATGA
26515805 TTATCTTTCTGAATAATATAATCCTTAAAATTTGAATA--
1 TTATCTTTCTGAATAATATAATCCTTAAAATTTGAATATT
26515843 -TATCTTTCTGAATAATATAATCCTTAAAATTTGAATATT
1 TTATCTTTCTGAATAATATAATCCTTAAAATTTGAATATT
26515882 TTATCTTTCTGAATAATATAATCCTTAAAATTTGAATATT
1 TTATCTTTCTGAATAATATAATCCTTAAAATTTGAATATT
26515922 TT
1 TT
26515924 TATATATAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
37 37 0.47
40 41 0.53
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (40 bp):
TTATCTTTCTGAATAATATAATCCTTAAAATTTGAATATT
Found at i:26515918 original size:23 final size:23
Alignment explanation
Indices: 26515851--26515919 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
26515841 TATATCTTTC
26515851 TGAATAATATAATCCTTAAAATT
1 TGAATAATATAATCCTTAAAATT
* * *
26515874 TGAAT-ATTTTAT-CTT----TC
1 TGAATAATATAATCCTTAAAATT
26515891 TGAATAATATAATCCTTAAAATT
1 TGAATAATATAATCCTTAAAATT
26515914 TGAATA
1 TGAATA
26515920 TTTTTATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 3 0.09
21 3 0.09
22 5 0.15
23 12 0.35
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (23 bp):
TGAATAATATAATCCTTAAAATT
Found at i:26516687 original size:33 final size:34
Alignment explanation
Indices: 26516640--26516706 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
26516630 CTTTTTTAAG
*
26516640 CAAAGATCAAATCTCTAATCACTTAATTAAAAGA
1 CAAAGATCAAATCTCTAATCACTTAAGTAAAAGA
26516674 CAAA-ATCAAATCTCTAATCACTTAAGTAAAAGA
1 CAAAGATCAAATCTCTAATCACTTAAGTAAAAGA
26516707 GGAGATGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (34 bp):
CAAAGATCAAATCTCTAATCACTTAAGTAAAAGA
Found at i:26521377 original size:43 final size:43
Alignment explanation
Indices: 26521322--26521594 Score: 316
Period size: 43 Copynumber: 6.3 Consensus size: 43
26521312 TTATTTAAAA
* **
26521322 AAACGCCGCTAAAGACCATGACCTTTACCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* ** * *
26521365 AAGCGTTGCTAAAGACCATGACCTTTAGCGGCACTTTCCCCGA-
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC-AC
* *
26521408 AAACGTCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
26521451 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* ***
26521494 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCAC
* * * * **
26521538 AAACGCCGCTATAGAACA-AACCTTTAGCGGCACTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
26521580 AAACGCCGATAAAGA
1 AAACGCCGCTAAAGA
26521595 ATATAACCTT
Statistics
Matches: 199, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 21 0.11
43 156 0.78
44 22 0.11
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:26521574 original size:86 final size:86
Alignment explanation
Indices: 26521322--26521594 Score: 350
Period size: 86 Copynumber: 3.2 Consensus size: 86
26521312 TTATTTAAAA
* * **
26521322 AAACGCCGCTAAAGACCATGACCTTTACCGGCGCTTTTTTCACAAGCGTTGCTAAAGACCATGAC
1 AAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGAC
* *
26521387 CTTTAGCGGCACTTTCCCCGA
66 CTTTAGCGGCACTTTTCCCGC
* **
26521408 AAACGTCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
1 AAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGAC
*
26521473 CTTTAGCGGCGCTTTTCCCGC
66 CTTTAGCGGCACTTTTCCCGC
* * * * * *
26521494 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTTTACAAACGCCGCTATAGAACA-AA
1 AAACGCCGCTAAAGACCATGACCTTTAACGGCGC-TTTTTTCACAAACGCCGCTAAAGACCATGA
** *
26521558 CCTTTAGCGGCACTTTTGTCAC
65 CCTTTAGCGGCACTTTTCCCGC
*
26521580 AAACGCCGATAAAGA
1 AAACGCCGCTAAAGA
26521595 ATATAACCTT
Statistics
Matches: 162, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
86 140 0.86
87 22 0.14
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGAC
CTTTAGCGGCACTTTTCCCGC
Found at i:26522246 original size:24 final size:24
Alignment explanation
Indices: 26522218--26522264 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
26522208 CTTCAACACC
26522218 TGCCTCTTCCTATGTTTCCCTTAT
1 TGCCTCTTCCTATGTTTCCCTTAT
*
26522242 TGCCTCTTCCTATGTTTCTCTTA
1 TGCCTCTTCCTATGTTTCCCTTA
26522265 CTAAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.51
Consensus pattern (24 bp):
TGCCTCTTCCTATGTTTCCCTTAT
Found at i:26523044 original size:2 final size:2
Alignment explanation
Indices: 26523039--26523077 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
26523029 TATATGCATG
26523039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26523078 TGTTTAATAT
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:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26525292 original size:17 final size:18
Alignment explanation
Indices: 26525259--26525292 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26525249 TATCTCTTAA
26525259 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
26525277 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
26525293 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:26525554 original size:2 final size:2
Alignment explanation
Indices: 26525547--26525578 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26525537 TAAACCCTAA
26525547 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
26525579 TACAAGGGAT
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:26526536 original size:41 final size:41
Alignment explanation
Indices: 26526480--26526586 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
26526470 GTGCCACTAT
* *
26526480 TATTGTTCAGTTTTTAGCGGCGTTTGGGCCAAAAACGCCAC
1 TATTGCTCAGTTTTTAGCGGCGTTTGGACCAAAAACGCCAC
* * *
26526521 TATTGCTCAGTTTTTAGTGGCGTTTGGATCAAAAACGCCGC
1 TATTGCTCAGTTTTTAGCGGCGTTTGGACCAAAAACGCCAC
*
26526562 TATTGCTCAGTTTTTTGCGGCGTTT
1 TATTGCTCAGTTTTTAGCGGCGTTT
26526587 TATTGCAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
TATTGCTCAGTTTTTAGCGGCGTTTGGACCAAAAACGCCAC
Found at i:26528604 original size:20 final size:20
Alignment explanation
Indices: 26528579--26528632 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
26528569 CAGTGTTACG
*
26528579 TAGCGGATACGATTCGTAAC
1 TAGCGGATACAATTCGTAAC
26528599 TAGCGGATACAATTCGTAAC
1 TAGCGGATACAATTCGTAAC
26528619 TAGCGGATACAATT
1 TAGCGGATACAATT
26528633 TACACCTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (20 bp):
TAGCGGATACAATTCGTAAC
Found at i:26531857 original size:2 final size:2
Alignment explanation
Indices: 26531850--26531879 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26531840 ATATAAAAGA
26531850 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
26531880 TTATCTCGTG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:26535493 original size:16 final size:16
Alignment explanation
Indices: 26535456--26535510 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
26535446 TAGGGTGGAA
* *
26535456 AGAAAATTGGTAAGAT
1 AGAAAATTAGAAAGAT
26535472 -GAAAAATTA-AAAGGAT
1 AG-AAAATTAGAAA-GAT
*
26535488 AGAAAAGTAGAAAGAT
1 AGAAAATTAGAAAGAT
26535504 AGAAAAT
1 AGAAAAT
26535511 ATAATTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.10
16 24 0.77
17 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (16 bp):
AGAAAATTAGAAAGAT
Done.