Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 24 of 144
Found at i:7255719 original size:10 final size:10
Alignment explanation
Indices: 7255688--7255721 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
7255678 TTATTATTAA
7255688 AATATATTTTT
1 AATAT-TTTTT
7255699 ATATATTTTTT
1 A-ATATTTTTT
7255710 AATATTTTTT
1 AATATTTTTT
7255720 AA
1 AA
7255722 AAAAATACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.50
11 7 0.32
12 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
AATATTTTTT
Found at i:7255965 original size:14 final size:14
Alignment explanation
Indices: 7255943--7255979 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
7255933 AAAAAAAAAG
7255943 AGAGAAAGGAGAAGA
1 AGAG-AAGGAGAAGA
7255958 AGAGAAGGAGAAGA
1 AGAGAAGGAGAAGA
7255972 AGAAGAAG
1 AG-AGAAG
7255980 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AGAGAAGGAGAAGA
Found at i:7256174 original size:20 final size:20
Alignment explanation
Indices: 7256149--7256331 Score: 90
Period size: 22 Copynumber: 8.8 Consensus size: 20
7256139 TTTAGATTAG
*
7256149 AATTTTGTATGAATATTTTA
1 AATTTTGTATGAATATTATA
7256169 AATTTTTTGTATGAATATTATA
1 AA--TTTTGTATGAATATTATA
* * *
7256191 ATTTTTTTATGAATATTGT-
1 AATTTTGTATGAATATTATA
* *
7256210 AATGTTGTATGAATATTGTA
1 AATTTTGTATGAATATTATA
* * *
7256230 ATTATTTTATAATTAA-ATT-TG
1 A--ATTTTGT-ATGAATATTATA
* * *
7256251 TATTTATAGTTTTG--GATTAGTA
1 AATTT-T-G-TATGAATATTA-TA
* *
7256273 ATTTTTTGTATGAATATTGT-
1 A-ATTTTGTATGAATATTATA
7256293 AATTTTGTATGAATATTATA
1 AATTTTGTATGAATATTATA
7256313 AATTTTTTGTATGAATATT
1 AA--TTTTGTATGAATATT
7256332 GTAATATTAT
Statistics
Matches: 122, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
19 36 0.30
20 28 0.23
21 4 0.03
22 47 0.39
23 7 0.06
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (20 bp):
AATTTTGTATGAATATTATA
Found at i:7256222 original size:19 final size:19
Alignment explanation
Indices: 7256175--7256231 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
7256165 TTTAAATTTT
* *
7256175 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
7256195 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
7256214 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
7256232 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:7256317 original size:41 final size:40
Alignment explanation
Indices: 7256151--7256391 Score: 186
Period size: 41 Copynumber: 5.7 Consensus size: 40
7256141 TAGATTAGAA
*
7256151 TTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATT
* *
7256194 TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
7256233 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
7256276 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
**
7256317 TTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTG------TA-A-TTTTGTATGAATATTATAA-TT
7256366 TTTTGTATGAATATTGTAATTTTGTA
1 TTTTGTATGAATATTGTAATTTTGTA
7256392 ATTTTGTATG
Statistics
Matches: 162, Mismatches: 14, Indels: 46
0.73 0.06 0.21
Matches are distributed among these distances:
39 22 0.14
40 6 0.04
41 47 0.29
42 34 0.21
43 12 0.07
44 3 0.02
47 2 0.01
48 3 0.02
49 33 0.20
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:7256338 original size:49 final size:49
Alignment explanation
Indices: 7256285--7256612 Score: 448
Period size: 49 Copynumber: 6.7 Consensus size: 49
7256275 TTTTTGTATG
** *
7256285 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
7256334 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* ** *
7256383 AATTTTGTAATTTTGTATGAATATTATATTTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
7256432 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
7256481 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * ** *
7256530 AATATTGTAATTTTGTATGAATATTGTAA--TGTGGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
7256575 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTGCAATTTTTTT
7256613 ATAATTAATT
Statistics
Matches: 249, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 17 0.07
47 24 0.10
49 208 0.84
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:7256800 original size:38 final size:38
Alignment explanation
Indices: 7256755--7256828 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
7256745 CATATAAAGT
7256755 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
7256793 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTT
7256829 GGGTTTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:7256979 original size:15 final size:15
Alignment explanation
Indices: 7256938--7256979 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
7256928 GTTAACTTAT
*
7256938 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
7256953 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
7256969 TTAAATTTTAT
1 TTAAATTTTAT
7256980 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:7262438 original size:22 final size:21
Alignment explanation
Indices: 7262403--7262444 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
7262393 TACCTAATTT
*
7262403 TTTTCTTCTTTTCCTTCCTTA
1 TTTTCTTCTCTTCCTTCCTTA
7262424 TTTTCTTCTGCTTCCTTCCTT
1 TTTTCTTCT-CTTCCTTCCTT
7262445 CTTCTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTA
Found at i:7262562 original size:27 final size:26
Alignment explanation
Indices: 7262513--7262615 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 26
7262503 AAAATCACAG
*
7262513 CATTGGCGCCTTCTAATATGGCACCAC
1 CATTGGCGCCTCCTAATA-GGCACCAC
7262540 CATTGGCGCCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCTA-ATAGGCACCAC
*
7262567 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCT-CCTAATAGGCACCAC
* *
7262594 CATTGGAGCCTTCCAAATAGGC
1 CATTGGCGCC-TCCTAATAGGC
7262616 GCCAATACCA
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
27 63 0.90
28 7 0.10
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.20
Consensus pattern (26 bp):
CATTGGCGCCTCCTAATAGGCACCAC
Found at i:7266325 original size:19 final size:19
Alignment explanation
Indices: 7266303--7266375 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
7266293 TAAATATAAT
7266303 AAAAATATTAAAAATTAAA
1 AAAAATATTAAAAATTAAA
*
7266322 AAAAAGCATATAAAATATT--A
1 AAAAA-TAT-TAAAA-ATTAAA
* *
7266342 AAATATATT-AAAACTAAA
1 AAAAATATTAAAAATTAAA
7266360 ATAAAATA-TAAAAATT
1 A-AAAATATTAAAAATT
7266376 TAGAAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
16 2 0.05
17 3 0.07
18 4 0.10
19 17 0.41
20 7 0.17
21 5 0.12
22 3 0.07
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (19 bp):
AAAAATATTAAAAATTAAA
Found at i:7266928 original size:11 final size:10
Alignment explanation
Indices: 7266876--7266976 Score: 68
Period size: 10 Copynumber: 10.4 Consensus size: 10
7266866 TAACTCTTTT
*
7266876 TTTTTTTTAA
1 TTTTTTATAA
* *
7266886 TTTTTAACAA
1 TTTTTTATAA
*
7266896 TTTTCTAT-A
1 TTTTTTATAA
*
7266905 TGTTTTAT-A
1 TTTTTTATAA
*
7266914 TTTTATA-ATA
1 TTTTTTATA-A
7266924 TTTTTTATAA
1 TTTTTTATAA
*
7266934 CTTTTCTAT-A
1 -TTTTTTATAA
* *
7266944 CTTTTAATAA
1 TTTTTTATAA
7266954 TTTTTTAT-A
1 TTTTTTATAA
7266963 TTTTTTATAA
1 TTTTTTATAA
7266973 TTTT
1 TTTT
7266977 ATCATCTTAT
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
9 27 0.40
10 33 0.49
11 8 0.12
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:7266929 original size:19 final size:19
Alignment explanation
Indices: 7266894--7266978 Score: 91
Period size: 19 Copynumber: 4.4 Consensus size: 19
7266884 AATTTTTAAC
* *
7266894 AATTTTCTATATGTTTTAT
1 AATTTTATATATTTTTTAT
7266913 -ATTTTATAATATTTTTTAT
1 AATTTTAT-ATATTTTTTAT
* * *
7266932 AACTTTTCTATACTTTTAAT
1 AA-TTTTATATATTTTTTAT
*
7266952 AATTTTTTATATTTTTTAT
1 AATTTTATATATTTTTTAT
7266971 AATTTTAT
1 AATTTTAT
7266979 CATCTTATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
18 6 0.11
19 31 0.57
20 12 0.22
21 5 0.09
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (19 bp):
AATTTTATATATTTTTTAT
Found at i:7266939 original size:39 final size:38
Alignment explanation
Indices: 7266885--7266976 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 38
7266875 TTTTTTTTTA
* * *
7266885 ATTTTTAACAATTTTCTATA-TGTTTTAT-ATTTTATAAT
1 ATTTTTTATAATTTTCTATACT-TTTAATAATTTT-TAAT
*
7266923 ATTTTTTATAACTTTTCTATACTTTTAATAATTTTTTAT
1 ATTTTTTATAA-TTTTCTATACTTTTAATAATTTTTAAT
7266962 ATTTTTTATAATTTT
1 ATTTTTTATAATTTT
7266977 ATCATCTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 13 0.28
39 28 0.60
40 6 0.13
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (38 bp):
ATTTTTTATAATTTTCTATACTTTTAATAATTTTTAAT
Found at i:7275580 original size:34 final size:33
Alignment explanation
Indices: 7275535--7275601 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
7275525 AATAAAATTT
*
7275535 AAATATTTTTAAATTATGTTCATAATAAATAATA
1 AAATATATTTAAATTAT-TTCATAATAAATAATA
* *
7275569 AAATATATTTAAATTATTTTATATTAAATAATA
1 AAATATATTTAAATTATTTCATAATAAATAATA
7275602 GTTAAACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
AAATATATTTAAATTATTTCATAATAAATAATA
Found at i:7282250 original size:31 final size:31
Alignment explanation
Indices: 7282205--7282263 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7282195 TTGGTGACTA
7282205 AATTTTTAAGAAGTTTTCATTTAAGTCATTG
1 AATTTTTAAGAAGTTTTCATTTAAGTCATTG
*
7282236 AATTATTTAA-AAGTTTTTATTTAAGTCA
1 AATT-TTTAAGAAGTTTTCATTTAAGTCA
7282264 CTCGGATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (31 bp):
AATTTTTAAGAAGTTTTCATTTAAGTCATTG
Found at i:7282740 original size:5 final size:5
Alignment explanation
Indices: 7282732--7282762 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
7282722 TTTATTATAT
*
7282732 TCGGG TCGGG TCGGG TCGGG TCGGG CCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
7282763 TTGGGTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.23, G:0.58, T:0.19
Consensus pattern (5 bp):
TCGGG
Found at i:7288514 original size:34 final size:34
Alignment explanation
Indices: 7288476--7288630 Score: 93
Period size: 29 Copynumber: 5.1 Consensus size: 34
7288466 TAAAGTCATG
7288476 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
* *
7288510 CATTA---AA--TT-AAGTCATGTT-AGTTT--A-
1 CATTATGTAACTTTCATGTTA-GTTAAGTTTGCAT
7288535 -ATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
* *
7288568 CATTA---AA--TT-AAGTCATGTT-AGTTT--A-
1 CATTATGTAACTTTCATGTTA-GTTAAGTTTGCAT
7288593 -ATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
*
7288626 AATTA
1 CATTA
7288631 AAATTAAGTC
Statistics
Matches: 89, Mismatches: 8, Indels: 48
0.61 0.06 0.33
Matches are distributed among these distances:
24 8 0.09
26 2 0.02
27 4 0.04
28 18 0.20
29 20 0.22
30 18 0.20
31 4 0.04
32 2 0.02
34 13 0.15
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (34 bp):
CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
Found at i:7288526 original size:33 final size:33
Alignment explanation
Indices: 7288489--7288590 Score: 114
Period size: 33 Copynumber: 3.3 Consensus size: 33
7288479 TATGTAACTT
7288489 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
* *
7288522 TCATGTTAGTTTAA--TT--AT--GTAACTT---
1 TCATGTTAG-TTAAGTTTGCATCATTAAATTAAG
7288547 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
1 TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
7288580 TCATGTTAGTT
1 TCATGTTAGTT
7288591 TAATTATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
24 4 0.07
25 9 0.16
26 2 0.04
28 7 0.13
30 7 0.13
32 2 0.04
33 20 0.36
34 4 0.07
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (33 bp):
TCATGTTAGTTAAGTTTGCATCATTAAATTAAG
Found at i:7288547 original size:58 final size:58
Alignment explanation
Indices: 7288477--7288643 Score: 316
Period size: 58 Copynumber: 2.9 Consensus size: 58
7288467 AAAGTCATGC
7288477 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCATGTTAGTTTA
1 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCATGTTAGTTTA
7288535 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCATGTTAGTTTA
1 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCATGTTAGTTTA
*
7288593 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATAATTAAAATTAAGTCATG
1 ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATT-AAATTAAGTCATG
7288644 CATTATTTCA
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
58 94 0.88
59 13 0.12
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (58 bp):
ATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATTAAATTAAGTCATGTTAGTTTA
Found at i:7288551 original size:25 final size:25
Alignment explanation
Indices: 7288522--7288615 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
7288512 TTAAATTAAG
7288522 TCATGTTAGTTTAATTATGTAACTT
1 TCATGTTAGTTTAATTATGTAACTT
* *
7288547 TCATGTTAG-TTAAGTTTGCATCATTAAATT
1 TCATGTTAGTTTAA--TT--AT--GTAACTT
7288577 AAGTCATGTTAGTTTAATTATGTAACTT
1 ---TCATGTTAGTTTAATTATGTAACTT
7288605 TCATGTTAGTT
1 TCATGTTAGTT
7288616 AAGTTTGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
24 4 0.07
25 20 0.36
26 2 0.04
28 7 0.13
30 7 0.13
32 2 0.04
33 9 0.16
34 4 0.07
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (25 bp):
TCATGTTAGTTTAATTATGTAACTT
Found at i:7288836 original size:9 final size:9
Alignment explanation
Indices: 7288824--7288889 Score: 73
Period size: 9 Copynumber: 7.2 Consensus size: 9
7288814 CTTATTAAGC
7288824 TTAATGTGT
1 TTAATGTGT
7288833 TTAATGTGTTT
1 TTAATGTG--T
7288844 TTAATGTGT
1 TTAATGTGT
7288853 TT--TGTGT
1 TTAATGTGT
*
7288860 TTAATGAGT
1 TTAATGTGT
*
7288869 TTAAATGTGA
1 TT-AATGTGT
7288879 TTAATGTGT
1 TTAATGTGT
7288888 TT
1 TT
7288890 GTTTTAATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
7 7 0.15
9 25 0.52
10 7 0.15
11 9 0.19
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (9 bp):
TTAATGTGT
Found at i:7288848 original size:11 final size:11
Alignment explanation
Indices: 7288824--7288855 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7288814 CTTATTAAGC
7288824 TTAATGTG--T
1 TTAATGTGTTT
7288833 TTAATGTGTTT
1 TTAATGTGTTT
7288844 TTAATGTGTTT
1 TTAATGTGTTT
7288855 T
1 T
7288856 GTGTTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 8 0.38
11 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (11 bp):
TTAATGTGTTT
Found at i:7290198 original size:13 final size:13
Alignment explanation
Indices: 7290182--7290206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7290172 TTTTCTAGCA
7290182 CACTTTTGAAAAT
1 CACTTTTGAAAAT
7290195 CACTTTTGAAAA
1 CACTTTTGAAAA
7290207 GTATTTTCAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
CACTTTTGAAAAT
Found at i:7292793 original size:13 final size:13
Alignment explanation
Indices: 7292777--7292801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7292767 TTTTCTAGCA
7292777 CACTTTTGAAAAT
1 CACTTTTGAAAAT
7292790 CACTTTTGAAAA
1 CACTTTTGAAAA
7292802 GTATTTTCAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
CACTTTTGAAAAT
Found at i:7306526 original size:18 final size:18
Alignment explanation
Indices: 7306503--7306544 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7306493 CCTATATACA
7306503 AATATAATACAATACAAT
1 AATATAATACAATACAAT
* *
7306521 AATATAATATAATATAAT
1 AATATAATACAATACAAT
*
7306539 TATATA
1 AATATA
7306545 CATGCCTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATAATACAATACAAT
Found at i:7310940 original size:22 final size:22
Alignment explanation
Indices: 7310901--7310942 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7310891 ACACCAAAAC
* **
7310901 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGACGCTTTTTT
7310923 AGGCCTTTAGCGACGCTTTT
1 AGGCCTTTAGCGACGCTTTT
7310943 CCTACAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.43
Consensus pattern (22 bp):
AGGCCTTTAGCGACGCTTTTTT
Found at i:7310993 original size:43 final size:43
Alignment explanation
Indices: 7310926--7311030 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
7310916 CTTTTTTAGG
* *
7310926 CCTTTAGCGACGCTTTTCCTACAAACACTGCTAAAAACCAAGA
1 CCTTTAGCGGCGCTTTTCCTACAAACACCGCTAAAAACCAAGA
* * * **
7310969 CCTTTAGCGGCGCTTTT-CTCACAAACGCCGCTATAGACCGCGA
1 CCTTTAGCGGCGCTTTTCCT-ACAAACACCGCTAAAAACCAAGA
*
7311012 CCTTTAGCGGCGCTATTCC
1 CCTTTAGCGGCGCTTTTCC
7311031 CACCGCTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
42 2 0.04
43 49 0.94
44 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (43 bp):
CCTTTAGCGGCGCTTTTCCTACAAACACCGCTAAAAACCAAGA
Found at i:7314060 original size:22 final size:22
Alignment explanation
Indices: 7314021--7314062 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7314011 ACACCAAAAC
* **
7314021 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGACGCTTTTTT
7314043 AGGCCTTTAGCGACGCTTTT
1 AGGCCTTTAGCGACGCTTTT
7314063 CCTACAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.43
Consensus pattern (22 bp):
AGGCCTTTAGCGACGCTTTTTT
Found at i:7317548 original size:41 final size:41
Alignment explanation
Indices: 7317456--7317606 Score: 236
Period size: 41 Copynumber: 3.8 Consensus size: 41
7317446 AGCTTTTATT
* *
7317456 ATTAGCGGCG-TTTTTGAAAAACGCCGCTAAAGGC-C-AGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
*
7317494 ATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGCACGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
*
7317535 ATTAGTGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
*
7317576 ATTAGCGGCACTTTCTCAAAAACGCCGCTAA
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAA
7317607 TAAGCACTGC
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 10 0.10
39 22 0.21
40 1 0.01
41 71 0.68
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCACGAGC
Found at i:7318896 original size:14 final size:14
Alignment explanation
Indices: 7318877--7318915 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7318867 TTGTTTCACT
*
7318877 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
7318891 GAAAATGATTTCTG
1 GAAAATGACTTCCG
7318905 GAAAATGACTT
1 GAAAATGACTT
7318916 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:7320019 original size:9 final size:9
Alignment explanation
Indices: 7319992--7320022 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
7319982 TAAACCATTT
7319992 TAATTTATA
1 TAATTTATA
7320001 TAATTATATA
1 TAATT-TATA
7320011 TAATTTATA
1 TAATTTATA
7320020 TAA
1 TAA
7320023 ATACACGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATTTATA
Found at i:7331905 original size:7 final size:8
Alignment explanation
Indices: 7331887--7331914 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7331877 GTATTTAATT
7331887 AAAATTCA
1 AAAATTCA
7331895 AAAATTCA
1 AAAATTCA
7331903 AAAATTCA
1 AAAATTCA
7331911 AAAA
1 AAAA
7331915 AATATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATTCA
Found at i:7335140 original size:46 final size:46
Alignment explanation
Indices: 7335068--7335269 Score: 356
Period size: 46 Copynumber: 4.5 Consensus size: 46
7335058 TGATCAGTGA
*
7335068 CAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
7335114 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
7335160 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
7335206 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
7335251 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
7335270 ATCATACGTA
Statistics
Matches: 153, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 19 0.12
46 117 0.76
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:7346024 original size:19 final size:19
Alignment explanation
Indices: 7345974--7346025 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
7345964 TAGTCTAAAC
*
7345974 AAAAATTCAAAAAAATTCA
1 AAAAATTCAAAATAATTCA
* **
7345993 AAAAATTTAAAATAATTTT
1 AAAAATTCAAAATAATTCA
*
7346012 TAAAATTCAAAATA
1 AAAAATTCAAAATA
7346026 TTTATAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATAATTCA
Found at i:7357175 original size:34 final size:35
Alignment explanation
Indices: 7357114--7357181 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
7357104 ATTTCAAAAA
* *
7357114 TTTAAAATATTTATAAAAAGTTCAAAATTTATATT
1 TTTAAAATAATTATAAAAAGTTCAAAATATATATT
*
7357149 TTTAAAA-AATTATAGAAA-TTCTAAAATATATAT
1 TTTAAAATAATTATAAAAAGTTC-AAAATATATAT
7357182 AAAGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 3 0.10
34 19 0.66
35 7 0.24
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (35 bp):
TTTAAAATAATTATAAAAAGTTCAAAATATATATT
Found at i:7360743 original size:24 final size:24
Alignment explanation
Indices: 7360715--7360767 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7360705 TTAGTAAGTC
* *
7360715 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7360739 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7360763 AAATA
1 AAATA
7360768 TTCTAGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7363016 original size:14 final size:15
Alignment explanation
Indices: 7362993--7363028 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
7362983 TAATTTTAAT
7362993 AAATATTTAATATTA
1 AAATATTTAATATTA
7363008 AAATA-TTAATATTA
1 AAATATTTAATATTA
7363022 AAA-ATTT
1 AAATATTT
7363029 TCAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTAATATTA
Found at i:7364711 original size:25 final size:25
Alignment explanation
Indices: 7364682--7364745 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
7364672 CTCAAATTAA
*
7364682 CCAATCAAACCCAATAAAACTTGGG
1 CCAATCAAACCCAATAAAACTTGGC
** * * *
7364707 CCAATCTTGACCCAATTACATTTGGC
1 CCAATC-AAACCCAATAAAACTTGGC
7364733 CCAATCAAACCCA
1 CCAATCAAACCCA
7364746 CGCCGCAGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.38, C:0.33, G:0.09, T:0.20
Consensus pattern (25 bp):
CCAATCAAACCCAATAAAACTTGGC
Found at i:7365679 original size:15 final size:14
Alignment explanation
Indices: 7365638--7365679 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
7365628 TTTTGAGGAT
7365638 TTATT-TTATTAATA
1 TTATTATTATT-ATA
*
7365652 TTGTTATTATTATA
1 TTATTATTATTATA
7365666 TTATATATTATTAT
1 TTAT-TATTATTAT
7365680 TATACCTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:7365808 original size:22 final size:22
Alignment explanation
Indices: 7365765--7365805 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7365755 TACATATACA
*
7365765 TATTTTATTTTTATTATTTTAT
1 TATTTTATTTTCATTATTTTAT
7365787 TATTTTATTTTCA-TATTTT
1 TATTTTATTTTCATTATTTT
7365806 TATATATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTATTTTCATTATTTTAT
Found at i:7365833 original size:27 final size:26
Alignment explanation
Indices: 7365803--7365903 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 26
7365793 ATTTTCATAT
7365803 TTTTATATATATGTATATACATTTATA
1 TTTTATA-ATATGTATATACATTTATA
7365830 TTTTATAATAT-T-TATACATTTTCCATA
1 TTTTATAATATGTATATACA-TTT--ATA
* **
7365857 TTTTATAATCA-ATATATATGTTTATA
1 TTTTATAAT-ATGTATATACATTTATA
7365883 TTTTTTTATAATATGTATATA
1 ---TTTTATAATATGTATATA
7365904 TATTCATACA
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
24 6 0.10
25 4 0.07
26 7 0.11
27 19 0.31
28 6 0.10
29 19 0.31
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (26 bp):
TTTTATAATATGTATATACATTTATA
Found at i:7368981 original size:41 final size:41
Alignment explanation
Indices: 7368853--7369010 Score: 142
Period size: 41 Copynumber: 3.9 Consensus size: 41
7368843 TTGTATAAAA
* * * *
7368853 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTG-A-TACATTT
1 CACCGACATCAAGCCTGCTAGACATAAAGCCTGAAGTAC--TT
* * * * *
7368894 CACCGGCA-CAAAGCCTACTAGACATAAAGTCTGAAGAAATT
1 CACCGACATC-AAGCCTGCTAGACATAAAGCCTGAAGTACTT
*
7368935 CACCGACATCAAGCCTGCTAGACATAAAGTCTGAAGTACTT
1 CACCGACATCAAGCCTGCTAGACATAAAGCCTGAAGTACTT
* * * *
7368976 CACCGACATCTAGTCTGCTAGGCATTAAGCCTGAA
1 CACCGACATCAAGCCTGCTAGACATAAAGCCTGAA
7369011 AATCTCAGAT
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 94 0.97
42 2 0.02
43 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGACATCAAGCCTGCTAGACATAAAGCCTGAAGTACTT
Found at i:7369251 original size:64 final size:63
Alignment explanation
Indices: 7369126--7369306 Score: 235
Period size: 64 Copynumber: 2.9 Consensus size: 63
7369116 ACAAACAAAC
*
7369126 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAATTTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTATTAAAATT-CATACATTAAA-TTCAGCTCAAA-AACTTTGTAACCTA
7369187 T
63 T
*
7369188 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCCGCTCAAAAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
* * * *
7369252 ATTTGAACCACATATGTATATATAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAACTTT
7369307 AAATATATAT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
62 18 0.17
63 2 0.02
64 74 0.70
65 12 0.11
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
Found at i:7371454 original size:95 final size:95
Alignment explanation
Indices: 7371291--7371485 Score: 347
Period size: 95 Copynumber: 2.1 Consensus size: 95
7371281 CTTTTCCTTA
7371291 GAATTTGGGGAGCTATAGATTATGCTCCATTGTTGGTACTAAGGCAATACAGGTCAAGGCAGTTT
1 GAATTTGGGGAGCTATAGATTATGCTCCATTGTTGGTACTAAGGCAATACAGGTCAAGGCAGTTT
*
7371356 GTG-CCAGCAACTGAGGGACTGGCCGAGTGT
66 GTGCCCA-CAACTAAGGGACTGGCCGAGTGT
* *
7371386 GAATTTGGGGAGCTGTAGGTTATGCTCCATTGTTGGTACTAAGGCAATACAGGTCAAGGCAGTTT
1 GAATTTGGGGAGCTATAGATTATGCTCCATTGTTGGTACTAAGGCAATACAGGTCAAGGCAGTTT
7371451 GTGCCCACAACTAAGGGACTGGCCGAGTGT
66 GTGCCCACAACTAAGGGACTGGCCGAGTGT
7371481 GAATT
1 GAATT
7371486 CTCATATAGG
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 93 0.97
96 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (95 bp):
GAATTTGGGGAGCTATAGATTATGCTCCATTGTTGGTACTAAGGCAATACAGGTCAAGGCAGTTT
GTGCCCACAACTAAGGGACTGGCCGAGTGT
Found at i:7379619 original size:17 final size:16
Alignment explanation
Indices: 7379588--7379620 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7379578 AAAGAGAAAA
*
7379588 AGAAGAAAAAAGAGAG
1 AGAAAAAAAAAGAGAG
7379604 AGAAAAAAAAAG-GAG
1 AGAAAAAAAAAGAGAG
7379619 AG
1 AG
7379621 GCCAAGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAGAGAG
Found at i:7381222 original size:100 final size:100
Alignment explanation
Indices: 7381040--7381222 Score: 235
Period size: 100 Copynumber: 1.8 Consensus size: 100
7381030 ACAGTGGAAT
* * * *
7381040 AGATTGAAGCTACAACGGTGGATCTTACTTCCTTGGCGGTGCAGTAGAACAGATTGAAGCTACGA
1 AGATTGAAGCTACAACGGCGGATCTTACTTCCCTAGAGGTGCAGTAGAACAGATTGAAGCTACGA
* **
7381105 CGGCAGATCTGGTTTCCCCGACATTGCAATTAAAA
66 CGGCAAATCTGACTTCCCCGACATTGCAATTAAAA
* * *
7381140 AGATTGAAG-TCACAACGGCGGATCTTACTTCCCTAGAGGTGTAGTGGAATAGATTGAAG-TCAC
1 AGATTGAAGCT-ACAACGGCGGATCTTACTTCCCTAGAGGTGCAGTAGAACAGATTGAAGCT-AC
*
7381203 GACGGCAAATCTTACTTCCC
64 GACGGCAAATCTGACTTCCC
7381223 TGAAGTTACA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
99 2 0.03
100 68 0.97
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCTACAACGGCGGATCTTACTTCCCTAGAGGTGCAGTAGAACAGATTGAAGCTACGA
CGGCAAATCTGACTTCCCCGACATTGCAATTAAAA
Found at i:7382804 original size:15 final size:14
Alignment explanation
Indices: 7382763--7382805 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
7382753 TTTGGGGGGT
7382763 TTATT-TTATTAATA
1 TTATTATTATT-ATA
*
7382777 TTGTTATTATTATA
1 TTATTATTATTATA
7382791 TTATATATTATTATA
1 TTAT-TATTATTATA
7382806 CCTACATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:7382989 original size:27 final size:24
Alignment explanation
Indices: 7382933--7382989 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
7382923 TATATATATG
7382933 TATATACATTTATATTTTATAATA
1 TATATACATTTATATTTTATAATA
* *
7382957 TTTATACATTGTCCATATTTTATAATC
1 TATATACATT-T--ATATTTTATAATA
7382984 TATATA
1 TATATA
7382990 TATGTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.33
25 1 0.04
27 17 0.63
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.53
Consensus pattern (24 bp):
TATATACATTTATATTTTATAATA
Found at i:7392413 original size:30 final size:31
Alignment explanation
Indices: 7392342--7392415 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
7392332 AGTGAGCAAA
7392342 TGATAAAAAA-GACAAAATTGAATAGTTGAG
1 TGATAAAAAAGGACAAAATTGAATAGTTGAG
*
7392372 TGATCAAAAAAGGA-AAGCATTG-ATAGTT-AGG
1 TGAT-AAAAAAGGACAA-AATTGAATAGTTGA-G
7392403 TGATAAAAAAGGA
1 TGATAAAAAAGGA
7392416 TTTTTCACGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 14 0.36
31 19 0.49
32 6 0.15
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.22
Consensus pattern (31 bp):
TGATAAAAAAGGACAAAATTGAATAGTTGAG
Found at i:7392500 original size:22 final size:22
Alignment explanation
Indices: 7392475--7392518 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7392465 TACAATTTAC
7392475 CTTATTAATAAAGTTTTATTTT
1 CTTATTAATAAAGTTTTATTTT
* *
7392497 CTTATTAATTAATTTTTATTTT
1 CTTATTAATAAAGTTTTATTTT
7392519 TAATGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
CTTATTAATAAAGTTTTATTTT
Found at i:7401236 original size:6 final size:6
Alignment explanation
Indices: 7401225--7401255 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
7401215 ACTGTAAAGC
7401225 CCTCGA CCTCGA CCTCGA CCTCGA CCTCGA C
1 CCTCGA CCTCGA CCTCGA CCTCGA CCTCGA C
7401256 GGCTGGGTTT
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:0.16, C:0.52, G:0.16, T:0.16
Consensus pattern (6 bp):
CCTCGA
Found at i:7413129 original size:21 final size:21
Alignment explanation
Indices: 7413104--7413179 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
7413094 ATTTTTGAAA
7413104 AAAATATTTAATAATGTTTAG
1 AAAATATTTAATAATGTTTAG
* ** *
7413125 AAAATATTTACA-AATATCAAAT
1 AAAATATTTA-ATAATGT-TTAG
*
7413147 AAACGATATTAAATAATGTTTAG
1 AAA--ATATTTAATAATGTTTAG
7413170 AAAATATTTA
1 AAAATATTTA
7413180 CAAATATCAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
21 20 0.50
22 5 0.12
23 5 0.12
24 10 0.25
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAATATTTAATAATGTTTAG
Found at i:7413156 original size:45 final size:45
Alignment explanation
Indices: 7413107--7413195 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
7413097 TTTGAAAAAA
*
7413107 ATATTTAATAATGTTTAGAAAATATTTACAAATATCAAATAAACG
1 ATATTAAATAATGTTTAGAAAATATTTACAAATATCAAATAAACG
7413152 ATATTAAATAATGTTTAGAAAATATTTACAAATATCAAATAAAC
1 ATATTAAATAATGTTTAGAAAATATTTACAAATATCAAATAAAC
7413196 AATGTTCTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.35
Consensus pattern (45 bp):
ATATTAAATAATGTTTAGAAAATATTTACAAATATCAAATAAACG
Found at i:7418411 original size:11 final size:11
Alignment explanation
Indices: 7418395--7418428 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
7418385 TCTAAACATA
7418395 TTAATTATTAC
1 TTAATTATTAC
7418406 TTAATTATTAC
1 TTAATTATTAC
*
7418417 TTAATTAATAC
1 TTAATTATTAC
7418428 T
1 T
7418429 ATATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAATTATTAC
Found at i:7423315 original size:12 final size:12
Alignment explanation
Indices: 7423293--7423361 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
7423283 TTCGGTTCAA
7423293 CTCCAATGCTGGT
1 CTCC-ATGCTGGT
**
7423306 CTCCATGCTGAA
1 CTCCATGCTGGT
*
7423318 CTGC-TGCTGGT
1 CTCCATGCTGGT
**
7423329 CTCCATGCTGAA
1 CTCCATGCTGGT
*
7423341 CTGC-TGCTGGT
1 CTCCATGCTGGT
7423352 CTCCATGCTG
1 CTCCATGCTG
7423362 AACTGCTGCT
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
11 16 0.38
12 22 0.52
13 4 0.10
ACGTcount: A:0.13, C:0.32, G:0.25, T:0.30
Consensus pattern (12 bp):
CTCCATGCTGGT
Found at i:7423326 original size:23 final size:23
Alignment explanation
Indices: 7423299--7423377 Score: 158
Period size: 23 Copynumber: 3.4 Consensus size: 23
7423289 TCAACTCCAA
7423299 TGCTGGTCTCCATGCTGAACTGC
1 TGCTGGTCTCCATGCTGAACTGC
7423322 TGCTGGTCTCCATGCTGAACTGC
1 TGCTGGTCTCCATGCTGAACTGC
7423345 TGCTGGTCTCCATGCTGAACTGC
1 TGCTGGTCTCCATGCTGAACTGC
7423368 TGCTGGTCTC
1 TGCTGGTCTC
7423378 TTGTTGCATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.11, C:0.30, G:0.27, T:0.32
Consensus pattern (23 bp):
TGCTGGTCTCCATGCTGAACTGC
Found at i:7423503 original size:7 final size:7
Alignment explanation
Indices: 7423491--7423516 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7423481 ATATATACTT
7423491 CATTTTC
1 CATTTTC
7423498 CATTTTC
1 CATTTTC
7423505 CATTTTC
1 CATTTTC
7423512 CATTT
1 CATTT
7423517 GACCTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (7 bp):
CATTTTC
Found at i:7424111 original size:20 final size:20
Alignment explanation
Indices: 7424074--7424112 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7424064 ACACATACAT
* *
7424074 ACATGCATACATATATATAC
1 ACATACATACATACATATAC
*
7424094 ACATACATACGTACATATA
1 ACATACATACATACATATA
7424113 TACGTGATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (20 bp):
ACATACATACATACATATAC
Found at i:7426483 original size:67 final size:67
Alignment explanation
Indices: 7426408--7426547 Score: 212
Period size: 67 Copynumber: 2.1 Consensus size: 67
7426398 AATATAGGCA
* * * *
7426408 AAAC-AAAAAAGAATTATAATAATATTTTAAATTAAATTATAAAAACTCAAAAATTAAAGGGGTT
1 AAACAAAAAAAGAATTATAATAAGATTATAAATTAAATTATAAAAACACAAAAACTAAAGGGGTT
7426472 AT
66 AT
* *
7426474 AAACAAAAAAAGATTTATAATAAGATTATAAATTAAATTATAAAAACACAAACACTAAAGGGGTT
1 AAACAAAAAAAGAATTATAATAAGATTATAAATTAAATTATAAAAACACAAAAACTAAAGGGGTT
7426539 AT
66 AT
7426541 AAA-AAAA
1 AAACAAAA
7426548 TTTCGCCAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 8 0.12
67 59 0.88
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (67 bp):
AAACAAAAAAAGAATTATAATAAGATTATAAATTAAATTATAAAAACACAAAAACTAAAGGGGTT
AT
Found at i:7426700 original size:21 final size:21
Alignment explanation
Indices: 7426676--7426718 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7426666 GAAAAAAATT
7426676 AATACAATA-GAATATTATAAA
1 AATACAATATGAATATTA-AAA
* *
7426697 AATATAATATTAATATTAAAA
1 AATACAATATGAATATTAAAA
7426718 A
1 A
7426719 TTACTCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AATACAATATGAATATTAAAA
Found at i:7427442 original size:22 final size:22
Alignment explanation
Indices: 7427392--7427442 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
7427382 ATAGAGGGAG
7427392 AAATAAAAGAGAATGAAAAGAA
1 AAATAAAAGAGAATGAAAAGAA
**
7427414 AGTTAAAAGA-ACAT-AAAAGAAA
1 AAATAAAAGAGA-ATGAAAAG-AA
7427436 AAATAAA
1 AAATAAA
7427443 TTGCTGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.12
Consensus pattern (22 bp):
AAATAAAAGAGAATGAAAAGAA
Found at i:7428984 original size:33 final size:33
Alignment explanation
Indices: 7428947--7429011 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
7428937 CATCCTAGCT
* * *
7428947 CGTATCCACC-TCAGTACTCCGCTCCTTCCGGCC
1 CGTATCCACCGCCA-TACTCCACTCCTCCCGGCC
7428980 CGTATCCACCGCCATACTCCACTCCTCCCGGC
1 CGTATCCACCGCCATACTCCACTCCTCCCGGC
7429012 TCAAGTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.14, C:0.51, G:0.14, T:0.22
Consensus pattern (33 bp):
CGTATCCACCGCCATACTCCACTCCTCCCGGCC
Found at i:7438035 original size:212 final size:213
Alignment explanation
Indices: 7437735--7438127 Score: 549
Period size: 212 Copynumber: 1.8 Consensus size: 213
7437725 AGGAGAGGCT
** * ** *
7437735 TCAACATTAGAAACCAATTTCATTTCATCGGTCTCAACCACTATAGATGCCGCAGTCTTCCTAAT
1 TCAACATTAGAAACCAATTTCATTTCATCCATCTCAACCACTACAGATGCAACAGTCTTACTAAT
* ** * *
7437800 AGAACCGGACCTATCGCGACTCTTTCGTCTCCTAGAAGAAGAATT-AGAATAATAAT-CTCATCT
66 AGAACCGGACATATCAAGACTCTTTCGTCTCCTAGAAGAAG-ATTCAAAATAATAATCCTCATCC
**
7437863 GA-TCAGACCCTTGAGGAAGTGATTCATCCCTCAAAGAATGGGAGTTAGAATCCCTATCCGGCAC
130 GAGTCAG-CCCTCCAGGAAGTGATTCATCCCTCAAAGAATGGGAGTTAGAATCCCTATCCGGCAC
7437927 ACCGAGGTCCATGAATGTAA
194 ACCGAGGTCCATGAATGTAA
* *
7437947 TCAACATTAGAAACCAATTTCATTTCATCCATCTCAACCGCTACAGCTGCAACAGTCTTACTAAT
1 TCAACATTAGAAACCAATTTCATTTCATCCATCTCAACCACTACAGATGCAACAGTCTTACTAAT
* * **
7438012 AGAACTGGACATATCAAGACTCTTTCTTCTCCTAGAAGAAGATTCAAAATAATAATCCTTGTCCG
66 AGAACCGGACATATCAAGACTCTTTCGTCTCCTAGAAGAAGATTCAAAATAATAATCCTCATCCG
* * *
7438077 AGTTAGCCCTCCAGGCAGTGATTCATCCCTCAAAGAATTGGAGTTAGAATC
131 AGTCAGCCCTCCAGGAAGTGATTCATCCCTCAAAGAATGGGAGTTAGAATC
7438128 ACCATCTAGA
Statistics
Matches: 156, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
211 3 0.02
212 103 0.66
213 47 0.30
214 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (213 bp):
TCAACATTAGAAACCAATTTCATTTCATCCATCTCAACCACTACAGATGCAACAGTCTTACTAAT
AGAACCGGACATATCAAGACTCTTTCGTCTCCTAGAAGAAGATTCAAAATAATAATCCTCATCCG
AGTCAGCCCTCCAGGAAGTGATTCATCCCTCAAAGAATGGGAGTTAGAATCCCTATCCGGCACAC
CGAGGTCCATGAATGTAA
Found at i:7438453 original size:238 final size:238
Alignment explanation
Indices: 7437951--7438532 Score: 731
Period size: 238 Copynumber: 2.4 Consensus size: 238
7437941 ATGTAATCAA
* * **
7437951 CATTAGAAACCAATTTCATTTCATCCATCTCAACCGCTACAGCTGCAACAGTCTTACTAATAGAA
1 CATTAGAAACCAATTTCATTTCATCCATCTCAACCACTACAGCTGCAGCAAACTTACTAATAGAA
* *
7438016 CTGGACATATCAAGACTCTTTCTTCTCCTAGAAGAAGATTCAAAATAATAATCCTTGTCCGAGTT
66 CTGGACCTATCAAGAC-CTTTCTTCTCCTAGAAGAAGAATCAAAATAATAATCCTTGTCCGAGTT
* * * * * *
7438081 AGCCCTCCAGGCAGTGATTCATCCCTCAAAGAATTGGAGTTAGAATCACCATCTAGAACACCGAG
130 AGACCTCCAGGAAGTGATTCACCCCTCAAAGAATCGGAGTTAGAATCAACATCTAGAACACCAAG
** *
7438146 CTTAGATCCATTGATGTAATCAACAGTTGCAGGAAAGACCTTTG
195 CTTAGATCCATTGACATAATAAACAGTTGCAGGAAAGACCTTTG
* * * * *
7438190 CATTAGAAACCAATTTCAATTCATCCATCT-GACCTACTATAGCTGCAGTAAACTTACCAATAGA
1 CATTAGAAACCAATTTCATTTCATCCATCTCAACC-ACTACAGCTGCAGCAAACTTACTAATAGA
**
7438254 ACTGGACCTATCAAGA-CTTTCTTCTCCTAGAAGAAGAATCAAAATAATAATCCCTTGTTTGAGT
65 ACTGGACCTATCAAGACCTTTCTTCTCCTAGAAGAAGAATCAAAATAATAAT-CCTTGTCCGAGT
* * * * * * *
7438318 TGGATCTCCGGGAAGTGATTCACCCCTCAAAGAATCGGAGTTGGAATCAATATCTAGCACATCAA
129 TAGACCTCCAGGAAGTGATTCACCCCTCAAAGAATCGGAGTTAGAATCAACATCTAGAACACCAA
* * * *
7438383 GCTTAGGTCCTTTGACATAATAAACAGTTGCGGGAGAGACCTTTG
194 GCTTAGATCCATTGACATAATAAACAGTTGCAGGAAAGACCTTTG
*** *
7438428 CATTAGAAACTC-ATTTCATTTCATCCATCTCAACCACTACAGCTGCAGCAGTGTTTA-TTATAG
1 CATTAGAAAC-CAATTTCATTTCATCCATCTCAACCACTACAGCTGCAGCA-AACTTACTAATAG
* *
7438491 AACTGGACCTATCGAGACTCTTTCTTCTCCTAGATGAAGAAT
64 AACTGGACCTATCAAGAC-CTTTCTTCTCCTAGAAGAAGAAT
7438533 TTGAATAATA
Statistics
Matches: 292, Mismatches: 44, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
237 34 0.12
238 163 0.56
239 73 0.25
240 22 0.08
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (238 bp):
CATTAGAAACCAATTTCATTTCATCCATCTCAACCACTACAGCTGCAGCAAACTTACTAATAGAA
CTGGACCTATCAAGACCTTTCTTCTCCTAGAAGAAGAATCAAAATAATAATCCTTGTCCGAGTTA
GACCTCCAGGAAGTGATTCACCCCTCAAAGAATCGGAGTTAGAATCAACATCTAGAACACCAAGC
TTAGATCCATTGACATAATAAACAGTTGCAGGAAAGACCTTTG
Found at i:7438826 original size:27 final size:26
Alignment explanation
Indices: 7438751--7438829 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 26
7438741 TTGATTAGTC
* *
7438751 AAAAATCATTAAAAATTAT-ATTTTTA
1 AAAAAT-ATTAAAAATTATAAATTGTA
*
7438777 AAAAAAATTAAAAATGATAATAAATTGTA
1 AAAAATATTAAAAAT--T-ATAAATTGTA
7438806 AAAAATATTGAAAAATTATAAATT
1 AAAAATATT-AAAAATTATAAATT
7438830 AAATAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
25 9 0.20
26 5 0.11
27 8 0.18
28 3 0.07
29 13 0.30
30 6 0.14
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (26 bp):
AAAAATATTAAAAATTATAAATTGTA
Found at i:7439446 original size:25 final size:25
Alignment explanation
Indices: 7439392--7439448 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
7439382 GTTTTAAAAT
*
7439392 ATTTTTTACATTTTGAATAATTTTA
1 ATTTTTTACATTTTGAATAATTATA
*
7439417 CTTTTTATA-ATTTTAGAAT-ATTATA
1 ATTTTT-TACATTTT-GAATAATTATA
7439442 ATTTTTT
1 ATTTTTT
7439449 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.04
25 20 0.74
26 6 0.22
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (25 bp):
ATTTTTTACATTTTGAATAATTATA
Found at i:7449878 original size:15 final size:15
Alignment explanation
Indices: 7449858--7449887 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7449848 CAAAAATTTT
7449858 AAGATATTTTAATAA
1 AAGATATTTTAATAA
*
7449873 AAGATATTTTGATAA
1 AAGATATTTTAATAA
7449888 TTGGTAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
AAGATATTTTAATAA
Found at i:7452221 original size:25 final size:25
Alignment explanation
Indices: 7452138--7452415 Score: 83
Period size: 25 Copynumber: 11.2 Consensus size: 25
7452128 ACCCTCTCTC
**
7452138 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATAA
* * * * *
7452163 GAGTCATGTAACGGGAAACTTATACA
1 GAGCCATATAACAGGAAGCTCATA-A
* *
7452189 G-GCTATATAATAGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
* *
7452213 GAGCCATAT-TCAGGAAGCTCATGCA
1 GAGCCATATAACAGGAAGCTCAT-AA
* * **
7452238 -AGCCA-ATAACGGGTAGCTCCGAA
1 GAGCCATATAACAGGAAGCTCATAA
*
7452261 GAGCCAT-TAATC-GAGAAGCT-TTAGA
1 GAGCCATATAA-CAG-GAAGCTCATA-A
* * * * *
7452286 TAGCCATATATCGGGAAGTTCA-AGC
1 GAGCCATATAACAGGAAGCTCATA-A
* * * **
7452311 GAGTCA-ATATCAAGAAGCTCCGAA
1 GAGCCATATAACAGGAAGCTCATAA
* *
7452335 GAACCAT-TAATCAGGAAGCTCACAAA
1 GAGCCATATAA-CAGGAAGCTCA-TAA
* *
7452361 GAGCC-TTTAATCGGGAAGCTCATGAA
1 GAGCCATATAA-CAGGAAGCTCAT-AA
* * * *
7452387 GAGTCATATATCGGGACGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
7452412 GAGC
1 GAGC
7452416 TGCGGTGTGT
Statistics
Matches: 181, Mismatches: 53, Indels: 38
0.67 0.19 0.14
Matches are distributed among these distances:
23 3 0.02
24 53 0.29
25 81 0.45
26 41 0.23
27 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:7452370 original size:26 final size:26
Alignment explanation
Indices: 7452319--7452382 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
7452309 GCGAGTCAAT
* *
7452319 ATCAAGAAGCTC-CGAAGAACCATTA
1 ATCAGGAAGCTCACAAAGAACCATTA
* *
7452344 ATCAGGAAGCTCACAAAGAGCCTTTA
1 ATCAGGAAGCTCACAAAGAACCATTA
*
7452370 ATCGGGAAGCTCA
1 ATCAGGAAGCTCA
7452383 TGAAGAGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 11 0.33
26 22 0.67
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
ATCAGGAAGCTCACAAAGAACCATTA
Found at i:7453821 original size:673 final size:669
Alignment explanation
Indices: 7452521--7453862 Score: 1659
Period size: 667 Copynumber: 2.0 Consensus size: 669
7452511 TCGAGAGGGC
* * * *
7452521 TAATAATGGGACGCTCTTTCGAGCTGTGATATGTCCGCAATATATGCAAGACCACAACCAATTCG
1 TAATAACGGGACGCTCTTTCGAGCTATGATATGTCCGCAACATATGCAAGACCACAACCAATACG
* * *
7452586 GGAACCCTGTATCCATAGAATTTCATCTATTCAAACGAGACTTAATGTTTATCGGGCTTTATCGG
66 GGAACCCTATATCCATAGAATTTCATCTATTCAAACGAGACTTAATGTTTATCGGGCATTATCAG
* * ** *
7452651 ATATGTAATCAATTTCATATAAATAGCAATTACACAATTCAAATACACAACATTCAATTTAAATA
131 ATATGCAATCAATTTAATATAAATAGCAACAACACAATTCAAATACACAACATTCAATTTAAACA
* * * * *
7452716 TATAAAGATACAATTTAGTTACACGAACTTACCTCGACACTGTTCGTGAACTTGTATGTTACTAA
196 TATAAAGATACAATTTAGTTACACAAACTTACCTCGACACTGCTCGTGAACTAGAATGCTACTAA
** * * * *
7452781 TCCGTTACTTTTTTTACCTCGATCCAGCTCCGTATTTGATCTATCCGGATCTATATGAGTAAATT
261 TCCGACACTTTTTTTACCTCGATCCAACTCCGTATTTGATCTATCCGAATCTATATAAATAAATT
* * * *
7452846 TAGCTCAATTTAATACAATTCATATTCAATTCAATTCATATCTTAGGCAAAATTACCATTTTACC
326 TAACTCAATTTAATACAATTCATATTCAAATCAATTCACATCTTAGGCAAAAGTACCATTTTACC
* *
7452911 CCTATACTTTTAATCAATGATGATTTCATCCCTAGGCTCGGAAAATGAATTCATACTATTTAATC
391 CCTATACTTTTAATCAATGATGATTTCATCCCTAGGCTCGAAAAATGAATTCATACAATTTAATC
* * * * *
7452976 CTTATTCCAAGCCTAAACAATTTTTAAATGTAACATTAATAGCTCATGTATTTCATAAAATTTAG
456 CTTATTCCAAGCATAAACAATTTTTAAATATAACATTAACAGCCCATGTATTTCACAAAATTTAG
* * *
7453041 AATTTTTCCATAAATTTTACATCTTTACAATTTAGTCCCTAAATCACAATTTCATCAAAATTCAC
521 AATATTTCCATAAATTTTACATATTTACAATTTAATCCCTAAATCACAATTTCATCAAAATTCAC
* **
7453106 TTTACAAAAGTTATTTATCTATCAACAACCTTTCATTTTCTACCAT-AATTTTCATAATTCATGC
586 TTTACAAAAATTATTTATCTATCAACAACCTTTCATTTTCTACCATAAAACTTCATAATTCATGC
*
7453170 ATATT-ATCCATGAAAAAA
651 ATATTCATCAATGAAAAAA
* * * *
7453188 TAATAACGGGACGTTCTTTCGAGCTATGGTGTGTCCGCAACATATGCATGACCACAACCAATACG
1 TAATAACGGGACGCTCTTTCGAGCTATGATATGTCCGCAACATATGCAAGACCACAACCAATACG
* * * *
7453253 GGAACCCTATATCCATCA-AATTTCATTTATTCAATC-AGAACTTAATGTTTGTCGGGCATTCTC
66 GGAACCCTATATCCAT-AGAATTTCATCTATTCAAACGAG-ACTTAATGTTTATCGGGCATTATC
* * * * * *
7453316 AGATATGCGATTAATTTAATATACATAGCAACAATACAA-TCACATACATATA-ATTCAA-TTAA
129 AGATATGCAATCAATTTAATATAAATAGCAACAACACAATTCAAATACACA-ACATTCAATTTAA
* * *
7453378 CACATATAAA-TTCTCAATTTAGTTACACAAACTTACCTCGACACTTGCTCGTGTAC-AGAAAT-
193 -ACATATAAAGAT-ACAATTTAGTTACACAAACTTACCTCGACAC-TGCTCGTGAACTAG-AATG
* * * * *
7453440 CTACTAATCCGACACTTTTTCTTTTCCTCGATCTAACTCCTTATTTGATCTTTCTGAATCTATAT
254 CTACTAATCCGACAC-TTTT-TTTACCTCGATCCAACTCCGTATTTGATCTATCCGAATCTATAT
* * *
7453505 AAATGAATTTAACATCAATTTAATACATTTTATATTCTATTCAATCAAATTCACATCTTAGGCAA
317 AAATAAATTTAAC-TCAATTTAATACAATTCATATTC-A---AATC-AATTCACATCTTAGGCAA
* * ** * *
7453570 AAGTACCATTTTTCCCCTATA-TTTTAATTAATTTTGATTTCGTCCCTAGGCTTGAAAAATGAAA
376 AAGTACCATTTTACCCCTATACTTTTAATCAATGATGATTTCATCCCTAGGCTCGAAAAATG-AA
* * ** * *
7453634 TTCATGCAATTTAATCCTTATTCCAAGTATAGCCGAATTTTT-CATATAACATTTACAGCCCATG
440 TTCATACAATTTAATCCTTATTCCAAGCATAAAC-AATTTTTAAATATAACATTAACAGCCCATG
** *
7453698 TATTTCACAAAATTTAGAA-ATTTCCATGTATTTTACATATTTACAATTTAATCCCTAAATCACG
504 TATTTCACAAAATTTAGAATATTTCCATAAATTTTACATATTTACAATTTAATCCCTAAATCACA
** *
7453762 ATTTCATCAAAATTTTCTTTACAAAAATTGTTTATCTATCAACAACCTTTCCA-TTTCTACCATA
569 ATTTCATCAAAATTCACTTTACAAAAATTATTTATCTATCAACAACCTTT-CATTTTCTACCATA
*
7453826 AAACTTCATAATTCATGCATATTCATCAATGGAAAAA
633 AAACTTCATAATTCATGCATATTCATCAATGAAAAAA
7453863 CTTTAATACT
Statistics
Matches: 570, Mismatches: 85, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
665 5 0.01
666 67 0.12
667 155 0.27
668 47 0.08
669 21 0.04
670 1 0.00
673 132 0.23
674 124 0.22
675 18 0.03
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (669 bp):
TAATAACGGGACGCTCTTTCGAGCTATGATATGTCCGCAACATATGCAAGACCACAACCAATACG
GGAACCCTATATCCATAGAATTTCATCTATTCAAACGAGACTTAATGTTTATCGGGCATTATCAG
ATATGCAATCAATTTAATATAAATAGCAACAACACAATTCAAATACACAACATTCAATTTAAACA
TATAAAGATACAATTTAGTTACACAAACTTACCTCGACACTGCTCGTGAACTAGAATGCTACTAA
TCCGACACTTTTTTTACCTCGATCCAACTCCGTATTTGATCTATCCGAATCTATATAAATAAATT
TAACTCAATTTAATACAATTCATATTCAAATCAATTCACATCTTAGGCAAAAGTACCATTTTACC
CCTATACTTTTAATCAATGATGATTTCATCCCTAGGCTCGAAAAATGAATTCATACAATTTAATC
CTTATTCCAAGCATAAACAATTTTTAAATATAACATTAACAGCCCATGTATTTCACAAAATTTAG
AATATTTCCATAAATTTTACATATTTACAATTTAATCCCTAAATCACAATTTCATCAAAATTCAC
TTTACAAAAATTATTTATCTATCAACAACCTTTCATTTTCTACCATAAAACTTCATAATTCATGC
ATATTCATCAATGAAAAAA
Found at i:7454199 original size:29 final size:29
Alignment explanation
Indices: 7454157--7454216 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
7454147 TTATAATTAT
7454157 CTACTAACTCCTCTTAATGGTCTATTCGC
1 CTACTAACTCCTCTTAATGGTCTATTCGC
*
7454186 CTACTAACTCCTCTTAATGGTCTATTTGC
1 CTACTAACTCCTCTTAATGGTCTATTCGC
7454215 CT
1 CT
7454217 TATAAGGACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (29 bp):
CTACTAACTCCTCTTAATGGTCTATTCGC
Found at i:7460350 original size:7 final size:7
Alignment explanation
Indices: 7460338--7460382 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
7460328 TAAATATCAT
7460338 TTTAAAA
1 TTTAAAA
7460345 TTTAAAA
1 TTTAAAA
7460352 TTTAAAA
1 TTTAAAA
7460359 TTTAAAA
1 TTTAAAA
7460366 TATTAAGAA
1 T-TTAA-AA
*
7460375 ATTAAAA
1 TTTAAAA
7460382 T
1 T
7460383 GAAAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 24 0.71
8 8 0.24
9 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (7 bp):
TTTAAAA
Found at i:7463376 original size:19 final size:20
Alignment explanation
Indices: 7463354--7463425 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 20
7463344 AAAAATTCAA
7463354 AAAAATATATTTAAAA-T-TT
1 AAAAATATA-TTAAAATTATT
*
7463373 AAAAAT-CATTAAAATTATT
1 AAAAATATATTAAAATTATT
*
7463392 AAAAATATA--AAAAATATT
1 AAAAATATATTAAAATTATT
**
7463410 TTAAA-ATATTAAAATT
1 AAAAATATATTAAAATT
7463426 TAATTAAACG
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
17 9 0.21
18 13 0.31
19 19 0.45
20 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATATTAAAATTATT
Found at i:7463388 original size:48 final size:47
Alignment explanation
Indices: 7463333--7463423 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 47
7463323 ATATTATTTT
*
7463333 TTAAAATTTTTAAAAAT-TCAAAAAAATATATTTAAAAT-TTAAAAATCA
1 TTAAAATTATTAAAAATAT--AAAAAATAT-TTTAAAATATTAAAAATCA
7463381 TTAAAATTATTAAAAATATAAAAAATATTTTAAAATATTAAAA
1 TTAAAATTATTAAAAATATAAAAAATATTTTAAAATATTAAAA
7463424 TTTAATTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
46 8 0.20
47 15 0.38
48 16 0.40
49 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (47 bp):
TTAAAATTATTAAAAATATAAAAAATATTTTAAAATATTAAAAATCA
Found at i:7463404 original size:8 final size:9
Alignment explanation
Indices: 7463355--7463423 Score: 68
Period size: 9 Copynumber: 7.4 Consensus size: 9
7463345 AAAATTCAAA
7463355 AAAATATATT
1 AAAA-ATATT
*
7463365 TAAAAT-TT
1 AAAAATATT
7463373 AAAAATCATT
1 AAAAAT-ATT
*
7463383 AAAATTATT
1 AAAAATATT
*
7463392 AAAAATATA
1 AAAAATATT
7463401 AAAAATATTT
1 AAAAATA-TT
*
7463411 TAAAATATT
1 AAAAATATT
7463420 AAAA
1 AAAA
7463424 TTTAATTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 7 0.15
9 24 0.50
10 17 0.35
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAAATATT
Found at i:7463801 original size:8 final size:8
Alignment explanation
Indices: 7463788--7463830 Score: 59
Period size: 9 Copynumber: 5.0 Consensus size: 8
7463778 AATGTCCTCG
7463788 TTTAAAAA
1 TTTAAAAA
7463796 TTTAAAAA
1 TTTAAAAA
7463804 TATTAAAAA
1 T-TTAAAAA
7463813 TATTAAAAA
1 T-TTAAAAA
7463822 TTCTAAAAA
1 TT-TAAAAA
7463831 GTAAAAAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 10 0.30
9 23 0.70
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
TTTAAAAA
Found at i:7463830 original size:9 final size:9
Alignment explanation
Indices: 7463789--7463822 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
7463779 ATGTCCTCGT
7463789 TTAAAAAT-
1 TTAAAAATA
7463797 TTAAAAATA
1 TTAAAAATA
7463806 TTAAAAATA
1 TTAAAAATA
7463815 TTAAAAAT
1 TTAAAAAT
7463823 TCTAAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAAAAATA
Found at i:7484823 original size:36 final size:37
Alignment explanation
Indices: 7484783--7484885 Score: 113
Period size: 36 Copynumber: 2.8 Consensus size: 37
7484773 AAGTTCAAGC
*
7484783 CATTCGTTGGAAATATAAAATGTAAGAGATGCA-ACT
1 CATTCGTTGGAAATATAAAATGTAAGAAATGCATACT
* * *
7484819 CATTCGTTGGTAATATGAAATGT-GGAAATGCATACT
1 CATTCGTTGGAAATATAAAATGTAAGAAATGCATACT
* * *
7484855 -ATCCGTTTGACGATATAAAATGTAAGAAATG
1 CATTCGTTGGA-AATATAAAATGTAAGAAATG
7484886 AGTTTTTGAC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
35 14 0.26
36 34 0.63
37 6 0.11
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (37 bp):
CATTCGTTGGAAATATAAAATGTAAGAAATGCATACT
Found at i:7485273 original size:50 final size:50
Alignment explanation
Indices: 7485219--7485314 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
7485209 CACATGGTAG
** * * **
7485219 GAGGCACATGGTAGGTGGTAATAAAGGCATTGCTCTTAGACGCATGGGAA
1 GAGGCACATGAAAGGTAGTAATAAAGGCACTGCTCCCAGACGCATGGGAA
** *
7485269 GAGGCTTATGAAAGGTAGTAATAAAGGCCCTGCTCCCAGACGCATG
1 GAGGCACATGAAAGGTAGTAATAAAGGCACTGCTCCCAGACGCATG
7485315 TGGGGAGACT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGGCACATGAAAGGTAGTAATAAAGGCACTGCTCCCAGACGCATGGGAA
Found at i:7485327 original size:50 final size:50
Alignment explanation
Indices: 7485231--7485327 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
7485221 GGCACATGGT
* * ** *
7485231 AGGTGGTAATAAAGGCATTGCTCTTAGACGCATGGGAAGAGGCTTATGAA
1 AGGTAGTAATAAAGGCACTGCTCCCAGACGCATGGGAAGAGACTTATGAA
* *
7485281 AGGTAGTAATAAAGGCCCTGCTCCCAGACGCATGTGG-GGAGACTTAT
1 AGGTAGTAATAAAGGCACTGCTCCCAGACGCATG-GGAAGAGACTTAT
7485328 AGAATGTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (50 bp):
AGGTAGTAATAAAGGCACTGCTCCCAGACGCATGGGAAGAGACTTATGAA
Found at i:7486063 original size:16 final size:16
Alignment explanation
Indices: 7486025--7486064 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7486015 AAATTTAAAC
7486025 TTAAAAAAACTCAAAT
1 TTAAAAAAACTCAAAT
* * *
7486041 ATGAAAAAACTGAAAT
1 TTAAAAAAACTCAAAT
7486057 TTAAAAAA
1 TTAAAAAA
7486065 TCCAAACAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (16 bp):
TTAAAAAAACTCAAAT
Found at i:7496736 original size:31 final size:31
Alignment explanation
Indices: 7496699--7496772 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
7496689 ATATTTTATA
7496699 TATCATTATATTAAATTACTTAAATATCATT
1 TATCATTATATTAAATTACTTAAATATCATT
* * *
7496730 TATCATTATATTAAATTATTTAAATCTTATT
1 TATCATTATATTAAATTACTTAAATATCATT
*
7496761 TATTATTATATT
1 TATCATTATATT
7496773 TATTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (31 bp):
TATCATTATATTAAATTACTTAAATATCATT
Found at i:7496889 original size:31 final size:34
Alignment explanation
Indices: 7496826--7496891 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 34
7496816 ATTATATTAA
* * *
7496826 ATCATTTATCATTATATTAATTTATATTTCATGT
1 ATCATTTATCATTAAATTAATTTAAATATCATGT
7496860 ATCA-TTAT-ATTAAATT-ATTTAAATATCATGT
1 ATCATTTATCATTAAATTAATTTAAATATCATGT
7496891 A
1 A
7496892 ACTTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 14 0.48
32 7 0.24
33 4 0.14
34 4 0.14
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (34 bp):
ATCATTTATCATTAAATTAATTTAAATATCATGT
Found at i:7501791 original size:11 final size:11
Alignment explanation
Indices: 7501775--7501819 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
7501765 ATTAATCCTT
*
7501775 TCTCAATTTTC
1 TCTCAATTTCC
7501786 TCTCAATTTCC
1 TCTCAATTTCC
* *
7501797 TCTCAAATTGC
1 TCTCAATTTCC
*
7501808 TCTCAGTTTCC
1 TCTCAATTTCC
7501819 T
1 T
7501820 TCCAAATTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.04, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:7501801 original size:22 final size:22
Alignment explanation
Indices: 7501775--7501835 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
7501765 ATTAATCCTT
*
7501775 TCTCAATTTTCTCTCAATTTCC
1 TCTCAAATTTCTCTCAATTTCC
* *
7501797 TCTCAAATTGCTCTCAGTTTCC
1 TCTCAAATTTCTCTCAATTTCC
7501819 T-TCCAAATTTCTCTCAA
1 TCT-CAAATTTCTCTCAA
7501836 ATCCATATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.21, C:0.31, G:0.03, T:0.44
Consensus pattern (22 bp):
TCTCAAATTTCTCTCAATTTCC
Found at i:7503706 original size:18 final size:18
Alignment explanation
Indices: 7503683--7503725 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7503673 TGCCAGGTGC
* *
7503683 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
7503701 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
7503719 GTTTCCT
1 GTATCCT
7503726 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:7504011 original size:21 final size:22
Alignment explanation
Indices: 7503965--7504026 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
7503955 CCAACACCGA
7503965 CAACCAG-ATCCCCAACCGGATG
1 CAACCAGAATCCCC-ACCGGATG
7503987 -AACCAGAATCCCCACCGGA-G
1 CAACCAGAATCCCCACCGGATG
* * *
7504007 CAACCACAACCCCCGCCGGA
1 CAACCAGAATCCCCACCGGA
7504027 AGCTGGACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 1 0.03
21 28 0.80
22 6 0.17
ACGTcount: A:0.32, C:0.45, G:0.18, T:0.05
Consensus pattern (22 bp):
CAACCAGAATCCCCACCGGATG
Found at i:7504198 original size:49 final size:49
Alignment explanation
Indices: 7504145--7504265 Score: 215
Period size: 49 Copynumber: 2.5 Consensus size: 49
7504135 GTTTATATTA
*
7504145 ATGTAATAAAATACAAAGTAGTTTAATTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
* *
7504194 ATGTAATAAAATACAAAATAATTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
7504243 ATGTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
7504266 AATATTCTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
Found at i:7505747 original size:124 final size:123
Alignment explanation
Indices: 7505409--7505817 Score: 649
Period size: 124 Copynumber: 3.3 Consensus size: 123
7505399 CCCAAACATG
* * *
7505409 CTATTGTAGCAAAAGCGCGTTCACGTAAGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTAC
1 CTATTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTC-AAAATTCTTCTGATAAAGCATCCTGC
* *
7505474 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAA-TCAAAATTATTTTTTCAGGAC
65 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTTTTCAGGAC
* * *
7505533 CTACTGTAGCAAAAGCGCGTCTACGTGGGAGCGATTTCAAAATTCTTCTGATAAAGCATCCTGCT
1 CTATTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCAAAATTCTTCTGATAAAGCATCCTGCT
*
7505598 TGAAGCGTTTTTATACTATTTGCTCAGAAACGTTAACTCGAAATTATTTTTTCAGGAC
66 TGAAGCGTTTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTTTTCAGGAC
* *
7505656 CTATTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCAGAAATTATTCTTATAAAGCATCCTGC
1 CTATTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCA-AAATTCTTCTGATAAAGCATCCTGC
7505721 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTTTTCAGGAC
65 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTTTTCAGGAC
* * * *
7505780 CTATTGTATCAAAAACGCGTCCACGTGGGAGCAATTTC
1 CTATTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTC
7505818 CTTAATAAAT
Statistics
Matches: 265, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
122 28 0.11
123 89 0.34
124 148 0.56
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (123 bp):
CTATTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCAAAATTCTTCTGATAAAGCATCCTGCT
TGAAGCGTTTTTATACTATTTGCTCAGAAACGTAAACTCGAAATTATTTTTTCAGGAC
Found at i:7506744 original size:20 final size:20
Alignment explanation
Indices: 7506721--7506769 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
7506711 TAAATATTTT
7506721 TTTAAAAATAT-AATAATAAA
1 TTTAAAAATATAAATAA-AAA
7506741 TTTAAAAA-ATAAATAAAAA
1 TTTAAAAATATAAATAAAAA
*
7506760 -TAAAAAATAT
1 TTTAAAAATAT
7506770 TGTTGTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 13 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TTTAAAAATATAAATAAAAA
Found at i:7512829 original size:18 final size:17
Alignment explanation
Indices: 7512801--7512835 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7512791 TTGTCTAAGA
*
7512801 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7512818 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7512836 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7512932 original size:38 final size:39
Alignment explanation
Indices: 7512890--7513059 Score: 105
Period size: 38 Copynumber: 4.3 Consensus size: 39
7512880 ATGATTTCAG
7512890 TAAATTA-ATATAAGAATATTAATTATTAAGAATTTTAT
1 TAAATTATATATAAGAATATTAATTATTAAGAATTTTAT
* * * * * * *
7512928 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGT
1 TAAATTATATA---TAA-GAATAT-TAATTATTAAGAATTTTAT
* * * * * * * * *
7512972 TAATTTATATTTTACAGTA-TCATATATTATG-ATTTCAG
1 TAAATTATATATAAGAATATTAAT-TATTAAGAATTTTAT
*
7513010 TAAATTA-ATATAAGAATATTCATTATTAAGAATTTTAT
1 TAAATTATATATAAGAATATTAATTATTAAGAATTTTAT
7513048 TAAATTATATAT
1 TAAATTATATAT
7513060 TTTAATTAAA
Statistics
Matches: 92, Mismatches: 30, Indels: 19
0.65 0.21 0.13
Matches are distributed among these distances:
37 13 0.14
38 34 0.37
39 11 0.12
40 2 0.02
41 2 0.02
42 3 0.03
43 4 0.04
44 23 0.25
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (39 bp):
TAAATTATATATAAGAATATTAATTATTAAGAATTTTAT
Found at i:7512949 original size:18 final size:17
Alignment explanation
Indices: 7512921--7512955 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7512911 ATTATTAAGA
*
7512921 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7512938 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7512956 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7513009 original size:120 final size:120
Alignment explanation
Indices: 7512796--7513092 Score: 585
Period size: 120 Copynumber: 2.5 Consensus size: 120
7512786 GGCAGTTGTC
7512796 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
7512861 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
7512916 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
1 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
*
7512981 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTCATTAT
66 TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
7513036 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
7513093 TAAATATGAT
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 176 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA
TTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTAT
Found at i:7513069 original size:18 final size:17
Alignment explanation
Indices: 7513041--7513075 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7513031 ATTATTAAGA
*
7513041 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7513058 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7513076 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7513335 original size:16 final size:16
Alignment explanation
Indices: 7513311--7513362 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
7513301 GATTTGCTAT
7513311 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
7513327 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
7513343 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7513359 TACA
1 TACA
7513363 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7515196 original size:15 final size:16
Alignment explanation
Indices: 7515173--7515207 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7515163 TTTTATTTTT
*
7515173 ATTTGGGTTTAATT-G
1 ATTTAGGTTTAATTAG
7515188 ATTTAGGTTTAATTAG
1 ATTTAGGTTTAATTAG
7515204 ATTT
1 ATTT
7515208 TATGGGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (16 bp):
ATTTAGGTTTAATTAG
Found at i:7515797 original size:31 final size:31
Alignment explanation
Indices: 7515761--7515827 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
7515751 ATCTAAGGTA
7515761 TATTTTATTCAAAAA-ATACAAT-AATTTTTAC
1 TATTTT-TT-AAAAATATACAATAAATTTTTAC
* *
7515792 TATTTTTTAAAAATTTATAATAAATTTTTAC
1 TATTTTTTAAAAATATACAATAAATTTTTAC
*
7515823 AATTT
1 TATTT
7515828 CTAATACTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 5 0.16
30 7 0.23
31 19 0.61
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (31 bp):
TATTTTTTAAAAATATACAATAAATTTTTAC
Found at i:7524725 original size:14 final size:16
Alignment explanation
Indices: 7524706--7524743 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
7524696 AAATTAGGTT
7524706 CTAAATTTT-TAA-TA
1 CTAAATTTTATAAGTA
*
7524720 CTAAATTTTATAAGTG
1 CTAAATTTTATAAGTA
7524736 CTAAATTT
1 CTAAATTT
7524744 ATCTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 3 0.14
16 9 0.43
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (16 bp):
CTAAATTTTATAAGTA
Found at i:7524837 original size:19 final size:18
Alignment explanation
Indices: 7524813--7524853 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7524803 TATTGTTTGA
7524813 TAAAAATAAATACTTATTT
1 TAAAAAT-AATACTTATTT
* *
7524832 TAAAAATATTATTTATTT
1 TAAAAATAATACTTATTT
7524850 TAAA
1 TAAA
7524854 TTTTTATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAATAATACTTATTT
Found at i:7524865 original size:18 final size:19
Alignment explanation
Indices: 7524825--7524866 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
7524815 AAAATAAATA
7524825 CTTATTTTAAAAATATTAT
1 CTTATTTTAAAAATATTAT
* *
7524844 -TTATTTT-AAATTTTTAT
1 CTTATTTTAAAAATATTAT
7524861 CTTATT
1 CTTATT
7524867 AATCTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
CTTATTTTAAAAATATTAT
Found at i:7526411 original size:25 final size:25
Alignment explanation
Indices: 7526383--7526433 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7526373 TTTTGTTCAC
7526383 AACTCATATTCTTAGCCCAAAGTAG
1 AACTCATATTCTTAGCCCAAAGTAG
7526408 AACTCATATTCTTAGCCCAAAGTAG
1 AACTCATATTCTTAGCCCAAAGTAG
7526433 A
1 A
7526434 CTTTATAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (25 bp):
AACTCATATTCTTAGCCCAAAGTAG
Found at i:7526520 original size:22 final size:22
Alignment explanation
Indices: 7526495--7526574 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
7526485 GCACTATTGA
*
7526495 ACAGAGAGCACTAAAGTGCTAT
1 ACAGAGAGCACTAATGTGCTAT
* *
7526517 ACAGAGAGCACGAATGTGCTAA
1 ACAGAGAGCACTAATGTGCTAT
**
7526539 ATGGAGAGCACTAATGTGCTAAT
1 ACAGAGAGCACTAATGTGCT-AT
7526562 AATCAGAGAGCAC
1 -A-CAGAGAGCAC
7526575 GCTAAGGTCC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 36 0.78
23 1 0.02
24 1 0.02
25 8 0.17
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (22 bp):
ACAGAGAGCACTAATGTGCTAT
Found at i:7527581 original size:14 final size:14
Alignment explanation
Indices: 7527562--7527588 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7527552 CCACACATTT
7527562 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
7527576 GTTCTTCTCTGCT
1 GTTCTTCTCTGCT
7527589 AGTGCTGGTG
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:0.00, C:0.30, G:0.19, T:0.52
Consensus pattern (14 bp):
GTTCTTCTCTGCTG
Found at i:7527677 original size:23 final size:24
Alignment explanation
Indices: 7527650--7527706 Score: 89
Period size: 25 Copynumber: 2.4 Consensus size: 24
7527640 CTGGTGCTGG
7527650 TGTTCCTCTGCT-TGCTGGTTCTT
1 TGTTCCTCTGCTGTGCTGGTTCTT
*
7527673 TGTTCCTCTGCTGGTGCTTGTTCTT
1 TGTTCCTCTGCT-GTGCTGGTTCTT
7527698 TGTTCCTCT
1 TGTTCCTCT
7527707 TTTCCACTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 12 0.39
25 19 0.61
ACGTcount: A:0.00, C:0.26, G:0.21, T:0.53
Consensus pattern (24 bp):
TGTTCCTCTGCTGTGCTGGTTCTT
Found at i:7529952 original size:72 final size:72
Alignment explanation
Indices: 7529857--7530023 Score: 230
Period size: 72 Copynumber: 2.3 Consensus size: 72
7529847 CAGTGCTAAA
* * *
7529857 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATAATGAATTTATGTTCTACTTATTTAT
7529922 CTGTAAT
66 CTGTAAT
* * *
7529929 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATAATGAATTTATGTTCTACTTATTTTT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATAATGAATTTATGTTCTACTTATTTAT
*
7529994 AT-TAAAT
66 CTGT-AAT
* *
7530001 -TAGTGTTATCAATTGTTATTTAT
1 CTAGTTTTATCAATAGTTATTTAT
7530024 ATATGATTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 20 0.24
72 63 0.76
ACGTcount: A:0.25, C:0.06, G:0.13, T:0.56
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATAATGAATTTATGTTCTACTTATTTAT
CTGTAAT
Found at i:7535204 original size:5 final size:5
Alignment explanation
Indices: 7535194--7535232 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
7535184 GCCTTAGATG
* *
7535194 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
7535233 TTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:7535623 original size:24 final size:24
Alignment explanation
Indices: 7535577--7535623 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
7535567 TTAGCTTTCA
***
7535577 TGAGCTTCCCGTTAATGGTTCTTG
1 TGAGCTTCCCGTTAATAACTCTTG
*
7535601 TGAGCTTTCCGTTAATAACTCTT
1 TGAGCTTCCCGTTAATAACTCTT
7535624 CGGAGCATCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (24 bp):
TGAGCTTCCCGTTAATAACTCTTG
Found at i:7536094 original size:6 final size:6
Alignment explanation
Indices: 7536083--7536109 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7536073 TTGATGTGAA
7536083 AAGTAT AAGTAT AAGTAT AAGTAT AAG
1 AAGTAT AAGTAT AAGTAT AAGTAT AAG
7536110 GAAATTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (6 bp):
AAGTAT
Found at i:7558683 original size:15 final size:15
Alignment explanation
Indices: 7558663--7558694 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7558653 GTAAAAATAA
7558663 AAGTAGACTCAAGAT
1 AAGTAGACTCAAGAT
7558678 AAGTAGACTCAAGAT
1 AAGTAGACTCAAGAT
7558693 AA
1 AA
7558695 CCAAAGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (15 bp):
AAGTAGACTCAAGAT
Found at i:7564444 original size:23 final size:23
Alignment explanation
Indices: 7564400--7564444 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
7564390 ACAATTTTAA
7564400 TTTTTTAATATTTAAAATAATAT
1 TTTTTTAATATTTAAAATAATAT
*
7564423 TTTTTGTAATTTTTAAAA-AATA
1 TTTTT-TAATATTTAAAATAATA
7564445 CATTAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTTTAATATTTAAAATAATAT
Found at i:7566484 original size:209 final size:209
Alignment explanation
Indices: 7566124--7566540 Score: 780
Period size: 209 Copynumber: 2.0 Consensus size: 209
7566114 CAATTTACAA
7566124 CTGCACTAAGGTTCAGTTTTCTTATGATTACAAATTCAAATTTACCAGCCTTGGAAGAAACATAA
1 CTGCACTAAGGTTCAGTTTTCTTATGATTACAAATTCAAATTTACCAGCCTTGGAAGAAACATAA
* *
7566189 AGGATTCAAGCAGGCAGCCCCATTATAGTGACAGCATGTAATTTCCATCACCTATGCTCCGTTCA
66 AGGATTCAAGCAGGCAGCCCCATTACAGTGACAGCATGTAATTTCCATCACCTATGCCCCGTTCA
7566254 TTGCAGTATCATGGATTCCATTGCCATCTTCCTGAATCTTGCCATTTACTTGAGTTCTCGGCCTC
131 TTGCAGTATCATGGATTCCATTGCCATCTTCCTGAATCTTGCCATTTACTTGAGTTCTCGGCCTC
7566319 TAAACAAATGAAGG
196 TAAACAAATGAAGG
*
7566333 CTGCACTAAGGTTCAGTTTTCTTATGATTACAAATTCAAATTTGCCAGCCTTGGAAGAAACATAA
1 CTGCACTAAGGTTCAGTTTTCTTATGATTACAAATTCAAATTTACCAGCCTTGGAAGAAACATAA
* *
7566398 AGGATTCAAGCAGGCAGCCCCATTACGGTGACAGCATGTAATTTCCATCATCTATGCCCCGTTCA
66 AGGATTCAAGCAGGCAGCCCCATTACAGTGACAGCATGTAATTTCCATCACCTATGCCCCGTTCA
*
7566463 TTGCAGTATCATGGATTCCATTTCCATCTTCCTGAATCTTGCCATTTACTTGAGTTCTCGGCCTC
131 TTGCAGTATCATGGATTCCATTGCCATCTTCCTGAATCTTGCCATTTACTTGAGTTCTCGGCCTC
7566528 TAAACAAATGAAG
196 TAAACAAATGAAG
7566541 AAGGAAACGT
Statistics
Matches: 202, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
209 202 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (209 bp):
CTGCACTAAGGTTCAGTTTTCTTATGATTACAAATTCAAATTTACCAGCCTTGGAAGAAACATAA
AGGATTCAAGCAGGCAGCCCCATTACAGTGACAGCATGTAATTTCCATCACCTATGCCCCGTTCA
TTGCAGTATCATGGATTCCATTGCCATCTTCCTGAATCTTGCCATTTACTTGAGTTCTCGGCCTC
TAAACAAATGAAGG
Found at i:7566716 original size:83 final size:83
Alignment explanation
Indices: 7566577--7566741 Score: 312
Period size: 83 Copynumber: 2.0 Consensus size: 83
7566567 TTTGGATATT
* *
7566577 GTCATGAAGGTATTCAAAGAATTAACCAAATAAAATTACTATACCCAATCTGCAGGATCTACAGA
1 GTCATGAAGGTATCCAAAGAATTAACAAAATAAAATTACTATACCCAATCTGCAGGATCTACAGA
7566642 ATTCCCATTCAAGAGCTC
66 ATTCCCATTCAAGAGCTC
7566660 GTCATGAAGGTATCCAAAGAATTAACAAAATAAAATTACTATACCCAATCTGCAGGATCTACAGA
1 GTCATGAAGGTATCCAAAGAATTAACAAAATAAAATTACTATACCCAATCTGCAGGATCTACAGA
7566725 ATTCCCATTCAAGAGCT
66 ATTCCCATTCAAGAGCT
7566742 TGTGGTTCTC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (83 bp):
GTCATGAAGGTATCCAAAGAATTAACAAAATAAAATTACTATACCCAATCTGCAGGATCTACAGA
ATTCCCATTCAAGAGCTC
Found at i:7576555 original size:42 final size:42
Alignment explanation
Indices: 7576500--7576580 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
7576490 TCAGTAAGTG
* * *
7576500 TTAATTCATAATGTTGATGGAAGTGTTTAGAGATTTGTACAC
1 TTAATGCACAATGTTGATGAAAGTGTTTAGAGATTTGTACAC
7576542 TTAATGCACAATGTTGATGAAAGTGTTTAGAGATTTGTA
1 TTAATGCACAATGTTGATGAAAGTGTTTAGAGATTTGTA
7576581 GATAGAATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (42 bp):
TTAATGCACAATGTTGATGAAAGTGTTTAGAGATTTGTACAC
Found at i:7577246 original size:9 final size:9
Alignment explanation
Indices: 7577234--7577302 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
7577224 TAAAAAAAAC
7577234 TTTTAATTT
1 TTTTAATTT
7577243 TTTTATATTT
1 TTTTA-ATTT
* * *
7577253 TCTAAATAT
1 TTTTAATTT
*
7577262 TCTTAATTAT
1 TTTTAATT-T
7577272 TTTT-ATTT
1 TTTTAATTT
7577280 TTTTAAAATTT
1 TTTT--AATTT
*
7577291 TATTAATTT
1 TTTTAATTT
7577300 TTT
1 TTT
7577303 AAACTTTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 5 0.11
9 24 0.51
10 11 0.23
11 7 0.15
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTAATTT
Found at i:7577288 original size:29 final size:28
Alignment explanation
Indices: 7577236--7577302 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
7577226 AAAAAAACTT
*
7577236 TTAATTTTTTTATATTTTCTAAATATTC
1 TTAATTTTTTTATATTTTCTAAATATTA
* *
7577264 TTAATTATTTTTAT-TTTTTTAAAATTTTA
1 TTAATT-TTTTTATATTTTCT-AAATATTA
7577293 TTAATTTTTT
1 TTAATTTTTT
7577303 AAACTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (28 bp):
TTAATTTTTTTATATTTTCTAAATATTA
Found at i:7579959 original size:40 final size:40
Alignment explanation
Indices: 7579915--7580135 Score: 229
Period size: 38 Copynumber: 5.6 Consensus size: 40
7579905 AAAACACACC
* *
7579915 AAATTGGCACCTAGTGCCTCATCGGATAATTCAAAGTATT
1 AAATTGACACCTAGTGTCTCATCGGATAATTCAAAGTATT
* * * *
7579955 AAATTGACACCTAGTGTCTCATCGGTTAA---AACCGAAGT
1 AAATTGACACCTAGTGTCTCATCGGATAATTCAA-AGTATT
* *
7579993 AAATTGACACCCAGTGCCTCATCGGATAATTCAAAGTATT
1 AAATTGACACCTAGTGTCTCATCGGATAATTCAAAGTATT
* **
7580033 AAATTGACACCTAGTGTCTCATCGGTTAAAACCAAAG---T
1 AAATTGACACCTAGTGTCTCATCGGAT-AATTCAAAGTATT
* * * *
7580071 AAATTGACACCCAGTGTCTCATCGAATAAATTCGAAGTAAT
1 AAATTGACACCTAGTGTCTCATCGGAT-AATTCAAAGTATT
*
7580112 AAATTGACACTTAGTGTCTCATCG
1 AAATTGACACCTAGTGTCTCATCG
7580136 ACTCAAAGTC
Statistics
Matches: 148, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.01
38 61 0.41
40 53 0.36
41 32 0.22
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (40 bp):
AAATTGACACCTAGTGTCTCATCGGATAATTCAAAGTATT
Found at i:7580044 original size:78 final size:78
Alignment explanation
Indices: 7579915--7580135 Score: 361
Period size: 78 Copynumber: 2.8 Consensus size: 78
7579905 AAAACACACC
* *
7579915 AAATTGGCACCTAGTGCCTCATCGGATAATTCAAAGTATTAAATTGACACCTAGTGTCTCATCGG
1 AAATTGACACCCAGTGCCTCATCGGATAATTCAAAGTATTAAATTGACACCTAGTGTCTCATCGG
*
7579980 TTAAAACCGAAGT
66 TTAAAACCAAAGT
7579993 AAATTGACACCCAGTGCCTCATCGGATAATTCAAAGTATTAAATTGACACCTAGTGTCTCATCGG
1 AAATTGACACCCAGTGCCTCATCGGATAATTCAAAGTATTAAATTGACACCTAGTGTCTCATCGG
7580058 TTAAAACCAAAGT
66 TTAAAACCAAAGT
* * * * *
7580071 AAATTGACACCCAGTGTCTCATCGAATAAATTCGAAGTAATAAATTGACACTTAGTGTCTCATCG
1 AAATTGACACCCAGTGCCTCATCGGAT-AATTCAAAGTATTAAATTGACACCTAGTGTCTCATCG
7580136 ACTCAAAGTC
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
78 100 0.75
79 34 0.25
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (78 bp):
AAATTGACACCCAGTGCCTCATCGGATAATTCAAAGTATTAAATTGACACCTAGTGTCTCATCGG
TTAAAACCAAAGT
Found at i:7580730 original size:273 final size:273
Alignment explanation
Indices: 7580243--7580790 Score: 1096
Period size: 273 Copynumber: 2.0 Consensus size: 273
7580233 TTAAGATATA
7580243 ATCAATATCCAATACTGATTTTTCATATAATCACATAATTACACATATATTCATTTCAATTCAAA
1 ATCAATATCCAATACTGATTTTTCATATAATCACATAATTACACATATATTCATTTCAATTCAAA
7580308 AATCAATCCCTTTAATATATATATCTACTAATTCAATTCATTCAATCAATTATCAAAATATCAAT
66 AATCAATCCCTTTAATATATATATCTACTAATTCAATTCATTCAATCAATTATCAAAATATCAAT
7580373 TACTCACCGCAACACTTACCATATATATTAAATAAAAATTACAACAATTAATAACTAGCTTCGGA
131 TACTCACCGCAACACTTACCATATATATTAAATAAAAATTACAACAATTAATAACTAGCTTCGGA
7580438 TTATAGAAATACAAACCGGAAATTTTGAGCTATTCCTCGTCGACTTTATCTTTTCCCTTTTTAGT
196 TTATAGAAATACAAACCGGAAATTTTGAGCTATTCCTCGTCGACTTTATCTTTTCCCTTTTTAGT
7580503 TAAGGATTTCGGT
261 TAAGGATTTCGGT
7580516 ATCAATATCCAATACTGATTTTTCATATAATCACATAATTACACATATATTCATTTCAATTCAAA
1 ATCAATATCCAATACTGATTTTTCATATAATCACATAATTACACATATATTCATTTCAATTCAAA
7580581 AATCAATCCCTTTAATATATATATCTACTAATTCAATTCATTCAATCAATTATCAAAATATCAAT
66 AATCAATCCCTTTAATATATATATCTACTAATTCAATTCATTCAATCAATTATCAAAATATCAAT
7580646 TACTCACCGCAACACTTACCATATATATTAAATAAAAATTACAACAATTAATAACTAGCTTCGGA
131 TACTCACCGCAACACTTACCATATATATTAAATAAAAATTACAACAATTAATAACTAGCTTCGGA
7580711 TTATAGAAATACAAACCGGAAATTTTGAGCTATTCCTCGTCGACTTTATCTTTTCCCTTTTTAGT
196 TTATAGAAATACAAACCGGAAATTTTGAGCTATTCCTCGTCGACTTTATCTTTTCCCTTTTTAGT
7580776 TAAGGATTTCGGT
261 TAAGGATTTCGGT
7580789 AT
1 AT
7580791 AACGTTAGCT
Statistics
Matches: 275, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
273 275 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (273 bp):
ATCAATATCCAATACTGATTTTTCATATAATCACATAATTACACATATATTCATTTCAATTCAAA
AATCAATCCCTTTAATATATATATCTACTAATTCAATTCATTCAATCAATTATCAAAATATCAAT
TACTCACCGCAACACTTACCATATATATTAAATAAAAATTACAACAATTAATAACTAGCTTCGGA
TTATAGAAATACAAACCGGAAATTTTGAGCTATTCCTCGTCGACTTTATCTTTTCCCTTTTTAGT
TAAGGATTTCGGT
Done.