Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold444
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: 237768
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 4151 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1439 original size:31 final size:32
Alignment explanation
Indices: 1387--1461 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 32
1377 TAACCCATAT
* *
1387 ATAACCCCTAAATCCCCTTTAACCCTTAAAGC
1 ATAACCCCTAAATCCCCTTTAACCCCTAAACC
* *
1419 ATAAACCCTAAA-CTCCTTTAACCCCTAAACC
1 ATAACCCCTAAATCCCCTTTAACCCCTAAACC
1450 ATAACCCCTAAA
1 ATAACCCCTAAA
1462 AAAATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
31 27 0.71
32 11 0.29
ACGTcount: A:0.39, C:0.37, G:0.01, T:0.23
Consensus pattern (32 bp):
ATAACCCCTAAATCCCCTTTAACCCCTAAACC
Found at i:1770 original size:15 final size:15
Alignment explanation
Indices: 1750--1782 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1740 ATCGTTGAAA
1750 CCCTAA-ACCTCAAAT
1 CCCTAACACCT-AAAT
1765 CCCTAACACCTAAAT
1 CCCTAACACCTAAAT
1780 CCC
1 CCC
1783 CCTAACCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAACACCTAAAT
Found at i:2470 original size:112 final size:111
Alignment explanation
Indices: 2060--2632 Score: 542
Period size: 114 Copynumber: 5.0 Consensus size: 111
2050 TAAATTATTT
* *
2060 TAAATCCCTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAAC
1 TAAATCCCT-AGCATTAGCGGCGCTTT-TTAAAAACGCCGCTAAATCCCCGAAAGCTCAG-AAAC
*** * ** *
2125 GACATCGTTGGGCTTAGTTTTTTTTTTGCGGCGCTACACCTAAAACGCCGC
63 GGTGTCGTTGGGCTTAG--GTTTTTTTGCGGCGCTATTCCAAAAACGCCGC
* ** * * *
2176 TAAATCCCTGAGCATTAGCGACGCATCCTTAAAAATGCCGCTAAATCCCCGAAAAGCTAAGAAAT
1 TAAATCCCT-AGCATTAGCGGCGC-TTTTTAAAAACGCCGCTAAATCCCCG-AAAGCTCAGAAAC
* * * * ** *
2241 GGTGTCATTGGGCTTAGGTTTTCTTGCGGAGCTCTTTTAAAAACGTCGC
63 GGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTATTCCAAAAACGCCGC
* * * * * *
2290 TAAAGCGCTGAGCATTAGCGGCGCTTTTAAAAAAATGCCGCTAAATCCCTGAAAGCACAGACAAC
1 TAAATCCCT-AGCATTAGCGGCGCTTTT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGA-AAC
* *
2355 GGTGTCGTCGGGCTTAGTTTTTTTTGCGGCGCTATTCCAAAAACGCCGC
63 GGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTATTCCAAAAACGCCGC
* *
2404 TAAATCCCT-GCATTAGCGGCGCTTCTTTAGAAACACCGCTAAATCCCCGAAAAGCTCAGAAACG
1 TAAATCCCTAGCATTAGCGGCGCTT-TTTAAAAACGCCGCTAAATCCCCG-AAAGCTCAGAAACG
* * * * * * *
2468 GTGGCGTTGTGCTTAGGTTTTCTTGCGGCGATTTTTCAAAAACGCCGT
64 GTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTATTCCAAAAACGCCGC
* ** * *
2516 TAAAGCCCTAAGCATTAGCGGCGCGTAATTAAAAACGCCACT-AATCACTCGAAAGCTCAGAAAA
1 TAAATCCCT-AGCATTAGCGGCGC-TTTTTAAAAACGCCGCTAAATC-CCCGAAAGCTCAG-AAA
* *
2580 CGGCGTCGTTGGGATTAGG-TTTTTTGCGGCGCT-TTCTCAAAAACGCCGC
62 CGGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTATTC-CAAAAACGCCGC
2629 TAAA
1 TAAA
2633 GCCTGTTTTG
Statistics
Matches: 372, Mismatches: 73, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
112 85 0.23
113 61 0.16
114 157 0.42
115 1 0.00
116 60 0.16
117 8 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (111 bp):
TAAATCCCTAGCATTAGCGGCGCTTTTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAACGGT
GTCGTTGGGCTTAGGTTTTTTTGCGGCGCTATTCCAAAAACGCCGC
Found at i:2532 original size:226 final size:227
Alignment explanation
Indices: 2059--2632 Score: 694
Period size: 226 Copynumber: 2.5 Consensus size: 227
2049 TTAAATTATT
* *** *
2059 TTAAATCCCTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAA
1 TTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAA
* * ** *
2124 CGACATCGTTGGGCTTAGTTTTTTTTTTGCGGCGCTACACCTAAAACGCCGCTAAATCCCTGAGC
66 CGGCGTCGTTGGGCTTAG--TTTTTTTTGCGGCGCTATTCCAAAAACGCCGCTAAATCCCT-AGC
** * *
2189 ATTAGCGACGCATCCTTAAAAATGCCGCTAAATCCCCGAAAAGCTAAGAAATGGTGTCATTGGGC
128 ATTAGCGACGCATCCTTAAAAACACCGCTAAATCCCCGAAAAGCTAAGAAACGGTGGCATTGGGC
* *
2254 TTAGGTTTTCTTGCGGAGCTCTTTTAAAAACGTCG
193 TTAGGTTTTCTTGCGGAGATCTTTTAAAAACGCCG
* * * *
2289 CTAAAGCGCTGAGCATTAGCGGCGCTTTTAAAAAAATGCCGCTAAATCCCTGAAAGCACAGACAA
1 TTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAA
* *
2354 CGGTGTCGTCGGGCTTAGTTTTTTTTGCGGCGCTATTCCAAAAACGCCGCTAAATCCCT-GCATT
66 CGGCGTCGTTGGGCTTAGTTTTTTTTGCGGCGCTATTCCAAAAACGCCGCTAAATCCCTAGCATT
* * * * * * *
2418 AGCGGCGCTTCTTTAGAAACACCGCTAAATCCCCGAAAAGCTCAGAAACGGTGGCGTTGTGCTTA
131 AGCGACGCATCCTTAAAAACACCGCTAAATCCCCGAAAAGCTAAGAAACGGTGGCATTGGGCTTA
*
2483 GGTTTTCTTGCGGCGAT-TTTTCAAAAACGCCG
196 GGTTTTCTTGCGGAGATCTTTT-AAAAACGCCG
* * * * *
2515 TTAAAGCCCTAAGCATTAGCGGCGC--GTAATTAAAAACGCCACT-AATCACTCGAAAGCTCAGA
1 TTAAAGCCCTGAGCATTAGCGGCGCTTTTAA--AAAAACGCCGCTAAATCCCT-GAAAGCACAGA
* *
2577 AAACGGCGTCGTTGGGATTAG-GTTTTTTGCGGCGCT-TTCTCAAAAACGCCGCTAAA
63 AAACGGCGTCGTTGGGCTTAGTTTTTTTTGCGGCGCTATTC-CAAAAACGCCGCTAAA
2633 GCCTGTTTTG
Statistics
Matches: 296, Mismatches: 43, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
224 6 0.02
225 40 0.14
226 142 0.48
228 38 0.13
230 70 0.24
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (227 bp):
TTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAAACGCCGCTAAATCCCTGAAAGCACAGAAAA
CGGCGTCGTTGGGCTTAGTTTTTTTTGCGGCGCTATTCCAAAAACGCCGCTAAATCCCTAGCATT
AGCGACGCATCCTTAAAAACACCGCTAAATCCCCGAAAAGCTAAGAAACGGTGGCATTGGGCTTA
GGTTTTCTTGCGGAGATCTTTTAAAAACGCCG
Found at i:8746 original size:19 final size:19
Alignment explanation
Indices: 8718--8811 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
8708 AATCTTCGAG
8718 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
8737 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8756 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8775 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
8796 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
8812 AGATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8798 original size:40 final size:38
Alignment explanation
Indices: 8718--8811 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 38
8708 AATCTTCGAG
8718 GATATGCAATCTTAGATATGATATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATAT
8756 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATA--CAATCTTAGATAT
*
8796 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
8812 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
38 25 0.47
40 28 0.53
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATACAATCTTAGATAT
Found at i:8830 original size:23 final size:22
Alignment explanation
Indices: 8769--8844 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
8759 ATGCAATCTT
* *
8769 AGATATGATATATGCAATCTT--
1 AGATATGAT-TTTGTAATCTTAG
*
8790 AGATATGA-TATGTAATCTTAG
1 AGATATGATTTTGTAATCTTAG
8811 AAGATATGATTTTGTAATCTTAG
1 -AGATATGATTTTGTAATCTTAG
*
8834 AGATATAATTT
1 AGATATGATTT
8845 GTAGATACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
19 10 0.21
21 8 0.17
22 18 0.38
23 12 0.25
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (22 bp):
AGATATGATTTTGTAATCTTAG
Found at i:8844 original size:22 final size:23
Alignment explanation
Indices: 8800--8844 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8790 AGATATGATA
*
8800 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
8823 TGTAATCTTAG-AGATATAATTT
1 TGTAATCTTAGAAGATATAATTT
8845 GTAGATACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:13654 original size:11 final size:11
Alignment explanation
Indices: 13632--13667 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
13622 AACTAATCCT
13632 CTCTCAAATTTC
1 CTCTC-AATTTC
13644 CTCTCAATTTC
1 CTCTCAATTTC
13655 CTCTCAATTTC
1 CTCTCAATTTC
13666 CT
1 CT
13668 TCCAAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:13770 original size:10 final size:10
Alignment explanation
Indices: 13740--13778 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
13730 CATAACTCCC
13740 TTTTTTTAAA
1 TTTTTTTAAA
**
13750 TAATTTT-AA
1 TTTTTTTAAA
13759 TTTTTTTAAA
1 TTTTTTTAAA
13769 TTTTTTTAAA
1 TTTTTTTAAA
13779 CTGTAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:15996 original size:25 final size:25
Alignment explanation
Indices: 15968--16204 Score: 164
Period size: 25 Copynumber: 9.8 Consensus size: 25
15958 TATTTTGATA
15968 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
15993 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
16018 TTATATGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
16043 TT-TATTGATGTAATAAAAATTTAAAT
1 TTAT-TTGATGTAAT-AAAATAGAAGT
* ** *
16069 TTTTTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
*
16088 ATTATTTGGATGTAAT-AAATAGAAAT
1 -TTATTT-GATGTAATAAAATAGAAGT
*
16114 TTATTTGATGTAATAAAAATTTGAA-T
1 TTATTTGATGTAAT-AAAA-TAGAAGT
** *
16140 ATT-TTTGA-GT--T-ATTTTG-A-T
1 -TTATTTGATGTAATAAAATAGAAGT
*
16159 ATTACTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
16185 TTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATA
16205 NNNNNNNNNN
Statistics
Matches: 171, Mismatches: 20, Indels: 42
0.73 0.09 0.18
Matches are distributed among these distances:
19 6 0.04
20 13 0.08
21 8 0.05
22 2 0.01
23 3 0.02
24 16 0.09
25 91 0.53
26 25 0.15
27 7 0.04
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:16124 original size:71 final size:71
Alignment explanation
Indices: 16023--16202 Score: 292
Period size: 71 Copynumber: 2.5 Consensus size: 71
16013 GAAGTTTATA
*
16023 TGATGTAATAAAATAGAAGTTT-TATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTGA
1 TGATGTAATAAAATAGAAGTTTAT-TTGATGTAATAAAAATTTAAATATTTTTGAGTTATTTTGA
*
16087 TATTATT
65 TATTACT
* *
16094 TGGATGTAAT-AAATAGAAATTTATTTGATGTAATAAAAATTTGAATATTTTTGAGTTATTTTGA
1 T-GATGTAATAAAATAGAAGTTTATTTGATGTAATAAAAATTTAAATATTTTTGAGTTATTTTGA
16158 TATTACT
65 TATTACT
16165 TGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAA
1 TGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAA
16203 TANNNNNNNN
Statistics
Matches: 101, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
70 8 0.08
71 84 0.83
72 9 0.09
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.46
Consensus pattern (71 bp):
TGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAAATTTAAATATTTTTGAGTTATTTTGAT
ATTACT
Found at i:16436 original size:23 final size:23
Alignment explanation
Indices: 16396--16567 Score: 283
Period size: 23 Copynumber: 7.5 Consensus size: 23
16386 NTTTAAATTA
* *
16396 AAAACTCTAA-CTATTTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
16418 AAAACCCTAACCTAATTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
* *
16441 AAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAGTTG
*
16464 AAAACCCTAACCTATTTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
16487 AAAACCCTAACCTAATTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
16510 AAAACCCTAACCTAATTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
*
16533 AAAACTCTAACCTAATTAAGTTG
1 AAAACCCTAACCTAATTAAGTTG
16556 AAAACCCTAACC
1 AAAACCCTAACC
16568 CTAAACTTAA
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
22 9 0.06
23 130 0.94
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (23 bp):
AAAACCCTAACCTAATTAAGTTG
Found at i:16496 original size:69 final size:69
Alignment explanation
Indices: 16388--16567 Score: 317
Period size: 69 Copynumber: 2.6 Consensus size: 69
16378 NNNNNNNNNT
16388 TTAAATTAAAAACTCTAA-CTATTTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAAC
1 TTAAATTAAAAACTCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAAC
16452 CTAA
66 CTAA
*
16456 TTAAATTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAAC
1 TTAAATTAAAAACTCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAAC
16521 CTAA
66 CTAA
* * *
16525 TTAAGTTGAAAACTCTAACCTAATTAAGTTGAAAACCCTAACC
1 TTAAATTAAAAACTCTAACCTATTTAAGTTGAAAACCCTAACC
16568 CTAAACTTAA
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
68 17 0.16
69 89 0.84
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (69 bp):
TTAAATTAAAAACTCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAAC
CTAA
Found at i:21026 original size:16 final size:15
Alignment explanation
Indices: 20996--21031 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
20986 GAAATAATAT
*
20996 AAAAGAAAAAAATTA
1 AAAATAAAAAAATTA
21011 AAAATAAAACAAATTA
1 AAAATAAAA-AAATTA
21027 AAAAT
1 AAAAT
21032 TACTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAATAAAAAAATTA
Found at i:27646 original size:2 final size:2
Alignment explanation
Indices: 27639--27669 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27629 TTGTTCCTTT
27639 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27670 TACGAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:30059 original size:23 final size:25
Alignment explanation
Indices: 30033--30080 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
30023 AAGGAAAGGT
*
30033 AGATGAGAA-AGGAAACAA-TAGAG
1 AGATGAGAAGAGAAAACAATTAGAG
30056 AGATGAGAAGAGAAAACAATTAGAG
1 AGATGAGAAGAGAAAACAATTAGAG
30081 TATAACCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 8 0.36
25 5 0.23
ACGTcount: A:0.56, C:0.04, G:0.29, T:0.10
Consensus pattern (25 bp):
AGATGAGAAGAGAAAACAATTAGAG
Found at i:32725 original size:16 final size:17
Alignment explanation
Indices: 32696--32727 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32686 TGAATTGATG
32696 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
32713 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
32728 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:41483 original size:35 final size:35
Alignment explanation
Indices: 41444--41514 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
41434 GCATTGAGTA
*
41444 AGACTAAATTTGTCTCCTTTAGCGACAAGAGTGTC
1 AGACTAAATTTGTCTCCTTTAGAGACAAGAGTGTC
41479 AGACTAAATTTGTCTCCTTTAGAGACAAGAGTGTC
1 AGACTAAATTTGTCTCCTTTAGAGACAAGAGTGTC
41514 A
1 A
41515 CCTGGTCTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (35 bp):
AGACTAAATTTGTCTCCTTTAGAGACAAGAGTGTC
Found at i:45314 original size:2 final size:2
Alignment explanation
Indices: 45307--45342 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
45297 GATAATTGTG
*
45307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45343 CTTTTCCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:47717 original size:27 final size:27
Alignment explanation
Indices: 47687--47743 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
47677 ATACAATTGT
* *
47687 TTTATATAACCAAATCAATACTAAAAA
1 TTTATATAACAAAATCAATACCAAAAA
47714 TTTATATAACAAAATCAATACCAAAAA
1 TTTATATAACAAAATCAATACCAAAAA
47741 TTT
1 TTT
47744 TCATACTTTG
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:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (27 bp):
TTTATATAACAAAATCAATACCAAAAA
Found at i:60052 original size:21 final size:20
Alignment explanation
Indices: 60013--60052 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
60003 GGAGAAAGTG
* *
60013 GGAAGAAGTAAAAGTTTTGA
1 GGAAAAAGTAAAAGGTTTGA
60033 GGAAAAAGTAAAAAGGTTTG
1 GGAAAAAGT-AAAAGGTTTG
60053 GGAGTTTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (20 bp):
GGAAAAAGTAAAAGGTTTGA
Found at i:64131 original size:16 final size:16
Alignment explanation
Indices: 64112--64142 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64102 TGATTTTGGA
64112 TATATATAAATATAAT
1 TATATATAAATATAAT
*
64128 TATATGTAAATATAA
1 TATATATAAATATAA
64143 AATTTAAAAT
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:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TATATATAAATATAAT
Found at i:67474 original size:127 final size:127
Alignment explanation
Indices: 67248--67496 Score: 345
Period size: 127 Copynumber: 2.0 Consensus size: 127
67238 TGACCTAGTA
* * * * *
67248 AACCCCTTTTTGATAGAGTCATCAATGTTTCATCAAACATAAAATCTCTACTAATGATGATCTTA
1 AACCCCTTTTTGACAAAATCATCAATGTTTCATCAAACATAAAATCTCTACCAACGATGATCTTA
* * *
67313 CTCATTTCTAGGCACCATAACTTATAGTCTTTTATCTAAATAGCAAAAACCAGAAAAATACG
66 CTCATTTCTAGGCACCATAACTTATAGCCGTTTATCCAAATAGCAAAAACCAGAAAAATACG
* ** * *
67375 AACCCCTTTTTGACAAAATCATCGATGTTTCATCAAATGTAACATCTCTACCGACGATGATCTTA
1 AACCCCTTTTTGACAAAATCATCAATGTTTCATCAAACATAAAATCTCTACCAACGATGATCTTA
* * * *
67440 CTCGTTTCTAGGCACCATAACTTATAGCCGTTTATCCCAGTAGCAAAACCCAGAAAA
66 CTCATTTCTAGGCACCATAACTTATAGCCGTTTATCCAAATAGCAAAAACCAGAAAA
67497 TACACTTCAT
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
127 105 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (127 bp):
AACCCCTTTTTGACAAAATCATCAATGTTTCATCAAACATAAAATCTCTACCAACGATGATCTTA
CTCATTTCTAGGCACCATAACTTATAGCCGTTTATCCAAATAGCAAAAACCAGAAAAATACG
Found at i:70151 original size:25 final size:25
Alignment explanation
Indices: 70118--70165 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
70108 TCATCCTTAT
*
70118 TTTTCCCTTAGCAAAATTTTGACAA
1 TTTTACCTTAGCAAAATTTTGACAA
* *
70143 TTTTACCTTGGTAAAATTTTGAC
1 TTTTACCTTAGCAAAATTTTGAC
70166 TTGCCCATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (25 bp):
TTTTACCTTAGCAAAATTTTGACAA
Found at i:73328 original size:22 final size:22
Alignment explanation
Indices: 73298--73339 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
73288 TCTATATTTC
*
73298 TATATTTTTTA-ATTTCTTTTTT
1 TATAATTTTTAGATTT-TTTTTT
73320 TATAATTTTTAGATTTTTTT
1 TATAATTTTTAGATTTTTTT
73340 AAATTTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TATAATTTTTAGATTTTTTTTT
Found at i:74015 original size:18 final size:17
Alignment explanation
Indices: 73964--74015 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
73954 TAGAAAAAAA
73964 TTATAAAAATAATAAATT
1 TTATAAAAAT-ATAAATT
* *
73982 TTAGAAAATTATTAAATT
1 TTATAAAAATA-TAAATT
74000 TTAATAAAAATATAAA
1 TT-ATAAAAATATAAA
74016 AAATTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.71
19 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TTATAAAAATATAAATT
Found at i:75049 original size:24 final size:24
Alignment explanation
Indices: 75034--75085 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
75024 AATCAAAGTC
75034 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
75058 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
75082 AAAT
1 AAAT
75086 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:75364 original size:18 final size:18
Alignment explanation
Indices: 75341--75376 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
75331 TCACAAAGAG
*
75341 CAGTAATCGCCATGTACT
1 CAGTAATCACCATGTACT
75359 CAGTAATCACCATGTACT
1 CAGTAATCACCATGTACT
75377 AGCTTCAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (18 bp):
CAGTAATCACCATGTACT
Found at i:79246 original size:24 final size:24
Alignment explanation
Indices: 79231--79282 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
79221 AATCAAAGTC
79231 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
79255 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
79279 AAAT
1 AAAT
79283 CATCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:83393 original size:23 final size:23
Alignment explanation
Indices: 83329--83417 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
83319 TTTAATTTTC
*
83329 ACGAACATGTTCAATTAAC-TTAA
1 ACGAACATGTTC-ATGAACATTAA
* **
83352 TCGAACATGTTCACAAACATTAA
1 ACGAACATGTTCATGAACATTAA
*
83375 ACGAACATGTTCATGAACATATAT
1 ACGAACATGTTCATGAACAT-TAA
** *
83399 TTGAATATGTTCATGAACA
1 ACGAACATGTTCATGAACA
83418 ATGTTAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
22 4 0.07
23 32 0.59
24 18 0.33
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (23 bp):
ACGAACATGTTCATGAACATTAA
Found at i:85720 original size:21 final size:21
Alignment explanation
Indices: 85696--85744 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
85686 ATGTTCCTAG
85696 GTCACACTGGCGTATGTCATA
1 GTCACACTGGCGTATGTCATA
85717 GTCACACTGGCGTATGTCATA
1 GTCACACTGGCGTATGTCATA
85738 GTCACAC
1 GTCACAC
85745 AGCCGTGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (21 bp):
GTCACACTGGCGTATGTCATA
Found at i:86124 original size:24 final size:25
Alignment explanation
Indices: 86080--86127 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
86070 ATTATATATT
* *
86080 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTAAATTTTAATC
86105 AAATATA-ATTTTTAAATTTTAAT
1 AAATATATATTTTTAAATTTTAAT
86128 ATACTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
AAATATATATTTTTAAATTTTAATC
Found at i:89647 original size:16 final size:17
Alignment explanation
Indices: 89618--89653 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
89608 TTATTTTATG
89618 TTTTCTATTATTATTTT
1 TTTTCTATTATTATTTT
89635 TTTTCTATT-TTATTTT
1 TTTTCTATTATTATTTT
89651 TTT
1 TTT
89654 ACATACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTATTATTATTTT
Found at i:89652 original size:14 final size:14
Alignment explanation
Indices: 89609--89652 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
89599 TAGATTTTAT
*
89609 TATTTTATGTTTTC
1 TATTTTATTTTTTC
89623 TATTATTATTTTTTTTC
1 TATT-TTA--TTTTTTC
89640 TATTTTATTTTTT
1 TATTTTATTTTTT
89653 TACATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 10 0.38
15 3 0.12
16 3 0.12
17 10 0.38
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (14 bp):
TATTTTATTTTTTC
Found at i:89689 original size:17 final size:16
Alignment explanation
Indices: 89603--89686 Score: 66
Period size: 17 Copynumber: 5.1 Consensus size: 16
89593 TATACATAGA
89603 TTTTATTATTTTATGTT
1 TTTTATTATTTTAT-TT
*
89620 TTCTATTA--TTATTT
1 TTTTATTATTTTATTT
89634 TTTT-TCTATTTTATTT
1 TTTTAT-TATTTTATTT
* *
89650 TTTTACATACTATTATTAT
1 TTTTA-TTA-TTTTATT-T
*
89669 TATTATTATTTTATTT
1 TTTTATTATTTTATTT
89685 TT
1 TT
89687 ATTTATTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
13 1 0.02
14 7 0.13
15 4 0.08
16 12 0.23
17 15 0.29
18 8 0.15
19 5 0.10
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTATTATTTTATTT
Found at i:90100 original size:107 final size:107
Alignment explanation
Indices: 89925--90228 Score: 520
Period size: 107 Copynumber: 2.9 Consensus size: 107
89915 ATTTTTTTTC
* *
89925 AAGGCAATGTTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
1 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
89990 CGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTTAAAAT
66 CGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTTAAAAT
*
90032 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGCTTCGATTTTCT
1 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
*
90097 CGTTCGACAAAATAGCCAAATATCCTTTTAAAATTTTAAAAT
66 CGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTTAAAAT
*
90139 AAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTCT
1 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
* * * *
90203 TGTTGGACCGAATAGCTAAATATCCT
66 CGTTCGACCAAATAGCCAAATATCCT
90229 CTTACATCTT
Statistics
Matches: 186, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
106 26 0.14
107 160 0.86
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (107 bp):
AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
CGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTTAAAAT
Found at i:91173 original size:16 final size:16
Alignment explanation
Indices: 91152--91186 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
91142 TGTTGTTTTG
*
91152 TTTTGACTGCATGGCA
1 TTTTGACTACATGGCA
91168 TTTTGACTACATGGCA
1 TTTTGACTACATGGCA
91184 TTT
1 TTT
91187 CATTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGACTACATGGCA
Found at i:96262 original size:7 final size:8
Alignment explanation
Indices: 96246--96299 Score: 74
Period size: 8 Copynumber: 6.6 Consensus size: 8
96236 AAAAAAAAGG
96246 AAGAAAAA
1 AAGAAAAA
96254 AAGAAAAA
1 AAGAAAAA
96262 AAG-AAAA
1 AAGAAAAA
96269 AAGAAAAA
1 AAGAAAAA
96277 AAGAAAGAA
1 AAGAAA-AA
*
96286 TAAGAAGAA
1 -AAGAAAAA
96295 AAGAA
1 AAGAA
96300 CAAGAAAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 7 0.17
8 26 0.62
9 4 0.10
10 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
AAGAAAAA
Found at i:96262 original size:19 final size:18
Alignment explanation
Indices: 96237--96296 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
96227 AAAATTGTTA
*
96237 AAAAAAAGGAAGAAAAAAAG
1 AAAAAAA-GAA-AAAAGAAG
*
96257 AAAAAAAGAAAAAAGAAA
1 AAAAAAAGAAAAAAGAAG
*
96275 AAAAGAAAG-AATAAGAAG
1 AAAA-AAAGAAAAAAGAAG
96293 AAAA
1 AAAA
96297 GAACAAGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 21 0.60
19 7 0.20
20 7 0.20
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAAAAGAAG
Found at i:96262 original size:23 final size:23
Alignment explanation
Indices: 96246--96299 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 23
96236 AAAAAAAAGG
96246 AAGAAAAAAAGAAAAAAAGAAAA
1 AAGAAAAAAAGAAAAAAAGAAAA
96269 AAGAAAAAAAGAAAGAATAAGAAGAA
1 AAGAAAAAAAGAAA-AA-AAGAA-AA
96295 AAGAA
1 AAGAA
96300 CAAGAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 14 0.50
24 2 0.07
25 5 0.18
26 7 0.25
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (23 bp):
AAGAAAAAAAGAAAAAAAGAAAA
Found at i:96268 original size:15 final size:15
Alignment explanation
Indices: 96250--96282 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
96240 AAAAGGAAGA
96250 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
96265 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
96280 AAA
1 AAA
96283 GAATAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:96276 original size:33 final size:32
Alignment explanation
Indices: 96246--96307 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
96236 AAAAAAAAGG
96246 AAGAAA-AA-AAGAAAAAAAGAAAAAAGAAAAA
1 AAGAAAGAATAAGAAAAAAAG-AAAAAGAAAAA
* *
96277 AAGAAAGAATAAGAAGAAAAGAACAAGAAAA
1 AAGAAAGAATAAGAAAAAAAGAAAAAGAAAA
96308 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 11 0.41
33 10 0.37
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (32 bp):
AAGAAAGAATAAGAAAAAAAGAAAAAGAAAAA
Found at i:97642 original size:44 final size:43
Alignment explanation
Indices: 97593--97839 Score: 246
Period size: 44 Copynumber: 5.6 Consensus size: 43
97583 GCAGATCATT
** *
97593 CCTTCCTGTACTGGTAGTGAAGCAGATCAAAGACACCAACCTTG
1 CCTTCCTGTACTGACAG-GAAGCAGATCGAAGACACCAACCTTG
* * * *
97637 CCTTCCTGTACTGACAGCGGAGCAGA-CTGAAGATAGCAGATCTTG
1 CCTTCCTGTACTGACAG-GAAGCAGATC-GAAGACACCA-ACCTTG
* * *
97682 CCTTCCTGTACTAACAGCAAGCAGATCGAAGACACCAGCCTTG
1 CCTTCCTGTACTGACAGGAAGCAGATCGAAGACACCAACCTTG
* * * *
97725 CCTTCCTGTACTGACAGCGGAGCAGA-CTGAAGATAGCAGATCTTG
1 CCTTCCTGTACTGACAG-GAAGCAGATC-GAAGACACCA-ACCTTG
* * *
97770 CCTTCCTGTACTAACAGCAAGCAGATCGAAGACACCAGCCTTG
1 CCTTCCTGTACTGACAGGAAGCAGATCGAAGACACCAACCTTG
*
97813 CCTTCCTGTACTGACAGTGAATCAGAT
1 CCTTCCTGTACTGACAG-GAAGCAGAT
97840 TTAAGCCACC
Statistics
Matches: 163, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
43 42 0.26
44 78 0.48
45 43 0.26
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (43 bp):
CCTTCCTGTACTGACAGGAAGCAGATCGAAGACACCAACCTTG
Found at i:97728 original size:88 final size:88
Alignment explanation
Indices: 97575--97829 Score: 431
Period size: 88 Copynumber: 2.9 Consensus size: 88
97565 AACAGATCGG
*** * * *
97575 TGAAGATAGCAGATCATT-CCTTCCTGTACTGGTAGTGAAGCAGATCAAAGACACCAACCTTGCC
1 TGAAGATAGCAGATC-TTGCCTTCCTGTACTAACAG-CAAGCAGATCGAAGACACCAGCCTTGCC
97639 TTCCTGTACTGACAGCGGAGCAGAC
64 TTCCTGTACTGACAGCGGAGCAGAC
97664 TGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGCAAGCAGATCGAAGACACCAGCCTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGCAAGCAGATCGAAGACACCAGCCTTGCCTT
97729 CCTGTACTGACAGCGGAGCAGAC
66 CCTGTACTGACAGCGGAGCAGAC
97752 TGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGCAAGCAGATCGAAGACACCAGCCTTGCCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGCAAGCAGATCGAAGACACCAGCCTTGCCTT
97817 CCTGTACTGACAG
66 CCTGTACTGACAG
97830 TGAATCAGAT
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
88 130 0.82
89 29 0.18
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTAACAGCAAGCAGATCGAAGACACCAGCCTTGCCTT
CCTGTACTGACAGCGGAGCAGAC
Found at i:98371 original size:132 final size:132
Alignment explanation
Indices: 97835--98355 Score: 781
Period size: 132 Copynumber: 3.9 Consensus size: 132
97825 GACAGTGAAT
** * *
97835 CAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTCT
1 CAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
* * * * *
97900 GTCCCCCTAAACAGTAGTGGAGCAGATAAAAAACGGTGAATCTTATCTTCCCAAGATAGTGGAGA
66 GTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGA
97965 AG
131 AG
* * * *
97967 CAGATTTAAGCCATTAGTCCTATATCCCTAAGTAGTAGTGGAGTAGGTTGAAGACTGTAGATTCT
1 CAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
* * *
98032 GTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGAATCTTATCTTCTCAAGATAGTGGAAA
66 GTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGA
98097 AG
131 AG
*
98099 CATATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
1 CAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
* *
98164 GTCACCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGA
66 GTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGA
98229 AG
131 AG
* * * *
98231 CAGATTTAAGCCGTTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCC
1 CAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
* ** * * *
98296 GTCTCCCTAAGCAGTAGTGGAATAGATCATAGATGGTGAATCTTATCTTCTCAAGGTAGT
66 GTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGT
98356 AGGGAAGTAA
Statistics
Matches: 352, Mismatches: 37, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 352 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
CAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCT
GTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGA
AG
Found at i:100125 original size:8 final size:8
Alignment explanation
Indices: 100112--100184 Score: 69
Period size: 8 Copynumber: 8.6 Consensus size: 8
100102 ATATACATGG
100112 ATTTTATT
1 ATTTTATT
100120 ATTTTATGT
1 ATTTTAT-T
*
100129 TTTCTATGATT
1 ATT-T-T-ATT
100140 ATTTT-TT
1 ATTTTATT
100147 ATTTTATT
1 ATTTTATT
100155 -TTTTATAT
1 ATTTTAT-T
100163 ATTATTATT
1 ATT-TTATT
100172 ATTTTATT
1 ATTTTATT
100180 ATTTT
1 ATTTT
100185 TATTTATTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
7 13 0.24
8 20 0.36
9 10 0.18
10 6 0.11
11 4 0.07
12 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:100178 original size:11 final size:11
Alignment explanation
Indices: 100137--100182 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
100127 GTTTTCTATG
100137 ATTATT-TTTT
1 ATTATTATTTT
100147 ATT-TTATTTT
1 ATTATTATTTT
*
100157 -TTA-TATATT
1 ATTATTATTTT
100166 ATTATTATTTT
1 ATTATTATTTT
100177 ATTATT
1 ATTATT
100183 TTTATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 9 0.30
10 10 0.33
11 11 0.37
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:100184 original size:27 final size:25
Alignment explanation
Indices: 100112--100201 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 25
100102 ATATACATGG
*
100112 ATTTTATTATTTTATGTTTTCTATGATT
1 ATTTTATTATTTTAT-TTTTTTAT-A-T
100140 ATTTT-TTATTTTA-TTTTTTATAT
1 ATTTTATTATTTTATTTTTTTATAT
*
100163 ATTATTATTATTTTATTATTTTTATTT
1 ATT-TTATTATTTTATT-TTTTTATAT
*
100190 ATTCTCATTATT
1 ATT-TTATTATT
100202 GTTGTTGTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
23 4 0.07
24 3 0.06
25 15 0.28
26 1 0.02
27 26 0.48
28 5 0.09
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.71
Consensus pattern (25 bp):
ATTTTATTATTTTATTTTTTTATAT
Found at i:100583 original size:107 final size:107
Alignment explanation
Indices: 100421--100724 Score: 520
Period size: 107 Copynumber: 2.9 Consensus size: 107
100411 TTTTTATTTC
** *
100421 AAGGCAATGTTTTGTGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
1 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
*
100486 CGTTCGACTAAATAACCAAATATCCTTTTAAAATTTTAAAAT
66 CGTTCGACCAAATAACCAAATATCCTTTTAAAATTTTAAAAT
100528 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
1 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
*
100593 CGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTTAAAAT
66 CGTTCGACCAAATAACCAAATATCCTTTTAAAATTTTAAAAT
100635 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTCT
1 AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
* * * *
100699 CGTTGGACCGAATAGCTAAATATCCT
66 CGTTCGACCAAATAACCAAATATCCT
100725 CTTACATCTT
Statistics
Matches: 189, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
106 28 0.15
107 161 0.85
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (107 bp):
AAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCT
CGTTCGACCAAATAACCAAATATCCTTTTAAAATTTTAAAAT
Found at i:102179 original size:231 final size:231
Alignment explanation
Indices: 101776--102237 Score: 924
Period size: 231 Copynumber: 2.0 Consensus size: 231
101766 TATTTGAAAA
101776 TGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAAATTGCTCAACTTTACTTTTATTCA
1 TGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAAATTGCTCAACTTTACTTTTATTCA
101841 AAAATACTTTAATTTGTTATATCAAAACATATTATCCAATAAGGCTTAGTTTAACAAAACTCCAG
66 AAAATACTTTAATTTGTTATATCAAAACATATTATCCAATAAGGCTTAGTTTAACAAAACTCCAG
101906 ATCCGGATATCTATATCGAACTAGCAGCAACCACTGTTTTCAGAACATAAGAACATTATTAAGAC
131 ATCCGGATATCTATATCGAACTAGCAGCAACCACTGTTTTCAGAACATAAGAACATTATTAAGAC
101971 TCATTCGTATACAATTTACCATCAATTTGAGCAATG
196 TCATTCGTATACAATTTACCATCAATTTGAGCAATG
102007 TGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAAATTGCTCAACTTTACTTTTATTCA
1 TGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAAATTGCTCAACTTTACTTTTATTCA
102072 AAAATACTTTAATTTGTTATATCAAAACATATTATCCAATAAGGCTTAGTTTAACAAAACTCCAG
66 AAAATACTTTAATTTGTTATATCAAAACATATTATCCAATAAGGCTTAGTTTAACAAAACTCCAG
102137 ATCCGGATATCTATATCGAACTAGCAGCAACCACTGTTTTCAGAACATAAGAACATTATTAAGAC
131 ATCCGGATATCTATATCGAACTAGCAGCAACCACTGTTTTCAGAACATAAGAACATTATTAAGAC
102202 TCATTCGTATACAATTTACCATCAATTTGAGCAATG
196 TCATTCGTATACAATTTACCATCAATTTGAGCAATG
102238 AAAACTCCTA
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 231 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (231 bp):
TGTTTGACTCAATTGAAACCATTTCAACTTGATTTTATCAAATTGCTCAACTTTACTTTTATTCA
AAAATACTTTAATTTGTTATATCAAAACATATTATCCAATAAGGCTTAGTTTAACAAAACTCCAG
ATCCGGATATCTATATCGAACTAGCAGCAACCACTGTTTTCAGAACATAAGAACATTATTAAGAC
TCATTCGTATACAATTTACCATCAATTTGAGCAATG
Found at i:103230 original size:42 final size:44
Alignment explanation
Indices: 103140--103244 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
103130 AAATTGGATA
* * **
103140 TAAATGGACCACACAACTAAATATCTAAAGCATAATTCAAGTTC
1 TAAATGGACCACAAAACTAAATATCTAAAGCATAATACAAGACC
103184 TAAATGGACCACAAAACTAAATATCTAAAGCATAA-ACAA-ACC
1 TAAATGGACCACAAAACTAAATATCTAAAGCATAATACAAGACC
* *
103226 TAAATGGACCTCAAGACTA
1 TAAATGGACCACAAAACTA
103245 GGTCTTTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 18 0.33
43 3 0.05
44 34 0.62
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (44 bp):
TAAATGGACCACAAAACTAAATATCTAAAGCATAATACAAGACC
Found at i:103277 original size:32 final size:32
Alignment explanation
Indices: 103226--103289 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
103216 TAAACAAACC
* * *
103226 TAAATGGACCTCAAGACTAGGTCTTTAAAATA
1 TAAACGGACCTCAAGACTAGGCCTCTAAAATA
103258 TAAACGGACCTCACA-ACTAGGCCTCTAAAATA
1 TAAACGGACCTCA-AGACTAGGCCTCTAAAATA
103290 AAATTGGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (32 bp):
TAAACGGACCTCAAGACTAGGCCTCTAAAATA
Found at i:104253 original size:38 final size:38
Alignment explanation
Indices: 104211--104302 Score: 184
Period size: 38 Copynumber: 2.4 Consensus size: 38
104201 CTATCTCCGT
104211 CCAACCCTACACTCCATGTGGAGATATAATTAACCCAC
1 CCAACCCTACACTCCATGTGGAGATATAATTAACCCAC
104249 CCAACCCTACACTCCATGTGGAGATATAATTAACCCAC
1 CCAACCCTACACTCCATGTGGAGATATAATTAACCCAC
104287 CCAACCCTACACTCCA
1 CCAACCCTACACTCCA
104303 AAGTAGTACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.34, C:0.38, G:0.09, T:0.20
Consensus pattern (38 bp):
CCAACCCTACACTCCATGTGGAGATATAATTAACCCAC
Found at i:107046 original size:49 final size:49
Alignment explanation
Indices: 106974--107083 Score: 193
Period size: 49 Copynumber: 2.2 Consensus size: 49
106964 CAGTATAATG
*
106974 GTTTTTCCTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACGACGTA
1 GTTTTGCCTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACGACGTA
* *
107023 GTTTTGCCTTTTAACTTTAGAAAAGGTAATCATTTATCAAAGCGACGTA
1 GTTTTGCCTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACGACGTA
107072 GTTTTGCCTTTT
1 GTTTTGCCTTTT
107084 CTTATTCGGG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (49 bp):
GTTTTGCCTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACGACGTA
Found at i:117790 original size:3 final size:3
Alignment explanation
Indices: 117782--117817 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
117772 AACAAAAACA
117782 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
117818 GACTAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:117899 original size:4 final size:4
Alignment explanation
Indices: 117869--117910 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
117859 TTTTTAAGTG
*
117869 TAAA TAAA -AAA GT-AA TAAA TGAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
117911 GGCTTGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 29 0.88
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:119500 original size:51 final size:50
Alignment explanation
Indices: 119445--119728 Score: 216
Period size: 51 Copynumber: 5.9 Consensus size: 50
119435 GATAAGATTA
* * **
119445 GTAGCTTCAATTTGCTCCACTGCTACTTCAGGGGGATAAGATTTGTAACTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTT-TAACTT
* * * *
119496 GTAGCTTTAGTCTGTTCTACTAG-AACTTCAGGGAAATAAGA--TT--C--
1 GTAGCTTCAATCTGCTCCACT-GCAACTTCAGGGAAATAAGATTTTAACTT
* * * * *
119540 GCATCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGAATTTTAACTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAG-ATTTTAACTT
* * *
119591 GTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGA--TT--C--
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTTAACTT
* * * *
119635 GCATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTT-TAACTT
* * * * *
119686 ATAGCTTTAATTTGTTCCACTGCAACTTTAGGGAAATAAGATT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
119729 CGCTAGAATG
Statistics
Matches: 176, Mismatches: 41, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
44 64 0.36
45 1 0.01
46 3 0.02
47 3 0.02
48 3 0.02
49 3 0.02
50 1 0.01
51 97 0.55
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (50 bp):
GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTTAACTT
Found at i:119579 original size:95 final size:95
Alignment explanation
Indices: 119409--119731 Score: 436
Period size: 95 Copynumber: 3.4 Consensus size: 95
119399 TTGTCACTTC
* * * * * * * * *
119409 AATCTGCTCTACTGTAATTTTA-GGAAGATAAGATTAGTAGCTTCAATTTGCTCCACTGCTACTT
1 AATCTGTTCCACTGCAACTTTAGGGAA-ATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTT
*
119473 CAGGGGGATAAGATTTGTAACTTGTAGCTTT
65 CAGGGAGATAAGATTTGTAACTTGTAGCTTT
* * * * *
119504 AGTCTGTTCTACTAG-AACTTCAGGGAAATAAGATTCGCATCTTCAATCTACTCCACTACAACTT
1 AATCTGTTCCACT-GCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTT
119568 CAGGGAGATAAGAATTT-TAACTTGTAGCTTT
65 CAGGGAGATAAG-ATTTGTAACTTGTAGCTTT
*
119599 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGTAACTTC
1 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTC
*
119664 AGGGAGATAAGATTTGTAACTTATAGCTTT
66 AGGGAGATAAGATTTGTAACTTGTAGCTTT
*
119694 AATTTGTTCCACTGCAACTTTAGGGAAATAAGATTCGC
1 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGC
119732 TAGAATGACT
Statistics
Matches: 203, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
94 5 0.02
95 189 0.93
96 9 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (95 bp):
AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTC
AGGGAGATAAGATTTGTAACTTGTAGCTTT
Found at i:131473 original size:4 final size:4
Alignment explanation
Indices: 131453--131498 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
131443 TTTTTAAGTG
*
131453 TAAA TAAA -AAA GT-AA TAAA TAAA TAAA TAAA TGAA TAAA TAAA TAA
1 TAAA TAAA TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
131499 GGCTTGTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 4 0.11
4 33 0.89
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:137089 original size:30 final size:31
Alignment explanation
Indices: 137023--137098 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
137013 AGAAACACTC
* *
137023 AATAGTTTAGTGACCGGAATAAAAAATTTTA
1 AATAGTTTAGTGACCGAAATAAAAAATTTCA
** *
137054 AATAGTTTAGTGACTTAAAT-AAAACTTTCA
1 AATAGTTTAGTGACCGAAATAAAAAATTTCA
**
137084 AATAGTCCAGTGACC
1 AATAGTTTAGTGACC
137099 ATTTTGTAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 20 0.54
31 17 0.46
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (31 bp):
AATAGTTTAGTGACCGAAATAAAAAATTTCA
Found at i:137578 original size:14 final size:14
Alignment explanation
Indices: 137559--137586 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
137549 GAAAATTTGG
137559 TGTGACTAGAAAAA
1 TGTGACTAGAAAAA
137573 TGTGACTAGAAAAA
1 TGTGACTAGAAAAA
137587 GGAATAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
TGTGACTAGAAAAA
Found at i:138507 original size:4 final size:4
Alignment explanation
Indices: 138498--138535 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
138488 GCTGACAATG
138498 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
138536 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:138760 original size:2 final size:2
Alignment explanation
Indices: 138742--138779 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
138732 CATTCTTCAT
* *
138742 AG AG AT AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
138780 CATTATATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.47, T:0.05
Consensus pattern (2 bp):
AG
Found at i:141388 original size:12 final size:12
Alignment explanation
Indices: 141371--141405 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
141361 TTCATCTATA
141371 TTATTATTTAAG
1 TTATTATTTAAG
141383 TTATTATTTAAG
1 TTATTATTTAAG
*
141395 TTATTAATTAA
1 TTATTATTTAA
141406 TTTGATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (12 bp):
TTATTATTTAAG
Found at i:144114 original size:6 final size:6
Alignment explanation
Indices: 144100--144139 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
144090 CACTTTCAAT
*
144100 TTCAAG TTCAGG TTCAGG TTCAGG TTCAGG TTCAGG TTCA
1 TTCAGG TTCAGG TTCAGG TTCAGG TTCAGG TTCAGG TTCA
144140 CTGCTAGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (6 bp):
TTCAGG
Found at i:144115 original size:18 final size:18
Alignment explanation
Indices: 144094--144139 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
144084 CATGTTCACT
*
144094 TTCAATTTCAAGTTCAGG
1 TTCAAGTTCAAGTTCAGG
* *
144112 TTCAGGTTCAGGTTCAGG
1 TTCAAGTTCAAGTTCAGG
*
144130 TTCAGGTTCA
1 TTCAAGTTCA
144140 CTGCTAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (18 bp):
TTCAAGTTCAAGTTCAGG
Found at i:149343 original size:16 final size:17
Alignment explanation
Indices: 149311--149347 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
149301 TATATGTACA
*
149311 TATATATTATAAAAATG
1 TATAGATTATAAAAATG
149328 TATAGATTAT-AAAATG
1 TATAGATTATAAAAATG
149344 TATA
1 TATA
149348 CAGACATGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
TATAGATTATAAAAATG
Found at i:154163 original size:3 final size:3
Alignment explanation
Indices: 154157--154197 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
154147 AATAATAATA
154157 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
154198 AATAATAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:154401 original size:23 final size:24
Alignment explanation
Indices: 154349--154394 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
154339 GATAAAAACT
* *
154349 TAAAGAAA-AAAAAGATAAATTAA
1 TAAAAAAACAAAAAGATAAAATAA
154372 TAAAAAAACAAAAA-ATAAAATAA
1 TAAAAAAACAAAAAGATAAAATAA
154395 AATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (24 bp):
TAAAAAAACAAAAAGATAAAATAA
Found at i:155733 original size:22 final size:22
Alignment explanation
Indices: 155701--155744 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
155691 TTTTTTTTAC
*
155701 AAGGAAGCAAATAGAAAAAAGA
1 AAGGAAGCAAATACAAAAAAGA
*
155723 AAGGAATCAAATACAAAAAAGA
1 AAGGAAGCAAATACAAAAAAGA
155745 GAAAACAATA
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:0.68, C:0.07, G:0.18, T:0.07
Consensus pattern (22 bp):
AAGGAAGCAAATACAAAAAAGA
Found at i:161334 original size:15 final size:15
Alignment explanation
Indices: 161314--161355 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
161304 CGGTTATCGT
161314 ATTAATTTTATTTAC
1 ATTAATTTTATTTAC
*
161329 ATTAATTGTTA-TTAT
1 ATTAATT-TTATTTAC
*
161344 ATTAATTATATT
1 ATTAATTTTATT
161356 ACAAATAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 18 0.78
16 3 0.13
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTAATTTTATTTAC
Found at i:172994 original size:25 final size:26
Alignment explanation
Indices: 172960--173067 Score: 123
Period size: 26 Copynumber: 4.2 Consensus size: 26
172950 TTTTCTCACC
172960 ACAATTGTA-CCCGAGTAAAATTTTA
1 ACAATTGTACCCCGAGTAAAATTTTA
*
172985 ACAATTGTACCCC-AGTAAAACTTTA
1 ACAATTGTACCCCGAGTAAAATTTTA
* *
173010 CCAATTATACCCCCGA-TAAAATTTTA
1 ACAATTGTA-CCCCGAGTAAAATTTTA
* * * *
173036 ACGATTTTACCCCTAGTAAAATTTTG
1 ACAATTGTACCCCGAGTAAAATTTTA
173062 ACAATT
1 ACAATT
173068 TTACTCTCGT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
25 32 0.46
26 36 0.52
27 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
ACAATTGTACCCCGAGTAAAATTTTA
Found at i:173030 original size:26 final size:26
Alignment explanation
Indices: 172969--173085 Score: 94
Period size: 26 Copynumber: 4.5 Consensus size: 26
172959 CACAATTGTA
*
172969 CCCGAGTAAAATTTTAACAATTGTACC
1 CCCGA-TAAAATTTTAACAATTATACC
* * *
172996 CCAG-TAAAACTTTACCAATTATACC
1 CCCGATAAAATTTTAACAATTATACC
* *
173021 CCCGATAAAATTTTAACGATTTTA-C
1 CCCGATAAAATTTTAACAATTATACC
* * * *
173046 CCCTAGTAAAATTTTGACAATTTTACT
1 CCCGA-TAAAATTTTAACAATTATACC
* *
173073 CTCGTTAAAATTT
1 CCCGATAAAATTT
173086 CAAGAAAATT
Statistics
Matches: 71, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
25 26 0.37
26 40 0.56
27 5 0.07
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (26 bp):
CCCGATAAAATTTTAACAATTATACC
Found at i:175851 original size:61 final size:61
Alignment explanation
Indices: 175779--175914 Score: 218
Period size: 61 Copynumber: 2.2 Consensus size: 61
175769 TACTTTAATG
** * *
175779 AATTTAATATTAATATGAGATATTAAATTAAATTTAATATTTCTGTAGATAGTATTTTATT
1 AATTTAATATTAATATGAGATATTAAATTAAATTTAATATTGATCTAGATAATATTTTATT
* *
175840 AATTTATTATTAATATGATATATTAAATTAAATTTAATATTGATCTAGATAATATTTTATT
1 AATTTAATATTAATATGAGATATTAAATTAAATTTAATATTGATCTAGATAATATTTTATT
175901 AATTTAATATTAAT
1 AATTTAATATTAAT
175915 GAGATTAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (61 bp):
AATTTAATATTAATATGAGATATTAAATTAAATTTAATATTGATCTAGATAATATTTTATT
Found at i:175908 original size:31 final size:31
Alignment explanation
Indices: 175779--175914 Score: 118
Period size: 31 Copynumber: 4.5 Consensus size: 31
175769 TACTTTAATG
* **
175779 AATTTAATATTAATAT-GA-GATATTAAATT
1 AATTTAATATTAATATAGATAATATTTTATT
** * *
175808 AAATTTAATATTTCTGTAGATAGTATTTTATT
1 -AATTTAATATTAATATAGATAATATTTTATT
* **
175840 AATTTATTATTAATAT-GAT-ATATTAAATT
1 AATTTAATATTAATATAGATAATATTTTATT
* *
175869 AAATTTAATATTGATCTAGATAATATTTTATT
1 -AATTTAATATTAATATAGATAATATTTTATT
175901 AATTTAATATTAAT
1 AATTTAATATTAAT
175915 GAGATTAATT
Statistics
Matches: 81, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
29 7 0.09
30 29 0.36
31 30 0.37
32 15 0.19
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (31 bp):
AATTTAATATTAATATAGATAATATTTTATT
Found at i:177968 original size:24 final size:25
Alignment explanation
Indices: 177916--177974 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
177906 TGGCTCTCAC
* * *
177916 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGA
*
177941 GAGCTTCCCGTTA-ATAGCTCTTTA
1 GAGCTTCCCGTTATATAGCTCTTGA
*
177965 GAGCATCCCG
1 GAGCTTCCCG
177975 ATTGGTTGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGA
Found at i:182828 original size:70 final size:70
Alignment explanation
Indices: 182742--182888 Score: 249
Period size: 70 Copynumber: 2.1 Consensus size: 70
182732 CATTCCAATA
* * * *
182742 ATTCATTCCATTTCATATATAAATCATTCAATTCAACAATTCATATAATATCAATTTTGATTATG
1 ATTCATTCCATATCATATATAAATCATTCAATTCAACAATTCATACAATATCAATTCTGATTATC
182807 AAATT
66 AAATT
182812 ATTCATTCCATATCATATATAAATCATTCAATTCAACAATTCATACAATATCAATTCTGATTATC
1 ATTCATTCCATATCATATATAAATCATTCAATTCAACAATTCATACAATATCAATTCTGATTATC
182877 AAATT
66 AAATT
*
182882 GTTCATT
1 ATTCATT
182889 ACCTCTATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.41
Consensus pattern (70 bp):
ATTCATTCCATATCATATATAAATCATTCAATTCAACAATTCATACAATATCAATTCTGATTATC
AAATT
Found at i:183039 original size:12 final size:12
Alignment explanation
Indices: 183022--183047 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
183012 TAATAACTCA
183022 TCCATTATCAAT
1 TCCATTATCAAT
183034 TCCATTATCAAT
1 TCCATTATCAAT
183046 TC
1 TC
183048 GTTCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (12 bp):
TCCATTATCAAT
Found at i:183512 original size:23 final size:23
Alignment explanation
Indices: 183402--183512 Score: 159
Period size: 23 Copynumber: 4.8 Consensus size: 23
183392 TGCCTGATAT
* * *
183402 GACACATGAGGTGCTTGAAATAC
1 GACACATAAAGTGCTTGATATAC
* * *
183425 AACACATAAAGTGCCTAATATAC
1 GACACATAAAGTGCTTGATATAC
183448 GACACATAAAGTGCTTGATATAC
1 GACACATAAAGTGCTTGATATAC
*
183471 GACACATAAAGTGCCTGATATAC
1 GACACATAAAGTGCTTGATATAC
183494 GACACATAAAGTGCTTGAT
1 GACACATAAAGTGCTTGAT
183513 TGGCAAAGCT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (23 bp):
GACACATAAAGTGCTTGATATAC
Found at i:183512 original size:46 final size:46
Alignment explanation
Indices: 183391--183512 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
183381 TTTACAAGAG
* * *
183391 GTGCCTGATAT--GACACATGAGGTGCTTGAAATACAACACATAAA
1 GTGCCTGATATACGACACATAAAGTGCTTGATATACAACACATAAA
* *
183435 GTGCCTAATATACGACACATAAAGTGCTTGATATACGACACATAAA
1 GTGCCTGATATACGACACATAAAGTGCTTGATATACAACACATAAA
183481 GTGCCTGATATACGACACATAAAGTGCTTGAT
1 GTGCCTGATATACGACACATAAAGTGCTTGAT
183513 TGGCAAAGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 10 0.14
46 60 0.86
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (46 bp):
GTGCCTGATATACGACACATAAAGTGCTTGATATACAACACATAAA
Found at i:184496 original size:29 final size:30
Alignment explanation
Indices: 184463--184525 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
184453 AATTTTTAAT
184463 TAATAAATATCT-TTTACTTAAAAAATAAA
1 TAATAAATATCTATTTACTTAAAAAATAAA
* *
184492 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATCTATTTACTTAAAAAATAAA
184522 TAAT
1 TAAT
184526 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAAAAATAAA
Found at i:188005 original size:68 final size:68
Alignment explanation
Indices: 187891--188020 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
187881 GAAATTTAAG
* * * *
187891 GTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTACCAAGACGTTAATCATGGGGAGAA
1 GTGTAAGACCATAGCTCGACTATGGAAACATAAAGAATCCAACAAGACGTTAATCATGGGGAGAA
187956 AAT
66 AAT
* *
187959 GTGTAAGACTATAGCTC-AGCTATGGCAACATAAAGAATCCAACAAGACGTTAATCATGGGGA
1 GTGTAAGACCATAGCTCGA-CTATGGAAACATAAAGAATCCAACAAGACGTTAATCATGGGGA
188021 TAAATCAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 1 0.02
68 54 0.98
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCGACTATGGAAACATAAAGAATCCAACAAGACGTTAATCATGGGGAGAA
AAT
Found at i:188098 original size:27 final size:26
Alignment explanation
Indices: 188068--188132 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
188058 AGCTCGTCGG
*
188068 GACATTAGACATG-GGGTAGTCTGCCAA
1 GACATTA-A-ATGAGGGTAGTCCGCCAA
*
188095 GACATTAAATGTAGGGTAGTCCGCTAA
1 GACATTAAATG-AGGGTAGTCCGCCAA
188122 GACATTAAATG
1 GACATTAAATG
188133 CGGAGAAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 30 0.88
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (26 bp):
GACATTAAATGAGGGTAGTCCGCCAA
Found at i:188142 original size:27 final size:27
Alignment explanation
Indices: 188093--188157 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
188083 GTAGTCTGCC
* *
188093 AAGACATTAAATGTAGGGTAGTCCGCT
1 AAGACATTAAATGTAGGGAAGTCCCCT
*
188120 AAGACATTAAATG-CGGAGAAGTCCCCT
1 AAGACATTAAATGTAGG-GAAGTCCCCT
*
188147 GAGACATTAAA
1 AAGACATTAAA
188158 CACGGGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (27 bp):
AAGACATTAAATGTAGGGAAGTCCCCT
Found at i:189973 original size:26 final size:26
Alignment explanation
Indices: 189937--189989 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
189927 TGTGTATTAA
189937 ATAAACTAAAAAATAGTAACATTCCT
1 ATAAACTAAAAAATAGTAACATTCCT
189963 ATAAACTAAAAAATAGTAACATTCCT
1 ATAAACTAAAAAATAGTAACATTCCT
189989 A
1 A
189990 GAATAGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (26 bp):
ATAAACTAAAAAATAGTAACATTCCT
Found at i:192950 original size:18 final size:18
Alignment explanation
Indices: 192929--192964 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
192919 CAGATATGAA
*
192929 AAAAAAAATCAAATAAAT
1 AAAAAAAACCAAATAAAT
*
192947 AAAATAAACCAAATAAAT
1 AAAAAAAACCAAATAAAT
192965 GTCCAGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAAAACCAAATAAAT
Found at i:198864 original size:16 final size:17
Alignment explanation
Indices: 198843--198874 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
198833 AAATATGCAA
198843 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
198859 TCACATAACTTCATAT
1 TCACATAACTTCATAT
198875 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:199184 original size:43 final size:42
Alignment explanation
Indices: 199035--199205 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 42
199025 GACTCGTACA
* * *
199035 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACA-ATCG
** * *
199078 ATGCCATTGTCCCAGACAGGGTCTTACAC--AAATCA-AATATG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAA-CACAAT-CG
* *
199119 ATGCCAATGTCCCATACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAA-TCG
* *
199162 ATGCCAACGTCCCAAATC-TGGTCTTACACGAAAACACATATCG
1 ATGCCAACGTCCCAGA-CATGGTCTTACACGTAAACACA-ATCG
199205 A
1 A
199206 AATCCTATGT
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 30 0.28
42 4 0.04
43 67 0.63
44 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAATCG
Found at i:199185 original size:84 final size:84
Alignment explanation
Indices: 199035--199190 Score: 199
Period size: 84 Copynumber: 1.9 Consensus size: 84
199025 GACTCGTACA
* * * ** *
199035 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCATTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCAACGTCCCAAACAGGGT
199100 CTTACACAAATCAAATATG
66 CTTACACAAATCAAATATG
* * *
199119 ATGCCAATGTCCCATACATGGTCTTACACGTAAACACA-AGTCGATGCCAACGTCCCAAATC-TG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCCAACGTCCCAAA-CAGG
199182 GTCTTACAC
64 GTCTTACAC
199191 GAAAACACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 1 0.02
84 59 0.97
85 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCAACGTCCCAAACAGGGT
CTTACACAAATCAAATATG
Found at i:202838 original size:25 final size:25
Alignment explanation
Indices: 202797--202862 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
202787 AGAAAATGCA
*
202797 TCTTTGCATTCATTTTTGAGCCAA-TAT
1 TCTTT-CATTC-TTTTTGA-ACAATTAT
* *
202824 TCTTTTATTCTTTTTGAATAATTAT
1 TCTTTCATTCTTTTTGAACAATTAT
202849 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
202863 GGATTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.06
25 23 0.68
26 4 0.12
27 5 0.15
ACGTcount: A:0.20, C:0.15, G:0.06, T:0.59
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAACAATTAT
Found at i:203644 original size:17 final size:17
Alignment explanation
Indices: 203624--203680 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
203614 AAAATCAATC
203624 AATCAAAAAAAAAACAA
1 AATCAAAAAAAAAACAA
*
203641 AATCAAAAAATGAAA-AA
1 AATCAAAAAA-AAAACAA
* *
203658 AA--AGAAAAAAATCAA
1 AATCAAAAAAAAAACAA
203673 AATCAAAA
1 AATCAAAA
203681 TCAAAATGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 2 0.06
15 9 0.29
17 17 0.55
18 3 0.10
ACGTcount: A:0.79, C:0.09, G:0.04, T:0.09
Consensus pattern (17 bp):
AATCAAAAAAAAAACAA
Found at i:203656 original size:25 final size:26
Alignment explanation
Indices: 203611--203695 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
203601 ATCGAAATAT
**
203611 AAAAAAATCAATCAATCAAAAAAAA-
1 AAAAAAATCAAAAAATCAAAAAAAAG
* *
203636 AACAAAATCAAAAAATGAAAAAAAAG
1 AAAAAAATCAAAAAATCAAAAAAAAG
203662 AAAAAAATC--AAAATCAAAATCAAAATG
1 AAAAAAATCAAAAAATCAAAA--AAAA-G
203689 AAAAAAA
1 AAAAAAA
203696 AATGAAAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
24 9 0.18
25 21 0.42
26 12 0.24
27 8 0.16
ACGTcount: A:0.76, C:0.09, G:0.04, T:0.11
Consensus pattern (26 bp):
AAAAAAATCAAAAAATCAAAAAAAAG
Found at i:203703 original size:6 final size:6
Alignment explanation
Indices: 203665--203714 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
203655 AAAAAAGAAA
* * * *
203665 AAAATC AAAATC AAAATC AAAATG AAAA-A AAAATG AAAATG AAAA-G
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
203711 AAAA
1 AAAA
203715 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
5 9 0.22
6 31 0.77
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (6 bp):
AAAATG
Found at i:203703 original size:17 final size:18
Alignment explanation
Indices: 203646--203714 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
203636 AACAAAATCA
*
203646 AAAAATGAAAA-AAAAGAA
1 AAAAATGAAAAGAAAA-AT
* **
203664 AAAAATCAAAATCAAAAT
1 AAAAATGAAAAGAAAAAT
*
203682 CAAAATGAAAA-AAAAAT
1 AAAAATGAAAAGAAAAAT
*
203699 GAAAATGAAAAGAAAA
1 AAAAATGAAAAGAAAA
203715 GGAGAGGCCA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 15 0.36
18 24 0.57
19 3 0.07
ACGTcount: A:0.77, C:0.04, G:0.09, T:0.10
Consensus pattern (18 bp):
AAAAATGAAAAGAAAAAT
Found at i:203709 original size:12 final size:12
Alignment explanation
Indices: 203665--203714 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
203655 AAAAAAGAAA
*
203665 AAAATCAAAATC
1 AAAATCAAAATG
203677 AAAATCAAAATG
1 AAAATCAAAATG
*
203689 AAAA-AAAAATG
1 AAAATCAAAATG
*
203700 AAAATGAAAA-G
1 AAAATCAAAATG
203711 AAAA
1 AAAA
203715 GGAGAGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 15 0.44
12 19 0.56
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (12 bp):
AAAATCAAAATG
Found at i:204638 original size:48 final size:49
Alignment explanation
Indices: 204562--204654 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 49
204552 AGAAGGGACT
* * *
204562 AAGGTGAAAACCCGCAAAAGGTGATTTGATTCCTAAAAA-AAAAAGACC
1 AAGGTGAAAACCCGCAAAAGGCGATTTGAGTCCAAAAAATAAAAAGACC
* * *
204610 AAGGTGAAAACCTGCAAAGGGCGCTTTGAGTCCAAAAAATAAAAA
1 AAGGTGAAAACCCGCAAAAGGCGATTTGAGTCCAAAAAATAAAAA
204655 TAAATCAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
48 33 0.87
49 5 0.13
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (49 bp):
AAGGTGAAAACCCGCAAAAGGCGATTTGAGTCCAAAAAATAAAAAGACC
Found at i:206132 original size:44 final size:44
Alignment explanation
Indices: 206078--206283 Score: 252
Period size: 44 Copynumber: 4.7 Consensus size: 44
206068 GATACCAATT
* * *
206078 CTATCTCCCTGGGCAGCTGTGGAATAGATTGAAGATTGTGAGTC
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * * *
206122 CTATTTCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGTGAATT
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * * * *
206166 ATATCTCCC-GGGACAGTAGCGGAATAGATTGAAGATTGTGAGTC
1 CTATCTCCCTGGG-CAGCAGTGGAATAGATTGAAGATGGTGAATC
* * * *
206210 CTATTTCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGTGAATT
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
206254 CTATCTCCCTGGGCAGCAGTGGAATAGATT
1 CTATCTCCCTGGGCAGCAGTGGAATAGATT
206284 AAAAATCACA
Statistics
Matches: 132, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
43 2 0.02
44 128 0.97
45 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (44 bp):
CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
Found at i:206228 original size:88 final size:88
Alignment explanation
Indices: 206074--206283 Score: 350
Period size: 88 Copynumber: 2.4 Consensus size: 88
206064 CGAAGATACC
* * *
206074 AATTCTATCTCCCTGGGCAGCTGTGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGC
1 AATTATATCTCCCTGGGCAGCAGCGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGC
206139 AGTGGAATAGGTTGAAGATGGTG
66 AGTGGAATAGGTTGAAGATGGTG
*
206162 AATTATATCTCCC-GGGACAGTAGCGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAG
1 AATTATATCTCCCTGGG-CAGCAGCGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAG
206226 CAGTGGAATAGGTTGAAGATGGTG
65 CAGTGGAATAGGTTGAAGATGGTG
* *
206250 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATT
1 AATTATATCTCCCTGGGCAGCAGCGGAATAGATT
206284 AAAAATCACA
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
87 3 0.03
88 107 0.95
89 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (88 bp):
AATTATATCTCCCTGGGCAGCAGCGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGC
AGTGGAATAGGTTGAAGATGGTG
Found at i:206307 original size:88 final size:87
Alignment explanation
Indices: 206074--206481 Score: 306
Period size: 88 Copynumber: 4.6 Consensus size: 87
206064 CGAAGATACC
* * *** *
206074 AATTCTATCTCCCTGGGCAGCTGTGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGC
1 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAAATACAGA-TCCTATCTCCCTGGTCAGC
*
206139 AGTGGAATAGGTTGAAGATGGTG
65 AGTGGAATAGGTTAAAGATGGTG
* * * * *** *
206162 AATTATATCTCCC-GGGACAGTAGCGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAG
1 AATTCTATCTCCCTGGG-CAGCAGTGGAATAGATTGAAAATACAGA-TCCTATCTCCCTGGTCAG
*
206226 CAGTGGAATAGGTTGAAGATGGTG
64 CAGTGGAATAGGTTAAAGATGGTG
* * *
206250 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAAATCACAGATCTTATCTCCCTAAGT-AG
1 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAAAT-ACAGATCCTATCTCCCT-GGTCAG
* ** * * *
206314 TAGTGGAGCAGATCAAAGACGGTG
64 CAGTGGAATAGGTTAAAGATGGTG
** * * * ***
206338 AA-TCTTATCTTCCCTAAG-AGTAG-GGAAGCAGATTTAAGCCACTAG-TCCTATCTCCCTGGTC
1 AATTC-TATC-TCCCTGGGCAGCAGTGGAA-TAGATTGAAAATAC-AGATCCTATCTCCCTGGTC
* * * *
206399 AGCAGTGGATTAGGTTAAAGCTTGTA
62 AGCAGTGGAATAGGTTAAAGATGGTG
* ** * *
206425 AATCCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAAATTACAGATCTTATCTCCC
1 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAAA-TACAGATCCTATCTCCC
206482 AGGTGATGTA
Statistics
Matches: 254, Mismatches: 52, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
86 8 0.03
87 57 0.22
88 176 0.69
89 13 0.05
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (87 bp):
AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAAATACAGATCCTATCTCCCTGGTCAGCA
GTGGAATAGGTTAAAGATGGTG
Found at i:206478 original size:44 final size:44
Alignment explanation
Indices: 206383--206481 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
206373 AAGCCACTAG
* * * **
206383 TCCTATCTCCCTGGTCAGCAGTGGATTAGGTTAAAGCTTGTAAA
1 TCCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAGATTACAAA
*
206427 TCCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAA-ATTACAGA
1 TCCTATCTCCCTGATCAGCAGTGGAATAGGTT-AAAGATTACAAA
*
206471 TCTTATCTCCC
1 TCCTATCTCCC
206482 AGGTGATGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 44 0.94
45 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAGATTACAAA
Found at i:206558 original size:50 final size:50
Alignment explanation
Indices: 206499--207480 Score: 603
Period size: 50 Copynumber: 19.7 Consensus size: 50
206489 GTAGTGGAAC
* * *
206499 AGATTAAAGCCACAACTGCAAATCTTGCTTTCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
* * * * ** *
206549 AGATTAAAGCTACAACAGCGAATCTTAC-TTCCCAAGCAGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGA-CATTGCAGTTAAAA
* * *
206599 AGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
** * * * * ** *
206649 AGATTAAAGTTACAACAGTGAATCTTAC-TTCCCAGGCAGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCC-GACATTGCAGTTAAAA
* * * *
206699 AGATTAAAGCCACAACGGCGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
* * ** * ** *
206749 AGATTAAAGCTACAACAGCGAATCTTAC-TTCCCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCC-GACATTGCAGTTAAAA
* * * *
206799 ATATTAAAGCCACAAC-GACGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAG-CGAATCTTACTTTCCCGACATTGCAGTTAAAA
* * * ** * ** *
206849 AGATTAAAGCTACAATAGCGAATCTTAC-TTCCCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCC-GACATTGCAGTTAAAA
** * * *
206899 AGATTAAAGCCACGGCGGCGAATCATGCTTTCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
* * ** * ** *
206949 AGATTAAAGCTACAACAGCGAATCTTAC-TTCCCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCC-GACATTGCAGTTAAAA
** * * *
206999 AGATTAAAGCCACGGCGGCGAATCATGCTTTCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
* * * * * * ** *
207049 AGATTAAAGCTACAACAGTGAATCTT-CCTT-CCTAGATGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACAT--TGCAGTTAAAA
* * * *
207099 AGATTAAAGCCACAACGGCGAATCATGC-TTCCTTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCC-CGACATTGCAGTTAAAA
* * ** * * *
207149 AGATTAAAGCTACAACAGTGAATCTTAC-TTCCC-A-GGTGGAGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGT--T-AAAA
* * *
207199 AGATTAAAGCCACAGCGGCGAATCTTACTTT-CCGACATTGTAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
* * * * ** * ** *
207248 AGATTAAAGCTACAACAGTGAATCTTA-TTTCTCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTC-CCGACATTGCAGTTAAAA
* ** * * *
207298 AGATTGAAGCCACAATGGCGAATCATGC-TTCCCTGACATTGCAATTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCC-GACATTGCAGTTAAAA
* * * * ** ** *
207348 AGATTGAAGCTACAAC-GACGAATCTTAC-GTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAG-CGAATCTTACTTTCCC-GACATTGCAGTTAAAA
* * * * *
207398 AGATTAAAGCCACAACGGCAAATCTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
* * **
207448 AGATTGAAGCTACAATGGCGAATCTTACTTTCC
1 AGATTAAAGCCACAACAGCGAATCTTACTTTCC
207481 AAAAGTTACG
Statistics
Matches: 677, Mismatches: 225, Indels: 60
0.70 0.23 0.06
Matches are distributed among these distances:
47 5 0.01
48 9 0.01
49 55 0.08
50 567 0.84
51 33 0.05
52 8 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTACTTTCCCGACATTGCAGTTAAAA
Found at i:206643 original size:100 final size:100
Alignment explanation
Indices: 206470--207477 Score: 1509
Period size: 100 Copynumber: 10.1 Consensus size: 100
206460 AAAATTACAG
* * * * * *
206470 ATCTTA-TCTCCCAGGTGATGTAGTGGAACAGATTAAAGCCACAACTGCAAATCTTGCTTTCCCG
1 ATCTTACT-TCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCG
206534 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * *
206570 ATCTTACTTCCCAAGCAGTGTAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
* *
206635 CATTGCAGTTAAAAAGATTAAAGTTACAACAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
*
206670 ATCTTACTTCCCAGGCAGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
206735 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* *
206770 ATCTTACTTCCCAGGCGGTGTAGTGGAACATATTAAAGCCACAACGACGAATCATGCTTCCCCGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
*
206835 CATTGCAGTTAAAAAGATTAAAGCTACAATAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
** *
206870 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACGGCGGCGAATCATGCTTTCCCGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
206935 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
** *
206970 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACGGCGGCGAATCATGCTTTCCCGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
*
207035 CATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * ** **
207070 ATCTTCCTTCCTAGATGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCTTGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
*
207135 CATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * * *
207170 ATCTTACTTCCCAGGTGGAGTAGTGGAACAGATTAAAGCCACAGCGGCGAATCTTACTT-TCCGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
* *
207234 CATTGTAGTTAAAAAGATTAAAGCTACAACAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * *
207269 ATCTTATTTCTCAGGCGGTGTAGTGGAACAGATTGAAGCCACAATGGCGAATCATGCTTCCCTGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
* *
207334 CATTGCAATTAAAAAGATTGAAGCTACAAC-GACGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAG-CGA
* * * *
207369 ATCTTACGTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCAAATCTTGCTTCCCCGA
1 ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
* * **
207434 CATTGTAGTTAAAAAGATTGAAGCTACAATGGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
207469 ATCTTACTT
1 ATCTTACTT
207478 TCCAAAAGTT
Statistics
Matches: 831, Mismatches: 73, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
99 87 0.10
100 742 0.89
101 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (100 bp):
ATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCATGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:208949 original size:22 final size:24
Alignment explanation
Indices: 208906--208951 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
208896 TTAAATTGGT
*
208906 TTATTATTATTAATTTCATTTTTCA
1 TTATTATTATTAAGTT-ATTTTTCA
*
208931 TTATTATTATT-AGTTTTTTTT
1 TTATTATTATTAAGTTATTTTT
208952 ATCAATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 3 0.16
25 11 0.58
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATTATTATTAAGTTATTTTTCA
Found at i:209043 original size:11 final size:11
Alignment explanation
Indices: 209029--209085 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
209019 ATTTTTACCA
209029 ATATTTTTTAT
1 ATATTTTTTAT
209040 ATATTTTTTAT
1 ATATTTTTTAT
* *
209051 ATACTATCTTCAT
1 ATA-T-TTTTTAT
* * *
209064 ATAATTTATAC
1 ATATTTTTTAT
209075 ATATTTTTTAT
1 ATATTTTTTAT
209086 GCATGTATAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
11 25 0.74
12 1 0.03
13 8 0.24
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATTTTTTAT
Found at i:210480 original size:14 final size:13
Alignment explanation
Indices: 210461--210519 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 13
210451 TGATAATTTA
210461 TTTTTCTATTTCAC
1 TTTTTCTATTTC-C
*
210475 TTTTTCTATTTCTT
1 TTTTTCTATTTC-C
*
210489 TTTTTCTGTTT--
1 TTTTTCTATTTCC
*
210500 TTTTTCTTTTTCC
1 TTTTTCTATTTCC
210513 TTTTTCT
1 TTTTTCT
210520 TTTATGCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 10 0.26
13 7 0.18
14 22 0.56
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTTCTATTTCC
Found at i:211559 original size:193 final size:195
Alignment explanation
Indices: 211218--211606 Score: 764
Period size: 193 Copynumber: 2.0 Consensus size: 195
211208 TTTTTTAAAA
211218 ATAATTTTATTAATTTATAATATATTTTTTAGATAATGACATTATGATGATGTCATCATGCCATA
1 ATAATTTTATTAATTTATAATATATTTTTTAGATAATGACATTATGATGATGTCATCATGCCATA
211283 TGTCACAATCTTGTTGTGTCACCTGTCTCAGATTTAACGGTGTTAAAAAAGAGAGTACCAAACTA
66 TGTCACAATCTTGTTGTGTCACCTGTCTCAGATTTAACGGTGTTAAAAAAGAGAGTACCAAACTA
211348 GTTGATGGAGAAAAAGTTTGGGTACCAATTCGGGACAAAAAAAATCTTAAGTACCAATCTAGGAG
131 GTTGATGGAGAAAAAGTTTGGGTACCAATTCGGGACAAAAAAAATCTTAAGTACCAATCTAGGAG
211413 ATAATTTTA-T-ATTTATAATATATTTTTTAGATAATGACATTATGATGATGTCATCATGCCATA
1 ATAATTTTATTAATTTATAATATATTTTTTAGATAATGACATTATGATGATGTCATCATGCCATA
211476 TGTCACAATCTTGTTGTGTCACCTGTCTCAGATTTAACGGTGTTAAAAAAGAGAGTACCAAACTA
66 TGTCACAATCTTGTTGTGTCACCTGTCTCAGATTTAACGGTGTTAAAAAAGAGAGTACCAAACTA
211541 GTTGATGGAGAAAAAGTTTGGGTACCAATTCGGGACAAAAAAAATCTTAAGTACCAATCTAGGAG
131 GTTGATGGAGAAAAAGTTTGGGTACCAATTCGGGACAAAAAAAATCTTAAGTACCAATCTAGGAG
211606 A
1 A
211607 AGTGGGCAAG
Statistics
Matches: 194, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
193 184 0.95
194 1 0.01
195 9 0.05
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (195 bp):
ATAATTTTATTAATTTATAATATATTTTTTAGATAATGACATTATGATGATGTCATCATGCCATA
TGTCACAATCTTGTTGTGTCACCTGTCTCAGATTTAACGGTGTTAAAAAAGAGAGTACCAAACTA
GTTGATGGAGAAAAAGTTTGGGTACCAATTCGGGACAAAAAAAATCTTAAGTACCAATCTAGGAG
Found at i:214270 original size:26 final size:27
Alignment explanation
Indices: 214215--214271 Score: 71
Period size: 31 Copynumber: 2.0 Consensus size: 27
214205 CACCTCTTGC
214215 GTTAGTGCGTGTGCTTTTTCGCTTATCTTAT
1 GTTAGTGCGTGTGCTTTTTCG----TCTTAT
214246 GTTAGTGCGTGTGCTTTTTCG-CTTAT
1 GTTAGTGCGTGTGCTTTTTCGTCTTAT
214272 CCGACTCGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 5 0.19
31 21 0.81
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.51
Consensus pattern (27 bp):
GTTAGTGCGTGTGCTTTTTCGTCTTAT
Found at i:219808 original size:34 final size:34
Alignment explanation
Indices: 219765--219833 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
219755 GATATATATG
* *
219765 TATATATATCTACATAAACAAAGTAATGTTAACT
1 TATATATATCTACAAAAACAAAGTAATGTGAACT
*
219799 TATATATATCTACAAAAAGAAAGTAATGTGAACT
1 TATATATATCTACAAAAACAAAGTAATGTGAACT
219833 T
1 T
219834 CAATTCAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (34 bp):
TATATATATCTACAAAAACAAAGTAATGTGAACT
Found at i:223554 original size:709 final size:709
Alignment explanation
Indices: 219119--224798 Score: 9466
Period size: 710 Copynumber: 8.0 Consensus size: 709
219109 AATCAAGTTC
*
219119 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAATGCGTTAAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
219184 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
* *
219249 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCAAAGCATGTTTATTCACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
* ** *
219314 AGTGAGAAATTAATAGACCAATTGACCATTGCTTTAATAATTTGCATAGTTCTAAGGCAAGGGGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
*
219379 AAGTGATTAGGTTATTTCGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
*
219444 TGCACTAATAATTCTCGAATTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
* * *
219509 CATTTACCAATTTACCAATTCCTTGGCCTTGATCCTTGGAATACTCAATGTTCCCTTGTAATACT
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
*
219574 ATAAATGTTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAAT
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAA-
219639 TTTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATC-TTATTATCAAATAAGAATATA
520 TTTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATA
*
219703 TATCCAGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTAT
585 TATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATG--T
219768 ATATATCTACATAAACAAAGTAATGTTAACTTATATATATCTACAAAAAGAAAGTAATGTGAACT
648 ATATA--T--AT---C----------T-AC--------A--T----AAAGAAAGTAATGTGAACT
*
219833 TCAATTCAACTATTCACCTATGTCAGATA
681 TCAATTCAACTATTCACCTATGTGAGATA
* * *
219862 GGTGAGACCGAAAGGATATCCTAGCGTACATAACTTTATCATGAACGCGTTAAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
* * *
219927 AAAAGATATCTACGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTCATTTCTAGCTAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
*
219992 GAGACTGAGAGGAGATTCCGAGTTACAAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
220057 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
* *
220122 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTGAATTTCTTCATTATTATGATTCGGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
*
220187 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAACATTTGACTTGATAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
* *
220252 CATTTACCAATTTAGCAATTCCTTGGACTTGATCCTTGGAATACTCCATGTTCCCTTGTAATACT
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
*
220317 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACATTGCTTTAAAATTATTTTATAAT
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAA-
* * * *
220382 TTTTTTTTGTTTTCAACGCATGCGTGCACACAGTCATCTACATATTTATTATCAAATAAGAATTT
520 -TTTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATAT
** * *
220447 ATATCCTGCCAAAACAGATAAAATTTAAAACTCAAATTACAAAATCGAATAAAGATATATATGTA
584 ATATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTA
*
220512 TATATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTCAGATA
649 TATATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
* * *
220573 GGTGAGACCGAAAGGATATCCTAGCGTACATAACTTTATCATGAACGCGTTAAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
* * *
220638 AAAAGATATCTACGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTCATTTCTAGCTAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
*
220703 GAGACTGAGAGGAGATTCCGAGTTACAAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
220768 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
*
220833 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCAGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
* * *
220898 TGCACTAATAATTCTCGAACTGGTTAGATTAGTAATTGCATCATTAATATTTGACTTGATAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
*
220963 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTAGAATACTCCATGTTCCCTTGTAACACT
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
* * * * *
221028 ATAAATATTAGATCTCGACATTGTACACCTGCAATTAAAACCTTTCTTTAAAAATTAGTTTATAT
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTT-AAAATTATTTTATAA
*
221093 TTTTTTTATTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATA
520 TTTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATA
*
221158 TATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATACG--T
585 TATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTAT
* *
221221 ATATATCTACATAAAGAAAGTAATGTAAACTTCAATTCAACTATTCACCAATGTGAGATA
650 ATATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
** * *
221281 GGTGAGACCGAAAGGATATGTTATCGTGCATAACTTTTTTATGAACACGTTAAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
* * * *
221346 AAAAGAGATCTATGTGCCTAAGGGAGGTCAAGAGGAGATCTTAGGTGGTAATTTTTAGCTAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
*
221411 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCAAGTTTATTAACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
* * *
221476 AGTGAGCAATTGATAGATTAATTGACCATTTCTTTGATAATTTGCATAGTTCTAAGGCAGGGGGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
221541 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
*
221606 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTACTTAATTAATATTTGACTTGATAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
*
221671 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTAGAATACTCCATGTTCCCTTGTAACACT
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
* * * *
221736 ATAAATATTACATTTCGACATTGTCCACTTGCAATTAAAAACTTTCTTTAAAAATTATTTTATAA
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTT-AAAATTATTTTATAA
* * * *
221801 TTTTTTTGTTTTCTACGCATGCGTGCAGACAGTCACCTATAGCTTTATTATCAAATAAGAATATT
520 TTTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATA
* *
221866 TATCCTGCCTTAAGAGATAAAATTTAAAATTCAAATTACAAAATCGAATAAAGATATATATGTAT
585 TATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTAT
*
221931 ATATATCTACATAAAGAAAGTAACGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
650 ATATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
*
221991 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAATGCGTTAAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
* * * *
222056 AAAAGAGATCTATGTGCGTAAGTGAGATCAAGAGGAGATCTTAGGTGGTAATTTTTAGCGAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
*
222121 GAGACTGAGAGGAGATTCTGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
222186 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
*
222251 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTGTTATTCGGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
222316 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
* *
222381 CATTTACCAATTTAGCTATTCCTTGGCCTTGATCCTTAGAATACTCCATGTTCCCTTGTAACACT
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
*
222446 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTTCTTTAAAAATTATTTTATAA
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTT-AAAATTATTTTATAA
*
222511 ATTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATA
520 TTTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATA
* *
222576 TATCCTGCCTTAAGAGATAAAATTTAAAATTCAAATTACAAAATCGAATAAAGATATATATGTAT
585 TATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTAT
*
222641 ATATATCTACATAAAGAAAGGAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
650 ATATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
*
222701 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAATGCGTTAAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
* *
222766 AAAAGAGATCTATGTGCCTAAGTGACATCGAGAGGAGATCTTAGGTGGTAATTTATAGCTAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
* * ** * * *
222831 GAGACTAAGAGAAGATTCATAGTTACGAGTGGTGAGTGATATCTTCGAACCGTTTTTATTAACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
* * * *
222896 AGAGAGCAATTAATAGATCAATTGACCATTGCTTTGATAATTTGCATAATTCTAAGGCAAGGTGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
*
222961 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATGTAATTTCTTCATTATTATTATTCGGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
* * *
223026 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTACTTATTTAATATTTGACTTGTTAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
223091 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
* *
223156 ATAAATATTACATCTCGACATTGTACACTTGTAATTAAAACCTTACTTTAAAATTATTTTATAAT
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAAT
* *
223221 TTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACAGCTTTATTATCAAATAAGAAAATAT
521 TTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATAT
223286 ATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTATA
586 ATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTATA
*
223351 TATATCTACATAAAGAAAGTAATGTAAACTTCAATTCAACTATTCACCTATGTGAGATA
651 TATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
* *
223410 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAATGTGTTAAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
*
223475 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTATAGCTAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
* * *
223540 GAGACTAAGAGAAGATTTCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
* * * *
223605 AGAGAGCAATTAATAGATCAATTGACCAATGCTTTGATAATTTGCATAGTTCTATGGCAAGGGGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
* * *
223670 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATGTAATTTCTTCATTATTATTAATCAGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
* *
223735 TGCACTAATAATTCTTGAAGTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
* *
223800 CATTTACCAATTTAGCAATTCCTTGCCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACA
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
223865 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAA-
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAAT
* *
223929 --TTTTGTTTTCTACGCATGCGTCCAGACATTCATCTACATCTTTATTATCAAATAAGAATATAT
521 TTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATAT
223992 ATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTATA
586 ATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTATA
* *
224057 TAAATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTCAGATA
651 TATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
* * *
224116 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTGTTATGAACGTGTTTAGTAGTGAGACCA
1 GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
* * * *
224181 AAAAGAGATCTATGTGCGTAAGTGAGATCAAGAGGAGATCTTAGGTGGTAATTTTTAGCGAGGAT
66 AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
*
224246 GAGACTGAGAGGAGATTCTGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
131 GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
224311 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
196 AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
* *
224376 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTCAATTTCTTAATTATTATTATTCGGT
261 AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
*
224441 TGCACTAATAATTCTCGAACTAATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
326 TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
* *
224506 CATTTACCAATTTAGTAATTCATTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
391 CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
*
224571 ATAAATATTACATCTCGACATTGTACACTTGTAATTAAAACCTTGCTTTAAAATTATTTTATAAT
456 ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAAT
* * *
224636 TTTTTTGTTTTAC-ACGCATGCATGGAGACAGTCATCTACAGCTTTATTATCAAATAAGAATATA
521 TTTTTTGTTTT-CTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATA
* *
224700 TATCCTGTCTTAACAGATAAAATTTAAAATTAAAATTACAAAATGGAATAAAGATATATATATGT
585 TATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAG--ATATATATGT
* *
224765 ATATATATCTACATAAAGAAACTAATGTTAACTT
648 ATATATATCTACATAAAGAAAGTAATGTGAACTT
224799 ATATATATAT
Statistics
Matches: 4695, Mismatches: 231, Indels: 54
0.94 0.05 0.01
Matches are distributed among these distances:
706 671 0.14
708 666 0.14
709 800 0.17
710 1338 0.28
711 579 0.12
712 13 0.00
715 1 0.00
717 1 0.00
725 2 0.00
726 1 0.00
736 1 0.00
739 2 0.00
741 1 0.00
743 501 0.11
744 41 0.01
745 77 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (709 bp):
GGTGAGACCGAAAGGATATCCTATCGTGCATAACTTTATTATGAACGCGTTAAGTAGTGAGACCA
AAAAGAGATCTATGTGCCTAAGTGAGATCGAGAGGAGATCTTAGGTGGTAATTTCTAGCTAGGAT
GAGACTGAGAGGAGATTCCGAGTTACGAGTGGTGAGTGATATCTTCGAAGCATGTTTATTAACTC
AGTGAGCAATTAATAGATTAATTGACCATTGCTTTGATAATTTGCATAGTTCTAAGGCAAGGGGG
AAGTGATTAGGTTATTTAGTTTTGTTGATAACTTAAATTTAATTTCTTCATTATTATTATTCGGT
TGCACTAATAATTCTCGAACTGATTAGATTAGTAATTGCTTAATTAATATTTGACTTGATAATCA
CATTTACCAATTTAGCAATTCCTTGGCCTTGATCCTTGGAATACTCCATGTTCCCTTGTAACACT
ATAAATATTACATCTCGACATTGTACACTTGCAATTAAAACCTTGCTTTAAAATTATTTTATAAT
TTTTTTGTTTTCTACGCATGCGTGCAGACAGTCATCTACATCTTTATTATCAAATAAGAATATAT
ATCCTGCCTTAACAGATAAAATTTAAAATTCAAATTACAAAATGGAATAAAGATATATATGTATA
TATATCTACATAAAGAAAGTAATGTGAACTTCAATTCAACTATTCACCTATGTGAGATA
Found at i:224809 original size:36 final size:36
Alignment explanation
Indices: 224764--224834 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
224754 TATATATATG
224764 TATATATATCTACATAAAGAAACTAATGTTAACTTA
1 TATATATATCTACATAAAGAAACTAATGTTAACTTA
*
224800 TATATATATCTACATAAAGAAAGTAATGTTAACTT
1 TATATATATCTACATAAAGAAACTAATGTTAACTT
224835 CAATTCAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (36 bp):
TATATATATCTACATAAAGAAACTAATGTTAACTTA
Found at i:228307 original size:80 final size:80
Alignment explanation
Indices: 228205--228374 Score: 317
Period size: 80 Copynumber: 2.1 Consensus size: 80
228195 TTATTATTGA
228205 AATAATATTTTAATAAATTTATTTTTATTTAATAAATTATAATTGGTAAGATTGTTTATATGAAA
1 AATAATA-TTTAATAAATTTATTTTTATTTAATAAATTATAATTGGTAAGATTGTTTATATGAAA
228270 TAACTATAATTTTCTT
65 TAACTATAATTTTCTT
228286 AATAATATTTAATAAATTTATTTTTATTTAATAAATTATAATTGGTAAGATTGTTTATATGAAAT
1 AATAATATTTAATAAATTTATTTTTATTTAATAAATTATAATTGGTAAGATTGTTTATATGAAAT
228351 AACTATAATTTTCTT
66 AACTATAATTTTCTT
228366 AA-AAT-TTTA
1 AATAATATTTA
228375 GACATTATGC
Statistics
Matches: 89, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
78 4 0.04
79 3 0.03
80 75 0.84
81 7 0.08
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (80 bp):
AATAATATTTAATAAATTTATTTTTATTTAATAAATTATAATTGGTAAGATTGTTTATATGAAAT
AACTATAATTTTCTT
Found at i:228549 original size:43 final size:43
Alignment explanation
Indices: 228501--228737 Score: 264
Period size: 43 Copynumber: 5.5 Consensus size: 43
228491 GCTAAGTTTT
*
228501 GCGGCGCTTATTCCACAAACGCCGCTAAAGCTCATGTTCTTTA
1 GCGGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTCTTTA
* ** *
228544 GCGGCGCTTATCCCACAAACGCCATTAAAGGTCATGCTCTTTA
1 GCGGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTCTTTA
* *
228587 GCGGCGCTTA-TCTCAAAAATGCCGCTAAAGGTCATGTTCTTTA
1 GCGGCGCTTATTC-CACAAACGCCGCTAAAGGTCATGTTCTTTA
* * * * * *
228630 GCGGCGCTTATCCCACAATCGCCGCTATAGATCTTG-ACTTTTA
1 GCGGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTC-TTTA
* * *
228673 GTGGCACTT-TTCCCACAAGCGCCGCTAAAGGTCATGTTCTTTA
1 GCGGCGCTTATT-CCACAAACGCCGCTAAAGGTCATGTTCTTTA
* *
228716 GCGGCGCTTTTTCCAAAAACGC
1 GCGGCGCTTATTCCACAAACGC
228738 AGCAATAGAT
Statistics
Matches: 157, Mismatches: 31, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
42 3 0.02
43 150 0.96
44 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (43 bp):
GCGGCGCTTATTCCACAAACGCCGCTAAAGGTCATGTTCTTTA
Found at i:228616 original size:86 final size:86
Alignment explanation
Indices: 228497--228724 Score: 291
Period size: 86 Copynumber: 2.7 Consensus size: 86
228487 TGTCGCTAAG
*
228497 TTTT-GCGGCGCTTAT-TCCACAAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTTATCCCAC
1 TTTTAGCGGCGCTTATCT-CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCAC
* *
228560 AAACGCCATTAAAGGTCATG-C
65 AAACGCCACTAAAGATCATGAC
* *
228581 TCTTTAGCGGCGCTTATCTCAAAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCAC
1 T-TTTAGCGGCGCTTATCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCAC
* * * *
228646 AATCGCCGCTATAGATCTTGAC
65 AAACGCCACTAAAGATCATGAC
* * * * *
228668 TTTTAGTGGCACTTTTCCCACAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
1 TTTTAGCGGCGCTTATCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT
228725 TTTCCAAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 3 0.02
86 117 0.94
87 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (86 bp):
TTTTAGCGGCGCTTATCTCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACA
AACGCCACTAAAGATCATGAC
Found at i:228756 original size:86 final size:85
Alignment explanation
Indices: 228503--228769 Score: 279
Period size: 86 Copynumber: 3.1 Consensus size: 85
228493 TAAGTTTTGC
*
228503 GGCGCTTATT-CCACAAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTTATCCCACAAACGC-
1 GGCGCTT-TTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCG
* * * *
228566 CATTA-AAGGTCATGCTCTTTAGC
65 CAATAGATGG-CA-ACT-TTTAGT
* * * * *
228589 GGCGCTTATCTCAAAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAATCGCCG
1 GGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACG-CG
* ****
228654 CTATAGATCTTGACTTTTAGT
65 CAATAGATGGCAACTTTTAGT
* * * * *
228675 GGCACTTTTCCCACAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAAAAACGCAG
1 GGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGC-G
228740 CAATAGATGGCAACTTTTAGT
65 CAATAGATGGCAACTTTTAGT
228761 GGCGCTTTT
1 GGCGCTTTT
228770 TTGAAAAACA
Statistics
Matches: 145, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
85 2 0.01
86 136 0.94
87 3 0.02
88 3 0.02
89 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (85 bp):
GGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGCGC
AATAGATGGCAACTTTTAGT
Found at i:228759 original size:129 final size:128
Alignment explanation
Indices: 228497--228767 Score: 273
Period size: 129 Copynumber: 2.1 Consensus size: 128
228487 TGTCGCTAAG
* * * *
228497 TTTT-GCGGCGCTTATTCCACAAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTTATCCCACA
1 TTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGATCATGCTCTTTAGCGGCACTTATCCCACA
* * * * **
228561 AACGCCATTAAAGGTCATGCTCTTTAGCGGCGCTTATCTCAAAAATGCCGCTAAAGGTCATGT
66 AACGCCACTAAAGGTCATGCTCTTTAGCGGCGCTTATCTCAAAAACGCAGCTAAAGGGCATAC
* * * * *
228624 TCTTTAGCGGCGCTTATCCCACAATCGCCGCTATAGATCTTGACT-TTTAGTGGCACTTTTCCCA
1 T-TTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGATCATG-CTCTTTAGCGGCACTTATCCCA
* * * *
228688 CAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT-TTTCCAAAAACGCAGC-AATAGATGGC
64 CAAACGCCACTAAAGGTCATGCTCTTTAGCGGCGCTTATCT-CAAAAACGCAGCTAA-AG--GGC
228751 A-AC
125 ATAC
*
228754 TTTTAGTGGCGCTT
1 TTTTAGCGGCGCTT
228768 TTTTGAAAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
127 1 0.01
128 7 0.06
129 104 0.89
130 2 0.02
131 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (128 bp):
TTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGATCATGCTCTTTAGCGGCACTTATCCCACA
AACGCCACTAAAGGTCATGCTCTTTAGCGGCGCTTATCTCAAAAACGCAGCTAAAGGGCATAC
Found at i:229135 original size:21 final size:21
Alignment explanation
Indices: 229097--229141 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
229087 CTCTGCTCTA
*
229097 CTTCCCTCGCTACAGCCTCCG
1 CTTCCCTCGCTACAGCCTCAG
* *
229118 CTTCCCTCGCTTCTGCCTCAG
1 CTTCCCTCGCTACAGCCTCAG
229139 CTT
1 CTT
229142 TAAGTTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.49, G:0.13, T:0.31
Consensus pattern (21 bp):
CTTCCCTCGCTACAGCCTCAG
Found at i:234455 original size:16 final size:16
Alignment explanation
Indices: 234436--234558 Score: 68
Period size: 16 Copynumber: 8.0 Consensus size: 16
234426 TATTAAGTAA
234436 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
234452 ATTATATAAG---T-T
1 ATTATGTAAGTTATGT
*
234464 A-T--GTAAGTTACGT
1 ATTATGTAAGTTATGT
*
234477 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
**
234493 AATT-TGTATTTTATGT
1 -ATTATGTAAGTTATGT
*
234509 AAGTTAT-TTA-TTATGT
1 -A-TTATGTAAGTTATGT
234525 ATGCTATGTAAGTTATGT
1 AT--TATGTAAGTTATGT
*
234543 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
234559 CATAGACTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
9 4 0.05
11 1 0.01
12 2 0.02
13 3 0.04
14 2 0.02
15 1 0.01
16 51 0.63
17 8 0.10
18 9 0.11
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:234465 original size:25 final size:24
Alignment explanation
Indices: 234424--234550 Score: 125
Period size: 25 Copynumber: 5.2 Consensus size: 24
234414 TATATATTTT
* *
234424 TGTATTAAGTAAATTATGTAAGTTA
1 TGTATTATGTAAGTTATGTAA-TTA
*
234449 TGTATTATATAAGTTATGTAAGTTA
1 TGTATTATGTAAGTTATGTAA-TTA
* *
234474 CGTATTATGTAAGCTATGTAATT-
1 TGTATTATGTAAGTTATGTAATTA
*
234497 TGTATTTTATGTAAGTTAT-TTATTA
1 TGTA--TTATGTAAGTTATGTAATTA
234522 TGTATGCTATGTAAGTTATGT-ATTA
1 TGTAT--TATGTAAGTTATGTAATTA
234547 TGTA
1 TGTA
234551 AGCTATGTCA
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.05
24 6 0.07
25 76 0.87
26 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (24 bp):
TGTATTATGTAAGTTATGTAATTA
Found at i:234535 original size:41 final size:41
Alignment explanation
Indices: 234436--234552 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 41
234426 TATTAAGTAA
* *
234436 ATTATGTAAGTTATGT-A-TTATATAAGTTATGTAAGTTACGT
1 ATTATGTAAGCTATGTAAGTTATGT-A-TTATGTAAGTTACGT
**
234477 ATTATGTAAGCTATGTAA-TT-TGTATTTTATGTAAGTTATTT
1 ATTATGTAAGCTATGTAAGTTATGTA--TTATGTAAGTTACGT
*
234518 ATTATGTATGCTATGTAAGTTATGTATTATGTAAG
1 ATTATGTAAGCTATGTAAGTTATGTATTATGTAAG
234553 CTATGTCATA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.02
41 56 0.85
42 5 0.08
43 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.49
Consensus pattern (41 bp):
ATTATGTAAGCTATGTAAGTTATGTATTATGTAAGTTACGT
Done.