Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009645.1 Hibiscus syriacus cultivar Beakdansim tig00117063_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1081801
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3533 original size:9 final size:9
Alignment explanation
Indices: 3489--3549 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
3479 CTGCTGGAAA
3489 ACCGGTTTG
1 ACCGGTTTG
*
3498 ACCAGTTTTG
1 ACC-GGTTTG
*
3508 AACCGGTTCG
1 -ACCGGTTTG
3518 AACCGGTTTG
1 -ACCGGTTTG
*
3528 ACCGGTCTGG
1 ACCGGT-TTG
*
3538 ACCGGTCTG
1 ACCGGTTTG
3547 ACC
1 ACC
3550 CAACCCGTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 13 0.31
10 26 0.62
11 3 0.07
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4564 original size:32 final size:31
Alignment explanation
Indices: 4491--4567 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
4481 CTAATGTGAC
* * *
4491 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
** **
4522 TCTCGGGTAGGCCCTGCGACCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGACCCTAAGAT-CAT
4554 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
4568 CACGGCCCCG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
Found at i:4574 original size:63 final size:63
Alignment explanation
Indices: 4491--4614 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
4481 CTAATGTGAC
* ** * *
4491 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GACCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGACCCTAAGATGTGT
* * *
4554 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGACCCTAAGATGT
4615 TCCCTTAGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.96
64 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGACCCTAAGATGTGT
Found at i:6572 original size:26 final size:26
Alignment explanation
Indices: 6543--6599 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
6533 TTATTGTCTT
6543 TTTTTCTATATCAAATCTCTATTTTA
1 TTTTTCTATATCAAATCTCTATTTTA
*** *
6569 TTTTTCTATATTGTATCTCTATTTTC
1 TTTTTCTATATCAAATCTCTATTTTA
6595 TTTTT
1 TTTTT
6600 TCATTAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTCTATATCAAATCTCTATTTTA
Found at i:6600 original size:28 final size:28
Alignment explanation
Indices: 6534--6600 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 28
6524 TAGTATTCTT
*
6534 TATTGTCTTTTTTTCTATATCAAATCTC
1 TATTTTCTTTTTTTCTATATCAAATCTC
* ***
6562 TA-TTT-TATTTTTCTATATTGTATCTC
1 TATTTTCTTTTTTTCTATATCAAATCTC
6588 TATTTTCTTTTTT
1 TATTTTCTTTTTT
6601 CATTAAGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 19 0.61
27 5 0.16
28 7 0.23
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.66
Consensus pattern (28 bp):
TATTTTCTTTTTTTCTATATCAAATCTC
Found at i:15345 original size:36 final size:37
Alignment explanation
Indices: 15260--15349 Score: 110
Period size: 39 Copynumber: 2.4 Consensus size: 37
15250 TTCTCTTTCA
* *
15260 TCCCCTGATGAAGGACCATCAGCATCTCCTTCAGCACCT
1 TCCCCTGATGAAGGACCATCAACACCTCCTT-A-CACCT
* *
15299 TCACCTGATGAAGGACCATCAACACCTCCTT-CTCCT
1 TCCCCTGATGAAGGACCATCAACACCTCCTTACACCT
*
15335 TCCCCCGATGAAGGA
1 TCCCCTGATGAAGGA
15350 GCACCTCCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 17 0.38
39 28 0.62
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (37 bp):
TCCCCTGATGAAGGACCATCAACACCTCCTTACACCT
Found at i:18008 original size:21 final size:23
Alignment explanation
Indices: 17983--18031 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
17973 ATGATCTTAA
*
17983 TTTTAATAAA-TTAAA-ATAAAC
1 TTTTAATAAAGATAAACATAAAC
* *
18004 TTTTATTAAAGATAAACATAAAT
1 TTTTAATAAAGATAAACATAAAC
18027 TTTTA
1 TTTTA
18032 TGTTATGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 9 0.39
22 4 0.17
23 10 0.43
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTTAATAAAGATAAACATAAAC
Found at i:18029 original size:22 final size:20
Alignment explanation
Indices: 17981--18029 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
17971 GTATGATCTT
*
17981 AATTTTAATAAATTAAAATA
1 AATTTTAATAAAATAAAATA
*
18001 AACTTTTATTAAAGATAAACATA
1 AA-TTTTAATAAA-ATAAA-ATA
18024 AATTTT
1 AATTTT
18030 TATGTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 9 0.38
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (20 bp):
AATTTTAATAAAATAAAATA
Found at i:24709 original size:121 final size:122
Alignment explanation
Indices: 24571--24873 Score: 368
Period size: 121 Copynumber: 2.5 Consensus size: 122
24561 AAATCACGTA
* * * *
24571 TTTAGTA-TCTAAATTATCAGTTTTGGTTT-GTTTTAGTACTTAAGCTTTTAA-TTTTTTAAGAT
1 TTTAGTACT-TAAATTATCAGTTTTGGTTTCGTTTTAGTACCTAAACTTTCAATTTTTTTAAAAT
* *
24633 CATATC-TAAAGTTTAGTTCTTGTTTTATTTTAGTACCCCGCCGTTAAACACTTAACGCT
65 CATA-CATAAAGTTTAGTTCTTGTTTCATTTTAGTA-CCCGCCGTTAAAAACTTAACGCT
* * *
24692 TTTAGTACTTAAGTTATCAGTTTT-ATTTCGTTTTAGTACCTAAACTTTCAATTTTTTTAAAATT
1 TTTAGTACTTAAATTATCAGTTTTGGTTTCGTTTTAGTACCTAAACTTTCAATTTTTTTAAAATC
* *
24756 ATACATAAAGTTTAGTTTTTGTTTCATTTTAGTACCCGTCGTTAAAAACTTAACGCT
66 ATACATAAAGTTTAGTTCTTGTTTCATTTTAGTACCCGCCGTTAAAAACTTAACGCT
* * * * * * *
24813 TTTAATACCTAAACTATCAGTTTTGG-TCCGTTTTAATACATAAAC-TTCAATTTTTTCAAAA
1 TTTAGTACTTAAATTATCAGTTTTGGTTTCGTTTTAGTACCTAAACTTTCAATTTTTTTAAAA
24874 CTTAACGTTA
Statistics
Matches: 157, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
120 18 0.11
121 98 0.62
122 41 0.26
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (122 bp):
TTTAGTACTTAAATTATCAGTTTTGGTTTCGTTTTAGTACCTAAACTTTCAATTTTTTTAAAATC
ATACATAAAGTTTAGTTCTTGTTTCATTTTAGTACCCGCCGTTAAAAACTTAACGCT
Found at i:27715 original size:11 final size:12
Alignment explanation
Indices: 27688--27715 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27678 CCTTACTATT
27688 TTTTTGCCATTG
1 TTTTTGCCATTG
27700 TTTTTGCCATTG
1 TTTTTGCCATTG
27712 TTTT
1 TTTT
27716 CGTTTGTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.14, T:0.64
Consensus pattern (12 bp):
TTTTTGCCATTG
Found at i:30259 original size:20 final size:20
Alignment explanation
Indices: 30234--30272 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30224 TTATTATTAT
30234 TATTATGACGATGATGATGG
1 TATTATGACGATGATGATGG
**
30254 TATTATGGTGATGATGATG
1 TATTATGACGATGATGATG
30273 ATGATGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.31, T:0.38
Consensus pattern (20 bp):
TATTATGACGATGATGATGG
Found at i:38326 original size:37 final size:37
Alignment explanation
Indices: 38253--38326 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
38243 TTCTATTTTA
*
38253 AATTTTGTAAAAAAAATTATATAAATATTATGAATTT
1 AATTTTGTAAAAAAAATTATATAAATATTATCAATTT
* * *
38290 AATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTGTAAAAAAAATTATATAAATATTAT-CAATTT
38327 GTAATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
AATTTTGTAAAAAAAATTATATAAATATTATCAATTT
Found at i:38508 original size:20 final size:20
Alignment explanation
Indices: 38472--38509 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38462 ATCATATTCC
*
38472 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTCATTCCCA
38492 CTGGTAAT-TTTACATTCC
1 CTGGTAATCTTT-CATTCC
38510 GTGAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTCATTCCCA
Found at i:43353 original size:16 final size:16
Alignment explanation
Indices: 43332--43364 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43322 TCCACTCAAC
43332 TATGGTAAAAAATTAT
1 TATGGTAAAAAATTAT
*
43348 TATGGTTAAAAATTAT
1 TATGGTAAAAAATTAT
43364 T
1 T
43365 TTGAACATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
TATGGTAAAAAATTAT
Found at i:43891 original size:29 final size:29
Alignment explanation
Indices: 43853--43926 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43843 AAAAATATCT
43853 TTTGTTTTTGTTTTAACTCATTAAATATA
1 TTTGTTTTTGTTTTAACTCATTAAATATA
* *
43882 GTTT-TTTTTGTCTTAACTTATTAAATATA
1 -TTTGTTTTTGTTTTAACTCATTAAATATA
*
43911 TTTGTTTTTATTTTAA
1 TTTGTTTTTGTTTTAA
43927 TGTAAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 33 0.85
30 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (29 bp):
TTTGTTTTTGTTTTAACTCATTAAATATA
Found at i:43997 original size:74 final size:74
Alignment explanation
Indices: 43915--44057 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
43905 AATATATTTG
* * *
43915 TTTTTATTTTAATGTAAAAATATATTTTATTATTATC-TATTAATAATATTTTATATGTCTTAAA
1 TTTTTATTTTAATGTAAAAATATATTTT-GTATTAACTTATTAATAATATTTTATATATCTTAAA
*
43979 TTTCATTTTA
65 ATTCATTTTA
* * *
43989 TTTTTATTTTAATGTAAAACTATATTTTGTCTTAACTTATTAGTAATATTTTATATATCTTAAAA
1 TTTTTATTTTAATGTAAAAATATATTTTGTATTAACTTATTAATAATATTTTATATATCTTAAAA
44054 TTCA
66 TTCA
44058 AAAATATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 5 0.08
74 56 0.92
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (74 bp):
TTTTTATTTTAATGTAAAAATATATTTTGTATTAACTTATTAATAATATTTTATATATCTTAAAA
TTCATTTTA
Found at i:44422 original size:21 final size:20
Alignment explanation
Indices: 44385--44424 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44375 TAATTGGAAG
* *
44385 AAAATAATTTTATTAAATTA
1 AAAATAAATTAATTAAATTA
44405 AAAATAAATTAATGTAAATT
1 AAAATAAATTAAT-TAAATT
44425 GAGTCCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
AAAATAAATTAATTAAATTA
Found at i:45644 original size:20 final size:20
Alignment explanation
Indices: 45619--45663 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
45609 TTATCCGGAA
*
45619 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGAGGTTT
45639 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCGGTCTGAGGTTT
45659 AAAAA
1 AAAAA
45664 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTCTGAGGTTT
Found at i:71601 original size:22 final size:21
Alignment explanation
Indices: 71551--71602 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
71541 ATTCATAGTT
* *
71551 TTTATTA-TTTATATTATTTG
1 TTTATTATTTTATATAATTTA
*
71571 TGTTCTTATTTTATAATAATTTA
1 T-TTATTATTTTAT-ATAATTTA
71594 TTTATTATT
1 TTTATTATT
71603 ATCCTTGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 5 0.20
22 12 0.48
23 7 0.28
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATATAATTTA
Found at i:73360 original size:59 final size:58
Alignment explanation
Indices: 73277--73396 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 58
73267 AGATTTAATA
* * *
73277 AAATTCAATGTTTTATAATAAATAGA-AACTGACAAAA-AATTCATCATAGATTCACTG
1 AAATTCAATGTTTTATAATAAATAGAGAACT-AAAAAAGAATACATCATAGATTCACCG
* *
73334 AAATTCAATGACTTTTATAATAAATAGAGATCTAAAAAAGAATAGATCATAGATTCACCG
1 AAATTCAATG--TTTTATAATAAATAGAGAACTAAAAAAGAATACATCATAGATTCACCG
73394 AAA
1 AAA
73397 ACTTAACCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
57 10 0.19
59 21 0.39
60 23 0.43
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (58 bp):
AAATTCAATGTTTTATAATAAATAGAGAACTAAAAAAGAATACATCATAGATTCACCG
Found at i:80924 original size:170 final size:171
Alignment explanation
Indices: 80642--80982 Score: 659
Period size: 170 Copynumber: 2.0 Consensus size: 171
80632 TTGAGAAATG
80642 AAACTTGCAAAACGTGTCTTAAATTTGAACTACAATCATTTGAGTGGCATGCTATGATTCATAAT
1 AAACTTGCAAAACGTGTCTTAAATTTGAACTACAATCATTTGAGTGGCATGCTATGATTCATAAT
80707 GATTGGAAATAGAGTTTAAGTCTAAAATACCTGAAGGCAACGTACATATCTCTTTGTATACCCCT
66 GATTGGAAATAGAGTTTAAGTCTAAAATACCTGAAGGCAACGTACATATCTCTTTGTATA-CCCT
80772 AAATCATTAACTAGAGG-ACATCC-AGGCTTTTACCAATTGA
130 AAATCATTAACTAGAGGAACATCCAAGGCTTTTACCAATTGA
80812 AAACTTGCAAAACGTGTCTTAAATTTGAACTACAATCATTTGAGTGGCATGCTATGATTCATAAT
1 AAACTTGCAAAACGTGTCTTAAATTTGAACTACAATCATTTGAGTGGCATGCTATGATTCATAAT
80877 GATTGGAAATAGAGTTTAAGTCTAAAATACCTGAAGGCAACGTACATATCTCTTTGTATACCCTA
66 GATTGGAAATAGAGTTTAAGTCTAAAATACCTGAAGGCAACGTACATATCTCTTTGTATACCCTA
80942 AATCATTAACTAGAGGAACATCCAAGGCTTTTACCAATTGA
131 AATCATTAACTAGAGGAACATCCAAGGCTTTTACCAATTGA
80983 CGAGCAGATG
Statistics
Matches: 169, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
169 21 0.12
170 131 0.78
171 17 0.10
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (171 bp):
AAACTTGCAAAACGTGTCTTAAATTTGAACTACAATCATTTGAGTGGCATGCTATGATTCATAAT
GATTGGAAATAGAGTTTAAGTCTAAAATACCTGAAGGCAACGTACATATCTCTTTGTATACCCTA
AATCATTAACTAGAGGAACATCCAAGGCTTTTACCAATTGA
Found at i:85661 original size:84 final size:84
Alignment explanation
Indices: 85515--85679 Score: 258
Period size: 84 Copynumber: 2.0 Consensus size: 84
85505 CTTTGGAGCC
* * *
85515 ATTGAACCACCTTGAGATCCCAAAATAGCAGAACTCGATCGCATAAGCGCCGGAGAACCAGATTG
1 ATTGAACCACCCTGAGATCCCAAAATAGCAGAACTCGATCGCATAAGCGCCGAAGAAACAGATTG
*
85580 AGGGCCACCAATTGAAGGT
66 ACGGCCACCAATTGAAGGT
* * *
85599 ATTGAACCACCCTGAGATCCCAAAATAGCAGAATTTGATCGCATAAGTGCCGAAGAAACAGATTG
1 ATTGAACCACCCTGAGATCCCAAAATAGCAGAACTCGATCGCATAAGCGCCGAAGAAACAGATTG
*
85664 ACGGCCACCGATTGAA
66 ACGGCCACCAATTGAA
85680 TTTGCTTGCC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (84 bp):
ATTGAACCACCCTGAGATCCCAAAATAGCAGAACTCGATCGCATAAGCGCCGAAGAAACAGATTG
ACGGCCACCAATTGAAGGT
Found at i:87454 original size:27 final size:26
Alignment explanation
Indices: 87416--87468 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
87406 ACAGAGTCAA
*
87416 GTGGAGAGTATATATTTTTTGGGTTGG
1 GTGGAGAGTATAGA-TTTTTGGGTTGG
87443 GTGGAG-GATATAGATTTTTGGGTTGG
1 GTGGAGAG-TATAGATTTTTGGGTTGG
87469 ATCTGATCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (26 bp):
GTGGAGAGTATAGATTTTTGGGTTGG
Found at i:88505 original size:19 final size:21
Alignment explanation
Indices: 88476--88514 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
88466 TTTAACTTTT
88476 TTAATTATAATTTT-AATAAG
1 TTAATTATAATTTTGAATAAG
88496 TTAA-TATAATTTTGAATAA
1 TTAATTATAATTTTGAATAA
88515 TTTTGACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTAATTATAATTTTGAATAAG
Found at i:90243 original size:14 final size:14
Alignment explanation
Indices: 90204--90244 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
90194 TACTTTCAGA
*
90204 TTTTTTAAAAAAAT
1 TTTTTTAAAAATAT
*
90218 ATTTTTAAAAATAT
1 TTTTTTAAAAATAT
90232 TTTTTTAAAAATA
1 TTTTTTAAAAATA
90245 AAAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTTTAAAAATAT
Found at i:92066 original size:66 final size:65
Alignment explanation
Indices: 91943--92136 Score: 221
Period size: 66 Copynumber: 2.9 Consensus size: 65
91933 GTGTTGCATA
* * * *
91943 AAAGTTCTCATGGTCAGGTGAAAAAGAAGAGCTCAGATGAAGTTTT-TCCATCA-GGTGCTCAGT
1 AAAGATCTGATGGTCAAGTG-AAAAGAAGAGCTCAAATGAAGTTTTCT-CAT-ATGGTGCTCAGT
*
92006 CTC
63 CAC
* * *
92009 AAAGCTCTGATGGTCAAGTGAAAAGGCAGAGATCAAATGAAGTTTTCTCATATGGTGCTCAGTCA
1 AAAGATCTGATGGTCAAGTGAAAA-GAAGAGCTCAAATGAAGTTTTCTCATATGGTGCTCAGTCA
*
92074 G
65 C
* * *
92075 AAAGATCTGATGGTCAAGTGCAAAAGAAAAGCTCAAATGAAGTTTTCCCATCTGGTGCTCAG
1 AAAGATCTGATGGTCAAGTG-AAAAGAAGAGCTCAAATGAAGTTTTCTCATATGGTGCTCAG
92137 CTTGAGCTTA
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
65 5 0.05
66 100 0.91
67 5 0.05
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (65 bp):
AAAGATCTGATGGTCAAGTGAAAAGAAGAGCTCAAATGAAGTTTTCTCATATGGTGCTCAGTCAC
Found at i:99350 original size:15 final size:15
Alignment explanation
Indices: 99330--99363 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
99320 AATAATAACC
99330 ATAACAACTA-CAACA
1 ATAACAAC-AGCAACA
99345 ATAACAACAGCAACA
1 ATAACAACAGCAACA
99360 ATAA
1 ATAA
99364 TAAAGGACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.62, C:0.24, G:0.03, T:0.12
Consensus pattern (15 bp):
ATAACAACAGCAACA
Found at i:101714 original size:31 final size:31
Alignment explanation
Indices: 101634--101714 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
101624 TTAAAAACTA
* *
101634 TAAAATAATCATTAAATTTATTAAATTATTG
1 TAAAATGATCATTAAATTTATTAAATTATCG
*
101665 TAAAATGATCACTAAATTTATTAAATTATCG
1 TAAAATGATCATTAAATTTATTAAATTATCG
* *
101696 TAAAATGATGATTGAATTT
1 TAAAATGATCATTAAATTT
101715 TATATAATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (31 bp):
TAAAATGATCATTAAATTTATTAAATTATCG
Found at i:101889 original size:2 final size:2
Alignment explanation
Indices: 101882--101917 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
101872 TAAAATTGTA
101882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101918 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102443 original size:17 final size:15
Alignment explanation
Indices: 102410--102495 Score: 54
Period size: 15 Copynumber: 5.6 Consensus size: 15
102400 TGAGTACTAT
*
102410 TAATTTAATTTATAA
1 TAATTTAAATTATAA
102425 TAATTTAAAATTATAAA
1 TAATTT-AAATTAT-AA
*
102442 TAA-CTAAA-TAT-A
1 TAATTTAAATTATAA
102454 TAATTATAAATTAGTTAA
1 TAATT-TAAATTA--TAA
*
102472 AAATTTAAA-TATAAA
1 TAATTTAAATTAT-AA
*
102487 TTATTTAAA
1 TAATTTAAA
102496 ATAAAATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
12 4 0.07
14 8 0.14
15 20 0.36
16 9 0.16
17 10 0.18
18 5 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
TAATTTAAATTATAA
Found at i:102499 original size:14 final size:15
Alignment explanation
Indices: 102469--102505 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
102459 ATAAATTAGT
102469 TAAAA-ATTTAAATA
1 TAAAATATTTAAATA
*
102483 TAAATTATTTAAA-A
1 TAAAATATTTAAATA
102497 TAAAATATT
1 TAAAATATT
102506 AAACCCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAAATATTTAAATA
Found at i:115453 original size:26 final size:27
Alignment explanation
Indices: 115404--115460 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
115394 AGGGGTGCAC
115404 AAAAAATCCGAATATCCGATTTTGCGA
1 AAAAAATCCGAATATCCGATTTTGCGA
* *
115431 AAAAATATCCGAA-ATCGGA-TTTGGGA
1 AAAAA-ATCCGAATATCCGATTTTGCGA
115457 AAAA
1 AAAA
115461 CCGATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 10 0.37
27 10 0.37
28 7 0.26
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.23
Consensus pattern (27 bp):
AAAAAATCCGAATATCCGATTTTGCGA
Found at i:115545 original size:12 final size:12
Alignment explanation
Indices: 115530--115573 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
115520 CGGTTTTTTT
115530 ACCGGATAAAAA
1 ACCGGATAAAAA
*
115542 ACCGGTTTGAAAAAA
1 ACCGG-AT--AAAAA
115557 ACCGGATAAAAA
1 ACCGGATAAAAA
115569 ACCGG
1 ACCGG
115574 TTTTTATCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 15 0.56
13 1 0.04
14 1 0.04
15 10 0.37
ACGTcount: A:0.50, C:0.18, G:0.20, T:0.11
Consensus pattern (12 bp):
ACCGGATAAAAA
Found at i:120501 original size:21 final size:21
Alignment explanation
Indices: 120477--120516 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
120467 CATCTACAAT
120477 AACTTAATTTCAATTATCGTA
1 AACTTAATTTCAATTATCGTA
**
120498 AACTTTGTTTCAATTATCG
1 AACTTAATTTCAATTATCG
120517 AACTTGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (21 bp):
AACTTAATTTCAATTATCGTA
Found at i:120565 original size:33 final size:32
Alignment explanation
Indices: 120511--120609 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 32
120501 TTTGTTTCAA
120511 TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
120543 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTG-AAGTTTTTAAGTATTTGAAT
* * *
120576 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
120609 T
1 T
120610 ATGTTGAGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
32 12 0.19
33 49 0.79
34 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (32 bp):
TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
Found at i:120638 original size:13 final size:13
Alignment explanation
Indices: 120595--120649 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
120585 TTGGAAGTAT
120595 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
120608 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
120622 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
120635 TTAAGTATTTGAA
1 TTAAGTATTTCAA
120648 TT
1 TT
120650 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:120871 original size:21 final size:21
Alignment explanation
Indices: 120845--120901 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
120835 TGGAGCGTGG
*
120845 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
120866 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
120887 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
120902 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:121092 original size:15 final size:15
Alignment explanation
Indices: 121067--121122 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
121057 ATCTGGAATA
*
121067 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
121082 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
121097 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
121114 TTAAAACCG
1 TTAAAACCG
121123 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:121131 original size:21 final size:18
Alignment explanation
Indices: 121086--121119 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
121076 GTTTTTTTAT
121086 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
121103 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
121120 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:121223 original size:15 final size:17
Alignment explanation
Indices: 121197--121228 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
121187 TTCTATGAGA
121197 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
121213 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
121229 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:148102 original size:15 final size:18
Alignment explanation
Indices: 148069--148106 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
148059 TGTAATAATA
148069 ATAATTATTATTAATTAT
1 ATAATTATTATTAATTAT
148087 ATAATTA-TATT-A-TAT
1 ATAATTATTATTAATTAT
148102 ATAAT
1 ATAAT
148107 AAAACGAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 4 0.20
18 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTATTATTAATTAT
Found at i:148108 original size:18 final size:18
Alignment explanation
Indices: 148061--148108 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
148051 TCAAGTCTTG
148061 TAATAATAATAATTATTAT
1 TAAT-ATAATAATTATTAT
148080 TAAT-TATATAATTA-TAT
1 TAATATA-ATAATTATTAT
148097 TATATATAATAA
1 TA-ATATAATAA
148109 AACGAGACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.27
18 13 0.50
19 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATATAATAATTATTAT
Found at i:149176 original size:22 final size:22
Alignment explanation
Indices: 149140--149183 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
149130 TGTTAATGCT
149140 GAATTTTAATATTAGAAATGTTG
1 GAATTTTAATATTAGAAA-GTTG
*
149163 GAATTTT-ATGTTAGAAAGTTG
1 GAATTTTAATATTAGAAAGTTG
149184 ATTAGAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 9 0.45
23 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (22 bp):
GAATTTTAATATTAGAAAGTTG
Found at i:150780 original size:35 final size:35
Alignment explanation
Indices: 150734--150819 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
150724 ATTCTAAATG
*
150734 TTTACATTTATCAGA-CATTTCACAGTTATCAGATA
1 TTTACAATTATCAGATCATTT-ACAGTTATCAGATA
* *
150769 TTTACAATTATCAGATGATTTTCAGTTATCAGATA
1 TTTACAATTATCAGATCATTTACAGTTATCAGATA
* *
150804 TTGACAGTTATCAGAT
1 TTTACAATTATCAGAT
150820 GTAGACTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
35 41 0.91
36 4 0.09
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (35 bp):
TTTACAATTATCAGATCATTTACAGTTATCAGATA
Found at i:150781 original size:17 final size:17
Alignment explanation
Indices: 150734--150819 Score: 109
Period size: 17 Copynumber: 4.9 Consensus size: 17
150724 ATTCTAAATG
* *
150734 TTTACATTTATCAGACA
1 TTTACAGTTATCAGATA
150751 TTTCACAGTTATCAGATA
1 TTT-ACAGTTATCAGATA
*
150769 TTTACAATTATCAGATGA
1 TTTACAGTTATCAGAT-A
*
150787 TTTTCAGTTATCAGATA
1 TTTACAGTTATCAGATA
*
150804 TTGACAGTTATCAGAT
1 TTTACAGTTATCAGAT
150820 GTAGACTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
17 30 0.50
18 30 0.50
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (17 bp):
TTTACAGTTATCAGATA
Found at i:159229 original size:25 final size:25
Alignment explanation
Indices: 159201--159258 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
159191 TCAAGCAACT
159201 AGAATCAAGAGAGAATCAAAGAGAA
1 AGAATCAAGAGAGAATCAAAGAGAA
159226 AGAATCAAGAGAGAATCAAAGAGAA
1 AGAATCAAGAGAGAATCAAAGAGAA
*
159251 AGCATCAA
1 AGAATCAA
159259 ACCTCAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.59, C:0.10, G:0.22, T:0.09
Consensus pattern (25 bp):
AGAATCAAGAGAGAATCAAAGAGAA
Found at i:159231 original size:14 final size:12
Alignment explanation
Indices: 159201--159249 Score: 66
Period size: 11 Copynumber: 4.1 Consensus size: 12
159191 TCAAGCAACT
159201 AGAATC-AAGAG
1 AGAATCAAAGAG
159212 AGAATCAAAGAG
1 AGAATCAAAGAG
159224 AAAGAATC-AAGAG
1 --AGAATCAAAGAG
159237 AGAATCAAAGAG
1 AGAATCAAAGAG
159249 A
1 A
159250 AAGCATCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 12 0.35
12 11 0.32
13 5 0.15
14 6 0.18
ACGTcount: A:0.59, C:0.08, G:0.24, T:0.08
Consensus pattern (12 bp):
AGAATCAAAGAG
Found at i:159259 original size:14 final size:14
Alignment explanation
Indices: 159201--159259 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
159191 TCAAGCAACT
159201 AGAATC-AAGAG--
1 AGAATCAAAGAGAA
159212 AGAATCAAAGAGAA
1 AGAATCAAAGAGAA
159226 AGAATC-AAGAG--
1 AGAATCAAAGAGAA
159237 AGAATCAAAGAGAA
1 AGAATCAAAGAGAA
*
159251 AGCATCAAA
1 AGAATCAAA
159260 CCTCAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 12 0.29
12 10 0.24
13 5 0.12
14 14 0.34
ACGTcount: A:0.59, C:0.10, G:0.22, T:0.08
Consensus pattern (14 bp):
AGAATCAAAGAGAA
Found at i:162168 original size:31 final size:31
Alignment explanation
Indices: 162127--162196 Score: 131
Period size: 31 Copynumber: 2.2 Consensus size: 31
162117 TAACTTGAGC
162127 ACCAATAGTGCTGAACATTGGTATACGAATGT
1 ACCAA-AGTGCTGAACATTGGTATACGAATGT
162159 ACCAAAGTGCTGAACATTGGTATACGAATGT
1 ACCAAAGTGCTGAACATTGGTATACGAATGT
162190 ACCAAAG
1 ACCAAAG
162197 CGAACTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 33 0.87
32 5 0.13
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (31 bp):
ACCAAAGTGCTGAACATTGGTATACGAATGT
Found at i:164724 original size:23 final size:22
Alignment explanation
Indices: 164698--164752 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
164688 ATCCCTCTAT
*
164698 ATATTATTTTTTAAA-ATAAATCA
1 ATATT-TTTTTTAAATAAAAAT-A
*
164721 ATATTTTTATTAAATAAAAATA
1 ATATTTTTTTTAAATAAAAATA
164743 ATATTTTTTT
1 ATATTTTTTT
164753 ATTATTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTTTTTAAATAAAAATA
Found at i:173588 original size:31 final size:31
Alignment explanation
Indices: 173550--173609 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
173540 GATGTTAGAA
*
173550 GTTTGGATTCTAACATTGTGATTAAATAAAC
1 GTTTGGATTCTAACATTGTGAATAAATAAAC
*
173581 GTTTGGATTCTAACGTTGTGAATAAATAA
1 GTTTGGATTCTAACATTGTGAATAAATAA
173610 GCAAACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (31 bp):
GTTTGGATTCTAACATTGTGAATAAATAAAC
Found at i:179895 original size:21 final size:21
Alignment explanation
Indices: 179862--179914 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
179852 ATTCTAATTA
179862 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
179883 TCGCGTTGTGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
179904 TCGCAATGCGA
1 TCGCATTGCGA
179915 ATATGTTCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:181777 original size:42 final size:41
Alignment explanation
Indices: 181670--181780 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 41
181660 TCTAGAATGT
* * *
181670 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGG-CCTCTTAAACGATGACAGGGGCCTCTTGAACGA
* * ** *
181712 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATA
1 TGGGA-GGGCCTCTTAAACGATGACAGGGGCCTCTTGAACG--A
181756 TGGGA-GGCCTCTTAAACGATGACAG
1 TGGGAGGGCCTCTTAAACGATGACAG
181781 ATGAGTCGGG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 46 0.85
43 3 0.06
44 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (41 bp):
TGGGAGGGCCTCTTAAACGATGACAGGGGCCTCTTGAACGA
Found at i:182284 original size:20 final size:20
Alignment explanation
Indices: 182261--182309 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
182251 GAAACTTAAA
182261 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
182281 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
182301 ATCGCAACG
1 ATCGCAACG
182310 AGAGAATCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:182397 original size:20 final size:20
Alignment explanation
Indices: 182352--182400 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
182342 GCGATTCTTT
182352 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* ** *
182372 CATTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
182392 CGTTGCGAT
1 CGTTGCGAT
182401 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:182434 original size:87 final size:87
Alignment explanation
Indices: 182326--182487 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 87
182316 TCGCAATGTG
* * *
182326 ATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTT
1 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCAATAGTCATTTTC
*
182391 GCGTTGCGATTTTGTTGTTGCA
66 GCATTGCGATTTTGTTGTTGCA
** *
182413 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCAATAGTCATTTTC
1 ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCAATAGTCATTTTC
182478 GCATTGCGAT
66 GCATTGCGAT
182488 AGTAAACTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (87 bp):
ATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCAATAGTCATTTTC
GCATTGCGATTTTGTTGTTGCA
Found at i:182454 original size:33 final size:34
Alignment explanation
Indices: 182374--182464 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 34
182364 CAAATTCGCA
* * * *
182374 TTGCGATAGTCATTTTTGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
* ** *
182408 TTGCAATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
182441 TTGCGATAGTCATTTTCGCGTTGC
1 TTGCGATAGTCATTTTCGCGTTGC
182465 AATAGTCATT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
33 25 0.57
34 19 0.43
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
Found at i:182464 original size:20 final size:20
Alignment explanation
Indices: 182439--182490 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
182429 GCGATTCTCT
182439 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
182459 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
182479 CATTGCGATAGT
1 CGTTGCGATAGT
182491 AAACTATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:184386 original size:20 final size:20
Alignment explanation
Indices: 184363--184452 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
184353 TCTGAAACTT
184363 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
184383 AAAATCGCAACAAGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
184403 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
184423 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
184442 AAAATCGCAAC
1 AAAATCGCAAC
184453 GACAGAATCG
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
19 12 0.20
20 47 0.80
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:185053 original size:20 final size:20
Alignment explanation
Indices: 185028--185109 Score: 164
Period size: 20 Copynumber: 4.1 Consensus size: 20
185018 TTTGCGTTGT
185028 GATTTACGTATTCGCATTGC
1 GATTTACGTATTCGCATTGC
185048 GATTTACGTATTCGCATTGC
1 GATTTACGTATTCGCATTGC
185068 GATTTACGTATTCGCATTGC
1 GATTTACGTATTCGCATTGC
185088 GATTTACGTATTCGCATTGC
1 GATTTACGTATTCGCATTGC
185108 GA
1 GA
185110 ATTAGGAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
GATTTACGTATTCGCATTGC
Found at i:185130 original size:21 final size:21
Alignment explanation
Indices: 185106--185151 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
185096 TATTCGCATT
185106 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
185127 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
185148 GCGA
1 GCGA
185152 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:186598 original size:31 final size:31
Alignment explanation
Indices: 186562--186640 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
186552 AGTTTTAAAA
* *
186562 GTAACAAATTGGTCATTAACATTATCAATTT
1 GTAACAAAATGGTCACTAACATTATCAATTT
* *
186593 GTAACAAAATAGTCACTAACATTATCTATTT
1 GTAACAAAATGGTCACTAACATTATCAATTT
186624 GTAACAAAATGGTCACT
1 GTAACAAAATGGTCACT
186641 CCACCATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (31 bp):
GTAACAAAATGGTCACTAACATTATCAATTT
Found at i:188811 original size:72 final size:73
Alignment explanation
Indices: 188690--188883 Score: 241
Period size: 73 Copynumber: 2.7 Consensus size: 73
188680 GAAATTTCAG
* * *
188690 CTTTGCAGCTAACT-GTGTCTTAAC-TCTAATAGGTTTATCATTTTTGTTTATAGTAATTGTTG-
1 CTTTGCAGCTAACTAG-ATCTTAACATCTAATAGTTTTATCATTTTGGTTTATAGTAATTGTTGT
188752 TCAGCGCAA
65 TCAGCGCAA
** * *
188761 CTTTGCATTTAACTATATCTTAACATCTAATAGTTTTATCATTTTGGTTTATGGTAATTGTTGTT
1 CTTTGCAGCTAACTAGATCTTAACATCTAATAGTTTTATCATTTTGGTTTATAGTAATTGTTGTT
* * * **
188826 GATCTCTG
66 CAGCGCAA
*
188834 TTTTGCAGCTAACTAGATCTTAACATCTAATAGTTTTATCATTTTGGTTT
1 CTTTGCAGCTAACTAGATCTTAACATCTAATAGTTTTATCATTTTGGTTT
188884 CGATTAATTG
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
71 19 0.18
72 35 0.34
73 50 0.48
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (73 bp):
CTTTGCAGCTAACTAGATCTTAACATCTAATAGTTTTATCATTTTGGTTTATAGTAATTGTTGTT
CAGCGCAA
Found at i:198702 original size:4 final size:4
Alignment explanation
Indices: 198693--198721 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
198683 ATTCATCCAC
198693 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
198722 ACAATATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:201755 original size:38 final size:38
Alignment explanation
Indices: 201704--201779 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
201694 GTATTTGATT
201704 AGGTTTCCGATTACATTTCGGATCAAAGCTGATCAACC
1 AGGTTTCCGATTACATTTCGGATCAAAGCTGATCAACC
201742 AGGTTTCCGATTACATTTCGGATCAAAGCTGATCAACC
1 AGGTTTCCGATTACATTTCGGATCAAAGCTGATCAACC
201780 CTTTTCCCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (38 bp):
AGGTTTCCGATTACATTTCGGATCAAAGCTGATCAACC
Found at i:204878 original size:29 final size:29
Alignment explanation
Indices: 204845--204933 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
204835 AACGGATTTT
204845 GAGATAAAATTAGAATATTCAAAAGTTTA
1 GAGATAAAATTAGAATATTCAAAAGTTTA
* * * * *
204874 GAGATTAATTTAGAAATAGGGTCATAA-TGTA
1 GAGATAAAATTAG-AATA--TTCAAAAGTTTA
* * *
204905 GGGATATAATTAGAATATCCAAAAGTTTA
1 GAGATAAAATTAGAATATTCAAAAGTTTA
204934 AGGACTGATT
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
28 4 0.09
29 14 0.33
30 8 0.19
31 12 0.28
32 5 0.12
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.31
Consensus pattern (29 bp):
GAGATAAAATTAGAATATTCAAAAGTTTA
Found at i:210719 original size:37 final size:36
Alignment explanation
Indices: 210646--210719 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
210636 TTATATTTTA
*
210646 AATTTTGTAAAAAAATTTATATAAATATTATGAATTT
1 AATTTTGTAAAAAAA-TTATATAAATATTATCAATTT
* *
210683 AATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTGTAAA-AAAATTATATAAATATTAT-CAATTT
210720 GTAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 13 0.41
37 15 0.47
38 4 0.12
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (36 bp):
AATTTTGTAAAAAAATTATATAAATATTATCAATTT
Found at i:214067 original size:3 final size:3
Alignment explanation
Indices: 214059--214084 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
214049 GAATTGGGTT
214059 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
214085 ATACTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:216997 original size:13 final size:14
Alignment explanation
Indices: 216950--216999 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
216940 GGTATTTGAT
216950 TTATTTTATATATA
1 TTATTTTATATATA
*
216964 -TATATATATATATA
1 TTAT-TTTATATATA
216978 TTATTTTATAT-TA
1 TTATTTTATATATA
*
216991 TTTTTTTAT
1 TTATTTTAT
217000 TCATAATCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 13 0.42
14 15 0.48
15 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTATATATA
Found at i:217397 original size:21 final size:22
Alignment explanation
Indices: 217373--217429 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
217363 TAATTTTATA
217373 TATATTAACTTCAAATAT-TTT
1 TATATTAACTTCAAATATATTT
*
217394 TATATTAACTTATTAAATATATTT
1 TATATTAAC-T-TCAAATATATTT
217418 TACTATTAACTT
1 TA-TATTAACTT
217430 GATTTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 9 0.29
22 1 0.03
23 8 0.26
24 6 0.19
25 7 0.23
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATTAACTTCAAATATATTT
Found at i:217415 original size:25 final size:28
Alignment explanation
Indices: 217385--217445 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 28
217375 TATTAACTTC
217385 AAATATTTTTA-TATTAACTT-A-TTAA
1 AAATATTTTTACTATTAACTTGATTTAA
*
217410 ATATA-TTTTACTATTAACTTGATTTAA
1 AAATATTTTTACTATTAACTTGATTTAA
217437 AAATATTTT
1 AAATATTTT
217446 GTTTTTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 13 0.43
26 1 0.03
27 8 0.27
28 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (28 bp):
AAATATTTTTACTATTAACTTGATTTAA
Found at i:229466 original size:19 final size:18
Alignment explanation
Indices: 229442--229510 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
229432 ATATTATTAA
229442 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
229461 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
229479 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
229501 ATT-TTAATAA
1 ATTATTAATAA
229511 AGATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:229485 original size:27 final size:27
Alignment explanation
Indices: 229393--229490 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
229383 TAATAAATTA
* *
229393 TTAATATAATTTATATTATTTAT-TAAT
1 TTAATATAAATAATATTATTTATAT-AT
* * *
229420 TTCATATAAAAAATATTA-TTAAAT-T
1 TTAATATAAATAATATTATTTATATAT
*
229445 ATTAATAATGAATAATATTATTTATATAT
1 -TTAAT-ATAAATAATATTATTTATATAT
229474 TTAATATTAATATAATA
1 TTAATA-TAA-ATAATA
229491 ATCTAATAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 1 0.02
26 7 0.13
27 27 0.50
28 12 0.22
29 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (27 bp):
TTAATATAAATAATATTATTTATATAT
Found at i:229531 original size:23 final size:23
Alignment explanation
Indices: 229505--229549 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
229495 AATAATATTT
*
229505 TAATAAAGATATTTAATATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
229528 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
229550 ATATAACACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:239467 original size:52 final size:49
Alignment explanation
Indices: 239405--239519 Score: 176
Period size: 49 Copynumber: 2.3 Consensus size: 49
239395 TCGCTGGATC
* *
239405 CGGGGTTTAGGTTTAGTTATTATATTATAATGCCTCAAGGTGTTGTATCCAG
1 CGGGGTTTAGGCTTAG---TTATATTATAATGCCTCAAGGTGTTATATCCAG
*
239457 CGGGGTTTAGGCTTCGTTATATTATAATGCCTCAAGGTGTTATATCCAG
1 CGGGGTTTAGGCTTAGTTATATTATAATGCCTCAAGGTGTTATATCCAG
239506 CGGGGTTTAGGCTT
1 CGGGGTTTAGGCTT
239520 CGTTGTTATT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
49 46 0.77
52 14 0.23
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (49 bp):
CGGGGTTTAGGCTTAGTTATATTATAATGCCTCAAGGTGTTATATCCAG
Found at i:239488 original size:49 final size:49
Alignment explanation
Indices: 239424--239523 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
239414 GGTTTAGTTA
*
239424 TTATATTATAATGCCTCAAGGTGTTGTATCCAGCGGGGTTTAGGCTTCG
1 TTATATTATAATGCCTCAAGGTGTTATATCCAGCGGGGTTTAGGCTTCG
239473 TTATATTATAATGCCTCAAGGTGTTATATCCAGCGGGGTTTAGGCTTCG
1 TTATATTATAATGCCTCAAGGTGTTATATCCAGCGGGGTTTAGGCTTCG
239522 TT
1 TT
239524 GTTATTAGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (49 bp):
TTATATTATAATGCCTCAAGGTGTTATATCCAGCGGGGTTTAGGCTTCG
Found at i:240353 original size:14 final size:14
Alignment explanation
Indices: 240334--240386 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
240324 GAGTATGGAT
240334 AACATAAACAAACA
1 AACATAAACAAACA
* *
240348 AACAT-AACGAACG
1 AACATAAACAAACA
*
240361 AACATAAATAAACA
1 AACATAAACAAACA
240375 AACATAAACAAA
1 AACATAAACAAA
240387 TTTATTTGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.68, C:0.19, G:0.04, T:0.09
Consensus pattern (14 bp):
AACATAAACAAACA
Found at i:245799 original size:27 final size:27
Alignment explanation
Indices: 245747--245802 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
245737 CCGCCATCAC
*
245747 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCACAGCAT
* *
245774 CACTTTGAACTTGAAAGTTCACAGCAT
1 CACTTTGAACTTGAAACTCCACAGCAT
245801 CA
1 CA
245803 AGATCTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAGCAT
Found at i:249045 original size:18 final size:18
Alignment explanation
Indices: 249022--249057 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
249012 AACACATAAC
249022 TTATTAAAATGTCTCTTT
1 TTATTAAAATGTCTCTTT
*
249040 TTATTAAAATGTTTCTTT
1 TTATTAAAATGTCTCTTT
249058 CATGATATTC
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:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (18 bp):
TTATTAAAATGTCTCTTT
Found at i:258263 original size:2 final size:2
Alignment explanation
Indices: 258256--258310 Score: 57
Period size: 2 Copynumber: 29.5 Consensus size: 2
258246 CATTATAAAT
*
258256 TA TA TA TA TA TA TA TA TA TA TA T- TGA -A TA -A T- TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
258295 -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
258311 TGAATAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
1 5 0.11
2 40 0.89
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:258301 original size:32 final size:31
Alignment explanation
Indices: 258253--258319 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 31
258243 CTTCATTATA
*
258253 AATTATATATATATATATATATATATTGAAT
1 AATTATAAATATATATATATATATATTGAAT
258284 AATTATAAATAATATATATATATATATTGAAT
1 AATTATAAAT-ATATATATATATATATTGAAT
258316 AATT
1 AATT
258320 TGAGGTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.26
32 25 0.74
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
AATTATAAATATATATATATATATATTGAAT
Found at i:260593 original size:57 final size:57
Alignment explanation
Indices: 260525--260638 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
260515 AGCACCTCTC
260525 TCTTGTCTATTTCCACCAATCTTATCGTGTTTGAAGCCCCGAGACTCCATTGAAGCA
1 TCTTGTCTATTTCCACCAATCTTATCGTGTTTGAAGCCCCGAGACTCCATTGAAGCA
* * *
260582 TCTTGTCTATTTCCACCAGTCTTCTCGTGTTTGAAGCCCTGAGACTCCATTGAAGCA
1 TCTTGTCTATTTCCACCAATCTTATCGTGTTTGAAGCCCCGAGACTCCATTGAAGCA
260639 CCTCTGATCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (57 bp):
TCTTGTCTATTTCCACCAATCTTATCGTGTTTGAAGCCCCGAGACTCCATTGAAGCA
Found at i:265046 original size:15 final size:15
Alignment explanation
Indices: 265026--265059 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
265016 TAAAATATGT
*
265026 TCCAAACCTAAAATA
1 TCCAAAACTAAAATA
*
265041 TCCAAAACTAAACTA
1 TCCAAAACTAAAATA
265056 TCCA
1 TCCA
265060 TTTCAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (15 bp):
TCCAAAACTAAAATA
Found at i:271851 original size:29 final size:30
Alignment explanation
Indices: 271796--271872 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
271786 AAACGAACAT
* ** *
271796 CAAAGTTCAGTGCTATAATTGACAAAATTA
1 CAAAGTTCAGTGGTATAAGAGACAAAATGA
*
271826 -AAAGTTCAGTGGTATAAGAGATAAAATGA
1 CAAAGTTCAGTGGTATAAGAGACAAAATGA
*
271855 CTAAAGTTCAATGGTATA
1 C-AAAGTTCAGTGGTATA
271873 TGGCGTAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (30 bp):
CAAAGTTCAGTGGTATAAGAGACAAAATGA
Found at i:277665 original size:60 final size:60
Alignment explanation
Indices: 277537--277722 Score: 200
Period size: 60 Copynumber: 3.1 Consensus size: 60
277527 ACATCATATG
* * * * * *
277537 TCCCT-AACTATAACCTTTATTTTAAATTAGTCCTTAAGCTTTT-AATATTCCAATTTCA
1 TCCCTAAACTATGACCCTCATTCTAAAGTAGTCCTTAAACTTTTGAATATTCCAATTTCA
** * *
277595 TCCCTAAACTATGATTCTCATTCTAAAGTAGTCCTTAAACTTTTGAACATTCTAATTTCA
1 TCCCTAAACTATGACCCTCATTCTAAAGTAGTCCTTAAACTTTTGAATATTCCAATTTCA
* ** *
277655 TCCCTAAACTATGACCCTCTTTCTAAACCG-A-TCCCCAAACTTTTGAATATTCCAATTTTA
1 TCCCTAAACTATGACCCTCATTCTAAA--GTAGTCCTTAAACTTTTGAATATTCCAATTTCA
277715 TCCCTAAA
1 TCCCTAAA
277723 TTCATCCAAA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
58 5 0.05
59 30 0.28
60 69 0.65
61 1 0.01
62 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (60 bp):
TCCCTAAACTATGACCCTCATTCTAAAGTAGTCCTTAAACTTTTGAATATTCCAATTTCA
Found at i:299906 original size:2 final size:2
Alignment explanation
Indices: 299895--299927 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
299885 GTGAATTAAA
299895 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
299928 GTTATTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:304031 original size:24 final size:26
Alignment explanation
Indices: 303997--304060 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
303987 GATGGTTACG
303997 AAGCTGCTGCT-CC-CGCAGAAGTTC
1 AAGCTGCTGCTGCCGCGCAGAAGTTC
* * *
304021 AAGCTGATGCTGCCGTTGCTGAAGTTC
1 AAGCTGCTGCTGCCG-CGCAGAAGTTC
304048 AAGCTGCTGCTGC
1 AAGCTGCTGCTGC
304061 TGTCGTCGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 10 0.30
25 2 0.06
27 21 0.64
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (26 bp):
AAGCTGCTGCTGCCGCGCAGAAGTTC
Found at i:304062 original size:30 final size:30
Alignment explanation
Indices: 304023--304224 Score: 141
Period size: 30 Copynumber: 6.4 Consensus size: 30
304013 AGAAGTTCAA
* *
304023 GCTGATGCTGCCGTTGCTGAAGTTCAAGCT
1 GCTGCTGCTGCCGTCGCTGAAGTTCAAGCT
* * *
304053 GCTGCTGCTGTCGTCGTTGAATTTCAAGCT
1 GCTGCTGCTGCCGTCGCTGAAGTTCAAGCT
*
304083 GCCT-CTGCTGCTGTCGCTGAAGTTCAAGCTGTTGCT
1 G-CTGCTGCTGCCGTCGCTGAAGTTCAA------GCT
304119 GCTGCTGCTGCCTCTGTCGCTGAAGTTCAAGCTGCT
1 GCTGCTGCTG-C-C-GTCGCTGAAGTTCAA---GCT
304155 GCTGCTGCTGCCTCTGTCGCTGAAGTTCAAGCT
1 GCTGCTGCTG-C-C-GTCGCTGAAGTTCAAGCT
304188 GCTGCTG-T--CGT---TGAAGTTCCAA-CT
1 GCTGCTGCTGCCGTCGCTGAAGTT-CAAGCT
304212 GCTGCTGCTGCCG
1 GCTGCTGCTGCCG
304225 CTGCTGTTCA
Statistics
Matches: 146, Mismatches: 11, Indels: 33
0.77 0.06 0.17
Matches are distributed among these distances:
24 16 0.11
25 4 0.03
27 4 0.03
28 1 0.01
30 45 0.31
31 2 0.01
32 1 0.01
33 10 0.07
35 2 0.01
36 45 0.31
37 1 0.01
39 15 0.10
ACGTcount: A:0.12, C:0.28, G:0.28, T:0.32
Consensus pattern (30 bp):
GCTGCTGCTGCCGTCGCTGAAGTTCAAGCT
Found at i:304120 original size:36 final size:36
Alignment explanation
Indices: 304087--304194 Score: 164
Period size: 36 Copynumber: 2.9 Consensus size: 36
304077 CAAGCTGCCT
*
304087 CTGCTGCTGTCGCTGAAGTTCAAGCTGTTGCTGCTG
1 CTGCTGCTGTCGCTGAAGTTCAAGCTGCTGCTGCTG
304123 CTGCTGCCTCTGTCGCTGAAGTTCAAGCTGCTGCTGCTG
1 CTGCTG---CTGTCGCTGAAGTTCAAGCTGCTGCTGCTG
304162 CTGCCT-CTGTCGCTGAAGTTCAAGCTGCTGCTG
1 CTG-CTGCTGTCGCTGAAGTTCAAGCTGCTGCTG
304195 TCGTTGAAGT
Statistics
Matches: 67, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
36 33 0.49
39 32 0.48
40 2 0.03
ACGTcount: A:0.11, C:0.29, G:0.29, T:0.31
Consensus pattern (36 bp):
CTGCTGCTGTCGCTGAAGTTCAAGCTGCTGCTGCTG
Found at i:304123 original size:39 final size:38
Alignment explanation
Indices: 304080--304194 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 38
304070 TGAATTTCAA
*
304080 GCTGCCTCTG-CTGCTGTCGCTGAAGTTCAAGCTGTTGCT
1 GCTG-CTCTGCCT-CTGTCGCTGAAGTTCAAGCTGCTGCT
304119 GCTGCTGCTGCCTCTGTCGCTGAAGTTCAAGCTGCTGCT
1 GCTGCT-CTGCCTCTGTCGCTGAAGTTCAAGCTGCTGCT
304158 GCTG--CTGCCTCTGTCGCTGAAGTTCAAGCTGCTGCT
1 GCTGCTCTGCCTCTGTCGCTGAAGTTCAAGCTGCTGCT
304194 G
1 G
304195 TCGTTGAAGT
Statistics
Matches: 73, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
36 33 0.45
38 2 0.03
39 36 0.49
40 2 0.03
ACGTcount: A:0.10, C:0.30, G:0.29, T:0.31
Consensus pattern (38 bp):
GCTGCTCTGCCTCTGTCGCTGAAGTTCAAGCTGCTGCT
Found at i:304128 original size:27 final size:28
Alignment explanation
Indices: 303999--304128 Score: 113
Period size: 30 Copynumber: 4.5 Consensus size: 28
303989 TGGTTACGAA
* *
303999 GCTGCTGCTCCCGCAGAAGTTCAAGCTGAT
1 GCTGCTGCT--CGCTGAAGTTCAAGCTGTT
* * *
304029 GCTGCCG-TTGCTGAAGTTCAAGCTGCT
1 GCTGCTGCTCGCTGAAGTTCAAGCTGTT
* *
304056 GCTGCTGTCGTCGTTGAATTTCAAGCTGCCTCT
1 GCTGCTG-C-TCGCTGAAGTTCAAGCTG--T-T
304089 GCTGCTG-TCGCTGAAGTTCAAGCTGTT
1 GCTGCTGCTCGCTGAAGTTCAAGCTGTT
304116 GCTGCTGCT-GCTG
1 GCTGCTGCTCGCTG
304129 CCTCTGTCGC
Statistics
Matches: 82, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
27 34 0.41
28 2 0.02
29 1 0.01
30 37 0.45
33 8 0.10
ACGTcount: A:0.14, C:0.27, G:0.28, T:0.31
Consensus pattern (28 bp):
GCTGCTGCTCGCTGAAGTTCAAGCTGTT
Found at i:304215 original size:27 final size:26
Alignment explanation
Indices: 304159--304227 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 26
304149 GCTGCTGCTG
304159 CTGCTGCCT-CTGTCGCTGAAGTTCAA
1 CTGCTG-CTGCTGTCGCTGAAGTTCAA
*
304185 --GCTGCTGCTGTCGTTGAAGTTCCAA
1 CTGCTGCTGCTGTCGCTGAAGTT-CAA
*
304210 CTGCTGCTGCTGCCGCTG
1 CTGCTGCTGCTGTCGCTG
304228 CTGTTCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.06
24 17 0.47
25 3 0.08
27 14 0.39
ACGTcount: A:0.12, C:0.30, G:0.28, T:0.30
Consensus pattern (26 bp):
CTGCTGCTGCTGTCGCTGAAGTTCAA
Found at i:308744 original size:13 final size:13
Alignment explanation
Indices: 308726--308750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
308716 CTCTTCCCCC
308726 AACTTATAATCCT
1 AACTTATAATCCT
308739 AACTTATAATCC
1 AACTTATAATCC
308751 CTAAATCCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
AACTTATAATCCT
Found at i:308759 original size:21 final size:20
Alignment explanation
Indices: 308733--308775 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
308723 CCCAACTTAT
*
308733 AATCCTAACTTATAATCCCTA
1 AATCCTAAATTATAA-CCCTA
308754 AATCCTAAATTATAACCCTA
1 AATCCTAAATTATAACCCTA
308774 AA
1 AA
308776 CTATACTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (20 bp):
AATCCTAAATTATAACCCTA
Found at i:311396 original size:46 final size:46
Alignment explanation
Indices: 311329--311421 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
311319 AAAATTTTCA
* * *
311329 GGTTGGTTTCAGTTTGGATCAACCTTTAAATTTTCGGGTCAATTCG
1 GGTTGGTTTCAGTTCGGATCAACCTTTAAATATTCGAGTCAATTCG
* *
311375 GGTTGGTTT-AGGTTCGGATCAACCTTTAGATATTCGAGTTAATTCG
1 GGTTGGTTTCA-GTTCGGATCAACCTTTAAATATTCGAGTCAATTCG
311421 G
1 G
311422 ATTGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (46 bp):
GGTTGGTTTCAGTTCGGATCAACCTTTAAATATTCGAGTCAATTCG
Found at i:312831 original size:25 final size:25
Alignment explanation
Indices: 312783--312830 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
312773 GTTTAAGATT
*
312783 AAAATATTTTAGGGTTTATTAAAAC
1 AAAACATTTTAGGGTTTATTAAAAC
*
312808 AAAACATTTT-GGGTTTTTTAAAA
1 AAAACATTTTAGGGTTTATTAAAA
312831 AAATTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (25 bp):
AAAACATTTTAGGGTTTATTAAAAC
Found at i:314680 original size:24 final size:25
Alignment explanation
Indices: 314648--314705 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
314638 GATCCTGTAA
*
314648 ATAAAATAAT-AA-ATAAATTAGTAT
1 ATAATATAATCAACATAAATTA-TAT
*
314672 ATAATATAATCAATCATATATTATAT
1 ATAATATAATCAA-CATAAATTATAT
314698 ATAATATA
1 ATAATATA
314706 TTTTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 2 0.07
26 11 0.38
27 7 0.24
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAATATAATCAACATAAATTATAT
Found at i:315508 original size:84 final size:82
Alignment explanation
Indices: 315280--316515 Score: 1057
Period size: 84 Copynumber: 15.1 Consensus size: 82
315270 GTTATGTTGT
* * * * * *
315280 AAATGATGTGCCTTGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACATATAACCCTCCT
1 AAATGATATGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * * *
315345 AGCCTTGAGTTATGTTGT
65 AGACTTAAGCTATGCTGC
* * * * ** *
315363 AAATGATATGCCCTCGAAGCTTAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATATG-CCTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
* *
315425 TCGACTTAAGCTATGTTGC
64 TAGACTTAAGCTATGCTGC
* * * *
315444 AAATGATGTGCCGTTGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATATGCC-TTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
* *
315509 TAGACTTAAGTTGTGCTGC
64 TAGACTTAAGCTATGCTGC
* * * *
315528 AAATGATATACCTTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * *
315593 AGACTTGAGTTATGCTGT
65 AGACTTAAGCTATGCTGC
* * * * * * **
315611 GAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTTGGGGGTC--T-TTGGCAGATAACCCTTC
1 AAATGATATG-CCTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
315673 TCGACTTAAGCTATGCTGC
64 TAGACTTAAGCTATGCTGC
* * * * * *
315692 AAATGATGTGCCGTTGAGCTAAGCGTAGTCAAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTA
1 AAATGATATGCC-TTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
* * *
315757 TAGACTTAAGTTGTGCTGT
64 TAGACTTAAGCTATGCTGC
* *
315776 AAATGATATGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTC--T-TTGG-TGATAACCCTTCT
1 AAATGATATGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* ** *
315837 AGACTTGA-CTTATATTGT
65 AGACTTAAGC-TATGCTGC
* * * * ** *
315855 GAATGATATGCCCTCGAGGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATATG-CCTTGA-GCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
*
315917 TCGACTTAAGCTATGCTGC
64 TAGACTTAAGCTATGCTGC
* * * *
315936 AAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCCTTTGTTGGCACACAACCCTTC
1 AAATGATATGCC-TTGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGTTGGCAGATAACCCTTC
* *
316001 TAGACTTAAGTTGTGCTGC
64 TAGACTTAAGCTATGCTGC
* *
316020 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * * *
316085 AGACTTGAGTTATACTGT
65 AGACTTAAGCTATGCTGC
* * * * ** *
316103 GAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGAT-A-GC-TC
1 AAATGATATG-CCTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTC
316162 --GACTTAAGCTATGCTGC
64 TAGACTTAAGCTATGCTGC
* * *
316179 AAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATATGCC-TTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC
* *
316244 TAAACTTAAGTTATGCTGC
64 TAGACTTAAGCTATGCTGC
* *
316263 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
* * *
316328 AGACTTGAGTTATGCTGT
65 AGACTTAAGCTATGCTGC
* * * * * *
316346 GAATGATATGTCCTCGAAGCTGAGTGTAATCAAACTCG-GGGATC--T-TTGGCAGATAACCCTT
1 AAATGATATG-CCTTG-AGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGTTGGCAGATAACCCTT
*
316407 CTCGACTTAAGCTATGCTGC
63 CTAGACTTAAGCTATGCTGC
* * * *
316427 AAATGATGTGTCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTC
1 AAATGATATG-CCTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
* * * **
316492 TTGTCTTGAGCTATATTGC
64 TAGACTTAAGCTATGCTGC
316511 AAATG
1 AAATG
316516 TTGTCTTAAA
Statistics
Matches: 916, Mismatches: 189, Indels: 95
0.76 0.16 0.08
Matches are distributed among these distances:
75 24 0.03
76 23 0.03
78 3 0.00
79 42 0.05
80 119 0.13
81 164 0.18
82 8 0.01
83 153 0.17
84 380 0.41
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (82 bp):
AAATGATATGCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTA
GACTTAAGCTATGCTGC
Found at i:315719 original size:248 final size:248
Alignment explanation
Indices: 315280--316480 Score: 1997
Period size: 248 Copynumber: 4.9 Consensus size: 248
315270 GTTATGTTGT
* * * *
315280 AAATGATGTGCCTTGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACATATAACCCTCCT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
* * * *
315345 AGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTTAGTGTAATCGAACTCGGGGGTCTTT
66 AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
* * *
315410 GGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCA
131 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
315475 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
196 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
* *
315528 AAATGATATACCTTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
* *
315593 AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTTGGGGGTCTTT
66 AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
* *
315658 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTAAGCGTAGTCA
131 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
* *
315723 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTATAGACTTAAGTTGTGCTGT
196 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
*
315776 AAATGATATGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGT----GATAACCCTTCT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
* ** *
315837 AGACTTGACTTATATTGTGAATGATATGCCCTCGAGGCTGAGTGTAATCGAACTCGGGGGTCTTT
66 AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
*
315902 GGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
131 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
* *
315967 AACTCAAAGGTCCTTTGTTGGCACACAACCCTTCTAGACTTAAGTTGTGCTGC
196 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
316020 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
*
316085 AGACTTGAGTTATACTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
66 AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
*
316150 GGCAGAT-A----GCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
131 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
* *
316210 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAAACTTAAGTTATGCTGC
196 AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
316263 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
* * *
316328 AGACTTGAGTTATGCTGTGAATGATATGTCCTCGAAGCTGAGTGTAATCAAACTCGGGGATCTTT
66 AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
* *
316393 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGCGTAGTCG
131 GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
* *
316458 AACTCGAAGGTCTTTGGTTGGCA
196 AACTCAAAGGTCTTTTGTTGGCA
316481 AATAGCCCTT
Statistics
Matches: 892, Mismatches: 52, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
243 233 0.26
244 231 0.26
248 428 0.48
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (248 bp):
AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
AGACTTGAGTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT
GGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCG
AACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
Found at i:319484 original size:11 final size:12
Alignment explanation
Indices: 319470--319500 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
319460 AATGAAAGAG
319470 AATAAAAAAT-A
1 AATAAAAAATAA
319481 AATAAAAAATAA
1 AATAAAAAATAA
319493 AATAAAAA
1 AATAAAAA
319501 GAGTTAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:321038 original size:19 final size:19
Alignment explanation
Indices: 321014--321076 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
321004 TGTAAATAAA
321014 ATAATA-AATAAATTAGTAT
1 ATAATATAATAAATTA-TAT
*
321033 ATAATATAATCAATTATAT
1 ATAATATAATAAATTATAT
*
321052 ATTATATATAATATATT-T-T
1 A-TA-ATATAATAAATTATAT
321071 ATAATA
1 ATAATA
321077 AAATGATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.08
18 2 0.05
19 12 0.32
20 11 0.29
21 10 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATAATATAATAAATTATAT
Found at i:321041 original size:24 final size:25
Alignment explanation
Indices: 321009--321066 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
320999 GATCCTGTAA
*
321009 ATAAAATAAT-AA-ATAAATTAGTAT
1 ATAATATAATCAATATAAATTA-TAT
*
321033 ATAATATAATCAATTATATATTATAT
1 ATAATATAATCAA-TATAAATTATAT
321059 ATAATATA
1 ATAATATA
321067 TTTTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 2 0.07
26 11 0.38
27 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAATATAATCAATATAAATTATAT
Found at i:323632 original size:16 final size:16
Alignment explanation
Indices: 323605--323658 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
323595 GGCGAGCAAT
*
323605 GAGCATCGAGCTTAAC
1 GAGCAACGAGCTTAAC
*
323621 GAGTAACGAGCTTAAC
1 GAGCAACGAGCTTAAC
*
323637 GAGCAAGGAGCTTAAC
1 GAGCAACGAGCTTAAC
323653 GAGCAA
1 GAGCAA
323659 TGAGTCGAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (16 bp):
GAGCAACGAGCTTAAC
Found at i:323636 original size:9 final size:9
Alignment explanation
Indices: 323611--323656 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
323601 CAATGAGCAT
323611 CGAGCTTAA
1 CGAGCTTAA
323620 CGAG--TAA
1 CGAGCTTAA
323627 CGAGCTTAA
1 CGAGCTTAA
323636 CGAGC--AA
1 CGAGCTTAA
*
323643 GGAGCTTAA
1 CGAGCTTAA
323652 CGAGC
1 CGAGC
323657 AATGAGTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 13 0.42
9 18 0.58
ACGTcount: A:0.35, C:0.22, G:0.28, T:0.15
Consensus pattern (9 bp):
CGAGCTTAA
Found at i:328824 original size:9 final size:9
Alignment explanation
Indices: 328810--328837 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
328800 AAAACCCCCT
328810 CTCTCTCTC
1 CTCTCTCTC
328819 CTCTCTCTC
1 CTCTCTCTC
328828 CTCTCTCTC
1 CTCTCTCTC
328837 C
1 C
328838 AACCCCCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (9 bp):
CTCTCTCTC
Found at i:333023 original size:8 final size:9
Alignment explanation
Indices: 332997--333022 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
332987 ATATGTATGG
332997 GTTTTTTTT
1 GTTTTTTTT
333006 GTTTTTTTT
1 GTTTTTTTT
333015 GTTTTTTT
1 GTTTTTTT
333023 GCATTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:339329 original size:33 final size:33
Alignment explanation
Indices: 339286--339352 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
339276 AAACTTAATT
*
339286 TGATTTTTTAAGCTTTGAACATTTCATTTTTAA
1 TGATTATTTAAGCTTTGAACATTTCATTTTTAA
339319 TGATTATTTAAGCTTTGAACATTTCATTTTTAA
1 TGATTATTTAAGCTTTGAACATTTCATTTTTAA
339352 T
1 T
339353 CACTTTGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (33 bp):
TGATTATTTAAGCTTTGAACATTTCATTTTTAA
Found at i:339474 original size:36 final size:37
Alignment explanation
Indices: 339427--339503 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 37
339417 TTAATTTTTC
339427 TTAAGCATTGATAG-CGCACACACCATACAGACGTAA
1 TTAAGCATTGATAGACGCACACACCATACAGACGTAA
* *
339463 TTAAGCATTGATAGCACGCGCACACCCTACAGACGTAA
1 TTAAGCATTGATAG-ACGCACACACCATACAGACGTAA
339501 TTA
1 TTA
339504 CTCGAAACTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 14 0.38
38 23 0.62
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (37 bp):
TTAAGCATTGATAGACGCACACACCATACAGACGTAA
Found at i:346957 original size:17 final size:18
Alignment explanation
Indices: 346932--346965 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
346922 ATCTCAGGAG
*
346932 TTATGAAAT-TTTAAAAC
1 TTATAAAATATTTAAAAC
346949 TTATAAAATATTTAAAA
1 TTATAAAATATTTAAAA
346966 TACAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
TTATAAAATATTTAAAAC
Found at i:349326 original size:23 final size:23
Alignment explanation
Indices: 349296--349359 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
349286 TACTTCTGTG
* *
349296 CTGAATCATTCAACATTGTTTTA
1 CTGAATCAGTCAACACTGTTTTA
**
349319 CTGAATCAGTCGGCACTGTTTTA
1 CTGAATCAGTCAACACTGTTTTA
*
349342 CTGAATCAGTCAGCACTG
1 CTGAATCAGTCAACACTG
349360 AATCATTCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (23 bp):
CTGAATCAGTCAACACTGTTTTA
Found at i:350953 original size:21 final size:21
Alignment explanation
Indices: 350929--350977 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
350919 TTAATCCAGA
**
350929 AAAAAATTCGGTCTGGGGTTT
1 AAAAAATTCGGTCTGAAGTTT
* *
350950 -AAAAATCCGGTTTGAAGTTT
1 AAAAAATTCGGTCTGAAGTTT
350970 AAAAAATT
1 AAAAAATT
350978 GGATGGCCGG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (21 bp):
AAAAAATTCGGTCTGAAGTTT
Found at i:351535 original size:19 final size:20
Alignment explanation
Indices: 351511--351550 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
351501 TATTATATAC
351511 TATAAAAATAAATTA-AAAA
1 TATAAAAATAAATTATAAAA
351530 TATAAAAATAAATTATAAAA
1 TATAAAAATAAATTATAAAA
351550 T
1 T
351551 TACAACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TATAAAAATAAATTATAAAA
Found at i:352520 original size:20 final size:18
Alignment explanation
Indices: 352477--352517 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
352467 CTATGTTTGA
*
352477 TTTTCGCAACGTAATTGC
1 TTTTTGCAACGTAATTGC
352495 TTTTTGCAACGTAATTGC
1 TTTTTGCAACGTAATTGC
352513 TTTTT
1 TTTTT
352518 TTGGAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (18 bp):
TTTTTGCAACGTAATTGC
Found at i:354558 original size:22 final size:23
Alignment explanation
Indices: 354527--354574 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
354517 GTTTCTTAAG
354527 ATTCAAGTATAATACTAATGT-C
1 ATTCAAGTATAATACTAATGTAC
* *
354549 ATTCATGTATCATACTAATGTAC
1 ATTCAAGTATAATACTAATGTAC
354572 ATT
1 ATT
354575 TGTATGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
ATTCAAGTATAATACTAATGTAC
Found at i:354657 original size:13 final size:13
Alignment explanation
Indices: 354641--354676 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
354631 ATGTTTATAT
354641 AATTTATATTCAA
1 AATTTATATTCAA
* *
354654 AATTAATATTCAT
1 AATTTATATTCAA
354667 AATTTATATT
1 AATTTATATT
354677 GTTAGAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTATATTCAA
Found at i:374078 original size:89 final size:89
Alignment explanation
Indices: 373957--374127 Score: 222
Period size: 89 Copynumber: 1.9 Consensus size: 89
373947 TTATCGGTTG
* * * *
373957 TAATCGAAATTATTATCAATTGTGTAACTTTTTCGAGTA-AA-CAACTAATATTTT-AGATTAAA
1 TAATCAAAATTATTATCAATTGTATAAATTTTT--AGTATAAGCAACTAACATTTTAAG-TTAAA
*
374019 ACCCATTGTAATATAACATTCTTTATT
63 ACCCATCGTAATATAACATTCTTTATT
* *
374046 TAATCAAAATTATTATCAATTGTATAAATTTTTAGTATAAGCAAGTAACATTTTAAGTTAAAATC
1 TAATCAAAATTATTATCAATTGTATAAATTTTTAGTATAAGCAACTAACATTTTAAGTTAAAACC
*
374111 CATCGTAATATAGCATT
66 CATCGTAATATAACATT
374128 TTCAAATGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
87 4 0.06
88 2 0.03
89 63 0.89
90 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (89 bp):
TAATCAAAATTATTATCAATTGTATAAATTTTTAGTATAAGCAACTAACATTTTAAGTTAAAACC
CATCGTAATATAACATTCTTTATT
Found at i:374586 original size:7 final size:7
Alignment explanation
Indices: 374574--374599 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
374564 GTCATACGAA
374574 GGAACCG
1 GGAACCG
374581 GGAACCG
1 GGAACCG
374588 GGAACCG
1 GGAACCG
374595 GGAAC
1 GGAAC
374600 AGTTCAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.42, T:0.00
Consensus pattern (7 bp):
GGAACCG
Found at i:374817 original size:7 final size:7
Alignment explanation
Indices: 374805--374830 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
374795 GTCATACGAA
374805 GGAACCG
1 GGAACCG
374812 GGAACCG
1 GGAACCG
374819 GGAACCG
1 GGAACCG
374826 GGAAC
1 GGAAC
374831 AGTTCAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.42, T:0.00
Consensus pattern (7 bp):
GGAACCG
Found at i:382317 original size:219 final size:219
Alignment explanation
Indices: 381938--382377 Score: 871
Period size: 219 Copynumber: 2.0 Consensus size: 219
381928 CGTCTTTTTC
381938 CAAGTTTAGGCCATTGAAATCGGTTATCTGTGTGAGGAATCATTTCAAGAGAAGCCACTGCCCGA
1 CAAGTTTAGGCCATTGAAATCGGTTATCTGTGTGAGGAATCATTTCAAGAGAAGCCACTGCCCGA
*
382003 AAATTTATAGCTGCAATAGGTGACATAAGAAGAGTTTCTCGGCATTGAGCGATTTGAAGGCTCAT
66 AAATGTATAGCTGCAATAGGTGACATAAGAAGAGTTTCTCGGCATTGAGCGATTTGAAGGCTCAT
382068 TTGAAGCATTGTGGCATTGGGGAAGAGGTTAAGAAGTGGAAGTGCAGTTGCGGGAATTGATTTTC
131 TTGAAGCATTGTGGCATTGGGGAAGAGGTTAAGAAGTGGAAGTGCAGTTGCGGGAATTGATTTTC
382133 CAGGAAAGATAAGCTCTTCGGACA
196 CAGGAAAGATAAGCTCTTCGGACA
382157 CAAGTTTAGGCCATTGAAATCGGTTATCTGTGTGAGGAATCATTTCAAGAGAAGCCACTGCCCGA
1 CAAGTTTAGGCCATTGAAATCGGTTATCTGTGTGAGGAATCATTTCAAGAGAAGCCACTGCCCGA
382222 AAATGTATAGCTGCAATAGGTGACATAAGAAGAGTTTCTCGGCATTGAGCGATTTGAAGGCTCAT
66 AAATGTATAGCTGCAATAGGTGACATAAGAAGAGTTTCTCGGCATTGAGCGATTTGAAGGCTCAT
382287 TTGAAGCATTGTGGCATTGGGGAAGAGGTTAAGAAGTGGAAGTGCAGTTGCGGGAATTGATTTTC
131 TTGAAGCATTGTGGCATTGGGGAAGAGGTTAAGAAGTGGAAGTGCAGTTGCGGGAATTGATTTTC
382352 CAGGAAAGATAAGCTCTTCGGACA
196 CAGGAAAGATAAGCTCTTCGGACA
382376 CA
1 CA
382378 TATCGTTGTT
Statistics
Matches: 220, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 220 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (219 bp):
CAAGTTTAGGCCATTGAAATCGGTTATCTGTGTGAGGAATCATTTCAAGAGAAGCCACTGCCCGA
AAATGTATAGCTGCAATAGGTGACATAAGAAGAGTTTCTCGGCATTGAGCGATTTGAAGGCTCAT
TTGAAGCATTGTGGCATTGGGGAAGAGGTTAAGAAGTGGAAGTGCAGTTGCGGGAATTGATTTTC
CAGGAAAGATAAGCTCTTCGGACA
Found at i:392953 original size:21 final size:20
Alignment explanation
Indices: 392924--392963 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
392914 CTCTTTTTTC
*
392924 AATAATAGTATTTTTTGTTAA
1 AATAATAGTA-ATTTTGTTAA
*
392945 AATAGTAGTAATTTTGTTA
1 AATAATAGTAATTTTGTTA
392964 CCTCCAAATT
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:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
AATAATAGTAATTTTGTTAA
Done.