Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007880.1 Hibiscus syriacus cultivar Beakdansim tig00110258_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: 1382630
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 5
Found at i:29353 original size:30 final size:30
Alignment explanation
Indices: 29317--29378 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
29307 TAGCTACATA
29317 ATACTCAACATTCAATATAATTGTTAATTC
1 ATACTCAACATTCAATATAATTGTTAATTC
* * *
29347 ATACTCAACATTCATTATACTTGTTGATTC
1 ATACTCAACATTCAATATAATTGTTAATTC
29377 AT
1 AT
29379 GTTAAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (30 bp):
ATACTCAACATTCAATATAATTGTTAATTC
Found at i:47339 original size:15 final size:15
Alignment explanation
Indices: 47287--47345 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
47277 CCTGCAATGT
* *
47287 TTGGTGCTGGTGCGG
1 TTGGTGCCGGTGCTG
*
47302 TTGGTGCTGGTGCT-
1 TTGGTGCCGGTGCTG
*
47316 CTGGCTGCCGGTGCTG
1 TTGG-TGCCGGTGCTG
*
47332 TTGGTGCCGCTGCT
1 TTGGTGCCGGTGCT
47346 TTAAAAGGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 3 0.08
15 31 0.84
16 3 0.08
ACGTcount: A:0.00, C:0.22, G:0.44, T:0.34
Consensus pattern (15 bp):
TTGGTGCCGGTGCTG
Found at i:48306 original size:102 final size:101
Alignment explanation
Indices: 48192--48743 Score: 597
Period size: 102 Copynumber: 5.3 Consensus size: 101
48182 GAAGCAATTA
* * * * ** **
48192 AAGGAAGTGGTGATGGCAAGGGAAAAGGGAAAGGTGGGGGTCGTTTAAGTGGTGGTGGAGATGTT
1 AAGGAGGTGGTGATGG-GAGGGAAAAGGGAAAGGTGAGGGTAGTGCAAGTGGTGGTGGAGATACT
* *
48257 GGTGGCTCTATTAAGGCTAGTTATGGTGGTAAAGTTG
65 GGTGGCTCTATTAAGGCTAGTTCTGGAGGTAAAGTTG
48294 AAGGAGGTGGTGATGGGGAGGGAAAAGGAAAAGGAAAAGGTGAGGGTAGTGCAAGTGGTGGTGGA
1 AAGGAGGTGGTGAT-GGGAGGGAAAA-G----GG-AAAGGTGAGGGTAGTGCAAGTGGTGGTGGA
* * * *
48359 GACT-CTAGTGGCTCTATTAAGGCTAGTTTTGAAGGTGAAGTTG
59 GA-TACTGGTGGCTCTATTAAGGCTAGTTCTGGAGGTAAAGTTG
* * * * *
48402 AAGGAGGTGGTGATGGGGAGGGAAAA-GGAAGAGTTGATGGTAGTGCAAGTGGAGGTGAAGACAC
1 AAGGAGGTGGTGAT-GGGAGGGAAAAGGGAA-AGGTGAGGGTAGTGCAAGTGGTGGTGGAGATAC
*
48466 TAGTGGCTCTATTAAGGCTAGTTCTGGAGGTAAAGTTG
64 TGGTGGCTCTATTAAGGCTAGTTCTGGAGGTAAAGTTG
* ** * ** **
48504 AAGGAGGTGGTGATAGGGAGGGAAAAGGGAAAGTTGAGGGTAGCACAAATGGTGGTAAAGGCACT
1 AAGGAGGTGGTGAT-GGGAGGGAAAAGGGAAAGGTGAGGGTAGTGCAAGTGGTGGTGGAGATACT
* *
48569 GGTGACTCTATTAAGGCTAGTTCTGGAGGTAAAATTG
65 GGTGGCTCTATTAAGGCTAGTTCTGGAGGTAAAGTTG
* * **
48606 AAGGAGGTGGTGATGGCGAGGGAAAAGGGAAAGTTGGGGGTAGTGCAAGTGGTGGTGGAGATGTT
1 AAGGAGGTGGTGATGG-GAGGGAAAAGGGAAAGGTGAGGGTAGTGCAAGTGGTGGTGGAGATACT
* * *
48671 GGTAGCTCTATTAAGGTTAGTTCT-AAGGGTAAAGTTG
65 GGTGGCTCTATTAAGGCTAGTTCTGGA-GGTAAAGTTG
* *
48708 AAGGAAGTGGTGATGGAGAGGGAAAAGGGCAAGGTG
1 AAGGAGGTGGTGATGG-GAGGGAAAAGGGAAAGGTG
48744 GAGAGGTCGG
Statistics
Matches: 387, Mismatches: 50, Indels: 26
0.84 0.11 0.06
Matches are distributed among these distances:
101 5 0.01
102 285 0.74
103 7 0.02
107 2 0.01
108 87 0.22
109 1 0.00
ACGTcount: A:0.29, C:0.06, G:0.42, T:0.23
Consensus pattern (101 bp):
AAGGAGGTGGTGATGGGAGGGAAAAGGGAAAGGTGAGGGTAGTGCAAGTGGTGGTGGAGATACTG
GTGGCTCTATTAAGGCTAGTTCTGGAGGTAAAGTTG
Found at i:49241 original size:54 final size:54
Alignment explanation
Indices: 49168--49294 Score: 209
Period size: 54 Copynumber: 2.4 Consensus size: 54
49158 AAGATGAGAT
* * *
49168 TGGTGGAACTGGTAGTGGAAGTGTTTCTGTTGAGGGAAAAGGGCAGGGTGTAGG
1 TGGTGCAAGTGGTGGTGGAAGTGTTTCTGTTGAGGGAAAAGGGCAGGGTGTAGG
* *
49222 TGGTGCAAGTGGTGGTGGAAGTTTTTCTGTTGAGGGGAAAGGGCAGGGTGTAGG
1 TGGTGCAAGTGGTGGTGGAAGTGTTTCTGTTGAGGGAAAAGGGCAGGGTGTAGG
49276 TGGTGCAAGTGGTGGTGGA
1 TGGTGCAAGTGGTGGTGGA
49295 GACTCTGGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.20, C:0.06, G:0.48, T:0.27
Consensus pattern (54 bp):
TGGTGCAAGTGGTGGTGGAAGTGTTTCTGTTGAGGGAAAAGGGCAGGGTGTAGG
Found at i:51800 original size:82 final size:83
Alignment explanation
Indices: 51663--51827 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 83
51653 TGAAGGTGGC
51663 AAACACAAGGATCAATGGATGCTAGCTAGCAGACCTATAAACTGGATAACAGATACATGAACTAA
1 AAACACAAGGATCAATGGATGCTAGCTAGCAGACCTATAAACTGGATAACAGATACATGAACTAA
51728 -CCATGAAAACCAGTGTT
66 CCCATGAAAACCAGTGTT
*
51745 AAACACAAGGATCAATGGATGCTAGCTAGCAGATCTATAAACTGGATAACAGATACATGAACTAA
1 AAACACAAGGATCAATGGATGCTAGCTAGCAGACCTATAAACTGGATAACAGATACATGAACTAA
51810 CCCATGAAAACCAGTGTT
66 CCCATGAAAACCAGTGTT
51828 TGTTTACGTA
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 64 0.79
83 17 0.21
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (83 bp):
AAACACAAGGATCAATGGATGCTAGCTAGCAGACCTATAAACTGGATAACAGATACATGAACTAA
CCCATGAAAACCAGTGTT
Found at i:52598 original size:38 final size:39
Alignment explanation
Indices: 52510--52598 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
52500 CATGATACTG
* ** * *
52510 AAATAAAATAAAAACTAAAGTTTTTAACGGTGAGTATTA
1 AAATAAAACAAAAACTAAAGTTTTTAACGCAGAGCACTA
*
52549 AAATAAAACAAAAACTAAAGTTTTTAATGCAGA-CACTA
1 AAATAAAACAAAAACTAAAGTTTTTAACGCAGAGCACTA
52587 AAATAAAACAAA
1 AAATAAAACAAA
52599 GGCTATTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 15 0.34
39 29 0.66
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (39 bp):
AAATAAAACAAAAACTAAAGTTTTTAACGCAGAGCACTA
Found at i:58024 original size:18 final size:18
Alignment explanation
Indices: 58001--58039 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
57991 GGTCTTACTC
58001 TTTGTTGTTTATATATGT
1 TTTGTTGTTTATATATGT
58019 TTTGTTGTTTATATATGT
1 TTTGTTGTTTATATATGT
58037 TTT
1 TTT
58040 CAGGGGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (18 bp):
TTTGTTGTTTATATATGT
Found at i:58048 original size:20 final size:18
Alignment explanation
Indices: 58007--58049 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
57997 ACTCTTTGTT
**
58007 GTTTATATATGTTTTGTT
1 GTTTATATATGTTTTGGG
58025 GTTTATATATGTTTTCAGGG
1 GTTTATATATGTTTT--GGG
58045 GTTTA
1 GTTTA
58050 GCATTAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.71
20 6 0.29
ACGTcount: A:0.19, C:0.02, G:0.21, T:0.58
Consensus pattern (18 bp):
GTTTATATATGTTTTGGG
Found at i:63655 original size:21 final size:21
Alignment explanation
Indices: 63626--63679 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
63616 TTAATCTAGA
* * *
63626 GAACTATCGGCCCAGCGGAAT
1 GAACAATCGGCCAAGCAGAAT
63647 GAACAATCGGCCAAGCAGAAT
1 GAACAATCGGCCAAGCAGAAT
63668 GAACAATCGGCC
1 GAACAATCGGCC
63680 GACTCGGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.28, G:0.26, T:0.11
Consensus pattern (21 bp):
GAACAATCGGCCAAGCAGAAT
Found at i:71314 original size:27 final size:27
Alignment explanation
Indices: 71254--71324 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
71244 TAAGGTTCAT
* **
71254 GGGTATTTTGGTTATTTCAATACTTGA
1 GGGTATTTTAGTTATTTCAATACTCAA
*
71281 GGTTATTTTAGTTATTTCAA-AGCTCAA
1 GGGTATTTTAGTTATTTCAATA-CTCAA
71308 GGGTA-TTTAGATTATTT
1 GGGTATTTTAG-TTATTT
71325 TCTTTGATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.16
27 31 0.84
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (27 bp):
GGGTATTTTAGTTATTTCAATACTCAA
Found at i:73554 original size:30 final size:30
Alignment explanation
Indices: 73520--73659 Score: 140
Period size: 30 Copynumber: 4.7 Consensus size: 30
73510 TCGCATGCAT
* *
73520 ATGTCAGAACGGGGAGTTTATCCTATATAA
1 ATGTCAGAACGAGGAGTTTATCCTATACAA
*
73550 ATGTCAGAAC-ATGGAGTTTATCCTATATAA
1 ATGTCAGAACGA-GGAGTTTATCCTATACAA
* * * *
73580 ATGTTAGAACGGGGAGTTTATCAC-ATGCAT
1 ATGTCAGAACGAGGAGTTTATC-CTATACAA
* * * *
73610 ATGTTAGAACGAGGAGTTTATCCCATGCAG
1 ATGTCAGAACGAGGAGTTTATCCTATACAA
*
73640 ATGTCAGAACGAGGAATTTA
1 ATGTCAGAACGAGGAGTTTA
73660 CACTATGAAG
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
29 1 0.01
30 94 0.98
31 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (30 bp):
ATGTCAGAACGAGGAGTTTATCCTATACAA
Found at i:76522 original size:4 final size:4
Alignment explanation
Indices: 76513--76548 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
76503 CTCAAAATAC
76513 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
76549 CATTTACGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:84373 original size:20 final size:20
Alignment explanation
Indices: 84348--84390 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
84338 TCTAAGAGCC
*
84348 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
84368 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
84388 CAT
1 CAT
84391 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:84550 original size:37 final size:37
Alignment explanation
Indices: 84500--84580 Score: 162
Period size: 37 Copynumber: 2.2 Consensus size: 37
84490 AAAGAGGAAA
84500 GAAAATGCCGTGGCATAAGGAGACTGCTGAGCAGAAT
1 GAAAATGCCGTGGCATAAGGAGACTGCTGAGCAGAAT
84537 GAAAATGCCGTGGCATAAGGAGACTGCTGAGCAGAAT
1 GAAAATGCCGTGGCATAAGGAGACTGCTGAGCAGAAT
84574 GAAAATG
1 GAAAATG
84581 TCGAGTCTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.37, C:0.15, G:0.32, T:0.16
Consensus pattern (37 bp):
GAAAATGCCGTGGCATAAGGAGACTGCTGAGCAGAAT
Found at i:85955 original size:20 final size:20
Alignment explanation
Indices: 85930--85968 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85920 TCTACTACCA
85930 CACTATCACCATTCCATTTC
1 CACTATCACCATTCCATTTC
**
85950 CACTATGTCCATTCCATTT
1 CACTATCACCATTCCATTT
85969 TGCCATTGCA
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:0.23, C:0.36, G:0.03, T:0.38
Consensus pattern (20 bp):
CACTATCACCATTCCATTTC
Found at i:88937 original size:15 final size:16
Alignment explanation
Indices: 88917--88946 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88907 CCCTTTCATC
88917 TAGAGTG-TGGGATGG
1 TAGAGTGATGGGATGG
88932 TAGAGTGATGGGATG
1 TAGAGTGATGGGATG
88947 ACTCTCCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (16 bp):
TAGAGTGATGGGATGG
Found at i:91928 original size:20 final size:21
Alignment explanation
Indices: 91889--91980 Score: 73
Period size: 20 Copynumber: 4.5 Consensus size: 21
91879 CAATATTCAA
**
91889 TATGGATACCAGTTCATCCGG
1 TATGGATACCAGCCCATCCGG
*
91910 TATGGATACCAG-CCATCCGA
1 TATGGATACCAGCCCATCCGG
* ****
91930 TATGTATACCAATTTAT-CGG
1 TATGGATACCAGCCCATCCGG
*
91950 TATGGATACAAGCCCA-CCGG
1 TATGGATACCAGCCCATCCGG
*
91970 TATCGATACCA
1 TATGGATACCA
91981 AATATCATAT
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
20 40 0.74
21 14 0.26
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (21 bp):
TATGGATACCAGCCCATCCGG
Found at i:91979 original size:40 final size:40
Alignment explanation
Indices: 91888--91981 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 40
91878 CCAATATTCA
* *
91888 ATATGGATACCAGTTCATCCGGTATGGATACCAGCCATCCG
1 ATAT-GATACCAATTCATCCGGTATGGATACAAGCCATCCG
*
91929 ATATGTATACCAATTTAT-CGGTATGGATACAAGCCCA-CCG
1 ATATG-ATACCAATTCATCCGGTATGGATACAAG-CCATCCG
*
91969 GTATCGATACCAA
1 ATAT-GATACCAA
91982 ATATCATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
40 28 0.61
41 18 0.39
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (40 bp):
ATATGATACCAATTCATCCGGTATGGATACAAGCCATCCG
Found at i:93231 original size:2 final size:2
Alignment explanation
Indices: 93226--93283 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
93216 TATTAGTGTG
93226 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93268 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
93284 ATTTTGAAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93542 original size:21 final size:20
Alignment explanation
Indices: 93456--93613 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
93446 AAATGACCAA
**
93456 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
93475 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
93495 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
93515 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
93536 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
93557 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
93577 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
93598 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
93614 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:93642 original size:20 final size:20
Alignment explanation
Indices: 93580--93772 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
93570 CGATTTTCCA
* ** *
93580 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
93600 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
93620 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
93640 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
93660 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
93680 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
93700 ATATCGCAACGCGTAT-CGT
1 AAATCGCAACGCGTATCCGT
* * *
93719 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
93739 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
93760 AAATCGCAACGCG
1 AAATCGCAACGCG
93773 ATATTTAAAG
Statistics
Matches: 145, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.01
19 16 0.11
20 110 0.76
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:93664 original size:60 final size:59
Alignment explanation
Indices: 93580--93772 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 59
93570 CGATTTTCCA
* *
93580 AAATCGCAACGCGAATAT-GAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCG--TATCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
93640 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAT-CGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
93700 ATATCGCAACGCGTATCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
93760 AAATCGCAACGCG
1 AAATCGCAACGCG
93773 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
58 3 0.03
59 17 0.15
60 92 0.82
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (59 bp):
AAATCGCAACGCGTATCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:94199 original size:33 final size:32
Alignment explanation
Indices: 94155--94224 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
94145 TTCACTTAGA
*
94155 TTTCATTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
* *
94187 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCA-TTCGCGTTACGATTCTCTCGTTGCGAT
94220 TTTCA
1 TTTCA
94225 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 5 0.15
33 29 0.85
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (32 bp):
TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:94348 original size:20 final size:20
Alignment explanation
Indices: 94304--94413 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
94294 TGCAGAAGAG
*
94304 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
94325 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
94345 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
94366 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
94380 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
94399 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
94414 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:94361 original size:41 final size:38
Alignment explanation
Indices: 94297--94413 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
94287 TTCAATTTGC
* *
94297 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
94335 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
94376 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
94409 AGAAT
1 AGAAT
94414 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:94383 original size:14 final size:14
Alignment explanation
Indices: 94364--94420 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
94354 GAGAAATGAA
94364 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
94378 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
94397 AATCGCAACGAGAG
1 AATCGCAACGAGAG
94411 AATCGCAACG
1 AATCGCAACG
94421 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:94396 original size:33 final size:33
Alignment explanation
Indices: 94356--94436 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
94346 CGCAACGAGA
94356 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
94389 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
94422 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
94437 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:94454 original size:19 final size:19
Alignment explanation
Indices: 94432--94529 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
94422 GAAACCAAAA
*
94432 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
94451 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
94465 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
94484 TCGCGTTGCGATTTTC---
1 TCGCGTTGCGATTTTCATT
*
94500 T--CGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
94517 TCGCGTTGCGATT
1 TCGCGTTGCGATT
94530 CTCTCGTTGC
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
14 22 0.34
16 4 0.06
17 4 0.06
19 35 0.54
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:94473 original size:14 final size:14
Alignment explanation
Indices: 94454--94543 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
94444 TTTCATTTCG
94454 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
94468 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
94487 CGTTGCGATTTTCT
1 CGTTGCGATTCTCT
*
94501 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
94520 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
94534 CGTTGCGATT
1 CGTTGCGATT
94544 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 1 0.02
16 4 0.07
17 4 0.07
18 1 0.02
19 20 0.33
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:94479 original size:33 final size:33
Alignment explanation
Indices: 94437--94551 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
94427 CAAAATCGCA
94437 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
94470 TTGCGATTTTCATTTCGCGTTGCGATTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
94503 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
94536 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
94552 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:96477 original size:185 final size:186
Alignment explanation
Indices: 96247--96614 Score: 720
Period size: 185 Copynumber: 2.0 Consensus size: 186
96237 TAGATTGCTT
96247 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
96312 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
96376 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTAAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTAAA
*
96432 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
96497 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
96562 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTT
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTT
96615 GAAGTAATGC
Statistics
Matches: 181, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 95 0.52
186 86 0.48
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTAAA
Found at i:96502 original size:93 final size:93
Alignment explanation
Indices: 96247--96621 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
96237 TAGATTGCTT
*
96247 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
96312 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
96340 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
96404 TTTGTCTTTGTTTTGTCTTTTGGTTAAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
96432 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
96497 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
96525 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
96590 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
96617 AGTAA
1 AGTAA
96622 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 96 0.35
93 182 0.65
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:96709 original size:19 final size:19
Alignment explanation
Indices: 96669--96797 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
96659 TAGTTTACTT
* *
96669 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
96689 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
96708 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
96727 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
96741 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
96760 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
96774 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
96793 TCGCA
1 TCGCA
96798 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:96748 original size:33 final size:32
Alignment explanation
Indices: 96705--96797 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
96695 CGCGAAACCA
**
96705 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
96737 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
96770 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
96798 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:96795 original size:52 final size:52
Alignment explanation
Indices: 96669--96797 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
96659 TAGTTTACTT
**
96669 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
96721 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
96774 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
96798 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:96815 original size:19 final size:19
Alignment explanation
Indices: 96793--96857 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
96783 GAAACCAAAA
96793 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
96812 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
96828 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
96845 TCGCATTGCGATT
1 TCGCATTGCGATT
96858 CTGTCGTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 6 0.15
16 8 0.20
17 8 0.20
19 18 0.45
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:96834 original size:14 final size:14
Alignment explanation
Indices: 96815--96871 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
96805 TTTCATTTCG
96815 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
96829 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
96846 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
96862 CGTTGCGATT
1 CGTTGCGATT
96872 TTGGTTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:96840 original size:33 final size:33
Alignment explanation
Indices: 96798--96890 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
96788 CAAAATCGCA
*
96798 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
96831 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
96864 TTGCGATTTTGGTTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
96891 TTAAGTTTCG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:96886 original size:19 final size:20
Alignment explanation
Indices: 96862--96908 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
96852 GCGATTCTGT
*
96862 CGTTGCGATTTT-GGTTTCG
1 CGTTGCGATTTTAAGTTTCG
96881 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTAAGTTTCG
*
96901 TGTTGCGA
1 CGTTGCGA
96909 AAGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTAAGTTTCG
Found at i:98852 original size:14 final size:14
Alignment explanation
Indices: 98833--98868 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
98823 ATTGTTTAAT
98833 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
98847 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
98861 TGATTTGT
1 TGATTTGT
98869 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:98991 original size:19 final size:19
Alignment explanation
Indices: 98975--99091 Score: 163
Period size: 19 Copynumber: 6.4 Consensus size: 19
98965 AAAAATGACT
**
98975 ATCGCAATGCGAAATGACT
1 ATCGCAATGCGAAATGAAA
98994 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
99013 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
99032 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
99046 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
99065 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
99085 ATCGCAA
1 ATCGCAA
99092 CGAGAGAATC
Statistics
Matches: 88, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 56 0.64
20 16 0.18
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:99054 original size:33 final size:36
Alignment explanation
Indices: 98975--99091 Score: 141
Period size: 33 Copynumber: 3.2 Consensus size: 36
98965 AAAAATGACT
**
98975 ATCGCAATGCGAAATGACTATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAA
*
99013 ATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
99046 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA-GC-G-AATGAAA
99085 ATCGCAA
1 ATCGCAA
99092 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
33 29 0.42
34 1 0.01
35 1 0.01
36 3 0.04
38 25 0.36
39 10 0.14
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (36 bp):
ATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAA
Found at i:99058 original size:52 final size:53
Alignment explanation
Indices: 98994--99110 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
98984 CGAAATGACT
98994 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
99046 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
99099 ATCGCAATGCGA
1 ATCGCAATGCGA
99111 TTTCATTTCG
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:99135 original size:19 final size:19
Alignment explanation
Indices: 99100--99306 Score: 257
Period size: 19 Copynumber: 11.7 Consensus size: 19
99090 AACGAGAGAA
*
99100 TCGCAATGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
99118 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
99137 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
99153 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
99170 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
99189 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
99205 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
99222 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
99241 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
99257 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
99274 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
99294 TCGCATTGCGATT
1 TCGCATTGCGATT
99307 CTCTCGTTGC
Statistics
Matches: 165, Mismatches: 7, Indels: 33
0.80 0.03 0.16
Matches are distributed among these distances:
14 18 0.11
16 21 0.13
17 19 0.12
18 12 0.07
19 80 0.48
20 15 0.09
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:99165 original size:33 final size:33
Alignment explanation
Indices: 99123--99287 Score: 174
Period size: 33 Copynumber: 4.8 Consensus size: 33
99113 TCATTTCGCA
99123 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
99156 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
99192 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
99227 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
99260 TTGCGATTTTCATTTCCGCATTGCGATT
1 TTGCGATTTTCATTT-CGCATTGCGATT
99288 TTCATTTCGC
Statistics
Matches: 108, Mismatches: 12, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
31 9 0.08
32 5 0.05
33 51 0.47
34 12 0.11
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.07
39 3 0.03
40 9 0.08
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:99170 original size:52 final size:52
Alignment explanation
Indices: 99106--99320 Score: 414
Period size: 52 Copynumber: 4.1 Consensus size: 52
99096 AGAATCGCAA
99106 TGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
99157 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
99209 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
99261 TGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
99314 TGCGATT
1 TGCGATT
99321 GTAATTTCCG
Statistics
Matches: 162, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
51 5 0.03
52 112 0.69
53 45 0.28
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:99174 original size:104 final size:105
Alignment explanation
Indices: 99066--99284 Score: 271
Period size: 104 Copynumber: 2.1 Consensus size: 105
99056 GAAATGAAAA
*
99066 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA-TTTCATTTCGCATTGCGAT
1 TCGCATTGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGATTTTCATTTCGCATTGCGAT
99130 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** ** ** * *** * **
99170 TCGCATTGC-GATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGATTTTCATTTCGCATTGCGAT
99234 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
99274 TCCGCATTGCG
1 T-CGCATTGCG
99285 ATTTTCATTT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
103 20 0.21
104 68 0.71
105 8 0.08
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (105 bp):
TCGCATTGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGATTTTCATTTCGCATTGCGAT
TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:99328 original size:33 final size:33
Alignment explanation
Indices: 99175--99320 Score: 138
Period size: 33 Copynumber: 4.2 Consensus size: 33
99165 TCATTTCGCA
99175 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
99208 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
99244 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TC-CG
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
99278 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
99313 TTGCGATT
1 TTGCGATT
99321 GTAATTTCCG
Statistics
Matches: 93, Mismatches: 8, Indels: 24
0.74 0.06 0.19
Matches are distributed among these distances:
32 9 0.10
33 38 0.41
34 14 0.15
35 6 0.06
36 4 0.04
37 2 0.02
38 8 0.09
39 3 0.03
40 9 0.10
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:101615 original size:12 final size:12
Alignment explanation
Indices: 101598--101622 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101588 TCTTCGGGGA
101598 CTTTTTCTTCTT
1 CTTTTTCTTCTT
101610 CTTTTTCTTCTT
1 CTTTTTCTTCTT
101622 C
1 C
101623 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:101831 original size:24 final size:23
Alignment explanation
Indices: 101797--101842 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
101787 CTGAAACATC
*
101797 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCG-ATATTGACCAAT
*
101821 ATCAAAGTCCGATATTGACCAA
1 ATCAAAATCCGATATTGACCAA
101843 GACCAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (23 bp):
ATCAAAATCCGATATTGACCAAT
Found at i:102552 original size:20 final size:20
Alignment explanation
Indices: 102524--102773 Score: 250
Period size: 20 Copynumber: 12.5 Consensus size: 20
102514 AAATTTCAGT
* * *
102524 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
102544 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
**
102564 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
102584 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
102604 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
102624 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
102644 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
102664 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
102684 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
102704 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
102724 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
102744 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
102764 GTTGCGATTT
1 GTTGCGATTT
102774 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:102790 original size:21 final size:21
Alignment explanation
Indices: 102760--102842 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
102750 ATTTTCATAT
*
102760 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
102781 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
102802 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
102823 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
102843 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:102833 original size:42 final size:43
Alignment explanation
Indices: 102740--102838 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
102730 ATTTATGTGT
* *
102740 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
102781 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
102823 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
102839 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:106128 original size:117 final size:116
Alignment explanation
Indices: 105983--106211 Score: 286
Period size: 116 Copynumber: 2.0 Consensus size: 116
105973 ACATTATTAG
* * * *
105983 ATTTAATTCAAAATTAAATGAATAAATAAGAGAAACGG-AAAAAGATGG-TCATAAACTAAACAT
1 ATTTAATTCAAAATTAAATGAATAAATAAAAGAAACGGAAAAAAG-TGGAT-A-AAAATAAAAAA
* * *
106046 TTTATGAAATTATAAAAATT-AGGGGCCTGAATTATAAATATAAAAAATGGTTAA
63 ATTATGAAATTATAAAAATTGAGGGCCCT-AATTATAAATAGAAAAAATGGTTAA
* * *
106100 ATTTAATAT-AAAATTGAATGAATTAATAAAAGAAATGGAAAAAAGTGGATAAAAATAAAAAAAT
1 ATTTAAT-TCAAAATTAAATGAATAAATAAAAGAAACGGAAAAAAGTGGATAAAAATAAAAAAAT
*
106164 TATGAAATTATAAAAATTGAGGGCCCTAATTATAAATGGAAAAAATGG
65 TATGAAATTATAAAAATTGAGGGCCCTAATTATAAATAGAAAAAATGG
106212 GAGGCCTAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
116 46 0.47
117 43 0.44
118 8 0.08
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.27
Consensus pattern (116 bp):
ATTTAATTCAAAATTAAATGAATAAATAAAAGAAACGGAAAAAAGTGGATAAAAATAAAAAAATT
ATGAAATTATAAAAATTGAGGGCCCTAATTATAAATAGAAAAAATGGTTAA
Found at i:112996 original size:222 final size:223
Alignment explanation
Indices: 112602--113051 Score: 767
Period size: 222 Copynumber: 2.0 Consensus size: 223
112592 TCTCATTGCT
112602 GAAAATATCATGTTTGTGGTGTTGAATATTGTCCGTTGGCATTGAAATGACCAAATACAGATCAG
1 GAAAATATCATGTTTGTGGTGTTGAATATTGTCCGTTGGCATTGAAATGACCAAATACAGATCAG
* **
112667 TTGAGACATTAAGTTCTTCATCCAGACTGATGAGGAGGGTGATGTTAAATACAAACTTCTTGGTG
66 TTGAGACATCAAGTTCTTCATCCAGACTGATGAGGAGGGTGATGACAAATACAAACTTCTTGGTG
*
112732 GAGTTGTTAGATGAATCCGATTATTTTGGCATGTGACAAGGCGAGGTGTTAAATGTTTTATTCCA
131 GAGTTGTTAGATGAATCCGATCATTTTGGCATGTGACAAGGCGAGGTGTTAAATGTTTTATTCCA
*
112797 ACAAGGTCTAGATATCGCCATTGAAGAA
196 ACAAGGTCTAGACATCGCCATTGAAGAA
* * * *
112825 GAAAATATCATGTTTGTGTTGTTGAATATTGTCTGTTGGCGTTGAAATGACCAAATACGGA-CAG
1 GAAAATATCATGTTTGTGGTGTTGAATATTGTCCGTTGGCATTGAAATGACCAAATACAGATCAG
* *
112889 TTGAGACATCAAGTTCTTCATCCAGACTGATGAGGAGGGTGATGACAAATGCAAACTTTTTGGTG
66 TTGAGACATCAAGTTCTTCATCCAGACTGATGAGGAGGGTGATGACAAATACAAACTTCTTGGTG
* * *
112954 GAGTTGTTAGATGAATCTGATCATTTTGGCATGTGGCAAGGCGAGGTGTTAGATGTTTTATTCCA
131 GAGTTGTTAGATGAATCCGATCATTTTGGCATGTGACAAGGCGAGGTGTTAAATGTTTTATTCCA
113019 ACAAGGTCTAGACATCGCCATTGAAGAA
196 ACAAGGTCTAGACATCGCCATTGAAGAA
113047 GAAAA
1 GAAAA
113052 ACTTGTAGAT
Statistics
Matches: 213, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
222 156 0.73
223 57 0.27
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (223 bp):
GAAAATATCATGTTTGTGGTGTTGAATATTGTCCGTTGGCATTGAAATGACCAAATACAGATCAG
TTGAGACATCAAGTTCTTCATCCAGACTGATGAGGAGGGTGATGACAAATACAAACTTCTTGGTG
GAGTTGTTAGATGAATCCGATCATTTTGGCATGTGACAAGGCGAGGTGTTAAATGTTTTATTCCA
ACAAGGTCTAGACATCGCCATTGAAGAA
Found at i:114809 original size:36 final size:36
Alignment explanation
Indices: 114762--114902 Score: 192
Period size: 36 Copynumber: 3.9 Consensus size: 36
114752 AACACCGTCT
* *
114762 TCCATCTCCATTATCACGCTTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
114798 TCCATCACCATTATCACGCCTTTATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * * *
114834 TTCATCTCCATTATCACGCCTATATCGTCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
114870 TCCACCACCATTATCACGCCCATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
114903 ACTTATAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 91 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:114900 original size:72 final size:72
Alignment explanation
Indices: 114764--114902 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 72
114754 CACCGTCTTC
* * **
114764 CATCTCCATTATCACGCTTATATCATCACCATAGTCCATCACCATTATCACGCCTTTATCATCAC
1 CATCTCCATTATCACGCCTATATCATCACCATAGTCCACCACCATTATCACGCCCATATCATCAC
114829 CATAGTT
66 CATAGTT
* * *
114836 CATCTCCATTATCACGCCTATATCGTCACCATATTCCACCACCATTATCACGCCCATATTATCAC
1 CATCTCCATTATCACGCCTATATCATCACCATAGTCCACCACCATTATCACGCCCATATCATCAC
114901 CA
66 CA
114903 ACTTATAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (72 bp):
CATCTCCATTATCACGCCTATATCATCACCATAGTCCACCACCATTATCACGCCCATATCATCAC
CATAGTT
Found at i:115308 original size:5 final size:5
Alignment explanation
Indices: 115298--115323 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
115288 GAGAAAGAAT
115298 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
115324 CTCTTACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:115545 original size:16 final size:15
Alignment explanation
Indices: 115519--115570 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
115509 GAGTTGTAAG
115519 TTATC-TTCATTTTT
1 TTATCTTTCATTTTT
*
115533 TTATCATTTCATTTCT
1 TTATC-TTTCATTTTT
115549 TTATTCTTTCATCTTTT
1 TTA-TCTTTCAT-TTTT
115566 CTTAT
1 -TTAT
115571 TTCATTACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 5 0.16
16 17 0.55
17 6 0.19
18 3 0.10
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATCTTTCATTTTT
Found at i:118916 original size:36 final size:36
Alignment explanation
Indices: 118876--119016 Score: 210
Period size: 36 Copynumber: 3.9 Consensus size: 36
118866 AACACCATCT
*
118876 TCCATCTCCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
*
118912 TCCATCACCATTATCACGCCTTTATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
118948 TCCATCTCCATTATCACGCCTATATCGTCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
118984 TCCACCACCATTATCACGCCCATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
119017 ACTTATAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 94 1.00
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.30
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:119651 original size:16 final size:15
Alignment explanation
Indices: 119625--119676 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
119615 GAGTTGTAAG
119625 TTATC-TTCATTTTT
1 TTATCTTTCATTTTT
*
119639 TTATCATTTCATTTCT
1 TTATC-TTTCATTTTT
119655 TTATTCTTTCATCTTTT
1 TTA-TCTTTCAT-TTTT
119672 CTTAT
1 -TTAT
119677 TTCATTACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 5 0.16
16 17 0.55
17 6 0.19
18 3 0.10
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATCTTTCATTTTT
Found at i:123017 original size:36 final size:36
Alignment explanation
Indices: 122977--123117 Score: 201
Period size: 36 Copynumber: 3.9 Consensus size: 36
122967 AACACCATCT
*
122977 TCCATCTCCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
123013 TCCATCACCATTATCATGCCTTTATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
123049 TCCATCTCCATTATCACGCCTATATCGTCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* * *
123085 TCCACCACCATTATCACGCCCATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
123118 ACTTATAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 92 1.00
ACGTcount: A:0.28, C:0.37, G:0.05, T:0.30
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:126693 original size:19 final size:19
Alignment explanation
Indices: 126666--126702 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
126656 TGAGTGAACT
126666 GTTGAAGTCTGTTATGAAG
1 GTTGAAGTCTGTTATGAAG
*
126685 GTTGGAGTCTGTTATGAA
1 GTTGAAGTCTGTTATGAA
126703 TCTGTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.38
Consensus pattern (19 bp):
GTTGAAGTCTGTTATGAAG
Found at i:127853 original size:36 final size:36
Alignment explanation
Indices: 127806--127996 Score: 292
Period size: 36 Copynumber: 5.3 Consensus size: 36
127796 CCGCGTTTCT
* *
127806 AGTCGAACGGAAGGAGGCATCGACACTTCCAATTCA
1 AGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCA
*
127842 AGTCGAACGGAAGGAGGCATCGGCACTTCCTATTCA
1 AGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCA
*
127878 AGTCGAACGGAATGAGGCATCGGCACTTCCGATTCA
1 AGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCA
127914 AGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCA
1 AGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCA
* * * * *
127950 AATCGAACGAAAGGAAGCATCGACACTTCTGATTCA
1 AGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCA
*
127986 AATCGAACGGA
1 AGTCGAACGGA
127997 TAGATGTATC
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 144 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (36 bp):
AGTCGAACGGAAGGAGGCATCGGCACTTCCGATTCA
Found at i:131731 original size:23 final size:23
Alignment explanation
Indices: 131705--131770 Score: 60
Period size: 27 Copynumber: 2.7 Consensus size: 23
131695 GTCTGATGTG
131705 GCAATTTCTAGAAGGTCCAGTCA
1 GCAATTTCTAGAAGGTCCAGTCA
* *
131728 GCAACAATCTTCTAGAAGATCTAGTCA
1 G---CAAT-TTCTAGAAGGTCCAGTCA
* *
131755 GCGACTTCTAGAAGGT
1 GCAATTTCTAGAAGGT
131771 GGACGGACAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
23 11 0.32
24 2 0.06
26 4 0.12
27 17 0.50
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (23 bp):
GCAATTTCTAGAAGGTCCAGTCA
Found at i:131740 original size:27 final size:26
Alignment explanation
Indices: 131706--131756 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
131696 TCTGATGTGG
*
131706 CAATTTCTAGAAGGTCCAGTCAGCAA
1 CAATTTCTAGAAGATCCAGTCAGCAA
*
131732 CAATCTTCTAGAAGATCTAGTCAGC
1 CAAT-TTCTAGAAGATCCAGTCAGC
131757 GACTTCTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (26 bp):
CAATTTCTAGAAGATCCAGTCAGCAA
Found at i:137998 original size:13 final size:13
Alignment explanation
Indices: 137997--138039 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
137987 CCGTTTACCC
137997 GACCCGACCCGTT
1 GACCCGACCCGTT
*
138010 TACCCGACCCGTT
1 GACCCGACCCGTT
138023 GACCCGACCCGTT
1 GACCCGACCCGTT
138036 GACC
1 GACC
138040 GTTGACCGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.47, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:138033 original size:18 final size:18
Alignment explanation
Indices: 137980--138020 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
137970 ACCGGTCACA
137980 ACCCGACCCGTTTACCCG
1 ACCCGACCCGTTTACCCG
137998 ACCCGACCCGTTTACCCG
1 ACCCGACCCGTTTACCCG
138016 ACCCG
1 ACCCG
138021 TTGACCCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.51, G:0.17, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGTTTACCCG
Found at i:140579 original size:24 final size:24
Alignment explanation
Indices: 140552--140646 Score: 118
Period size: 24 Copynumber: 4.0 Consensus size: 24
140542 ATTTCCGACT
** *
140552 TGAATTCTGTTCTGATAAATGACC
1 TGAATTCTGTTCTGATATCTGATC
*
140576 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* *
140600 TGGATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGATC
* *
140624 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATATCTGAT
140647 ATCTTCGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:140590 original size:12 final size:12
Alignment explanation
Indices: 140575--140644 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
140565 GATAAATGAC
140575 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
140587 CTGATTTCTGAT
1 CTGAATTCTGTT
*
140599 CTGGATTCTGTT
1 CTGAATTCTGTT
140611 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
140623 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
140635 TTGATTTCTG
1 CTGAATTCTG
140645 ATATCTTCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
11 2 0.04
12 45 0.92
13 2 0.04
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:140643 original size:48 final size:48
Alignment explanation
Indices: 140538--140646 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
140528 AAATATTTTA
* *
140538 TCTGATTTCCGA-CTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATC-TGGATTCTGTTCTGATAAATGACCTGAATTCTGT
** **
140586 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
*
140634 TTTGATTTCTGAT
1 TCTGATTTCTGAT
140647 ATCTTCGTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 52 0.98
49 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
Found at i:142789 original size:13 final size:13
Alignment explanation
Indices: 142788--142845 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
142778 CCGTTTACCC
142788 GACCCGACCCGTT
1 GACCCGACCCGTT
*
142801 TACCCGACCCGTT
1 GACCCGACCCGTT
142814 GACCCGACCCGTT
1 GACCCGACCCGTT
*
142827 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
142842 GACC
1 GACC
142846 GTTGACCGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:142817 original size:8 final size:8
Alignment explanation
Indices: 142806--142852 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
142796 CCGTTTACCC
142806 GACCCGTT
1 GACCCGTT
142814 GACCC---
1 GACCCGTT
142819 GACCCGTT
1 GACCCGTT
142827 GA-CCGTT
1 GACCCGTT
142834 GACCCGTT
1 GACCCGTT
142842 GA-CCGTT
1 GACCCGTT
142849 GACC
1 GACC
142853 GGTGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:142824 original size:18 final size:18
Alignment explanation
Indices: 142766--142811 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
142756 ACCGGTCACA
142766 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
142784 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
142802 ACCCGACCCG
1 ACCCGACCCG
142812 TTGACCCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.52, G:0.17, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:142834 original size:7 final size:7
Alignment explanation
Indices: 142822--142853 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
142812 TTGACCCGAC
142822 CCGTTGA
1 CCGTTGA
142829 CCGTTGA
1 CCGTTGA
142836 CCCGTTGA
1 -CCGTTGA
142844 CCGTTGA
1 CCGTTGA
142851 CCG
1 CCG
142854 GTGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:142839 original size:15 final size:15
Alignment explanation
Indices: 142806--142852 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
142796 CCGTTTACCC
*
142806 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
142819 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
142834 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
142849 GACC
1 GACC
142853 GGTGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:145386 original size:12 final size:12
Alignment explanation
Indices: 145371--145430 Score: 77
Period size: 12 Copynumber: 5.0 Consensus size: 12
145361 GATAAATGAC
145371 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
145383 CTGATTTCTGAT
1 CTGAATTCTGTT
*
145395 CTGGATTCTGTT
1 CTGAATTCTGTT
145407 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
145419 CTGAATTCTGTT
1 CTGAATTCTGTT
145431 TTAATTTCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
11 2 0.05
12 37 0.90
13 2 0.05
ACGTcount: A:0.15, C:0.17, G:0.18, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:145390 original size:48 final size:48
Alignment explanation
Indices: 145334--145430 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
145324 AAATATTTTA
145334 TCTGATTTCCGA-CTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGTTCTGATAAATGACCTGAATTCTGT
* * ** **
145382 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
145430 T
1 T
145431 TTAATTTCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 41 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.46
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
Found at i:145438 original size:48 final size:48
Alignment explanation
Indices: 145351--145442 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
145341 TCCGACTTGA
*
145351 ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTAATTTCTGATCTGG
** ** *
145399 ATTCTGTTCTGATATCTGTTCTGAATTCTGTTTTAATTTCTGAT
1 ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTAATTTCTGAT
145443 ATCTTCGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (48 bp):
ATTCTGTTCTGATAAATGACCTGAATTCTGTTCTAATTTCTGATCTGG
Found at i:145440 original size:24 final size:24
Alignment explanation
Indices: 145334--145442 Score: 112
Period size: 24 Copynumber: 4.5 Consensus size: 24
145324 AAATATTTTA
*
145334 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
*** *
145358 TCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
145382 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
145406 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
145430 TTTAATTTCTGAT
1 TCTGATTTCTGAT
145443 ATCTTCGTTT
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
24 67 0.99
25 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:146783 original size:25 final size:24
Alignment explanation
Indices: 146754--146800 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
146744 ATTTTATGTT
146754 AGGATCGAATTTATAAAAATTTAAA
1 AGGATCG-ATTTATAAAAATTTAAA
*
146779 AGGATTGATTTATAAAAATTTA
1 AGGATCGATTTATAAAAATTTA
146801 GGGTCGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (24 bp):
AGGATCGATTTATAAAAATTTAAA
Found at i:147692 original size:35 final size:35
Alignment explanation
Indices: 147647--147725 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
147637 CACTACAATC
* *
147647 ATTAATGACAACTTGTTGAACAG-GTCAAAAATACA
1 ATTATTGACAACTTGTTCAA-AGTGTCAAAAATACA
* *
147682 ATTATTGACAACTTGTTCAATGTGTCAAAAGTACA
1 ATTATTGACAACTTGTTCAAAGTGTCAAAAATACA
*
147717 ACTATTGAC
1 ATTATTGAC
147726 GTGGCCTGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 1 0.03
35 37 0.97
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (35 bp):
ATTATTGACAACTTGTTCAAAGTGTCAAAAATACA
Found at i:148602 original size:4 final size:4
Alignment explanation
Indices: 148593--148617 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
148583 GTGAAAATTT
148593 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
148618 ATTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:148995 original size:29 final size:31
Alignment explanation
Indices: 148960--149035 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
148950 AAATACAAAT
* * *
148960 TAAAATTCAATGTTATAATTAA-ATAATTTC
1 TAAAATTCAATGATATAAATAATATAATATC
* *
148990 -AAAATT-TATAATATAAATAATATAATATC
1 TAAAATTCAATGATATAAATAATATAATATC
149019 TAAAATTCAATGATATA
1 TAAAATTCAATGATATA
149036 TGATATAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
28 10 0.28
29 13 0.36
30 6 0.17
31 7 0.19
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (31 bp):
TAAAATTCAATGATATAAATAATATAATATC
Found at i:149094 original size:35 final size:34
Alignment explanation
Indices: 149054--149131 Score: 131
Period size: 33 Copynumber: 2.3 Consensus size: 34
149044 TTTATCCTTA
149054 CTTAAAACACACAAATTCTTTTTTTGTAAATAGG
1 CTTAAAACACACAAATTCTTTTTTTGTAAATAGG
*
149088 CTTTAAA-ACACAAATTCTTTTTTTGTAAATAGG
1 CTTAAAACACACAAATTCTTTTTTTGTAAATAGG
149121 CTTAAATACAC
1 CTTAAA-ACAC
149132 TATTGCCTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
33 31 0.77
34 7 0.17
35 2 0.05
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (34 bp):
CTTAAAACACACAAATTCTTTTTTTGTAAATAGG
Found at i:150391 original size:30 final size:31
Alignment explanation
Indices: 150315--150400 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
150305 TGAGGGACTA
* *
150315 AAATCGAACGAACCGATAACGTTAGAGATTG
1 AAATCGGACGGACCGATAACGTTAGAGATTG
* *
150346 AAATTGGATGGACCGATAATC-TTAGA-ACTT-
1 AAATCGGACGGACCGATAA-CGTTAGAGA-TTG
*
150376 AAATCGGACGGACCGATGACGTTAG
1 AAATCGGACGGACCGATAACGTTAG
150401 TGATCATTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 1 0.02
30 21 0.47
31 22 0.49
32 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (31 bp):
AAATCGGACGGACCGATAACGTTAGAGATTG
Found at i:151065 original size:13 final size:14
Alignment explanation
Indices: 151047--151075 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
151037 TTGATGACCC
151047 AAGAA-CCAGATAA
1 AAGAACCCAGATAA
151060 AAGAACCCAGATAA
1 AAGAACCCAGATAA
151074 AA
1 AA
151076 CTTTAACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.62, C:0.17, G:0.14, T:0.07
Consensus pattern (14 bp):
AAGAACCCAGATAA
Found at i:152374 original size:6 final size:6
Alignment explanation
Indices: 152363--152387 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
152353 CATGTACTTA
152363 AGGTTC AGGTTC AGGTTC AGGTTC A
1 AGGTTC AGGTTC AGGTTC AGGTTC A
152388 AGCTTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (6 bp):
AGGTTC
Found at i:153598 original size:29 final size:29
Alignment explanation
Indices: 153556--153612 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
153546 GTTCATATTG
153556 CTTAACATGTTGCTCTATGGTACTTGTCC
1 CTTAACATGTTGCTCTATGGTACTTGTCC
153585 CTTAACATGTTGCTCTATGGTACTTGTC
1 CTTAACATGTTGCTCTATGGTACTTGTC
153613 TCTGGGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (29 bp):
CTTAACATGTTGCTCTATGGTACTTGTCC
Found at i:160502 original size:15 final size:15
Alignment explanation
Indices: 160479--160520 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
160469 AACATTAGAT
*
160479 AATAGAATAAAATAC
1 AATAAAATAAAATAC
*
160494 AATAAAATAAAAATTC
1 AATAAAAT-AAAATAC
160510 AAT-AAATAAAA
1 AATAAAATAAAA
160521 GAAGAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.46
16 9 0.38
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAATAAAATAC
Found at i:160512 original size:16 final size:15
Alignment explanation
Indices: 160487--160520 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
160477 ATAATAGAAT
160487 AAAATACAATAAAATA
1 AAAATACAAT-AAATA
*
160503 AAAATTCAATAAATA
1 AAAATACAATAAATA
160518 AAA
1 AAA
160521 GAAGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATACAATAAATA
Found at i:164037 original size:26 final size:26
Alignment explanation
Indices: 163999--164069 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 26
163989 GTTTTTTCCT
163999 TCAAATTTCGAGTTATTCGAGTCAAC
1 TCAAATTTCGAGTTATTCGAGTCAAC
*
164025 TCAAATTTTGAGTTGAGTTATTCGAGTCAAC
1 TCAAA--TT---TCGAGTTATTCGAGTCAAC
164056 TCAAATTTCGAGTT
1 TCAAATTTCGAGTT
164070 TGAATCGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 11 0.29
28 2 0.05
29 2 0.05
31 23 0.61
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (26 bp):
TCAAATTTCGAGTTATTCGAGTCAAC
Found at i:164046 original size:31 final size:31
Alignment explanation
Indices: 164008--164069 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
163998 TTCAAATTTC
*
164008 GAGTTATTCGAGTCAACTCAAATTTTGAGTT
1 GAGTTATTCGAGTCAACTCAAATTTCGAGTT
164039 GAGTTATTCGAGTCAACTCAAATTTCGAGTT
1 GAGTTATTCGAGTCAACTCAAATTTCGAGTT
164070 TGAATCGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (31 bp):
GAGTTATTCGAGTCAACTCAAATTTCGAGTT
Found at i:166228 original size:27 final size:26
Alignment explanation
Indices: 166162--166242 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
166152 TTTCTTTATT
* *
166162 TTTTTA-AGAACCCTAGAATCCTTAA
1 TTTTTACAAAACCCTAGAATCCTAAA
*
166187 -TTTT-CAAAATACCTAGAATCCCTAAA
1 TTTTTACAAAA-CCCTAGAAT-CCTAAA
166213 TTTTTACAAAACCCTAGAATACCTAAA
1 TTTTTACAAAACCCTAGAAT-CCTAAA
166240 TTT
1 TTT
166243 CGTCTGCCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
24 7 0.15
25 8 0.17
26 5 0.11
27 21 0.46
28 5 0.11
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (26 bp):
TTTTTACAAAACCCTAGAATCCTAAA
Found at i:174559 original size:10 final size:10
Alignment explanation
Indices: 174544--174568 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
174534 TAAATGTTTT
174544 TATTTATGAA
1 TATTTATGAA
174554 TATTTATGAA
1 TATTTATGAA
174564 TATTT
1 TATTT
174569 CAATTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (10 bp):
TATTTATGAA
Found at i:176782 original size:13 final size:13
Alignment explanation
Indices: 176764--176811 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
176754 AAGGACTAAT
176764 TTATTCAAAAAAA
1 TTATTCAAAAAAA
** *
176777 TTATTCAGGACTAAT
1 TTATTCA--AAAAAA
176792 TTATTCAAAAAAA
1 TTATTCAAAAAAA
176805 TTATTCA
1 TTATTCA
176812 GGACTAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 17 0.63
15 10 0.37
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (13 bp):
TTATTCAAAAAAA
Found at i:176791 original size:28 final size:28
Alignment explanation
Indices: 176755--176827 Score: 137
Period size: 28 Copynumber: 2.6 Consensus size: 28
176745 TTAATAATTA
176755 AGGACTAATTTATTCAAAAAAATTATTC
1 AGGACTAATTTATTCAAAAAAATTATTC
176783 AGGACTAATTTATTCAAAAAAATTATTC
1 AGGACTAATTTATTCAAAAAAATTATTC
*
176811 AGGACTAATTTAATCAA
1 AGGACTAATTTATTCAA
176828 GTTCCTGTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (28 bp):
AGGACTAATTTATTCAAAAAAATTATTC
Found at i:187768 original size:24 final size:25
Alignment explanation
Indices: 187722--187769 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
187712 TTTTAGTCCG
* *
187722 TTTTAAAATCTAAACTTATAATTTT
1 TTTTAAAATCTAAACCTAAAATTTT
*
187747 TTTTAAAA-CTATACCTAAAATTT
1 TTTTAAAATCTAAACCTAAAATTT
187770 AGTTTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTTAAAATCTAAACCTAAAATTTT
Found at i:187775 original size:25 final size:25
Alignment explanation
Indices: 187721--187775 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
187711 GTTTTAGTCC
* *
187721 GTTTTAAAATCTAAACTTATAATTT
1 GTTTTAAAATCTAAACCTAAAATTT
* *
187746 TTTTTAAAA-CTATACCTAAAATTT
1 GTTTTAAAATCTAAACCTAAAATTT
187770 AGTTTT
1 -GTTTT
187776 TTATTTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (25 bp):
GTTTTAAAATCTAAACCTAAAATTT
Found at i:193531 original size:33 final size:34
Alignment explanation
Indices: 193467--193550 Score: 152
Period size: 33 Copynumber: 2.5 Consensus size: 34
193457 CCGATTATAT
193467 ATATATATAATATTTTATATTATTTATATTAATC
1 ATATATATAATATTTTATATTATTTATATTAATC
*
193501 ATATATATAATATTTTATATT-TTTATATTAATT
1 ATATATATAATATTTTATATTATTTATATTAATC
193534 ATATATATAATATTTTA
1 ATATATATAATATTTTA
193551 AGGTTTGTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 28 0.57
34 21 0.43
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (34 bp):
ATATATATAATATTTTATATTATTTATATTAATC
Found at i:193846 original size:2 final size:2
Alignment explanation
Indices: 193839--193875 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
193829 ATTAAATCAT
193839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
193876 TCCTTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:202663 original size:20 final size:20
Alignment explanation
Indices: 202638--202680 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
202628 TAACATAATA
202638 TTAATT-AATATTTTAAAGAT
1 TTAATTAAATATTTTAAA-AT
202658 TTAATTAAAATATTTTAAAAT
1 TTAATT-AAATATTTTAAAAT
202679 TT
1 TT
202681 CAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 4 0.19
22 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAATTAAATATTTTAAAAT
Found at i:213737 original size:18 final size:18
Alignment explanation
Indices: 213714--213749 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
213704 AAACCCGACC
213714 CATTACATTTCATAGACA
1 CATTACATTTCATAGACA
213732 CATTACATTTCATAGACA
1 CATTACATTTCATAGACA
213750 ATTCACACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (18 bp):
CATTACATTTCATAGACA
Found at i:213974 original size:51 final size:51
Alignment explanation
Indices: 213900--214004 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
213890 GGAAGATTGT
213900 CAACAAAATACCTAGGTTTTTCTTGAAATAATAAATGACCTAAAGTGTGAA
1 CAACAAAATACCTAGGTTTTTCTTGAAATAATAAATGACCTAAAGTGTGAA
213951 CAACAAAATACCTAGGTTTTTCTTGAAATAATAAATGACCTAAAGTGTGAA
1 CAACAAAATACCTAGGTTTTTCTTGAAATAATAAATGACCTAAAGTGTGAA
214002 CAA
1 CAA
214005 AAGAAGAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (51 bp):
CAACAAAATACCTAGGTTTTTCTTGAAATAATAAATGACCTAAAGTGTGAA
Found at i:218303 original size:35 final size:35
Alignment explanation
Indices: 218264--218340 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
218254 AAGGACAAGG
*
218264 TAATTTTTA-ATA-ATAAATTAAATTTATATTAAATA
1 TAATTTTTAGATATATAAA--AAATTAATATTAAATA
*
218299 TAATTTTAAGATATATAAAAAATTAATATTAAATA
1 TAATTTTTAGATATATAAAAAATTAATATTAAATA
218334 T-ATTTTT
1 TAATTTTT
218341 CTTTAATCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 5 0.14
35 24 0.65
36 3 0.08
37 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (35 bp):
TAATTTTTAGATATATAAAAAATTAATATTAAATA
Found at i:218313 original size:22 final size:22
Alignment explanation
Indices: 218288--218337 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
218278 AAATTAAATT
* *
218288 TATATTAAATA-TAATTTTAAGA
1 TATATTAAAAATTAATATTAA-A
*
218310 TATATAAAAAATTAATATTAAA
1 TATATTAAAAATTAATATTAAA
218332 TATATT
1 TATATT
218338 TTTCTTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATTAAAAATTAATATTAAA
Found at i:220008 original size:26 final size:29
Alignment explanation
Indices: 219952--220009 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 29
219942 ATATATTTGA
219952 ATTATGTTTTTAATTAATTTTTTAATCATT
1 ATTATGTTTTTAATTAA-TTTTTAATCATT
*
219982 ATTAT-TTTTT-ATTAA-TTTTAATGATT
1 ATTATGTTTTTAATTAATTTTTAATCATT
220008 AT
1 AT
220010 AAGATAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 12 0.44
28 5 0.19
29 5 0.19
30 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (29 bp):
ATTATGTTTTTAATTAATTTTTAATCATT
Found at i:221141 original size:31 final size:31
Alignment explanation
Indices: 221077--221144 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
221067 AGGTGACCAC
* **
221077 ATCTTAAATAAATAAAAACTAAAGTGACCAT
1 ATCTTAAATAAATAAAAACGAAAGTGAAAAT
* * *
221108 ATCTTAATTAAATAAAAAGGAAGGTGAAAAT
1 ATCTTAAATAAATAAAAACGAAAGTGAAAAT
221139 ATCTTA
1 ATCTTA
221145 TGTATTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (31 bp):
ATCTTAAATAAATAAAAACGAAAGTGAAAAT
Found at i:222798 original size:18 final size:18
Alignment explanation
Indices: 222775--222814 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
222765 CAGGTATGAG
222775 CAAATGTGGATTGAACCC
1 CAAATGTGGATTGAACCC
222793 CAAATGTGGATTGAACCC
1 CAAATGTGGATTGAACCC
222811 CAAA
1 CAAA
222815 CTGTCAAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (18 bp):
CAAATGTGGATTGAACCC
Found at i:244477 original size:21 final size:20
Alignment explanation
Indices: 244447--244499 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
244437 TCCTCGACTG
* *
244447 TTTATATTCTTTACTTCTATT
1 TTTATTTTCTTTA-TTCTATC
*
244468 TTTATTTTCTTATATTGTATC
1 TTTATTTTCTT-TATTCTATC
244489 TTTA-TTTCTTT
1 TTTATTTTCTTT
244500 TTAATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 6 0.21
21 19 0.68
22 2 0.07
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTTCTTTATTCTATC
Found at i:264813 original size:228 final size:227
Alignment explanation
Indices: 264416--265048 Score: 1025
Period size: 228 Copynumber: 2.8 Consensus size: 227
264406 AAAACGTATT
* * * *
264416 GGATTGAAAGAAAGGTTTA-ACGATAAAAGAGTGGGCTTCCACAACCAATTGGGCACAACACCAT
1 GGATTGAAAGAAAGGTCTACCCG-TAAAAGAGTGGTCTTCCACAACCAATTAGGCACAACACCAT
* *
264480 GGATATGGTTGCTAGAAACATCTAAATCAGTCAACTTGTCTTGTGTTTTGAGGAATTCTGGAAAT
65 GGATATGGTTGCTAGAAAGATCTAAATCAGTCAACTTGTCTTGTGTTTTGATGAATTCTGGAAAT
* * *
264545 TCAGTGAGGTTGCATGAGCTCAGTCTTAATTCCTCTAATTGGGGAAAAGTGAGGTTTCTCTTGTC
130 TCAGTGAGGTTGCATGAGCT-AGTATTAATCCCTCTAATTGGGGAAAAGTGAGGTTTCCCTTGTC
*
264610 ACTTGTTCGGTTTGGATTTTCTGAAACATTAATG
194 ACTTGTTCGGTTTGGATTTTCTGAAACAATAATG
*
264644 GGATTGAAAGAAAGGTCTACCCGTAAAAGAGTGGTATTCCACAACCAATTAGGCACAACACCATG
1 GGATTGAAAGAAAGGTCTACCCGTAAAAGAGTGGTCTTCCACAACCAATTAGGCACAACACCATG
* *
264709 GATATTGTTTCTAGAAAGATCTAAATCAGTCAACTTGTCTTGTGTTTTGATGAATTCTGGAAATT
66 GATATGGTTGCTAGAAAGATCTAAATCAGTCAACTTGTCTTGTGTTTTGATGAATTCTGGAAATT
* *
264774 CAGTGAGGTTGCATGAGCGTAGAATTAGTCCCTCTAATTGGGGAAAAGTGAGGTTTCCCTTGTCA
131 CAGTGAGGTTGCATGAGC-TAGTATTAATCCCTCTAATTGGGGAAAAGTGAGGTTTCCCTTGTCA
*
264839 CTTGTTCGGTTTGGATTTTCTGAACCAATAATG
195 CTTGTTCGGTTTGGATTTTCTGAAACAATAATG
264872 GGATTGAAAGAAAGGTCTACCCGTAAAAGAGTGGTCTTCCACAACCAATTAGGCACAACACCATG
1 GGATTGAAAGAAAGGTCTACCCGTAAAAGAGTGGTCTTCCACAACCAATTAGGCACAACACCATG
* * * *
264937 GATATGGTTGCTAGAAAGATCTAGATAAGTCAACTTATCTAGTGTTTTGATGAATTCTGGAAATT
66 GATATGGTTGCTAGAAAGATCTAAATCAGTCAACTTGTCTTGTGTTTTGATGAATTCTGGAAATT
**
265002 CAGTGAGGTTGCATGAGCTTAGTATTAAAGCCTCTAATTGGGGAAAA
131 CAGTGAGGTTGCATGAGC-TAGTATTAATCCCTCTAATTGGGGAAAA
265049 TATTGAAGAC
Statistics
Matches: 375, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
228 372 0.99
229 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (227 bp):
GGATTGAAAGAAAGGTCTACCCGTAAAAGAGTGGTCTTCCACAACCAATTAGGCACAACACCATG
GATATGGTTGCTAGAAAGATCTAAATCAGTCAACTTGTCTTGTGTTTTGATGAATTCTGGAAATT
CAGTGAGGTTGCATGAGCTAGTATTAATCCCTCTAATTGGGGAAAAGTGAGGTTTCCCTTGTCAC
TTGTTCGGTTTGGATTTTCTGAAACAATAATG
Found at i:275829 original size:18 final size:18
Alignment explanation
Indices: 275803--275839 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
275793 TGATTGATGA
275803 TTTTATCTTTCTTCTTTT
1 TTTTATCTTTCTTCTTTT
* *
275821 TTTTTTCTTTTTTCTTTT
1 TTTTATCTTTCTTCTTTT
275839 T
1 T
275840 AGATTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTATCTTTCTTCTTTT
Found at i:278287 original size:42 final size:42
Alignment explanation
Indices: 278205--278323 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 42
278195 CCGTGCAAGG
* * ** * ** *
278205 TCAAGATCCAAATCAAAATCACCCCTTAGTTACCGGAGAAGA
1 TCAAGATCCAAGTCAAGATCACCAATCAGTTATAGAAGAAGA
* * * * *
278247 TTAAGATCCAAGTCAAGGTCACCAATTATTTATAGAAGAAGG
1 TCAAGATCCAAGTCAAGATCACCAATCAGTTATAGAAGAAGA
* *
278289 TCGAGGTCCAAGTCAAGATCACCAATCAGTTATAG
1 TCAAGATCCAAGTCAAGATCACCAATCAGTTATAG
278324 GCGAAGAAGG
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (42 bp):
TCAAGATCCAAGTCAAGATCACCAATCAGTTATAGAAGAAGA
Found at i:278337 original size:42 final size:42
Alignment explanation
Indices: 278253--278338 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
278243 AAGATTAAGA
* * * **
278253 TCCAAGTCAAGGTCACCAATTATTTATAGAAGAAGGTCGAGG
1 TCCAAGTCAAGATCACCAATCAGTTATAGAAGAAGAACGAGG
** *
278295 TCCAAGTCAAGATCACCAATCAGTTATAGGCGAAGAAGGAGG
1 TCCAAGTCAAGATCACCAATCAGTTATAGAAGAAGAACGAGG
278337 TC
1 TC
278339 TCGCTCTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (42 bp):
TCCAAGTCAAGATCACCAATCAGTTATAGAAGAAGAACGAGG
Found at i:279090 original size:45 final size:45
Alignment explanation
Indices: 279063--279225 Score: 263
Period size: 45 Copynumber: 3.6 Consensus size: 45
279053 AAGGTGGTCG
* * *
279063 AGGTCGAGATCTGCTGATGGCAAGCATCGGGATAGAGAGCGATCA
1 AGGTCAAGATCTGCTGATGGCAAGCATCGTGATAGAAAGCGATCA
* *
279108 AGGTCGAGATCTGCTGATGGCAAGCATCGTGATAGAAAGCGGTCA
1 AGGTCAAGATCTGCTGATGGCAAGCATCGTGATAGAAAGCGATCA
279153 AGGTCAAGATCTGCTGATGGCAAGCATCGTGATAGAAAGCGATCA
1 AGGTCAAGATCTGCTGATGGCAAGCATCGTGATAGAAAGCGATCA
* *
279198 AGGTCAAGAACTGCTTATGGCAAGCATC
1 AGGTCAAGATCTGCTGATGGCAAGCATC
279226 ACAGAGGAAG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (45 bp):
AGGTCAAGATCTGCTGATGGCAAGCATCGTGATAGAAAGCGATCA
Found at i:279157 original size:90 final size:90
Alignment explanation
Indices: 279039--279226 Score: 279
Period size: 90 Copynumber: 2.1 Consensus size: 90
279029 TAGGAAATCT
* * * * *
279039 AAGCATCAGGATAGAAGGTGGTCGAGGTCGAGATCTGCTGATGGCAAGCATCGGGATAGAGAGCG
1 AAGCATCAGGATAGAAAGCGGTCAAGGTCAAGATCTGCTGATGGCAAGCATCGGGATAGAAAGCG
* *
279104 ATCAAGGTCGAGATCTGCTGATGGC
66 ATCAAGGTCAAGAACTGCTGATGGC
*
279129 AAGCATC-GTGATAGAAAGCGGTCAAGGTCAAGATCTGCTGATGGCAAGCATCGTGATAGAAAGC
1 AAGCATCAG-GATAGAAAGCGGTCAAGGTCAAGATCTGCTGATGGCAAGCATCGGGATAGAAAGC
*
279193 GATCAAGGTCAAGAACTGCTTATGGC
65 GATCAAGGTCAAGAACTGCTGATGGC
279219 AAGCATCA
1 AAGCATCA
279227 CAGAGGAAGC
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
89 1 0.01
90 86 0.99
ACGTcount: A:0.31, C:0.18, G:0.32, T:0.19
Consensus pattern (90 bp):
AAGCATCAGGATAGAAAGCGGTCAAGGTCAAGATCTGCTGATGGCAAGCATCGGGATAGAAAGCG
ATCAAGGTCAAGAACTGCTGATGGC
Found at i:283366 original size:23 final size:23
Alignment explanation
Indices: 283340--283392 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
283330 TTCTTTCAGT
283340 GTCAAATCTTTTAAATTATTCTC
1 GTCAAATCTTTTAAATTATTCTC
283363 GTCAAATCTTTTAAATTATTCTC
1 GTCAAATCTTTTAAATTATTCTC
*
283386 ATCAAAT
1 GTCAAAT
283393 ATTTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (23 bp):
GTCAAATCTTTTAAATTATTCTC
Found at i:286962 original size:21 final size:20
Alignment explanation
Indices: 286930--286978 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
286920 GTTTTTTTAT
*
286930 AAATAAATTTTTTTAACTAA
1 AAATAAATTTTTATAACTAA
*
286950 AAATAATATTTTTATAATTAA
1 AAATAA-ATTTTTATAACTAA
286971 AAATAAAT
1 AAATAAAT
286979 AGTGAGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATAAATTTTTATAACTAA
Found at i:290833 original size:71 final size:71
Alignment explanation
Indices: 290717--290858 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
290707 ATAGAAAAAC
*
290717 ATGACATAGATTCATATAGACCATATACAATTGAAAGAACAATTGAGATGTTCATTCAGTCGTAA
1 ATGACATAGATTCATATAGACCATATACAATTGAAAGAACAATTGAGATGTTCATTCAGTCATAA
290782 ATATAA
66 ATATAA
* *
290788 ATGACATAGATTCATATAGACCATATACGATTGAAATAACAATTGAGATGTTCATTCAGTCATAA
1 ATGACATAGATTCATATAGACCATATACAATTGAAAGAACAATTGAGATGTTCATTCAGTCATAA
290853 ATATAA
66 ATATAA
290859 CAACTAGTGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (71 bp):
ATGACATAGATTCATATAGACCATATACAATTGAAAGAACAATTGAGATGTTCATTCAGTCATAA
ATATAA
Found at i:294517 original size:23 final size:23
Alignment explanation
Indices: 294481--294568 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
294471 AATAATTATG
*
294481 TCTTTATGAAACATTTTTTTCTA
1 TCTTTATGACACATTTTTTTCTA
* * *
294504 TTTTTATGACACATTTTCTTCTG
1 TCTTTATGACACATTTTTTTCTA
* *
294527 CCTTTATGACACATTTTTCGT-TA
1 TCTTTATGACACATTTTT-TTCTA
*
294550 TCTTTATGACACGTTTTTT
1 TCTTTATGACACATTTTTT
294569 ATCGTTTAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
23 51 0.98
24 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.55
Consensus pattern (23 bp):
TCTTTATGACACATTTTTTTCTA
Done.