Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_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: 2941097
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 16
Found at i:1670 original size:20 final size:20
Alignment explanation
Indices: 1645--1718 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1635 AACTTGGACT
1645 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
***
1665 ATCGCAATGCG-ATAGTCGGCT
1 ATCGCAATGCGAATA-T-GTAA
1686 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
1706 ATCGCAATGCGAA
1 ATCGCAATGCGAA
1719 CTTGGACTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 26 0.58
21 13 0.29
22 3 0.07
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:1732 original size:21 final size:21
Alignment explanation
Indices: 1604--1738 Score: 118
Period size: 21 Copynumber: 6.5 Consensus size: 21
1594 GTTTCCAGAT
* *
1604 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
1625 TCGCAACGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
1646 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
1666 TCGCAATGCGATAGTCGG-CTA
1 TCGCAATGCGA-ACTTGGACTA
* *
1687 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
1707 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
1728 TCGCATTGCGA
1 TCGCAATGCGA
1739 TTTACATATT
Statistics
Matches: 93, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.01
20 31 0.33
21 60 0.65
22 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:1752 original size:41 final size:41
Alignment explanation
Indices: 1624--1738 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
1614 AACTTCGACT
*
1624 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
* *
1665 ATCGCAATGCGATAGTCGG-CTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGAATATGTAA
*
1706 ATCGCAATGCGAACTTGGACTATCGCATTGCGA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGA
1739 TTTACATATT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
40 4 0.06
41 58 0.88
42 4 0.06
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (41 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
Found at i:1772 original size:82 final size:82
Alignment explanation
Indices: 1624--1774 Score: 191
Period size: 82 Copynumber: 1.8 Consensus size: 82
1614 AACTTCGACT
****
1624 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGGCTATC
1 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAAATC
1689 GCAATGCGAATATGTAA
66 GCAATGCGAATATGTAA
* * *
1706 ATCGCAATGCGAACTTGGACTATCGCATTGCG-AT-T-TACATATTCGCATTGCGATAGTCCAAA
1 ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCCAAA
1768 ATCGCAA
63 ATCGCAA
1775 CAATTGGTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 2 0.03
80 2 0.03
81 3 0.05
82 52 0.88
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (82 bp):
ATCGCAACGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAAATC
GCAATGCGAATATGTAA
Found at i:2383 original size:6 final size:6
Alignment explanation
Indices: 2372--2398 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2362 TCTCATCTCG
2372 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
2399 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:2536 original size:21 final size:20
Alignment explanation
Indices: 2484--2545 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
2474 CGTTGCGATT
2484 TTGGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
*
2503 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
2526 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
2546 TATGTAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.17
21 19 0.53
23 11 0.31
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:5439 original size:22 final size:22
Alignment explanation
Indices: 5411--5473 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
5401 GAGGGTCTAC
*
5411 GTGGTCCTTCGGGACATATACA
1 GTGGTCCTTCGGGACAAATACA
5433 GTGGTCCTTCGGGACAAATACA
1 GTGGTCCTTCGGGACAAATACA
5455 -TAGGTCCTTCGGGACAAAT
1 GT-GGTCCTTCGGGACAAAT
5474 TTCATATGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (22 bp):
GTGGTCCTTCGGGACAAATACA
Found at i:6253 original size:22 final size:21
Alignment explanation
Indices: 6211--6255 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
6201 TGTAGCAGTA
*
6211 CTGTAGCAGGGTATCGATTCC
1 CTGTAGCAGGGAATCGATTCC
*
6232 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCA-GGGAATCGATTCC
6254 CT
1 CT
6256 TTTTTAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (21 bp):
CTGTAGCAGGGAATCGATTCC
Found at i:7542 original size:21 final size:21
Alignment explanation
Indices: 7516--7556 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7506 ACTGGGTGGT
7516 AGTGGCTCCGATAGAGGAAGG
1 AGTGGCTCCGATAGAGGAAGG
7537 AGTGGCTCCGATAGAGGAAG
1 AGTGGCTCCGATAGAGGAAG
7557 AAGATGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.41, T:0.15
Consensus pattern (21 bp):
AGTGGCTCCGATAGAGGAAGG
Found at i:8470 original size:31 final size:31
Alignment explanation
Indices: 8434--8494 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
8424 GTTGAGGCAC
*
8434 CTAAAGTGGTAACGTTTGTAACGTTAGACAT
1 CTAAAGTGATAACGTTTGTAACGTTAGACAT
8465 CTAAAGTGATAACGTTTGTAACGTTAGACA
1 CTAAAGTGATAACGTTTGTAACGTTAGACA
8495 CCTAGATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (31 bp):
CTAAAGTGATAACGTTTGTAACGTTAGACAT
Found at i:16086 original size:200 final size:201
Alignment explanation
Indices: 15700--16135 Score: 608
Period size: 200 Copynumber: 2.2 Consensus size: 201
15690 AAGGTTTTTC
* * *
15700 TTGACAGATAACCCTTCTCGTCTTGAGCTATGCTGTAAATTTGACTGGGATATAGTTTCTTGTTG
1 TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGACTGAGATATAGTTTCTTGTTG
*
15765 CTAAATCACAGCTAACCCATGTCTTCTTCTTGACTTAAAGACATAGGTTTAAAATTCAACCGGAA
66 CTAAATCACAGCTAACCCAGGTCTTCTTCTTGACTTAAAGACATAGGTTTAAAATTCAACCGGAA
* * * * * *
15830 GGTAATTCCTCGATGCTACCAAACGGTTGATATGTCCTCGAGCTGAATAGAATCGAACTCAAAAA
131 AGTAATTCATCGATGCTACCAAACGGTTAACATGTCCTCGAGCTGAACAAAATCGAACTCAAAAA
15895 TTCTCG
196 TTCTCG
* * *
15901 TTGACAGATAACCCTTCTCGCCTTAAGTTATGCTGTAAATTTGTCTGAGATATATTTTCTTGTTG
1 TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGACTGAGATATAGTTTCTTGTTG
* *
15966 CTAAATCACAG-TCACCCAGGTCTTCTTCTTGACTTCAAGACATCA-GTTTAAAATTCAACCGGA
66 CTAAATCACAGCTAACCCAGGTCTTCTTCTTGACTTAAAGACAT-AGGTTTAAAATTCAACCGGA
* * * ** *
16029 AAGTAGTTCATCGCTGCTACTATGCGGTTAACATG-CCTTCGAGCTGAACAAAATCGAACTCGAA
130 AAGTAATTCATCGATGCTACCAAACGGTTAACATGTCC-TCGAGCTGAACAAAATCGAACTCAAA
* * *
16093 AGTTTTTG
194 AATTCTCG
*
16101 TTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTG
1 TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTG
16136 CGAACTGTTC
Statistics
Matches: 207, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
199 2 0.01
200 134 0.65
201 71 0.34
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (201 bp):
TTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGACTGAGATATAGTTTCTTGTTG
CTAAATCACAGCTAACCCAGGTCTTCTTCTTGACTTAAAGACATAGGTTTAAAATTCAACCGGAA
AGTAATTCATCGATGCTACCAAACGGTTAACATGTCCTCGAGCTGAACAAAATCGAACTCAAAAA
TTCTCG
Found at i:16971 original size:33 final size:33
Alignment explanation
Indices: 16929--17048 Score: 118
Period size: 33 Copynumber: 3.5 Consensus size: 33
16919 ACAAAATTTA
16929 TTTCATGAGAAACGATCTCAAAGATATTTGTTG
1 TTTCATGAGAAACGATCTCAAAGATATTTGTTG
* * *
16962 TTTCATGAGAAACGGTCTCAAAGAAAATTGGATTTG
1 TTTCATGAGAAACGATCTCAAAG-ATATTTG--TTG
* * *
16998 TTTTAAGAGAAAC-ATCTCAAAG-TTTGGTTGTTG
1 TTTCATGAGAAACGATCTCAAAGATAT--TTGTTG
*
17031 TTTCATGAGAAATGATCT
1 TTTCATGAGAAACGATCT
17049 TAAGGAAACT
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
33 36 0.52
34 9 0.13
35 10 0.14
36 14 0.20
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (33 bp):
TTTCATGAGAAACGATCTCAAAGATATTTGTTG
Found at i:17088 original size:31 final size:31
Alignment explanation
Indices: 17050--17127 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
17040 AAATGATCTT
17050 AAGGAAACTAAAACTTTTTTTGTGAAAAGAC
1 AAGGAAACTAAAACTTTTTTTGTGAAAAGAC
17081 AAGGAAACTAAAACTTTTTTTGTGAAAAGAC
1 AAGGAAACTAAAACTTTTTTTGTGAAAAGAC
17112 AAGGAAACTAAAACTT
1 AAGGAAACTAAAACTT
17128 ATTTCAATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.27
Consensus pattern (31 bp):
AAGGAAACTAAAACTTTTTTTGTGAAAAGAC
Found at i:17222 original size:36 final size:36
Alignment explanation
Indices: 17166--17361 Score: 169
Period size: 36 Copynumber: 5.4 Consensus size: 36
17156 GTGTTTCATA
* * *
17166 AGAAACTATCTCGAGGGAGACAAAATTTATTTAAAG
1 AGAAACTGTCTCAAGAGAGACAAAATTTATTTAAAG
* * * *
17202 AGAAACAGACTCAAGAGAGACAAAATTTGTTTCAAG
1 AGAAACTGTCTCAAGAGAGACAAAATTTATTTAAAG
* * * * *
17238 AGAAATTGTCTCAAGGGAGACAAAACTTGTTTTAAG
1 AGAAACTGTCTCAAGAGAGACAAAATTTATTTAAAG
* * *
17274 GGAACCTGTCTCAAGAGAGATAAAATTTATTTCAAAG
1 AGAAACTGTCTCAAGAGAGACAAAATTTATTT-AAAG
* * *** *
17311 -GAAACTGTCTTAAGAGAGATAAAAAAAATTTTCAAG
1 AGAAACTGTCTCAAGAGAGACAAAATTTA-TTTAAAG
*
17347 AGAAATTGTCTCAAG
1 AGAAACTGTCTCAAG
17362 GGAAACTGTC
Statistics
Matches: 128, Mismatches: 29, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
36 110 0.86
37 18 0.14
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (36 bp):
AGAAACTGTCTCAAGAGAGACAAAATTTATTTAAAG
Found at i:17255 original size:72 final size:71
Alignment explanation
Indices: 17157--17334 Score: 194
Period size: 72 Copynumber: 2.5 Consensus size: 71
17147 CAAAGTTTGG
* * *
17157 TGTTTCATAAGAAACTATCTCGAGGGAGACAAAATTTATTTAAAGAGAAACAGACTCAAGAGAGA
1 TGTTTCA-AAGAAACTGTCTCAAGGGAGACAAAACTTATTTAAAGAGAAACAGACTCAAGAGAGA
17222 CAAAATT
65 CAAAATT
* * * * * * *
17229 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAACTTGTTTTAAGGGAACCTGTCTCAAGAGAGA
1 TGTTTCAA-AGAAACTGTCTCAAGGGAGACAAAACTTATTTAAAGAGAAACAGACTCAAGAGAGA
*
17294 TAAAATT
65 CAAAATT
* * * *
17301 TATTTCAAAGGAAACTGTCTTAAGAGAGATAAAA
1 TGTTTCAAA-GAAACTGTCTCAAGGGAGACAAAA
17335 AAAATTTTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
71 2 0.02
72 86 0.98
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.26
Consensus pattern (71 bp):
TGTTTCAAAGAAACTGTCTCAAGGGAGACAAAACTTATTTAAAGAGAAACAGACTCAAGAGAGAC
AAAATT
Found at i:17366 original size:15 final size:15
Alignment explanation
Indices: 17342--17379 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
17332 AAAAAAATTT
* *
17342 TCAAGAGAAATTGTC
1 TCAAGGGAAACTGTC
17357 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
17372 TCAAGGGA
1 TCAAGGGA
17380 GACAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (15 bp):
TCAAGGGAAACTGTC
Found at i:18890 original size:189 final size:189
Alignment explanation
Indices: 18557--18926 Score: 551
Period size: 189 Copynumber: 2.0 Consensus size: 189
18547 TTTTAATTGC
* * * * *
18557 CTTTGTTCGGCTAGCTGAATGATTCATGTCGTCACAAAGTCTTTGGCTTGACAATCACAGTGGAG
1 CTTTATTCGGCTAGCTGAAGGATTCATGTCGTCACAAAGTCTTCGACTTGACAATCACAATGGAG
* * *
18622 CATACACTGAATTGCCAAATACCTGATCAATGTCATGGTTTGAATATAATATATTCATAAATCCA
66 CATACACCGAATTGCCAAATACCCGATCAATGTCATAGTTTGAATATAATATATTCATAAATCCA
* * *
18687 GAGCTTTTGAGTTTCCTCTATAACCAGTTACCTTAGCGGAATAGCTCAGCTATAATTTT
131 GAGCTTTCGAGTTTCCTCTATAACCAATTACCTTAGCGGAATAACTCAGCTATAATTTT
* * * * *
18746 CTTTATTCGTCTAGCTGAAGGATTCATGTTGTCATAAAGTCTTCGACTTGACAATTACAATGTAG
1 CTTTATTCGGCTAGCTGAAGGATTCATGTCGTCACAAAGTCTTCGACTTGACAATCACAATGGAG
* * *
18811 CATACACCGAATTGCCGAGTACCCGATCAATGTCATAGTTTGAATATAATCTATTCATAAATCCA
66 CATACACCGAATTGCCAAATACCCGATCAATGTCATAGTTTGAATATAATATATTCATAAATCCA
* *
18876 GGGCTTTCGAGTTTCCTCTATAACCAATTGCCTTAGCGGAATAACTCAGCT
131 GAGCTTTCGAGTTTCCTCTATAACCAATTACCTTAGCGGAATAACTCAGCT
18927 TTATTGTATA
Statistics
Matches: 160, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
189 160 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (189 bp):
CTTTATTCGGCTAGCTGAAGGATTCATGTCGTCACAAAGTCTTCGACTTGACAATCACAATGGAG
CATACACCGAATTGCCAAATACCCGATCAATGTCATAGTTTGAATATAATATATTCATAAATCCA
GAGCTTTCGAGTTTCCTCTATAACCAATTACCTTAGCGGAATAACTCAGCTATAATTTT
Found at i:19771 original size:38 final size:38
Alignment explanation
Indices: 19729--19804 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
19719 CAGTCCTACA
19729 ACCAGCTGATCAGACTCCAACTGTTCTGATTTCAATTT
1 ACCAGCTGATCAGACTCCAACTGTTCTGATTTCAATTT
*
19767 ACCAGTTGATCAGACTCCAACTGTTCTGATTTCAATTT
1 ACCAGCTGATCAGACTCCAACTGTTCTGATTTCAATTT
19805 TTTCTTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (38 bp):
ACCAGCTGATCAGACTCCAACTGTTCTGATTTCAATTT
Found at i:20093 original size:70 final size:70
Alignment explanation
Indices: 19980--20112 Score: 230
Period size: 70 Copynumber: 1.9 Consensus size: 70
19970 AAGAGCATAG
* *
19980 AAGAGCAAAAATAGGAGAACAAAATAATCTCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
20045 GTCTA
66 GTCTA
* *
20050 AAGAGTAAAAATAGGATAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
1 AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
20113 CTGACTTCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.52, C:0.18, G:0.17, T:0.14
Consensus pattern (70 bp):
AAGAGCAAAAATAGGAGAACAAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAA
GTCTA
Found at i:22417 original size:16 final size:15
Alignment explanation
Indices: 22382--22417 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
22372 AATGTCTTTT
22382 AAAAATAATTTTAAG
1 AAAAATAATTTTAAG
*
22397 AAAAATCATTTTAAG
1 AAAAATAATTTTAAG
22412 ACAAAA
1 A-AAAA
22418 AAATGGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAAATAATTTTAAG
Found at i:23054 original size:23 final size:24
Alignment explanation
Indices: 23009--23059 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
22999 ATAGAGTGCC
23009 AAATAAAAAAAGTAACAACAAAAG
1 AAATAAAAAAAGTAACAACAAAAG
*
23033 AAATAAAAAAA-TAA-AACTAAAAT
1 AAATAAAAAAAGTAACAAC-AAAAG
23056 AAAT
1 AAAT
23060 TACATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 11 0.44
24 11 0.44
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (24 bp):
AAATAAAAAAAGTAACAACAAAAG
Found at i:26275 original size:4 final size:4
Alignment explanation
Indices: 26268--26293 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
26258 AATATATATA
26268 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
26294 AAATAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:27856 original size:28 final size:28
Alignment explanation
Indices: 27817--27876 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
27807 AATACAAATC
*
27817 TATT-CATATAAACAACTTCTTCTAGTT
1 TATTCCATATAAACAACTCCTTCTAGTT
*
27844 TATTCCATATAAATAACTCCTTCTAGTT
1 TATTCCATATAAACAACTCCTTCTAGTT
*
27872 CATTC
1 TATTC
27877 TGTATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (28 bp):
TATTCCATATAAACAACTCCTTCTAGTT
Found at i:34268 original size:8 final size:8
Alignment explanation
Indices: 34255--34298 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
34245 CAATCAGAAC
34255 AAAAAAAG
1 AAAAAAAG
34263 -AAAAAAG
1 AAAAAAAG
34270 AAAAAAAG
1 AAAAAAAG
34278 AAAAAAA-
1 AAAAAAAG
*
34285 AAACAAAG
1 AAAAAAAG
34293 TAAAAA
1 -AAAAA
34299 GCAAAGAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 13 0.42
8 14 0.45
9 4 0.13
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:34275 original size:15 final size:15
Alignment explanation
Indices: 34255--34299 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
34245 CAATCAGAAC
34255 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
34270 AAAAAAAGAAAAAA-
1 AAAAAAAGAAAAAAG
*
34284 AAAACAAAGTAAAAAG
1 AAAA-AAAGAAAAAAG
34300 CAAAGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:34276 original size:18 final size:18
Alignment explanation
Indices: 34250--34318 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
34240 AGATCCAATC
*
34250 AGAACAAAAAAAGAAAAA
1 AGAAAAAAAAAAGAAAAA
*
34268 AGAAAAAAAGAAAAAAAAA
1 AGAAAAAAA-AAAGAAAAA
* ** * *
34287 ACAAAGTAAAAAGCAAAG
1 AGAAAAAAAAAAGAAAAA
*
34305 AGAAAATAAAAAGA
1 AGAAAAAAAAAAGA
34319 GAAACAAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.03
Consensus pattern (18 bp):
AGAAAAAAAAAAGAAAAA
Found at i:34285 original size:12 final size:12
Alignment explanation
Indices: 34257--34339 Score: 51
Period size: 13 Copynumber: 6.4 Consensus size: 12
34247 ATCAGAACAA
34257 AAAAAGAAAAAAG
1 AAAAA-AAAAAAG
*
34270 AAAAAAAGAAA-
1 AAAAAAAAAAAG
*
34281 AAAAAAACAAAG
1 AAAAAAAAAAAG
* *
34293 TAAAAAGCAAAGAG
1 -AAAAA-AAAAAAG
*
34307 AAAATAAAAAGAG
1 AAAA-AAAAAAAG
34320 AAACAAAAACAAAGG
1 AAA-AAAAA-AAA-G
34335 AAAAA
1 AAAAA
34340 GTGAAGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
11 10 0.18
12 5 0.09
13 27 0.48
14 10 0.18
15 4 0.07
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:34316 original size:42 final size:41
Alignment explanation
Indices: 34259--34354 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
34249 CAGAACAAAA
*
34259 AAAGAAAAAAGAAAAAAAGAAAAAAAAAACAAAGTAAAAAGC
1 AAAGAAAAAAGAAAAAAAG-AAAAAAAAACAAAGGAAAAAGC
* * * * *
34301 AAAGAGAAAATAAAAAGAGAAACAAAAACAAAGGAAAAAGT
1 AAAGAAAAAAGAAAAAAAGAAAAAAAAACAAAGGAAAAAGC
*
34342 GAAGAAAAAAGAA
1 AAAGAAAAAAGAA
34355 GACAAGACGC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 29 0.64
42 16 0.36
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.03
Consensus pattern (41 bp):
AAAGAAAAAAGAAAAAAAGAAAAAAAAACAAAGGAAAAAGC
Found at i:34354 original size:7 final size:7
Alignment explanation
Indices: 34256--34340 Score: 57
Period size: 7 Copynumber: 12.0 Consensus size: 7
34246 AATCAGAACA
34256 AAAAAAG
1 AAAAAAG
34263 AAAAAAG
1 AAAAAAG
34270 AAAAAAAG
1 -AAAAAAG
*
34278 AAAAAAA
1 AAAAAAG
34285 AAACAAAG
1 AAA-AAAG
*
34293 TAAAAAG
1 AAAAAAG
* *
34300 CAAAGAG
1 AAAAAAG
*
34307 AAAATA-
1 AAAAAAG
*
34313 AAAAGAG
1 AAAAAAG
34320 AAACAAA-
1 AAA-AAAG
*
34327 AACAAAG
1 AAAAAAG
*
34334 GAAAAAG
1 AAAAAAG
34341 TGAAGAAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
6 8 0.13
7 39 0.64
8 14 0.23
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:35426 original size:26 final size:26
Alignment explanation
Indices: 35397--35451 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
35387 AGAAATGAGG
* *
35397 AACAATGGGGGCATCTTTGAAGATTC
1 AACAATCGGGGCATCTTTGAAGACTC
* *
35423 AAC-ATCGGGGCATTTTTGGAGACTC
1 AACAATCGGGGCATCTTTGAAGACTC
35448 AACA
1 AACA
35452 TCGAATATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (26 bp):
AACAATCGGGGCATCTTTGAAGACTC
Found at i:35432 original size:25 final size:25
Alignment explanation
Indices: 35404--35454 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
35394 AGGAACAATG
*
35404 GGGGCATCTTTGAAGATTCAACATC
1 GGGGCATCTTTGAAGACTCAACATC
* *
35429 GGGGCATTTTTGGAGACTCAACATC
1 GGGGCATCTTTGAAGACTCAACATC
35454 G
1 G
35455 AATATTGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
GGGGCATCTTTGAAGACTCAACATC
Found at i:36167 original size:64 final size:64
Alignment explanation
Indices: 36066--36193 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
36056 GCTGTCTGTT
* *
36066 AACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAGCTTCATAGCGAAGGATATTGGACTC
1 AACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
36130 AACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACGGCGAAGGATATTGGACTC
1 AACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
36194 GAAACAACGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (64 bp):
AACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
Found at i:36444 original size:156 final size:155
Alignment explanation
Indices: 36128--36413 Score: 367
Period size: 156 Copynumber: 1.8 Consensus size: 155
36118 GATATTGGAC
* * *
36128 TCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACGGCGAAGGATATTGGACT
1 TCAACAAACAACTTTCCAGTTTCATTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACT
* * * * *
36193 CGAAACAACGTAACTTACACAAGATTGGATTTCGACTTCATGACGAAGAATATCCAATTCAAAGC
66 CGAAACAACG-AACTGACACAAGATTGGATTTCAACTTCACGACGAAGAATATCCAACTCAAAAC
** *
36258 TCAACTTCACAACGAAGGAGTGTTTA
130 TCAACTTCACAACGAACCAGTGATTA
* * * *
36284 TCAACAAACAACTTTCCAGTTTTATTTAGAGCCAATTTCAACTTCACAGCAAATGATATTGGGCT
1 TCAACAAACAACTTTCCAGTTTCATTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACT
* * * *
36349 CGAAATGATAC-AACTGGCACAAGATTGGATTTCAACTTTACGACGAAGGATATCCAACTCAAAA
66 CGAAA-CA-ACGAACTGACACAAGATTGGATTTCAACTTCACGACGAAGAATATCCAACTCAAAA
36413 C
129 C
36414 CAATTTGGTG
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
156 109 0.97
157 1 0.01
158 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (155 bp):
TCAACAAACAACTTTCCAGTTTCATTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACT
CGAAACAACGAACTGACACAAGATTGGATTTCAACTTCACGACGAAGAATATCCAACTCAAAACT
CAACTTCACAACGAACCAGTGATTA
Found at i:36604 original size:121 final size:121
Alignment explanation
Indices: 36427--36654 Score: 366
Period size: 121 Copynumber: 1.9 Consensus size: 121
36417 TTTGGTGAAA
*
36427 CAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATG
1 CAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAAATTCACAACGAATG
*
36492 AGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATG
66 AGCCATCCACGATTTCAAATTCACGACGAAGGATATCGTGCCCACAAGCAGCAATG
* * * **
36548 CAACCCTTGGATTTCAACTTCACGACGAATGATATCCGATTCAAATTTCAAATTCACAACGAATG
1 CAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAAATTCACAACGAATG
* * *
36613 AGCCATCCATGATTTTAAATTCATGACGAAGGATATCGTGCC
66 AGCCATCCACGATTTCAAATTCACGACGAAGGATATCGTGCC
36655 TATCATATTG
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 97 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (121 bp):
CAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAAATTCACAACGAATG
AGCCATCCACGATTTCAAATTCACGACGAAGGATATCGTGCCCACAAGCAGCAATG
Found at i:36850 original size:84 final size:84
Alignment explanation
Indices: 36709--37062 Score: 503
Period size: 84 Copynumber: 4.2 Consensus size: 84
36699 CCCAGCCCAG
* * * *
36709 TGCAGCATAACTCAAGGCGAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGATTACACTC
1 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTC
36774 AGCTCAAAGGCACATCATT
66 AGCTCAAAGGCACATCATT
*
36793 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGATTACACTC
1 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTC
36858 AGCTCAAAGGCACATCATT
66 AGCTCAAAGGCACATCATT
* * *
36877 TGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTC
1 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTC
36942 AGCTCAAAGGCACATCTCATT
66 AGCTCAAAGGCACA--TCATT
* * * * * * *
36963 TGCAG-ATAGCCCAAGGTAAAAAGGGCTATCTACCAACAAAAAACTTTCGAGTTCGATTACATTC
1 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTC
*
37027 AGCTCAAAGGCATATCAAATT
66 AGCTCAAAGGCACATC--ATT
* *
37048 TACAACATAGCTCAA
1 TGCAGCATAGCTCAA
37063 AGCGAGAATG
Statistics
Matches: 242, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
83 2 0.01
84 154 0.64
85 68 0.28
86 18 0.07
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (84 bp):
TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTC
AGCTCAAAGGCACATCATT
Found at i:37089 original size:85 final size:84
Alignment explanation
Indices: 36709--37116 Score: 455
Period size: 84 Copynumber: 4.8 Consensus size: 84
36699 CCCAGCCCAG
* * * * * *
36709 TGCAGCATAACTCAAGGCGAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGATTACACTC
1 TGCAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAACTTTCGAGTTCGATTACACTC
36774 AGCTCAAAGGCACATCATT
66 AGCTCAAAGGCACATCATT
* * *
36793 TGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTT-GAGTTCGATTACACT
1 TGCAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAA-AACTTTCGAGTTCGATTACACT
36857 CAGCTCAAAGGCACATCATT
65 CAGCTCAAAGGCACATCATT
* * * * *
36877 TGCAGCATAACTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTC
1 TGCAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAACTTTCGAGTTCGATTACACTC
36942 AGCTCAAAGGCACATCTCATT
66 AGCTCAAAGGCACA--TCATT
* * ** * * *
36963 TGC-AGATAGCCCAAGGTAAAAAGGGCTATCTACCAACAAAAAACTTTCGAGTTCGATTACATTC
1 TGCAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAACTTTCGAGTTCGATTACACTC
*
37027 AGCTCAAAGGCATATCAAATT
66 AGCTCAAAGGCACATC--ATT
* * * * * * * * *
37048 TACAACATAGCTCAAAGCGAGAATGGTTGTCTGTC-A-AAAAAATTTGTCGAGTTCGATTTCATT
1 TGCAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAACTT-TCGAGTTCGATTACACT
37111 CAGCTC
65 CAGCTC
37117 GATGACATAT
Statistics
Matches: 276, Mismatches: 40, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
83 5 0.02
84 150 0.54
85 93 0.34
86 28 0.10
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (84 bp):
TGCAACATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAAACTTTCGAGTTCGATTACACTC
AGCTCAAAGGCACATCATT
Found at i:37476 original size:3 final size:3
Alignment explanation
Indices: 37468--37520 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
37458 TGGGATAAAA
* *
37468 TAT TAT TAT TAT TAT TAC TAT TAT AAT TAT TAT TAT TAT ATACT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TAT
37515 T-T TAT T
1 TAT TAT T
37521 TACATTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 4 0.09
5 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:39116 original size:30 final size:30
Alignment explanation
Indices: 39082--39138 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
39072 TCTGTTAATA
* * *
39082 CTATTTTTATCCTTTAATTTTCTATTTGTG
1 CTATTTTGATACTTTAAATTTCTATTTGTG
*
39112 CTATTTTGGTACTTTAAATTTCTATTT
1 CTATTTTGATACTTTAAATTTCTATTT
39139 TTTGTTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.61
Consensus pattern (30 bp):
CTATTTTGATACTTTAAATTTCTATTTGTG
Found at i:41823 original size:20 final size:20
Alignment explanation
Indices: 41729--42097 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
41719 GATTTTCCAT
* ** *
41729 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
41749 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
41769 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41789 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
41809 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
41829 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41849 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
41869 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41889 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
41909 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41929 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
41949 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
41969 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
41989 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
42009 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
42029 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
42049 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
42069 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
42089 AATCACAAC
1 AATCGCAAC
42098 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:42818 original size:24 final size:24
Alignment explanation
Indices: 42779--42825 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42769 AAATTTGGTC
42779 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
42803 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
42826 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:43017 original size:12 final size:12
Alignment explanation
Indices: 43000--43024 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42990 ATATAATCCT
43000 GAAGAAGAAAAA
1 GAAGAAGAAAAA
43012 GAAGAAGAAAAA
1 GAAGAAGAAAAA
43024 G
1 G
43025 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:45326 original size:19 final size:19
Alignment explanation
Indices: 45304--45576 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
45294 CGGAAAATAC
*
45304 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
45323 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
45337 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
45357 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
45371 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45390 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
45409 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
45423 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
45442 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45461 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45480 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45499 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45518 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
45532 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
45550 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45569 AATCGCAA
1 AATCGCAA
45577 CGAGATAATC
Statistics
Matches: 225, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 38 0.17
15 1 0.00
16 14 0.06
17 12 0.05
18 19 0.08
19 128 0.57
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:45391 original size:33 final size:35
Alignment explanation
Indices: 45304--45598 Score: 273
Period size: 33 Copynumber: 8.5 Consensus size: 35
45294 CGGAAAATAC
* *
45304 AATCGCAACGCGAAATGAAAATCCCAA-C-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
*
45337 AATCGCAATGCGGAAATGAAAATCGCAA-CGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAAGCGATGAA
45371 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
* *
45409 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
45442 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
45480 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
45518 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
45550 AATCGCAATGCGAAATGAAAATCGCAA-CGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
45583 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
45599 TATAAACGCA
Statistics
Matches: 235, Mismatches: 9, Indels: 36
0.84 0.03 0.13
Matches are distributed among these distances:
32 10 0.04
33 86 0.37
34 34 0.14
35 12 0.05
36 10 0.04
37 9 0.04
38 74 0.31
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (35 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
Found at i:45419 original size:52 final size:52
Alignment explanation
Indices: 45332--45598 Score: 428
Period size: 52 Copynumber: 5.0 Consensus size: 52
45322 AAATCCCAAC
45332 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
45385 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
45437 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
45494 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
45546 ATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
45597 AT
1 AT
45599 TATAAACGCA
Statistics
Matches: 200, Mismatches: 9, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
51 48 0.24
52 84 0.42
53 17 0.09
54 2 0.01
55 2 0.01
56 1 0.00
57 46 0.23
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:45503 original size:109 final size:103
Alignment explanation
Indices: 45335--45598 Score: 429
Period size: 109 Copynumber: 2.5 Consensus size: 103
45325 TCCCAACATG
*
45335 AAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATG
1 AAAATCGCAATGC-GAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATG
*
45400 CGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATT
65 CGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAA-T
45440 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
1 AAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAAATCGC
45505 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
61 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
* *
45548 GAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
45599 TATAAACGCA
Statistics
Matches: 150, Mismatches: 4, Indels: 12
0.90 0.02 0.07
Matches are distributed among these distances:
103 18 0.12
104 17 0.11
105 13 0.09
106 4 0.03
108 30 0.20
109 68 0.45
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (103 bp):
AAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGC
GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
Found at i:45713 original size:19 final size:19
Alignment explanation
Indices: 45605--45705 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
45595 AAATTATAAA
45605 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
45624 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
45644 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
45660 CG--TTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
45676 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
45695 CGCATTGCGAT
1 CGCATTGCGAT
45706 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.08
19 29 0.39
20 19 0.26
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:45831 original size:14 final size:14
Alignment explanation
Indices: 45812--45848 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
45802 CATCAATTAC
45812 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
45826 ACAAATCATCTTTT
1 ACAAATCAACTTTT
45840 ACAAATCAA
1 ACAAATCAA
45849 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:47263 original size:21 final size:21
Alignment explanation
Indices: 47233--47295 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
47223 GTGAATCGGG
47233 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAATGGTGGGAGGGAC
* * **
47254 CTCTTCAATGATGACAGTGG-C
1 CTCTTGAATGGTGGGAG-GGAC
*
47275 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAATGGTGGGAGGGAC
47296 TCTCGAGGAA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.24
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGAC
Found at i:47826 original size:14 final size:14
Alignment explanation
Indices: 47807--47863 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
47797 GCGAAATGAA
*
47807 AATCGCAACGACAG
1 AATCGCAACGAAAG
47821 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
47838 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
47854 AATCGCAACG
1 AATCGCAACG
47864 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:47834 original size:33 final size:33
Alignment explanation
Indices: 47788--47880 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
47778 GCGAAACCAA
*
47788 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
47821 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
47854 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
47881 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:47845 original size:19 final size:19
Alignment explanation
Indices: 47751--47885 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
47741 TAGTTTACTT
* *
47751 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
47771 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
47790 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
47809 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
47823 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
47842 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
47856 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
47875 TCGCAATGCGA
1 TCGCAACGCGA
47886 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:47903 original size:19 final size:19
Alignment explanation
Indices: 47881--48009 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
47871 AAAATCGCAA
47881 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
47900 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
47914 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
47933 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
47947 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
47966 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
47985 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
48005 TGCGA
1 TGCGA
48010 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:47923 original size:33 final size:33
Alignment explanation
Indices: 47881--47972 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
47871 AAAATCGCAA
47881 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
47914 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
47947 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
47973 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:48434 original size:92 final size:93
Alignment explanation
Indices: 48053--48523 Score: 903
Period size: 93 Copynumber: 5.1 Consensus size: 93
48043 TTGAATGGAT
48053 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
48118 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
48146 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
48209 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
48237 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
48302 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
48330 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
48394 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
48422 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
48487 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
48515 AAATTTACT
1 AAATTTACT
48524 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 3, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
91 76 0.20
92 121 0.33
93 175 0.47
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:48473 original size:185 final size:184
Alignment explanation
Indices: 48053--48523 Score: 915
Period size: 185 Copynumber: 2.6 Consensus size: 184
48043 TTGAATGGAT
48053 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
48118 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
48183 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
48237 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
48302 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
*
48367 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
48422 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
48487 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
48524 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
184 116 0.41
185 168 0.59
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (184 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:50261 original size:33 final size:33
Alignment explanation
Indices: 50216--50330 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
50206 TCTTTTGGTT
*
50216 GAAATGAAAATCGCAACGAGAGATTCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
50249 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
50282 GAAATGGAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
50315 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
50331 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:50264 original size:19 final size:18
Alignment explanation
Indices: 50240--50335 Score: 82
Period size: 19 Copynumber: 5.6 Consensus size: 18
50230 AACGAGAGAT
50240 TCGCAACGCGAGATGACAA
1 TCGCAACGCGAGATGA-AA
50259 TCGCAA--CGAGA-G-AA
1 TCGCAACGCGAGATGAAA
*
50273 TCGCAACGCGAAATGGAAA
1 TCGCAACGCGAGAT-GAAA
50292 TCGCAA--CGAGA-G-AA
1 TCGCAACGCGAGATGAAA
*
50306 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAGATG-AAA
*
50325 TCGCAATGCGA
1 TCGCAACGCGA
50336 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 16 0.25
15 1 0.02
16 9 0.14
17 10 0.16
18 1 0.02
19 26 0.41
ACGTcount: A:0.41, C:0.23, G:0.26, T:0.10
Consensus pattern (18 bp):
TCGCAACGCGAGATGAAA
Found at i:50276 original size:14 final size:14
Alignment explanation
Indices: 50224--50313 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
50214 TTGAAATGAA
50224 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
50238 ATTCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
50255 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
50271 AATCGCAACGCGAAATGG
1 AATCGCAA--CGAGA--G
50289 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
50304 AATCGCAACG
1 AATCGCAACG
50314 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 25 0.40
15 1 0.02
16 10 0.16
17 10 0.16
18 1 0.02
19 15 0.24
ACGTcount: A:0.40, C:0.23, G:0.27, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:50366 original size:14 final size:14
Alignment explanation
Indices: 50347--50401 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
50337 TTTGGTTTCG
50347 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
50361 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
50380 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
50394 CGTTGCGA
1 CGTTGCGA
50402 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:50379 original size:33 final size:33
Alignment explanation
Indices: 50331--50401 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
50321 AAAATCGCAA
**
50331 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
50364 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
50397 TGCGA
1 TGCGA
50402 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:50409 original size:33 final size:33
Alignment explanation
Indices: 50342--50423 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
50332 GCGATTTTGG
***
50342 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
50375 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
50408 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
50424 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:50428 original size:20 final size:20
Alignment explanation
Indices: 50354--50442 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
50344 TCGCGTTGCG
50354 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
50374 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
50387 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
50407 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
50427 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
50443 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:50564 original size:33 final size:33
Alignment explanation
Indices: 50522--50592 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
50512 AATACTAACT
*
50522 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
50555 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
50588 TGAAA
1 TGAAA
50593 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:50826 original size:22 final size:22
Alignment explanation
Indices: 50774--50828 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
50764 TGGTTGTGAG
**
50774 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
50796 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
50818 GGATTTCTTCG
1 GGATTTCTTCG
50829 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:50999 original size:20 final size:20
Alignment explanation
Indices: 50974--51146 Score: 215
Period size: 20 Copynumber: 8.6 Consensus size: 20
50964 CTTTAAATAT
50974 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
50994 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
51016 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
51035 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
51055 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
51075 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
51095 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
51115 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
51135 CGCGTTGCGATT
1 CGCGTTGCGATT
51147 ATGGAAAATC
Statistics
Matches: 131, Mismatches: 18, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 112 0.85
21 15 0.11
22 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:51139 original size:60 final size:60
Alignment explanation
Indices: 50976--51146 Score: 243
Period size: 60 Copynumber: 2.8 Consensus size: 60
50966 TTAAATATCG
** *
50976 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
51037 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
51097 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATT
51147 ATGGAAAATC
Statistics
Matches: 94, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 68 0.72
61 26 0.28
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:51227 original size:20 final size:20
Alignment explanation
Indices: 51202--51253 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
51192 AAGAATCGCG
*
51202 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
51222 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
51242 TTGCGATTCTGG
1 TTGCGATTCTGG
51254 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:55610 original size:3 final size:3
Alignment explanation
Indices: 55602--55644 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
55592 TGCCCTTTAC
55602 TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55645 AGTGTATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:55771 original size:2 final size:2
Alignment explanation
Indices: 55764--55816 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
55754 ATTAAACCAC
55764 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
55806 CT CT CT CT CT C
1 CT CT CT CT CT C
55817 AAGTTAAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:58328 original size:3 final size:3
Alignment explanation
Indices: 58320--58448 Score: 222
Period size: 3 Copynumber: 43.0 Consensus size: 3
58310 CCATATTGAT
58320 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
58368 TTA TAA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
58416 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58449 AATATATTAA
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 118 1.00
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:63910 original size:15 final size:15
Alignment explanation
Indices: 63890--63921 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
63880 ATCAATACCT
63890 TTTTGCATACATACA
1 TTTTGCATACATACA
*
63905 TTTTGCATACATTCA
1 TTTTGCATACATACA
63920 TT
1 TT
63922 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:71275 original size:26 final size:25
Alignment explanation
Indices: 71235--71337 Score: 97
Period size: 26 Copynumber: 4.0 Consensus size: 25
71225 ATGCTTGAAG
* *
71235 AAAAAAGAAAGAAAAGAAACAAAAG-
1 AAAAAAAAAAAAAAAGAAA-AAAAGA
71260 -AAAAAAAAAAAAAA-AAAAAAAGA
1 AAAAAAAAAAAAAAAGAAAAAAAGA
*
71283 AAAAGAAGAAAAAAAGAG-AAAAAAGA
1 AAAA-AA-AAAAAAAAAGAAAAAAAGA
71309 AAAAAGAAAAAAAAGAAGAAAAAAGAGA
1 AAAAA-AAAAAAAA-AAGAAAAAA-AGA
71337 A
1 A
71338 TTCAAGATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.08
23 3 0.05
24 15 0.23
25 10 0.15
26 23 0.35
27 5 0.08
28 4 0.06
ACGTcount: A:0.84, C:0.01, G:0.15, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAAAGAAAAAAAGA
Found at i:71326 original size:36 final size:36
Alignment explanation
Indices: 71232--71337 Score: 128
Period size: 37 Copynumber: 2.9 Consensus size: 36
71222 ATTATGCTTG
* *
71232 AAGAAAAAAGAAAGAAAAGAA-ACAAAAGAA-AAAAAA
1 AAGAAAAAAGAAAAAAAAGAAGA-AAAA-AAGAGAAAA
* *
71268 AAAAAAAAAAAAAGAAAAAGAAGAAAAAAAGAGAAAA
1 AAGAAAAAAGAAA-AAAAAGAAGAAAAAAAGAGAAAA
71305 AAGAAAAAAGAAAAAAAAGAAG-AAAAAAGAGAA
1 AAGAAAAAAGAAAAAAAAGAAGAAAAAAAGAGAA
71338 TTCAAGATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
35 11 0.18
36 22 0.36
37 27 0.44
38 1 0.02
ACGTcount: A:0.84, C:0.01, G:0.15, T:0.00
Consensus pattern (36 bp):
AAGAAAAAAGAAAAAAAAGAAGAAAAAAAGAGAAAA
Found at i:71337 original size:9 final size:8
Alignment explanation
Indices: 71235--71331 Score: 119
Period size: 9 Copynumber: 11.8 Consensus size: 8
71225 ATGCTTGAAG
71235 AAAAAAGA
1 AAAAAAGA
71243 AAGAAAAGA
1 AA-AAAAGA
71252 AACAAAAGA
1 AA-AAAAGA
71261 AAAAAA-A
1 AAAAAAGA
71268 AAAAAA-A
1 AAAAAAGA
71275 AAAAAAGA
1 AAAAAAGA
71283 AAAAGAAGA
1 AAAA-AAGA
71292 AAAAAAGA
1 AAAAAAGA
71300 GAAAAAAG-
1 -AAAAAAGA
71308 AAAAAAGAA
1 AAAAAAG-A
71317 AAAAAAGA
1 AAAAAAGA
71325 AGAAAAA
1 A-AAAAA
71332 AGAGAATTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
7 21 0.26
8 17 0.21
9 43 0.53
ACGTcount: A:0.86, C:0.01, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:71350 original size:1 final size:1
Alignment explanation
Indices: 71235--71332 Score: 70
Period size: 1 Copynumber: 98.0 Consensus size: 1
71225 ATGCTTGAAG
* * * * * * * * *
71235 AAAAAAGAAAGAAAAGAAACAAAAGAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAGAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
71300 GAAAAAAGAAAAAAGAAAAAAAAGAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
71333 GAGAATTCAA
Statistics
Matches: 69, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.86, C:0.01, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:71350 original size:45 final size:39
Alignment explanation
Indices: 71235--71334 Score: 137
Period size: 40 Copynumber: 2.4 Consensus size: 39
71225 ATGCTTGAAG
*
71235 AAAAAAGAAAGAAAAGAAACAAAAGAAAAAAAAAAAAAAA
1 AAAAAAGAAAAAAAAGAAA-AAAAGAAAAAAAAAAAAAAA
*
71275 AAAAAAGAAAAAGAAGAAAAAAAGAGAAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAAAAGAAAAAAAGA-AAAAAA-AAAAAA-AA
71317 AAAAAAGAAGAAAAAAGA
1 AAAAAAGAA-AAAAAAGA
71335 GAATTCAAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
39 6 0.11
40 23 0.43
41 6 0.11
42 11 0.21
43 7 0.13
ACGTcount: A:0.85, C:0.01, G:0.14, T:0.00
Consensus pattern (39 bp):
AAAAAAGAAAAAAAAGAAAAAAAGAAAAAAAAAAAAAAA
Found at i:72762 original size:84 final size:84
Alignment explanation
Indices: 72484--72997 Score: 802
Period size: 84 Copynumber: 6.1 Consensus size: 84
72474 AACAAATGCC
* *
72484 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATC
72549 ATTGAATTTGG-AAGAAT-A
66 ATTGAATTTGGAAAG-ATGA
* * * * * *
72567 ATGTGCTCATAGCATCTTCTAGAATTGGTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATC
* *
72632 ATTGAAATT-GAAAGATAA
66 ATTGAATTTGGAAAGATGA
*
72650 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATC
72715 ATTGAATTTGGAAAGATGA
66 ATTGAATTTGGAAAGATGA
* *
72734 ATGTGCTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATC
72799 ATTGAATTTGGAAAGATGA
66 ATTGAATTTGGAAAGATGA
* *
72818 ATGTGCTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATC
72883 ATTGAATTTGGAAAGATGA
66 ATTGAATTTGGAAAGATGA
* * *
72902 ATGTGCCCAATAGCTTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 ATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAAT
*
72967 CATTGAATTT-AAAAGATGA
65 CATTGAATTTGGAAAGATGA
*
72986 ATTTGCTCATAG
1 ATGTGCTCATAG
72998 TAGAAATAAG
Statistics
Matches: 404, Mismatches: 23, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
82 3 0.01
83 143 0.35
84 196 0.49
85 62 0.15
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (84 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATC
ATTGAATTTGGAAAGATGA
Found at i:73911 original size:112 final size:112
Alignment explanation
Indices: 73770--74615 Score: 1301
Period size: 112 Copynumber: 7.5 Consensus size: 112
73760 TTTCCAGTTC
* *
73770 AAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
*
73835 CAACCTTTCGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
*
73882 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
73947 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
*
73994 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
74059 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
* *
74106 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTAGAAGAATTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * ** *
74171 CAACCTTTTGCTCAAATGCATCACTTGATAGATCCGCTTTTCCAGAGG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGA-G
* *
74219 AAGTTCATAATGAGAAGAACTCATCTAAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * *
74284 TAACCTTTTGCTCAAATCTATCACTTGATGGATTATCATTT-CCAGAG
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGC-TTTGCCAGAG
74331 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 -AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * * * * *
74396 TTAACCTTTTGCTCAAATCTATCATTTGATGGATCAACATTGCCAG-G
65 TCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
*
74443 TAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAA-AAT
1 -A-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-
* * * *
74507 TTTGTTCAACCTTTTGTTCAAATCCATCACTTGATAGATCAGCTTTTCCAGAG
60 TTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
74560 AAAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGTTCATAATGAGAAGAA
1 -AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
74616 CTAATCTGAA
Statistics
Matches: 685, Mismatches: 38, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
109 23 0.03
110 5 0.01
112 330 0.48
113 222 0.32
114 4 0.01
115 3 0.00
116 96 0.14
117 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAG
Found at i:74608 original size:36 final size:36
Alignment explanation
Indices: 74561--74650 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 36
74551 TTTCCAGAGA
* *
74561 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
74597 AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
1 AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
* *
74633 AAGTCCACAATGAGAAGA
1 AAGTTCATAATGAGAAGA
74651 GCTTATTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (36 bp):
AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
Found at i:74906 original size:3 final size:3
Alignment explanation
Indices: 74898--74975 Score: 111
Period size: 3 Copynumber: 26.0 Consensus size: 3
74888 CCATATTGAT
* * * *
74898 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TAA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
74946 TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
74976 AATATATTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:80528 original size:27 final size:27
Alignment explanation
Indices: 80498--80559 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
80488 ATTATTTTTA
*
80498 TTATTTATCCATATGTATATAAAAACG
1 TTATTTATCCATATATATATAAAAACG
*
80525 TTATTTATCCATATATATATACAAACG
1 TTATTTATCCATATATATATAAAAACG
*
80552 TTTTTTAT
1 TTATTTAT
80560 TTTGTATACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (27 bp):
TTATTTATCCATATATATATAAAAACG
Found at i:80651 original size:10 final size:11
Alignment explanation
Indices: 80631--80727 Score: 55
Period size: 10 Copynumber: 9.2 Consensus size: 11
80621 TTTTAAGTAC
*
80631 TATATTTTATA
1 TATATTATATA
80642 -ATATTATATA
1 TATATTATATA
80652 TATA-TATATA
1 TATATTATATA
*
80662 TAT-TTCTAT-
1 TATATTATATA
* *
80671 TA-ATTTTCTA
1 TATATTATATA
* *
80681 TTTTTTTATATA
1 -TATATTATATA
*
80693 TTACCATTATAT-
1 -TA-TATTATATA
80705 TATA-TATATA
1 TATATTATATA
80715 TATATTATATA
1 TATATTATATA
80726 TA
1 TA
80728 CATCTTATTA
Statistics
Matches: 65, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
9 11 0.17
10 27 0.42
11 14 0.22
12 7 0.11
13 6 0.09
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATTATATA
Found at i:80868 original size:19 final size:20
Alignment explanation
Indices: 80826--80870 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
80816 TACTTTATTT
* * *
80826 TTATTTTTTATTTATCTTCT
1 TTATTTTATATTAATCTTCC
80846 TTATTTTATATTAAT-TTCC
1 TTATTTTATATTAATCTTCC
80865 TTATTT
1 TTATTT
80871 CGTTCGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTTATATTAATCTTCC
Found at i:87669 original size:95 final size:94
Alignment explanation
Indices: 87499--87744 Score: 300
Period size: 95 Copynumber: 2.7 Consensus size: 94
87489 ACATTATAAT
*
87499 ATTATATATACAATAAAGGTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATG
1 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATG
* *
87564 GATAATATTCAGCTATCCTGATAAAGGCG
66 GATAAGATTCAGCTAACCTGATAAAGGCG
* *
87593 ATTATACTATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACGCCTCGGCTTTA
1 ATTATA-TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGACTTTA
*
87657 TGGATAAGATTCAGCTAACCTGATGAA-G-G
64 TGGATAAGATTCAGCTAACCTGATAAAGGCG
* * * *
87686 --TAT-T-TAC-AT--A--TTGAGCTGTCCCTCTAGAGTAATTGGTTAAACGCCCTGGCTTTATG
1 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATG
87742 GAT
66 GAT
87745 CCAGCTAGCC
Statistics
Matches: 139, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
83 43 0.31
84 1 0.01
85 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 3 0.02
93 1 0.01
94 8 0.06
95 76 0.55
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (94 bp):
ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATG
GATAAGATTCAGCTAACCTGATAAAGGCG
Found at i:89165 original size:37 final size:37
Alignment explanation
Indices: 89109--89180 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
89099 TTTAAAGAAG
* *
89109 ATTTTATCTCGATTGAGATAGTTTC-CATTGAAACAAA
1 ATTTTATCTCCATTAAGATAGTTTCTC-TTGAAACAAA
*
89146 ATTTTATCTCCCTTAAGATAGTTTCTCTTGAAACA
1 ATTTTATCTCCATTAAGATAGTTTCTCTTGAAACA
89181 TAAACATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (37 bp):
ATTTTATCTCCATTAAGATAGTTTCTCTTGAAACAAA
Found at i:89256 original size:87 final size:87
Alignment explanation
Indices: 89121--89279 Score: 257
Period size: 87 Copynumber: 1.8 Consensus size: 87
89111 TTTATCTCGA
* *
89121 TTGAGATAGTTTCCATTGAAACAAAATTTTATCTCCCTTAAGATAGTTTCTCTTGAAACATAAAC
1 TTGAGATAGTTTCCATGGAAACAAAATTTTATCTCCCTTAAGACAGTTTCTCTTGAAACATAAAC
89186 ATTGAAATGAATTTTGTCTCTC
66 ATTGAAATGAATTTTGTCTCTC
* * *
89208 TTGAGATAGTTTCCGA-GGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAATATAAA
1 TTGAGATAGTTTCC-ATGGAAACAAAATTTTATCTCCCTTAAGACAGTTTCTCTTGAAACATAAA
89272 CATTGAAA
65 CATTGAAA
89280 ACATTTCCCT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
87 65 0.98
88 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (87 bp):
TTGAGATAGTTTCCATGGAAACAAAATTTTATCTCCCTTAAGACAGTTTCTCTTGAAACATAAAC
ATTGAAATGAATTTTGTCTCTC
Found at i:89350 original size:37 final size:37
Alignment explanation
Indices: 89283--89374 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
89273 ATTGAAAACA
** * *
89283 TTTCCCTTGAAA-TGAACTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAACTTTGTCTCCCTTGAGACAG
*
89319 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAACTTTGTCTCCCTTGAGACAG
* *
89356 TTTCTCTTGGAACATAAAC
1 TTTCCCTTGAAACA-AAAC
89375 ATTGAAAACA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 12 0.26
37 31 0.67
38 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAACTTTGTCTCCCTTGAGACAG
Found at i:89630 original size:203 final size:203
Alignment explanation
Indices: 89198--89747 Score: 550
Period size: 203 Copynumber: 2.7 Consensus size: 203
89188 TGAAATGAAT
** * *
89198 TTTGTCTCTCTTGAGATAGTTTC-CGAGGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTGTCTCTCTTGAGATAGTTTCTCTTGG-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTT
* * * * ** * ** *
89262 GAAATATAAACATTGAAAACATTTCCCTTGAAATGAACTTTGTCTCTCTTGAGATAGTTTCCCTT
64 GAAACAAAAACTTTGAATATGTTTTCCTTGAAACAAACTTTGTCTCTCTAGAGATAGTTTCCCTT
* * * *
89327 GAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGGAACATAAACATTGAAAACATTTCCCT
129 AAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAAACATTGAAAACATTTCCCT
** *
89392 TGAAATGAAT
194 TGAAACAAAG
*
89402 TTTGTCTCTCTTGAGATAGTTTCTCTTGGAACAAATTTTGTCTCTCTTGAGACGATTTTCCCTTG
1 TTTGTCTCTCTTGAGATAGTTTCTCTTGGAACAAATTTTGTCTCTCTTGAGAC-AGTTTCCCTTG
* * * * * *
89467 AAACAAAAACTTTGAATTTGTTTTCTTTGAAACAAAGTTTTTCTCTCTAGAGATATTTTCTCTTA
65 AAACAAAAACTTTGAATATGTTTTCCTTGAAACAAACTTTGTCTCTCTAGAGATAGTTTCCCTTA
* * * * * * * *
89532 AAAC-AAATTTTGTCTCTCTTGGGACGGTTTCCCTTGAAACAAAAACTTTGAATTA-TTTTTCTT
130 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAAACATTGAA-AACATTTCCCT
89595 TGAAACAAAG
194 TGAAACAAAG
* * ** * *
89605 TTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTATCTCTTTTGAGACAGTTTCCCTTGA
1 TTTGTCTCTCTTGAGATAGTTTCTCTTGGAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
* * * * * * * * * *
89670 AACAAAATCTTTGAATCTGTTTTCCTTAAAATAAA-TTTCGTCTCCCTTGAAACAGTTTCCATTG
66 AACAAAAACTTTGAATATGTTTTCCTTGAAACAAACTTT-GTCTCTCTAGAGATAGTTTCCCTTA
89734 AAACAAAATCTTTG
130 AAACAAAAT-TTTG
89748 AATCTGTTTT
Statistics
Matches: 283, Mismatches: 57, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
201 3 0.01
202 61 0.22
203 124 0.44
204 92 0.33
205 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (203 bp):
TTTGTCTCTCTTGAGATAGTTTCTCTTGGAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
AACAAAAACTTTGAATATGTTTTCCTTGAAACAAACTTTGTCTCTCTAGAGATAGTTTCCCTTAA
AACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAAACATTGAAAACATTTCCCTTG
AAACAAAG
Found at i:89637 original size:36 final size:36
Alignment explanation
Indices: 89588--89675 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 36
89578 TTTGAATTAT
*
89588 TTTTCT-TTGAAACAAAGTTTGTCTCTCTTGAGACA
1 TTTTCTCTTGAAACAAAGTTTATCTCTCTTGAGACA
* * *
89623 TTTTCTCTTAAAACAAATTTTATCTCTTTTGAGACA
1 TTTTCTCTTGAAACAAAGTTTATCTCTCTTGAGACA
* *
89659 GTTTCCCTTGAAACAAA
1 TTTTCTCTTGAAACAAA
89676 ATCTTTGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 6 0.13
36 39 0.87
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (36 bp):
TTTTCTCTTGAAACAAAGTTTATCTCTCTTGAGACA
Found at i:89693 original size:101 final size:101
Alignment explanation
Indices: 89195--90036 Score: 612
Period size: 102 Copynumber: 8.3 Consensus size: 101
89185 CATTGAAATG
* * *
89195 AATTTTGTCTCTCTTGAGATAGTTTC-C-GAGGAAACAAAATTTTGTCTCCCTTGAGACAGTTTC
1 AATTTTGTCTCTCTTGAGACAGTTTCTCTTA--AAAC-AAATTTTGTCTCTCTTGAGACAGTTTC
* * * * * * **
89258 TCTTGAAATATAAA-CATTGAAAAC-ATTTCCCTTGAAATG
63 CCTTGAAACA-AAATCTTTG-AATCTGTTTTCCTTGAAACA
* * * * * *
89297 AACTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC
1 AATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCC
* * * * * **
89362 TTGGAACATAAA-CATTGAAAAC-ATTTCCCTTGAAATG
65 TTGAAACA-AAATCTTTG-AATCTGTTTTCCTTGAAACA
* ** *
89399 AATTTTGTCTCTCTTGAGATAGTTTCTCTTGGAACAAATTTTGTCTCTCTTGAGACGATTTTCCC
1 AATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC-AGTTTCCC
* * *
89464 TTGAAACAAAAACTTTGAATTTGTTTTCTTTGAAACA
65 TTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACA
* * * * *
89501 AAGTTTT-TCTCTCTAGAGATATTTTCTCTTAAAACAAATTTTGTCTCTCTTGGGACGGTTTCCC
1 AA-TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
* * *
89565 TTGAAACAAAAACTTTGAAT-TATTTTTCTTTGAAACA
65 TTGAAACAAAATCTTTGAATCT-GTTTTCCTTGAAACA
* * * *
89602 AAGTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTATCTCTTTTGAGACAGTTTCCCT
1 AATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT
* *
89667 TGAAACAAAATCTTTGAATCTGTTTTCCTTAAAATA
66 TGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACA
* * * * * * *
89703 AATTTCGTCTCCCTTGAAACAGTTTC-CATTGAAACAAA------ATCT-TTGA-ATCTGTTTTT
1 AATTTTGTCTCTCTTGAGACAGTTTCTC-TTAAAACAAATTTTGTCTCTCTTGAGA-CAG-TTTC
* * * *
89759 CCTTTAAACAAATTTCGTCTCTCTTGAGA-CAG-TTTCTTTTAG-AACTA
63 CCTTGAAACAAA------ATCT-TTGA-ATCTGTTTTC-CTT-GAAAC-A
* * * **
89806 AATTTTGTCTCTCTTGAGACATTTTCTCGTAAAACAAATTTTATCTCTCTTGAGACAGTTTATCT
1 AATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT
*
89871 TGAAACAAAATCTCTGAATCTGTTTTCCTTGAAACA
66 TGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACA
** * * * * *
89907 AACTTGCGTCTCCCTTGAGATAGTTTCT-TTAGGAACTAAATTTTGTCTCTATTGAGACAGTTTA
1 AA-TTTTGTCTCTCTTGAGACAGTTTCTCTTA-AAAC-AAATTTTGTCTCTCTTGAGACAGTTTC
* *
89971 TCTTGAAACAAAATCTTTGAAGCTGTTTTCCATT-AAACA
63 CCTTGAAACAAAATCTTTGAATCTGTTTTCC-TTGAAACA
* *
90010 AATTTTGTCTCACTCGAGACAGTTTCT
1 AATTTTGTCTCTCTTGAGACAGTTTCT
90037 TTTGAGATAG
Statistics
Matches: 615, Mismatches: 86, Indels: 78
0.79 0.11 0.10
Matches are distributed among these distances:
93 1 0.00
94 6 0.01
95 17 0.03
100 5 0.01
101 192 0.31
102 263 0.43
103 105 0.17
104 3 0.00
109 16 0.03
110 6 0.01
111 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (101 bp):
AATTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT
TGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACA
Found at i:89735 original size:65 final size:66
Alignment explanation
Indices: 89623--89933 Score: 272
Period size: 65 Copynumber: 4.6 Consensus size: 66
89613 TCTTGAGACA
** * *
89623 TTTTCTCTTAAAACAAATTTTATCTCTTTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
1 TTTTC-CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCATTGAAACAAAATCTTTGAATCT
89688 G-
65 GT
* * *
89689 TTTTCCTTAAAATAAATTTCGTCTCCCTTGAAACAGTTTCCATTGAAACAAAATCTTTGAATCTG
1 TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCATTGAAACAAAATCTTTGAATCTG
89754 T
66 T
* * * * **
89755 TTTTCCTTTAAACAAATTTCGTCTCTCTTGAGACAGTTT-CTTTTAGAACTAAAT-TTTGTCTCT
1 TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCATTGA-AACAAAATCTTTG--AAT
*
89818 CTTGAGACA
63 C-T--G--T
* ** * *
89827 TTTTCTCGTAAAACAAATTTTATCTCTCTTGAGACAGTTTATC-TTGAAACAAAATCTCTGAATC
1 TTTTC-CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTT-CCATTGAAACAAAATCTTTGAATC
89891 TG-
64 TGT
* * * *
89893 TTTTCCTTGAAACAAACTTGCGTCTCCCTTGAGATAGTTTC
1 TTTTCCTTAAAACAAA-TTTCGTCTCTCTTGAGACAGTTTC
89934 TTTAGGAACT
Statistics
Matches: 197, Mismatches: 34, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
65 70 0.36
66 70 0.36
67 2 0.01
68 1 0.01
69 1 0.01
70 1 0.01
71 1 0.01
72 7 0.04
73 37 0.19
74 6 0.03
75 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (66 bp):
TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCATTGAAACAAAATCTTTGAATCTG
T
Found at i:89794 original size:66 final size:64
Alignment explanation
Indices: 89623--89933 Score: 282
Period size: 66 Copynumber: 4.6 Consensus size: 64
89613 TCTTGAGACA
** *
89623 TTTTCTCTTAAAACAAATTTTATCTCTTTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCT
1 TTTTC-CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTT-CCTTGAAACAAAATCTTTGAATCT
89688 G
64 G
* * *
89689 TTTTCCTTAAAATAAATTTCGTCTCCCTTGAAACAGTTTCCATTGAAACAAAATCTTTGAATCTG
1 TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCC-TTGAAACAAAATCTTTGAATCTG
* * * * **
89754 TTTTTCCTTTAAACAAATTTCGTCTCTCTTGAGACAGTTTCTTTTAGAACTAAAT-TTTGTCTCT
1 -TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCTTGA-AACAAAATCTTTG--AAT
89818 CTTGAG
62 C-T--G
* ** * *
89824 ACATTTTCTCGTAAAACAAATTTTATCTCTCTTGAGACAGTTTATCTTGAAACAAAATCTCTGAA
1 ---TTTTC-CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTT-CCTTGAAACAAAATCTTTGAA
89889 TCTG
61 TCTG
* * * *
89893 TTTTCCTTGAAACAAACTTGCGTCTCCCTTGAGATAGTTTC
1 TTTTCCTTAAAACAAA-TTTCGTCTCTCTTGAGACAGTTTC
89934 TTTAGGAACT
Statistics
Matches: 196, Mismatches: 35, Indels: 29
0.75 0.13 0.11
Matches are distributed among these distances:
64 2 0.01
65 67 0.34
66 71 0.36
67 2 0.01
68 1 0.01
69 1 0.01
70 1 0.01
71 1 0.01
72 7 0.04
73 37 0.19
74 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (64 bp):
TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCTTGAAACAAAATCTTTGAATCTG
Found at i:89853 original size:36 final size:36
Alignment explanation
Indices: 89764--89866 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 36
89754 TTTTTCCTTT
* **
89764 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTTTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCGTA
* *
89800 GAACTAAATTTTGTCTCTCTTGAGACATTTTCTCGTA
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCGTA
*
89837 AAACAAATTTTATCTCTCTTGAGACAGTTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTT
89867 ATCTTGAAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 27 0.47
37 31 0.53
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCGTA
Found at i:89874 original size:139 final size:139
Alignment explanation
Indices: 89696--89965 Score: 384
Period size: 139 Copynumber: 1.9 Consensus size: 139
89686 CTGTTTTCCT
* * *
89696 TAAAATAAATTTCGTCTCCCTTGAAACAGTTTCCATTGAAACAAAATCTTTGAATCTGTTTTTCC
1 TAAAACAAATTTCATCTCCCTTGAAACAGTTTCCATTGAAACAAAATCTCTGAATCTG-TTTTCC
* * * *
89761 TTTAAACAAA-TTTCGTCTCTCTTGAGACAGTTTCTTTTA-GAACTAAATTTTGTCTCTCTTGAG
65 TTGAAACAAACTTGCGTCTCCCTTGAGACAGTTTC-TTTAGGAACTAAATTTTGTCTCTATTGAG
89824 ACATTTTCTCG
129 ACATTTTCTCG
* * * *
89835 TAAAACAAATTTTATCTCTCTTGAGACAGTTTATC-TTGAAACAAAATCTCTGAATCTGTTTTCC
1 TAAAACAAATTTCATCTCCCTTGAAACAGTTT-CCATTGAAACAAAATCTCTGAATCTGTTTTCC
*
89899 TTGAAACAAACTTGCGTCTCCCTTGAGATAGTTTCTTTAGGAACTAAATTTTGTCTCTATTGAGA
65 TTGAAACAAACTTGCGTCTCCCTTGAGACAGTTTCTTTAGGAACTAAATTTTGTCTCTATTGAGA
89964 CA
130 CA
89966 GTTTATCTTG
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
138 19 0.16
139 96 0.83
140 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (139 bp):
TAAAACAAATTTCATCTCCCTTGAAACAGTTTCCATTGAAACAAAATCTCTGAATCTGTTTTCCT
TGAAACAAACTTGCGTCTCCCTTGAGACAGTTTCTTTAGGAACTAAATTTTGTCTCTATTGAGAC
ATTTTCTCG
Found at i:89877 original size:36 final size:36
Alignment explanation
Indices: 89756--89879 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
89746 TGAATCTGTT
* *
89756 TTTC-CTTTAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
* * *
89791 TTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGACAT
1 TTTCTCTTAAAAC-AAATTTTGTCTCTCTTGAGACAG
* *
89828 TTTCTCGTAAAACAAATTTTATCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
* *
89864 TTTATCTTGAAACAAA
1 TTTCTCTTAAAACAAA
89880 ATCTCTGAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
35 4 0.05
36 39 0.53
37 31 0.42
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:89956 original size:103 final size:102
Alignment explanation
Indices: 89841--90038 Score: 290
Period size: 103 Copynumber: 1.9 Consensus size: 102
89831 CTCGTAAAAC
* *
89841 AAATTTTATCTCTCTTGAGACAGTTTATCTTGAAACAAAATCTCTGAATCTGTTTTCC-TTGAAA
1 AAATTTTATCTCTATTGAGACAGTTTATCTTGAAACAAAATCTCTGAAGCTGTTTTCCATT-AAA
* * *
89905 CAAACTTGCGTCTCCCTTGAGATAGTTTCTTTAGGAACT
65 CAAA-TTGCGTCTCACTCGAGACAGTTTCTTTAGGAACT
* *
89944 AAATTTTGTCTCTATTGAGACAGTTTATCTTGAAACAAAATCTTTGAAGCTGTTTTCCATTAAAC
1 AAATTTTATCTCTATTGAGACAGTTTATCTTGAAACAAAATCTCTGAAGCTGTTTTCCATTAAAC
**
90009 AAATTTTGTCTCACTCGAGACAGTTTCTTT
66 AAATTGCGTCTCACTCGAGACAGTTTCTTT
90039 TGAGATAGTT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
102 22 0.26
103 61 0.72
104 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (102 bp):
AAATTTTATCTCTATTGAGACAGTTTATCTTGAAACAAAATCTCTGAAGCTGTTTTCCATTAAAC
AAATTGCGTCTCACTCGAGACAGTTTCTTTAGGAACT
Found at i:91913 original size:2 final size:2
Alignment explanation
Indices: 91902--91997 Score: 60
Period size: 2 Copynumber: 50.5 Consensus size: 2
91892 TATATTTTAA
* *
91902 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT CT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
91942 A- AT TT CT AT TT TT TT AC AT AT -T ACC AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
91982 AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
91998 CATCTTATTA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
1 6 0.08
2 68 0.91
3 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:92117 original size:19 final size:20
Alignment explanation
Indices: 92095--92135 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
92085 TACTTTATTT
*
92095 TTTTTAT-TTATCTTCTTTA
1 TTTTTATATTATCTTCCTTA
*
92114 -TTTTATATTATTTTCCTTA
1 TTTTTATATTATCTTCCTTA
92133 TTT
1 TTT
92136 CGTTCGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
18 6 0.33
19 10 0.56
20 2 0.11
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTATATTATCTTCCTTA
Found at i:92768 original size:2 final size:2
Alignment explanation
Indices: 92761--92798 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
92751 CTTAAATAAT
92761 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
92799 ACTTTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101675 original size:17 final size:17
Alignment explanation
Indices: 101649--101693 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
101639 TTGGCTTGAT
* *
101649 TTTTGGTTTTTATTTAA
1 TTTTGATTTTGATTTAA
*
101666 TTTTGATTTTGATTTTA
1 TTTTGATTTTGATTTAA
101683 TTTT-ATTTTGA
1 TTTTGATTTTGA
101694 GATATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTTGATTTTGATTTAA
Found at i:101983 original size:39 final size:39
Alignment explanation
Indices: 101933--102026 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
101923 CGGTTTGCAA
*** *
101933 AAAAAT-CGTTTTTTTTTTAAATTGGATTTTTT-CGGAT
1 AAAAATCCGTTTTTTTAAAAAATCGGATTTTTTCCGGAT
101970 AAAAATCCAGTTTTTTTAAAAAATCGGATTTTTTCCGGAT
1 AAAAATCC-GTTTTTTTAAAAAATCGGATTTTTTCCGGAT
* *
102010 AAAAAACCGGTTTTTTA
1 AAAAATCCGTTTTTTTA
102027 TCCGGTTTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 6 0.12
38 1 0.02
39 29 0.60
40 12 0.25
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (39 bp):
AAAAATCCGTTTTTTTAAAAAATCGGATTTTTTCCGGAT
Found at i:102048 original size:27 final size:25
Alignment explanation
Indices: 101986--102071 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 25
101976 CCAGTTTTTT
*
101986 TAAAAAATCGGATTTTT-TCCGG-A
1 TAAAAAATCGGTTTTTTATCCGGTA
* *
102009 TAAAAAACCGGTTTTTTATCCGGTT
1 TAAAAAATCGGTTTTTTATCCGGTA
*
102034 TGAAAAAAATCGGTTTTTAATCCGGTA
1 T--AAAAAATCGGTTTTTTATCCGGTA
*
102061 -AAAAAACCGGT
1 TAAAAAATCGGT
102072 CGTTCAATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
23 15 0.29
24 15 0.29
25 1 0.02
27 21 0.40
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (25 bp):
TAAAAAATCGGTTTTTTATCCGGTA
Found at i:110255 original size:2 final size:2
Alignment explanation
Indices: 110248--110365 Score: 236
Period size: 2 Copynumber: 59.0 Consensus size: 2
110238 TAAATTATTA
110248 AT AT AT 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 AT AT AT
110290 AT AT AT 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 AT AT AT
110332 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
110366 CTTATAATAG
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 116 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114288 original size:20 final size:20
Alignment explanation
Indices: 114265--114321 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
114255 TTCTAGAATG
*
114265 TAGGCAGGATATCTATACCA
1 TAGGCAGGGTATCTATACCA
114285 TAGGCAGGGTATCTATACCA
1 TAGGCAGGGTATCTATACCA
*
114305 TAGACAGGGTATCTATA
1 TAGGCAGGGTATCTATA
114322 TCTCAGTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (20 bp):
TAGGCAGGGTATCTATACCA
Found at i:114879 original size:22 final size:21
Alignment explanation
Indices: 114854--114906 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
114844 GTTTATAGTA
*
114854 GTCCTTCGGATCTTATCCAGTG
1 GTCCTTCGGA-CATATCCAGTG
114876 GTCCTTCGGGACATATCCAGTG
1 GTCCTTC-GGACATATCCAGTG
*
114898 GTCATTCGG
1 GTCCTTCGG
114907 GACGTAGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.32
Consensus pattern (21 bp):
GTCCTTCGGACATATCCAGTG
Found at i:114907 original size:22 final size:22
Alignment explanation
Indices: 114867--114909 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
114857 CTTCGGATCT
*
114867 TATCCAGTGGTCCTTCGGGACA
1 TATCCAGTGGTCATTCGGGACA
114889 TATCCAGTGGTCATTCGGGAC
1 TATCCAGTGGTCATTCGGGAC
114910 GTAGTGGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (22 bp):
TATCCAGTGGTCATTCGGGACA
Found at i:124797 original size:13 final size:13
Alignment explanation
Indices: 124781--124805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124771 TTTCATTAAA
124781 TTTTTATTTTTAC
1 TTTTTATTTTTAC
124794 TTTTTATTTTTA
1 TTTTTATTTTTA
124806 TTCGATCAAG
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:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTAC
Found at i:132471 original size:10 final size:9
Alignment explanation
Indices: 132436--132527 Score: 76
Period size: 10 Copynumber: 9.6 Consensus size: 9
132426 GCTGCTGGAA
*
132436 ACCGGTTTA
1 ACCGGTTTG
*
132445 ACCGGTTTTCA
1 ACCGG-TTT-G
132456 ACCGGTTCTG
1 ACCGGTT-TG
132466 ACCGGTTTG
1 ACCGGTTTG
*
132475 ACCGGTTTCA
1 ACCGGTTT-G
*
132485 ACCGGTTCG
1 ACCGGTTTG
*
132494 AACTGGTTTG
1 -ACCGGTTTG
*
132504 ACCGGTCTG
1 ACCGGTTTG
132513 AACCGGTTTG
1 -ACCGGTTTG
132523 ACCGG
1 ACCGG
132528 GCTGACCCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
9 27 0.40
10 34 0.50
11 7 0.10
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:132480 original size:19 final size:20
Alignment explanation
Indices: 132436--132527 Score: 93
Period size: 19 Copynumber: 4.7 Consensus size: 20
132426 GCTGCTGGAA
* * *
132436 ACCGGTTTAACCGGTTTTCA
1 ACCGGTTTGACCGGTTCTGA
132456 ACCGGTTCTGACCGGTT-TG-
1 ACCGGTT-TGACCGGTTCTGA
*
132475 ACCGGTTTCAACCGGTTC-GA
1 ACCGGTTT-GACCGGTTCTGA
*
132495 ACTGGTTTGACCGG-TCTGA
1 ACCGGTTTGACCGGTTCTGA
132514 ACCGGTTTGACCGG
1 ACCGGTTTGACCGG
132528 GCTGACCCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.05
19 35 0.57
20 15 0.25
21 8 0.13
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.29
Consensus pattern (20 bp):
ACCGGTTTGACCGGTTCTGA
Found at i:132501 original size:29 final size:29
Alignment explanation
Indices: 132436--132527 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
132426 GCTGCTGGAA
*
132436 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTCTG
132466 ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
132494 AACTGGTTTGACCGGTCTGAACCGGTT-TG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCTG
132523 ACCGG
1 ACCGG
132528 GCTGACCCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 5 0.09
29 37 0.67
30 13 0.24
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.29
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:132532 original size:19 final size:19
Alignment explanation
Indices: 132493--132532 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
132483 CAACCGGTTC
* *
132493 GAACTGGTTTGACCGGTCT
1 GAACCGGTTTGACCGGGCT
132512 GAACCGGTTTGACCGGGCT
1 GAACCGGTTTGACCGGGCT
132531 GA
1 GA
132533 CCCGACCCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (19 bp):
GAACCGGTTTGACCGGGCT
Found at i:135922 original size:19 final size:18
Alignment explanation
Indices: 135895--135932 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
135885 ATTTAAATTG
135895 ATTTTATTT-ATTTTTACC
1 ATTTTATTTCA-TTTTACC
135913 ATTTTAATTTCATTTTACC
1 ATTTT-ATTTCATTTTACC
135932 A
1 A
135933 AAACCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 12 0.67
20 1 0.06
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTATTTCATTTTACC
Found at i:138462 original size:99 final size:99
Alignment explanation
Indices: 138291--138488 Score: 369
Period size: 99 Copynumber: 2.0 Consensus size: 99
138281 GAATAGTTCA
138291 GTGATTTATTCAGAAGTATTTCTTGAAAATTATTAGTAATTATCAAAGGAATTAAAGGGTAAAAT
1 GTGATTTATTCAGAAGTATTTCTTGAAAATTATTAGTAATTATCAAAGGAATTAAAGGGTAAAAT
*
138356 GGTCATTTGACATAAAAGATTTTTATTTCCTTAT
66 GGTCATTTGACAGAAAAGATTTTTATTTCCTTAT
*
138390 GTGATTTATTCGGAAGTATTTCTTGAAAATTATTAGTAATTATCAAAGGAATTAAAGGGTAAAAT
1 GTGATTTATTCAGAAGTATTTCTTGAAAATTATTAGTAATTATCAAAGGAATTAAAGGGTAAAAT
*
138455 GGTCATTTGATAGAAAAGATTTTTATTTCCTTAT
66 GGTCATTTGACAGAAAAGATTTTTATTTCCTTAT
138489 AATATAAGGA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (99 bp):
GTGATTTATTCAGAAGTATTTCTTGAAAATTATTAGTAATTATCAAAGGAATTAAAGGGTAAAAT
GGTCATTTGACAGAAAAGATTTTTATTTCCTTAT
Found at i:141115 original size:14 final size:14
Alignment explanation
Indices: 141096--141125 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
141086 CATTTAAGGA
*
141096 AAAATATATTAATT
1 AAAATAGATTAATT
141110 AAAATAGATTAATT
1 AAAATAGATTAATT
141124 AA
1 AA
141126 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AAAATAGATTAATT
Found at i:143850 original size:26 final size:26
Alignment explanation
Indices: 143821--143873 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
143811 CTACAATGAG
*
143821 TGGCATTCATTGCAATACACCACTAA
1 TGGCATTCATTGAAATACACCACTAA
*
143847 TGGCATTCATTGAAATGCACCACTAA
1 TGGCATTCATTGAAATACACCACTAA
143873 T
1 T
143874 ATAAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (26 bp):
TGGCATTCATTGAAATACACCACTAA
Found at i:145031 original size:25 final size:25
Alignment explanation
Indices: 144997--145048 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
144987 GATGTTTACT
144997 CCTTTCTTATGGGTACATTAACCCC
1 CCTTTCTTATGGGTACATTAACCCC
145022 CCTTTCTTATGGGTACATTAACCCC
1 CCTTTCTTATGGGTACATTAACCCC
145047 CC
1 CC
145049 ACAAAGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.35
Consensus pattern (25 bp):
CCTTTCTTATGGGTACATTAACCCC
Found at i:146188 original size:3 final size:3
Alignment explanation
Indices: 146180--146220 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
146170 CGAATACCCT
146180 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
146221 TATTTTACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:148839 original size:21 final size:19
Alignment explanation
Indices: 148815--148876 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 19
148805 TCCTCTTGCC
148815 TGGTTTCGAAAACCCCCGTGT
1 TGGTTTC-AAAACCCCC-TGT
*
148836 TGGTTTCAAAACACCCATGCT
1 TGGTTTCAAAAC-CCCCTG-T
*
148857 TGGTTTCCAAACCCCCTGT
1 TGGTTTCAAAACCCCCTGT
148876 T
1 T
148877 CCAATGGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.06
20 12 0.33
21 22 0.61
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.31
Consensus pattern (19 bp):
TGGTTTCAAAACCCCCTGT
Found at i:152140 original size:17 final size:17
Alignment explanation
Indices: 152099--152143 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
152089 TATAAGGCAA
*
152099 AATAAGAAT-AT-TTTT
1 AATAAGAATAATATATT
*
152114 AAT-AGTATAATATATT
1 AATAAGAATAATATATT
152130 AATAAGAATAATAT
1 AATAAGAATAATAT
152144 TGAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.17
15 5 0.21
16 6 0.25
17 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AATAAGAATAATATATT
Found at i:156988 original size:36 final size:36
Alignment explanation
Indices: 156941--157199 Score: 403
Period size: 36 Copynumber: 7.2 Consensus size: 36
156931 AGATGAACAC
156941 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
* *
156977 TTGAATCGGAAGTGTCAATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
*
157013 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTC-AC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
*
157048 TTGAATCGGAAGTGCCGGTGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
157084 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
* * *
157120 TTGAATAGGAAGTTCCGATGCTTCCCTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
* * * * *
157156 TTGAATCGGAAGTGCCAATGGTTCCCTCTGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
157192 TTGAATCG
1 TTGAATCG
157200 ATGCAAACTT
Statistics
Matches: 205, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
35 33 0.16
36 172 0.84
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (36 bp):
TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
Done.