Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006094.1 Hibiscus syriacus cultivar Beakdansim tig00014445_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: 761529
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 5
Found at i:336973 original size:17 final size:17
Alignment explanation
Indices: 336971--337026 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 17
336961 TCAACGGTCG
336971 GGTCGGGTCGGGTCAACGGTC
1 GGTCGGGTCGGGTCAA----C
336992 GGGTCGGGTCGGGTCAAC
1 G-GTCGGGTCGGGTCAAC
337010 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
337027 CGATTCAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.47
18 2 0.06
21 1 0.03
22 15 0.44
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:336983 original size:27 final size:22
Alignment explanation
Indices: 336937--337023 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
336927 AACGGTCAAC
*
336937 GGTCAACGGTCGGGTTGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
336959 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
336981 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
337003 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
337024 AACCGATTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.09, C:0.22, G:0.49, T:0.20
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:337057 original size:29 final size:30
Alignment explanation
Indices: 337035--337109 Score: 109
Period size: 29 Copynumber: 2.5 Consensus size: 30
337025 ACCGATTCAG
*
337035 ACCGGTCAAACCGGTTC-GAACCGGTTGAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTAAA
337064 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTT-AAA
*
337094 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
337110 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 15 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (30 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTAAA
Found at i:337109 original size:9 final size:9
Alignment explanation
Indices: 337035--337109 Score: 69
Period size: 9 Copynumber: 7.8 Consensus size: 9
337025 ACCGATTCAG
*
337035 ACCGGTCAA
1 ACCGGTTAA
*
337044 ACCGGTTCGA
1 ACCGGTT-AA
337054 ACCGGTTGAA
1 ACCGGTT-AA
*
337064 ACCGGTCAA
1 ACCGGTTAA
*
337073 ACCGGTCAGA
1 ACCGGTTA-A
337083 ACCGGTTGAAA
1 ACCGGTT--AA
337094 ACCGGTTAA
1 ACCGGTTAA
337103 ACCGGTT
1 ACCGGTT
337110 TCCAGCAGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 25 0.45
10 22 0.39
11 8 0.14
12 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:344378 original size:10 final size:10
Alignment explanation
Indices: 344333--344412 Score: 67
Period size: 10 Copynumber: 8.1 Consensus size: 10
344323 GTCAGACCAG
*
344333 TCAAACCGAT
1 TCAAACCGGT
*
344343 TCAGACCGG-
1 TCAAACCGGT
*
344352 TCAAACTGGT
1 TCAAACCGGT
*
344362 TCGAACCGGT
1 TCAAACCGGT
*
344372 TGAAACCGG-
1 TCAAACCGGT
344381 TCAAACCGG-
1 TCAAACCGGT
344390 TCAGAACCGGT
1 TCA-AACCGGT
*
344401 TGAAAACCGGT
1 T-CAAACCGGT
344412 T
1 T
344413 TCCAGTAGCC
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
9 18 0.32
10 28 0.50
11 9 0.16
12 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:344379 original size:29 final size:30
Alignment explanation
Indices: 344347--344411 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
344337 ACCGATTCAG
*
344347 ACCGGTCAAACTGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
344376 ACCGGTCAAACCGGTCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTCAGAACCGGTTGAAA
344406 ACCGGT
1 ACCGGT
344412 TTCCAGTAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 2 0.06
29 23 0.70
30 8 0.24
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (30 bp):
ACCGGTCAAACCGGTCAGAACCGGTTGAAA
Found at i:344387 original size:19 final size:19
Alignment explanation
Indices: 344347--344411 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
344337 ACCGATTCAG
*
344347 ACCGGTCAAACTGGTTCG-A
1 ACCGGTCAAACCGGTT-GAA
* *
344366 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTGAA
344385 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTTG-AA
344406 ACCGGT
1 ACCGGT
344412 TTCCAGTAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 2 0.06
19 18 0.50
20 8 0.22
21 8 0.22
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTGAA
Found at i:346512 original size:18 final size:18
Alignment explanation
Indices: 346489--346529 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
346479 AAGCAAAAGG
*
346489 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
346507 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
346525 CAATC
1 AAATC
346530 GGCTTCACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:346873 original size:20 final size:20
Alignment explanation
Indices: 346848--346903 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
346838 ATAAGCATTA
*
346848 CGAATTTGACTATCGTGTAG
1 CGAATTTGACTATCGCGTAG
* *
346868 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTATCGCGTAG
*
346888 CGAATTTAACTATCGC
1 CGAATTTGACTATCGC
346904 AACGCTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (20 bp):
CGAATTTGACTATCGCGTAG
Found at i:347032 original size:25 final size:25
Alignment explanation
Indices: 346994--347043 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
346984 AAATCAATTA
* *
346994 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACAATATTTG
347019 AACATTGTTATGGGTACAATATTTG
1 AACATTGTTATGGGTACAATATTTG
347044 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (25 bp):
AACATTGTTATGGGTACAATATTTG
Found at i:347452 original size:18 final size:17
Alignment explanation
Indices: 347431--347464 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
347421 TAATTGGAGT
347431 TTGAATTTAAATTTCAAA
1 TTGAATTT-AATTTCAAA
*
347449 TTGAGTTTAATTTCAA
1 TTGAATTTAATTTCAA
347465 TATAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (17 bp):
TTGAATTTAATTTCAAA
Found at i:347819 original size:39 final size:39
Alignment explanation
Indices: 347776--347862 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
347766 TCCGATGCTC
347776 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
* * *
347815 ATCAAAATCCAAATCTCGTATGGTGCCAAGCAAAAGTAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
347854 ATCAAAATC
1 ATCAAAATC
347863 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
Found at i:348138 original size:20 final size:20
Alignment explanation
Indices: 348113--348161 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
348103 CCGTTGCGAA
348113 GCGAATTTGACTTTCGTGTT
1 GCGAATTTGACTTTCGTGTT
348133 GCGAATTTGACTTTCGTGTT
1 GCGAATTTGACTTTCGTGTT
348153 GCGAATTTG
1 GCGAATTTG
348162 TACCTTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.14, G:0.27, T:0.43
Consensus pattern (20 bp):
GCGAATTTGACTTTCGTGTT
Found at i:349746 original size:21 final size:21
Alignment explanation
Indices: 349722--349817 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
349712 GGCGGGACCA
*
349722 CTTGAACGATGACAGGGGCCT
1 CTTGAACGATGAGAGGGGCCT
* * *
349743 CTTGAACGGTGGGAGGGGCTT
1 CTTGAACGATGAGAGGGGCCT
* * *
349764 CTTCG-ATGATGATAGGGACCT
1 CTT-GAACGATGAGAGGGGCCT
*
349785 CTTGAACGAT-AGGAGGTGCCT
1 CTTGAACGATGA-GAGGGGCCT
*
349806 CTTGAATGATGA
1 CTTGAACGATGA
349818 TAGGTGCATC
Statistics
Matches: 56, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
20 2 0.04
21 52 0.93
22 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (21 bp):
CTTGAACGATGAGAGGGGCCT
Found at i:349800 original size:42 final size:42
Alignment explanation
Indices: 349722--349821 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
349712 GGCGGGACCA
* * * * * *
349722 CTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGGCTT
1 CTTGAATGATGATAGGGACCTCTTGAACGATAGGAGGGGCCT
*
349764 CTTCG-ATGATGATAGGGACCTCTTGAACGATAGGAGGTGCCT
1 CTT-GAATGATGATAGGGACCTCTTGAACGATAGGAGGGGCCT
349806 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
349822 TGCATCGGGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 47 0.96
43 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (42 bp):
CTTGAATGATGATAGGGACCTCTTGAACGATAGGAGGGGCCT
Found at i:349822 original size:21 final size:21
Alignment explanation
Indices: 349769--349824 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
349759 GGCTTCTTCG
349769 ATGATGATAGG-GACCTCTTGA
1 ATGATGATAGGTG-CCTCTTGA
* *
349790 ACGAT-AGGAGGTGCCTCTTGA
1 ATGATGA-TAGGTGCCTCTTGA
349811 ATGATGATAGGTGC
1 ATGATGATAGGTGC
349825 ATCGGGCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 1 0.04
21 25 0.89
22 2 0.07
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (21 bp):
ATGATGATAGGTGCCTCTTGA
Found at i:349993 original size:4 final size:4
Alignment explanation
Indices: 349961--350010 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
349951 GGGCCGCTGA
* * * *
349961 AAAT AAAT TAAT ATAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
350009 AA
1 AA
350011 TGCCAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:352028 original size:20 final size:20
Alignment explanation
Indices: 351995--352041 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
351985 AAATCGCAAC
351995 GCGA-TTTTAGTTTCGCGTT
1 GCGATTTTTAGTTTCGCGTT
*
352014 GCGATTTTTATTTTCGCGTT
1 GCGATTTTTAGTTTCGCGTT
352034 GCGATTTT
1 GCGATTTT
352042 GGTGTTGCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (20 bp):
GCGATTTTTAGTTTCGCGTT
Found at i:352330 original size:22 final size:22
Alignment explanation
Indices: 352301--352366 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
352291 GGAGATAGAT
*
352301 GGATTTCGTCAGAAATGGGGATC
1 GGATTTCGTCAGAGATGGGGA-C
352324 -GATTTCGTCAGAGATGGGGAC
1 GGATTTCGTCAGAGATGGGGAC
*
352345 GGATTTTGTCAGAGATGGGGAC
1 GGATTTCGTCAGAGATGGGGAC
352367 AGATATCGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.26
Consensus pattern (22 bp):
GGATTTCGTCAGAGATGGGGAC
Found at i:352523 original size:20 final size:20
Alignment explanation
Indices: 352498--352546 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
352488 GCGTAAAAAC
352498 ATTTGACTTTCACGTTGCGA
1 ATTTGACTTTCACGTTGCGA
* *
352518 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCACGTTGCGA
352538 ATTTGACTT
1 ATTTGACTT
352547 CTATGTTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCACGTTGCGA
Found at i:352554 original size:20 final size:20
Alignment explanation
Indices: 352498--352554 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
352488 GCGTAAAAAC
352498 ATTTGACTT-TCACGTTGCGA
1 ATTTGACTTCT-ACGTTGCGA
*
352518 ATTTGACTATC-GCGTTGCGA
1 ATTTGACT-TCTACGTTGCGA
*
352538 ATTTGACTTCTATGTTG
1 ATTTGACTTCTACGTTG
352555 TGATTTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTGACTTCTACGTTGCGA
Found at i:352614 original size:20 final size:20
Alignment explanation
Indices: 352564--352618 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
352554 GTGATTTACA
352564 AATTCGCGTTGCGAAATTGG
1 AATTCGCGTTGCGAAATTGG
* *
352584 AA-ACTGTGTTGCGAAATTGG
1 AATTC-GCGTTGCGAAATTGG
*
352604 AATTCACGTTGCGAA
1 AATTCGCGTTGCGAA
352619 TTTGAGACCG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
AATTCGCGTTGCGAAATTGG
Found at i:357067 original size:15 final size:15
Alignment explanation
Indices: 357047--357077 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
357037 TTGACTTTAG
357047 AATATTAAAATGAAA
1 AATATTAAAATGAAA
*
357062 AATATTATAATGAAA
1 AATATTAAAATGAAA
357077 A
1 A
357078 GTTGAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AATATTAAAATGAAA
Found at i:358493 original size:23 final size:22
Alignment explanation
Indices: 358455--358497 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
358445 CAATTCATTT
358455 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
*
358477 ATCTTATTTTTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
358498 CCAGCACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:365122 original size:23 final size:22
Alignment explanation
Indices: 365084--365126 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
365074 CAATTCATTT
365084 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
*
365106 ATCTTATTTTTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
365127 CTAGCACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:365971 original size:73 final size:73
Alignment explanation
Indices: 365852--366001 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 73
365842 TGTTTCTTTC
365852 ATTTTGAGTTGGTTTTTGGTTCATGAGTGGTATAGAAACTTAAAGAAGCTTTAAAATGAATAAAA
1 ATTTTGAGTTGGTTTTTGGTTCATGAGTGGTATAGAAACTTAAAGAAGCTTTAAAATGAATAAAA
365917 ACTAAGAG
66 ACTAAGAG
*
365925 ATTTTGAGTTGGTTTTTGGTTCATGGGTGGTATAGAAACTTAAAGAAGCTTTAAAATGAATAAAA
1 ATTTTGAGTTGGTTTTTGGTTCATGAGTGGTATAGAAACTTAAAGAAGCTTTAAAATGAATAAAA
365990 ACTAAGAG
66 ACTAAGAG
365998 ATTT
1 ATTT
366002 GGTGAATTAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.35
Consensus pattern (73 bp):
ATTTTGAGTTGGTTTTTGGTTCATGAGTGGTATAGAAACTTAAAGAAGCTTTAAAATGAATAAAA
ACTAAGAG
Found at i:370869 original size:21 final size:21
Alignment explanation
Indices: 370851--370920 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
370841 TTTATTATTT
*
370851 TTATTGTTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
370872 TTATTATTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
*
370893 TTATTATTATAATTATTACT-A
1 TTATTATTATAATTGTTA-TAA
370914 TTATTAT
1 TTATTAT
370921 ATTTTTATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (21 bp):
TTATTATTATAATTGTTATAA
Found at i:370883 original size:12 final size:12
Alignment explanation
Indices: 370866--370920 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
370856 GTTATAATTG
370866 TTATAATTATTA
1 TTATAATTATTA
*
370878 TTAT-A--ATTG
1 TTATAATTATTA
370887 TTATAATTATTA
1 TTATAATTATTA
370899 TTATAATTATTA
1 TTATAATTATTA
* *
370911 CTATTATTAT
1 TTATAATTAT
370921 ATTTTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.19
10 1 0.03
11 1 0.03
12 27 0.75
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (12 bp):
TTATAATTATTA
Found at i:370910 original size:30 final size:29
Alignment explanation
Indices: 370836--370941 Score: 92
Period size: 30 Copynumber: 3.7 Consensus size: 29
370826 TTTGCCCGTT
* *
370836 TTATTTTTATTATT-TT-TATTGTTATAA
1 TTATTATTATAATTATTATATTGTTATAA
* * *
370863 TTGTTATAATTATTATTATAATTGTTATAA
1 TTATTATTATAATTATTAT-ATTGTTATAA
*
370893 TTATTATTATAATTATTACTATTATTAT-A
1 TTATTATTATAATTATTA-TATTGTTATAA
* *
370922 TTTTTATTAATAAATATTAT
1 TTATTATT-ATAATTATTAT
370942 TATTACATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
27 11 0.17
28 2 0.03
29 10 0.15
30 41 0.63
31 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (29 bp):
TTATTATTATAATTATTATATTGTTATAA
Found at i:372391 original size:16 final size:16
Alignment explanation
Indices: 372370--372400 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
372360 TTTTACTTTC
*
372370 ATATATTTATGATTAT
1 ATATATTTATCATTAT
372386 ATATATTTATCATTA
1 ATATATTTATCATTA
372401 GTATTACTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
ATATATTTATCATTAT
Found at i:372775 original size:11 final size:13
Alignment explanation
Indices: 372738--372777 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
372728 TGTTTAATAA
372738 AATATA-TATATT
1 AATATATTATATT
*
372750 AATATATTATCTT
1 AATATATTATATT
372763 AA-A-ATTATATT
1 AATATATTATATT
372774 AATA
1 AATA
372778 AACTTAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:373226 original size:6 final size:7
Alignment explanation
Indices: 373205--373229 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
373195 TGTCTCTATT
373205 AATTAAA
1 AATTAAA
373212 AATTAAA
1 AATTAAA
373219 AATTAAA
1 AATTAAA
373226 AATT
1 AATT
373230 CATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:373307 original size:26 final size:27
Alignment explanation
Indices: 373252--373312 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
373242 TTTTAATTCT
373252 TTATTTTCAAAATTCTTATATATACTTA
1 TTATTTTCAAAATTCTTATATATAC-TA
* *
373280 TTATTTTCATAATAT-TTATATGTA-TA
1 TTATTTTCAAAAT-TCTTATATATACTA
373306 TTATTTT
1 TTATTTT
373313 ATTAATGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.30
28 20 0.67
29 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (27 bp):
TTATTTTCAAAATTCTTATATATACTA
Found at i:375602 original size:8 final size:7
Alignment explanation
Indices: 375578--375619 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
375568 TTTTCATACA
375578 TGCA-TT
1 TGCATTT
375584 TGCATTT
1 TGCATTT
375591 TGCATCTT
1 TGCAT-TT
375599 TGCATTT
1 TGCATTT
* *
375606 TTCATTG
1 TGCATTT
375613 TGCATTT
1 TGCATTT
375620 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:375602 original size:15 final size:14
Alignment explanation
Indices: 375578--375619 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
375568 TTTTCATACA
375578 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
375591 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
375606 TTCATTGTGCATTT
1 TGCATTTTGCATTT
375620 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:375710 original size:27 final size:26
Alignment explanation
Indices: 375679--375738 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
375669 TATTCACATA
375679 TTTACATTTGCATTTACATTTGT-ATTT
1 TTTACATTTGCATTTACATTT-TCA-TT
* *
375706 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGCATTTACATTTTCATT
375732 TTTACAT
1 TTTACAT
375739 AATTACACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.60
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTTCATT
Found at i:375715 original size:15 final size:15
Alignment explanation
Indices: 375691--375720 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
375681 TACATTTGCA
375691 TTTACATTTGTATTT
1 TTTACATTTGTATTT
*
375706 TTTACGTTTGTATTT
1 TTTACATTTGTATTT
375721 ACATTTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTACATTTGTATTT
Found at i:375721 original size:12 final size:12
Alignment explanation
Indices: 375677--375726 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
375667 TATATTCACA
375677 TATTTACATTTG
1 TATTTACATTTG
*
375689 CATTTACATTTG
1 TATTTACATTTG
*
375701 TATTTTTTACGTTTG
1 TA---TTTACATTTG
375716 TATTTACATTT
1 TATTTACATTT
375727 TCATTTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 20 0.65
15 11 0.35
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.60
Consensus pattern (12 bp):
TATTTACATTTG
Found at i:377627 original size:8 final size:8
Alignment explanation
Indices: 377614--377650 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
377604 CATTAGGTAA
377614 AAAAAAGG
1 AAAAAAGG
377622 AAAAAAGGG
1 AAAAAA-GG
*
377631 AAAAAAAG
1 AAAAAAGG
377639 AAAAAAGG
1 AAAAAAGG
377647 AAAA
1 AAAA
377651 TTGAATCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:377627 original size:9 final size:9
Alignment explanation
Indices: 377613--377650 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
377603 TCATTAGGTA
377613 AAAAAAAGG
1 AAAAAAAGG
*
377622 AAAAAAGGG
1 AAAAAAAGG
377631 AAAAAAA-G
1 AAAAAAAGG
377639 -AAAAAAGG
1 AAAAAAAGG
377647 AAAA
1 AAAA
377651 TTGAATCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 6 0.24
8 2 0.08
9 17 0.68
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:377636 original size:17 final size:16
Alignment explanation
Indices: 377613--377650 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 16
377603 TCATTAGGTA
377613 AAAAAAAGGAAAAAAGGG
1 AAAAAAA-GAAAAAA-GG
377631 AAAAAAAGAAAAAAGG
1 AAAAAAAGAAAAAAGG
377647 AAAA
1 AAAA
377651 TTGAATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAGG
Found at i:380899 original size:74 final size:75
Alignment explanation
Indices: 380764--380929 Score: 219
Period size: 74 Copynumber: 2.2 Consensus size: 75
380754 AACAAGAAGA
* *
380764 AAATGCTGGGGCATGCTGAAAGCCCCTCTCAATCAAAATCATGAATGTTGATGTATTTTGAACAT
1 AAATGCTGGGGCATGCTGAAAGCCCCTCTCAATCAAAATCATGAATGTTGACGCATTTTGAACAT
380829 TTATATCAGC
66 TTATATCAGC
* * * * **
380839 AAATGTTGGGGCATGCTGAAAG-CCCTTTCAATCAGAATGGA-GAATGTTGACGCATTTTGAATG
1 AAATGCTGGGGCATGCTGAAAGCCCCTCTCAATCAAAAT-CATGAATGTTGACGCATTTTGAACA
*
380902 TTTGTATCAGC
65 TTTATATCAGC
*
380913 CAATGCTGGGGCATGCT
1 AAATGCTGGGGCATGCT
380930 AAAACCCATA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
74 57 0.72
75 22 0.28
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (75 bp):
AAATGCTGGGGCATGCTGAAAGCCCCTCTCAATCAAAATCATGAATGTTGACGCATTTTGAACAT
TTATATCAGC
Found at i:382312 original size:22 final size:22
Alignment explanation
Indices: 382284--382406 Score: 192
Period size: 22 Copynumber: 5.6 Consensus size: 22
382274 ACATCTACAT
* *
382284 TCTTCAAAGATAATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
382306 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
382328 TTTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
382350 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
382372 TTTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
382394 TTTTCAAAGATGA
1 TCTTCAAAGATGA
382407 AATCTTTATT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 94 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:383203 original size:76 final size:75
Alignment explanation
Indices: 383077--383257 Score: 283
Period size: 76 Copynumber: 2.4 Consensus size: 75
383067 CTATTTCTCA
* *
383077 CATCTGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
* *
383142 AGCCTTAGTGT
66 AACC-TAGAGT
383153 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
383218 AACCTCGAGT
66 AACCTAGAGT
*
383228 CAGCTGTAAGTCCTACAGTGCA-GAATGTTT
1 CATCTGTAAGTCCTACAGTGCATG-ATGTTT
383258 TTTTTTCTTA
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
74 1 0.01
75 31 0.32
76 66 0.67
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (75 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
AACCTAGAGT
Found at i:383665 original size:113 final size:113
Alignment explanation
Indices: 383271--384043 Score: 869
Period size: 113 Copynumber: 6.8 Consensus size: 113
383261 TTTCTTAAAA
*
383271 CATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * *
383336 GAATAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATCAA
66 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAG
* * * * *
383384 CATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAATAATGAAGAAGAAGTTCATAATTA
1 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * *
383448 GAAGAACTTGTTCAAACTTTTCACTTAAATTCATCATTCGATGGATCAG
66 GAAGAACTTGTTCAACCTTTT-GCTTGAATTCATCACTCGATGGATCAG
** *
383497 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGATGAAGTTCATAATGA
1 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* *
383562 GAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGGTGGATCAG
66 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAG
* * * * *
383610 CAGTGCCAGGTAGAGTTCATAATGAGAAGAACTTATCTAAATAAGGAAGAAGAAGTTCATAATAA
1 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * * * *
383675 GAAGAATTTTTTTAACCTTTTTCTTTAATTCATCACTCGATGGATTAT
66 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAG
* * *
383723 CATTGCCAGTTAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * *
383788 GAAGAATTTGTTTAACCTTTCGCTTTAATTCATCACTCGATGGATTAG
66 GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAG
* * * *
383836 CTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATG
1 CATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * ** * *
383899 AGAAGAGCTTGTTCAACC-TTTG-TATG-ACTCTATCACAGAAAGAGATAGATCAACAC
65 AGAAGAACTTGTTCAACCTTTTGCT-TGAATTC-ATCAC-----TCGATGGAT---CAG
* * * *
383955 CAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAGGAAGTTCATA
1 C-A--TTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
384018 ATGAGAAGAACTTGTTCAACCTTTTG
62 ATGAGAAGAACTTGTTCAACCTTTTG
384044 TGTGACTCTA
Statistics
Matches: 575, Mismatches: 67, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
110 4 0.01
111 9 0.02
112 103 0.18
113 301 0.52
114 70 0.12
116 6 0.01
119 2 0.00
121 1 0.00
122 75 0.13
123 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAG
Found at i:383971 original size:122 final size:123
Alignment explanation
Indices: 383836--384163 Score: 468
Period size: 122 Copynumber: 2.7 Consensus size: 123
383826 GATGGATTAG
383836 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
*
383901 AAGAGCTTGTTCAACC-TTTGTATGACTCTATCACAGAAAGAGATAGATCAACACCAA
66 AAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATAGATCAACACCAA
* *
383958 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAGGAAGTTCATAATGAG
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
* * * * * *
384023 AAGAACTTGTTCAACCTTTTGTGTGACTCTATCACAGAAGGAGATATATCATCATCAG
66 AAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATAGATCAACACCAA
* * * *
384081 CATTTCTAGA-AGGAGTTCATAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGA
* * *
384142 GAATAATTTGTTCAACTTTTTG
65 GAAGAACTTGTTCAACCTTTTG
384164 CTAGATTACA
Statistics
Matches: 186, Mismatches: 18, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
120 40 0.22
122 79 0.42
123 67 0.36
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (123 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAAGAGATAGATCAACACCAA
Found at i:384424 original size:21 final size:21
Alignment explanation
Indices: 384406--384475 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
384396 TTTATTATTT
*
384406 TTATTGTTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
384427 TTATTATTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
*
384448 TTATTATTATAATTATTACT-A
1 TTATTATTATAATTGTTA-TAA
384469 TTATTAT
1 TTATTAT
384476 ATTTTTATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (21 bp):
TTATTATTATAATTGTTATAA
Found at i:384438 original size:12 final size:12
Alignment explanation
Indices: 384421--384475 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
384411 GTTATAATTG
384421 TTATAATTATTA
1 TTATAATTATTA
*
384433 TTAT-A--ATTG
1 TTATAATTATTA
384442 TTATAATTATTA
1 TTATAATTATTA
384454 TTATAATTATTA
1 TTATAATTATTA
* *
384466 CTATTATTAT
1 TTATAATTAT
384476 ATTTTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.19
10 1 0.03
11 1 0.03
12 27 0.75
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (12 bp):
TTATAATTATTA
Found at i:384465 original size:30 final size:29
Alignment explanation
Indices: 384391--384496 Score: 92
Period size: 30 Copynumber: 3.7 Consensus size: 29
384381 TTTGCCCGTT
* *
384391 TTATTTTTATTATT-TT-TATTGTTATAA
1 TTATTATTATAATTATTATATTGTTATAA
* * *
384418 TTGTTATAATTATTATTATAATTGTTATAA
1 TTATTATTATAATTATTAT-ATTGTTATAA
*
384448 TTATTATTATAATTATTACTATTATTAT-A
1 TTATTATTATAATTATTA-TATTGTTATAA
* *
384477 TTTTTATTAATAAATATTAT
1 TTATTATT-ATAATTATTAT
384497 TATTACATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
27 11 0.17
28 2 0.03
29 10 0.15
30 41 0.63
31 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (29 bp):
TTATTATTATAATTATTATATTGTTATAA
Found at i:386003 original size:16 final size:16
Alignment explanation
Indices: 385982--386012 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
385972 TTTTACTTTC
*
385982 ATATATTTATGATTAT
1 ATATATTTATCATTAT
385998 ATATATTTATCATTA
1 ATATATTTATCATTA
386013 GTATTACTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
ATATATTTATCATTAT
Found at i:386371 original size:130 final size:130
Alignment explanation
Indices: 386140--386374 Score: 287
Period size: 130 Copynumber: 1.8 Consensus size: 130
386130 TATATATTTA
* * *
386140 TCAATATTAAGAAAGGACAGTCTTAAAGCAACTGGATGTCCATTTTCTGATATTTTTAAATAAAA
1 TCAATATTAAGAAAGGACAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTCTAAATAAAA
* * **
386205 AAAATAAATATTTTAATATATAAATCTATTTTTATATTATTATCTATTAAAATTTATTTATTTTT
66 AAAATAAATATTTTAATAAATAAATATATTAATATATTATTATCTATTAAAATTTATTTATTTTT
* * * *
386270 TCAATATTAAGAAAGGAGCTGTCTTAAAGCACCTATAAG-CCCTTTTCTGATATTTCTAAAT-AA
1 TCAATATTAAGAAAGGA-CAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTCTAAATAAA
* ** *
386333 ATAAATATCT-TGTTTAATAAAATATATATATTAATATATTAT
65 AAAAATAAATAT-TTTAAT-AAATAAATATATTAATATATTAT
386375 CTTAAAATTA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
128 1 0.01
129 15 0.17
130 55 0.63
131 16 0.18
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (130 bp):
TCAATATTAAGAAAGGACAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTCTAAATAAAA
AAAATAAATATTTTAATAAATAAATATATTAATATATTATTATCTATTAAAATTTATTTATTTTT
Found at i:386390 original size:11 final size:13
Alignment explanation
Indices: 386353--386392 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
386343 TGTTTAATAA
386353 AATATA-TATATT
1 AATATATTATATT
*
386365 AATATATTATCTT
1 AATATATTATATT
386378 AA-A-ATTATATT
1 AATATATTATATT
386389 AATA
1 AATA
386393 AACTTAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:387836 original size:138 final size:137
Alignment explanation
Indices: 387583--387855 Score: 325
Period size: 138 Copynumber: 2.0 Consensus size: 137
387573 CTGAAAAGGA
* * * * * *
387583 AATTCACAAACTTATTATGAATTCCATGGATGCACACATAGTACTGAAAGTACATATAGTACTCA
1 AATTCACAAACTCATTACGAATACCATGGATACACACATAGTACCGAAAGTACATATAATACTCA
** *
387648 TACGAAAATGCACCATTATGCATTCAAAAAAATCGATCAATAAATTTTATACATAATTGTATGTC
66 TACGAAAATGCACCATTATGCATTCAAAAAAATCGATCAATAAACATTATACACAATT-TATGTC
*
387713 TAAATGGT
130 AAAATGGT
* * *
387721 AATTCACAAACTCATTACGAATACCATGGTTACACATC-TAGTGCCGAAAGTACATATAATACTG
1 AATTCACAAACTCATTACGAATACCATGGATACACA-CATAGTACCGAAAGTACATATAATACTC
* * * * * * *
387785 ATACGAAAATGTACCGTTATGTATT-ACACAAAATCGATCGATAACCATTATATACAATTTATGT
65 ATACGAAAATGCACCATTATGCATTCA-AAAAAATCGATCAATAAACATTATACACAATTTATGT
387849 CAAAATG
129 CAAAATG
387856 CACCTATGAC
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
137 12 0.11
138 100 0.88
139 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (137 bp):
AATTCACAAACTCATTACGAATACCATGGATACACACATAGTACCGAAAGTACATATAATACTCA
TACGAAAATGCACCATTATGCATTCAAAAAAATCGATCAATAAACATTATACACAATTTATGTCA
AAATGGT
Found at i:391632 original size:20 final size:20
Alignment explanation
Indices: 391607--391670 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
391597 CACAAAATAT
391607 TGTATGAACAGTACCGATAC
1 TGTATGAACAGTACCGATAC
* * *
391627 TGTATGAATAGTAGTATCGATAT
1 TGTATG-A-A-CAGTACCGATAC
*
391650 TGTATGAACATTACCGATAC
1 TGTATGAACAGTACCGATAC
391670 T
1 T
391671 CAAAATTCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 15 0.44
21 2 0.06
22 2 0.06
23 15 0.44
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATGAACAGTACCGATAC
Found at i:393179 original size:21 final size:21
Alignment explanation
Indices: 393141--393180 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
393131 TATATATCCC
*
393141 TATCAGTATCATCATCATTAA
1 TATCAGTATCACCATCATTAA
* *
393162 TATCATTATCACCTTCATT
1 TATCAGTATCACCATCATT
393181 TAGTACATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.42
Consensus pattern (21 bp):
TATCAGTATCACCATCATTAA
Found at i:393410 original size:23 final size:23
Alignment explanation
Indices: 393360--393467 Score: 112
Period size: 23 Copynumber: 4.8 Consensus size: 23
393350 ATATAATATC
* * *
393360 CCGAAGAACCACATAG-A-TGTC
1 CCGAAGGACCACGTAGAATTGTT
* * *
393381 CCGAAGGACCGCGTGGAAATGTT
1 CCGAAGGACCACGTAGAATTGTT
* *
393404 CCAAAGGACCACGTAGAATTATT
1 CCGAAGGACCACGTAGAATTGTT
393427 CCGAAGGACCACGTAGAATTGTT
1 CCGAAGGACCACGTAGAATTGTT
* *
393450 CCGAAGGTCCGCGTAGAA
1 CCGAAGGACCACGTAGAA
393468 CCCTCGACTC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 12 0.17
22 1 0.01
23 58 0.82
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAATTGTT
Found at i:394320 original size:20 final size:20
Alignment explanation
Indices: 394282--394320 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
394272 AGCATCGATA
* * *
394282 CCCTTGGTATCTATGCTACT
1 CCCTTAGTATCGATACTACT
394302 CCCTTAGTATCGATACTAC
1 CCCTTAGTATCGATACTAC
394321 ACGACTGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (20 bp):
CCCTTAGTATCGATACTACT
Found at i:394987 original size:16 final size:16
Alignment explanation
Indices: 394966--394998 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
394956 CATTAATTGC
394966 CAAAAGATCAAAATGT
1 CAAAAGATCAAAATGT
394982 CAAAAGATCAAAATGT
1 CAAAAGATCAAAATGT
394998 C
1 C
394999 CCTTCCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (16 bp):
CAAAAGATCAAAATGT
Found at i:395573 original size:19 final size:20
Alignment explanation
Indices: 395549--395597 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
395539 AAATGATTTT
* * *
395549 ATTTTGAAAGCTAAAATG-G
1 ATTTTGAAAACCAAAATGAA
395568 ATTTTGAAAACCAAAATGAA
1 ATTTTGAAAACCAAAATGAA
395588 ATTTTGAAAA
1 ATTTTGAAAA
395598 AGGATTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (20 bp):
ATTTTGAAAACCAAAATGAA
Found at i:402592 original size:17 final size:17
Alignment explanation
Indices: 402570--402608 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
402560 AACGGTCAAC
402570 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
402587 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
402604 GGTCA
1 GGTCA
402609 GATCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:402597 original size:7 final size:7
Alignment explanation
Indices: 402536--402580 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
402526 GTCAAAGAAA
402536 GTCAACG
1 GTCAACG
402543 GTCAACG
1 GTCAACG
402550 GTCAACG
1 GTCAACG
402557 GTCAACG
1 GTCAACG
402564 GTCAACG
1 GTCAACG
402571 GTCAACG
1 GTCAACG
402578 GTC
1 GTC
402581 GGGTCGGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:402628 original size:19 final size:19
Alignment explanation
Indices: 402606--402660 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
402596 TCGGGTCGGG
*
402606 TCAGATCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGAT
* *
402625 TCAGACCGGTCGAACCGGT
1 TCAGACCGGTCAAACCGAT
* *
402644 TGAAACCGGTCAAACCG
1 TCAGACCGGTCAAACCG
402661 GTCAGAACCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGAT
Found at i:402650 original size:10 final size:10
Alignment explanation
Indices: 402615--402693 Score: 67
Period size: 9 Copynumber: 8.1 Consensus size: 10
402605 GTCAGATCGG
*
402615 TCAAACCGAT
1 TCAAACCGGT
*
402625 TCAGACCGG-
1 TCAAACCGGT
*
402634 TCGAACCGGT
1 TCAAACCGGT
*
402644 TGAAACCGG-
1 TCAAACCGGT
402653 TCAAACCGG-
1 TCAAACCGGT
402662 TCAGAACCGGT
1 TCA-AACCGGT
*
402673 TGAAAACCGGT
1 T-CAAACCGGT
402684 T-AAACCGGT
1 TCAAACCGGT
402693 T
1 T
402694 TCCAGCAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
9 27 0.47
10 20 0.35
11 9 0.16
12 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:402661 original size:19 final size:19
Alignment explanation
Indices: 402612--402692 Score: 76
Period size: 19 Copynumber: 4.2 Consensus size: 19
402602 CGGGTCAGAT
* *
402612 CGGTCAAACCGATTCAGAC
1 CGGTCAAACCGGTTCAAAC
* *
402631 CGGTCGAACCGGTTGAAAC
1 CGGTCAAACCGGTTCAAAC
402650 CGGTCAAACCGG-TCAGAAC
1 CGGTCAAACCGGTTCA-AAC
*
402669 CGGTTGAAAACCGGTT-AAAC
1 CGG-T-CAAACCGGTTCAAAC
402689 CGGT
1 CGGT
402693 TTCCAGCAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 2 0.04
19 33 0.65
20 7 0.14
21 8 0.16
22 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (19 bp):
CGGTCAAACCGGTTCAAAC
Found at i:409866 original size:7 final size:7
Alignment explanation
Indices: 409854--409896 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
409844 GTCAAAGAAA
409854 GTCAACG
1 GTCAACG
409861 GTCAACG
1 GTCAACG
409868 GTCAACG
1 GTCAACG
409875 GTCAACG
1 GTCAACG
*
409882 GTC--GG
1 GTCAACG
409887 GTCAACG
1 GTCAACG
409894 GTC
1 GTC
409897 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
7 28 0.88
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:409891 original size:12 final size:12
Alignment explanation
Indices: 409860--409923 Score: 78
Period size: 12 Copynumber: 5.3 Consensus size: 12
409850 GAAAGTCAAC
*
409860 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
409874 GGTCAACGGTCG
1 GGTCAACGGTCG
409886 GGTCAACGGTCG
1 GGTCAACGGTCG
*
409898 GGTC--GGGTCG
1 GGTCAACGGTCG
409908 GGTCAACGGTCG
1 GGTCAACGGTCG
409920 GGTC
1 GGTC
409924 GGGTCAGACC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.20
12 25 0.56
14 11 0.24
ACGTcount: A:0.16, C:0.25, G:0.42, T:0.17
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:409909 original size:22 final size:22
Alignment explanation
Indices: 409881--409928 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
409871 AACGGTCAAC
409881 GGTCGGGTCAACGGTCGGGTCG
1 GGTCGGGTCAACGGTCGGGTCG
409903 GGTCGGGTCAACGGTCGGGTCG
1 GGTCGGGTCAACGGTCGGGTCG
409925 GGTC
1 GGTC
409929 AGACCGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.23, G:0.50, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCAACGGTCGGGTCG
Found at i:409943 original size:9 final size:9
Alignment explanation
Indices: 409925--410024 Score: 74
Period size: 9 Copynumber: 10.3 Consensus size: 9
409915 GGTCGGGTCG
*
409925 GGTCAGACC
1 GGTCAAACC
409934 GGTCAAACC
1 GGTCAAACC
* *
409943 GATTCAGACC
1 G-GTCAAACC
409953 GGTCAAACC
1 GGTCAAACC
*
409962 GGTTCGAACC
1 GG-TCAAACC
*
409972 GGTTGAAACCC
1 GG-TCAAA-CC
409983 GGTCAAACC
1 GGTCAAACC
409992 GGTCAGAACC
1 GGTCA-AACC
*
410002 GGTTGAAAACC
1 GG-T-CAAACC
*
410013 GGTTAAACC
1 GGTCAAACC
410022 GGT
1 GGT
410025 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 32 0.43
10 30 0.41
11 11 0.15
12 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:409986 original size:30 final size:31
Alignment explanation
Indices: 409950--410025 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
409940 ACCGATTCAG
409950 ACCGGTCAAACCGGTTC-GAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
409980 CCCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
410010 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
410026 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.05
30 38 0.93
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.26, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:414670 original size:3 final size:3
Alignment explanation
Indices: 414662--414720 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
414652 AAATTTAAAT
** * * *
414662 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA ATA ATA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
414711 TTA TTTA TTA
1 TTA -TTA TTA
414721 AATATTACAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:414683 original size:18 final size:18
Alignment explanation
Indices: 414656--414713 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
414646 CATTTTAAAT
*
414656 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
414674 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
* * *
414692 ATAATATTAATATTATATA
1 TTAAAATTATTATTAT-TA
414711 TTA
1 TTA
414714 TTTATTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 30 0.88
19 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:414684 original size:15 final size:15
Alignment explanation
Indices: 414664--414720 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
414654 ATTTAAATTT
414664 ATTATTATTATTAAA
1 ATTATTATTATTAAA
414679 ATTATTATTATTAATA
1 ATTATTATTATTAA-A
* *
414695 A-TATTAATATTATAT
1 ATTATTATTATTA-AA
414710 ATTATTTATTA
1 ATTA-TTATTA
414721 AATATTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 25 0.71
16 5 0.14
17 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATTATTATTAAA
Found at i:416025 original size:15 final size:15
Alignment explanation
Indices: 416005--416034 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
415995 GGAGCTCTTA
416005 ATTTTAATAATTGAT
1 ATTTTAATAATTGAT
*
416020 ATTTTAATCATTGAT
1 ATTTTAATAATTGAT
416035 TAATAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAATAATTGAT
Found at i:416536 original size:24 final size:23
Alignment explanation
Indices: 416486--416536 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
416476 TAATTTTATC
**
416486 ATAAATTTTTTATATTTAAATAA
1 ATAAATTTTTTATAAATAAATAA
* *
416509 ATAAATATTTTTATAAATATATAT
1 ATAAAT-TTTTTATAAATAAATAA
416533 ATAA
1 ATAA
416537 TATAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAAATTTTTTATAAATAAATAA
Found at i:417086 original size:16 final size:16
Alignment explanation
Indices: 417065--417095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
417055 ATTTTCATAA
417065 TATTTATTATATTTAT
1 TATTTATTATATTTAT
*
417081 TATTTATTATTTTTA
1 TATTTATTATATTTA
417096 CTTTATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTATTATATTTAT
Found at i:417112 original size:21 final size:22
Alignment explanation
Indices: 417033--417112 Score: 65
Period size: 25 Copynumber: 3.5 Consensus size: 22
417023 AATTCTTTTC
* *
417033 TTTCAAATTTTTATTACTTATGAT
1 TTTCATATATTTATTACTT-T-AT
*
417057 TTTCATAATATTTATTATATTTAT
1 TTTCAT-ATATTTATTA-CTTTAT
*
417081 TATTTAT-TATTT-TTACTTTAT
1 T-TTCATATATTTATTACTTTAT
417102 TTTCATATATT
1 TTTCATATATT
417113 AAAATTTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
20 4 0.09
21 10 0.22
22 3 0.07
23 5 0.11
24 8 0.17
25 14 0.30
26 2 0.04
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (22 bp):
TTTCATATATTTATTACTTTAT
Found at i:418618 original size:8 final size:7
Alignment explanation
Indices: 418594--418635 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
418584 TTTTCATACA
418594 TGCA-TT
1 TGCATTT
418600 TGCATTT
1 TGCATTT
418607 TGCATCTT
1 TGCAT-TT
418615 TGCATTT
1 TGCATTT
* *
418622 TTCATTG
1 TGCATTT
418629 TGCATTT
1 TGCATTT
418636 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:418618 original size:15 final size:14
Alignment explanation
Indices: 418594--418635 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
418584 TTTTCATACA
418594 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
418607 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
418622 TTCATTGTGCATTT
1 TGCATTTTGCATTT
418636 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:418731 original size:27 final size:27
Alignment explanation
Indices: 418695--418754 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
418685 CATTCACATA
418695 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
418722 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
418748 TTTACAT
1 TTTACAT
418755 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:418748 original size:12 final size:12
Alignment explanation
Indices: 418694--418721 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
418684 ACATTCACAT
418694 ATTTACATTTGC
1 ATTTACATTTGC
418706 ATTTACATTTGC
1 ATTTACATTTGC
418718 ATTT
1 ATTT
418722 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:421950 original size:32 final size:32
Alignment explanation
Indices: 421909--421970 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
421899 GTCAGACGCA
421909 AGAAGTATCTCTATC-AGATGAGCATAACAACG
1 AGAAGTATCTCTA-CAAGATGAGCATAACAACG
421941 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAGTATCTCTACAAGATGAGCATAACAA
421971 TCATTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 28 0.97
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (32 bp):
AGAAGTATCTCTACAAGATGAGCATAACAACG
Found at i:426197 original size:22 final size:22
Alignment explanation
Indices: 426171--426250 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
426161 TACCTCTATA
426171 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
426193 CTCTTCAAAGATTATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
* *
426215 CTTTTTAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
426237 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
426251 AAGCTTTATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:426970 original size:20 final size:21
Alignment explanation
Indices: 426945--426996 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 21
426935 TTTCAAAAAA
426945 CCTTCAG-GTCATCTGTAAGT
1 CCTTCAGAGTCATCTGTAAGT
426965 CCTTCAGTGCATGTCATCTGTAAGT
1 CCTTCA--G-A-GTCATCTGTAAGT
426990 CCTTCAG
1 CCTTCAG
426997 TGCATGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.22
22 1 0.04
23 1 0.04
25 19 0.70
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (21 bp):
CCTTCAGAGTCATCTGTAAGT
Found at i:426986 original size:25 final size:25
Alignment explanation
Indices: 426952--427002 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
426942 AAACCTTCAG
426952 GTCATCTGTAAGTCCTTCAGTGCAT
1 GTCATCTGTAAGTCCTTCAGTGCAT
426977 GTCATCTGTAAGTCCTTCAGTGCAT
1 GTCATCTGTAAGTCCTTCAGTGCAT
427002 G
1 G
427003 ATGTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
GTCATCTGTAAGTCCTTCAGTGCAT
Found at i:427031 original size:72 final size:72
Alignment explanation
Indices: 426907--427045 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 72
426897 CTATTTCCAA
*
426907 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCAGGTCATCTGTAAGTCCTTCAG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAAAACCTTCAGGTCATCTGTAAGTCCTTCAG
426972 TGCATGT
66 TGCATGT
* * *
426979 CATCTGTAAGTCCTTCAGTGCATGATGTTTTAAAAAAACCTTCGGGTTATCTGTAAGTCCTTCAG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAAAACCTTCAGGTCATCTGTAAGTCCTTCAG
427044 TG
66 TG
427046 TTTGATGTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (72 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAAAACCTTCAGGTCATCTGTAAGTCCTTCAG
TGCATGT
Found at i:427082 original size:46 final size:46
Alignment explanation
Indices: 426977--427569 Score: 965
Period size: 46 Copynumber: 12.8 Consensus size: 46
426967 TTCAGTGCAT
*
426977 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTAAAAAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTT-CAAAAACCTTCGG
* **
427024 GTTATCTGTAAGTCCTTCAGTGTTTGATGTTTTCAAAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
*
427070 GTCATCTATAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGG
* *
427118 GTCATCTGTAAGTCCTTCAATGCATGATGTTTTCAAAAACCTTAGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
*
427164 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTAGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
427210 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGG
* *
427258 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTAAAAAATCCTTTGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGG
*
427305 GTCATTTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGG
427352 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
* * *
427398 GTCATCTGTAAGTCCTTCAGTGCTTGATGTTTTC-AAAGCCTTCAG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
*
427443 GTAATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
427489 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAACCTTCGG
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
*
427534 GTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
427570 CATTTCCATC
Statistics
Matches: 510, Mismatches: 28, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
45 85 0.17
46 225 0.44
47 107 0.21
48 93 0.18
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (46 bp):
GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGG
Found at i:427147 original size:94 final size:94
Alignment explanation
Indices: 426977--427569 Score: 954
Period size: 94 Copynumber: 6.4 Consensus size: 94
426967 TTCAGTGCAT
*
426977 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTT-AAAAAAACCTTCGGGTTATCTGTAAGTCCTT
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
**
427041 CAGTGTTTGATGTTTTCAAAAACCTTCGG
66 CAGTGCATGATGTTTTCAAAAACCTTCGG
*
427070 GTCATCTATAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
* *
427135 CAATGCATGATGTTTTCAAAAACCTTAGG
66 CAGTGCATGATGTTTTCAAAAACCTTCGG
*
427164 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTAGGGTCATCTGTAAGTCCTT
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
427227 CAGTGCATGATGTTTTCAAAAAAACCTTCGG
66 CAGTGCATGATGTTTTC--AAAAACCTTCGG
* * *
427258 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTT-AAAAAATCCTTTGGGTCATTTGTAAGTCCTT
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
427322 CAGTGCATGATGTTTTCAAAAAACCTTCGG
66 CAGTGCATGATGTTTTC-AAAAACCTTCGG
427352 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGTCATCTGTAAGTCCTT
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
* * *
427415 CAGTGCTTGATGTTTTC-AAAGCCTTCAG
66 CAGTGCATGATGTTTTCAAAAACCTTCGG
*
427443 GTAATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGTCATCTGTAAGTCCTT
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
427506 CAGTGCATGATGTTTTC-AAAACCTTCGG
66 CAGTGCATGATGTTTTCAAAAACCTTCGG
*
427534 GTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
427570 CATTTCCATC
Statistics
Matches: 467, Mismatches: 25, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
91 128 0.27
92 44 0.09
93 74 0.16
94 178 0.38
95 43 0.09
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (94 bp):
GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTT
CAGTGCATGATGTTTTCAAAAACCTTCGG
Found at i:427230 original size:140 final size:138
Alignment explanation
Indices: 426977--427569 Score: 958
Period size: 140 Copynumber: 4.3 Consensus size: 138
426967 TTCAGTGCAT
* * *
426977 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTAAAAAAACCTTCGGGTTATCTGTAAGTCCTTC
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTT-CAAAAACCTTAGGGTCATCTGTAAGTCCTTC
** *
427042 AGTGTTTGATGTTTTCAAAAACCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTTCAAA
65 AGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC--A
427107 AAAACCTTCGG
128 AAAACCTTCGG
*
427118 GTCATCTGTAAGTCCTTCAATGCATGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCCTTCA
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCCTTCA
*
427183 GTGCATGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAA
66 GTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AA
427248 AAACCTTCGG
129 AAACCTTCGG
* * *
427258 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTAAAAAATCCTTTGGGTCATTTGTAAGTCCTTC
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTAGGGTCATCTGTAAGTCCTTC
427323 AGTGCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
65 AGTGCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
427388 AAACCTTCGG
129 AAACCTTCGG
* * *
427398 GTCATCTGTAAGTCCTTCAGTGCTTGATGTTTTC-AAAGCCTTCA-GGTAATCTGTAAGTCCTTC
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT-AGGGTCATCTGTAAGTCCTTC
427461 AGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AA
65 AGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
427525 AACCTTCGG
130 AACCTTCGG
*
427534 GTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
427570 CATTTCCATC
Statistics
Matches: 427, Mismatches: 21, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
136 43 0.10
137 47 0.11
138 37 0.09
139 3 0.01
140 181 0.42
141 71 0.17
142 45 0.11
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (138 bp):
GTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCCTTCA
GTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAA
ACCTTCGG
Found at i:427705 original size:3 final size:3
Alignment explanation
Indices: 427697--427785 Score: 124
Period size: 3 Copynumber: 29.0 Consensus size: 3
427687 CATTTTAAAT
**
427697 TTA TTA TTA TTA TTA AAA 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
* *
427745 TTA TTA TTA TTA TTA ATA TTA ATA TTA TTTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA
427786 AATATTACAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
3 70 0.92
4 6 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:427718 original size:18 final size:18
Alignment explanation
Indices: 427691--427792 Score: 114
Period size: 18 Copynumber: 5.5 Consensus size: 18
427681 TTTTTCCATT
*
427691 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
427709 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
**
427727 TTATTATTATTATTATTA
1 TTAAAATTATTATTATTA
** *
427745 TTATTATTATTATTAATA
1 TTAAAATTATTATTATTA
*
427763 TTAATATTATTTATTATTTA
1 TTAAAATTA-TTATTA-TTA
427783 TTAAATATTA
1 TTAAA-ATTA
427793 CAAAGCCCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
18 58 0.78
19 6 0.08
20 6 0.08
21 4 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:429072 original size:15 final size:15
Alignment explanation
Indices: 429052--429081 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
429042 GGAGCTCTTA
429052 ATTTTAATAATTGAT
1 ATTTTAATAATTGAT
*
429067 ATTTTAATCATTGAT
1 ATTTTAATAATTGAT
429082 TAATAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAATAATTGAT
Found at i:429247 original size:12 final size:11
Alignment explanation
Indices: 429196--429258 Score: 54
Period size: 12 Copynumber: 5.3 Consensus size: 11
429186 TTATTTGCAA
429196 TATTATTTTAT
1 TATTATTTTAT
*
429207 TATTACTTTTAA
1 TATTA-TTTTAT
**
429219 TATATATGTAAAT
1 TAT-TAT-TTTAT
429232 TATTATTTTCAT
1 TATTATTTT-AT
429244 TATTATATTTAT
1 TATTAT-TTTAT
429256 TAT
1 TAT
429259 ATATATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 6 0.15
12 25 0.61
13 10 0.24
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:430744 original size:20 final size:20
Alignment explanation
Indices: 430717--430771 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
430707 ATCATGTTTT
*
430717 AACAGTATCGGTACTGCATC
1 AACAGTATCGATACTGCATC
*
430737 AGCAGTATCGATACTGCATC
1 AACAGTATCGATACTGCATC
430757 AACAGTATCGATACT
1 AACAGTATCGATACT
430772 ATTACTCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
AACAGTATCGATACTGCATC
Found at i:430992 original size:96 final size:95
Alignment explanation
Indices: 430760--431037 Score: 348
Period size: 96 Copynumber: 2.9 Consensus size: 95
430750 CTGCATCAAC
* * *
430760 AGTATCGATACTATTACTCTAAGTAGTATCGATATTATATATGGA-ATCGATACCATTTTAGCAT
1 AGTATCGATACTACTACTCTAAGTAGTATCGATATCATATAT-GATATCGGTACCATTTTAGCAT
* * * **
430824 TCTGTTTTGATAATATCGGTACTGCCTAAGA
65 TCTGTTTTGACAGTATCGATACTAACTAAGA
* * *
430855 AGTATC-AGTACTACAACTCTAAGTATTATCGATATCATATATGATATCGGTACCAATTTAGCAT
1 AGTATCGA-TACTACTACTCTAAGTAGTATCGATATCATATATGATATCGGTACCATTTTAGCAT
*
430919 TCTGTTTTGACAGTATCGATACCATAACTCAG-
65 TCTGTTTTGACAGTATCGATA-C-TAACTAAGA
* *
430951 AGTATCGATACTACTACTCTAACTAGTATCAATATCATATATGATATCGGTACCATTTTAGCATT
1 AGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGATATCGGTACCATTTTAGCATT
*
431016 -TCGTTTTGACAGTATCGGTACT
66 CT-GTTTTGACAGTATCGATACT
431038 TCATCAACAG
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
94 4 0.03
95 73 0.46
96 76 0.48
97 6 0.04
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (95 bp):
AGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGATATCGGTACCATTTTAGCATT
CTGTTTTGACAGTATCGATACTAACTAAGA
Found at i:433232 original size:20 final size:20
Alignment explanation
Indices: 433207--433244 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
433197 TCGACGGGTT
*
433207 GTATCGGTACTTCAAAGAGA
1 GTATCGATACTTCAAAGAGA
433227 GTATCGATACTTCAAAGA
1 GTATCGATACTTCAAAGA
433245 AAAATCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
GTATCGATACTTCAAAGAGA
Found at i:433350 original size:22 final size:22
Alignment explanation
Indices: 433316--433378 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
433306 GGCATTGGAT
433316 GAACAATATCGATACTAAACAA
1 GAACAATATCGATACTAAACAA
* * *
433338 GAATAATAACGATACTAAGCAA
1 GAACAATATCGATACTAAACAA
433360 GAACAATATCGATACTAAA
1 GAACAATATCGATACTAAA
433379 TGAATAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.54, C:0.16, G:0.11, T:0.19
Consensus pattern (22 bp):
GAACAATATCGATACTAAACAA
Found at i:435717 original size:2 final size:2
Alignment explanation
Indices: 435710--435734 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
435700 AGGGTTTTGT
435710 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
435735 GAAATTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:439906 original size:39 final size:39
Alignment explanation
Indices: 439852--439926 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
439842 CATGATTTCA
439852 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACGTCT
1 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACGTCT
439891 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACG
1 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACG
439927 ACTTCATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (39 bp):
GTATTAACCATCTTGTTCAGCTGGTAAATTGACACGTCT
Found at i:441161 original size:2 final size:2
Alignment explanation
Indices: 441154--441192 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
441144 ACCAATACAA
441154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
441193 ATGTGACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:443419 original size:3 final size:3
Alignment explanation
Indices: 443344--443399 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
443334 TTATACGTAT
443344 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
443392 ATG ATA AT
1 ATA ATA AT
443400 CATATACACC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:443659 original size:2 final size:2
Alignment explanation
Indices: 443652--443682 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
443642 AACTAATAGG
443652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
443683 ACGCAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:448840 original size:59 final size:58
Alignment explanation
Indices: 448742--448956 Score: 279
Period size: 59 Copynumber: 3.7 Consensus size: 58
448732 ATAATTCAAT
* * * * * * *
448742 TGGAATTTCATACAATCAATATGATTTTCTTACCCTTTTAGCAAACAAAGTGCCATATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCC-TATC
*
448801 TGGAAATTCATACACTTAGTATGATTTCCTTACTATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTG-CCTATC
* * * *
448860 TTGAAATTCATACAC-TATTAAGATTTCCTTTCCATTTTAGCACACAAAGTGGCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGT-GCCTATC
*
448918 TGGAAATTCATACACTTAGTACGATTTCCTTACCATTTT
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTT
448957 TATTAAGGGA
Statistics
Matches: 136, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
58 51 0.38
59 83 0.61
60 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (58 bp):
TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCTATC
Found at i:450496 original size:14 final size:15
Alignment explanation
Indices: 450474--450503 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
450464 AAAAATAAAG
450474 AAATAAAACAAACAA
1 AAATAAAACAAACAA
450489 AAAT-AAACAAACAA
1 AAATAAAACAAACAA
450503 A
1 A
450504 CACTCACGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (15 bp):
AAATAAAACAAACAA
Found at i:452689 original size:53 final size:53
Alignment explanation
Indices: 452537--452692 Score: 267
Period size: 53 Copynumber: 2.9 Consensus size: 53
452527 TTCCCTCAAG
* * *
452537 AGGTATCGATACACTACTGGGGTATCGGTACCCAAATTAAGTTCGAAGTTTAC
1 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAC
*
452590 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAT
1 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAC
*
452643 AGGTATCGATACACTACTGGTGTATCCGTACCCAAATTAAATTCGATGTT
1 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTT
452693 CATCAAAATT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 98 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (53 bp):
AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAC
Found at i:459467 original size:14 final size:15
Alignment explanation
Indices: 459445--459474 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
459435 AAAAATAAAG
459445 AAATAAAACAAACAA
1 AAATAAAACAAACAA
459460 AAAT-AAACAAACAA
1 AAATAAAACAAACAA
459474 A
1 A
459475 TACTCACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (15 bp):
AAATAAAACAAACAA
Found at i:463048 original size:13 final size:14
Alignment explanation
Indices: 463020--463048 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
463010 GAGGAACACC
463020 AAGAAAAATGGATG
1 AAGAAAAATGGATG
463034 AAGAAAAATGG-TG
1 AAGAAAAATGGATG
463047 AA
1 AA
463049 AAAGATAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (14 bp):
AAGAAAAATGGATG
Found at i:465253 original size:19 final size:18
Alignment explanation
Indices: 465221--465278 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
465211 GGCTATGAAT
* *
465221 AATATAATGTAATGCAAA
1 AATAAAATGCAATGCAAA
* *
465239 AGGTAAAATGCAATGTGAAA
1 A-ATAAAATGCAATG-CAAA
465259 AATAAAATGCATATGCAAA
1 AATAAAATGCA-ATGCAAA
465278 A
1 A
465279 TGCAAGGTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.03
19 23 0.74
20 7 0.23
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.22
Consensus pattern (18 bp):
AATAAAATGCAATGCAAA
Found at i:470517 original size:81 final size:80
Alignment explanation
Indices: 470317--470661 Score: 340
Period size: 80 Copynumber: 4.2 Consensus size: 80
470307 CGATATCCTA
* ** *
470317 ATATATAGTGGCGTTTTTGTGAAAATGCCACTAAAAATTCGCACTTTAGT-GAATTTATGTAAAA
1 ATATATAGTGGC-TTTTTGTGAAAACGCCACTAAAAA-TCATACTTTAGTGGCATTTATGT--AA
*
470381 AAAACACCGCTATAGCCAG
62 ACAACACCGCTATAGCCAG
* * * * * *
470400 ATATATAGTGGCTTTTTGTGAAAACGACGCTAAAAACCATATTTTAGTCGCGTTTATGTAAACAA
1 ATATATAGTGGCTTTTTGTGAAAACGCCACTAAAAATCATACTTTAGTGGCATTTATGTAAACAA
* *
470465 CGCCGCTATTGCCAG
66 CACCGCTATAGCCAG
* **
470480 ATATATAGTGGCATTTTTGTGTAAAA-GCCGCTAAAAA-CATGCACTTTAGTGGTGTTTATGTAA
1 ATATATAGTGGC-TTTTTGTG-AAAACGCCACTAAAAATCAT--ACTTTAGTGGCATTTATGTAA
* * *
470543 A-AACACTGCTATAGTCAT
62 ACAACACCGCTATAGCCAG
* * * *
470561 ATATATAGTGGCTTTTTTTGAAAACACTACTAAAAATGCGTACTTTAGTGGCATTTATGTAAAC-
1 ATATATAGTGGCTTTTTGTGAAAACGCCACTAAAAAT-CATACTTTAGTGGCATTTATGTAAACA
*
470625 ACGCCGCTATAGCCAG
65 ACACCGCTATAGCCAG
*
470641 ATACATAGTGGCCTTTTTGTG
1 ATATATAGTGG-CTTTTTGTG
470662 TAAATGTCCA
Statistics
Matches: 218, Mismatches: 34, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
79 4 0.02
80 90 0.41
81 58 0.27
82 54 0.25
83 12 0.06
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (80 bp):
ATATATAGTGGCTTTTTGTGAAAACGCCACTAAAAATCATACTTTAGTGGCATTTATGTAAACAA
CACCGCTATAGCCAG
Found at i:470585 original size:161 final size:162
Alignment explanation
Indices: 470317--470665 Score: 440
Period size: 161 Copynumber: 2.2 Consensus size: 162
470307 CGATATCCTA
* *
470317 ATATATAGTGGCGTTTTTGTG-AAAATGCCACTAAAAATTCGCACTTTAGTGAATTTATGTAAAA
1 ATATATAGTGGCATTTTTGTGTAAAATGCCACTAAAAAATCGCACTTTAGTGAATTTATGT--AA
* *
470381 AAAACACCGCTATAGCCAGATATATAGTGGCTTTTTGTGAAAACGAC-GCTAAAAA-CCATATTT
64 AAAACACCGCTATAGCCAGATATATAGTGGCTTTTTGTGAAAAC-ACTACTAAAAATCCATACTT
* *
470444 TAGTCGCGTTTATGTAAACAACGCCGCTATTGCCAG
128 TAGTCGCATTTATGTAAAC-ACGCCGCTATAGCCAG
* **
470480 ATATATAGTGGCATTTTTGTGTAAAA-GCCGCTAAAAACAT-GCACTTTAGTGGTGTTTATGT-A
1 ATATATAGTGGCATTTTTGTGTAAAATGCCACTAAAAA-ATCGCACTTTAGT-GAATTTATGTAA
* * * * * *
470542 AAAACACTGCTATAGTCATATATATAGTGGCTTTTTTTGAAAACACTACTAAAAATGCGTACTTT
64 AAAACACCGCTATAGCCAGATATATAGTGGCTTTTTGTGAAAACACTACTAAAAATCCATACTTT
*
470607 AGTGGCATTTATGTAAACACGCCGCTATAGCCAG
129 AGTCGCATTTATGTAAACACGCCGCTATAGCCAG
* *
470641 ATACATAGTGGCCTTTTTGTGTAAA
1 ATATATAGTGGCATTTTTGTGTAAA
470666 TGTCCATTTT
Statistics
Matches: 163, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
160 2 0.01
161 86 0.53
162 22 0.13
163 40 0.25
164 13 0.08
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (162 bp):
ATATATAGTGGCATTTTTGTGTAAAATGCCACTAAAAAATCGCACTTTAGTGAATTTATGTAAAA
AACACCGCTATAGCCAGATATATAGTGGCTTTTTGTGAAAACACTACTAAAAATCCATACTTTAG
TCGCATTTATGTAAACACGCCGCTATAGCCAG
Found at i:474220 original size:24 final size:26
Alignment explanation
Indices: 474177--474224 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
474167 TGAACTCAAA
474177 AAAAATTTAGAAGCTCGATTGAAGCC
1 AAAAATTTAGAAGCTCGATTGAAGCC
*
474203 AAAAATTT-G-AGCTTGATTGAAG
1 AAAAATTTAGAAGCTCGATTGAAG
474225 TGAAAGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 1 0.05
26 8 0.38
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAATTTAGAAGCTCGATTGAAGCC
Found at i:481833 original size:14 final size:14
Alignment explanation
Indices: 481816--481847 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
481806 TATTTTAGTA
481816 TTAATTTTTAAATC
1 TTAATTTTTAAATC
481830 TTAATTTTTAAATC
1 TTAATTTTTAAATC
481844 TTAA
1 TTAA
481848 AAGATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATTTTTAAATC
Found at i:482711 original size:3 final size:3
Alignment explanation
Indices: 482703--482802 Score: 141
Period size: 3 Copynumber: 33.7 Consensus size: 3
482693 ACTCTTTAAT
* *
482703 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
482751 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTTA AAA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
482795 TTA TTA TT
1 TTA TTA TT
482803 TATAGGTTAC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
2 4 0.05
3 80 0.93
4 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:488533 original size:18 final size:19
Alignment explanation
Indices: 488496--488534 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
488486 TCATTCAAAG
488496 AGTATCGATACCTAAAGGGT
1 AGTATCGATACC-AAAGGGT
488516 AGTATCGATACC-AAGGGT
1 AGTATCGATACCAAAGGGT
488534 A
1 A
488535 CCGATACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGT
Found at i:489310 original size:21 final size:22
Alignment explanation
Indices: 489285--489344 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
489275 CGAGGGTTTT
*
489285 TCGAGGTCCTTCGAGATATATA
1 TCGAGGTCCTTCGGGATATATA
* *
489307 -CGAGGTTCTTCGGGACATATA
1 TCGAGGTCCTTCGGGATATATA
*
489328 TC-AGGTCATTCGGGATA
1 TCGAGGTCCTTCGGGATA
489345 ATTTTATATG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (22 bp):
TCGAGGTCCTTCGGGATATATA
Found at i:494685 original size:10 final size:10
Alignment explanation
Indices: 494670--494735 Score: 71
Period size: 10 Copynumber: 6.4 Consensus size: 10
494660 CGTCCGAGTG
494670 TTATATATTA
1 TTATATATTA
494680 TTATATA-TA
1 TTATATATTA
*
494689 TTAATATATAA
1 TT-ATATATTA
*
494700 TAATATATTAA
1 TTATATATT-A
*
494711 TATATAAATTA
1 T-TATATATTA
494722 TTATATATTA
1 TTATATATTA
494732 TTAT
1 TTAT
494736 TACAAATGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 4 0.09
10 30 0.65
11 6 0.13
12 6 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTATATATTA
Found at i:494708 original size:30 final size:30
Alignment explanation
Indices: 494672--494728 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
494662 TCCGAGTGTT
* *
494672 ATATATTATTATATATATTAATATATAATA
1 ATATATTAATATATAAATTAATATATAATA
*
494702 ATATATTAATATATAAATTATTATATA
1 ATATATTAATATATAAATTAATATATA
494729 TTATTATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
ATATATTAATATATAAATTAATATATAATA
Found at i:496066 original size:25 final size:22
Alignment explanation
Indices: 496016--496069 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 22
496006 AATTAAGTTA
496016 ATTAATT-TTAATATTTTATAT
1 ATTAATTATTAATATTTTATAT
*
496037 TTTAATTATTAACTATTATTATAT
1 ATTAATTATTAA-TATT-TTATAT
496061 GATTAATTA
1 -ATTAATTA
496070 ATATTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 4 0.15
23 4 0.15
24 6 0.22
25 7 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTAATTATTAATATTTTATAT
Found at i:502307 original size:55 final size:56
Alignment explanation
Indices: 502246--502356 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 56
502236 AACCTTGTTC
* *
502246 GAGATCTTATTAGATGTAGAGACATGAAAGG-ATTAGGATAAATCCTTCTTGTGAA
1 GAGATCTTATTAGATGTAGAGACATAAAAGGAATTAGGATAAATCATTCTTGTGAA
* * *
502301 GAGATCTTATTAGATGTGGAGATATAAAAGGAATTATGATAAATCATTCTTGTGAA
1 GAGATCTTATTAGATGTAGAGACATAAAAGGAATTAGGATAAATCATTCTTGTGAA
502357 TTGTTTCAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 28 0.56
56 22 0.44
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (56 bp):
GAGATCTTATTAGATGTAGAGACATAAAAGGAATTAGGATAAATCATTCTTGTGAA
Found at i:502475 original size:22 final size:22
Alignment explanation
Indices: 502442--502538 Score: 140
Period size: 22 Copynumber: 4.4 Consensus size: 22
502432 CTACATGTTG
*
502442 CAAAGATGATAGATTCTCTTTT
1 CAAAGATGATAGATTCCCTTTT
* *
502464 CAAAGTTAATAGATTCCCTTTT
1 CAAAGATGATAGATTCCCTTTT
502486 CAAAGATGATAGATTCCCTTTT
1 CAAAGATGATAGATTCCCTTTT
** *
502508 CAAAGATGATAGATTATCTTTA
1 CAAAGATGATAGATTCCCTTTT
502530 CAAAGATGA
1 CAAAGATGA
502539 CAGCTTTATC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (22 bp):
CAAAGATGATAGATTCCCTTTT
Found at i:503140 original size:20 final size:20
Alignment explanation
Indices: 503115--503216 Score: 168
Period size: 20 Copynumber: 5.1 Consensus size: 20
503105 TTTCCCACAA
503115 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
503135 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
*
503155 ATTTGTAAAGCCTTCTGGTC
1 ATTTGTAAAGCCTTCGGGTC
503175 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
* * *
503195 AGTAGTAAATCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
503215 AT
1 AT
503217 CTATCAGTCT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (20 bp):
ATTTGTAAAGCCTTCGGGTC
Done.