Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 37
Found at i:6096357 original size:19 final size:19
Alignment explanation
Indices: 6096333--6096393 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
6096323 GCGATTCTCT
6096333 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
6096352 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
6096366 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
6096385 CATTGCGAT
1 CGTTGCGAT
6096394 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:6096357 original size:33 final size:33
Alignment explanation
Indices: 6096304--6096393 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
6096294 AAATCGCAAC
* * *
6096304 GCGAATTTAATTTCGTGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
6096337 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
6096370 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
6096394 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:6096519 original size:14 final size:14
Alignment explanation
Indices: 6096500--6096536 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6096490 CATCAATTAA
6096500 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6096514 ACAAATCACCTTTT
1 ACAAATCAACTTTT
6096528 ACAAATCAA
1 ACAAATCAA
6096537 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6097916 original size:21 final size:21
Alignment explanation
Indices: 6097892--6097958 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
6097882 GTGAATCGGG
*
6097892 CTCTTGAATGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
* * ** *
6097913 CTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGC
*
6097934 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
6097955 CTCT
1 CTCT
6097959 CGAGGAATGA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:6097951 original size:42 final size:42
Alignment explanation
Indices: 6097892--6098097 Score: 175
Period size: 42 Copynumber: 4.9 Consensus size: 42
6097882 GTGAATCGGG
* * *
6097892 CTCTTGAATGGTGGGAGGGGCCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTCAAGGATGACAGTGGC
* *
6097934 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATA-TGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTCAAGG-ATGACAGT-GGC
* * * * * * *
6097976 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTCAAGGATGACAGTGGC
* * *
6098018 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
6098060 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAGGGGACTCTTCAAGGATGACAG
6098098 GCGAGTCGGG
Statistics
Matches: 126, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
41 8 0.06
42 111 0.88
43 7 0.06
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTTCAAGGATGACAGTGGC
Found at i:6098033 original size:84 final size:84
Alignment explanation
Indices: 6097922--6098097 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
6097912 CCTCTTCAAC
* *
6097922 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATATGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
6097987 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
6098006 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
6098071 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
6098090 GATGACAG
1 GATGACAG
6098098 GCGAGTCGGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:6098486 original size:91 final size:90
Alignment explanation
Indices: 6098314--6098500 Score: 286
Period size: 91 Copynumber: 2.0 Consensus size: 90
6098304 ATATTTCAAA
*
6098314 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTT--A-AATAAACAGTTTA
6098379 GCAGAATTGGCAGCAACCGAATAAATTT
63 GCAGAATTGGCAGCAACCGAATAAATTT
* *
6098407 ACTTCAACCAAAAGACAAAACAAAAAGGCAAATACTAACTTCACAGTGTT-AATAAACAGTTTAG
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAATGTTAAATAAACAGTTTAG
*
6098471 CAGTATTGGCAGCAACCGAATAAATTT
64 CAGAATTGGCAGCAACCGAATAAATTT
6098498 ACT
1 ACT
6098501 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 42 0.48
93 21 0.24
95 25 0.28
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAATAAACAGTTTAGCA
GAATTGGCAGCAACCGAATAAATTT
Found at i:6098703 original size:63 final size:63
Alignment explanation
Indices: 6098644--6098785 Score: 151
Period size: 63 Copynumber: 2.3 Consensus size: 63
6098634 CTTAGAGCGG
* * *
6098644 CAACCTCAC-CACGTAAAGTAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTC-CTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* * * *** * *
6098707 CGATCTCCTCACGCAAGGCATTGACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAT
1 CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* *
6098770 CGATCTCCTCACGCAA
1 CAACCTCCTCACGCAA
6098786 GGCATTGACC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 1 0.01
63 68 0.99
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.20
Consensus pattern (63 bp):
CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
Found at i:6098786 original size:63 final size:63
Alignment explanation
Indices: 6098667--6098797 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
6098657 TAAAGTAGAC
6098667 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
*
6098730 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTATCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
6098793 ACCTC
1 ACCTC
6098798 ATCACGTAAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (63 bp):
ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
Found at i:6100301 original size:19 final size:19
Alignment explanation
Indices: 6100250--6100408 Score: 167
Period size: 19 Copynumber: 8.8 Consensus size: 19
6100240 TCTTTTGGTT
*
6100250 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
6100269 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
6100289 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
6100306 G--A-GAGAATCGCAACAC
1 GAAATGAAAATCGCAACGC
6100322 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
6100341 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
6100360 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
6100377 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6100393 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6100409 TGCAATTTTG
Statistics
Matches: 118, Mismatches: 11, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
14 19 0.16
15 2 0.02
16 4 0.03
17 4 0.03
18 2 0.02
19 70 0.59
20 17 0.14
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:6100317 original size:33 final size:33
Alignment explanation
Indices: 6100275--6100408 Score: 178
Period size: 33 Copynumber: 3.9 Consensus size: 33
6100265 ACGAGATAAT
**
6100275 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
6100308 GAGAATCGCAACACGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA--CG--A
* *
6100345 TGAAAATCGCAATGCGAAATGAAAATCGCAACGA
1 -GAGAATCGCAACGCGAAATGAAAATCGCAACGA
6100379 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
6100409 TGCAATTTTG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
33 55 0.62
34 1 0.01
35 2 0.02
36 2 0.02
37 1 0.01
38 27 0.31
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:6100373 original size:71 final size:72
Alignment explanation
Indices: 6100250--6100408 Score: 257
Period size: 71 Copynumber: 2.2 Consensus size: 72
6100240 TCTTTTGGTT
* **
6100250 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGAAATGACTATCGCAACGAGAGAATC
1 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATC
6100315 GCAACAC
66 GCAACAC
* *
6100322 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATC
1 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATC
*
6100386 GCAACGC
66 GCAACAC
6100393 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6100409 TGCAATTTTG
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 61 0.75
72 20 0.25
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (72 bp):
GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATC
GCAACAC
Found at i:6100436 original size:19 final size:19
Alignment explanation
Indices: 6100414--6100450 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6100404 CGCAATGCAA
*
6100414 TTTTGGTTTCGCGTTGCGT
1 TTTTGATTTCGCGTTGCGT
*
6100433 TTTTTATTTCGCGTTGCG
1 TTTTGATTTCGCGTTGCG
6100451 ATAGTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.16, G:0.27, T:0.54
Consensus pattern (19 bp):
TTTTGATTTCGCGTTGCGT
Found at i:6100467 original size:20 final size:19
Alignment explanation
Indices: 6100420--6100472 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
6100410 GCAATTTTGG
* **
6100420 TTTCGCGTTGCGTTTTTTA
1 TTTCGCGTTGCGATAGTTA
6100439 TTTCGCGTTGCGATAGTTA
1 TTTCGCGTTGCGATAGTTA
6100458 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
6100473 TTTCATTCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTTA
Found at i:6101078 original size:20 final size:20
Alignment explanation
Indices: 6100993--6101106 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
6100983 CGCTATGTAA
* * *
6100993 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
6101013 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
6101033 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
6101054 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
6101074 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
6101094 ATCGCATTGCGAT
1 ATCGCATTGCGAT
6101107 TTTCCCAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 65 0.79
21 12 0.15
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:6101091 original size:61 final size:61
Alignment explanation
Indices: 6100993--6101109 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
6100983 CGCTATGTAA
* * * *
6100993 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
6101054 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
6101110 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:6101120 original size:61 final size:61
Alignment explanation
Indices: 6100993--6101127 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
6100983 CGCTATGTAA
* * * * * ** *
6100993 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* *
6101054 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCATTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
6101116 -TCGCATTGCGAT
1 ATCGCATTGCGAT
6101128 TTACTTATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 61 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:6101139 original size:20 final size:21
Alignment explanation
Indices: 6101095--6101146 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
6101085 ATAGTCAGTA
*
6101095 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
**
6101116 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
6101136 TCGCATTGCGA
1 TCGCATTGCGA
6101147 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:6101217 original size:21 final size:21
Alignment explanation
Indices: 6101177--6101217 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6101167 ACTGTAGACC
**
6101177 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
6101198 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
6101218 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:6101779 original size:23 final size:23
Alignment explanation
Indices: 6101734--6101779 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6101724 TAATTTGTGC
**
6101734 TTATTTTAATTTAGTCATTTTTA
1 TTATTTTAATTTAGTCAAATTTA
* *
6101757 TTATTTTAGTTTATTCAAATTTA
1 TTATTTTAATTTAGTCAAATTTA
6101780 GTCACAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (23 bp):
TTATTTTAATTTAGTCAAATTTA
Found at i:6104517 original size:60 final size:60
Alignment explanation
Indices: 6104405--6104582 Score: 171
Period size: 60 Copynumber: 3.0 Consensus size: 60
6104395 TTATGTCCTC
* * * * * *
6104405 AAACTATAACTCTCATTTTAAATTAGTTCTTAAATTTTTTAATATTTCAATTTCATCCC-
1 AAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCCCT
* * *
6104464 AGAGCTATGACTCTCATTCTAAATTAGTCCTTCAACTTTTAAACA-TTCTAATTTTATCCCT
1 A-AACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTTC-AATTTCATCCCT
* * * * * * * *
6104525 AAATTATGACTCTCATTCTAAATCAATCCCTAAACTTTTGAGCCTTCCAATTTCATCC
1 AAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCC
6104583 AAATATATAA
Statistics
Matches: 95, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
59 4 0.04
60 88 0.93
61 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.42
Consensus pattern (60 bp):
AAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCCCT
Found at i:6105796 original size:60 final size:60
Alignment explanation
Indices: 6105732--6105847 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
6105722 ATTATAGTCC
* * * * * *
6105732 TCATTTTAAGTTGGTCCTTAAATTTTTAAATATTATAATTTCATTCCTAAATTATGACTT
1 TCATTTTAAATTAGTCCTTAAAATTTTAAACATTATAATTTCATCCCTAAACTATGACTT
* * *
6105792 TCATTTTAAATTAGTCTTTAAAATTTTGAACATTCTAATTTCATCCCTAAACTATG
1 TCATTTTAAATTAGTCCTTAAAATTTTAAACATTATAATTTCATCCCTAAACTATG
6105848 TCATTCTTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (60 bp):
TCATTTTAAATTAGTCCTTAAAATTTTAAACATTATAATTTCATCCCTAAACTATGACTT
Found at i:6105862 original size:60 final size:60
Alignment explanation
Indices: 6105732--6105863 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
6105722 ATTATAGTCC
* * * * * * * *
6105732 TCATTTTAAGTTGGTCCTTAAATTTTTAAATATTATAATTTCATTCCTAAATTATGACTT
1 TCATTTTAAATTAGTCTTTAAAATTTTAAACATTATAATTTCATCCCTAAACTATGACAT
* * *
6105792 TCATTTTAAATTAGTCTTTAAAATTTTGAACATTCTAATTTCATCCCTAAACTATGTCAT
1 TCATTTTAAATTAGTCTTTAAAATTTTAAACATTATAATTTCATCCCTAAACTATGACAT
6105852 TC-TTTCTAAATT
1 TCATTT-TAAATT
6105864 TGTTCCCAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 3 0.05
60 57 0.95
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.48
Consensus pattern (60 bp):
TCATTTTAAATTAGTCTTTAAAATTTTAAACATTATAATTTCATCCCTAAACTATGACAT
Found at i:6106207 original size:60 final size:60
Alignment explanation
Indices: 6106067--6106207 Score: 131
Period size: 60 Copynumber: 2.3 Consensus size: 60
6106057 TTGAGGATAA
* * * * *
6106067 ATTTTAAAAAAACATGTCATATTTTTGGGATGAAATTGAAATGTTCAAAAATTTGAGGACT
1 ATTTTAAAAAAACA-GTCATAGTTTAGGGATGAAATTGAAATGTTAAAAAATTAGAGGACC
* * ** * * *
6106128 AATTTAGAATGATAATCATAGTTTAGGGATGAAATTGAAATATTTAAAAAATTAG-GGACC
1 ATTTTAAAAAAACAGTCATAGTTTAGGGATGAAATTGAAAT-GTTAAAAAATTAGAGGACC
* *
6106188 ATTTTAAAACAAGAGTCATA
1 ATTTTAAAAAAACAGTCATA
6106208 CTTTGAAGAT
Statistics
Matches: 61, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
60 42 0.69
61 19 0.31
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.33
Consensus pattern (60 bp):
ATTTTAAAAAAACAGTCATAGTTTAGGGATGAAATTGAAATGTTAAAAAATTAGAGGACC
Found at i:6110545 original size:132 final size:129
Alignment explanation
Indices: 6110298--6110554 Score: 374
Period size: 132 Copynumber: 2.0 Consensus size: 129
6110288 TTTGAAAGTT
* *
6110298 TAACATTCGATCATATATTATAATATATCTATCTGTAATCAAGTATGTGATTTTGTTAACTAATT
1 TAACATTCGATCATATATTATAATATATCTATATGTAATCAAGTATGTGATTTTGTTAACTAATA
6110363 ATTTATAATATAATATAACATAATATAATTATATTTAACAACTTTAAATATCACAAAATATTAA
66 ATTTATAATATAATATAACATAATATAATTATATTTAACAACTTTAAATATCACAAAATATTAA
* * *
6110427 TAACATTTGATTATATATTATAATATAT-TATATTTAATCAAAGTATGT-ATTTTGTTAACTAAT
1 TAACATTCGATCATATATTATAATATATCTATATGTAATC-AAGTATGTGATTTTGTTAACTAAT
* * * *
6110490 AATTCATATTATATTATTCATAATATAATATAATTATATTTAATAACTTTAAATATCACAAAATA
65 AATT--TATAATA-TAAT-ATAACATAATATAATTATATTTAACAACTTTAAATATCACAAAATA
6110555 CCTTTTTTAC
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
128 27 0.24
129 34 0.30
130 6 0.05
131 3 0.03
132 44 0.39
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (129 bp):
TAACATTCGATCATATATTATAATATATCTATATGTAATCAAGTATGTGATTTTGTTAACTAATA
ATTTATAATATAATATAACATAATATAATTATATTTAACAACTTTAAATATCACAAAATATTAA
Found at i:6110938 original size:15 final size:15
Alignment explanation
Indices: 6110918--6110946 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6110908 ATCAAATCAC
6110918 ACGATACGACACAAT
1 ACGATACGACACAAT
6110933 ACGATACGACACAA
1 ACGATACGACACAA
6110947 CAGAGTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.14, T:0.10
Consensus pattern (15 bp):
ACGATACGACACAAT
Found at i:6111299 original size:54 final size:54
Alignment explanation
Indices: 6111188--6111301 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
6111178 GTCGATTGTA
* * *
6111188 ATTT-TTTTCATATAATCATAAAAATAATATAATTTTATTTTAAGTTGATATGT
1 ATTTATTTTCATATAATCATAAAAATAATATAATTTCAATTTAAGTTGATATGC
* * *
6111241 ATTTATTTTCATTTAATCATAAAAATAATATAA-TTCAATTTCAGTTGATCTGAC
1 ATTTATTTTCATATAATCATAAAAATAATATAATTTCAATTTAAGTTGATATG-C
6111295 ATTTATT
1 ATTTATT
6111302 CAACCATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 19 0.36
54 34 0.64
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (54 bp):
ATTTATTTTCATATAATCATAAAAATAATATAATTTCAATTTAAGTTGATATGC
Found at i:6115220 original size:26 final size:26
Alignment explanation
Indices: 6115172--6115223 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6115162 AACATAAAAG
* *
6115172 AAAGAAAGGGAGAAGAGATTGCAGCC
1 AAAGAAAGGGAGAAAAGAGTGCAGCC
*
6115198 AAAGAAAGGGAGAAAATAGTGCAGCC
1 AAAGAAAGGGAGAAAAGAGTGCAGCC
6115224 GAGAAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.33, T:0.08
Consensus pattern (26 bp):
AAAGAAAGGGAGAAAAGAGTGCAGCC
Found at i:6115260 original size:13 final size:14
Alignment explanation
Indices: 6115240--6115278 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
6115230 GAAAGAAATA
6115240 AAGAAAGGGAGAA-
1 AAGAAAGGGAGAAG
* *
6115253 AGGAAAGGAAGAAG
1 AAGAAAGGGAGAAG
6115267 AAGAAAGGGAGA
1 AAGAAAGGGAGA
6115279 TAAGACTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AAGAAAGGGAGAAG
Found at i:6115708 original size:15 final size:16
Alignment explanation
Indices: 6115680--6115713 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
6115670 AAAGTTTACT
6115680 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
6115696 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
6115711 TTA
1 TTA
6115714 ATTTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:6117633 original size:14 final size:14
Alignment explanation
Indices: 6117612--6117889 Score: 147
Period size: 14 Copynumber: 21.1 Consensus size: 14
6117602 ATTAGTAATA
6117612 ATTATTAAATCATT
1 ATTATTAAATCATT
*
6117626 AGTATTAAATCATT
1 ATTATTAAATCATT
*
6117640 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
6117651 ATTACTAAATC---
1 ATTATTAAATCATT
*
6117662 ATTATTAAATAATT
1 ATTATTAAATCATT
6117676 -TCTATTAAATCATT
1 AT-TATTAAATCATT
*
6117690 ATTA-T-AATGATT
1 ATTATTAAATCATT
6117702 ATTATTAAATC---
1 ATTATTAAATCATT
6117713 ATTATT--AT-ATT
1 ATTATTAAATCATT
6117724 ATTATTAAATCATT
1 ATTATTAAATCATT
*
6117738 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
6117750 ATTACTAAATCATT
1 ATTATTAAATCATT
*
6117764 ATTA-T-AAT-AAT
1 ATTATTAAATCATT
*
6117775 ATTATCAAATCATT
1 ATTATTAAATCATT
*
6117789 ACTAAATCATCAAATCATT
1 A-T---T-ATTAAATCATT
* * *
6117808 AAATATTTAAA-AAGT
1 -ATTA-TTAAATCATT
*
6117823 ATTATTAAATTATT
1 ATTATTAAATCATT
*
6117837 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
6117849 ATTACTAAATCATT
1 ATTATTAAATCATT
*
6117863 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
6117875 ATTATCAAATCATT
1 ATTATTAAATCATT
6117889 A
1 A
6117890 CTATAATGAT
Statistics
Matches: 206, Mismatches: 25, Indels: 66
0.69 0.08 0.22
Matches are distributed among these distances:
9 2 0.01
11 33 0.16
12 47 0.23
13 23 0.11
14 78 0.38
15 5 0.02
16 5 0.02
18 1 0.00
19 11 0.05
20 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:6117642 original size:11 final size:11
Alignment explanation
Indices: 6117612--6117798 Score: 113
Period size: 11 Copynumber: 15.2 Consensus size: 11
6117602 ATTAGTAATA
6117612 ATTATTAAATC
1 ATTATTAAATC
6117623 ATTAGTATTAAATC
1 A-T--TATTAAATC
6117637 ATTATTATAAAATC
1 ATTA-T-T-AAATC
*
6117651 ATTACTAAATC
1 ATTATTAAATC
*
6117662 ATTATTAAATA
1 ATTATTAAATC
6117673 ATTTCTATTAAATC
1 A--T-TATTAAATC
*
6117687 ATTATTATAATGATT
1 ATTA-T-TAA--ATC
6117702 ATTATTAAATC
1 ATTATTAAATC
* *
6117713 ATTATTATATT
1 ATTATTAAATC
6117724 ATTATTAAATC
1 ATTATTAAATC
*
6117735 ATTATTATAATG
1 ATTATTA-AATC
6117747 ATTATTACTAAATC
1 ATTA-T--TAAATC
*
6117761 ATTATTATAATAAT
1 ATTATTA-AAT--C
*
6117775 ATTATCAAATC
1 ATTATTAAATC
*
6117786 ATTACTAAATC
1 ATTATTAAATC
6117797 AT
1 AT
6117799 CAAATCATTA
Statistics
Matches: 139, Mismatches: 17, Indels: 40
0.71 0.09 0.20
Matches are distributed among these distances:
11 60 0.43
12 15 0.11
13 14 0.10
14 42 0.30
15 8 0.06
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:6117714 original size:26 final size:26
Alignment explanation
Indices: 6117599--6117905 Score: 277
Period size: 26 Copynumber: 12.3 Consensus size: 26
6117589 TTATTCTATA
* * *
6117599 ATTATTAGT-AATAATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
6117623 ATTAGTATTAAATCATTATTATAA-A
1 ATTATTATTAAATCATTATTATAATG
* * *
6117648 ATCATTACTAAATCATTATTA-AATA
1 ATTATTATTAAATCATTATTATAATG
6117673 ATT-TCTATTAAATCATTATTATAATG
1 ATTAT-TATTAAATCATTATTATAATG
6117699 ATTATTATTAAATCATTA-T-T-AT-
1 ATTATTATTAAATCATTATTATAATG
6117721 ATTATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
6117747 ATTATTACTAAATCATTATTATAAT-
1 ATTATTATTAAATCATTATTATAATG
* * * *
6117772 AATATTATCAAATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* * *
6117797 ATCAAATCATTAAAT-A-T-TTA-AA-A
1 AT--TATTATTAAATCATTATTATAATG
* *
6117820 AGTATTATTAAATTATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
6117846 ATTATTACTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
6117872 ATTATTATCAAATCATTACTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
6117898 ATTGTTAT
1 ATTATTAT
6117906 CATACTAAAC
Statistics
Matches: 233, Mismatches: 32, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
21 9 0.04
22 19 0.08
23 5 0.02
24 22 0.09
25 70 0.30
26 99 0.42
27 9 0.04
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATAATG
Found at i:6117826 original size:99 final size:99
Alignment explanation
Indices: 6117628--6117896 Score: 341
Period size: 99 Copynumber: 2.7 Consensus size: 99
6117618 AAATCATTAG
* * * *
6117628 TATTAAATCATTATTATAA-AATCATTACTAAATCATTATTA-AATAATTTCTATTAAATCATTA
1 TATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATAATAT-TATCAAATCATTA
* * * * * * *
6117691 TTATAATGATTATTATTAAATCATTATTATATTAT
65 CTATAATCATAATCATTAAATCATTATAAAAGTAT
6117726 TATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATAATATTATCAAATCATTAC
1 TATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATAATATTATCAAATCATTAC
6117791 TA-AATCATCAAATCATTAAAT-ATT-TAAAAAGTAT
66 TATAATCAT--AATCATTAAATCATTAT-AAAAGTAT
* *
6117825 TATTAAATTATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAAT-AATATTATCAAATCATTA
6117890 CTATAAT
65 CTATAAT
6117897 GATTGTTATC
Statistics
Matches: 151, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
98 25 0.17
99 87 0.58
100 36 0.24
101 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (99 bp):
TATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATAATATTATCAAATCATTAC
TATAATCATAATCATTAAATCATTATAAAAGTAT
Found at i:6117957 original size:11 final size:11
Alignment explanation
Indices: 6117931--6117965 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
6117921 TATCATTAAA
6117931 TATTAAATTCAT
1 TATTAAATT-AT
6117943 TATTAAATTAT
1 TATTAAATTAT
6117954 TATTAAATTAT
1 TATTAAATTAT
6117965 T
1 T
6117966 TTTATGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
TATTAAATTAT
Found at i:6118172 original size:10 final size:10
Alignment explanation
Indices: 6118154--6118185 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6118144 TATTATTATT
*
6118154 TAATTATTAC
1 TAATAATTAC
6118164 TAATAATTAC
1 TAATAATTAC
6118174 TAATAATTAC
1 TAATAATTAC
6118184 TA
1 TA
6118186 TCAAATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (10 bp):
TAATAATTAC
Found at i:6118211 original size:31 final size:31
Alignment explanation
Indices: 6118169--6118243 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
6118159 ATTACTAATA
* *
6118169 ATTACTAATAATTACTATCAAATCATTAAAT
1 ATTAATAATAATTACTATCAAACCATTAAAT
6118200 ATTAATAATAATTACTATCAAACCATTAAAT
1 ATTAATAATAATTACTATCAAACCATTAAAT
6118231 ATTAATAATAATT
1 ATTAATAATAATT
6118244 TCATTATTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (31 bp):
ATTAATAATAATTACTATCAAACCATTAAAT
Found at i:6118263 original size:49 final size:49
Alignment explanation
Indices: 6118199--6118473 Score: 378
Period size: 49 Copynumber: 5.6 Consensus size: 49
6118189 AATCATTAAA
* * *
6118199 TATTAATAATAATTACTATCAAACCATTAAATATTAATAATAATTTCAT
1 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCAT
*
6118248 TATTACTAATCATTACTATCAAATCTTTAAATATTAATAATAA-TTCAT
1 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCAT
*
6118296 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTTAT
1 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCAT
* *
6118345 TATTACTAGTCATTAGTATCAAATCATTAAATATTAATAATAATTTCAT
1 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCAT
*
6118394 TATTACTAATCATTACTATCAAATCATTATTATAATATTAA-ATATAAATTCAT
1 TATTACTAATCATTACTATCAAATC---ATTA-AATATTAATA-ATAATTTCAT
* * *
6118447 TATTA--AATCATAATTACCAAATCATTA
1 TATTACTAATCATTACTATCAAATCATTA
6118474 CTAAATCAAA
Statistics
Matches: 205, Mismatches: 15, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
48 51 0.25
49 112 0.55
51 15 0.07
52 5 0.02
53 22 0.11
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (49 bp):
TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCAT
Found at i:6118324 original size:97 final size:98
Alignment explanation
Indices: 6118199--6118473 Score: 378
Period size: 97 Copynumber: 2.8 Consensus size: 98
6118189 AATCATTAAA
* * *
6118199 TATTAATAATAATTACTATCAAACCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
*
6118264 TATCAAATCTTTAAATATTAATAATAA-TTCAT
66 TATCAAATCATTAAATATTAATAATAATTTCAT
* * *
6118296 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTTATTATTACTAGTCATTAG
1 TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
6118361 TATCAAATCATTAAATATTAATAATAATTTCAT
66 TATCAAATCATTAAATATTAATAATAATTTCAT
*
6118394 TATTACTAATCATTACTATCAAATCATTATTATAATATTAA-ATATAAATTCATTATTA--AATC
1 TATTACTAATCATTACTATCAAATC---ATTA-AATATTAATA-ATAATTTCATTATTACTAATC
* * *
6118456 ATAATTACCAAATCATTA
61 ATTACTATCAAATCATTA
6118474 CTAAATCAAA
Statistics
Matches: 159, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
97 85 0.53
98 30 0.19
100 18 0.11
101 5 0.03
102 21 0.13
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (98 bp):
TATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
TATCAAATCATTAAATATTAATAATAATTTCAT
Found at i:6122166 original size:28 final size:28
Alignment explanation
Indices: 6122099--6122159 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
6122089 TTATATAATA
6122099 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
*
6122127 TAATATAATATAACTTAAATTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
6122155 TAATA
1 TAATA
6122160 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAAAC
Found at i:6128089 original size:2 final size:2
Alignment explanation
Indices: 6128082--6128106 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6128072 TAACAATAAC
6128082 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6128107 TTTAAAATGG
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6131356 original size:60 final size:60
Alignment explanation
Indices: 6131263--6131382 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
6131253 AATCCTTTAT
* * *
6131263 TCTCAATCCTTAACCCTCGTCTCATTTCCCCCAATTCTCCCTTACTCTCTTCGTGTTCTC
1 TCTCAATCCCTAACCCTCGTCTCATTTCCCCCAATTCTCCCTCACCCTCTTCGTGTTCTC
* * *
6131323 TCTCAATCCCTAACCCTCGTCTTATTTCCCCCAATTCTTCCTCGCCCTCTTCGTGTTCTC
1 TCTCAATCCCTAACCCTCGTCTCATTTCCCCCAATTCTCCCTCACCCTCTTCGTGTTCTC
6131383 GCCCTTCTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.12, C:0.42, G:0.06, T:0.39
Consensus pattern (60 bp):
TCTCAATCCCTAACCCTCGTCTCATTTCCCCCAATTCTCCCTCACCCTCTTCGTGTTCTC
Found at i:6138921 original size:2 final size:2
Alignment explanation
Indices: 6138914--6138938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6138904 ATTAGAATCA
6138914 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 A
6138939 ATTTATATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6139235 original size:29 final size:30
Alignment explanation
Indices: 6139180--6139242 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
6139170 AATTCGAGCC
*
6139180 TCATACTTATGTCTAAAAAAATACTTTTTT
1 TCATACTTATCTCTAAAAAAATACTTTTTT
*
6139210 TCATACTTATCTCT-AGAAAATACTTTTTT
1 TCATACTTATCTCTAAAAAAATACTTTTTT
6139239 TCAT
1 TCAT
6139243 TGTTTGATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (30 bp):
TCATACTTATCTCTAAAAAAATACTTTTTT
Found at i:6139966 original size:20 final size:20
Alignment explanation
Indices: 6139938--6139982 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
6139928 ATTTTGTAAT
*
6139938 TTTTTAAAAAAAAT-TATAAA
1 TTTTCAAAAAAAATCTA-AAA
6139958 TTTTCAAAAAAAATCTAAAA
1 TTTTCAAAAAAAATCTAAAA
6139978 TTTTC
1 TTTTC
6139983 CTATTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTCAAAAAAAATCTAAAA
Found at i:6140571 original size:21 final size:19
Alignment explanation
Indices: 6140545--6140745 Score: 150
Period size: 21 Copynumber: 9.7 Consensus size: 19
6140535 CATATTCGCA
6140545 TTGCGATAGTCCAAGTTCACG
1 TTGCGATAGTCCAAGTT--CG
*
6140566 TTGCGATAGTCGAAGTTCG
1 TTGCGATAGTCCAAGTTCG
* *
6140585 CATTGCGATTTATTCCAAATTCG
1 --TTGCGA--TAGTCCAAGTTCG
6140608 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
* *
6140629 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
* *
6140650 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
6140671 TTGCGATAGTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCG
*
6140690 TTGCGATAGTCAAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
* * *
6140711 TTGCGATTTATTCCAAATTCA
1 TTGCGA--TAGTCCAAGTTCG
*
6140732 TTGCGATAATCCAA
1 TTGCGATAGTCCAA
6140746 AATCGCAACG
Statistics
Matches: 152, Mismatches: 16, Indels: 26
0.78 0.08 0.13
Matches are distributed among these distances:
19 45 0.30
21 80 0.53
23 27 0.18
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (19 bp):
TTGCGATAGTCCAAGTTCG
Found at i:6140587 original size:42 final size:40
Alignment explanation
Indices: 6140539--6140745 Score: 193
Period size: 42 Copynumber: 5.0 Consensus size: 40
6140529 GATTTACATA
* *
6140539 TTCGCATTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAATT--CGTTGCGATAGTCCAAG
*
6140581 TTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCATTGCGA--TAGTCCAAATTCGTTGCGATAGTCCAAG
* * * *
6140623 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAATTCGTTGCGA--TAGTCCAAG
* *
6140667 TTCG--TTGCGATAGTCCAAGTTCGTTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCCAAATTCGTTGCGATAGTCCAAG
* * * *
6140705 TTCGCGTTGCGATTTATTCCAAATTCATTGCGATAATCCAA
1 TTCGCATTGCGA--TAGTCCAAATTCGTTGCGATAGTCCAA
6140746 AATCGCAACG
Statistics
Matches: 141, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
38 10 0.07
40 23 0.16
42 88 0.62
44 20 0.14
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (40 bp):
TTCGCATTGCGATAGTCCAAATTCGTTGCGATAGTCCAAG
Found at i:6140622 original size:63 final size:62
Alignment explanation
Indices: 6140520--6140745 Score: 286
Period size: 63 Copynumber: 3.6 Consensus size: 62
6140510 ACTTCGACTA
* *
6140520 TCGCATTGCGATTTA---CATATTCGCATTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGT
1 TCGCATTGCGATTTATTCCAAATTCG--TTGCGATAGTCCAAGTTC-CGTTGCGATAGTCAAAGT
*
6140582 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAA-
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTGCGA--TAGT-CAAAG
6140646 T
62 T
6140647 TCG--TTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTT-CGTTGCGATAGTCAAAGT
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCCGTTGCGATAGTCAAAGT
* * *
6140706 TCGCGTTGCGATTTATTCCAAATTCATTGCGATAATCCAA
1 TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
6140746 AATCGCAACG
Statistics
Matches: 148, Mismatches: 7, Indels: 19
0.85 0.04 0.11
Matches are distributed among these distances:
58 4 0.03
59 7 0.05
61 41 0.28
62 15 0.10
63 64 0.43
65 14 0.09
66 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (62 bp):
TCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCCGTTGCGATAGTCAAAGT
Found at i:6141468 original size:21 final size:21
Alignment explanation
Indices: 6141412--6141477 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
6141402 ACCAGTCGTT
*
6141412 GAACTTCGACTATCGCAA--C
1 GAACTTGGACTATCGCAATGC
* *
6141431 GAATTTGGAATAAATCGCAATGC
1 GAACTTGGACT--ATCGCAATGC
*
6141454 GAACTTGGACTATCGTAATGC
1 GAACTTGGACTATCGCAATGC
6141475 GAA
1 GAA
6141478 TATGTAAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 8 0.22
21 19 0.51
23 10 0.27
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (21 bp):
GAACTTGGACTATCGCAATGC
Found at i:6141543 original size:69 final size:71
Alignment explanation
Indices: 6141430--6141561 Score: 232
Period size: 69 Copynumber: 1.9 Consensus size: 71
6141420 ACTATCGCAA
*
6141430 CGAATTTGGAATAAATCGCAATGCGAACTTGGACTATCGTAATGCGAATATGTAAATCGCAATGT
1 CGAATTTGGAATAAATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGT
6141495 GATAGT
66 GATAGT
*
6141501 CGAATTT-GAA-AAATTGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAAT
1 CGAATTTGGAATAAATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAAT
6141562 ACGATAATCG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 49 0.83
70 3 0.05
71 7 0.12
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (71 bp):
CGAATTTGGAATAAATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGT
GATAGT
Found at i:6142883 original size:35 final size:35
Alignment explanation
Indices: 6142837--6142912 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
6142827 AAAACATACC
* *
6142837 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
6142872 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
6142907 TCAATT
1 TCAATT
6142913 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:6143455 original size:130 final size:130
Alignment explanation
Indices: 6143309--6143556 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
6143299 TATTTATATA
* **
6143309 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
** *
6143374 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAAAACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
6143439 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
6143504 TTAAAACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAAAACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
6143557 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAAAACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:6143587 original size:130 final size:129
Alignment explanation
Indices: 6143323--6143587 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
6143313 ATTTGGTCCT
* ** **
6143323 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAAAACATGATCA
* *** * * **** *
6143388 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
6143453 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAAAACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAAAACATGATCA
* * * *
6143518 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
6143582 -A
128 CA
6143583 AAATT
1 AAATT
6143588 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAAAACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:6143915 original size:28 final size:27
Alignment explanation
Indices: 6143884--6143946 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
6143874 AGTTGATACA
*
6143884 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
6143912 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
6143940 ATATTTT
1 ATATTTT
6143947 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:6144054 original size:16 final size:18
Alignment explanation
Indices: 6144028--6144060 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6144018 ATTTCTTATT
6144028 AAAAATAAAAT-ATTCAA
1 AAAAATAAAATGATTCAA
6144045 AAAAAT-AAATGATTCA
1 AAAAATAAAATGATTCA
6144061 TACATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAATAAAATGATTCAA
Found at i:6148236 original size:29 final size:29
Alignment explanation
Indices: 6148194--6148261 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
6148184 GGAGCAGGAG
6148194 GGAGTGCATGGCGACCTACAAGGTCGCCA
1 GGAGTGCATGGCGACCTACAAGGTCGCCA
* * *
6148223 GGAGTGCATGGCGACCTATATGGTCGCCC
1 GGAGTGCATGGCGACCTACAAGGTCGCCA
*
6148252 GGAGGGCATG
1 GGAGTGCATG
6148262 ACGATCTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.21, C:0.25, G:0.38, T:0.16
Consensus pattern (29 bp):
GGAGTGCATGGCGACCTACAAGGTCGCCA
Found at i:6148270 original size:29 final size:29
Alignment explanation
Indices: 6148194--6148270 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
6148184 GGAGCAGGAG
* * * *
6148194 GGAGTGCATGGCGACCTACAAGGTCGCCA
1 GGAGGGCATGACGACCTATATGGTCGCCA
* * *
6148223 GGAGTGCATGGCGACCTATATGGTCGCCC
1 GGAGGGCATGACGACCTATATGGTCGCCA
*
6148252 GGAGGGCATGACGATCTAT
1 GGAGGGCATGACGACCTAT
6148271 GCTTGGGGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.22, C:0.25, G:0.35, T:0.18
Consensus pattern (29 bp):
GGAGGGCATGACGACCTATATGGTCGCCA
Found at i:6155561 original size:2 final size:2
Alignment explanation
Indices: 6155550--6155616 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
6155540 TTATAAAGCT
6155550 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6155591 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
6155617 AATCGGCCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6162368 original size:21 final size:21
Alignment explanation
Indices: 6162342--6162392 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
6162332 TATATTGAGC
6162342 ATGTATATTCATAGGACTCTT
1 ATGTATATTCATAGGACTCTT
*
6162363 ATGTATATTCATAGGGCTCTT
1 ATGTATATTCATAGGACTCTT
* *
6162384 TTGTGTATT
1 ATGTATATT
6162393 TGGTCTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (21 bp):
ATGTATATTCATAGGACTCTT
Found at i:6167058 original size:30 final size:29
Alignment explanation
Indices: 6167000--6167058 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
6166990 TTATTATTGA
*
6167000 TTAAATAAAATTATATTTTATAAGATTTT
1 TTAAATAAAATTATATTTTATAACATTTT
*
6167029 TTAAATTAAATTTATATTTTA-AATCATTTT
1 TTAAA-TAAAATTATATTTTATAA-CATTTT
6167059 AATATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
TTAAATAAAATTATATTTTATAACATTTT
Found at i:6167222 original size:19 final size:18
Alignment explanation
Indices: 6167200--6167239 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
6167190 TATTTAAAAC
6167200 AAAATTAATCATTTAATTAAA
1 AAAATTAA--ATTTAATT-AA
6167221 AAAATTAAATTTAATTAA
1 AAAATTAAATTTAATTAA
6167239 A
1 A
6167240 GTTTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 8 0.42
21 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTAAATTTAATTAA
Found at i:6169495 original size:347 final size:348
Alignment explanation
Indices: 6168823--6169704 Score: 1485
Period size: 347 Copynumber: 2.5 Consensus size: 348
6168813 GAAAGAAATT
6168823 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATATTTTTAGAGCTGCTAATTGGAAATC
1 ACTA-CCTAATGGA-AGTAAAGATATAATTATTAGGCATA-TTTTAGAGCTGCTAATTGGAAATC
6168888 GGATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCT
63 GGATAAATTAGCTAAAGAAGGAATA-GTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCT
*
6168953 GAGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTTACGTGTTATGTTGTAACTACCCTAATGGA
127 GAGTTGGTTG--TTA--GTAG-TAGTTTGGTG-TTTAAGTGTTATGTTGTAACTACCCTAATGGA
6169018 TATAAAGATATATTATTAGGCATATTTTTAGAGCTGCTAATTGGAAATCGGATAAATTAGCTAAA
186 TATAAAGATATATTATTAGGCATATTTTTAGAGCTGCTAATTGGAAATCGGATAAATTAGCTAAA
6169083 GAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTTCTGAGTTGGTTTATTAG
251 GAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTTCTGAGTTGGTTTATTAG
6169148 TGTAGTTAGTTTGGTGTTTAAGTGTTATGTTGTA
316 TGTAGTTAGTTTGGTGTTTAAGTG-TATGTTGTA
6169182 ACTACCTAATGG-AGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCGGA
1 ACTACCTAATGGAAGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCGGA
6169246 T-AATTAGCTAAAGAAGGAATATGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAG-TTCTGAG
66 TAAATTAGCTAAAGAAGGAATA-GTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTGAG
6169309 TTGGTTGTTAGTAGTAGTTTGGTGTTTAAGTGTTATGTTGTAACTACCCTAATGGATAGTAAAGA
130 TTGGTTGTTAGTAGTAGTTTGGTGTTTAAGTGTTATGTTGTAACTACCCTAATGGATA-TAAAGA
6169374 TATAATTATTAGGCATA-TTTTAGAGCTGCTAATTGGAAATCGGATAAATTAGCT-AAGAAGGAA
194 TAT-ATTATTAGGCATATTTTTAGAGCTGCTAATTGGAAATCGGATAAATTAGCTAAAGAAGGAA
6169437 TAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAG-TTTCTGAGTTGGTTGTATTAGTGTAGT
258 TAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTTCTGAGTTGGTT-TATTAGTGTAGT
6169501 TAGTTTGGTGTTTAAGTGTATGTTGTA
322 TAGTTTGGTGTTTAAGTGTATGTTGTA
6169528 ACTACCTAATGGATAGTAAAGATATAATTA-TAGGCATATTTTAGAGCTGCTAATTGGAAATCGG
1 ACTACCTAATGGA-AGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCGG
*
6169592 ATAAATTAGCTAAAGAAGGAATAGGTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTGAG
65 ATAAATTAGCTAAAGAAGGAATAGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTGAG
*
6169657 -TGGTTGTATCAGT-GTAGTTAGTTGGTGTTTAAGTGCTATGTTGTAACT
130 TTGGTTGT-T-AGTAGTAG-T--TTGGTGTTTAAGTGTTATGTTGTAACT
6169705 GAAGTTGTTA
Statistics
Matches: 507, Mismatches: 4, Indels: 32
0.93 0.01 0.06
Matches are distributed among these distances:
346 35 0.07
347 185 0.36
348 104 0.21
349 21 0.04
351 29 0.06
353 14 0.03
354 54 0.11
355 28 0.06
356 25 0.05
358 8 0.02
359 4 0.01
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (348 bp):
ACTACCTAATGGAAGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCGGA
TAAATTAGCTAAAGAAGGAATAGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTGAGT
TGGTTGTTAGTAGTAGTTTGGTGTTTAAGTGTTATGTTGTAACTACCCTAATGGATATAAAGATA
TATTATTAGGCATATTTTTAGAGCTGCTAATTGGAAATCGGATAAATTAGCTAAAGAAGGAATAG
GTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTTCTGAGTTGGTTTATTAGTGTAGTTAGT
TTGGTGTTTAAGTGTATGTTGTA
Found at i:6169604 original size:175 final size:179
Alignment explanation
Indices: 6168823--6169704 Score: 1552
Period size: 175 Copynumber: 5.0 Consensus size: 179
6168813 GAAAGAAATT
6168823 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATATTTTTAGAGCTGCTAATTGGAAATC
1 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATA-TTTTAGAGCTGCTAATTGGAAATC
6168888 GGATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCT
65 GGATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCT
*
6168953 GAGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTTACGTGTTATGTTGTA
130 GAGTTGGTTGTATTAGTGTAGTTAGTTTGGTG-TTTAAGTGTTATGTTGTA
6169004 ACTACCCTAATGGATA-TAAAGATAT-ATTATTAGGCATATTTTTAGAGCTGCTAATTGGAAATC
1 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATA-TTTTAGAGCTGCTAATTGGAAATC
6169067 GGATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTTC
65 GGATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAG-TTTC
6169132 TGAGTTGGTT-TATTAGTGTAGTTAGTTTGGTGTTTAAGTGTTATGTTGTA
129 TGAGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTAAGTGTTATGTTGTA
6169182 ACTA-CCTAATGG--AGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCG
1 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCG
*
6169244 GAT-AATTAGCTAAAGAAGGAATATGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAG-TTCTG
66 GATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTG
6169307 AGTTGGTTG--TTA--GTAG-TAGTTTGGTGTTTAAGTGTTATGTTGTA
131 AGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTAAGTGTTATGTTGTA
6169351 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCG
1 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCG
6169416 GATAAATTAGCT-AAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTG
66 GATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTG
6169480 AGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTAAGTG-TATGTTGTA
131 AGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTAAGTGTTATGTTGTA
6169528 ACTA-CCTAATGGATAGTAAAGATATAATTA-TAGGCATATTTTAGAGCTGCTAATTGGAAATCG
1 ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCG
6169591 GATAAATTAGCTAAAGAAGGAATAGG-TGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTG
66 GATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTG
* *
6169655 AG-TGGTTGTATCAGTGTAGTTAG-TTGGTGTTTAAGTGCTATGTTGTA
131 AGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTAAGTGTTATGTTGTA
6169702 ACT
1 ACT
6169705 GAAGTTGTTA
Statistics
Matches: 681, Mismatches: 4, Indels: 39
0.94 0.01 0.05
Matches are distributed among these distances:
169 32 0.05
170 12 0.02
172 101 0.15
173 49 0.07
174 32 0.05
175 143 0.21
176 76 0.11
177 38 0.06
178 39 0.06
179 120 0.18
180 23 0.03
181 16 0.02
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (179 bp):
ACTACCCTAATGGATAGTAAAGATATAATTATTAGGCATATTTTAGAGCTGCTAATTGGAAATCG
GATAAATTAGCTAAAGAAGGAATAGGTTGATTAATAGGTTGTGTGTTTAGGTTGTTAAGTTTCTG
AGTTGGTTGTATTAGTGTAGTTAGTTTGGTGTTTAAGTGTTATGTTGTA
Found at i:6169812 original size:65 final size:68
Alignment explanation
Indices: 6169730--6169863 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
6169720 TGACTTTGTA
* * * *
6169730 TTATTCTTATATTAAT-AA-TCTTAAGCACTC-TTTTCCTCCTTTCAATGTCTTTCATGTTAATG
1 TTATTCTTACATTAATAAATTCTTAAGCACTCTTTTTCCTCCTTCCAACGTCCTTCATGTTAATG
6169792 TTG
66 TTG
* *
6169795 TTATTCTTACATTAATAAATTCTTAGGCCCTCTTTTTCCTCCTTCCAACGTCCTTCATGTTAATG
1 TTATTCTTACATTAATAAATTCTTAAGCACTCTTTTTCCTCCTTCCAACGTCCTTCATGTTAATG
6169860 TTG
66 TTG
6169863 T
1 T
6169864 AACATGGAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
65 15 0.25
66 2 0.03
67 10 0.17
68 33 0.55
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.49
Consensus pattern (68 bp):
TTATTCTTACATTAATAAATTCTTAAGCACTCTTTTTCCTCCTTCCAACGTCCTTCATGTTAATG
TTG
Found at i:6177592 original size:32 final size:32
Alignment explanation
Indices: 6177556--6177624 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
6177546 TGTCACACCA
6177556 AATTCCCCCTTCACTCTCCACCCCCTCAATCC
1 AATTCCCCCTTCACTCTCCACCCCCTCAATCC
****
6177588 AATTCTTTTTTCACTCTCCACCCCCTCAATCC
1 AATTCCCCCTTCACTCTCCACCCCCTCAATCC
6177620 AATTC
1 AATTC
6177625 TTTTTGCGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.20, C:0.48, G:0.00, T:0.32
Consensus pattern (32 bp):
AATTCCCCCTTCACTCTCCACCCCCTCAATCC
Found at i:6177625 original size:32 final size:32
Alignment explanation
Indices: 6177565--6177629 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6177555 AAATTCCCCC
6177565 TTCACTCTCCACCCCCTCAATCCAATTCTTTT
1 TTCACTCTCCACCCCCTCAATCCAATTCTTTT
6177597 TTCACTCTCCACCCCCTCAATCCAATTCTTTT
1 TTCACTCTCCACCCCCTCAATCCAATTCTTTT
6177629 T
1 T
6177630 GCGACGCCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.43, G:0.00, T:0.38
Consensus pattern (32 bp):
TTCACTCTCCACCCCCTCAATCCAATTCTTTT
Found at i:6186635 original size:29 final size:29
Alignment explanation
Indices: 6186583--6186640 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
6186573 GTGTTAGTCG
**
6186583 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCAGCGACCTAC
* *
6186612 TAGGTCGCCATGTCTTCCCAGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCAGCGACCTAC
6186641 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCAGCGACCTAC
Found at i:6186702 original size:14 final size:14
Alignment explanation
Indices: 6186683--6186729 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
6186673 CGCTGGGCAT
*
6186683 CCGAGGACATCCGA
1 CCGAGGCCATCCGA
*
6186697 CCGAGGCCATCTGA
1 CCGAGGCCATCCGA
6186711 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
6186725 ACGAG
1 CCGAG
6186730 CTATGCGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.26, C:0.36, G:0.30, T:0.09
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:6186750 original size:10 final size:10
Alignment explanation
Indices: 6186735--6186760 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6186725 ACGAGCTATG
6186735 CGAGGGCATC
1 CGAGGGCATC
6186745 CGAGGGCATC
1 CGAGGGCATC
6186755 CGAGGG
1 CGAGGG
6186761 TAACCGGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.27, G:0.46, T:0.08
Consensus pattern (10 bp):
CGAGGGCATC
Found at i:6186842 original size:29 final size:29
Alignment explanation
Indices: 6186809--6186922 Score: 183
Period size: 29 Copynumber: 3.9 Consensus size: 29
6186799 GAGCGAGGGT
*
6186809 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
6186838 AGGTCGTCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
6186867 AGGTCGTCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
* *
6186896 AGGTCGCCCAGAGGGCATGTCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
6186923 TGTGTTGGGA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.21, C:0.29, G:0.36, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:6191888 original size:55 final size:55
Alignment explanation
Indices: 6191796--6191903 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
6191786 TAAGCTAGTT
* *
6191796 TTCTTTTGACTGCTAGCTAGTAGGTATTAATTCTATTGAGTTTCTAATTAAACCA
1 TTCTTTTGACTGCTAGCTAGTAAGTATTAATTCTATTGAATTTCTAATTAAACCA
* *
6191851 TTCTTTTGACTGCTAGCTAGTAAGTATTACTTTTATTGAATTTCTAATTAAAC
1 TTCTTTTGACTGCTAGCTAGTAAGTATTAATTCTATTGAATTTCTAATTAAAC
6191904 TATACGATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (55 bp):
TTCTTTTGACTGCTAGCTAGTAAGTATTAATTCTATTGAATTTCTAATTAAACCA
Found at i:6210359 original size:19 final size:19
Alignment explanation
Indices: 6210335--6210387 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
6210325 AATGACCAAT
6210335 AAAATCGCAACGCGATATC
1 AAAATCGCAACGCGATATC
6210354 AAAATCGCAACGCGATATC
1 AAAATCGCAACGCGATATC
*
6210373 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
6210388 CTGAGAGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGCGATATC
Found at i:6210400 original size:20 final size:20
Alignment explanation
Indices: 6210375--6210482 Score: 144
Period size: 20 Copynumber: 5.4 Consensus size: 20
6210365 GCGATATCAA
*
6210375 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
*
6210395 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
* *
6210415 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
*
6210435 AATCACAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
6210455 AATCGCAACGCGATTTAGAA
1 AATCGCAATGCGATTGAGAG
6210475 AATCGCAA
1 AATCGCAA
6210483 CGTTAAAAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (20 bp):
AATCGCAATGCGATTGAGAG
Found at i:6210483 original size:20 final size:20
Alignment explanation
Indices: 6210335--6210484 Score: 115
Period size: 20 Copynumber: 7.6 Consensus size: 20
6210325 AATGACCAAT
* *
6210335 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
* *
6210354 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
* * *
6210373 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
6210393 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
6210413 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * * *
6210433 AGAATCACAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
6210453 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
6210473 AAAATCGCAACG
1 AAAATCGCAACG
6210485 TTAAAAAGAA
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
19 33 0.29
20 81 0.71
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:6210494 original size:20 final size:20
Alignment explanation
Indices: 6210471--6210524 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
6210461 AACGCGATTT
*
6210471 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGATAAAA
*
6210491 AGAAAATCGCAACGATCAAA
1 AGAAAATCGCAACGATAAAA
6210511 AGAAAATCGCAACG
1 AGAAAATCGCAACG
6210525 CGATCTTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.54, C:0.19, G:0.17, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGATAAAA
Found at i:6215629 original size:26 final size:28
Alignment explanation
Indices: 6215595--6215655 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 28
6215585 AAGAGGTATG
* *
6215595 AAATT-AATTTTTTTAA-AAGAATAT-A
1 AAATTAAATTTTATTAATAAAAATATAA
6215620 AAATTAAA--TTATTAATAAAAATATAA
1 AAATTAAATTTTATTAATAAAAATATAA
6215646 AAATTAAATT
1 AAATTAAATT
6215656 ATATGAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 6 0.21
25 12 0.41
26 11 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AAATTAAATTTTATTAATAAAAATATAA
Found at i:6218656 original size:21 final size:21
Alignment explanation
Indices: 6218640--6218693 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
6218630 GCGTTGCATT
6218640 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
6218661 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
**
6218682 TCGTATTGCGAT
1 TCGCGTTGCGAT
6218694 TTTCCATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:6231003 original size:32 final size:32
Alignment explanation
Indices: 6230925--6231008 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 32
6230915 AGTGTCCTTC
*
6230925 TGTTCCTTAGAACATAGGT-ATATTGTCCATA
1 TGTTCCCTAGAACATAGGTAATATTGTCCATA
* * *
6230956 T-ATCCCAAAAGACATAGGTAAT-TATGTCCATA
1 TGTTCCCTAGA-ACATAGGTAATAT-TGTCCATA
*
6230988 TGTTCCGTAGAACATAGGTAA
1 TGTTCCCTAGAACATAGGTAA
6231009 ACCCTTGACT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
30 5 0.12
31 10 0.24
32 21 0.51
33 5 0.12
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (32 bp):
TGTTCCCTAGAACATAGGTAATATTGTCCATA
Found at i:6235714 original size:24 final size:25
Alignment explanation
Indices: 6235677--6235731 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
6235667 TATCACATGG
6235677 TTACA-ATTCATATAA-CACTTATA
1 TTACATATTCATATAATCACTTATA
* *
6235700 TTACATATTCTTATAATTACTTATA
1 TTACATATTCATATAATCACTTATA
6235725 TTA-ATAT
1 TTACATAT
6235732 CACATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 13 0.46
25 10 0.36
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (25 bp):
TTACATATTCATATAATCACTTATA
Found at i:6235739 original size:25 final size:24
Alignment explanation
Indices: 6235677--6235739 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
6235667 TATCACATGG
*
6235677 TTACA-ATTCATATAACACTTATA
1 TTACATATACATATAACACTTATA
* * *
6235700 TTACATATTCTTATAATTACTTATA
1 TTACATATACATATAA-CACTTATA
6235725 TTA-ATATCACATATA
1 TTACATAT-ACATATA
6235740 TAACAAGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.15
24 13 0.39
25 15 0.45
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.44
Consensus pattern (24 bp):
TTACATATACATATAACACTTATA
Found at i:6236360 original size:64 final size:64
Alignment explanation
Indices: 6236224--6236385 Score: 157
Period size: 64 Copynumber: 2.5 Consensus size: 64
6236214 CCCTTAATAT
* *
6236224 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACTTTCGATGTTTTAATCTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTCAATCTTAAGGGG
* * * * ** * *
6236288 GTGTATCGATGCACT-CCTTATGCATCGATGCACTAATTTCATTCGATGTTTCCATTTTTAA-GG
1 GTGCATCGATGCACTACC-CATGCATCGATACACAAATCACATTCGATGTTT-CAATCTTAAGGG
6236351 G
64 G
* * ** *
6236352 TTGCATCGATGCACTTCCTGTGCATCAATACACA
1 GTGCATCGATGCACTACCCATGCATCGATACACA
6236386 CTGAACAATT
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
63 2 0.03
64 69 0.87
65 8 0.10
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTCAATCTTAAGGGG
Found at i:6239614 original size:21 final size:22
Alignment explanation
Indices: 6239588--6239634 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
6239578 AAAAATATTA
*
6239588 TAAATATTATAA-ATTTTAAAT
1 TAAATATAATAATATTTTAAAT
6239609 TAAATATAATAATATTTTAAAT
1 TAAATATAATAATATTTTAAAT
6239631 TAAA
1 TAAA
6239635 ATGATATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAATATAATAATATTTTAAAT
Found at i:6240073 original size:21 final size:21
Alignment explanation
Indices: 6240049--6240089 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6240039 AAATATTAAA
*
6240049 AAATATTAATATTTTAAGTAG
1 AAATAATAATATTTTAAGTAG
6240070 AAATAATAATATTTTAAGTA
1 AAATAATAATATTTTAAGTA
6240090 ATTTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
AAATAATAATATTTTAAGTAG
Found at i:6240783 original size:17 final size:17
Alignment explanation
Indices: 6240731--6240783 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 17
6240721 GTCCTACCCA
*
6240731 TTATTTTTATTATTTTAT
1 TTATTATTATTA-TTTAT
6240749 TATATATATTATATATTTAT
1 T-TAT-TATTAT-TATTTAT
6240769 TTATTATTATTATTT
1 TTATTATTATTATTT
6240784 TACAGTCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.16
18 7 0.23
19 6 0.19
20 11 0.35
21 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTATTATTTAT
Found at i:6241846 original size:26 final size:26
Alignment explanation
Indices: 6241802--6241870 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
6241792 TAACCTTATT
6241802 TTTTATTATTATTATTTTTACTC-CA
1 TTTTATTATTATTATTTTTACTCTCA
*
6241827 TTTTATTTATT-TTATTTTTTTCTCTCA
1 TTTTA-TTATTATTA-TTTTTACTCTCA
* *
6241854 TTTCTCTTATTACTATT
1 TTT-TATTATTATTATT
6241871 ATTATATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 8 0.22
26 13 0.36
27 12 0.33
28 3 0.08
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTATTATTATTATTTTTACTCTCA
Found at i:6242907 original size:16 final size:16
Alignment explanation
Indices: 6242886--6242920 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
6242876 AAATAATGAG
6242886 CATGTGGGGTAGATAT
1 CATGTGGGGTAGATAT
6242902 CATGTGGGGTAGATAT
1 CATGTGGGGTAGATAT
6242918 CAT
1 CAT
6242921 ACGGGGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.31
Consensus pattern (16 bp):
CATGTGGGGTAGATAT
Found at i:6242926 original size:16 final size:16
Alignment explanation
Indices: 6242891--6242928 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6242881 ATGAGCATGT
**
6242891 GGGGTAGATATCATGT
1 GGGGTAGATATCATAC
6242907 GGGGTAGATATCATAC
1 GGGGTAGATATCATAC
6242923 GGGGTA
1 GGGGTA
6242929 TGACTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.39, T:0.26
Consensus pattern (16 bp):
GGGGTAGATATCATAC
Found at i:6244666 original size:95 final size:94
Alignment explanation
Indices: 6244494--6244733 Score: 306
Period size: 95 Copynumber: 2.7 Consensus size: 94
6244484 CAAATTATAA
6244494 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATGGA
1 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATGGA
* * *
6244559 TAATATTCAGCTAGCCTGATAAAGGTGAT
66 TAAGATTAAGCTAACCTGATAAAGGTGAT
* *
6244588 TATACTATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGGCTTTATG
1 TATA-TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACACCCCGACTTTATG
6244652 GATAAGATTAAGCTAACCTGATAAA-G-G--
64 GATAAGATTAAGCTAACCTGATAAAGGTGAT
* * *
6244679 TAT-T-TAC-AT--A--TTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
1 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTAT
6244734 TGATTCAGCT
Statistics
Matches: 137, Mismatches: 6, Indels: 17
0.86 0.04 0.11
Matches are distributed among these distances:
83 42 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 6 0.04
95 77 0.56
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATGGA
TAAGATTAAGCTAACCTGATAAAGGTGAT
Found at i:6246101 original size:36 final size:36
Alignment explanation
Indices: 6246061--6246280 Score: 208
Period size: 36 Copynumber: 6.3 Consensus size: 36
6246051 GACTAATTTA
*
6246061 CTTGAAACAAATTTTGTCTCTCTTGGGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
*
6246097 CTTGAAACAAATTTTGTCACTCTTGAGACAG-TTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * *
6246132 CTTGAAACAAA------ATCT-TTGA-ATATGTTTTAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACA-G-TTTCC
* * * *
6246162 ATT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * * *
6246197 TTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCC
* *
6246234 CTTGAAACAAATTTTGTCTCTCTTGAGACTGTTTTC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
6246270 CTTGAAACAAA
1 CTTGAAACAAA
6246281 ATCTTTGAAT
Statistics
Matches: 148, Mismatches: 23, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
27 2 0.01
28 5 0.03
29 9 0.06
30 5 0.03
35 22 0.15
36 72 0.49
37 33 0.22
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
Found at i:6246295 original size:29 final size:29
Alignment explanation
Indices: 6246263--6246338 Score: 152
Period size: 29 Copynumber: 2.6 Consensus size: 29
6246253 CTCTTGAGAC
6246263 TGTTTTCCTTGAAACAAAATCTTTGAATA
1 TGTTTTCCTTGAAACAAAATCTTTGAATA
6246292 TGTTTTCCTTGAAACAAAATCTTTGAATA
1 TGTTTTCCTTGAAACAAAATCTTTGAATA
6246321 TGTTTTCCTTGAAACAAA
1 TGTTTTCCTTGAAACAAA
6246339 TTTCGTCTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (29 bp):
TGTTTTCCTTGAAACAAAATCTTTGAATA
Found at i:6246347 original size:167 final size:169
Alignment explanation
Indices: 6246061--6246715 Score: 845
Period size: 167 Copynumber: 3.8 Consensus size: 169
6246051 GACTAATTTA
* *
6246061 CTTGAAACAAATTTTGTCTCTCTTGGGACAGTTTCCCTTGAAACAAATTTTGTCACTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA---TAT--CTCTTGAGAC
*
6246126 AG-TTCCCTTGAAACAAAATCTTTGAATATGTTTTACATT-AAACAAATTTCGTCTCCCTTGAGA
61 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTT-CCTTGAAACAAATTTCGTCTCCCTTGAGA
6246189 CAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
125 CAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
* * *
6246234 CTTGAAACAAATTTTGTCTCTCTTGAGACTGTTTTCCTTGAAACAAA-ATCT-TTGA-ATATGTT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATATCTCTTGAGACA-GTT
* **
6246296 TTCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCTATTGAGACAGTT
65 TCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTT
6246361 TCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
130 TCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
*
6246401 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-----TATCTCTTGAGAC
* *
6246466 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTTGTCTTCCTTGAGAC
61 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGAC
* * * *
6246531 AGTTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGATAGTTTCT
126 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
* *
6246575 CTTGAAACAAATTTTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAG
1 CTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA------TATCTCTTGAG
* * * * * * *
6246640 ATAGTTTCTCTTGAAACACCAATATTTGAATATG-TTTCTCTTGAAACAAAATTTTGCCTCCCTG
59 ACAGTTTCCCTTGAAACA-AAATCTTTGAATATGTTTTC-CTTGAAAC-AAATTTCGTCTCCCTT
6246704 GAGACAGTTTCT
121 GAGACAGTTTCT
6246716 CTTGAAACAC
Statistics
Matches: 435, Mismatches: 31, Indels: 27
0.88 0.06 0.05
Matches are distributed among these distances:
165 2 0.00
166 8 0.02
167 145 0.33
169 1 0.00
173 47 0.11
174 114 0.26
175 37 0.09
176 36 0.08
177 21 0.05
178 24 0.06
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (169 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATATCTCTTGAGACAGTTT
CCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTT
CTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
Found at i:6246423 original size:21 final size:21
Alignment explanation
Indices: 6246398--6246462 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
6246388 TGAGACAGTT
6246398 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
6246419 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
6246436 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
6246455 TCTCTTGA
1 TCTCTTGA
6246463 GACAGTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.44
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:6246423 original size:36 final size:36
Alignment explanation
Indices: 6246322--6246483 Score: 243
Period size: 36 Copynumber: 4.5 Consensus size: 36
6246312 CTTTGAATAT
* * *
6246322 GTTTTCCTTGAAACAAATTTCGTCTCTATTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
** * *
6246358 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
*
6246395 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
6246431 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
6246467 GTTTCCCTTGAAACAAA
1 GTTTCCCTTGAAACAAA
6246484 ATCTTTGAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
36 83 0.73
37 31 0.27
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:6246481 original size:72 final size:73
Alignment explanation
Indices: 6246322--6246656 Score: 316
Period size: 73 Copynumber: 4.7 Consensus size: 73
6246312 CTTTGAATAT
* ** * *
6246322 GTTTTCCTTGAAACAAATTTCGTCTCTATTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTCGTCTCTATTGAGACAGTTTCCCTTGAAACTAAATTTTGTCTCTC
6246387 TTGAGACA
66 TTGAGACA
* * *
6246395 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTCGTCTCTATTGAGACAGTTTCCCTTGAAACTAAATTTTGTCTCTC
6246459 TTGAGACA
66 TTGAGACA
* * *
6246467 GTTTCCCTTGAAACAAA------ATCT-TTGA-ATATGTTTTCCTTGAAAC-AAATTTTGTCT-T
1 GTTTCCCTTGAAACAAATTTCGTCTCTATTGAGACA-GTTTCCCTTGAAACTAAATTTTGTCTCT
6246522 CCTTGAGACA
65 -CTTGAGACA
*** * * * * * * *
6246532 GTTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGATAGTTTCTCTTGAAAC-AAATTTTTTTCTC
1 GTTTCCCTTGAAAC-AAATTTCGTCTCTATTGAGACAGTTTCCCTTGAAACTAAA-TTTTGTCTC
6246596 TCTTGAGACA
64 TCTTGAGACA
* * * *
6246606 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC
1 GTTTCCCTTGAAACAAA-TTTCGTCTCTATTGAGACAGTTTCCCTTGAAAC
6246657 ACCAATATTT
Statistics
Matches: 222, Mismatches: 26, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
64 3 0.01
65 48 0.22
66 5 0.02
72 40 0.18
73 63 0.28
74 62 0.28
75 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (73 bp):
GTTTCCCTTGAAACAAATTTCGTCTCTATTGAGACAGTTTCCCTTGAAACTAAATTTTGTCTCTC
TTGAGACA
Found at i:6246512 original size:65 final size:68
Alignment explanation
Indices: 6246376--6246622 Score: 236
Period size: 65 Copynumber: 3.5 Consensus size: 68
6246366 TGGAACTAAG
* * * * *
6246376 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA----ATCTCTCTCGAGATAGTTTTCCTTG
6246441 AAACAAA
62 AAACAAA
6246448 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCT-T-T-GA-ATATGTTTTCCTTGAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTCTCTCGAGATA-GTTTTCCTTGAAA
6246509 CAAA
65 CAAA
*** **
6246513 TTTTGTCT-TCCTTGAGACAGTTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGATAG-TTTCTC
1 TTTTGTCTCT-CTTGAGACAGTTTCCCTTGAAAC-AA----AATCTCTCTCGAGATAGTTTTC-C
6246576 TTGAAACAAA
59 TTGAAACAAA
*
6246586 TTTTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 -TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
6246623 GTTTTGTCTC
Statistics
Matches: 147, Mismatches: 14, Indels: 31
0.77 0.07 0.16
Matches are distributed among these distances:
64 3 0.02
65 46 0.31
66 3 0.02
67 1 0.01
68 3 0.02
70 3 0.02
71 1 0.01
72 40 0.27
73 16 0.11
74 30 0.20
75 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (68 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTCTCTCGAGATAGTTTTCCTTGAAAC
AAA
Found at i:6246556 original size:37 final size:37
Alignment explanation
Indices: 6246498--6246657 Score: 209
Period size: 37 Copynumber: 4.4 Consensus size: 37
6246488 TTGAATATGT
6246498 TTTC-CTTGAAACAAA-TTTTGTCT-TCCTTGAGACAG
1 TTTCTCTTGAAACAAAGTTTTGTCTCT-CTTGAGACAG
* * * * *
6246533 TTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGATAG
1 TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
* *
6246570 TTTCTCTTGAAACAAATTTTTTTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
* *
6246607 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
6246644 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
6246658 CCAATATTTG
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
35 3 0.03
36 9 0.09
37 92 0.88
38 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (37 bp):
TTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
Found at i:6246625 original size:74 final size:73
Alignment explanation
Indices: 6246498--6246657 Score: 234
Period size: 74 Copynumber: 2.2 Consensus size: 73
6246488 TTGAATATGT
** *
6246498 TTTC-CTTGAAACAAATTTTGTCTTCCTTGAGACAGTTTATTTTGAAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTTGTCTTCCTTGAGACAGTTTACCTTGAAACAAAGTTTTGTCTCTCT
6246562 CGAGATAG
66 CGAGATAG
* *
6246570 TTTCTCTTGAAACAAATTTT-TTTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCT
1 TTTCTCTTGAAACAAATTTTGTCT-TC-CTTGAGACAGTTTACCTTGAAACAAAGTTTTGTCTCT
*
6246634 CTTGAGATAG
64 CTCGAGATAG
6246644 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
6246658 CCAATATTTG
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
72 6 0.08
73 17 0.22
74 56 0.71
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (73 bp):
TTTCTCTTGAAACAAATTTTGTCTTCCTTGAGACAGTTTACCTTGAAACAAAGTTTTGTCTCTCT
CGAGATAG
Found at i:6246822 original size:341 final size:338
Alignment explanation
Indices: 6246061--6246723 Score: 742
Period size: 341 Copynumber: 1.9 Consensus size: 338
6246051 GACTAATTTA
** * * *** * *
6246061 CTTGAAACAAATTTTGTCTCTCTTGGGACAGTTTCCCTTGAAACAAATTTTGTCACTCTTGAGAC
1 CTTGAAACAAATAATGACTCTCTTGAGACAGTTTCCCTTGAAACAAA--TAAACTCTCTTGAGAA
6246126 AG-TTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGAC
64 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGAC
* * *
6246190 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCT
129 AGTTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGACAGTTTCTCTTGAAACAAATTTTGTCTCT
* * *
6246255 CTTGAGACTGTTTTCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAAATCTTTGAAT
194 CTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAAATATTTGAAT
* * * * * *****
6246320 ATGTTTTCCTTGAAACAAATTTCGTCTCTATTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTC
259 ATGTTTTCCTTGAAACAAATTTCGCCTCCATGGAGACAGTTTCTCTTGAAACTAAG-AAAAACTC
6246385 TCTTGAGACAGTTTCT
323 TCTTGAGACAGTTTCT
** * *** *
6246401 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
1 CTTGAAACAAATAATGACTCTCTTGAGACAGTTTCCCTTGAAACAAA--TAAACTCTCTTGAGAA
* * *
6246466 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTT-CCTTGAAACAAATTTTGTCTTCCTTGAGA
64 AGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTACATT-AAACAAATTTCGTCTCCCTTGAGA
* *
6246530 CAGTTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGATAGTTTCTCTTGAAACAAATTTTTTTCT
128 CAGTTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGACAGTTTCTCTTGAAACAAA-TTTTGTCT
*
6246595 CTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGATA-G-TTTCTCTTGAAACA
192 CTCTTGAGACAGTTTCCCTTGAAACAAA-------ATCT-TTGA-ATATGTTTTC-CTTGAAACA
* * *
6246658 CCAATATTTGAATATG-TTTCTCTTGAAACAAAATTTTGCCTCCCTGGAGACAGTTTCTCTTGAA
247 -AAATATTTGAATATGTTTTC-CTTGAAAC-AAATTTCGCCTCCATGGAGACAGTTTCTCTTGAA
6246722 AC
309 AC
6246724 ACAAAAAACC
Statistics
Matches: 285, Mismatches: 22, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
340 68 0.24
341 106 0.37
342 33 0.12
349 7 0.02
350 18 0.06
351 24 0.08
352 29 0.10
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (338 bp):
CTTGAAACAAATAATGACTCTCTTGAGACAGTTTCCCTTGAAACAAATAAACTCTCTTGAGAAAG
TTTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGACAG
TTTATTTTGAAACTAAGTTTTGTCTCTCTCGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCT
TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAAATATTTGAATAT
GTTTTCCTTGAAACAAATTTCGCCTCCATGGAGACAGTTTCTCTTGAAACTAAGAAAAACTCTCT
TGAGACAGTTTCT
Found at i:6246832 original size:32 final size:33
Alignment explanation
Indices: 6246710--6246826 Score: 175
Period size: 33 Copynumber: 3.6 Consensus size: 33
6246700 CCTGGAGACA
*
6246710 GTTTCTCTTGAAACACAAAAAACCTTTTAACTC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAACTC
*
6246743 GTTTCTCTTGAAACACAAAATACCTTTGAACTC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAACTC
* *
6246776 ATTTCTCTTG-AACACAAAAAACCTTTGAAAAT-
1 GTTTCTCTTGAAACACAAAAAACCTTTG-AACTC
6246808 GTTTCTCTTGAAACACAAA
1 GTTTCTCTTGAAACACAAA
6246827 GACCTTCGAG
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
32 25 0.33
33 51 0.67
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAACTC
Found at i:6246999 original size:85 final size:84
Alignment explanation
Indices: 6246823--6247023 Score: 278
Period size: 85 Copynumber: 2.4 Consensus size: 84
6246813 TCTTGAAACA
* * *
6246823 CAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTTAAGGCT
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCGCATAATTTACAGCATAACTTAAGGCG
*
6246888 AGAAAGGTTATCTGCCAAC
66 AGAAAGGCTATCTGCCAAC
* * * *
6246907 AAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGG-GCATATAATTTACAGCATAACTTAAGT
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCGC--ATAATTTACAGCATAACTTAAGG
* *
6246971 CGAGAAGGGCTATCTGCCATC
64 CGAGAAAGGCTATCTGCCAAC
*
6246992 CAAAGACCTTCAAGTTCGATTACACTCAGCTC
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTC
6247024 AGAGGCAAAC
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.02
84 34 0.33
85 66 0.65
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (84 bp):
CAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCGCATAATTTACAGCATAACTTAAGGCG
AGAAAGGCTATCTGCCAAC
Found at i:6247672 original size:13 final size:13
Alignment explanation
Indices: 6247654--6247682 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6247644 TTATTATTTC
6247654 ATTATACATATAT
1 ATTATACATATAT
6247667 ATTATACATATAT
1 ATTATACATATAT
6247680 ATT
1 ATT
6247683 TTATTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTATACATATAT
Found at i:6248656 original size:28 final size:28
Alignment explanation
Indices: 6248602--6248656 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
6248592 TCAATTTGAA
* * *
6248602 TCTTTTATTTATTTTATTTATTTTCTTT
1 TCTTTTATTTATTTTAATAATTATCTTT
6248630 TCTTTTGATTT-TTTTAATAATTATCTT
1 TCTTTT-ATTTATTTTAATAATTATCTT
6248657 CTTAACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (28 bp):
TCTTTTATTTATTTTAATAATTATCTTT
Found at i:6250932 original size:21 final size:20
Alignment explanation
Indices: 6250895--6250933 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6250885 CATAATATTA
*
6250895 TAAATATTTATAATTAAATT
1 TAAATATTTAAAATTAAATT
6250915 TAAATATGTTAAAATTAAA
1 TAAATAT-TTAAAATTAAA
6250934 CCCTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TAAATATTTAAAATTAAATT
Found at i:6260606 original size:51 final size:52
Alignment explanation
Indices: 6260546--6260644 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
6260536 GCGCGTAGAG
* * *
6260546 GGTGTTAA-TTTGTAATTAATTTTTGTTAATGTGATATTTGTGTAAAATTCA
1 GGTGTTAATTTTGTAATTAATTTCTGTTAAGGTGACATTTGTGTAAAATTCA
*
6260597 GGTGTTAATTTTGTAATTAATTTCTGTTAGGGTGACATTTGTGTAAAA
1 GGTGTTAATTTTGTAATTAATTTCTGTTAAGGTGACATTTGTGTAAAA
6260645 CTGTTGACCG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 8 0.19
52 35 0.81
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.48
Consensus pattern (52 bp):
GGTGTTAATTTTGTAATTAATTTCTGTTAAGGTGACATTTGTGTAAAATTCA
Found at i:6263165 original size:24 final size:23
Alignment explanation
Indices: 6263138--6263222 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 23
6263128 TTGAATTATA
6263138 TTCTGATACATGACCTGGATTCTG
1 TTCTGATAC-TGACCTGGATTCTG
* *
6263162 TTCTGATTTCTGATCTGGATTCTG
1 TTCTGA-TACTGACCTGGATTCTG
* * *
6263186 TTCTGATTTCTGATCAGGATTCTG
1 TTCTGA-TACTGACCTGGATTCTG
*
6263210 TTTTGATATCTGA
1 TTCTGATA-CTGA
6263223 TTTGAATTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (23 bp):
TTCTGATACTGACCTGGATTCTG
Found at i:6263178 original size:12 final size:12
Alignment explanation
Indices: 6263157--6263200 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
6263147 ATGACCTGGA
*
6263157 TTCTGTTCTGAT
1 TTCTGATCTGAT
6263169 TTCTGATCTGGA-
1 TTCTGATCT-GAT
*
6263181 TTCTGTTCTGAT
1 TTCTGATCTGAT
6263193 TTCTGATC
1 TTCTGATC
6263201 AGGATTCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 2 0.07
12 23 0.85
13 2 0.07
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.52
Consensus pattern (12 bp):
TTCTGATCTGAT
Found at i:6263190 original size:48 final size:48
Alignment explanation
Indices: 6263129--6263246 Score: 112
Period size: 48 Copynumber: 2.5 Consensus size: 48
6263119 ATTTTCAACT
* * * *
6263129 TGAATTATATTCTGA-TACATGACCTGGATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTAC-TGACCAGGATTCTGTTCTGATATCTGATC
* * * * *
6263177 TGGATTCTGTTCTGATTTCTGATCAGGATTCTGTTTTGATATCTGATT
1 TGAATTCTGTTCTGATTACTGACCAGGATTCTGTTCTGATATCTGATC
* * *
6263225 TGAATTCTATTATGATTTCTGA
1 TGAATTCTGTTCTGATTACTGA
6263247 TATATCTATC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 55 0.96
49 2 0.04
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (48 bp):
TGAATTCTGTTCTGATTACTGACCAGGATTCTGTTCTGATATCTGATC
Found at i:6263223 original size:24 final size:24
Alignment explanation
Indices: 6263154--6263247 Score: 116
Period size: 24 Copynumber: 3.9 Consensus size: 24
6263144 TACATGACCT
*
6263154 GGATTCTGTTCTGATTTCTGATCT
1 GGATTCTGTTCTGATTTCTGATCA
6263178 GGATTCTGTTCTGATTTCTGATCA
1 GGATTCTGTTCTGATTTCTGATCA
* * **
6263202 GGATTCTGTTTTGATATCTGATTT
1 GGATTCTGTTCTGATTTCTGATCA
* * *
6263226 GAATTCTATTATGATTTCTGAT
1 GGATTCTGTTCTGATTTCTGAT
6263248 ATATCTATCT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.50
Consensus pattern (24 bp):
GGATTCTGTTCTGATTTCTGATCA
Found at i:6263247 original size:48 final size:48
Alignment explanation
Indices: 6263154--6263247 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
6263144 TACATGACCT
* * * *
6263154 GGATTCTGTTCTGATTTCTGATCTGGATTCTGTTCTGATTTCTGATCA
1 GGATTCTGTTCTGATATCTGATCTGAATTCTATTATGATTTCTGATCA
* *
6263202 GGATTCTGTTTTGATATCTGATTTGAATTCTATTATGATTTCTGAT
1 GGATTCTGTTCTGATATCTGATCTGAATTCTATTATGATTTCTGAT
6263248 ATATCTATCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.50
Consensus pattern (48 bp):
GGATTCTGTTCTGATATCTGATCTGAATTCTATTATGATTTCTGATCA
Found at i:6263415 original size:2 final size:2
Alignment explanation
Indices: 6263408--6263460 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
6263398 CGGATAGGAG
6263408 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6263450 TA TA TA TA TA T
1 TA TA TA TA TA T
6263461 GTTTTAAAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6276804 original size:28 final size:25
Alignment explanation
Indices: 6276772--6276828 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
6276762 TTTAGTTAGG
*
6276772 ATAAACTCACAATCAAATTTGTTATCTA
1 ATAAACTCA-AA--AAAATTGTTATCTA
* *
6276800 ATAAAGTTAAAAAAATTGTTATCTA
1 ATAAACTCAAAAAAATTGTTATCTA
6276825 ATAA
1 ATAA
6276829 CAAAAGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 17 0.65
27 2 0.08
28 7 0.27
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (25 bp):
ATAAACTCAAAAAAATTGTTATCTA
Found at i:6278542 original size:6 final size:6
Alignment explanation
Indices: 6278531--6278573 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
6278521 TCTATCATAG
* * * *
6278531 GTATAT GTATAT GTATAT ATATAT GTATGT ATATAT ATATAT G
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G
6278574 CACCGCTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:6278548 original size:12 final size:12
Alignment explanation
Indices: 6278531--6278572 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
6278521 TCTATCATAG
*
6278531 GTATATGTATAT
1 GTATATATATAT
6278543 GTATATATATAT
1 GTATATATATAT
*
6278555 GTATGTATATAT
1 GTATATATATAT
*
6278567 ATATAT
1 GTATAT
6278573 GCACCGCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (12 bp):
GTATATATATAT
Found at i:6278555 original size:18 final size:18
Alignment explanation
Indices: 6278532--6278573 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6278522 CTATCATAGG
*
6278532 TATATGTATATGTATATA
1 TATATGTATATATATATA
*
6278550 TATATGTATGTATATATA
1 TATATGTATATATATATA
6278568 TATATG
1 TATATG
6278574 CACCGCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (18 bp):
TATATGTATATATATATA
Found at i:6278559 original size:16 final size:16
Alignment explanation
Indices: 6278540--6278570 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6278530 GGTATATGTA
6278540 TATGTATATATATATG
1 TATGTATATATATATG
6278556 TATGTATATATATAT
1 TATGTATATATATAT
6278571 ATGCACCGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TATGTATATATATATG
Found at i:6280427 original size:21 final size:21
Alignment explanation
Indices: 6280366--6280419 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
6280356 CTGATCTGCA
6280366 GAAGAAAATCCTACATCGTGTT
1 GAAG-AAATCCTACATCGTGTT
*
6280388 GAAGAAATCCTGCATCGTGTT
1 GAAGAAATCCTACATCGTGTT
6280409 GAAGAAATCCT
1 GAAGAAATCCT
6280420 TCAGCGTGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (21 bp):
GAAGAAATCCTACATCGTGTT
Found at i:6291971 original size:16 final size:16
Alignment explanation
Indices: 6291950--6291983 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6291940 TTACTATTCA
*
6291950 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
6291966 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
6291982 CG
1 CG
6291984 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:6292754 original size:15 final size:16
Alignment explanation
Indices: 6292734--6292765 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6292724 TGGCAGATCC
6292734 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
6292749 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
6292765 A
1 A
6292766 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:6297584 original size:27 final size:27
Alignment explanation
Indices: 6297520--6297584 Score: 67
Period size: 32 Copynumber: 2.2 Consensus size: 27
6297510 TTGGATGCTG
6297520 GTTTTGTGTGTTTTCATACTGAATTGA
1 GTTTTGTGTGTTTTCATACTGAATTGA
**
6297547 GTTGGGGTTTGTGTGTTTTCATGTTGAATTGA
1 G-T----TTTGTGTGTTTTCATACTGAATTGA
6297579 GTTTTG
1 GTTTTG
6297585 GTTGGTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
27 5 0.16
28 1 0.03
31 1 0.03
32 24 0.77
ACGTcount: A:0.14, C:0.05, G:0.29, T:0.52
Consensus pattern (27 bp):
GTTTTGTGTGTTTTCATACTGAATTGA
Found at i:6297874 original size:21 final size:22
Alignment explanation
Indices: 6297845--6297886 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
6297835 GAAATCAGTT
6297845 GTTGAGTTGTA-ACTTTTCCTA
1 GTTGAGTTGTACACTTTTCCTA
* *
6297866 GTTGTGTTGTACTCTTTTCCT
1 GTTGAGTTGTACACTTTTCCT
6297887 CCAATTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.52
Consensus pattern (22 bp):
GTTGAGTTGTACACTTTTCCTA
Done.