Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 91
Found at i:9214371 original size:57 final size:57
Alignment explanation
Indices: 9214309--9214437 Score: 210
Period size: 55 Copynumber: 2.3 Consensus size: 57
9214299 TCACTCATCC
*
9214309 CTTATCTTGAGATTTATATATATAAAAACAAATCACTCCCATGTATTCAATCAGTCA
1 CTTATCTTGAGATTTATATATATAAAAACAAATCACTCCCATGTATTCAATCAATCA
*
9214366 CTTATCTTGA-A-ATATATATATAAAAACAAATCACTCCCATGTATTCAATCAATCA
1 CTTATCTTGAGATTTATATATATAAAAACAAATCACTCCCATGTATTCAATCAATCA
*
9214421 CTTATCTT-AGCTTTATA
1 CTTATCTTGAGATTTATA
9214438 AATCCAATAC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
54 1 0.02
55 50 0.76
56 5 0.08
57 10 0.15
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.36
Consensus pattern (57 bp):
CTTATCTTGAGATTTATATATATAAAAACAAATCACTCCCATGTATTCAATCAATCA
Found at i:9214695 original size:20 final size:20
Alignment explanation
Indices: 9214658--9214695 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9214648 TTACATTAAG
*
9214658 TATCGATACTGGAAGAATAA
1 TATCGATACTAGAAGAATAA
*
9214678 TATCGATACTAGATGAAT
1 TATCGATACTAGAAGAAT
9214696 TAGGGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (20 bp):
TATCGATACTAGAAGAATAA
Found at i:9216198 original size:21 final size:21
Alignment explanation
Indices: 9216174--9216243 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
9216164 ATGCATTTTA
9216174 TTTATGGCATCCTTTCATGCC
1 TTTATGGCATCCTTTCATGCC
***
9216195 TTTAAT-GCA-CCATTATACATTTTA
1 TTT-ATGGCATCC-TT-T-CA-TGCC
9216219 TTTATGGCATCCTTTCATGCC
1 TTTATGGCATCCTTTCATGCC
9216240 TTTA
1 TTTA
9216244 ATGAATCGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 2 0.06
21 13 0.36
22 5 0.14
23 5 0.14
24 9 0.25
25 2 0.06
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTATGGCATCCTTTCATGCC
Found at i:9216291 original size:45 final size:45
Alignment explanation
Indices: 9215989--9216291 Score: 455
Period size: 45 Copynumber: 6.7 Consensus size: 45
9215979 TATTCATTAT
* * *
9215989 TTTTAGTTATGGCATCCTTTCATGACTTTAAT-ACTCCGTTATGCA
1 TTTTATTTATGGCATCCTTTCATGCCTTTAATGA-ACCGTTATGCA
* *
9216034 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTTATTTATGGCATCCTTTCATGCCTTTAATGAACCGTTATGCA
* * *
9216079 TTTCATTTATGGTATCCTTTCATGCCTTTAATGAACCGTTATCCA
1 TTTTATTTATGGCATCCTTTCATGCCTTTAATGAACCGTTATGCA
* *
9216124 TTTTATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTTATTTATGGCATCCTTTCATGCCTTTAATGAACCGTTATGCA
* * *
9216169 TTTTATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATACA
1 TTTTATTTATGGCATCCTTTCATGCCTTTAATGAACCGTTATGCA
*
9216214 TTTTATTTATGGCATCCTTTCATGCCTTTAATGAATCGTTATGCA
1 TTTTATTTATGGCATCCTTTCATGCCTTTAATGAACCGTTATGCA
*
9216259 TTTTATTTATGGTATCCTTTCATGCCTTTAATG
1 TTTTATTTATGGCATCCTTTCATGCCTTTAATG
9216292 TCCTATTTAT
Statistics
Matches: 236, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 236 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (45 bp):
TTTTATTTATGGCATCCTTTCATGCCTTTAATGAACCGTTATGCA
Found at i:9216840 original size:96 final size:96
Alignment explanation
Indices: 9216672--9216855 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 96
9216662 CGATGGTATA
* * *
9216672 GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCGGCATTCTGTAAA
1 GATACTTCTATACTATGGTACCGATACTCCATTACAGTATCGATACCATTTCGACATTCTGTAAA
*
9216737 TCAATGGT-TTCGATACCTTCCTCTCAGTACC
66 CCAATGGTATT-GATACCTTCCTCTCAGTACC
* * * * *
9216768 GATACTTCTGTATTATGGTACCGATACTCTATTACAGTATCGATACCATTTCTACATTCTGTAAG
1 GATACTTCTATACTATGGTACCGATACTCCATTACAGTATCGATACCATTTCGACATTCTGTAAA
* *
9216833 CCTATGGTATTGATACTTTCCTC
66 CCAATGGTATTGATACCTTCCTC
9216856 ATGGTATCGA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 74 0.97
97 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (96 bp):
GATACTTCTATACTATGGTACCGATACTCCATTACAGTATCGATACCATTTCGACATTCTGTAAA
CCAATGGTATTGATACCTTCCTCTCAGTACC
Found at i:9216867 original size:96 final size:96
Alignment explanation
Indices: 9216664--9216868 Score: 252
Period size: 96 Copynumber: 2.1 Consensus size: 96
9216654 TACCCACACG
* * * *
9216664 ATGGTATAGATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCGGCAT
1 ATGGTATCGATACTTCTATACTATGGTACCGATACTCCATTACAGTATCGATACCATTTCGACAT
*
9216729 TCTGTAAATCAATGGTTTCGATACCTTCCTC
66 TCTGTAAACCAATGGTTTCGATACCTTCCTC
* * * * * *
9216760 -TCAGTACCGATACTTCTGTATTATGGTACCGATACTCTATTACAGTATCGATACCATTTCTACA
1 AT-GGTATCGATACTTCTATACTATGGTACCGATACTCCATTACAGTATCGATACCATTTCGACA
* * *
9216824 TTCTGTAAGCCTATGGTATT-GATACTTTCCTC
65 TTCTGTAAACCAATGGT-TTCGATACCTTCCTC
9216856 ATGGTATCGATAC
1 ATGGTATCGATAC
9216869 CCATCTAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
95 1 0.01
96 86 0.96
97 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (96 bp):
ATGGTATCGATACTTCTATACTATGGTACCGATACTCCATTACAGTATCGATACCATTTCGACAT
TCTGTAAACCAATGGTTTCGATACCTTCCTC
Found at i:9228601 original size:45 final size:45
Alignment explanation
Indices: 9228546--9228713 Score: 273
Period size: 45 Copynumber: 3.7 Consensus size: 45
9228536 TGTTCATTAT
* * *
9228546 TTTCAATTATGGAATCCTTTCATGCATTTAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
* *
9228591 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCATCATTATGTA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
*
9228636 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
*
9228681 TTTTATTTATGGCATCCTTTCATGCCTTTAATG
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATG
9228714 TCCTATTTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 114 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA
Found at i:9230629 original size:32 final size:32
Alignment explanation
Indices: 9230545--9230630 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
9230535 ATACTAGCAG
*
9230545 TGTTACATTCAGATAATGCACAAAAGAATCAA
1 TGTTACATTCAGATAATGCATAAAAGAATCAA
* * * **
9230577 TGTTTCATTTAAATAATGCATAAAAGTGTCAA
1 TGTTACATTCAGATAATGCATAAAAGAATCAA
*
9230609 TGTTGCATTCAGATAATGCATA
1 TGTTACATTCAGATAATGCATA
9230631 GCAGCTACAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTTACATTCAGATAATGCATAAAAGAATCAA
Found at i:9232017 original size:21 final size:21
Alignment explanation
Indices: 9231991--9232045 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
9231981 TTTGGGAAGA
9231991 GAGTATCGATACTGATTCATG
1 GAGTATCGATACTGATTCATG
9232012 GAGTATCGATACTGATTCATG
1 GAGTATCGATACTGATTCATG
*
9232033 GAGTACCGATACT
1 GAGTATCGATACT
9232046 ATTAGTCCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (21 bp):
GAGTATCGATACTGATTCATG
Found at i:9232163 original size:20 final size:21
Alignment explanation
Indices: 9232134--9232188 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
9232124 CGATACTCAT
9232134 TAGAGCATCGATAC-CAAGGG
1 TAGAGCATCGATACTCAAGGG
*
9232154 TAGAGTATCGATACTCAA--G
1 TAGAGCATCGATACTCAAGGG
*
9232173 TAAGAGAATCGATACT
1 T-AGAGCATCGATACT
9232189 GAGGTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (21 bp):
TAGAGCATCGATACTCAAGGG
Found at i:9236176 original size:66 final size:66
Alignment explanation
Indices: 9236070--9236205 Score: 245
Period size: 66 Copynumber: 2.1 Consensus size: 66
9236060 CATTTGGGAT
*
9236070 CTTTGAACACAAGCAACATTAGCATGCAATATTGGTACCAAATGATAGCATTTTTCTTGTAGAAC
1 CTTTGAACACAAGCAACATTAGCATGAAATATTGGTACCAAATGATAGCATTTTTCTTGTAGAAC
9236135 A
66 A
* *
9236136 CTTTGAACACAAGCAAGATTAGCATGAAATATTGGTACCAAATGATAGCGTTTTTCTTGTAGAAC
1 CTTTGAACACAAGCAACATTAGCATGAAATATTGGTACCAAATGATAGCATTTTTCTTGTAGAAC
9236201 A
66 A
9236202 CTTT
1 CTTT
9236206 TTTATTTCAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (66 bp):
CTTTGAACACAAGCAACATTAGCATGAAATATTGGTACCAAATGATAGCATTTTTCTTGTAGAAC
A
Found at i:9245084 original size:21 final size:20
Alignment explanation
Indices: 9245059--9245099 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
9245049 TAATGTTAGC
9245059 TTTTGTGTACCAAACAAGTTA
1 TTTT-TGTACCAAACAAGTTA
*
9245080 -TTTTGTACCAAACATGTTA
1 TTTTTGTACCAAACAAGTTA
9245099 T
1 T
9245100 AATGTACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
TTTTTGTACCAAACAAGTTA
Found at i:9245105 original size:19 final size:19
Alignment explanation
Indices: 9245064--9245106 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9245054 TTAGCTTTTG
**
9245064 TGTACCAAACAAGTTATTT
1 TGTACCAAACAAGTTATAA
*
9245083 TGTACCAAACATGTTATAA
1 TGTACCAAACAAGTTATAA
9245102 TGTAC
1 TGTAC
9245107 AAATGTGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTACCAAACAAGTTATAA
Found at i:9245428 original size:42 final size:44
Alignment explanation
Indices: 9245318--9245546 Score: 238
Period size: 44 Copynumber: 5.2 Consensus size: 44
9245308 AACAAAAGAC
* * *
9245318 TATCACACAAAATACATAA-CAAACATTTAACGTAT-TTCTTCACA
1 TATCAAACAAAATACATAATCAAACATTTTAC-T-TGGTCTTCACA
* *
9245362 TATCAAACAAAATAAATATATCAAACATTTTATTTGGTCTTCACA
1 TATCAAACAAAATACATA-ATCAAACATTTTACTTGGTCTTCACA
* *
9245407 TAT-AAA-AAAATACATAATCAAATATTTTACTTGCTCTTCACA
1 TATCAAACAAAATACATAATCAAACATTTTACTTGGTCTTCACA
* *
9245449 TATCAAACAAAATACATAACCAAACATTGTA-TGTGGTCTTCA-A
1 TATCAAACAAAATACATAATCAAACATTTTACT-TGGTCTTCACA
* * *
9245492 TGATCAAACAAAACACATAA-CAAAACATTATACTTGATCTTCACA
1 T-ATCAAACAAAATACATAATC-AAACATTTTACTTGGTCTTCACA
*
9245537 TATCTAACAA
1 TATCAAACAA
9245547 TTTTTGCTAT
Statistics
Matches: 158, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
42 26 0.16
43 16 0.10
44 90 0.57
45 16 0.10
46 10 0.06
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (44 bp):
TATCAAACAAAATACATAATCAAACATTTTACTTGGTCTTCACA
Found at i:9247376 original size:20 final size:20
Alignment explanation
Indices: 9247351--9247389 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9247341 AATGCTTGGT
9247351 CATGGCTTGTTTTGGTGTAA
1 CATGGCTTGTTTTGGTGTAA
9247371 CATGGCTTGTTTTGGTGTA
1 CATGGCTTGTTTTGGTGTA
9247390 GTACAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
CATGGCTTGTTTTGGTGTAA
Found at i:9248561 original size:15 final size:14
Alignment explanation
Indices: 9248537--9248569 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
9248527 AATGGAAGTT
9248537 ACAATGACTTTTGC
1 ACAATGACTTTTGC
9248551 ACAAGTGACTTTTGC
1 ACAA-TGACTTTTGC
9248566 ACAA
1 ACAA
9248570 ATATTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (14 bp):
ACAATGACTTTTGC
Found at i:9250543 original size:14 final size:14
Alignment explanation
Indices: 9250506--9250536 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9250496 CTTTTTAGGG
*
9250506 TTAGGGTTTAAGAT
1 TTAGAGTTTAAGAT
9250520 TTAGAGTTTAAGAT
1 TTAGAGTTTAAGAT
9250534 TTA
1 TTA
9250537 AGCTTTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (14 bp):
TTAGAGTTTAAGAT
Found at i:9250577 original size:14 final size:14
Alignment explanation
Indices: 9250560--9250603 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9250550 AGGGATTATA
*
9250560 GTTTATGATTTAGG
1 GTTTAGGATTTAGG
*
9250574 GTTTAGGGTTTTAGG
1 GTTTA-GGATTTAGG
*
9250589 TTTTAGGATTTAGG
1 GTTTAGGATTTAGG
9250603 G
1 G
9250604 ACCATTTGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:9253861 original size:10 final size:10
Alignment explanation
Indices: 9253846--9253870 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9253836 CATCATCACT
9253846 GGAACTAGAA
1 GGAACTAGAA
9253856 GGAACTAGAA
1 GGAACTAGAA
9253866 GGAAC
1 GGAAC
9253871 ATTTCCATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.32, T:0.08
Consensus pattern (10 bp):
GGAACTAGAA
Found at i:9257387 original size:29 final size:29
Alignment explanation
Indices: 9257345--9257404 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
9257335 ATTCTACAGT
9257345 GATCTCGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
*
9257374 GATCTTGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
9257403 GA
1 GA
9257405 CATACGGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (29 bp):
GATCTCGTAGGACGCCATGCAATCCAGGC
Found at i:9257539 original size:32 final size:32
Alignment explanation
Indices: 9257498--9257576 Score: 140
Period size: 32 Copynumber: 2.5 Consensus size: 32
9257488 TATACGAGGT
9257498 GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
* *
9257530 GAGGTCGCCATGCAAAGGAGCCAGCCAATGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
9257562 GAGGTCGCCATGCAG
1 GAGGTCGCCATGCAG
9257577 TCTGGGCGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.27, G:0.35, T:0.10
Consensus pattern (32 bp):
GAGGTCGCCATGCAGACGAGCCAGCCAATGGA
Found at i:9257607 original size:29 final size:29
Alignment explanation
Indices: 9257563--9257657 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
9257553 GCCAATGGAG
* **
9257563 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
9257592 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
9257621 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
9257650 AGGTCGCC
1 AGGTCGCC
9257658 CCGGCGTCAC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:9257989 original size:16 final size:18
Alignment explanation
Indices: 9257968--9258006 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
9257958 GGAGATAAGG
*
9257968 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
9257984 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
9258002 TAAAT
1 TAAAT
9258007 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:9258174 original size:46 final size:48
Alignment explanation
Indices: 9258111--9258202 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 48
9258101 TTATATAGTT
9258111 AAAAAATAATTAATTAGTTTGTT-TT-GTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTT-TTGTTAGTTAAATAGTTAAGTTATATAA
*
9258156 AAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
9258203 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
45 8 0.20
46 15 0.37
47 3 0.07
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:9258279 original size:32 final size:33
Alignment explanation
Indices: 9258243--9258319 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
9258233 TTAGTTAGTA
*
9258243 AGTTTATTAGTAG-TATA-TTATAATGAAAAAAT
1 AGTTTATTAGTAGTTATAGTTAT-ATAAAAAAAT
*
9258275 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAAAAT
*
9258309 ATTTTATTAGT
1 AGTTTATTAGT
9258320 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.26
33 4 0.10
34 21 0.54
35 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAAAAT
Found at i:9258397 original size:16 final size:16
Alignment explanation
Indices: 9258365--9258411 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9258355 TTTAAAAAGT
*
9258365 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
9258381 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
9258397 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
9258412 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:9258406 original size:15 final size:14
Alignment explanation
Indices: 9258386--9258416 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
9258376 GTTTATTAGT
9258386 TTATTATATTATAAG
1 TTATTATATTA-AAG
9258401 TTATTATATTAAAG
1 TTATTATATTAAAG
9258415 TT
1 TT
9258417 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:9260508 original size:26 final size:24
Alignment explanation
Indices: 9260448--9260508 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
9260438 TACTAATATT
*
9260448 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
9260472 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
9260499 ATTTAATAAT
1 A-TTAATAAT
9260509 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:9260794 original size:17 final size:17
Alignment explanation
Indices: 9260741--9260800 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
9260731 AATATAAATA
*
9260741 AAACAAAATATTTTTTTT
1 AAACACAATA-TTTTTTT
* *
9260759 AAACAACACTAAATATTTTT
1 AAAC-ACA--ATATTTTTTT
9260779 AAACACAATATTTTTTT
1 AAACACAATATTTTTTT
9260796 AAACA
1 AAACA
9260801 AAAATTATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 13 0.38
18 4 0.12
19 5 0.15
20 10 0.29
21 2 0.06
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (17 bp):
AAACACAATATTTTTTT
Found at i:9261258 original size:42 final size:48
Alignment explanation
Indices: 9261212--9261315 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
9261202 GTTTAAAGAC
* *
9261212 ACTAACAAATTAATTAA-T-ATTTTTT-TAT-AT-TTA-ATAACTTAA
1 ACTAACAAACTAATTAACTAATTTTTTATATAATAATATATAACTTAA
**
9261254 ACTAATTAACTAATTAACTAATTTTTTATATAATAATATATAACTTAA
1 ACTAACAAACTAATTAACTAATTTTTTATATAATAATATATAACTTAA
*
9261302 ACTAACCAACTAAT
1 ACTAACAAACTAAT
9261316 AATTTATACT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 14 0.28
43 1 0.02
44 7 0.14
45 3 0.06
46 2 0.04
47 2 0.04
48 21 0.42
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (48 bp):
ACTAACAAACTAATTAACTAATTTTTTATATAATAATATATAACTTAA
Found at i:9261326 original size:21 final size:21
Alignment explanation
Indices: 9261293--9261341 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9261283 ATAATAATAT
*
9261293 ATAACTTAAACTAACCAACTA
1 ATAACTTAAACTAACAAACTA
* *
9261314 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
9261335 ATTAACT
1 A-TAACT
9261342 AGATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:9261812 original size:35 final size:35
Alignment explanation
Indices: 9261772--9261839 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
9261762 TGGATGCAAC
*
9261772 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
*
9261807 GCATGCATGAGTGCTACAGTTAAAGCTGGGTCG
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCG
9261840 CGATGCAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (35 bp):
GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
Found at i:9261896 original size:12 final size:12
Alignment explanation
Indices: 9261879--9261903 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9261869 TCCATGGCGA
9261879 CCTACCACCTAC
1 CCTACCACCTAC
9261891 CCTACCACCTAC
1 CCTACCACCTAC
9261903 C
1 C
9261904 ATGTCGTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.60, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTACCACCTAC
Found at i:9261930 original size:29 final size:29
Alignment explanation
Indices: 9261897--9261967 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
9261887 CTACCCTACC
9261897 ACCTACCATGTCGTAGGGACTCCATGGCG
1 ACCTACCATGTCGTAGGGACTCCATGGCG
*
9261926 ACCTACCATGTCGTCGGGACTCCATGGCG
1 ACCTACCATGTCGTAGGGACTCCATGGCG
9261955 ACCTACCATGTCG
1 ACCTACCATGTCG
9261968 CGATGCCGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.21
Consensus pattern (29 bp):
ACCTACCATGTCGTAGGGACTCCATGGCG
Found at i:9262296 original size:29 final size:29
Alignment explanation
Indices: 9262155--9262291 Score: 231
Period size: 29 Copynumber: 4.7 Consensus size: 29
9262145 AAATAATGAT
*
9262155 GGACGCTGGGCGTGCATGGCGTCCTTATA
1 GGACGCCGGGCGTGCATGGCGTCCTTATA
*
9262184 GGACGCCGGGCGTGCATGGAGTCCTTATA
1 GGACGCCGGGCGTGCATGGCGTCCTTATA
9262213 GGACGCCGGGCGTGCATGGCGTCCTTATA
1 GGACGCCGGGCGTGCATGGCGTCCTTATA
*
9262242 GGACGCCGGGCGTGCATGGCGACC-TATAA
1 GGACGCCGGGCGTGCATGGCGTCCTTAT-A
9262271 GGACGCCGGGCGTGCATGGCG
1 GGACGCCGGGCGTGCATGGCG
9262292 ACCTACGTTG
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 3 0.03
29 100 0.97
ACGTcount: A:0.15, C:0.26, G:0.40, T:0.18
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGTCCTTATA
Found at i:9265239 original size:33 final size:30
Alignment explanation
Indices: 9265173--9265242 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 30
9265163 AGTGTGATGG
* **
9265173 GGGTGGTGTTAAGGATACTACTGCATGGGA
1 GGGTGGTGTTAAGGATACTACTGAATGAAA
*
9265203 GGGTGGTGTTCAGGATGATGCTACTGAATGAAA
1 GGGTGGTGTTAAGGAT-A--CTACTGAATGAAA
9265236 GGGTGGT
1 GGGTGGT
9265243 ATTGATGCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 15 0.45
31 1 0.03
33 17 0.52
ACGTcount: A:0.23, C:0.09, G:0.41, T:0.27
Consensus pattern (30 bp):
GGGTGGTGTTAAGGATACTACTGAATGAAA
Found at i:9268945 original size:22 final size:23
Alignment explanation
Indices: 9268920--9268982 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
9268910 ATAAATTGCA
* *
9268920 CCGAAGTACCATATAG-AATGTC
1 CCGAAGGACCACATAGAAATGTC
* *
9268942 CCGAAGGATCACGTAGAAATGTC
1 CCGAAGGACCACATAGAAATGTC
* *
9268965 CCGAAGGACTACGTAGAA
1 CCGAAGGACCACATAGAA
9268983 TTATTTCGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (23 bp):
CCGAAGGACCACATAGAAATGTC
Found at i:9268966 original size:23 final size:23
Alignment explanation
Indices: 9268936--9268982 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
9268926 TACCATATAG
9268936 AATGTCCCGAAGGA-TCACGTAGA
1 AATGTCCCGAAGGACT-ACGTAGA
9268959 AATGTCCCGAAGGACTACGTAGA
1 AATGTCCCGAAGGACTACGTAGA
9268982 A
1 A
9268983 TTATTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (23 bp):
AATGTCCCGAAGGACTACGTAGA
Found at i:9272629 original size:20 final size:20
Alignment explanation
Indices: 9272604--9272641 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9272594 GAATGCTAGA
*
9272604 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
9272624 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
9272642 TATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:9273309 original size:23 final size:23
Alignment explanation
Indices: 9273265--9273309 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9273255 ATTATTATAT
*
9273265 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
9273288 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
9273310 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:9279438 original size:20 final size:20
Alignment explanation
Indices: 9279413--9279450 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9279403 GAATGCTAGA
*
9279413 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
9279433 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
9279451 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:9282543 original size:25 final size:25
Alignment explanation
Indices: 9282506--9282556 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
9282496 CAGCTCGTAT
*
9282506 AAATTGTACCGAAGTGT-CACATAGA
1 AAATTGCACCGAAGT-TCCACATAGA
*
9282531 AAATTGCATCGAAGTTCCACATAGA
1 AAATTGCACCGAAGTTCCACATAGA
9282556 A
1 A
9282557 TGTCCCGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (25 bp):
AAATTGCACCGAAGTTCCACATAGA
Found at i:9282582 original size:21 final size:22
Alignment explanation
Indices: 9282547--9282591 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9282537 CATCGAAGTT
9282547 CCACATAGAATGTCCCGAAAGA
1 CCACATAGAATGTCCCGAAAGA
* *
9282569 CCACATA-TATGTCCCGAAGGA
1 CCACATAGAATGTCCCGAAAGA
9282590 CC
1 CC
9282592 GCGTAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.16
Consensus pattern (22 bp):
CCACATAGAATGTCCCGAAAGA
Found at i:9282609 original size:23 final size:23
Alignment explanation
Indices: 9282577--9282645 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
9282567 GACCACATAT
9282577 ATGTCCCGAAGGACCGCGTAGAA
1 ATGTCCCGAAGGACCGCGTAGAA
** * * *
9282600 ATGTTTCGAATGACCACGTAGAC
1 ATGTCCCGAAGGACCGCGTAGAA
* *
9282623 TTGTCCCAAAGGACCGCGTAGAA
1 ATGTCCCGAAGGACCGCGTAGAA
9282646 CCCTTGACTC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
ATGTCCCGAAGGACCGCGTAGAA
Found at i:9290070 original size:12 final size:12
Alignment explanation
Indices: 9290053--9290101 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
9290043 GAAATTTTGG
9290053 TTTTTTTTGCTT
1 TTTTTTTTGCTT
*
9290065 TTTTTTGTGC--
1 TTTTTTTTGCTT
* *
9290075 CTTTTTTTGTTT
1 TTTTTTTTGCTT
9290087 TTTTTTTTG-TT
1 TTTTTTTTGCTT
9290098 TTTT
1 TTTT
9290102 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
10 7 0.23
11 6 0.20
12 17 0.57
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:9290092 original size:10 final size:10
Alignment explanation
Indices: 9290047--9290102 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
9290037 TTTTTTGAAA
*
9290047 TTTTGGTTTT
1 TTTTGTTTTT
9290057 TTTTGCTTTTT
1 TTTTG-TTTTT
**
9290068 TTTGTGCCTTT
1 TTT-TGTTTTT
9290079 TTTTGTTTTT
1 TTTTGTTTTT
*
9290089 TTTT-TTGTT
1 TTTTGTTTTT
9290098 TTTTG
1 TTTTG
9290103 AAAAAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.22
10 14 0.38
11 13 0.35
12 2 0.05
ACGTcount: A:0.00, C:0.05, G:0.14, T:0.80
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:9298771 original size:19 final size:19
Alignment explanation
Indices: 9298747--9298792 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9298737 ATCCCGACTT
* *
9298747 GACCCGTTTACTTTGACCC
1 GACCCGTTAACTTTAACCC
*
9298766 GACCCGTTAACTTTAACCT
1 GACCCGTTAACTTTAACCC
9298785 GACCCGTT
1 GACCCGTT
9298793 GAACATTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.35, G:0.15, T:0.30
Consensus pattern (19 bp):
GACCCGTTAACTTTAACCC
Found at i:9298828 original size:22 final size:22
Alignment explanation
Indices: 9298783--9298868 Score: 109
Period size: 22 Copynumber: 3.8 Consensus size: 22
9298773 TAACTTTAAC
* *
9298783 CTGACCCGTTGAACATTGATCGAT
1 CTGA-CCGTTG-ACTTTGACCGAT
*
9298807 TTGACCGTTGACTTTGACCGAT
1 CTGACCGTTGACTTTGACCGAT
*
9298829 CTGACCGTTGACTTTGACCGGT
1 CTGACCGTTGACTTTGACCGAT
*
9298851 CTGGCCGTTGACTTTGAC
1 CTGACCGTTGACTTTGAC
9298869 ATTGACCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 47 0.84
23 6 0.11
24 3 0.05
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (22 bp):
CTGACCGTTGACTTTGACCGAT
Found at i:9303693 original size:13 final size:13
Alignment explanation
Indices: 9303675--9303723 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
9303665 CGTTGACCGG
9303675 TTTGACCGTTGAC
1 TTTGACCGTTGAC
*
9303688 TTTGACCGGTCGAAC
1 TTTGACC-GTTG-AC
*
9303703 TGTTGATCGTTGAC
1 T-TTGACCGTTGAC
9303717 TTTGACC
1 TTTGACC
9303724 AAAAAAGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 12 0.41
14 6 0.21
15 6 0.21
16 5 0.17
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.37
Consensus pattern (13 bp):
TTTGACCGTTGAC
Found at i:9307236 original size:5 final size:5
Alignment explanation
Indices: 9307228--9307256 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
9307218 TATATCGTTA
9307228 TATAT TATAT TATAT TATA- TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
9307257 CATTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:9307928 original size:16 final size:16
Alignment explanation
Indices: 9307896--9307938 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9307886 TGACTTGATC
* *
9307896 TGATATTTATCTGACT
1 TGATATTTACCTAACT
9307912 TGATATTTACCTAACT
1 TGATATTTACCTAACT
9307928 T-ATATATTACC
1 TGATAT-TTACC
9307939 ATAGACGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (16 bp):
TGATATTTACCTAACT
Found at i:9308113 original size:15 final size:14
Alignment explanation
Indices: 9308075--9308113 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
9308065 TAGACTTATT
9308075 ATATAAGATTATTTA
1 ATATAA-ATTATTTA
9308090 ATA-AAATTATTTAA
1 ATATAAATTATTT-A
9308104 ATATAAATTA
1 ATATAAATTA
9308114 CATAAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
15 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
ATATAAATTATTTA
Found at i:9308199 original size:23 final size:23
Alignment explanation
Indices: 9308169--9308213 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9308159 ATGTATATTA
*
9308169 ATATAGTTTAAATTATATAAATT
1 ATATAGTTCAAATTATATAAATT
*
9308192 ATATAGTTCAATTTATATAAAT
1 ATATAGTTCAAATTATATAAAT
9308214 AAAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATAGTTCAAATTATATAAATT
Found at i:9308727 original size:4 final size:4
Alignment explanation
Indices: 9308718--9308744 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9308708 TTCTACTATG
9308718 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
9308745 ATATAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:9310086 original size:22 final size:22
Alignment explanation
Indices: 9310055--9310098 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9310045 TAAATTTTTT
9310055 TTATAATAAAT-AATAGTAATTA
1 TTATAATAAATAAATA-TAATTA
*
9310077 TTATATTAAATAAATATAATTA
1 TTATAATAAATAAATATAATTA
9310099 ATCATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TTATAATAAATAAATATAATTA
Found at i:9310107 original size:22 final size:23
Alignment explanation
Indices: 9310061--9310111 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
9310051 TTTTTTATAA
*
9310061 TAAAT-AATAGTAATTATTATAT
1 TAAATAAATAGTAATTATCATAT
9310083 TAAATAAATA-TAATTAATCAT-T
1 TAAATAAATAGTAATT-ATCATAT
9310105 T-AATAAA
1 TAAATAAA
9310112 ATTACCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 12 0.46
23 8 0.31
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAATAAATAGTAATTATCATAT
Found at i:9313555 original size:137 final size:136
Alignment explanation
Indices: 9313307--9314340 Score: 1543
Period size: 138 Copynumber: 7.5 Consensus size: 136
9313297 GGCATGTTCC
*
9313307 CGGGGGCGCACCTTCCATTATTTTGTCACTGAGAATATGTTATCATTGCCCTATTATGTCACTCA
1 CGGGGGCG-GCCTTCCATTATTTTGTCA--GAGAATATGTTATCATTGCCCTATTATGTCACTCA
* *
9313372 TGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTGGCCAAGTGGTGAA
63 TGTCCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAA
*
9313437 AGCGCATTT
128 AGCGCGTTT
* * * * *
9313446 CGGGGGCGTACCTTCTATTATTTTGTCAGATAATATGTTATCATTGCTCTATTATGTCACTTATG
1 CGGGGGCG-GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
*
9313511 TCCCCCGGGGAACTATTCATATCAATACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
65 TCCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
9313576 CGCGTTT
130 CGCGTTT
* *
9313583 CCGGGGGAC-GCCTTCCATTATTTTGTCATATAATATGTTATCATTGCCCTATTATGTCACTCAT
1 -CGGGGG-CGGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCAT
* * *
9313647 GTCCCCTGAGGAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAA
64 GTCCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAA
*
9313712 GCGTGTTT
129 GCGCGTTT
* *
9313720 CCGGGGG-GGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGCCCTATTATGTCACTCATA
1 -CGGGGGCGGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* *
9313784 TCCCCCGGGGAACTATTCATATAAGTACCTATT-GTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
65 TCCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
*
9313848 CACGTTTT
130 CGCG-TTT
* * *
9313856 CGGGGGTGAGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCTCTATTATGTCACTCGTG
1 CGGGGGCG-GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* * * *
9313921 TCCCCCGAGGAACTATTCATGTCAGTACCTATTATTTTTTAGAGGACTTGGCATAGTGGTGAAAG
65 TCCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
*
9313986 CGAGTTCT
130 CGCGTT-T
9313994 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
1 CGGGGGCG-GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* * *
9314059 TCCCCCGGGGAACTATTTATTTCAGTACCTATTATTTTTTAGGGGACCTGGCAAAGTGGTGAAAG
65 TCCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
9314124 CGCGTTAT
130 CGCGTT-T
* * *
9314132 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGGCCTATTATGTCATTCATA
1 CGGGGGCG-GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
* **
9314197 TCCCCTGATGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
65 TCCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAG
*
9314262 CGCGTTCC
130 CGCGTT-T
* *
9314270 CGGGGGCGTGCCTTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATA
1 CGGGGGCG-GCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
9314335 TCCCCC
65 TCCCCC
9314341 AGAGACGTAG
Statistics
Matches: 819, Mismatches: 68, Indels: 17
0.91 0.08 0.02
Matches are distributed among these distances:
135 38 0.05
136 87 0.11
137 311 0.38
138 356 0.43
139 27 0.03
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (136 bp):
CGGGGGCGGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
CCCCCGGGGAACTATTCATATCAGTACCTATTATTTTTTAGGGGACTTGGCAAAGTGGTGAAAGC
GCGTTT
Found at i:9314501 original size:32 final size:31
Alignment explanation
Indices: 9314464--9314586 Score: 99
Period size: 32 Copynumber: 3.9 Consensus size: 31
9314454 TAACTTAAAT
9314464 TAAAATGTTATGTGAAGTTTGAATAAATTGGA
1 TAAAATGTTATG-GAAGTTTGAATAAATTGGA
** *
9314496 TAAAATGTTATGGATAAATTGAATAAATGTGAA
1 TAAAATGTTATGGA-AGTTTGAATAAAT-TGGA
* **
9314529 GTGATAA-G-T-TGGTTGTTTGAATAAATTGGA
1 -T-AAAATGTTATGGAAGTTTGAATAAATTGGA
**
9314559 TAAAATGTTATGGATAAATTGAATAAAT
1 TAAAATGTTATGGA-AGTTTGAATAAAT
9314587 GTGAAGTGAT
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
28 3 0.04
29 2 0.03
30 4 0.06
31 15 0.22
32 36 0.52
33 4 0.06
34 2 0.03
35 3 0.04
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (31 bp):
TAAAATGTTATGGAAGTTTGAATAAATTGGA
Found at i:9314512 original size:23 final size:23
Alignment explanation
Indices: 9314486--9314585 Score: 88
Period size: 23 Copynumber: 4.6 Consensus size: 23
9314476 TGAAGTTTGA
9314486 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGGATAAAATGTTATGG
* * *
9314509 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGGATAAAATGTTATG-G
* *
9314532 ATAAGTTGG-T----TGTT-TGA
1 ATAAATTGGATAAAATGTTATGG
9314549 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGGATAAAATGTTATGG
*
9314572 ATAAATTGAATAAA
1 ATAAATTGGATAAA
9314586 TGTGAAGTGA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
17 8 0.14
18 2 0.03
19 3 0.05
22 13 0.22
23 33 0.56
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (23 bp):
ATAAATTGGATAAAATGTTATGG
Found at i:9314553 original size:63 final size:63
Alignment explanation
Indices: 9314480--9314607 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
9314470 GTTATGTGAA
*
9314480 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTAGTT
9314543 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTAGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTAGTT
9314606 GT
1 GT
9314608 GACATTGAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTAGTT
Found at i:9314597 original size:23 final size:23
Alignment explanation
Indices: 9314549--9314598 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
9314539 GGTTGTTTGA
* * *
9314549 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
9314572 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
9314595 ATAA
1 ATAA
9314599 GTTAGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:9314716 original size:14 final size:14
Alignment explanation
Indices: 9314697--9314727 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9314687 TAACACGTGG
9314697 GTTTTAATGTATAT
1 GTTTTAATGTATAT
9314711 GTTTTAATGTATAT
1 GTTTTAATGTATAT
9314725 GTT
1 GTT
9314728 AAGGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:9314878 original size:34 final size:34
Alignment explanation
Indices: 9314833--9314939 Score: 187
Period size: 34 Copynumber: 3.1 Consensus size: 34
9314823 TTAAGTTGAA
*
9314833 TTTAATGTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
9314867 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
* *
9314901 TTTAATTTTAAATTTTGAATACTATAATTTTTAT
1 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
9314935 TTTAA
1 TTTAA
9314940 CAAACATTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 70 1.00
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.54
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATACTATAATTTGTAT
Found at i:9314951 original size:11 final size:11
Alignment explanation
Indices: 9314935--9314961 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9314925 TAATTTTTAT
9314935 TTTAACAAACA
1 TTTAACAAACA
9314946 TTTAACAAACA
1 TTTAACAAACA
9314957 TTTAA
1 TTTAA
9314962 TGTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (11 bp):
TTTAACAAACA
Found at i:9318046 original size:16 final size:16
Alignment explanation
Indices: 9318025--9318055 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9318015 CACGTATATA
9318025 ATTTATATAAACTATT
1 ATTTATATAAACTATT
9318041 ATTTATATAAACTAT
1 ATTTATATAAACTAT
9318056 ATATGAATTA
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:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTATATAAACTATT
Found at i:9318119 original size:14 final size:14
Alignment explanation
Indices: 9318096--9318125 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9318086 ATATAATTTA
*
9318096 TATAGTTTAAGGTT
1 TATAGATTAAGGTT
9318110 TATAGATTAAGGTT
1 TATAGATTAAGGTT
9318124 TA
1 TA
9318126 AAGTTTACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (14 bp):
TATAGATTAAGGTT
Found at i:9318167 original size:2 final size:2
Alignment explanation
Indices: 9318155--9318215 Score: 83
Period size: 2 Copynumber: 32.0 Consensus size: 2
9318145 TAATTTATTT
**
9318155 TA TA T- TA TA TA TA TA TA TA TA GG 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
9318196 TA TA TA TA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
9318216 CATTGTTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
1 3 0.06
2 49 0.94
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9318507 original size:20 final size:20
Alignment explanation
Indices: 9318482--9318734 Score: 134
Period size: 20 Copynumber: 12.5 Consensus size: 20
9318472 GATTTTCCAT
* *
9318482 AATCGCAACGTGAATATGAA
1 AATCGCAACGAGAATACGAA
* * *
9318502 AATCGCAACGCGAACA-TATA
1 AATCGCAACGAGAATACGA-A
* * *
9318522 AATCGCAACGTG-ATTCTGAC
1 AATCGCAACGAGAATAC-GAA
* * *
9318542 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGAGAATACG-AA
* * * * *
9318563 AATCACAACGCGTATCCGTA
1 AATCGCAACGAGAATACGAA
* *
9318583 AATCGCAACGACAATACATAA
1 AATCGCAACGAGAATAC-GAA
* * * *
9318604 AATCGCAACGCGTATCCGTA
1 AATCGCAACGAGAATACGAA
*
9318624 AATCGCAACGAGAATACGTA
1 AATCGCAACGAGAATACGAA
* * *
9318644 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGAGAATAC-GAA
*
9318664 AATCGCAACGAGAATACGTA
1 AATCGCAACGAGAATACGAA
* * * * *
9318684 AATCGCAATGCGTATCCGTA
1 AATCGCAACGAGAATACGAA
*
9318704 AATCGCAACGACAATACGTAA
1 AATCGCAACGAGAATACG-AA
9318725 AATCGCAACG
1 AATCGCAACG
9318735 CGTATCCGTA
Statistics
Matches: 178, Mismatches: 46, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
19 3 0.02
20 129 0.72
21 46 0.26
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGAGAATACGAA
Found at i:9318658 original size:40 final size:41
Alignment explanation
Indices: 9318543--9318754 Score: 329
Period size: 41 Copynumber: 5.2 Consensus size: 41
9318533 GATTCTGACT
* * *
9318543 ATCGCAACGAGTATCCGTAAAATCACAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
9318584 ATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
9318625 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
9318665 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
9318705 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAT
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
9318746 ATCGCAACG
1 ATCGCAACG
9318755 CGATTTTTAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 76 0.48
41 81 0.52
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:9318751 original size:20 final size:20
Alignment explanation
Indices: 9318543--9318756 Score: 225
Period size: 20 Copynumber: 10.6 Consensus size: 20
9318533 GATTCTGACT
*
9318543 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
*
9318564 ATCACAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
9318584 ATCGCAACGAC-AATACATAAA
1 ATCGCAACG-CGTATCCGT-AA
9318605 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
9318625 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
9318645 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
9318665 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
9318685 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
9318705 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
9318726 ATCGCAACGCGTATCCGTAT
1 ATCGCAACGCGTATCCGTAA
9318746 ATCGCAACGCG
1 ATCGCAACGCG
9318757 ATTTTTAAAG
Statistics
Matches: 157, Mismatches: 30, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
20 108 0.69
21 49 0.31
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:9319374 original size:21 final size:21
Alignment explanation
Indices: 9319314--9319392 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
9319304 TTCTAAACTT
9319314 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
*
9319334 AAAATCACAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
9319354 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
9319375 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
9319393 TCGCAACGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 28 0.56
21 22 0.44
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:9319396 original size:14 final size:14
Alignment explanation
Indices: 9319374--9319438 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
9319364 CGAGAGAAAT
9319374 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
9319388 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
9319406 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
9319421 GATAATCGCAACGC
1 GAAAATCGCAACGA
9319435 GAAA
1 GAAA
9319439 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:9319410 original size:33 final size:33
Alignment explanation
Indices: 9319369--9319449 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
9319359 CGCAACGAGA
9319369 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
9319402 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
9319435 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
9319450 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:9319467 original size:19 final size:19
Alignment explanation
Indices: 9319445--9319656 Score: 113
Period size: 19 Copynumber: 12.1 Consensus size: 19
9319435 GAAACCAAAA
*
9319445 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
9319464 TCGCATTGC-A-ATTC---
1 TCGCGTTGCGATTTTCATT
* *
9319478 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
9319497 TCGTGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
9319516 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
9319530 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
9319549 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
9319563 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
9319582 TCGCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
**
9319598 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* **
9319615 TCCGCATTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
9319635 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
9319655 TC
1 TC
9319657 AACCAAAAGA
Statistics
Matches: 148, Mismatches: 23, Indels: 44
0.69 0.11 0.20
Matches are distributed among these distances:
14 35 0.24
15 1 0.01
16 11 0.07
17 13 0.09
18 1 0.01
19 57 0.39
20 29 0.20
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:9319512 original size:52 final size:52
Alignment explanation
Indices: 9319445--9319561 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
9319435 GAAACCAAAA
*
9319445 TCGCATTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATTTTAATT
* * * *
9319497 TCGTGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATTTTAATT
9319549 TCGCGTTGCGATT
1 TCGCGTTGCGATT
9319562 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATTTTAATT
Found at i:9319538 original size:14 final size:14
Alignment explanation
Indices: 9319519--9319607 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
9319509 TTTCATTTCG
9319519 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
9319533 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
9319552 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
9319566 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
*
9319585 CGTTGCGATTCTAT
1 CGTTGCGATTCTCT
9319599 CGTTGCGAT
1 CGTTGCGAT
9319608 AGTCATTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
14 29 0.48
16 5 0.08
17 5 0.08
19 21 0.35
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:9319543 original size:33 final size:33
Alignment explanation
Indices: 9319501--9319656 Score: 195
Period size: 33 Copynumber: 4.5 Consensus size: 33
9319491 TTAATTTCGT
9319501 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
9319534 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
** *
9319567 GTTGCGATAGTCATTTCGCGTTGCGATTCTATC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
** *
9319600 GTTGCGATAGTCATTTCCGCATTGCGATAGTCATTCTCTC
1 GTTGCGATTTTCATTT-CGCGTTGC----G--ATTCTCTC
9319640 GTTGCGATTTTCATTTC
1 GTTGCGATTTTCATTTC
9319657 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
33 79 0.72
34 7 0.06
38 1 0.01
39 1 0.01
40 21 0.19
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
Found at i:9319644 original size:20 final size:20
Alignment explanation
Indices: 9319559--9319647 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
9319549 TCGCGTTGCG
9319559 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
9319579 ATT-TCGCGTTGC----G--
1 ATTCTCTCGTTGCGATAGTC
*
9319592 ATTCTATCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
9319612 ATT-TC-CGCATTGCGATAGTC
1 ATTCTCTCG--TTGCGATAGTC
9319632 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
9319648 TTTCATTTCA
Statistics
Matches: 54, Mismatches: 4, Indels: 22
0.68 0.05 0.28
Matches are distributed among these distances:
13 3 0.06
14 7 0.13
15 1 0.02
18 3 0.06
19 9 0.17
20 27 0.50
21 2 0.04
22 2 0.04
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:9321513 original size:94 final size:94
Alignment explanation
Indices: 9321352--9321728 Score: 629
Period size: 94 Copynumber: 4.1 Consensus size: 94
9321342 TAGATTGCTT
* * *
9321352 AGTAAATTTATTCAGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
9321417 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
9321446 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
9321511 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
9321540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
9321605 ATTTGTC--T-TTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * * *
9321631 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATAGTCTGAAGTTAAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
9321696 ATTTGTCTTTGTTTTGTCTTTTGGTT-AA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
9321724 AGTAA
1 AGTAA
9321729 TGCAATCCAT
Statistics
Matches: 271, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
91 86 0.32
92 1 0.00
93 28 0.10
94 156 0.58
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:9321705 original size:185 final size:185
Alignment explanation
Indices: 9321352--9321728 Score: 623
Period size: 185 Copynumber: 2.0 Consensus size: 185
9321342 TAGATTGCTT
*
9321352 AGTAAATTTATTCAGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCAGTTGCTGCCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
9321417 ATTTGTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC
66 ATTTGTC--TTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC
* *
9321482 TGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
129 TGTGTATTCTTTAACACTCTGAAGTTAATATTTGTCTTTGTTTTGTCTTTTGGTT-AA
* * *
9321540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCAGTTGCTGCCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
9321605 ATTTGTC-T-TTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 ATTTGTCTTGTTTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACT
* *
9321668 GTGTATTCTTTAATAGTCTGAAGTTAATATTTGTCTTTGTTTTGTCTTTTGGTTAA
130 GTGTATTCTTTAACACTCTGAAGTTAATATTTGTCTTTGTTTTGTCTTTTGGTTAA
9321724 AGTAA
1 AGTAA
9321729 TGCAATCCAT
Statistics
Matches: 179, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
184 23 0.13
185 88 0.49
188 68 0.38
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (185 bp):
AGTAAATTTATTCAGTTGCTGCCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTCTGAAGTTAATATTTGTCTTTGTTTTGTCTTTTGGTTAA
Found at i:9321816 original size:20 final size:20
Alignment explanation
Indices: 9321791--9321857 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
9321781 GATTCTCTCG
**
9321791 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
9321811 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
9321831 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
9321851 TTGCGAT
1 TTGCGAT
9321858 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:9323820 original size:14 final size:14
Alignment explanation
Indices: 9323801--9323836 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9323791 ATTGTTTAAT
9323801 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
9323815 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
9323829 TGATTTGT
1 TGATTTGT
9323837 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:9323995 original size:33 final size:34
Alignment explanation
Indices: 9323938--9324033 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
9323928 AAAACAGACT
* * **
9323938 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
* *
9323972 ATCGCAATGCG-AAATGGAAATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
9324005 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
9324034 CGAAACTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:9324064 original size:19 final size:19
Alignment explanation
Indices: 9324042--9324129 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
9324032 CGCGAAACTA
*
9324042 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
9324061 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
* *
9324079 A-CTCG--TTGCGATTTCC
1 ATTTCGCATTGCGATTTTC
9324095 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
9324114 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
9324130 CTCTCGTTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
14 6 0.10
16 6 0.10
17 3 0.05
18 4 0.07
19 27 0.47
20 12 0.21
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:9324137 original size:52 final size:53
Alignment explanation
Indices: 9324042--9324142 Score: 177
Period size: 52 Copynumber: 1.9 Consensus size: 53
9324032 CGCGAAACTA
*
9324042 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTCC
1 ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTCC
*
9324095 ATTTCGCATTGCGATTTTCA-TTTCGCATTGCGATTCTCTCGTTGCGAT
1 ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGAT
9324143 AGTTATTTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 27 0.59
53 19 0.41
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTCC
Found at i:9324159 original size:20 final size:20
Alignment explanation
Indices: 9324134--9324218 Score: 104
Period size: 20 Copynumber: 4.2 Consensus size: 20
9324124 GCGATTCTCT
*
9324134 CGTTGCGATAGTTAT-TTCCG
1 CGTTGCGATAGTCATATT-CG
9324154 CGTTGCGATAGTCA-ATTC-
1 CGTTGCGATAGTCATATTCG
*
9324172 CGTATTACGATAGTCATATTCG
1 CG--TTGCGATAGTCATATTCG
9324194 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCATATTCG
9324214 CGTTG
1 CGTTG
9324219 TGATTTCCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 48 0.84
21 4 0.07
22 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATATTCG
Found at i:9324160 original size:53 final size:52
Alignment explanation
Indices: 9324042--9324162 Score: 174
Period size: 52 Copynumber: 2.3 Consensus size: 52
9324032 CGCGAAACTA
9324042 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTCC
1 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTT-C
* *
9324095 ATTTCGCATTGCGATTTTCA-TTTCGCATTGCGATTCTCTCGTTGCGATAGTT-
1 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGAT--TTC
9324147 ATTTCCGCGTTGCGAT
1 ATTT-CGCGTTGCGAT
9324163 AGTCAATTCC
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
52 31 0.50
53 29 0.47
54 2 0.03
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (52 bp):
ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTC
Found at i:9324374 original size:81 final size:82
Alignment explanation
Indices: 9324288--9324499 Score: 320
Period size: 81 Copynumber: 2.6 Consensus size: 82
9324278 CCGGAGATCG
* *
9324288 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGTATT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCATT
*
9324353 GCGA-TTTACGTATTCT
66 GCGATTTTAAGTATTCT
* *
9324369 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACATATTCTCGTTGCGATTTACGGATACGCGTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCATT
* *
9324433 GTGATTTTAAGTATTGT
66 GCGATTTTAAGTATTCT
* * *
9324450 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTTGTTGCGAT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGAT
9324500 AGTCAGGTTC
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
80 35 0.30
81 66 0.56
82 17 0.14
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (82 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCATT
GCGATTTTAAGTATTCT
Found at i:9324496 original size:41 final size:41
Alignment explanation
Indices: 9324288--9324499 Score: 320
Period size: 41 Copynumber: 5.2 Consensus size: 41
9324278 CCGGAGATCG
*
9324288 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
**
9324329 CGTTGCGATTTACGGATACGTATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
9324369 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACATATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
9324409 CGTTGCGATTTACGGATACGCGTTGTGATTTTAAGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
9324450 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
9324491 TGTTGCGAT
1 CGTTGCGAT
9324500 AGTCAGGTTC
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 75 0.49
41 79 0.51
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:9324535 original size:81 final size:81
Alignment explanation
Indices: 9324285--9324560 Score: 308
Period size: 81 Copynumber: 3.4 Consensus size: 81
9324275 ATACCGGAGA
* *
9324285 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGC
* ** *
9324350 ATTGCGATTTACGTAT
66 GTTGCGATTTATATGT
* *
9324366 TCTCGTTGCGATTTACGGATACGCGTTGCGA-TTTACATATTCTCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGC
* *
9324430 GTTGTGATTT-TAAGT
66 GTTGCGATTTATATGT
* * * * *
9324445 ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTTGTTGCGATAGT-CAGG-T
1 -TCG-CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGAT-TTAC-GGAT
*
9324508 TCGCGTTGCGATTTATATGT
62 ACGCGTTGCGATTTATATGT
* ** *
9324528 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
9324561 CTGGAAAATC
Statistics
Matches: 164, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 39 0.24
81 84 0.51
82 33 0.20
83 7 0.04
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (81 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGC
GTTGCGATTTATATGT
Found at i:9324560 original size:20 final size:20
Alignment explanation
Indices: 9324285--9324560 Score: 220
Period size: 20 Copynumber: 13.7 Consensus size: 20
9324275 ATACCGGAGA
9324285 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGAT
* *
9324305 ACGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGA-TTTACGGAT
9324326 T-GTCGTTGCGATTTACGGAT
1 TCG-CGTTGCGATTTACGGAT
* ** *
9324346 ACGTATTGCGATTTACGTAT
1 TCGCGTTGCGATTTACGGAT
*
9324366 TCTCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGAT
* **
9324386 ACGCGTTGCGATTTACATAT
1 TCGCGTTGCGATTTACGGAT
*
9324406 TCTCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGAT
* * * *
9324426 ACGCGTTGTGATTTTAAGTAT
1 TCGCGTTGCGA-TTTACGGAT
9324447 T-GTCGTTGCGATTTACGGAT
1 TCG-CGTTGCGATTTACGGAT
*
9324467 ACGCGTTGCGATTTTACGGAT
1 TCGCGTTGCGA-TTTACGGAT
* ** *
9324488 ACTTGTTGCGATAGT-CAGG-T
1 TCGCGTTGCGAT-TTAC-GGAT
**
9324508 TCGCGTTGCGATTTATATG-T
1 TCGCGTTGCGATTTA-CGGAT
* **
9324528 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGAT
9324548 TCGCGTTGCGATT
1 TCGCGTTGCGATT
9324561 CTGGAAAATC
Statistics
Matches: 200, Mismatches: 44, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.00
20 146 0.73
21 53 0.26
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTACGGAT
Found at i:9324621 original size:42 final size:42
Alignment explanation
Indices: 9324528--9324621 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
9324518 ATTTATATGT
* *
9324528 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
** * *
9324569 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGCAAAA
9324611 TCGCGTTGCGA
1 TCGCGTTGCGA
9324622 TTCTGGGAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
Found at i:9324659 original size:20 final size:19
Alignment explanation
Indices: 9324610--9324663 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
9324600 ATTCTTCATA
9324610 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
9324629 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
9324650 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
9324664 TTTATTTTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:9324909 original size:48 final size:48
Alignment explanation
Indices: 9324851--9324974 Score: 187
Period size: 48 Copynumber: 2.6 Consensus size: 48
9324841 ATTTAGGATT
* *
9324851 TAGTACTTCTATAAACTATATATTTTATTATTTTTTATAGTTTATGCA
1 TAGTATTTCTATAAACTATATATTTTATTATTTTATATAGTTTATGCA
*
9324899 TAGTATTTCTATAAACTATATACTTTATTATTTTATATAGTTTATGCA
1 TAGTATTTCTATAAACTATATATTTTATTATTTTATATAGTTTATGCA
* * *
9324947 TAGTATTTATATATA-TATATATATTATT
1 TAGTATTTCTATAAACTATATATTTTATT
9324975 TATATTAGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 11 0.16
48 58 0.84
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (48 bp):
TAGTATTTCTATAAACTATATATTTTATTATTTTATATAGTTTATGCA
Found at i:9324961 original size:2 final size:2
Alignment explanation
Indices: 9324954--9325119 Score: 150
Period size: 2 Copynumber: 84.5 Consensus size: 2
9324944 GCATAGTATT
* * *
9324954 TA TA TA TA TA TA TA TA T- TA TT TA TA T- TA GT- TA TA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
9324994 TA TA TA TA TA TA T- TA TA T- TA -A TA TA AA TA TA -A TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
9325032 AA CTA TA TA CT- TA TA TA GTT TA TA CA TA TA TA GTT 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
9325075 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
9325117 TA T
1 TA T
9325120 TAATAAAAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
1 8 0.06
2 120 0.90
3 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9325047 original size:111 final size:109
Alignment explanation
Indices: 9324931--9325193 Score: 318
Period size: 109 Copynumber: 2.4 Consensus size: 109
9324921 CTTTATTATT
* *
9324931 TTATATAGTTTATGCATAGTA-TTTATATATATATATATATTATTTATATTAGTTATACATACAT
1 TTATATAGTTTATACATA-TAGTTTATATATATATATATATTATATATA-TA--TATACATACAT
*
9324995 ATATATATATATTATATTAATATAAA-TATAATTTATAAACTATATA-C
62 ATATATATATA-TATATTAATAAAAATTATAATTTATAAACTATATATC
* *
9325042 TTATATAGTTTATACATATATAGTTTATATATATATATATA-TATATATATATATATATATATAT
1 TTATATAGTTTATAC--ATATAGTTTATATATATATATATATTATATATATATATACATACATAT
* * *
9325106 ATATATATATATATTAATAAAAATTATAGTTTATTAACTATATATTT
64 ATATATATATATATTAATAAAAATTATAATTTATAAACTATATA-TC
* * *
9325153 TTTTATAGTTTATACATATAGTTTATACATAGTTTATATAT
1 TTATATAGTTTATACATATAGTTTATATATA-TATATATAT
9325194 ACAGTTCATA
Statistics
Matches: 133, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
108 13 0.10
109 53 0.40
110 7 0.05
111 30 0.23
112 9 0.07
113 21 0.16
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (109 bp):
TTATATAGTTTATACATATAGTTTATATATATATATATATTATATATATATATACATACATATAT
ATATATATATATTAATAAAAATTATAATTTATAAACTATATATC
Found at i:9325196 original size:15 final size:15
Alignment explanation
Indices: 9325176--9325221 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
9325166 ACATATAGTT
9325176 TATACATAGTTTATA
1 TATACATAGTTTATA
*
9325191 TATAC--AGTTCATA
1 TATACATAGTTTATA
* *
9325204 TAAACATAATTTATA
1 TATACATAGTTTATA
9325219 TAT
1 TAT
9325222 GTAGTTTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (15 bp):
TATACATAGTTTATA
Found at i:9325246 original size:18 final size:18
Alignment explanation
Indices: 9325223--9325280 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
9325213 TTTATATATG
9325223 TAGTTTATAATAATTATA
1 TAGTTTATAATAATTATA
*
9325241 TAGTTTATAA-AATAAATA
1 TAGTTTATAATAAT-TATA
9325259 TAGTTATATATATAATTATA
1 TAGTT-TATA-ATAATTATA
9325279 TA
1 TA
9325281 AATTTATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 3 0.09
18 18 0.53
19 4 0.12
20 6 0.18
21 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TAGTTTATAATAATTATA
Found at i:9325300 original size:21 final size:22
Alignment explanation
Indices: 9325262--9325337 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 22
9325252 ATAAATATAG
9325262 TTATATATATAATTATATAAAT
1 TTATATATATAATTATATAAAT
9325284 TTATAT-TAT-ATTAATATAAAT
1 TTATATATATAATT-ATATAAAT
* *
9325305 TCTATACTTTA-ATATTTTATATAAT
1 T-TATA-TATATA-ATTATATA-AAT
9325330 TTATATAT
1 TTATATAT
9325338 TGCTTACACG
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
20 3 0.07
21 12 0.27
22 10 0.22
23 3 0.07
24 10 0.22
25 7 0.16
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATATATATAATTATATAAAT
Found at i:9325414 original size:2 final size:2
Alignment explanation
Indices: 9325407--9325607 Score: 136
Period size: 2 Copynumber: 104.0 Consensus size: 2
9325397 GTAAACTATT
* * * * *
9325407 TA TA TA TA TT TA TT TA -A TA TA CTA TA TA TA AA AA CTA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
* * *
9325450 TA AA TC T- TA TA TA T- TA TA TA TA T- TT 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
9325489 TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
9325529 CA TA GTT TA T- TA -A TA AA CTA CA TA TA AA TA TA T- TA TA TA T-
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
9325569 TT TG TC TT TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9325608 AATTTTTTTA
Statistics
Matches: 158, Mismatches: 26, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
1 11 0.07
2 142 0.90
3 5 0.03
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9325520 original size:35 final size:35
Alignment explanation
Indices: 9325407--9325607 Score: 132
Period size: 35 Copynumber: 5.9 Consensus size: 35
9325397 GTAAACTATT
* * *
9325407 TATATATATTTATTTAATATACTATATATA-A-AAA
1 TATATATATATATATAATATA-TATATATATATATA
* * * * *
9325441 CTATATACATAAATCTTATATAT-TATATATAT-TT
1 -TATATATATATATATAATATATATATATATATATA
9325475 TATATATATATATATAATATATATATATATATATA
1 TATATATATATATATAATATATATATATATATATA
* * *
9325510 TATATATATATATATATTACATAGTTTAT-TA-ATA
1 TATATATATATATATAATATATA-TATATATATATA
* * * * * * * *
9325544 AACTACATATAAATATATTATATAT-TTTGTCTTTA
1 TA-TATATATATATATAATATATATATATATATATA
9325579 TATATATATATATAT-ATATATATAT-TATA
1 TATATATATATATATAATATATATATATATA
9325608 AATTTTTTTA
Statistics
Matches: 129, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
33 35 0.27
34 29 0.22
35 61 0.47
36 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (35 bp):
TATATATATATATATAATATATATATATATATATA
Found at i:9325671 original size:18 final size:18
Alignment explanation
Indices: 9325648--9325688 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
9325638 TTACTATATT
9325648 TTTTATTATTT-CTTCGCA
1 TTTTATTATTTACTTCG-A
*
9325666 TTTTA-TATTTATTTCGA
1 TTTTATTATTTACTTCGA
9325683 TTTTAT
1 TTTTAT
9325689 CCTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTATTATTTACTTCGA
Found at i:9329045 original size:16 final size:16
Alignment explanation
Indices: 9329024--9329057 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9329014 AGATTATTAA
*
9329024 AATATTTAGTATAAAG
1 AATATTTAGCATAAAG
9329040 AATATTTAGCATAAAG
1 AATATTTAGCATAAAG
9329056 AA
1 AA
9329058 ATAGGCGTGT
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:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (16 bp):
AATATTTAGCATAAAG
Found at i:9331455 original size:30 final size:30
Alignment explanation
Indices: 9331419--9331498 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
9331409 GTTTGTGAGT
9331419 TGTTTGTGTCTCCCAAATGCTCCACCT-AGC
1 TGTTTGTGTCTCCCAAATGCTCCA-CTAAGC
* *
9331449 TGTTTGTCT-TCCAAAATGCTCCACTAAGC
1 TGTTTGTGTCTCCCAAATGCTCCACTAAGC
** *
9331478 TGTACGTGTCTTCCAAATGCT
1 TGTTTGTGTCTCCCAAATGCT
9331499 TCATCAAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.05
29 22 0.54
30 17 0.41
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (30 bp):
TGTTTGTGTCTCCCAAATGCTCCACTAAGC
Found at i:9340378 original size:27 final size:27
Alignment explanation
Indices: 9340348--9340431 Score: 168
Period size: 27 Copynumber: 3.1 Consensus size: 27
9340338 ATGCTGGTAC
9340348 AACTATAATCTATACGCATACGAGTAG
1 AACTATAATCTATACGCATACGAGTAG
9340375 AACTATAATCTATACGCATACGAGTAG
1 AACTATAATCTATACGCATACGAGTAG
9340402 AACTATAATCTATACGCATACGAGTAG
1 AACTATAATCTATACGCATACGAGTAG
9340429 AAC
1 AAC
9340432 ATAGAGAGAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
AACTATAATCTATACGCATACGAGTAG
Found at i:9340993 original size:23 final size:23
Alignment explanation
Indices: 9340953--9340997 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9340943 TCTATTTACC
* **
9340953 TTTATATTATTATTATTATTATA
1 TTTATATTATAAAAATTATTATA
9340976 TTTATATTATAAAAATTATTAT
1 TTTATATTATAAAAATTATTAT
9340998 TTACAAACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATATTATAAAAATTATTATA
Found at i:9341073 original size:23 final size:25
Alignment explanation
Indices: 9341034--9341088 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
9341024 CAAGTCCAAA
*
9341034 CACAAAA-GAAAAATCAG-GCCCTT
1 CACAAAATGAAAAATCAGACCCCTT
*
9341057 CACAAAATG-AAACTCAGACCCCTT
1 CACAAAATGAAAAATCAGACCCCTT
*
9341081 TACAAAAT
1 CACAAAAT
9341089 AAATCCCAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.47, C:0.27, G:0.09, T:0.16
Consensus pattern (25 bp):
CACAAAATGAAAAATCAGACCCCTT
Found at i:9341098 original size:24 final size:24
Alignment explanation
Indices: 9341052--9341099 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9341042 AAAAATCAGG
*
9341052 CCCTTCACAAAATGAAACTCAGAC
1 CCCTTCACAAAATGAAACCCAGAC
*
9341076 CCCTTTACAAAAT-AAATCCCAGAC
1 CCCTTCACAAAATGAAA-CCCAGAC
9341100 TCAGAGCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.19
Consensus pattern (24 bp):
CCCTTCACAAAATGAAACCCAGAC
Found at i:9341683 original size:9 final size:10
Alignment explanation
Indices: 9341669--9341697 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
9341659 TAAAAAACAA
9341669 AGAAAAAAAT
1 AGAAAAAAAT
9341679 A-AAAAAAAT
1 AGAAAAAAAT
9341688 AGAAAAAAAT
1 AGAAAAAAAT
9341698 GTTAGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:9341683 original size:19 final size:19
Alignment explanation
Indices: 9341659--9341697 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9341649 TTTTTCGTAG
9341659 TAAAAAACAA-AGAAAAAAA
1 TAAAAAA-AATAGAAAAAAA
9341678 TAAAAAAAATAGAAAAAAA
1 TAAAAAAAATAGAAAAAAA
9341697 T
1 T
9341698 GTTAGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (19 bp):
TAAAAAAAATAGAAAAAAA
Found at i:9343718 original size:17 final size:17
Alignment explanation
Indices: 9343696--9343735 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
9343686 TATGGAAATT
9343696 GTGTTAAAAACTAGAAA
1 GTGTTAAAAACTAGAAA
9343713 GTGTT--AAACTAGAAA
1 GTGTTAAAAACTAGAAA
9343728 GTGTTAAA
1 GTGTTAAA
9343736 GTCCGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 15 0.71
17 6 0.29
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (17 bp):
GTGTTAAAAACTAGAAA
Found at i:9348408 original size:10 final size:10
Alignment explanation
Indices: 9348393--9348417 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9348383 GCCATTGATC
9348393 AACAACAAGA
1 AACAACAAGA
9348403 AACAACAAGA
1 AACAACAAGA
9348413 AACAA
1 AACAA
9348418 GAATCAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.20, G:0.08, T:0.00
Consensus pattern (10 bp):
AACAACAAGA
Found at i:9353611 original size:21 final size:22
Alignment explanation
Indices: 9353555--9353612 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
9353545 TAGTGTAGGA
9353555 GGAATCGATACCCCCTTGAATG
1 GGAATCGATACCCCCTTGAATG
* *
9353577 GGAA-CTGATTCCCCTCTT-TA-G
1 GGAATC-GATACCCC-CTTGAATG
9353598 GGAATCGATACCCCC
1 GGAATCGATACCCCC
9353613 CACAGGGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 1 0.03
21 13 0.43
22 13 0.43
23 3 0.10
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (22 bp):
GGAATCGATACCCCCTTGAATG
Found at i:9354064 original size:15 final size:15
Alignment explanation
Indices: 9354046--9354076 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9354036 AAATTTTAAA
9354046 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
9354061 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
9354076 T
1 T
9354077 CAATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:9356092 original size:93 final size:94
Alignment explanation
Indices: 9355930--9356119 Score: 283
Period size: 93 Copynumber: 2.0 Consensus size: 94
9355920 CTATGTTTTG
* * * * * * *
9355930 AGTAGCAAGCACATGAACACTTGACAAACTTTTTACAGTTGATGCTGAGACAAGAGGAAATATGT
1 AGTAGCAAACACATGAACACTAGAC-AACTTTTTACAATTGACGCTGAGACAAGAGGAAACACGA
9355995 AACAAGGAAAACCAACAGCATAAATGCATA
65 AACAAGGAAAACCAACAGCATAAATGCATA
* *
9356025 AGTAGCAAACACATGAACACTAGAC-ACTTTTTACAATTGCCGCTGAGACAAGCGGAAACACGAA
1 AGTAGCAAACACATGAACACTAGACAACTTTTTACAATTGACGCTGAGACAAGAGGAAACACGAA
9356089 ACAAGGAAAACCAACAGCATAAATGCATA
66 ACAAGGAAAACCAACAGCATAAATGCATA
9356118 AG
1 AG
9356120 AAGCTTCATA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 63 0.73
95 23 0.27
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.17
Consensus pattern (94 bp):
AGTAGCAAACACATGAACACTAGACAACTTTTTACAATTGACGCTGAGACAAGAGGAAACACGAA
ACAAGGAAAACCAACAGCATAAATGCATA
Found at i:9359518 original size:18 final size:20
Alignment explanation
Indices: 9359480--9359518 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
9359470 TAAGTGTTAA
*
9359480 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
9359500 TGAATTTT-A-ATTATATAT
1 TGAATTTTAAGATTATATAT
9359518 T
1 T
9359519 TGATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 1 0.06
20 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:9359785 original size:20 final size:20
Alignment explanation
Indices: 9359756--9359794 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9359746 ATTACTCGGA
*
9359756 GGGTACCGATTCCTCCCAGG
1 GGGTACCGATTCCCCCCAGG
*
9359776 GGGTATCGATTCCCCCCAG
1 GGGTACCGATTCCCCCCAG
9359795 CTCATAACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (20 bp):
GGGTACCGATTCCCCCCAGG
Found at i:9360622 original size:20 final size:20
Alignment explanation
Indices: 9360597--9360646 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
9360587 CACTTAGGGA
9360597 ACCGATTCCCTATGAGGGGT
1 ACCGATTCCCTATGAGGGGT
9360617 ACCGATTCCCTATGAGGGGT
1 ACCGATTCCCTATGAGGGGT
*
9360637 ATCGATTCCC
1 ACCGATTCCC
9360647 CCTACGCTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (20 bp):
ACCGATTCCCTATGAGGGGT
Found at i:9364160 original size:29 final size:28
Alignment explanation
Indices: 9364128--9364182 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
9364118 CGACCCCTAG
* *
9364128 AATTCTATAAGTTCAAGTTCGTCCCCTGA
1 AATTCTAT-AGTTCAAGTCCGCCCCCTGA
* *
9364157 AATTTTATATTTCAAGTCCGCCCCCT
1 AATTCTATAGTTCAAGTCCGCCCCCT
9364183 TAACAGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.36
Consensus pattern (28 bp):
AATTCTATAGTTCAAGTCCGCCCCCTGA
Found at i:9364635 original size:14 final size:14
Alignment explanation
Indices: 9364601--9364667 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
9364591 ATCCTACCCT
*
9364601 CTCCCTCTCTCTCCC
1 CTCCCTCTATCT-CC
9364616 CATCCCTCTATCTCC
1 C-TCCCTCTATCTCC
* *
9364631 CTCCCCCGATCTCC
1 CTCCCTCTATCTCC
* *
9364645 CTCTCCTCCATTTCC
1 CTC-CCTCTATCTCC
9364660 CTCCCTCT
1 CTCCCTCT
9364668 CTCTTTCTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 18 0.42
15 15 0.35
16 10 0.23
ACGTcount: A:0.06, C:0.60, G:0.01, T:0.33
Consensus pattern (14 bp):
CTCCCTCTATCTCC
Done.