Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 13 of 186
Found at i:3890243 original size:33 final size:36
Alignment explanation
Indices: 3890195--3890268 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 36
3890185 AAAAGCATGT
*
3890195 GAAAAAGAATTTGAAAGA-A-AAAAAGA-AATGAAA
1 GAAAAAGAATGTGAAAGAGACAAAAAGAGAATGAAA
* *
3890228 GAAAAAGAGTGTGAAAGAGAGCAAAAAGAGAATGAGA
1 GAAAAAGAATGTGAAAGAGA-CAAAAAGAGAATGAAA
3890265 GAAA
1 GAAA
3890269 GAAAAAGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 16 0.47
34 1 0.03
36 7 0.21
37 10 0.29
ACGTcount: A:0.64, C:0.01, G:0.26, T:0.09
Consensus pattern (36 bp):
GAAAAAGAATGTGAAAGAGACAAAAAGAGAATGAAA
Found at i:3892588 original size:119 final size:119
Alignment explanation
Indices: 3892377--3892614 Score: 361
Period size: 119 Copynumber: 2.0 Consensus size: 119
3892367 ATCTTCCTGT
* *
3892377 ACAGGGCTTCAATACTTATGCCGTTTGTTTCTAACGAAACTAGACTCAAAAAGGAATCTATAAAT
1 ACAGGGCTCCAATACTGATGCCGTTTGTTTCTAACGAAACTAGACTCAAAAAGGAATCTATAAAT
* * * *
3892442 ATATGGAATGACTTCTAATTTTCTCTGGTTAATTTATAGTGAATTTCCAAAGTC
66 ATATGGAATGACTCCTAATTATCTCTGGTTAATTTATAATCAATTTCCAAAGTC
* * * *
3892496 ACAGGGCTCCAATACTGATGCTGTTTGTTTCTATA-GAAACTAGACTCAGAGAGGAATCTATACA
1 ACAGGGCTCCAATACTGATGCCGTTTGTTTCTA-ACGAAACTAGACTCAAAAAGGAATCTATAAA
*
3892560 TATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATCAATTTCCAAAGTC
65 TATATGGAATGACTCCTAATTATCTCTGGTTAATTTATAATCAATTTCCAAAGTC
3892615 GGAACAAGGA
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 106 0.99
120 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (119 bp):
ACAGGGCTCCAATACTGATGCCGTTTGTTTCTAACGAAACTAGACTCAAAAAGGAATCTATAAAT
ATATGGAATGACTCCTAATTATCTCTGGTTAATTTATAATCAATTTCCAAAGTC
Found at i:3893693 original size:80 final size:80
Alignment explanation
Indices: 3893577--3893762 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 80
3893567 AGTAACTCAT
* *
3893577 ACAATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
3893641 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
3893656 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
3893720 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
3893737 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
3893763 CAGCATTCAA
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
79 12 0.13
80 72 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:3893722 original size:40 final size:40
Alignment explanation
Indices: 3893579--3893762 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
3893569 TAACTCATAC
*
3893579 AATGCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
3893619 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
3893659 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
3893699 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
3893740 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
3893763 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 9 0.07
40 105 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:3897219 original size:59 final size:59
Alignment explanation
Indices: 3897152--3897268 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
3897142 AATTCAACTC
*
3897152 GTTTGAGTTAGATTTAGTTGCTCTCCAACTTATTTCTTTTATCATTTTAATAAACTAAT
1 GTTTGAGTTAAATTTAGTTGCTCTCCAACTTATTTCTTTTATCATTTTAATAAACTAAT
* *
3897211 GTTTGAGTTAAATTTAGTTGCTCTCTAGCTTATTTCTTTTATCATTTTAATAAACTAA
1 GTTTGAGTTAAATTTAGTTGCTCTCCAACTTATTTCTTTTATCATTTTAATAAACTAA
3897269 GTATTGGCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (59 bp):
GTTTGAGTTAAATTTAGTTGCTCTCCAACTTATTTCTTTTATCATTTTAATAAACTAAT
Found at i:3899782 original size:46 final size:45
Alignment explanation
Indices: 3899725--3899894 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 45
3899715 CATCTCATAT
*
3899725 CCGATGTATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCGAGG
* * * * *
3899771 CCGTTGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACT-GGCTTCGTCTCGAGG
* * * * * *
3899817 TCGATGCCATCTCCCAAACATGATCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACATG-TCTTACACTGGCT-TCGT-CTCGAGG
3899865 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
3899895 AGCTCACACA
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
46 49 0.49
47 31 0.31
48 18 0.18
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCGAGG
Found at i:3903148 original size:53 final size:53
Alignment explanation
Indices: 3902965--3903219 Score: 254
Period size: 55 Copynumber: 4.8 Consensus size: 53
3902955 ATTAGGGTTT
* *
3902965 AAGGATACCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * *
3903020 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
3903075 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * * *
3903128 AAGGATATCATGTAATACCATGTCGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * *
3903177 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
3903220 GTACCTGTGT
Statistics
Matches: 170, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
49 38 0.22
51 1 0.01
52 8 0.05
53 41 0.24
54 8 0.05
55 70 0.41
56 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:3903171 original size:108 final size:110
Alignment explanation
Indices: 3902972--3903172 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
3902962 TTTAAGGATA
3902972 CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
*
3903037 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
3903082 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATATCATGTAAT
1 CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTC-TAAGGCAAGGATATCATGTAAG
* *
3903144 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
3903173 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:3903433 original size:16 final size:16
Alignment explanation
Indices: 3903412--3903442 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3903402 ATAAATTTGA
3903412 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
3903428 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
3903443 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:3905034 original size:26 final size:26
Alignment explanation
Indices: 3904952--3905065 Score: 111
Period size: 26 Copynumber: 4.4 Consensus size: 26
3904942 AGGATGTACT
*
3904952 TTATCTAGCAGGCCTTGAGTCAGTGA
1 TTATCTAGCAGGCCTTGAGCCAGTGA
* *
3904978 TTATCGAGTAGGCCTTGAGCCAGTGA
1 TTATCTAGCAGGCCTTGAGCCAGTGA
* * * *
3905004 TTATTTAGCAGGCCTTCAGCCGGTGT
1 TTATCTAGCAGGCCTTGAGCCAGTGA
* * * * *
3905030 TTATTTAACAGGTCTTGAGCTAATGA
1 TTATCTAGCAGGCCTTGAGCCAGTGA
*
3905056 TTATTTAGCA
1 TTATCTAGCA
3905066 AGTTGGTGAC
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (26 bp):
TTATCTAGCAGGCCTTGAGCCAGTGA
Found at i:3914442 original size:27 final size:27
Alignment explanation
Indices: 3914387--3914444 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
3914377 AAAAATCATC
***
3914387 ACAATTTAGTCACTATTTCATATTTAT
1 ACAATTTAGTCACTATTTCATAAAAAT
3914414 ACAATTTAGTCACTATTTCATAAAAAT
1 ACAATTTAGTCACTATTTCATAAAAAT
3914441 ACAA
1 ACAA
3914445 ATTCATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (27 bp):
ACAATTTAGTCACTATTTCATAAAAAT
Found at i:3916034 original size:41 final size:41
Alignment explanation
Indices: 3915954--3916040 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
3915944 AATTGTTGTA
* * *
3915954 TGAATTGCACATAAGTGCCCCTGTTTGTACTTTGATACCCT
1 TGAATTCCACATAAGTGCCCCTGTTTGTACTTAGATACCCC
*
3915995 TGAATTCCACATACGTGCCCCTGTTTGTACTTCAG-TACCCC
1 TGAATTCCACATAAGTGCCCCTGTTTGTACTT-AGATACCCC
3916036 TGAAT
1 TGAAT
3916041 GTAGATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 40 0.98
42 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (41 bp):
TGAATTCCACATAAGTGCCCCTGTTTGTACTTAGATACCCC
Found at i:3919634 original size:33 final size:33
Alignment explanation
Indices: 3919592--3919660 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
3919582 CGTATCTGGG
*
3919592 ATATGGCATCTATATGAGACTTCGTGTAAGACC
1 ATATGGCATCGATATGAGACTTCGTGTAAGACC
*
3919625 ATATGGCATCGATATGAGACTTCGTGTAATACC
1 ATATGGCATCGATATGAGACTTCGTGTAAGACC
3919658 ATA
1 ATA
3919661 GCTGGGCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (33 bp):
ATATGGCATCGATATGAGACTTCGTGTAAGACC
Found at i:3929367 original size:27 final size:28
Alignment explanation
Indices: 3929313--3929369 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 28
3929303 ATGGTGAGAA
3929313 AGTTTATGTACATGTATATATATATGAAC
1 AGTTTATGTACATG-ATATATATATGAAC
*
3929342 AGTTTATGTATATG-TATATATATGAAC
1 AGTTTATGTACATGATATATATATGAAC
3929369 A
1 A
3929370 TATGATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.52
29 13 0.48
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (28 bp):
AGTTTATGTACATGATATATATATGAAC
Found at i:3932720 original size:15 final size:15
Alignment explanation
Indices: 3932700--3932745 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
3932690 ATTATGATAT
3932700 TGTATCTTGGATTTC
1 TGTATCTTGGATTTC
3932715 TGTATCTTGGATTTC
1 TGTATCTTGGATTTC
* * *
3932730 TTTATCATAGATTTC
1 TGTATCTTGGATTTC
3932745 T
1 T
3932746 TTGTTCTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.54
Consensus pattern (15 bp):
TGTATCTTGGATTTC
Found at i:3939792 original size:63 final size:63
Alignment explanation
Indices: 3939693--3939816 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
3939683 TGAGCTGAAC
* * * **
3939693 GATAGTGTGATGGTGCTCCGACTAATTCCAACCTTCATGAACTTCTGAGCACTATAAAACATG
1 GATAGTGTGATGGTGCTACGACTAATTCCAAACTTCACGAACTTCCAAGCACTATAAAACATG
* *
3939756 GATAGTGTGATGGTGCTATGACTAATTCCAAACTTCACGAGCTTCCAAGCACTATAAAACA
1 GATAGTGTGATGGTGCTACGACTAATTCCAAACTTCACGAACTTCCAAGCACTATAAAACA
3939817 GAGGAAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (63 bp):
GATAGTGTGATGGTGCTACGACTAATTCCAAACTTCACGAACTTCCAAGCACTATAAAACATG
Found at i:3954424 original size:21 final size:21
Alignment explanation
Indices: 3954400--3954441 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3954390 GTCTAGGTTG
3954400 GACTACTTCAGGAGGTCTTTC
1 GACTACTTCAGGAGGTCTTTC
3954421 GACTACTTCAGGAGGTCTTTC
1 GACTACTTCAGGAGGTCTTTC
3954442 ACATTGCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (21 bp):
GACTACTTCAGGAGGTCTTTC
Found at i:3962323 original size:40 final size:40
Alignment explanation
Indices: 3962259--3962370 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 40
3962249 GACTATGTTT
* *
3962259 GGCACTAAGTGTGCATTTCAAAATAGCTTTGGCTCTAAAT-A
1 GGCACTAAGTGTGCAATTCAAAATAGC-TTCGC-CTAAATGA
* *
3962300 -GCACTAAGTGTGCAAATT-GAAATAGCTTCGCCTATATGA
1 GGCACTAAGTGTGC-AATTCAAAATAGCTTCGCCTAAATGA
* * *
3962339 GGCACTAAGTGTGCGATACCAAGATAGCTTCG
1 GGCACTAAGTGTGCAAT-TCAAAATAGCTTCG
3962371 GTTTATTGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
38 5 0.09
39 7 0.12
40 33 0.57
41 13 0.22
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCAATTCAAAATAGCTTCGCCTAAATGA
Found at i:3965177 original size:30 final size:30
Alignment explanation
Indices: 3965143--3965211 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
3965133 ATGCGTATAG
3965143 CCATGTGTCACACACAGTTGAGACACACGC
1 CCATGTGTCACACACAGTTGAGACACACGC
* *
3965173 CCATGTGTCATACACGGTTGAGACACACGC
1 CCATGTGTCACACACAGTTGAGACACACGC
*
3965203 CCGTGTGTC
1 CCATGTGTC
3965212 TACTCATGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (30 bp):
CCATGTGTCACACACAGTTGAGACACACGC
Found at i:3968865 original size:20 final size:21
Alignment explanation
Indices: 3968826--3968865 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3968816 GTTATAATGA
*
3968826 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
3968847 CCACATGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
3968866 GTTTCATGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:3983422 original size:165 final size:166
Alignment explanation
Indices: 3983112--3983543 Score: 532
Period size: 171 Copynumber: 2.6 Consensus size: 166
3983102 AGGGTGTTCC
* * * *
3983112 ATTTTT-GTAATTTATTATGTTTTTTGGATTATTAGGGTAAAAAGGTCAAGAAAT-AGTGTATAG
1 ATTTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTAAATAGGTCAAGAAATGA-TGTATGG
* * * ** *
3983175 TACAACATTTTTACCTAGGTAATATTAAAAAAATAATTAAATACGGAAATGGGTAACCTTACAAA
65 TACAACAATTTTACCTA---AATAATATAAAAATAATTAAATACAAAAATGGGCAACCTTACAAA
* *
3983240 TTAAGTACCGAAATGGGTCGGTTGTTACAAATTGGTA-CG
127 CTAAGTACCGAAATGGGTCAGTTGTTACAAATTGGTAGCG
* *
3983279 ATTTTTGGTATTTTATTAAGTTTTTTGGATTATTGGGGTAAATAGGTTAAGAAATGATGTATGGT
1 ATTTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTAAATAGGTCAAGAAATGATGTATGGT
*
3983344 ACAATAATTTTACCTAAATAATATAAAAATAATTAAATACAAAAATGGGCAACCTTACAAACTAA
66 ACAACAATTTTACCTAAATAATATAAAAATAATTAAATACAAAAATGGGCAACCTTACAAACTAA
* * *
3983409 GTGCCGAAATGGGTCATTTGTTACAAATTGGTAGGGTG
131 GTACCGAAATGGGTCAGTTGTTACAAATTGGTA--GCG
* * *
3983447 ACCCATTTTGGTATTTTATTATGTTTTTTGAATTATTGGGGTAAATAGGTCAAGACACA-G-TAT
1 A---TTTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTAAATAGGTCAAGA-A-ATGATGT
*
3983510 ATGGTACAACAATTTTACTTAAATAATATAAAAA
61 ATGGTACAACAATTTTACCTAAATAATATAAAAA
3983544 AAATATTAAA
Statistics
Matches: 230, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
165 73 0.32
167 6 0.03
168 66 0.29
169 1 0.00
171 81 0.35
172 2 0.01
173 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (166 bp):
ATTTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTAAATAGGTCAAGAAATGATGTATGGT
ACAACAATTTTACCTAAATAATATAAAAATAATTAAATACAAAAATGGGCAACCTTACAAACTAA
GTACCGAAATGGGTCAGTTGTTACAAATTGGTAGCG
Found at i:3983535 original size:171 final size:169
Alignment explanation
Indices: 3983086--3983625 Score: 609
Period size: 165 Copynumber: 3.2 Consensus size: 169
3983076 GAAGAGGCCG
* ** * * *
3983086 TTTGCTACAAATTGGTAGGGTGTTCCATTTTTGTAATTTATTATGTTTTTTGGATTATTAGGGTA
1 TTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTA
* * * * *
3983151 AAAAGGTCAAGAAATAGTGTATAGTACAACATTTTTACCTAGGTAATATTAAAAAAATAATTAAA
66 AATAGGTCAAG-AA-AGTGTATGGTACAACAATTTTACCTA---AATAATATAAAAATAATTAAA
** * *
3983216 TACGGAAATGGGTAACCTTACAAATTAAGTACCGAAATGGGTCG
126 TACAAAAATGGGCAACCTTACAAATTAAGTACCGAAATGGGTCA
* * * *
3983260 GTTGTTACAAATTGGTA---CGA---TTTTTGGTATTTTATTAAGTTTTTTGGATTATTGGGGTA
1 TTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTA
* *
3983319 AATAGGTTAAGAAATGATGTATGGTACAATAATTTTACCTAAATAATATAAAAATAATTAAATAC
66 AATAGGTCAAGAAA-G-TGTATGGTACAACAATTTTACCTAAATAATATAAAAATAATTAAATAC
* *
3983384 AAAAATGGGCAACCTTACAAACTAAGTGCCGAAATGGGTCA
129 AAAAATGGGCAACCTTACAAATTAAGTACCGAAATGGGTCA
*
3983425 TTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGAATTATTGGGGTA
1 TTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTA
* *
3983490 AATAGGTCAAGACACAGTATATGGTACAACAATTTTACTTAAATAATAT--AAA-AA--AAATA-
66 AATAGGTCAAGA-A-AGTGTATGGTACAACAATTTTACCTAAATAATATAAAAATAATTAAATAC
** * * * ** *
3983549 TTAAATGGACGACATTACAAATTAAGTATTGAAATGGTTCA
129 AAAAATGGGCAACCTTACAAATTAAGTACCGAAATGGGTCA
3983590 TTTGTTACAAATTGGTAGGGTGACCCATTTTGGTAT
1 TTTGTTACAAATTGGTAGGGTGACCCATTTTGGTAT
3983626 ATATCTGTCA
Statistics
Matches: 315, Mismatches: 41, Indels: 29
0.82 0.11 0.08
Matches are distributed among these distances:
165 140 0.44
166 6 0.02
167 3 0.01
168 68 0.22
169 3 0.01
171 77 0.24
172 2 0.01
173 1 0.00
174 15 0.05
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (169 bp):
TTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTGGGGTA
AATAGGTCAAGAAAGTGTATGGTACAACAATTTTACCTAAATAATATAAAAATAATTAAATACAA
AAATGGGCAACCTTACAAATTAAGTACCGAAATGGGTCA
Found at i:3993247 original size:40 final size:40
Alignment explanation
Indices: 3993203--3993510 Score: 539
Period size: 40 Copynumber: 7.7 Consensus size: 40
3993193 GCTACTTGCT
3993203 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
3993243 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
3993283 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
3993323 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
3993363 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
3993403 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
3993443 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
3993482 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
3993511 CATCCGAATA
Statistics
Matches: 259, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
39 35 0.14
40 224 0.86
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:4001465 original size:40 final size:40
Alignment explanation
Indices: 4001410--4001586 Score: 273
Period size: 40 Copynumber: 4.4 Consensus size: 40
4001400 GGACATAGCT
* * *
4001410 ACTCGCTCAAATGCCTTCGGGACTTATCCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
4001450 ACTCGCACAATTGCCTTTGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
4001490 ACTTGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
4001530 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
4001570 ACTCGCACAAATGCCTT
1 ACTCGCACAAATGCCTT
4001587 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:4001554 original size:80 final size:80
Alignment explanation
Indices: 4001384--4001586 Score: 275
Period size: 80 Copynumber: 2.5 Consensus size: 80
4001374 AAACCAAGTA
** * * *
4001384 CCTTCGGGGTTTAG-CCGGACATAGCT-ACTCGCTCAAATGCCTTCGGGACTTATCCCAGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATA
*
4001447 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * * * * *
4001463 CCTTTGGGACTTAGCCCGGTTATAGTAACTTGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAG
4001528 TAACTCGCACAAATG
66 TAACTCGCACAAATG
4001543 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT
4001587 NNNNNNNNNN
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 12 0.11
80 94 0.89
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAG
TAACTCGCACAAATG
Found at i:4020634 original size:28 final size:28
Alignment explanation
Indices: 4020583--4020644 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
4020573 ATAATATTAA
4020583 AAAAATAATTAATTATAGAAATGG-ATG
1 AAAAATAATTAATTATAGAAATGGTATG
* *
4020610 AGAAATAAATTAATTA-CGAAGATGGTATG
1 AAAAAT-AATTAATTATAGAA-ATGGTATG
4020639 AAAAAT
1 AAAAAT
4020645 TAAAGTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 8 0.28
28 13 0.45
29 8 0.28
ACGTcount: A:0.55, C:0.02, G:0.16, T:0.27
Consensus pattern (28 bp):
AAAAATAATTAATTATAGAAATGGTATG
Found at i:4020964 original size:16 final size:18
Alignment explanation
Indices: 4020933--4020974 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
4020923 CGGCATCACC
*
4020933 TATTTTTTTAATAAATTT
1 TATTTTTTTAATAAATAT
4020951 TATTTTTTT-A-AAATAT
1 TATTTTTTTAATAAATAT
4020967 TATTTTTT
1 TATTTTTT
4020975 AGTGGTGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.57
17 1 0.04
18 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTTTTAATAAATAT
Found at i:4021136 original size:27 final size:27
Alignment explanation
Indices: 4021086--4021146 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
4021076 TAGGCCCCAT
*
4021086 TGGTGACTCCTATCTAATAAGTGCCGC
1 TGGTGACTCCTATCTAATAAGTGCCAC
* ** *
4021113 TGGTGACTCCTATTTTGTAGGTGCCAC
1 TGGTGACTCCTATCTAATAAGTGCCAC
4021140 TGGTGAC
1 TGGTGAC
4021147 CCCTGTCTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (27 bp):
TGGTGACTCCTATCTAATAAGTGCCAC
Found at i:4024731 original size:33 final size:32
Alignment explanation
Indices: 4024620--4024734 Score: 104
Period size: 33 Copynumber: 3.5 Consensus size: 32
4024610 CTTGAGTTTT
* * *
4024620 GAGGAGTGGAGTACTGCGGTGGATATGGGCCAA
1 GAGGAGTAGAGTACTGCGGTGGATACGGG-CGA
* * * * *
4024653 AAAGAGTAGAGTACTGCAGTGGATACGAGCTGG
1 GAGGAGTAGAGTACTGCGGTGGATACGGGC-GA
* *
4024686 GAGAAGTAGAGTACTGTGGTGGATACGGGTCGA
1 GAGGAGTAGAGTACTGCGGTGGATACGGG-CGA
*
4024719 GAGGAGTGGAGTACTG
1 GAGGAGTAGAGTACTG
4024735 AGGAGGTATT
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
32 1 0.02
33 61 0.97
34 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.43, T:0.19
Consensus pattern (32 bp):
GAGGAGTAGAGTACTGCGGTGGATACGGGCGA
Found at i:4026589 original size:15 final size:16
Alignment explanation
Indices: 4026571--4026605 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4026561 AAAATCAAAT
*
4026571 AAAA-TTACATTATAA
1 AAAATTTACATTACAA
4026586 AAAATTTACATTACAA
1 AAAATTTACATTACAA
4026602 AAAA
1 AAAA
4026606 ATCACAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTTACATTACAA
Found at i:4026885 original size:105 final size:102
Alignment explanation
Indices: 4026569--4027115 Score: 572
Period size: 105 Copynumber: 5.4 Consensus size: 102
4026559 TAAAAATCAA
* * * *
4026569 ATAAAATTACATTATAAAAAATTTACATTACAAAAAAATCACAAAATACTAAACTAAACAATAAC
1 ATAAAATTA-TTTTTAAAAAATTTACATTACTAAAAAATCACAAAATACTAAACTAAACACTAAC
4026634 AAATTT-TAACCTAATCATAAATTACTAACAAAATAACT
65 -AATTTATAACCTAATCATAAATTACTAACAAAATAACT
* *
4026672 AT--AATT-TTTTTAAAACAAATAAAAGTTTACATTACTAAAAAATTACAAAACACTAAACTAAA
1 ATAAAATTATTTTT------AA-AAAA-TTTACATTACTAAAAAATCACAAAATACTAAACTAAA
* *
4026734 CACTAACAATTTATCACCTAATCATAAATTACTAACAAAATTACT
58 CACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACT
4026779 ATAAAATTATTTTTAAAAATATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAA
1 ATAAAATTATTTTTAAAAA-ATTTACATTACT-AAAAAATCACAAAATACTAAACTAAACACTAA
*
4026844 CAATTTTATAACCTAATCATAAATTACTAATAAAATAACT
64 CAA-TTTATAACCTAATCATAAATTACTAACAAAATAACT
* * * * *
4026884 ATAAAATTATTTTTTTTTAAAAA-TTACATTACTAAAAAATTACAAAATTCAAAACTAAATACTA
1 ATAAAATTA---TTTTTAAAAAATTTACATTACTAAAAAATCACAAAATACTAAACTAAACACTA
*
4026948 ACAATTTATAACCTAATCATAAATTATTAACAAAATAA-T
63 ACAATTTATAACCTAATCATAAATTACTAACAAAATAACT
* * * * *
4026987 -TAACAA--A--ATT----ATTTTACATTAATAAAAAATCACAAAACACTAAACTGAACAC-AAC
1 ATAA-AATTATTTTTAAAAAATTTACATTACTAAAAAATCACAAAATACTAAACTAAACACTAAC
* * *
4027042 AATTTATAACATAATCCTAAATTACTAACAAAATAATT
65 AATTTATAACCTAATCATAAATTACTAACAAAATAACT
* * *
4027080 TTAAAATAATTATTAAAAAA-TTACATT-CATAAAAAA
1 ATAAAATTATTTTTAAAAAATTTACATTAC-TAAAAAA
4027116 AATTAAACCA
Statistics
Matches: 379, Mismatches: 34, Indels: 65
0.79 0.07 0.14
Matches are distributed among these distances:
92 37 0.10
93 35 0.09
94 3 0.01
95 1 0.00
96 2 0.01
97 3 0.01
99 3 0.01
100 14 0.04
101 6 0.02
102 3 0.01
103 19 0.05
104 68 0.18
105 75 0.20
106 19 0.05
107 73 0.19
108 9 0.02
109 4 0.01
110 5 0.01
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (102 bp):
ATAAAATTATTTTTAAAAAATTTACATTACTAAAAAATCACAAAATACTAAACTAAACACTAACA
ATTTATAACCTAATCATAAATTACTAACAAAATAACT
Found at i:4026889 original size:93 final size:93
Alignment explanation
Indices: 4026792--4027077 Score: 292
Period size: 104 Copynumber: 3.0 Consensus size: 93
4026782 AAATTATTTT
4026792 TAAAAA-TATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAATTTTATAAC
1 TAAAAATTATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAA-TTTATAAC
*
4026856 CTAATCATAAATTACTAATAAAATAACTA
65 CTAATCATAAATTACTAACAAAATAACTA
* * * * * *
4026885 TAAAATTATTTTTTTTTAAAAATTACATTACTAAAAAATTACAAAATTCAAAACTAAATACTAAC
1 TAAAA--A---TTATTT--ACATTAC--TA--AAAAAATCACAAAATACTAAACTAAACACTAAC
* *
4026950 AATTTATAACCTAATCATAAATTATTAACAAAATAATTA
55 AATTTATAACCTAATCATAAATTACTAACAAAATAACTA
* * *
4026989 -ACAAAATTATTTTACATTAAT-AAAAAATCACAAAACACTAAACTGAACAC-AACAATTTATAA
1 TA-AAAATTA-TTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAATTTATAA
* *
4027051 CATAATCCTAAATTACTAACAAAATAA
64 CCTAATCATAAATTACTAACAAAATAA
4027078 TTTTAAAATA
Statistics
Matches: 158, Mismatches: 21, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
92 36 0.23
93 28 0.18
95 1 0.01
96 1 0.01
98 5 0.03
99 6 0.04
100 3 0.02
101 6 0.04
102 1 0.01
103 3 0.02
104 37 0.23
105 31 0.20
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (93 bp):
TAAAAATTATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAATTTATAACC
TAATCATAAATTACTAACAAAATAACTA
Found at i:4026950 original size:209 final size:207
Alignment explanation
Indices: 4026561--4027086 Score: 604
Period size: 209 Copynumber: 2.6 Consensus size: 207
4026551 CAAATAAATA
*
4026561 AAAATCAA-ATAAAATTACATTATAAAAA-ATTTACATTAC-AAAAAAATCACAAAATACTAAAC
1 AAAAT-AATATAAAATT--ATTTTAAAAATATTTACATTACTAAAAAAATCACAAAATACTAAAC
*
4026623 TAAACAATAACAAATTT-TAACCTAATCATAAATTACTAACAAAATAACTAT--AATTTTTTTAA
63 TAAACACTAAC-AATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTTTTTT--
* * *
4026685 AACAAATAAAAGTTTACATTACTAAAAAATTACAAAACACTAAACTAAACACTAACAATTTATCA
125 -A-AAATAAAAGATTACATTACTAAAAAATTACAAAACACAAAACTAAACACTAACAATTTATAA
4026750 CCTAATCATAAATTACTAAC
188 CCTAATCATAAATTACTAAC
*
4026770 AAAATTACTATAAAATTATTTTTAAAAATATTTACATTACTAAAAAAATCACAAAATACTAAACT
1 AAAA-TAATATAAAATTA-TTTTAAAAATATTTACATTACTAAAAAAATCACAAAATACTAAACT
* *
4026835 AAACACTAACAATTTTATAACCTAATCATAAATTACTAATAAAATAACTATAAAATTATTTTT-T
64 AAACACTAACAA-TTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT-TTTTTAA
** ** *
4026899 TTTAAAA-ATTACATTACTAAAAAATTACAAAATTCAAAACTAAATACTAACAATTTATAACCTA
127 AATAAAAGATTACATTACTAAAAAATTACAAAACACAAAACTAAACACTAACAATTTATAACCTA
*
4026963 ATCATAAATTATTAAC
192 ATCATAAATTACTAAC
* * * *
4026979 AAAATAAT-TAACAA--A-ATT----AT-TTTACATTAAT-AAAAAATCACAAAACACTAAACTG
1 AAAATAATATAA-AATTATTTTAAAAATATTTACATTACTAAAAAAATCACAAAATACTAAACTA
* * * *
4027034 AACAC-AACAATTTATAACATAATCCTAAATTACTAACAAAATAATTTTAAAAT
65 AACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAAT
4027087 AATTATTAAA
Statistics
Matches: 282, Mismatches: 24, Indels: 35
0.83 0.07 0.10
Matches are distributed among these distances:
196 38 0.13
197 5 0.02
198 27 0.10
199 10 0.04
200 2 0.01
204 2 0.01
206 1 0.00
207 3 0.01
208 6 0.02
209 83 0.29
210 27 0.10
211 36 0.13
212 33 0.12
214 4 0.01
215 5 0.02
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (207 bp):
AAAATAATATAAAATTATTTTAAAAATATTTACATTACTAAAAAAATCACAAAATACTAAACTAA
ACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTTTTTTAAAATA
AAAGATTACATTACTAAAAAATTACAAAACACAAAACTAAACACTAACAATTTATAACCTAATCA
TAAATTACTAAC
Found at i:4027087 original size:11 final size:12
Alignment explanation
Indices: 4027071--4027102 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4027061 AATTACTAAC
4027071 AAAATAATT-TT
1 AAAATAATTATT
4027082 AAAATAATTATT
1 AAAATAATTATT
4027094 AAAA-AATTA
1 AAAATAATTA
4027103 CATTCATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATAATTATT
Found at i:4027271 original size:14 final size:14
Alignment explanation
Indices: 4027252--4027287 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4027242 CCCCTTTTTT
4027252 TTCTTTCTTTCTTC
1 TTCTTTCTTTCTTC
*
4027266 TTCTTTTTTTCTTC
1 TTCTTTCTTTCTTC
*
4027280 TCCTTTCT
1 TTCTTTCT
4027288 CTCCTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCTTTCTTTCTTC
Found at i:4027294 original size:23 final size:22
Alignment explanation
Indices: 4027247--4027299 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
4027237 ATATCCCCCT
*
4027247 TTTTTTTCTTTCTTTCTTCTTC
1 TTTTTTTCTTTCTTTCTTCTCC
4027269 TTTTTTTCTTCTCCTTTC-TCTCC
1 TTTTTTTCTT-T-CTTTCTTCTCC
*
4027292 TTTCTTTC
1 TTTTTTTC
4027300 CCTCTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.37
23 12 0.44
24 5 0.19
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTTCTTTCTTTCTTCTCC
Found at i:4027828 original size:18 final size:16
Alignment explanation
Indices: 4027789--4027821 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4027779 AAGAAAAAAG
*
4027789 TATATAAAAATATTTT
1 TATAAAAAAATATTTT
4027805 TATAAAAAAATATTTT
1 TATAAAAAAATATTTT
4027821 T
1 T
4027822 TTATAAATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAAAAAATATTTT
Found at i:4028924 original size:17 final size:17
Alignment explanation
Indices: 4028882--4028924 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
4028872 GTGTTTTGTG
4028882 ATTTTTTTATTAATGTA
1 ATTTTTTTATTAATGTA
*
4028899 AATTTTTTA-TAATGTA
1 ATTTTTTTATTAATGTA
4028915 ATTTTATTTA
1 ATTTT-TTTA
4028925 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
ATTTTTTTATTAATGTA
Found at i:4028926 original size:15 final size:16
Alignment explanation
Indices: 4028886--4028926 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4028876 TTTGTGATTT
4028886 TTTTA-TTAATGTAAA
1 TTTTATTTAATGTAAA
4028901 TTTT-TTATAATGT-AA
1 TTTTATT-TAATGTAAA
4028916 TTTTATTTAAT
1 TTTTATTTAAT
4028927 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TTTTATTTAATGTAAA
Found at i:4031551 original size:27 final size:27
Alignment explanation
Indices: 4031518--4031997 Score: 852
Period size: 27 Copynumber: 17.6 Consensus size: 27
4031508 TAAATTGTGC
*
4031518 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031545 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031572 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031599 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031626 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031653 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
4031680 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
4031708 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031735 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031762 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
4031790 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
4031818 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
4031846 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
4031874 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
4031901 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
4031928 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
4031956 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
4031983 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4031998 GACTTAATAT
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:4031758 original size:82 final size:82
Alignment explanation
Indices: 4031518--4031997 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
4031508 TAAATTGTGC
*
4031518 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
4031582 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
4031599 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
4031663 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
*
4031680 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
4031745 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
4031762 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
4031827 TGTGCGAGTTTGACTATGT
65 TGTGCGAG-TTGACTATGT
4031846 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
4031911 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
* * * *
4031928 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
4031993 GTGCG
66 GTGCG
4031998 GACTTAATAT
Statistics
Matches: 389, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
81 97 0.25
82 183 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATGT
Found at i:4041294 original size:27 final size:27
Alignment explanation
Indices: 4041261--4041384 Score: 194
Period size: 27 Copynumber: 4.6 Consensus size: 27
4041251 TAAATTGTGC
4041261 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
4041288 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
4041315 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
4041343 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
4041370 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4041385 GACTTAATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 65 0.71
28 26 0.29
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:4041348 original size:55 final size:54
Alignment explanation
Indices: 4041261--4041384 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
4041251 TAAATTGTGC
*
4041261 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGACTATAT
* * *
4041315 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAATTGACTATAT
*
4041370 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4041385 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 16 0.25
55 48 0.75
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGACTATAT
Found at i:4048177 original size:79 final size:81
Alignment explanation
Indices: 4048041--4048223 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
4048031 TCGAATGATG
* *
4048041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
4048105 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
4048120 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
4048182 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
4048200 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4048224 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:4048239 original size:40 final size:40
Alignment explanation
Indices: 4048042--4048225 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
4048032 CGAATGATGT
* * * *
4048042 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
4048082 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
4048122 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
4048160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
4048201 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
4048226 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:4048247 original size:79 final size:79
Alignment explanation
Indices: 4048094--4048258 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
4048084 GGACTAAGAT
* **
4048094 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
4048159 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
4048173 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
4048236 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
4048252 CCGAAGG
1 CCGAAGG
4048259 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:4054849 original size:40 final size:40
Alignment explanation
Indices: 4054805--4055028 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
4054795 AAGTGAATAT
* * * * **
4054805 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
4054845 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
4054885 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
4054925 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
4054965 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
4055004 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
4055029 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:4054903 original size:80 final size:80
Alignment explanation
Indices: 4054766--4055028 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
4054756 TTGAATGCTG
* * * * *
4054766 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
4054828 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
4054846 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
4054911 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
4054926 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
4054990 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
4055005 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4055029 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:4054980 original size:120 final size:120
Alignment explanation
Indices: 4054766--4055028 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
4054756 TTGAATGCTG
* * *
4054766 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
4054830 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
4054886 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
4054948 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
4055005 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4055029 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:4057363 original size:23 final size:23
Alignment explanation
Indices: 4057312--4057412 Score: 107
Period size: 23 Copynumber: 4.4 Consensus size: 23
4057302 TCAGCTTGTA
* *
4057312 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACCGTTTT-AGCTCAAT
* *
4057336 GGAGCTTACCATTTTAGCTC-AT
1 AGAGCTTACCGTTTTAGCTCAAT
*
4057358 ATGAGCTTACTG-TTTAGCTCAAT
1 A-GAGCTTACCGTTTTAGCTCAAT
* *
4057381 AAAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACCGTTTTAGCTCAAT
4057404 AGAGCTTAC
1 AGAGCTTAC
4057413 TATTCATCAG
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
22 17 0.27
23 34 0.54
24 12 0.19
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (23 bp):
AGAGCTTACCGTTTTAGCTCAAT
Found at i:4057389 original size:45 final size:47
Alignment explanation
Indices: 4057312--4057413 Score: 129
Period size: 45 Copynumber: 2.2 Consensus size: 47
4057302 TCAGCTTGTA
* ** *
4057312 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCATTTTAGCTC-AT
1 AGAGCTTACTGTTTTCAGCTCAATAAAGCTTACCATTTCAGCTCAAT
*
4057358 ATGAGCTTACTG-TTT-AGCTCAATAAAGCTTACCGTTTCAGCTCAAT
1 A-GAGCTTACTGTTTTCAGCTCAATAAAGCTTACCATTTCAGCTCAAT
4057404 AGAGCTTACT
1 AGAGCTTACT
4057414 ATTCATCAGC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
45 32 0.65
46 7 0.14
47 10 0.20
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (47 bp):
AGAGCTTACTGTTTTCAGCTCAATAAAGCTTACCATTTCAGCTCAAT
Found at i:4058367 original size:30 final size:30
Alignment explanation
Indices: 4058331--4058396 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
4058321 TGTCTCAGCT
4058331 GTGTGTGACACATGATCATGTTGCACGGCC
1 GTGTGTGACACATGATCATGTTGCACGGCC
4058361 GTGTGTGACACATGATCATGTTGCACGGCC
1 GTGTGTGACACATGATCATGTTGCACGGCC
4058391 GTGTGT
1 GTGTGT
4058397 CCCCTGGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (30 bp):
GTGTGTGACACATGATCATGTTGCACGGCC
Found at i:4061275 original size:11 final size:11
Alignment explanation
Indices: 4061259--4061288 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
4061249 TGAACAATAA
4061259 TATCATTGCAT
1 TATCATTGCAT
4061270 TATCATTGCAT
1 TATCATTGCAT
4061281 TATCATTG
1 TATCATTG
4061289 ACATATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (11 bp):
TATCATTGCAT
Found at i:4063795 original size:30 final size:30
Alignment explanation
Indices: 4063760--4063822 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
4063750 GAAAACCAGA
* * *
4063760 ATAAAGA-AGTCCAAGATAGAGGAATCCATG
1 ATAAAGATA-TCCAAGATACAGAAATCCAAG
*
4063790 ATAAAGATATCCAAGGTACAGAAATCCAAG
1 ATAAAGATATCCAAGATACAGAAATCCAAG
4063820 ATA
1 ATA
4063823 GCATATCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.17
Consensus pattern (30 bp):
ATAAAGATATCCAAGATACAGAAATCCAAG
Found at i:4066942 original size:27 final size:27
Alignment explanation
Indices: 4066901--4067012 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
4066891 AGGAAGCGTC
*
4066901 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
* *
4066928 CTAGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
* *
4066955 CTGGTGGCTCTACCACAAATATCTGTAT
1 CTGGTGGCTATGCCACAAATATCTGT-T
* * *
4066983 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
4067009 CTGG
1 CTGG
4067013 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 56 0.76
28 13 0.18
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGTT
Found at i:4078115 original size:25 final size:24
Alignment explanation
Indices: 4078083--4078134 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
4078073 AGTTCAAGCA
*
4078083 AGCCATATCAGGAAGCTCACAAAG
1 AGCCATATCAGGAAGCCCACAAAG
* * *
4078107 AGCCTATATTAGGACGCCCATAAAG
1 AGCC-ATATCAGGAAGCCCACAAAG
4078132 AGC
1 AGC
4078135 TGTGTTTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.15
Consensus pattern (24 bp):
AGCCATATCAGGAAGCCCACAAAG
Found at i:4110837 original size:25 final size:24
Alignment explanation
Indices: 4110777--4110838 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
4110767 TATAGTTGGG
*
4110777 ACGAGCATCTTGTTATAAGCCTTCT
1 ACGAGCATCTTGTTACAAG-CTTCT
4110802 -CGAGCATTCTTGTTACATAG-TTCCT
1 ACGAGCA-TCTTGTTACA-AGCTT-CT
4110827 ACGAGCATCTTG
1 ACGAGCATCTTG
4110839 ATCAGTAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 8 0.25
25 16 0.50
26 8 0.25
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (24 bp):
ACGAGCATCTTGTTACAAGCTTCT
Found at i:4126905 original size:13 final size:13
Alignment explanation
Indices: 4126887--4126920 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
4126877 AAATTGAAGT
4126887 CACACGGCCAAGG
1 CACACGGCCAAGG
4126900 CACACGGCCAAGG
1 CACACGGCCAAGG
4126913 CACA-GGCC
1 CACACGGCC
4126921 CGTGTGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.29, C:0.41, G:0.29, T:0.00
Consensus pattern (13 bp):
CACACGGCCAAGG
Found at i:4128094 original size:42 final size:42
Alignment explanation
Indices: 4128048--4128128 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
4128038 TTCAACGAAA
*
4128048 TCTCAT-ATCGATGCCATATACC-AAATATGGTCTTACACAAAG
1 TCTCATAAT-GATGCCATAT-CCTAAATATGGTCCTACACAAAG
* *
4128090 TCTCATAATGATGTCATATCCTAGATATGGTCCTACACA
1 TCTCATAATGATGCCATATCCTAAATATGGTCCTACACA
4128129 TAGTTTTGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.06
42 30 0.88
43 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (42 bp):
TCTCATAATGATGCCATATCCTAAATATGGTCCTACACAAAG
Found at i:4132563 original size:13 final size:13
Alignment explanation
Indices: 4132545--4132569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4132535 TATGGTCTAC
4132545 GATTTCATGAAAT
1 GATTTCATGAAAT
4132558 GATTTCATGAAA
1 GATTTCATGAAA
4132570 ATTTCGTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:4145152 original size:49 final size:47
Alignment explanation
Indices: 4145011--4145362 Score: 614
Period size: 49 Copynumber: 7.3 Consensus size: 47
4145001 ATTTTGTTAC
4145011 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
4145060 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
*
4145107 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAAAGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
*
4145156 GATGAATGTGAAAGTGTATGCGTATGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAAAGTGTAT--GTATGTGATAAGGCCGAATGGCCAATGT
4145205 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
4145252 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
4145301 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
4145348 GATGAATGTGAAAGT
1 GATGAATGTGAAAGT
4145363 CTTACTCATC
Statistics
Matches: 293, Mismatches: 4, Indels: 14
0.94 0.01 0.05
Matches are distributed among these distances:
47 136 0.46
49 156 0.53
51 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:4145175 original size:96 final size:94
Alignment explanation
Indices: 4145011--4145362 Score: 614
Period size: 96 Copynumber: 3.7 Consensus size: 94
4145001 ATTTTGTTAC
4145011 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
4145076 TATGTATGTGATAAGGCCGAATGGCCAATGT
64 TATGTATGTGATAAGGCCGAATGGCCAATGT
*
4145107 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAAAGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
4145172 TATGCGTATGTGATAAGGCCAAATGGCCAATGT
64 TAT--GTATGTGATAAGGCCGAATGGCCAATGT
4145205 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
4145270 TGTATATGTGATAAGGCCGAATGGCCAATGT
66 TG--TATGTGATAAGGCCGAATGGCCAATGT
4145301 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
4145363 CTTACTCATC
Statistics
Matches: 248, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
94 1 0.00
96 200 0.81
98 47 0.19
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (94 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
TGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:4145274 original size:145 final size:144
Alignment explanation
Indices: 4145011--4145362 Score: 652
Period size: 145 Copynumber: 2.4 Consensus size: 144
4145001 ATTTTGTTAC
*
4145011 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATG-GTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
4145076 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGG
65 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGG
4145141 CCGAAAGGCCAATGT
130 CCGAAAGGCCAATGT
*
4145156 GATGAATGTGAAAGTGTATGCGTATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATG-GTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
4145221 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGG
65 TATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGG
*
4145286 CCGAATGGCCAATGT
130 CCGAAAGGCCAATGT
4145301 GATGAATGTGAAAGTGTAT-GTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GATGAATGTGAAAGTGTATGGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
4145363 CTTACTCATC
Statistics
Matches: 202, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
143 42 0.21
145 160 0.79
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (144 bp):
GATGAATGTGAAAGTGTATGGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
ATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGC
CGAAAGGCCAATGT
Found at i:4148855 original size:42 final size:42
Alignment explanation
Indices: 4148694--4148856 Score: 197
Period size: 42 Copynumber: 3.9 Consensus size: 42
4148684 TAATATACCA
* * *
4148694 ATGCCATATCCCAGATATGGTCTTACA-TAGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * * *
4148736 ATGTCCATAGCCTAGCTATGGTCTTACACGAAATCTCATATCG
1 ATG-CCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
4148779 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATGAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCAT-ATCG
*
4148821 ATGCCATATCCCAGAAATGGTCTTACAC-ATAGTCTC
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTC
4148857 GGTAACCCTA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 68 0.65
43 35 0.33
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:4157788 original size:11 final size:11
Alignment explanation
Indices: 4157772--4157796 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4157762 TCTCAAACTC
4157772 ATTAATAATTT
1 ATTAATAATTT
4157783 ATTAATAATTT
1 ATTAATAATTT
4157794 ATT
1 ATT
4157797 GCATTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTAATAATTT
Found at i:4165788 original size:40 final size:40
Alignment explanation
Indices: 4165688--4165952 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
4165678 GCTCCTCGTT
* * * *
4165688 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
4165728 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
4165767 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
4165807 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
4165847 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
4165887 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
4165928 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
4165953 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:4165912 original size:80 final size:80
Alignment explanation
Indices: 4165655--4165952 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
4165645 AAATCACGTA
* ** * * *
4165655 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
4165717 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
4165733 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
4165796 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
4165813 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
4165877 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
4165893 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
4165953 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:4165961 original size:41 final size:41
Alignment explanation
Indices: 4165884--4165961 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
4165874 TTTGTATCTC
* * *
4165884 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
4165925 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
4165962 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:4173680 original size:40 final size:40
Alignment explanation
Indices: 4173636--4173897 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
4173626 GCTCCTCGTT
* *
4173636 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
4173676 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4173716 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4173755 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4173794 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
4173833 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
4173874 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4173898 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:4174994 original size:14 final size:14
Alignment explanation
Indices: 4174975--4175001 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4174965 AGGATGAGCA
4174975 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
4174989 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
4175002 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:4176631 original size:18 final size:18
Alignment explanation
Indices: 4176594--4176632 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4176584 GAGATACATC
* *
4176594 TGATTGCGCCAACACCTT
1 TGATTGCGACAACAACTT
*
4176612 TGATTGCGACAACAATTT
1 TGATTGCGACAACAACTT
4176630 TGA
1 TGA
4176633 GGGTCAGACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (18 bp):
TGATTGCGACAACAACTT
Found at i:4181377 original size:45 final size:45
Alignment explanation
Indices: 4181301--4181518 Score: 228
Period size: 45 Copynumber: 4.8 Consensus size: 45
4181291 TGGTTAAAAT
* *** * * *
4181301 ATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCACA-AATCAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATACCA-GAA
* * * *
4181346 ACGAGTAAGACCATAGTTGAAAAACACTATGGCATTATACCAGAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATACCAGAA
4181391 ATGAATAAGACCATAGTTGAAAGACACTATGGCA-CTATACCAGAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATC-ATACCAGAA
* *
4181436 ATGAATAAGACCATAGTTGAAAGACACTATGGCA-CTATA-CTGGA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATC-ATACCAGAA
* * *
4181480 ATCGAATAAGACCATAGTTGAAATATACTATAGCATCAT
1 AT-GAATAAGACCATAGTTGAAAGACACTATGGCATCAT
4181519 GTCGGAAATA
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
44 5 0.03
45 144 0.95
46 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (45 bp):
ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATACCAGAA
Found at i:4181534 original size:45 final size:45
Alignment explanation
Indices: 4181351--4181502 Score: 252
Period size: 45 Copynumber: 3.4 Consensus size: 45
4181341 ATCAAACGAG
* *
4181351 TAAGACCATAGTTGAAAAACACTATGGCATTATACCAGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATGAA
4181396 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATGAA
* *
4181441 TAAGACCATAGTTGAAAGACACTATGGCACTATA-CTGGAATCGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAAT-GAA
4181486 TAAGACCATAGTTGAAA
1 TAAGACCATAGTTGAAA
4181503 TATACTATAG
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
44 5 0.05
45 97 0.95
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAAATGAA
Found at i:4181547 original size:90 final size:90
Alignment explanation
Indices: 4181351--4181556 Score: 227
Period size: 90 Copynumber: 2.3 Consensus size: 90
4181341 ATCAAACGAG
* * *
4181351 TAAGACCATAGTTGAAAAACACTATGGCATTATACCAGAAATGAATAAGACCATAGTTGAAAGAC
1 TAAGACCATAGCTGAAAGACACTATGGCACTATACCAGAAATGAATAAGACCATAGTTGAAAGAC
* *
4181416 ACTATGGCACTATACCAGAAATGAA
66 ACTATAGCACTATACCAGAAATAAA
* * * *
4181441 TAAGACCATAGTTGAAAGACACTATGGCACTATA-CTGGAATCGAATAAGACCATAGTTGAAATA
1 TAAGACCATAGCTGAAAGACACTATGGCACTATACCAGAAAT-GAATAAGACCATAGTTGAAAGA
* ** *
4181505 TACTATAGCA-TCATGTCGGAAATAAA
65 CACTATAGCACT-ATACCAGAAATAAA
* * * *
4181531 TAAGGCCGTGGCTGAAAGACGCTATG
1 TAAGACCATAGCTGAAAGACACTATG
4181557 ATATCTTTGA
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
89 6 0.06
90 92 0.94
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (90 bp):
TAAGACCATAGCTGAAAGACACTATGGCACTATACCAGAAATGAATAAGACCATAGTTGAAAGAC
ACTATAGCACTATACCAGAAATAAA
Found at i:4183452 original size:25 final size:25
Alignment explanation
Indices: 4183400--4183472 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
4183390 AACCAAACTC
* *
4183400 AGCCTTTGTGGCAAATTACCTGTAA
1 AGCCTTTGTGGCAAATTATCTGGAA
* * *
4183425 AGCCTTTGTGACAAATTATTTGGGA
1 AGCCTTTGTGGCAAATTATCTGGAA
*
4183450 AGCCTTAGTGGCGAAATTATCTG
1 AGCCTTTGTGGC-AAATTATCTG
4183473 AGATGCCTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 30 0.77
26 9 0.23
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (25 bp):
AGCCTTTGTGGCAAATTATCTGGAA
Found at i:4183469 original size:26 final size:26
Alignment explanation
Indices: 4183400--4183489 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 26
4183390 AACCAAACTC
* *
4183400 AGCCTTTGTGGC-AAATTACCTGTA-A
1 AGCCTTAGTGGCGAAATTATCTG-AGA
* * * *
4183425 AGCCTTTGTGAC-AAATTATTTGGGA
1 AGCCTTAGTGGCGAAATTATCTGAGA
4183450 AGCCTTAGTGGCGAAATTATCTGAGA
1 AGCCTTAGTGGCGAAATTATCTGAGA
* *
4183476 TGCCTTCGTGGCGA
1 AGCCTTAGTGGCGA
4183490 GTCATCTGGA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 30 0.57
26 23 0.43
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (26 bp):
AGCCTTAGTGGCGAAATTATCTGAGA
Found at i:4186120 original size:39 final size:39
Alignment explanation
Indices: 4186073--4186466 Score: 689
Period size: 39 Copynumber: 10.1 Consensus size: 39
4186063 ATGCAAGACA
* * *
4186073 CTGGAAATGTATCCGGGCTAAAGTCCTGCAAGCTTAGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
4186112 CTAGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
**
4186151 CTGGAAATGTATCCGGGCTAAAGTCCCATAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
4186190 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
4186229 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
4186268 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
4186307 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
4186346 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
4186385 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
4186424 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
4186463 CTGG
1 CTGG
4186467 TAATATAATT
Statistics
Matches: 342, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 342 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:4189302 original size:15 final size:15
Alignment explanation
Indices: 4189282--4189311 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4189272 AATTGGATTA
*
4189282 AGAAAATTATTTAAT
1 AGAAAATTAATTAAT
4189297 AGAAAATTAATTAAT
1 AGAAAATTAATTAAT
4189312 TTAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AGAAAATTAATTAAT
Found at i:4189771 original size:32 final size:32
Alignment explanation
Indices: 4189731--4189798 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
4189721 AGAGAGAAAG
4189731 TTTT-ACTTTCCCACTGAAAGTAAAGAAAATA
1 TTTTCACTTTCCCACTGAAAGTAAAGAAAATA
4189762 TTTTCACTTTCCCACTGAAAGTAAAGAAAATA
1 TTTTCACTTTCCCACTGAAAGTAAAGAAAATA
4189794 TTTTC
1 TTTTC
4189799 TAGTTTTGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (32 bp):
TTTTCACTTTCCCACTGAAAGTAAAGAAAATA
Found at i:4191853 original size:17 final size:18
Alignment explanation
Indices: 4191822--4191857 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4191812 TCATATCAAC
*
4191822 AAATATTTTTTAAAAAAT
1 AAATATTTTTAAAAAAAT
4191840 AAATA-TTTTAAAAAAAT
1 AAATATTTTTAAAAAAAT
4191857 A
1 A
4191858 CATCTAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATTTTTAAAAAAAT
Found at i:4199004 original size:36 final size:36
Alignment explanation
Indices: 4198954--4199025 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
4198944 TGACAAGTTA
4198954 GTATTTTCAGTCTTAGATTATTATTCTAACTTTGTG
1 GTATTTTCAGTCTTAGATTATTATTCTAACTTTGTG
*
4198990 GTATTTTCATTCTTAGATTATTATTCTAACTTTGTG
1 GTATTTTCAGTCTTAGATTATTATTCTAACTTTGTG
4199026 TCTCTTAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.54
Consensus pattern (36 bp):
GTATTTTCAGTCTTAGATTATTATTCTAACTTTGTG
Found at i:4204028 original size:93 final size:93
Alignment explanation
Indices: 4203917--4204129 Score: 327
Period size: 93 Copynumber: 2.3 Consensus size: 93
4203907 AGCCTTGTTA
* *
4203917 TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCTGGAAT
1 TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCCGAAAT
** **
4203982 TTGTGAATTCCTTGGAGGTTCAACAGAT
66 TAATGAACCCCTTGGAGGTTCAACAGAT
* * * *
4204010 TCTTCAGCTTTACTGATCTTTTTCTTGTTCTTCTTCTCTGTTTTCTCTTGGACAACTTCCGAAAT
1 TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCCGAAAT
4204075 TAATGAACCCCTTGGAGGTTCAACAGAT
66 TAATGAACCCCTTGGAGGTTCAACAGAT
*
4204103 TCTTTAGCTTTGCTGATCTTCTTCTTG
1 TCTTTAGCTTTACTGATCTTCTTCTTG
4204130 GTTTTCTCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 107 1.00
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (93 bp):
TCTTTAGCTTTACTGATCTTCTTCTTGTTCTTCTTCTCGGTTTTCTCTTCGACAACTTCCGAAAT
TAATGAACCCCTTGGAGGTTCAACAGAT
Found at i:4216754 original size:69 final size:68
Alignment explanation
Indices: 4216472--4217045 Score: 447
Period size: 69 Copynumber: 8.3 Consensus size: 68
4216462 ACATTTATGC
* * * *
4216472 CATATTAAGGCTCCTAGGATAAAAACCGTAGCCTCCAACATAATTAGCGAGAGCAAAGCTTCCAA
1 CATATTAAGGCTCGTAGGATAAAAA-CATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAA
4216537 CTGT
65 CTGT
* * * ** * * * *
4216541 CTTATTAAGGCTTGCAGG-TGAAGAGCCACAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCTA
1 CATATTAAGGCTCGTAGGAT-AA-AAACATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCA
*
4216605 GCTGT
64 ACTGT
* * ** * * * **
4216610 TATATTAAGGCTCGTAAGTGA-AGAGTCATAGCCTTCAACATAGTTAGAGAGAGAAAAGCTCTTA
1 CATATTAAGGCTCGT-AG-GATAAAAACATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCA
*
4216674 GCTGT
64 ACTGT
* * * *
4216679 TATATTAAGGCTCGTAGGATAAAAATCATAGCCTCTAATATAGTTAGCGAGAGCAAAGTTCCCAA
1 CATATTAAGGCTCGTAGGATAAAAA-CATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAA
4216744 CTGT
65 CTGT
* * * * * *
4216748 CCTATTAAAGCTCATAGGATAAAAAC-T-GCAGCTCCAATATAGCTAGTGAGAGCAAAGCTCCCA
1 CATATTAAGGCTCGTAGGATAAAAACATAGC--CTCCAACATAGTTAGCGAGAGCAAAGCTCCCA
**
4216811 GTTGT
64 ACTGT
* *** * * * * * *
4216816 CATGTTAAAATTTGTAGAATAAAAAC-TGCAACCTCAAACACAGTTAGCGAAAGCAAAGCTCCCA
1 CATATTAAGGCTCGTAGGATAAAAACAT--AGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCA
* **
4216880 GCAAT
64 ACTGT
* * * ** *
4216885 CATACTAAGGCTCATAGGATAAAAACTATAGCCTCCAATATAGTTAGTAAGAGTAAAGCTCCCAA
1 CATATTAAGGCTCGTAGGATAAAAAC-ATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAA
4216950 CTGT
65 CTGT
* * *
4216954 CATATTAAGGCTCGTAGGATAAAAACTGTAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCCCAA
1 CATATTAAGGCTCGTAGGATAAAAAC-ATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAA
*
4217019 CTGC
65 CTGT
* * *
4217023 CATACTAAGGCTTGCAGGATAAA
1 CATATTAAGGCTCGTAGGATAAA
4217046 GATCGCAGCC
Statistics
Matches: 395, Mismatches: 96, Indels: 28
0.76 0.18 0.05
Matches are distributed among these distances:
66 2 0.01
67 3 0.01
68 57 0.14
69 326 0.83
70 4 0.01
71 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (68 bp):
CATATTAAGGCTCGTAGGATAAAAACATAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAAC
TGT
Found at i:4220736 original size:47 final size:47
Alignment explanation
Indices: 4220620--4220752 Score: 155
Period size: 46 Copynumber: 2.9 Consensus size: 47
4220610 ATAATCTCAC
*
4220620 CCATAATGAACTCGGAACGCAACTCAACGAGCTCAGG-TG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC-GGATGCTTCACAT
* * * *
4220666 TCATAATTAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * *
4220712 CCATAGGTGAACTCGGAACGCAACTCAATGAGTTCAGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
4220753 CTCATAATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 39 0.53
47 32 0.44
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:4226129 original size:3 final size:3
Alignment explanation
Indices: 4226123--4226166 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4226113 CTTCTTCATT
4226123 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4226167 TCCCTTCCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4226598 original size:23 final size:24
Alignment explanation
Indices: 4226554--4226599 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4226544 GAGACCAATT
* *
4226554 TTGTTTTGTGAATCATATATATTA
1 TTGTTTTATGAATAATATATATTA
4226578 TTGTTTTATGAA-AATATATATT
1 TTGTTTTATGAATAATATATATT
4226600 GCAATTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (24 bp):
TTGTTTTATGAATAATATATATTA
Found at i:4227307 original size:17 final size:19
Alignment explanation
Indices: 4227277--4227316 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
4227267 CCTATTTATC
4227277 ATTTATATATTTTA-AATAT
1 ATTTATATATTTTATAAT-T
4227296 ATTTATA-A-TTTATAATT
1 ATTTATATATTTTATAATT
4227313 ATTT
1 ATTT
4227317 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 9 0.45
18 4 0.20
19 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATATATTTTATAATT
Found at i:4228853 original size:17 final size:18
Alignment explanation
Indices: 4228813--4228858 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
4228803 AAGAAACTAG
4228813 TTCTTTATATATTCTTAT
1 TTCTTTATATATTCTTAT
4228831 TT-TTTAGTA-ATT-TTAT
1 TTCTTTA-TATATTCTTAT
4228847 TTCTTTAT-TATT
1 TTCTTTATATATT
4228859 ATTTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 10 0.40
17 11 0.44
18 4 0.16
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (18 bp):
TTCTTTATATATTCTTAT
Found at i:4231027 original size:14 final size:14
Alignment explanation
Indices: 4231008--4231037 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4230998 GCTACATATT
4231008 TTTTATCATTTTAG
1 TTTTATCATTTTAG
*
4231022 TTTTATCCTTTTAG
1 TTTTATCATTTTAG
4231036 TT
1 TT
4231038 ACTTGTCGTT
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:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTATCATTTTAG
Found at i:4231567 original size:31 final size:31
Alignment explanation
Indices: 4231524--4231585 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
4231514 AATTAACGTC
*
4231524 AAGTAACTAAAATGATAAAAGCATGTAAGGA
1 AAGTAACCAAAATGATAAAAGCATGTAAGGA
* *
4231555 AAGTAACCAAAATGATGAAAGTATGTAAGGA
1 AAGTAACCAAAATGATAAAAGCATGTAAGGA
4231586 TAGTGCCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.19
Consensus pattern (31 bp):
AAGTAACCAAAATGATAAAAGCATGTAAGGA
Found at i:4233372 original size:14 final size:14
Alignment explanation
Indices: 4233349--4233388 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
4233339 GCTCCATTTG
*
4233349 TTCT-GAAAATGGT
1 TTCTGGAAAATGAT
4233362 TTCTGGAAAATGAT
1 TTCTGGAAAATGAT
4233376 TTCTGGAAAATGA
1 TTCTGGAAAATGA
4233389 ATTACTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (14 bp):
TTCTGGAAAATGAT
Found at i:4233927 original size:19 final size:19
Alignment explanation
Indices: 4233900--4233936 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4233890 GTCTAAGTGC
*
4233900 ATAACTAGTATTACACCAT
1 ATAACTAGTACTACACCAT
*
4233919 ATAATTAGTACTACACCA
1 ATAACTAGTACTACACCA
4233937 CATTAAAGCA
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:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACTAGTACTACACCAT
Found at i:4234923 original size:32 final size:32
Alignment explanation
Indices: 4234882--4234960 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
4234872 TGTCAATCAT
4234882 TTCAATATCCAACAAGC-TTAAAACATAATAAA
1 TTCAATATCCAACAA-CTTTAAAACATAATAAA
*
4234914 TTCAATATCCAACAACTTTAAAACATAATAAT
1 TTCAATATCCAACAACTTTAAAACATAATAAA
*
4234946 TTCAAAATCCAACAA
1 TTCAATATCCAACAA
4234961 ACGAATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.52, C:0.20, G:0.01, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAACTTTAAAACATAATAAA
Found at i:4236644 original size:2 final size:2
Alignment explanation
Indices: 4236627--4236662 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
4236617 TTTGGCTGAT
4236627 TC TC TAC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC T-C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4236663 AAGATTTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4253925 original size:6 final size:6
Alignment explanation
Indices: 4253906--4253947 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
4253896 GATAATGATG
* *
4253906 TTTAAT TTTA-T TTTATT TTTATT TTTATT TTATGTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT
4253948 AATTTCACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:4253945 original size:13 final size:12
Alignment explanation
Indices: 4253906--4253947 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
4253896 GATAATGATG
*
4253906 TTTAATTTTA-T
1 TTTATTTTTATT
4253917 TTTATTTTTATT
1 TTTATTTTTATT
*
4253929 TTTATTTTATGTT
1 TTTATTTT-TATT
4253942 TTTATT
1 TTTATT
4253948 AATTTCACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 9 0.33
12 9 0.33
13 9 0.33
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:4260258 original size:39 final size:39
Alignment explanation
Indices: 4260212--4260312 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
4260202 GCTCTGATGA
* *
4260212 GCTTCAGTTAGCCTTCGGGGTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
4260251 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
4260290 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
4260313 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.13, C:0.25, G:0.25, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:4263870 original size:40 final size:39
Alignment explanation
Indices: 4263772--4264034 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
4263762 TCCTCGTTCA
* * * *
4263772 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
4263811 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
4263850 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
4263890 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
4263930 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
4263970 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
4264011 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
4264035 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:4263994 original size:120 final size:119
Alignment explanation
Indices: 4263772--4264034 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
4263762 TCCTCGTTCA
* * *
4263772 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
4263837 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
4263890 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
4263955 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
4264011 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
4264035 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:4264043 original size:41 final size:41
Alignment explanation
Indices: 4263966--4264043 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
4263956 TTTGTATCTC
* * *
4263966 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
4264007 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
4264044 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:4275937 original size:45 final size:45
Alignment explanation
Indices: 4275863--4275991 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
4275853 CACGAACCGA
* * * *
4275863 ATAT-GATGCCGATGTCTCAGACAAT-GTCTTACACGTAACCACAT
1 ATATCGATGCCGACGTCCCAGAC-ATGGTCTTACACGAAAACACAT
*
4275907 ATATCGATGTCGACGTCCCAGACATGGTCTTACACGAAAACACAT
1 ATATCGATGCCGACGTCCCAGACATGGTCTTACACGAAAACACAT
* * * *
4275952 ATATCGATGCCAACATCCCAGACGTGGTCTTACTCGAAAA
1 ATATCGATGCCGACGTCCCAGACATGGTCTTACACGAAAA
4275992 TACAAATCGG
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
44 6 0.08
45 67 0.92
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (45 bp):
ATATCGATGCCGACGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:4278899 original size:54 final size:54
Alignment explanation
Indices: 4278693--4278899 Score: 143
Period size: 55 Copynumber: 3.9 Consensus size: 54
4278683 TTTCCTTTTT
* * * * * ** *
4278693 AAACTTACCATTTCCATGTC-TGACATGGGCTTACGGGGTATCCTGGCCTTAT-
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTTGCCTTATA
* * * * * *
4278745 GAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATA
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTTGCCTTATA
* ** * * * * * *
4278799 GTAGTTTATCAATGGCC-TGTCTTGACATGGTCTTACATT-ATTTCCTTGCCTTGTA
1 -AAACTTACCAAT-GCCATGCCTTGGCATGGTCTTAC-TTGGTATCCTTGCCTTATA
*
4278854 AAACTTACCAATGCCATGCCTTGGCATAGTCTTACTTGGTATCCTT
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
4278900 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 34, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
52 16 0.14
53 30 0.26
54 30 0.26
55 34 0.30
56 4 0.04
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (54 bp):
AAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTTGCCTTATA
Found at i:4286574 original size:45 final size:45
Alignment explanation
Indices: 4286413--4286590 Score: 163
Period size: 45 Copynumber: 4.0 Consensus size: 45
4286403 ATGCTATCTC
* * * * * *
4286413 ATATCGATGCCACTGTCCCAGATAGGGTTTTACACG-AATC-GA-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
* * *
4286455 ATA-CGATGTCGATGTCCCAGACATGGTCTTACAC-ATAACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGA-AAACACAT
*
4286499 ATATCGATGCCAATGTACCA-A-ATGTTGTCTTACACGAAAACACAT
1 ATATCGATGCCAATGTCCCAGACATG--GTCTTACACGAAAACACAT
* * *
4286544 ATATCGATGCCAATGTCCCAGACATGGTCTTACTCAAAAATACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
4286589 AT
1 AT
4286591 CGAAATCTTA
Statistics
Matches: 110, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
41 25 0.23
42 6 0.05
43 4 0.04
44 4 0.04
45 66 0.60
46 2 0.02
47 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:4290961 original size:18 final size:19
Alignment explanation
Indices: 4290940--4290978 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4290930 TTTTTCCTTT
4290940 TTTTTC-TACTTTCTTTTC
1 TTTTTCTTACTTTCTTTTC
* *
4290958 TTTTTCTTTCTTTTTTTTC
1 TTTTTCTTACTTTCTTTTC
4290977 TT
1 TT
4290979 GTTCATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTACTTTCTTTTC
Found at i:4290964 original size:6 final size:6
Alignment explanation
Indices: 4290949--4291018 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
4290939 TTTTTTCTAC
* * * *
4290949 TTTC-T TTTCTT TTTCTT TCTTTTT TTTCTT GTTCAT TTTCAT TTTCATT
1 TTTCTT TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTC-TT
*
4290998 CTTT-TT TTTCTT GTTCTT TTT
1 -TTTCTT TTTCTT TTTCTT TTT
4291019 AATTTGATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
5 7 0.13
6 36 0.69
7 6 0.12
8 3 0.06
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:4290971 original size:31 final size:31
Alignment explanation
Indices: 4290936--4291023 Score: 108
Period size: 31 Copynumber: 2.8 Consensus size: 31
4290926 TCACTTTTTC
* *
4290936 CTTTTTTTTCTACT-TTC-TTTTCTTTTTCTTT
1 CTTTTTTTTCT--TGTTCATTTTCATTTTCATT
4290967 CTTTTTTTTCTTGTTCATTTTCATTTTCATT
1 CTTTTTTTTCTTGTTCATTTTCATTTTCATT
* *
4290998 CTTTTTTTTCTTGTTCTTTTTAATTT
1 CTTTTTTTTCTTGTTCATTTTCATTT
4291024 GATTTTTCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 3 0.06
31 47 0.92
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (31 bp):
CTTTTTTTTCTTGTTCATTTTCATTTTCATT
Found at i:4292966 original size:50 final size:49
Alignment explanation
Indices: 4292891--4293027 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 49
4292881 TGAATACACG
* *
4292891 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCATACTT-TTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TTGTTAA-TCGCA
* * * *
4292941 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGTTAATCGCA
* * *
4292990 TATGTAGTACTAATTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT
4293028 AGTTTCGGCT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
49 39 0.53
50 35 0.47
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGTTAATCGCA
Found at i:4296651 original size:45 final size:45
Alignment explanation
Indices: 4296567--4296669 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 45
4296557 TCAGCTCGAA
* * * *
4296567 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCATTTCAGCTT-GT
1 AGAGCTTACTG--ATCAGCTCAATAGAGCTTACCATTTCAGCTTAAT
* *
4296613 ATGAGCTTACTGATCAGCTCAATAGAGCTTATCGTTTCAGCTTAAT
1 A-GAGCTTACTGATCAGCTCAATAGAGCTTACCATTTCAGCTTAAT
4296659 AGAGCTTACTG
1 AGAGCTTACTG
4296670 TTTATCAGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 36 0.73
46 3 0.06
47 10 0.20
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (45 bp):
AGAGCTTACTGATCAGCTCAATAGAGCTTACCATTTCAGCTTAAT
Found at i:4296672 original size:23 final size:23
Alignment explanation
Indices: 4296567--4296681 Score: 92
Period size: 23 Copynumber: 4.9 Consensus size: 23
4296557 TCAGCTCGAA
* *
4296567 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTTAAT
* ** *
4296591 GGAGCTTACCATTTCAGCTT-GT
1 AGAGCTTACTGTTTCAGCTTAAT
* *
4296613 ATGAGCTTACTG-ATCAGCTCAAT
1 A-GAGCTTACTGTTTCAGCTTAAT
4296636 AGAGCTTA-TCGTTTCAGCTTAAT
1 AGAGCTTACT-GTTTCAGCTTAAT
4296659 AGAGCTTACTGTTTATCAGCTTA
1 AGAGCTTACTG-TT-TCAGCTTA
4296682 GGAGGAGCTT
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
21 1 0.01
22 15 0.21
23 36 0.51
24 11 0.15
25 8 0.11
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTTAAT
Found at i:4299693 original size:27 final size:27
Alignment explanation
Indices: 4299636--4299697 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
4299626 CAAAACAGTC
* * * *
4299636 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGATATGTCGGTA
* *
4299663 ATTTTACACTACAAGGATATTTTGGTA
1 ATTTTACACTACAAGGATATGTCGGTA
4299690 ATTTTACA
1 ATTTTACA
4299698 AATCGAGGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGATATGTCGGTA
Found at i:4299870 original size:80 final size:81
Alignment explanation
Indices: 4299680--4299882 Score: 259
Period size: 80 Copynumber: 2.5 Consensus size: 81
4299670 ACTACAAGGA
* * * * *
4299680 TATTTTGGTAATTTTACAAA-TCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTCGATA
1 TATTTCGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCGATA
4299744 ATTTCACAAATAGGGAG
65 ATTTCACAAATAGGGAG
* *
4299761 TATTTCGATAATTTTACAAATCT-AAGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCGATA
1 TATTTCGGTAATTTTACAAA-CTGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCGATA
* *
4299824 ATTTTACAAATCGGGAG
65 ATTTCACAAATAGGGAG
* **
4299841 TATTTCGGTAATTTTACAAACTGGGGGTATTTTTGTAATTTC
1 TATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTC
4299883 TCTTCATTAT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.02
80 67 0.64
81 35 0.33
83 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (81 bp):
TATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCGATAA
TTTCACAAATAGGGAG
Found at i:4299872 original size:27 final size:27
Alignment explanation
Indices: 4299680--4299860 Score: 215
Period size: 27 Copynumber: 6.7 Consensus size: 27
4299670 ACTACAAGGA
*
4299680 TATTTTGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
4299707 TGTTTCGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
* * * *
4299734 TGTTTCGATAATTTCACAAATAG-GGAG
1 TATTTCGGTAATTTTACAAATCGAGG-G
* * *
4299761 TATTTCGATAATTTTACAAATCTAAGG
1 TATTTCGGTAATTTTACAAATCGAGGG
* *
4299788 TATTTCAGTAATTTCAC-AATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
4299814 TATTTCGATAATTTTACAAATCG-GGAG
1 TATTTCGGTAATTTTACAAATCGAGG-G
4299841 TATTTCGGTAATTTTACAAA
1 TATTTCGGTAATTTTACAAA
4299861 CTGGGGGTAT
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.19
27 105 0.80
28 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGG
Found at i:4303786 original size:29 final size:29
Alignment explanation
Indices: 4303721--4303810 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
4303711 CACATACCTG
*
4303721 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
4303749 TATACGGCCCATTAGGCCCAAATCACGTT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
4303778 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
4303807 TATA
1 TATA
4303811 GTCATGCTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.31
29 37 0.69
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:4307770 original size:29 final size:29
Alignment explanation
Indices: 4307706--4307795 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
4307696 CGCATACCTG
*
4307706 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
4307734 TATTTGGCCCATTAGGCCCAAATCTCATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
4307763 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
4307792 TATA
1 TATA
4307796 GTCATGCGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.31
29 37 0.69
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:4308029 original size:16 final size:16
Alignment explanation
Indices: 4308008--4308050 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
4307998 GTAGTTAAAC
4308008 TTTCAGCTTTTTGGAA
1 TTTCAGCTTTTTGGAA
*
4308024 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGAA
4308040 TTTCAGCTTTT
1 TTTCAGCTTTT
4308051 GCCGATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTCAGCTTTTTGGAA
Found at i:4311146 original size:37 final size:37
Alignment explanation
Indices: 4311088--4311306 Score: 411
Period size: 37 Copynumber: 5.9 Consensus size: 37
4311078 GCTCAGACGA
* * *
4311088 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
4311125 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
4311162 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
4311199 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
4311236 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
4311273 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
4311307 ATATATTTCC
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 179 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:4311577 original size:48 final size:49
Alignment explanation
Indices: 4311453--4311589 Score: 215
Period size: 50 Copynumber: 2.8 Consensus size: 49
4311443 GCACATCGCC
*
4311453 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
* *
4311502 AACTATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC-A
1 TAC-ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
4311551 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
4311590 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
48 33 0.41
49 7 0.09
50 40 0.50
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:4311592 original size:50 final size:50
Alignment explanation
Indices: 4311453--4311641 Score: 207
Period size: 50 Copynumber: 3.9 Consensus size: 50
4311443 GCACATCGCC
*
4311453 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCAA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTC-A
*
4311502 AACTATATTTCACATT-GACCATTCGGCTTTACCAC--ATATGCATATCTCA
1 TAC-ATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCTCA
*
4311551 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
* * * * *
4311600 T--AT-TCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCAT
4311642 GCTCACATTC
Statistics
Matches: 123, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
46 1 0.01
47 34 0.28
48 32 0.26
49 11 0.09
50 45 0.37
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (50 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCTCA
Found at i:4311638 original size:47 final size:47
Alignment explanation
Indices: 4311559--4311799 Score: 356
Period size: 47 Copynumber: 5.1 Consensus size: 47
4311549 CATACATATT
* * * *
4311559 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
4311606 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
4311653 TCACATTGGCCATTCGACCCTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
4311700 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
4311747 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
4311794 TCACAT
1 TCACAT
4311800 AAAATCCTAA
Statistics
Matches: 176, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 176 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:4311685 original size:94 final size:94
Alignment explanation
Indices: 4311511--4311799 Score: 359
Period size: 94 Copynumber: 3.1 Consensus size: 94
4311501 AAACTATATT
* * * * *
4311511 TCACATTGACCATTCGGCTTTA-C-CACATATGCATATCTCATACATAT-TTCACATTAGCCATT
1 TCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC--ACAT-TCATCACATTGGCCATT
* * *
4311573 CGGCTTTACCACATATATGCATGTTCATATTCA
62 CGGCCTTATCACATATATGCATGTTCACATTCA
*
4311606 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGAC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
* *
4311671 CCTATCACATATATGCATGCTCACATTCA
66 CTTATCACATATATGCATGTTCACATTCA
* * *
4311700 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
* * **
4311765 CTTATCTCATATATACACATTCACATTCA
66 CTTATCACATATATGCATGTTCACATTCA
4311794 TCACAT
1 TCACAT
4311800 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
93 1 0.01
94 134 0.79
95 20 0.12
96 4 0.02
97 11 0.06
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATGCATGTTCACATTCA
Done.