Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 200 of 356
Found at i:65213376 original size:28 final size:28
Alignment explanation
Indices: 65213326--65213416 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
65213316 GTGACAGAGT
* *
65213326 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
65213355 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
65213383 CACCAGAACATATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
65213411 CACCAG
1 CACCAG
65213417 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:65213622 original size:28 final size:28
Alignment explanation
Indices: 65213522--65213614 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
65213512 AAATTAACCC
* *
65213522 TAGGGGTATAAAGGTTATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
65213550 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
65213578 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
65213606 TAGGGGTAT
1 TAGGGGTAT
65213615 TCTAGTAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:65243210 original size:31 final size:31
Alignment explanation
Indices: 65243168--65243282 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
65243158 TTAGTCTTGG
*
65243168 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
65243198 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
65243229 CATATTACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
65243260 CATATCATTGGGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
65243283 ACTGTAAACG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:65243353 original size:42 final size:42
Alignment explanation
Indices: 65243306--65243397 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
65243296 TGACCTTTAG
65243306 GCCCATTTCAATATCACATGTAATGTCAATGGA-TGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAAT-GATTGTATGCAA
65243348 GCCCATTTCAATATCACATGTAATGTCAATGATTGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGATTGTATGCAA
65243390 GCCCATTT
1 GCCCATTT
65243398 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGATTGTATGCAA
Found at i:65243568 original size:24 final size:24
Alignment explanation
Indices: 65243518--65243589 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
65243508 GCTTTATCAT
**
65243518 ATAACTGGAGGCCTAGCCTCTTT-TA
1 ATAACTGG-GGCAAAGCC-CTTTCTA
65243543 ATAACTGGGGCAAAGCCCTTTCTA
1 ATAACTGGGGCAAAGCCCTTTCTA
*
65243567 ATAAACTAGGGCAAAGCCCTTTC
1 AT-AACTGGGGCAAAGCCCTTTC
65243590 CGGTAAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 4 0.10
24 11 0.26
25 27 0.64
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCCTTTCTA
Found at i:65243573 original size:25 final size:25
Alignment explanation
Indices: 65243532--65243613 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
65243522 CTGGAGGCCT
65243532 AGCCTCTTT-TAAT-AACTGGGGCAA
1 AGCC-CTTTCTAATAAACTGGGGCAA
*
65243556 AGCCCTTTCTAATAAACTAGGGCAA
1 AGCCCTTTCTAATAAACTGGGGCAA
*** * *
65243581 AGCCCTTTCCGGTAAATTGGGGCAG
1 AGCCCTTTCTAATAAACTGGGGCAA
65243606 AGCCCTTT
1 AGCCCTTT
65243614 TAGCACTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 4 0.08
24 8 0.16
25 37 0.76
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (25 bp):
AGCCCTTTCTAATAAACTGGGGCAA
Found at i:65244455 original size:27 final size:27
Alignment explanation
Indices: 65244425--65244489 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
65244415 GGGCATATTC
65244425 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
65244452 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
65244479 GTCTTTTTACC
1 GTCATTTTACC
65244490 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:65244621 original size:29 final size:27
Alignment explanation
Indices: 65244543--65244651 Score: 78
Period size: 27 Copynumber: 3.9 Consensus size: 27
65244533 GTAAATCTAC
*
65244543 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCTGTAATTTTGT
* * *
65244570 AAACCAATGGTATTTTTTATAATTTT-T
1 AAACCAAGGGTA-TTTCTGTAATTTTGT
* *
65244597 AAAAAGTCAAGGGTATTTCTGTAATTTTGG
1 --AAA-CCAAGGGTATTTCTGTAATTTTGT
** *
65244627 AAATTAGGGGTATTT-TGGTAATTTT
1 AAACCAAGGGTATTTCT-GTAATTTT
65244652 ACAAATTGAG
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.02
27 30 0.46
28 13 0.20
29 14 0.22
30 7 0.11
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTGTAATTTTGT
Found at i:65244640 original size:27 final size:27
Alignment explanation
Indices: 65244606--65244676 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
65244596 TAAAAAGTCA
**
65244606 AGGGTATTTCTGTAATTTTGGAAATT-
1 AGGGTATTTCTGTAATTTTACAAATTG
65244632 AGGGGTATTT-TGGTAATTTTACAAATTG
1 A-GGGTATTTCT-GTAATTTTACAAATTG
*
65244660 AGGGTATTTCGGTAATT
1 AGGGTATTTCTGTAATT
65244677 CTATCTTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.05
27 35 0.92
28 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.44
Consensus pattern (27 bp):
AGGGTATTTCTGTAATTTTACAAATTG
Found at i:65244738 original size:27 final size:27
Alignment explanation
Indices: 65244712--65244905 Score: 219
Period size: 27 Copynumber: 7.2 Consensus size: 27
65244702 TTTCATAACT
* *
65244712 GAGGGTAAAACGGTAATTTTGTAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
** * *
65244738 TGAGGGTAAAATAGTAATTTTGTAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
* *
65244766 GAGGGTAAAACAGTAATTCTATAATTC
1 GAGGGTAAAACGGTAATTCTATAAATC
***
65244793 GAGGGTAAAATTATAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
65244820 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
65244847 GAGGGTGAAACGGTAATTCTATAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
65244874 GAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
65244901 GAGGG
1 GAGGG
65244906 CATTTAGTAA
Statistics
Matches: 143, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 142 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTATAAATC
Found at i:65244825 original size:81 final size:81
Alignment explanation
Indices: 65244739--65244905 Score: 255
Period size: 81 Copynumber: 2.1 Consensus size: 81
65244729 TTTGTAAACT
*
65244739 GAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT-AATTCGAGGGTAAAA
1 GAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATT-GAGGGTAAAA
* *
65244803 TTATAATTCTATAAATC
65 TGATAATTCTACAAATC
* * *
65244820 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATTGAGGGTAAAAT
1 GAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAAT
*
65244885 GGTAATTCTACAAATC
66 GATAATTCTACAAATC
65244901 GAGGG
1 GAGGG
65244906 CATTTAGTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 74 0.95
82 4 0.05
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAAT
GATAATTCTACAAATC
Found at i:65248194 original size:113 final size:113
Alignment explanation
Indices: 65248061--65248292 Score: 297
Period size: 113 Copynumber: 2.1 Consensus size: 113
65248051 TTTAAAAATA
* * * * * *
65248061 CCGCTAAAAGATTCAGCCGAACGACATTGTTTACATTGAGCTTCCATGGCATTAGAGGCGCTTTC
1 CCGCTAAAAGATTAAGCCGAACAACATCGTTTAAATCGAGCTTCCATGGAATTAGAGGCGCTTTC
*
65248126 CTAAAAATGC-CGCAA-AAATCAAGCATTAGCGGCGTTTTTAAGAAAGCG
66 CTAAAAA--CACGCAATAAATCAAGCATTAGCGGAGTTTTTAAGAAAGCG
** *
65248174 CCGCTAAAAGATTAAGCCGAACAACATCGTTTAAATCGAGCTTCTGTGGAATTAGCGGCGCTTTC
1 CCGCTAAAAGATTAAGCCGAACAACATCGTTTAAATCGAGCTTCCATGGAATTAGAGGCGCTTTC
* * * * *
65248239 CTAAACACACGCAATATATCGAGCATTAGCGGAGTTTTTAGGAAAGTG
66 CTAAAAACACGCAATAAATCAAGCATTAGCGGAGTTTTTAAGAAAGCG
65248287 CCGCTA
1 CCGCTA
65248293 TAAGTCGACC
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
111 1 0.01
112 5 0.05
113 96 0.94
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (113 bp):
CCGCTAAAAGATTAAGCCGAACAACATCGTTTAAATCGAGCTTCCATGGAATTAGAGGCGCTTTC
CTAAAAACACGCAATAAATCAAGCATTAGCGGAGTTTTTAAGAAAGCG
Found at i:65251009 original size:28 final size:26
Alignment explanation
Indices: 65250968--65251028 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 26
65250958 TGGAGGAAGC
65250968 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
* *
65250995 GTTTCTGGTGGCTCTGTCACAGTATCT
1 G-TTCTGGTGGCTCTGCCACAATATCT
65251022 GTTCTGG
1 GTTCTGG
65251029 CAGCCATGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 6 0.19
27 8 0.26
28 17 0.55
ACGTcount: A:0.13, C:0.23, G:0.26, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:65252280 original size:22 final size:21
Alignment explanation
Indices: 65252236--65252282 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
65252226 CACTACACCT
*
65252236 TAAACCCTAAATCTCAAATCA
1 TAAACCCTAAAACTCAAATCA
65252257 TAAACCCTTAAAACTCCAAA-CA
1 TAAACCC-TAAAACT-CAAATCA
65252279 TAAA
1 TAAA
65252283 ACCATAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAAACTCAAATCA
Found at i:65254897 original size:93 final size:93
Alignment explanation
Indices: 65254785--65254956 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
65254775 CGCCCATAAG
* *
65254785 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
65254850 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
65254878 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65254943 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65254957 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65254953 original size:46 final size:46
Alignment explanation
Indices: 65254778--65254953 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
65254768 TGTAACCCGC
* * *
65254778 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
65254824 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65254874 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65254917 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65254954 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65262464 original size:93 final size:92
Alignment explanation
Indices: 65262336--65262506 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
65262326 CGCCCATAAG
* * *
65262336 CGAACTCGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65262401 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
65262428 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65262493 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
65262507 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 7 0.09
93 67 0.91
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65262496 original size:46 final size:46
Alignment explanation
Indices: 65262329--65262503 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
65262319 TGTAACCCGC
* * * *
65262329 CCATAAGCGAACTC-GACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65262374 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65262424 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65262467 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65262504 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 15 0.14
46 48 0.44
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65283263 original size:15 final size:13
Alignment explanation
Indices: 65283234--65283258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65283224 GCCGAACAGG
65283234 GACACGCCCGTGC
1 GACACGCCCGTGC
65283247 GACACGCCCGTG
1 GACACGCCCGTG
65283259 TGCGAGTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.44, G:0.32, T:0.08
Consensus pattern (13 bp):
GACACGCCCGTGC
Found at i:65293934 original size:40 final size:40
Alignment explanation
Indices: 65293840--65293984 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
65293830 TACTCGAATG
* *
65293840 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * *
65293881 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
65293921 ATATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
65293961 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
65293985 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 62 0.69
41 28 0.31
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:65301129 original size:40 final size:40
Alignment explanation
Indices: 65301035--65301179 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
65301025 TACTCGAATG
* *
65301035 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * *
65301076 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
65301116 ATATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
65301156 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
65301180 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 62 0.69
41 28 0.31
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:65307303 original size:39 final size:39
Alignment explanation
Indices: 65307260--65307442 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
65307250 GCTACTCGTT
* * *
65307260 CAAATGGCTTCGGACATAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
* *
65307299 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCC-GGTTATAGTAACTCGCA
* * *
65307339 CCAATGCCTTCGGGCTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
65307378 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
65307419 GAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
65307443 ACATCATTCG
Statistics
Matches: 117, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 43 0.37
40 59 0.50
41 14 0.12
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:65307345 original size:40 final size:39
Alignment explanation
Indices: 65307287--65307390 Score: 154
Period size: 39 Copynumber: 2.6 Consensus size: 39
65307277 AGCCCGGTTA
* *
65307287 TAGTAACTCGTACAAATGCCTTCGGGACTTAACCCAGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCAGAAT
* * *
65307327 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
65307366 TAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
65307391 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.59
40 24 0.41
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
Found at i:65308637 original size:56 final size:56
Alignment explanation
Indices: 65308570--65308745 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
65308560 TATTAGTTTA
65308570 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
65308626 TTGCCCATGCTTCTTATTTTATTCTTCTATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
65308682 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
65308738 TTTCCCAT
1 TTGCCCAT
65308746 CATCCCTTGT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 116 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:65311666 original size:14 final size:14
Alignment explanation
Indices: 65311647--65311680 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
65311637 ATATAATCCA
65311647 AAAGTGTGTAGCCG
1 AAAGTGTGTAGCCG
*
65311661 AAAGTGTGTAGCTG
1 AAAGTGTGTAGCCG
65311675 AAAGTG
1 AAAGTG
65311681 AGACTCCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.35, T:0.24
Consensus pattern (14 bp):
AAAGTGTGTAGCCG
Found at i:65317263 original size:18 final size:16
Alignment explanation
Indices: 65317241--65317292 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 16
65317231 GACAATTCTT
65317241 TTCTCTTCTTCTTTTC
1 TTCTCTTCTTCTTTTC
*
65317257 TCCTCTCTTCATCTATGTTC
1 T--TCTCTTCTTCT-T-TTC
*
65317277 TTTTCTTCTTCTTTTC
1 TTCTCTTCTTCTTTTC
65317293 CTCTATAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
16 4 0.14
17 1 0.03
18 19 0.66
19 1 0.03
20 4 0.14
ACGTcount: A:0.04, C:0.31, G:0.02, T:0.63
Consensus pattern (16 bp):
TTCTCTTCTTCTTTTC
Found at i:65318562 original size:28 final size:28
Alignment explanation
Indices: 65318525--65318612 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
65318515 GGAGGAAGTG
65318525 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
65318553 TTCTGGTGGCCCCGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * **
65318581 ATCTGGTGACTCTATCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
65318607 TTCTGG
1 TTCTGG
65318613 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 5 0.10
27 7 0.14
28 37 0.76
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:65320835 original size:28 final size:29
Alignment explanation
Indices: 65320813--65320906 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
65320803 CCCCATTCAT
*
65320813 ATTCGTATGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
*
65320842 CTGT-ATATGGCCCATTAGGCCCAAATCAC
1 AT-TCATATGGCCCATTAGGCCCAAATCAC
* * *
65320871 ATTTATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
65320899 ATTCATAT
1 ATTCATAT
65320907 TCATTCTCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 13 0.23
29 43 0.75
30 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:65320857 original size:29 final size:29
Alignment explanation
Indices: 65320818--65320893 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
65320808 TTCATATTCG
*
65320818 TATGGCCCATTAGGCCCAAATCACCTGTA
1 TATGGCCCATTAGGCCCAAATCACATGTA
*
65320847 TATGGCCCATTAGGCCCAAATCACATTTA
1 TATGGCCCATTAGGCCCAAATCACATGTA
*
65320876 TATGGCCCGTTAGGCCCA
1 TATGGCCCATTAGGCCCA
65320894 GTCACATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATGTA
Found at i:65320987 original size:17 final size:18
Alignment explanation
Indices: 65320965--65320998 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65320955 TGCCTATTAT
65320965 GGGCCCA-ATAGCCTATC
1 GGGCCCATATAGCCTATC
*
65320982 GGGCCCATTTAGCCTAT
1 GGGCCCATATAGCCTAT
65320999 TCTGGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.24
Consensus pattern (18 bp):
GGGCCCATATAGCCTATC
Found at i:65323348 original size:21 final size:21
Alignment explanation
Indices: 65323314--65323352 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
65323304 ATAAGCATTA
65323314 TTATAATTGATTTTTAATGCT
1 TTATAATTGATTTTTAATGCT
65323335 TTAT-ATTGATTTTTAATG
1 TTATAATTGATTTTTAATG
65323353 ATAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (21 bp):
TTATAATTGATTTTTAATGCT
Found at i:65325837 original size:30 final size:30
Alignment explanation
Indices: 65325803--65325863 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65325793 TCCTTAACTC
65325803 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65325833 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65325863 A
1 A
65325864 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65329986 original size:46 final size:46
Alignment explanation
Indices: 65329936--65330108 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
65329926 TGGTTGAGCA
65329936 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
65329982 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAATAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT--G
*
65330027 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65330075 CCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65330109 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 7 0.06
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65330092 original size:93 final size:93
Alignment explanation
Indices: 65329933--65330103 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
65329923 GGATGGTTGA
* *
65329933 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65329998 TGAGTCCGAGTTCGTGAGATGTAAATAG
66 TGAGTCCGAGTTCGTGAGATGTAAATAG
*
65330026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
65330091 TGATTCCGAGTTC
66 TGAGTCCGAGTTC
65330104 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAAATAG
Found at i:65332670 original size:78 final size:78
Alignment explanation
Indices: 65332557--65332704 Score: 242
Period size: 78 Copynumber: 1.9 Consensus size: 78
65332547 GTTAGCTGTG
65332557 TGACCCAAGTCAGTAACCCCTCCAGTTTTCCCACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
1 TGACCCAAGTCAGTAACCCCTCCAGTTTTCCCACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
65332622 GTGGTTGGTCGTT
66 GTGGTTGGTCGTT
* * * * **
65332635 TGACCGAAGTTAGTAACCCCTCTAGTTTTCCCACGGCCAAGGCACACGGGTGTGTCTCCGGGCGT
1 TGACCCAAGTCAGTAACCCCTCCAGTTTTCCCACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
65332700 GTGGT
66 GTGGT
65332705 GTAAGTCAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.17, C:0.31, G:0.28, T:0.24
Consensus pattern (78 bp):
TGACCCAAGTCAGTAACCCCTCCAGTTTTCCCACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
GTGGTTGGTCGTT
Found at i:65340681 original size:49 final size:49
Alignment explanation
Indices: 65340625--65341288 Score: 1010
Period size: 49 Copynumber: 13.6 Consensus size: 49
65340615 TATTTGAATA
*
65340625 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
65340674 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65340723 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
65340772 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
65340819 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65340868 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
65340917 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
65340964 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
65341013 AATGTGAAAGTGTATATATATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAA--G--------TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65341072 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65341121 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
65341168 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
65341215 AATGTGAAAGTG--TATATATGTGACAAGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
65341262 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
65341289 TCCCGAAGGG
Statistics
Matches: 579, Mismatches: 20, Indels: 34
0.91 0.03 0.05
Matches are distributed among these distances:
47 232 0.40
48 1 0.00
49 296 0.51
51 1 0.00
57 1 0.00
59 48 0.08
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:65340813 original size:145 final size:145
Alignment explanation
Indices: 65340625--65341288 Score: 1052
Period size: 145 Copynumber: 4.5 Consensus size: 145
65340615 TATTTGAATA
*
65340625 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
65340690 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65340755 TAATGGCCGATGTGATG
129 TAATGGCCGATGTGATG
65340772 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
65340837 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
65340902 ATGGCCGATGTGATG
131 ATGGCCGATGTGATG
65340917 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
65340982 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTATATATATGTG
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G--------TGTATATATATGTG
* *
65341047 ATAAGGCCGAATGGCCAATGTGATG
121 ATAAGGCCTAATGGCCGATGTGATG
* *
65341072 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
65341135 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65341198 TAATGGCCGATGTGATG
129 TAATGGCCGATGTGATG
* * * *
65341215 AATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
65341279 -ATGTGATAAG
66 TATGTGATAAG
65341289 TCCCGAAGGG
Statistics
Matches: 487, Mismatches: 16, Indels: 34
0.91 0.03 0.06
Matches are distributed among these distances:
141 51 0.10
142 1 0.00
143 47 0.10
145 239 0.49
147 13 0.03
153 1 0.00
155 90 0.18
157 45 0.09
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
ATGGCCGATGTGATG
Found at i:65341046 original size:59 final size:58
Alignment explanation
Indices: 65340974--65341139 Score: 242
Period size: 59 Copynumber: 3.0 Consensus size: 58
65340964 AATGTGAAAG
65340974 TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
65341032 ATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G-------
1 -TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
* *
65341082 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
65341140 GTGATAAGGC
Statistics
Matches: 96, Mismatches: 2, Indels: 19
0.82 0.02 0.16
Matches are distributed among these distances:
49 46 0.48
51 1 0.01
57 1 0.01
59 48 0.50
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (58 bp):
TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
Found at i:65341049 original size:108 final size:105
Alignment explanation
Indices: 65340927--65341233 Score: 465
Period size: 108 Copynumber: 3.0 Consensus size: 105
65340917 AATGTGAAAG
65340927 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
* *
65340992 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
65341032 ATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
1 -TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
65341097 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G-------
63 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
65341131 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
65341194 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
65341234 GTGACAAGGC
Statistics
Matches: 185, Mismatches: 5, Indels: 25
0.86 0.02 0.12
Matches are distributed among these distances:
94 44 0.24
96 45 0.24
98 2 0.01
106 3 0.02
108 91 0.49
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (105 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:65341210 original size:94 final size:94
Alignment explanation
Indices: 65341037--65341288 Score: 414
Period size: 94 Copynumber: 2.7 Consensus size: 94
65341027 TATATATGTA
65341037 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
65341102 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
65341133 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
65341198 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
65341227 TATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65341289 TCCCGAAGGG
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 101 0.70
96 44 0.30
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:65349807 original size:16 final size:16
Alignment explanation
Indices: 65349774--65349808 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
65349764 TAGAGCTAAG
65349774 ATTTTTGGAGACAGAT
1 ATTTTTGGAGACAGAT
65349790 ATTTTATGGAGACA-AT
1 ATTTT-TGGAGACAGAT
65349806 ATT
1 ATT
65349809 AGTATTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (16 bp):
ATTTTTGGAGACAGAT
Found at i:65357921 original size:27 final size:26
Alignment explanation
Indices: 65357891--65358094 Score: 194
Period size: 27 Copynumber: 7.5 Consensus size: 26
65357881 AAATTGTACA
*
65357891 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* * *
65357918 GCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCG-ATTGACTATGTG
* *
65357945 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
65357972 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
65357999 GCACTAAGTGTGCGAGTCTGACTATGTG
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
65358027 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
65358054 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
65358081 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
65358095 GGCTCAATAT
Statistics
Matches: 156, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 128 0.82
28 27 0.17
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:65357951 original size:54 final size:53
Alignment explanation
Indices: 65357891--65358094 Score: 219
Period size: 54 Copynumber: 3.8 Consensus size: 53
65357881 AAATTGTACA
* *
65357891 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCGATT-GACTATGTTGCACTAAGTGTGCGAATTGAATATGTG
* * * ** *
65357945 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTTGCACTAAGTGTGCGAATTGAATATGTG
* * * *
65357999 GCACTAAGTGTGCGAGTCTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-T-TGACTATGTTGCACTAAGTGTGCGAATTGAATATGTG
* * * *
65358054 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTTGCACTAAGTGTGCG
65358095 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 77 0.61
55 48 0.38
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAATTGAATATGTG
Found at i:65358085 original size:109 final size:108
Alignment explanation
Indices: 65357891--65358094 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 108
65357881 AAATTGTACA
* * * *
65357891 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
65357956 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
** *
65357999 GCACTAAGTGTGCGAGTCTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTGGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
** * *
65358064 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
65358095 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 19 0.23
109 64 0.77
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (108 bp):
GCACTAAGTGTGCGAGTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:65366115 original size:27 final size:26
Alignment explanation
Indices: 65366085--65366260 Score: 165
Period size: 27 Copynumber: 6.5 Consensus size: 26
65366075 AAATTGTACA
65366085 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
65366112 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
65366139 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
65366166 GCACTAAGTGTGCGAGTCTGACTATG-T
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* * *
65366193 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
65366220 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
65366247 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
65366261 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.06
27 110 0.87
28 9 0.07
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:65366145 original size:54 final size:53
Alignment explanation
Indices: 65366085--65366260 Score: 185
Period size: 54 Copynumber: 3.3 Consensus size: 53
65366075 AAATTGTACA
*
65366085 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATT-GACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
* * ** *
65366139 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGACTATG-T
1 GCACTAAGTGTGCG-ATTGACTATGTGGCACTAAGTGTGCGA-AATGAATATGAT
* * ** *
65366193 GCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 GCACTAAGTGTGCGA-TTGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
*
65366246 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
65366261 GGCTCAATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
53 8 0.08
54 85 0.83
55 10 0.10
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT
Found at i:65366196 original size:81 final size:81
Alignment explanation
Indices: 65366085--65366239 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
65366075 AAATTGTACA
* *
65366085 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTTGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
65366149 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65366166 GCACTAAGTGTGCGAGTCTGACTATG-TGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTTGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
65366230 TGCGAGTTGA
65 TGCGAATTGA
65366240 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 58 0.88
82 7 0.11
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTTGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65366251 original size:81 final size:81
Alignment explanation
Indices: 65366081--65366260 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
65366071 GATTAAATTG
* *
65366081 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65366146 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65366162 TGCGGCACTAAGTGTGCGAGTCTGACTATG-TGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTTGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65366225 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65366243 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65366261 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 75 0.90
82 7 0.08
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65381181 original size:40 final size:39
Alignment explanation
Indices: 65381123--65381207 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 39
65381113 ACTTAATTCA
* * * *
65381123 CCAGCATTAAGCCTGCGGGACTTTAAACCTGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCT-AACCCGGATACAATC
* *
65381163 CCAGCATGAAGCCAGCGGGTCTCTAACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAATC
*
65381202 TCAGCA
1 CCAGCA
65381208 CAATTCATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (39 bp):
CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAATC
Found at i:65381384 original size:47 final size:45
Alignment explanation
Indices: 65381278--65381386 Score: 114
Period size: 47 Copynumber: 2.4 Consensus size: 45
65381268 TGCACACTTT
* *
65381278 TCACAATTGGTCATTCAGCCTTATCACATATTCACTTACACATATA
1 TCAC-ATTGGCCATTCGGCCTTATCACATATTCACTTACACATATA
** *
65381324 TCACATTAACCATTCGGCCTTATCACATGTATGT-ACTTTCACAT-TCA
1 TCACATTGGCCATTCGGCCTTATCACA--TAT-TCACTTACACATAT-A
65381371 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
65381387 ATCTTAAGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
45 19 0.37
46 5 0.10
47 27 0.52
48 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (45 bp):
TCACATTGGCCATTCGGCCTTATCACATATTCACTTACACATATA
Found at i:65383978 original size:22 final size:20
Alignment explanation
Indices: 65383938--65383978 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
65383928 AGTCCTATTA
*
65383938 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
65383958 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
65383979 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:65385353 original size:13 final size:13
Alignment explanation
Indices: 65385331--65385368 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
65385321 TCTCTTCATA
65385331 TCCCTAAAATCTC
1 TCCCTAAAATCTC
*
65385344 TCCTTAAAATC-C
1 TCCCTAAAATCTC
*
65385356 TCCCTAATATCTC
1 TCCCTAAAATCTC
65385369 ACCATTATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (13 bp):
TCCCTAAAATCTC
Found at i:65387745 original size:104 final size:104
Alignment explanation
Indices: 65387577--65387788 Score: 372
Period size: 104 Copynumber: 2.0 Consensus size: 104
65387567 GGGTTGTTGT
* *
65387577 GTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
65387642 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
* *
65387681 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAA
65387745 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65387785 GTGC
1 GTGC
65387789 GATATCCATT
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 102 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (104 bp):
GTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:65387840 original size:71 final size:72
Alignment explanation
Indices: 65387707--65387858 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
65387697 TCATTGGTGG
* *
65387707 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65387772 GAGGGGT
66 GAGGGGT
***
65387779 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65387843 GAGGGGT
66 GAGGGGT
65387850 TGCTAAGTG
1 TGCTAAGTG
65387859 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:65394168 original size:14 final size:14
Alignment explanation
Indices: 65394149--65394181 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
65394139 CTAGTTTTTC
65394149 TTTCTTTCTCTTCT
1 TTTCTTTCTCTTCT
*
65394163 TTTCTTTCTTTTCT
1 TTTCTTTCTCTTCT
65394177 TTTCT
1 TTTCT
65394182 ACTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTTTCTCTTCT
Found at i:65394178 original size:9 final size:9
Alignment explanation
Indices: 65394144--65394178 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
65394134 CATGCCTAGT
65394144 TTTTCTTTC
1 TTTTCTTTC
65394153 -TTTCTCTTC
1 TTTTCT-TTC
65394162 TTTTCTTTC
1 TTTTCTTTC
65394171 TTTTCTTT
1 TTTTCTTT
65394179 TCTACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 5 0.21
9 14 0.58
10 5 0.21
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:65394471 original size:23 final size:23
Alignment explanation
Indices: 65394430--65394473 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
65394420 TAATTTTAAT
65394430 TTTTATAATATAAAAAATAAATA
1 TTTTATAATATAAAAAATAAATA
*
65394453 TTTTAT-ATTTAAAATAATAAA
1 TTTTATAATATAAAA-AATAAA
65394474 AATAACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTTATAATATAAAAAATAAATA
Found at i:65394650 original size:29 final size:29
Alignment explanation
Indices: 65394606--65394675 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
65394596 CAAATATAAT
* *
65394606 ATTAAAAGCTATAAAAAT-ATTTAAAAAA
1 ATTAAAAACTAAAAAAATAATTTAAAAAA
*
65394634 ATCTAAAAA-TAAAAAAATAATTTGAAAAA
1 AT-TAAAAACTAAAAAAATAATTTAAAAAA
65394663 ATTAAAAACTAAA
1 ATTAAAAACTAAA
65394676 TCAAACTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 16 0.44
29 20 0.56
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (29 bp):
ATTAAAAACTAAAAAAATAATTTAAAAAA
Found at i:65398727 original size:41 final size:43
Alignment explanation
Indices: 65398585--65398738 Score: 231
Period size: 43 Copynumber: 3.6 Consensus size: 43
65398575 ATCTGTTCTT
* * * *
65398585 GTGTAAGACAACGTTTGGGATATTGGCATCAATATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCAATATGTGATTAC
65398628 GTGTAAGACCATGTCTGGGACATTGGCATCAATATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCAATATGTGATTAC
*
65398671 GTGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGATT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCAATATGTGATTAC
* *
65398712 GTGTAAGACCCTGTCTGGGACAATGGC
1 GTGTAAGACCATGTCTGGGACATTGGC
65398739 TGTAACACCC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
41 26 0.25
42 9 0.09
43 69 0.66
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCAATATGTGATTAC
Found at i:65401860 original size:47 final size:47
Alignment explanation
Indices: 65401789--65402440 Score: 1072
Period size: 47 Copynumber: 13.7 Consensus size: 47
65401779 CCCTTCGGGA
* * * * * *
65401789 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65401836 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65401883 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65401930 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65401977 CTTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402024 CTTATCACATATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402073 CTTATCACATATATATACACTTTCACCTTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402122 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402169 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402216 CTTATCACATATATACACTTTCACACTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402263 CTTATCACATATATATACACTTTCACAGTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65402312 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65402359 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65402406 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
65402441 AGAATCCTAA
Statistics
Matches: 578, Mismatches: 22, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 439 0.76
49 138 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65401867 original size:25 final size:25
Alignment explanation
Indices: 65401839--65401917 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
65401829 ACTCGGCCCT
65401839 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
65401864 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
65401886 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
65401911 ATCACAT
1 ATCACAT
65401918 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:65402230 original size:190 final size:190
Alignment explanation
Indices: 65401789--65402440 Score: 1096
Period size: 190 Copynumber: 3.4 Consensus size: 190
65401779 CCCTTCGGGA
* * * * * * *
65401789 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
65401854 TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
65401917 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65401977 CTTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
65402042 ACTTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACCTTCATCA
64 ACTTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
65402107 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402169 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
65402234 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAGTCATCACA
66 TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
65402299 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65402359 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
65402423 TGTTCACA-TCCATCACAT
66 T-TTCACACT-CATCACAT
65402441 AGAATCCTAA
Statistics
Matches: 438, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
188 47 0.11
189 2 0.00
190 252 0.58
192 137 0.31
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65402480 original size:143 final size:141
Alignment explanation
Indices: 65401789--65402440 Score: 1000
Period size: 143 Copynumber: 4.6 Consensus size: 141
65401779 CCCTTCGGGA
* * * * * * *
65401789 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* ** *
65401854 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCATATCACATATATACACTTTCACATTCATCACATC
65401919 GGCCATTAGGC
131 GGCCATTAGGC
*
65401930 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTTACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
65401995 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACACTCATCACA
66 TTTCACATTCATCACATCGGCCATTAAGCCATATCAC--ATATATACACTTTCACATTCATCACA
65402060 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
65402073 CTTATCACATATATATACACTTTCACCTTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
65402138 ACTTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAAGCCATATCACATATATACACTTTCACATTCATCACA
*
65402203 TCGGGCATTAGGC
129 TCGGCCATTAGGC
*
65402216 CTTATCACATATATACACTTTCACACTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
65402281 ACTTTCACAGTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAAGCCATATCACATATATACACTTTCACATTCATCACA
65402346 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
65402359 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
65402423 TGTTCACATCCATCACAT
66 T-TTCACATTCATCACAT
65402441 AGAATCCTAA
Statistics
Matches: 479, Mismatches: 25, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
140 1 0.00
141 159 0.33
143 228 0.48
145 91 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCATATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:65412736 original size:56 final size:56
Alignment explanation
Indices: 65412649--65412784 Score: 182
Period size: 56 Copynumber: 2.4 Consensus size: 56
65412639 TAGCATTATA
* * *
65412649 CGATATGTGTGTCCAAGTAAGACCACATTTAATACGTTGGCATCAATATGCGATTT
1 CGATATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGCGATTC
* * * * *
65412705 CGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGCGATTC
* *
65412761 CGATATGTGTTTGTGAGTAAGACC
1 CGATATGTGTGTGCGAGTAAGACC
65412785 CTGTTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
CGATATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCAATATGCGATTC
Found at i:65412802 original size:56 final size:56
Alignment explanation
Indices: 65412649--65412809 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 56
65412639 TAGCATTATA
* * * * * * *
65412649 CGATATGTGTGTCCAAGTAAGACCACATTTAATACGTTGGCATCAATATGCGATTT
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGCGATTC
*
65412705 CGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGCGATTC
* * *
65412761 CGATATGTGTTTGTGAGTAAGACC-CTGTTTGGAATA-G-TGGCATCGATAT
1 CGATATATGTGTGCGAGTAAGACCAC-GTTT--AATATGTTGGCATCGATAT
65412810 ATAATTACAT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
55 1 0.01
56 85 0.93
57 1 0.01
58 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGCGATTC
Found at i:65412986 original size:22 final size:22
Alignment explanation
Indices: 65412958--65413003 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
65412948 AGGTATGAGT
65412958 TAGCAATGTATTGAAAATAAGG
1 TAGCAATGTATTGAAAATAAGG
65412980 TAGCAATGTATTGAAAATAAGG
1 TAGCAATGTATTGAAAATAAGG
65413002 TA
1 TA
65413004 AGTTTTGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (22 bp):
TAGCAATGTATTGAAAATAAGG
Found at i:65414653 original size:40 final size:40
Alignment explanation
Indices: 65414608--65414877 Score: 441
Period size: 40 Copynumber: 6.8 Consensus size: 40
65414598 CAAGCTCAAT
* * * * *
65414608 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
* * *
65414648 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
* *
65414688 TGCCTTCGGGTCTTAGCCCGAATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
65414728 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
*
65414768 TGCCTTCGAGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
65414808 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
65414848 TGCCTTCGGGTTTTAGCCCGGATATATCAA
1 TGCCTTCGGGTTTTAGCCCGGATATATCAA
65414878 TTGCTCATGC
Statistics
Matches: 217, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
Found at i:65422793 original size:40 final size:39
Alignment explanation
Indices: 65422748--65422891 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 39
65422738 CAAGCTCAAT
* * * *
65422748 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AA
65422788 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAA
*
65422827 TTTCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 -TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AA
*
65422868 TGCCTTCGGGTTTTAGCCCGGATA
1 TGCCTTCGGGTCTTAGCCCGGATA
65422892 ATGCCTTCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAA
Found at i:65422848 original size:80 final size:80
Alignment explanation
Indices: 65422744--65422891 Score: 233
Period size: 80 Copynumber: 1.9 Consensus size: 80
65422734 ACCACAAGCT
* *
65422744 CAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGG
1 CAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
65422809 ATATATCAACTTGCA
66 ATATATCAACTTGCA
* * * * *
65422824 CAATTTCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTTTTAGCCCGG
1 CAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
65422889 ATA
66 ATA
65422892 ATGCCTTCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (80 bp):
CAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
ATATATCAACTTGCA
Found at i:65422900 original size:25 final size:25
Alignment explanation
Indices: 65422866--65422916 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65422856 AACTTGCACA
65422866 AATGCCTTCGGGTTTTAGCCCGGAT
1 AATGCCTTCGGGTTTTAGCCCGGAT
65422891 AATGCCTTCGGGTTTTAGCCCGGAT
1 AATGCCTTCGGGTTTTAGCCCGGAT
65422916 A
1 A
65422917 TATCAACTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (25 bp):
AATGCCTTCGGGTTTTAGCCCGGAT
Found at i:65422934 original size:65 final size:65
Alignment explanation
Indices: 65422830--65422956 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
65422820 TGCACAATTT
*
65422830 CCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTTTTAGCCCGGATAATG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTTTTAGCCCGGATAATG
*
65422895 CCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTTTTAGCCCGGATA
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTTTTAGCCCGGATA
65422957 TATCAATTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (65 bp):
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTTTTAGCCCGGATAATG
Found at i:65427449 original size:17 final size:18
Alignment explanation
Indices: 65427427--65427460 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
65427417 AAATTGGACC
65427427 GTGTGGGCT-ACACGGGT
1 GTGTGGGCTGACACGGGT
65427444 GTGTGGGCTGACACGGG
1 GTGTGGGCTGACACGGG
65427461 CAAGCGACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.12, C:0.18, G:0.50, T:0.21
Consensus pattern (18 bp):
GTGTGGGCTGACACGGGT
Found at i:65439273 original size:18 final size:18
Alignment explanation
Indices: 65439247--65439289 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
65439237 AAAAGTTATT
*
65439247 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
65439265 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
65439283 TTTATAT
1 TTTATAT
65439290 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:65439294 original size:16 final size:16
Alignment explanation
Indices: 65439252--65439295 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
65439242 TTATTTTTAC
*
65439252 ATATATTAATAAATTT
1 ATATTTTAATAAATTT
65439268 ATATATATTAATAAATTT
1 ATAT-T-TTAATAAATTT
65439286 ATATTTTAAT
1 ATATTTTAAT
65439296 TTTTTTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 15 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTTAATAAATTT
Found at i:65445066 original size:17 final size:16
Alignment explanation
Indices: 65445033--65445064 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65445023 AAGTTCGGGA
65445033 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
65445049 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
65445065 GTGTTACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:65445955 original size:25 final size:25
Alignment explanation
Indices: 65445926--65445993 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
65445916 GTTCTGACCC
* *
65445926 ACAGCTCGTGAGAGCCTACCGATTT
1 ACAGCTCATGAGAGCATACCGATTT
* *
65445951 ACAGCTCATGAGAGCATATCGATTC
1 ACAGCTCATGAGAGCATACCGATTT
*
65445976 ATAGCTCAT-ATGAGCATA
1 ACAGCTCATGA-GAGCATA
65445994 TATGTACAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
ACAGCTCATGAGAGCATACCGATTT
Found at i:65460162 original size:27 final size:26
Alignment explanation
Indices: 65460115--65460170 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
65460105 GCTGTAACTA
65460115 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
65460141 ATTAAATTGCTGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
65460168 ATT
1 ATT
65460171 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:65461820 original size:20 final size:20
Alignment explanation
Indices: 65461781--65461819 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
65461771 ATACTCAGGG
*
65461781 CAATTTTATCGATACTTTTT
1 CAATTATATCGATACTTTTT
65461801 CAATTATATCGATA-TTTTT
1 CAATTATATCGATACTTTTT
65461820 TAGGTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (20 bp):
CAATTATATCGATACTTTTT
Found at i:65485746 original size:53 final size:53
Alignment explanation
Indices: 65485628--65485747 Score: 134
Period size: 53 Copynumber: 2.3 Consensus size: 53
65485618 AAACTACTAT
* * * * * * *
65485628 AAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATCGTGAGTTCAT
1 AAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCAATCGTAAGTTAAA
* * *
65485681 AAGGCAAGGGTACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTAAA
1 AAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCAATCGTAAG-TTAAA
65485735 AAGG-AAAGGTACC
1 AAGGCAAAGGTACC
65485748 CATGTATCCT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 48 0.87
54 7 0.13
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (53 bp):
AAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCAATCGTAAGTTAAA
Found at i:65489303 original size:29 final size:27
Alignment explanation
Indices: 65489229--65489309 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
65489219 CGAGGCTGCT
* *
65489229 AGATATTGTGACGAAGTCACCAGATAC
1 AGATATTGTGGCGAAGCCACCAGATAC
* *
65489256 AGATATTGTGGCTAGGCCACCAGA-AC
1 AGATATTGTGGCGAAGCCACCAGATAC
*
65489282 AGATATATATGTGGCGAAGCCATCAGAT
1 AG--ATAT-TGTGGCGAAGCCACCAGAT
65489310 TGCAGCGAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.09
27 20 0.47
28 4 0.09
29 15 0.35
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
AGATATTGTGGCGAAGCCACCAGATAC
Found at i:65490177 original size:27 final size:27
Alignment explanation
Indices: 65490027--65490177 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 27
65490017 GGCAAAATGC
* * * *
65490027 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
65490054 TAATTCAACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * * *
65490081 TATTTATACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
65490108 TAATTCTATCCTACAGAGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* **
65490135 TAATTCTACTCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGG
65490162 TAATTCTACCCTACAG
1 TAATTCTACCCTACAG
65490178 ACCCATTGGG
Statistics
Matches: 102, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:65495530 original size:29 final size:27
Alignment explanation
Indices: 65495455--65495536 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
65495445 GCGAGGCTTC
* *
65495455 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
65495482 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
65495508 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
65495537 TGCAGCGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.09
27 21 0.47
28 4 0.09
29 16 0.36
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:65495555 original size:69 final size:67
Alignment explanation
Indices: 65495482--65495619 Score: 195
Period size: 67 Copynumber: 2.0 Consensus size: 67
65495472 TCACCAGATA
* * * * *
65495482 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAAAACAG--ATATATGTGGCGAAGCCACCAGATTGCAGCAAGG
65495547 CTGC
64 CTGC
* *
65495551 CAGATATTGTGACGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGATTGCAGCAAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAGCAAGGCT
65495616 GC
66 GC
65495618 CA
1 CA
65495620 AAACGCTTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 38 0.61
69 24 0.39
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAGCAAGGCT
GC
Found at i:65496228 original size:26 final size:27
Alignment explanation
Indices: 65496199--65496252 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
65496189 TCACACAAGT
*
65496199 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
65496225 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
65496252 T
1 T
65496253 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:65496283 original size:27 final size:27
Alignment explanation
Indices: 65496255--65496452 Score: 209
Period size: 27 Copynumber: 7.3 Consensus size: 27
65496245 GGCAAAATGG
* * * *
65496255 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
65496282 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
65496309 TATTTCTAACCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
65496336 TAATTCTATCCTACAGGGGTATTTTGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
65496363 TAATTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
65496390 TAATTTTACCCTACAGGGGTATTACGA
1 TAATTCTACCCTACAAGGGTATTTCGA
** *
65496417 TAATTCTACTTTA-AAGGGGTATTTCGG
1 TAATTCTACCCTACAA-GGGTATTTCGA
65496444 TAATTCTAC
1 TAATTCTAC
65496453 AACTTATCCA
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:65503896 original size:22 final size:22
Alignment explanation
Indices: 65503871--65503935 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
65503861 GGCCTTTAGC
*
65503871 CATCCTGTCTACGATGTTGAGT
1 CATCCTGTCTACGACGTTGAGT
* **
65503893 CATCCTGTTTGTGACGTTGAGT
1 CATCCTGTCTACGACGTTGAGT
*
65503915 CATCCTGTCTACGGCGTTGAG
1 CATCCTGTCTACGACGTTGAG
65503936 CCGTTCTGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.35
Consensus pattern (22 bp):
CATCCTGTCTACGACGTTGAGT
Found at i:65507312 original size:22 final size:21
Alignment explanation
Indices: 65507272--65507323 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
65507262 GGTCTTTAGC
* *
65507272 CATCCTGTCTATAATGTTGAG
1 CATCCTGTCTACAACGTTGAG
*
65507293 TCATCCTGTCTACAGCGTTGAG
1 -CATCCTGTCTACAACGTTGAG
65507315 CTATCCTGT
1 C-ATCCTGT
65507324 TGACTAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
CATCCTGTCTACAACGTTGAG
Found at i:65508554 original size:19 final size:19
Alignment explanation
Indices: 65508530--65508566 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65508520 CTTTTAAAAG
*
65508530 TTGAAAATTTTCTATGTTT
1 TTGAAAATTTTATATGTTT
*
65508549 TTGAAACTTTTATATGTT
1 TTGAAAATTTTATATGTT
65508567 ATCAGATTGG
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:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (19 bp):
TTGAAAATTTTATATGTTT
Found at i:65509119 original size:34 final size:34
Alignment explanation
Indices: 65509076--65509141 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
65509066 CTCGTTTTCC
65509076 TTAATCTAAAATATCACATTTAGCTTAACTATCT
1 TTAATCTAAAATATCACATTTAGCTTAACTATCT
65509110 TTAATCTAAAATATCACATTTAGCTTAACTAT
1 TTAATCTAAAATATCACATTTAGCTTAACTAT
65509142 TAGTCACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (34 bp):
TTAATCTAAAATATCACATTTAGCTTAACTATCT
Found at i:65518380 original size:48 final size:48
Alignment explanation
Indices: 65518309--65518493 Score: 194
Period size: 48 Copynumber: 3.9 Consensus size: 48
65518299 TAAATTGCTA
* ** *
65518309 ATGCCATGTTCTAGACACAGTCTTACACTAGCTCACATGTCGAAGCTG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAAGCTG
* * * * *
65518357 ATGCCATGTCCCAGACATGGTCTTACAGTAGCTCTCATCTC-AATGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAA-GCTG
* * * * *
65518405 ATGCCATGTTCCACACATGGTCTTACACTAGCTCTCATAACG-TGGTCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAAGCT-G
* *
65518453 ATGCCATGTTCCAAACATGGTCTTACACTAGCACACATATC
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATC
65518494 ACCCAAATGT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
47 3 0.03
48 111 0.97
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAAGCTG
Found at i:65521694 original size:39 final size:39
Alignment explanation
Indices: 65521642--65521718 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
65521632 TATGGAAGTT
*
65521642 AGTTCATGGATGAATATGTTGAAATTTTGAAATTTATGA
1 AGTTCATGGATGAATATGTTGAAAATTTGAAATTTATGA
65521681 AGTTCATGGATGAATATGTTGAAAATTTGAAATTTATG
1 AGTTCATGGATGAATATGTTGAAAATTTGAAATTTATG
65521719 GTAGAAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (39 bp):
AGTTCATGGATGAATATGTTGAAAATTTGAAATTTATGA
Found at i:65524158 original size:21 final size:21
Alignment explanation
Indices: 65524132--65524180 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
65524122 TGTAGCATGG
* *
65524132 GCGTGTCTTAGGGTCACGCGA
1 GCGTGTCTTAAGGTCACACGA
*
65524153 GCGTGTCTTAAGGTCACACGG
1 GCGTGTCTTAAGGTCACACGA
65524174 GCGTGTC
1 GCGTGTC
65524181 CTTGGACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.14, C:0.24, G:0.37, T:0.24
Consensus pattern (21 bp):
GCGTGTCTTAAGGTCACACGA
Found at i:65527161 original size:37 final size:37
Alignment explanation
Indices: 65527111--65527189 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65527101 TTATTACGAA
* * *
65527111 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
*
65527148 GTCTTACCCGGACAAAATCCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
65527185 GTCTT
1 GTCTT
65527190 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
Found at i:65527304 original size:49 final size:49
Alignment explanation
Indices: 65527230--65527817 Score: 931
Period size: 49 Copynumber: 12.1 Consensus size: 49
65527220 CCCTTCGGGA
* * * * *
65527230 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
65527277 CCTGTCACATATATATACACTTCCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65527326 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65527373 CTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65527422 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65527473 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65527522 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65527569 CTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65527618 CTTAACACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65527667 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65527718 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65527767 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65527814 CTTA
1 CTTA
65527818 CTATCATTTC
Statistics
Matches: 505, Mismatches: 26, Indels: 20
0.92 0.05 0.04
Matches are distributed among these distances:
47 141 0.28
48 1 0.00
49 269 0.53
51 94 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65527660 original size:245 final size:243
Alignment explanation
Indices: 65527232--65527817 Score: 1041
Period size: 245 Copynumber: 2.4 Consensus size: 243
65527222 CTTCGGGACT
* * * * * *
65527232 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATAC
* *
65527295 ACTTCCACATTCATCACCTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
65527360 TCGGCCATTAGGCCTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTT
129 TCGGCCATTAGGCCTTAACACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTT
65527425 ATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
194 ATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
65527475 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
65527540 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGTACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA--TACACTTTCACATTCATCACA
65527605 TCGGCCATTAGGCCTTAACACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTT
129 TCGGCCATTAGGCCTTAACACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTT
65527670 ATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
194 ATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
65527720 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
65527785 TTTCACATTCATCACATCGGCCATTAGGCCTTA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTA
65527818 CTATCATTTC
Statistics
Matches: 330, Mismatches: 9, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
243 58 0.18
244 1 0.00
245 271 0.82
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (243 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTAACACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:65531505 original size:40 final size:40
Alignment explanation
Indices: 65531448--65531680 Score: 376
Period size: 40 Copynumber: 5.8 Consensus size: 40
65531438 CCAGCATGAT
* * *
65531448 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
65531488 TGCTCTTCGGAACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65531528 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65531568 TGCTCTTCGGGACTTAGCCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65531608 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65531648 TGCTCTTCGGGACTTAGCCCGGATACGTCACTA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTA
65531681 CATGCTCCGG
Statistics
Matches: 177, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:65531661 original size:120 final size:120
Alignment explanation
Indices: 65531448--65531974 Score: 707
Period size: 120 Copynumber: 4.5 Consensus size: 120
65531438 CCAGCATGAT
* * *
65531448 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* * *
65531513 CATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
65531568 TGCTCTTCGGGACTTAGCCCGGATACGTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
65531633 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACGTCACT---AC--A
66 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
65531683 TGCTC--C-GGAC-TA--CC-GA-A-ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
65531738 -ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
65531792 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* ** * * *
65531857 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
66 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * *
65531913 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGG
65531974 A
63 A
65531975 CATCATTCGA
Statistics
Matches: 368, Mismatches: 19, Indels: 40
0.86 0.04 0.09
Matches are distributed among these distances:
104 45 0.12
105 4 0.01
106 32 0.09
107 3 0.01
108 2 0.01
109 8 0.02
111 3 0.01
112 8 0.02
113 3 0.01
115 8 0.02
116 2 0.01
117 3 0.01
118 34 0.09
119 7 0.02
120 179 0.49
121 21 0.06
122 6 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:65531793 original size:40 final size:40
Alignment explanation
Indices: 65531700--65531974 Score: 400
Period size: 40 Copynumber: 6.9 Consensus size: 40
65531690 GACTACCGAA
65531700 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATA-
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
65531738 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
65531778 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
65531818 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
65531858 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATTT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
65531898 AGTAACTCGCACCAATGC-CTTC-GGATCTTAGTCCGGATAT
1 A-TCACTAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT
* *
65531938 GGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 -ATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
65531975 CATCATTCGA
Statistics
Matches: 218, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
38 34 0.16
39 7 0.03
40 156 0.72
41 21 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:65531836 original size:184 final size:186
Alignment explanation
Indices: 65531518--65531856 Score: 628
Period size: 184 Copynumber: 1.8 Consensus size: 186
65531508 GGATACATCG
*
65531518 CTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
*
65531583 AGCCCGGATACGTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
66 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
65531648 TGCTCTTCGGGACTTAGCCCGGATACGTCACTACATGCTCCGGACTACCGAAATCA
131 TGCTCTTCGGGACTTAGCCCGGATACGTCACTACATGCTCCGGACTACCGAAATCA
65531704 CTAGCACGAATGCTCTTCGGGACTTAGCCC-GATA-ATCACTAGCACGAATGCTCTTCGGGACTT
1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
* *
65531767 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66 AGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
65531832 TGCTCTTCGGGACTTAGCCCGGATA
131 TGCTCTTCGGGACTTAGCCCGGATA
65531857 TATCACTAGC
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
184 116 0.78
185 4 0.03
186 29 0.19
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (186 bp):
CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
AGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
TGCTCTTCGGGACTTAGCCCGGATACGTCACTACATGCTCCGGACTACCGAAATCA
Found at i:65533841 original size:37 final size:37
Alignment explanation
Indices: 65533791--65533869 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
65533781 TTATTACGAA
* *
65533791 GTCTTACCCGGACATAATCTTCACACGAAGT-TATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCT-TCGG
*
65533828 GTCTTACCCGGACAAAATCCTCACACGTAGTCTTCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCTTCGG
65533865 GTCTT
1 GTCTT
65533870 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCTCACACGAAGTCTTCGG
Found at i:65533984 original size:49 final size:49
Alignment explanation
Indices: 65533910--65534544 Score: 1020
Period size: 49 Copynumber: 13.1 Consensus size: 49
65533900 CCCTTCGGGA
* * * * * *
65533910 CTTATCACAT-T-TATACACATTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
65533957 CCTGTCACATATATATACACTTCCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65534006 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65534053 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65534100 CTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65534149 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65534198 CTTATCACATATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
65534249 CCTATCACATATA-ATACACTTTCACATTCATCACATCGGCCATT-GGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65534296 CTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65534345 CTTAACACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65534394 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65534445 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65534494 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65534541 CTTA
1 CTTA
65534545 CTATCATTTC
Statistics
Matches: 553, Mismatches: 25, Indels: 20
0.92 0.04 0.03
Matches are distributed among these distances:
47 157 0.28
48 60 0.11
49 241 0.44
50 2 0.00
51 93 0.17
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65534122 original size:96 final size:97
Alignment explanation
Indices: 65533910--65534544 Score: 982
Period size: 96 Copynumber: 6.5 Consensus size: 97
65533900 CCCTTCGGGA
* * * * * * * *
65533910 CTTATCACAT-T-TATACACATTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
* *
65533973 ACACTTCCACATTCATCACCTCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
65534006 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
65534068 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
*
65534100 CTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
65534165 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
65534198 CTTATCACATATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-ATATA
1 CTTATCACATATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATAT-
65534262 ATACACTTTCACATTCATCACATCGGCCATT-GGC
63 ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65534296 CTTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTAACACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
65534361 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
65534394 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATAT
*
65534459 ATACACTTTCACATTCATCACATCGGCCATTCGGC
63 ATACACTTTCACATTCATCACATCGGCCATTAGGC
65534494 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
65534545 CTATCATTTC
Statistics
Matches: 504, Mismatches: 21, Indels: 28
0.91 0.04 0.05
Matches are distributed among these distances:
94 45 0.09
95 1 0.00
96 171 0.34
97 31 0.06
98 91 0.18
99 31 0.06
100 134 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (97 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65539226 original size:43 final size:43
Alignment explanation
Indices: 65539155--65539323 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
65539145 TAAGCTCGTA
* * * * *
65539155 CAATGCCA-TATCCCAAATATGGTCTTACATGTTATCACATAT
1 CAATGCCATTGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * *
65539197 CAATGCCATTGTCCCAGACAGGGTTTTACACGTAATCGA-TTAA
1 CAATGCCATTGTCCCAGACATGGTCTTACACGTAATC-ACATAT
* *
65539240 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCATTGTCCCAGACATGGTCTTACACGTAATCACATAT
*
65539282 ACAATGCCAATT-TCCCAGACATGGTCTTACATGTAATCACAT
1 -CAATGCC-ATTGTCCCAGACATGGTCTTACACGTAATCACAT
65539324 CTCTGTAACC
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
42 10 0.10
43 90 0.87
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
CAATGCCATTGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:65541913 original size:47 final size:47
Alignment explanation
Indices: 65541884--65542144 Score: 405
Period size: 47 Copynumber: 5.6 Consensus size: 47
65541874 ATATATGAGC
** * *
65541884 TAAGGCCGAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
65541931 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
65541978 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
65542025 TAAGACCGAATGGCCAATGTGATGAATGTGAATATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
65542072 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
65542119 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
65542145 CGTGGAAGTG
Statistics
Matches: 200, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 200 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:65541953 original size:94 final size:94
Alignment explanation
Indices: 65541853--65542164 Score: 455
Period size: 94 Copynumber: 3.3 Consensus size: 94
65541843 TTAGGATTTT
* * * **
65541853 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGAAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
65541918 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * * *
65541947 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCAATGTGATGAGTGTGAACA
1 ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
65542012 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
*
65542041 ATGTGATGAATGTGAATATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
65542106 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
65542135 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAATATGTATATATGTG
65542165 GGGAAGCCGA
Statistics
Matches: 194, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
94 191 0.98
95 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAATATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:65541974 original size:23 final size:23
Alignment explanation
Indices: 65541901--65541974 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
65541891 GAATGGAAAA
65541901 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
65541924 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
65541948 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
65541971 TGTG
1 TGTG
65541975 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:65542141 original size:22 final size:22
Alignment explanation
Indices: 65542066--65542141 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
65542056 ATATGTATAT
65542066 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
65542088 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
65542110 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
65542135 ATGTGAT
1 ATGTGAT
65542142 GAACGTGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:65542178 original size:47 final size:47
Alignment explanation
Indices: 65541853--65542164 Score: 374
Period size: 47 Copynumber: 6.6 Consensus size: 47
65541843 TTAGGATTTT
* ** * * **
65541853 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
65541900 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
65541947 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
65541994 ATGTGATGAGTGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
65542041 ATGTGATGAATGTGAATATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
65542088 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
65542135 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
65542165 GGGAAGCCGA
Statistics
Matches: 239, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 236 0.99
48 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:65553664 original size:47 final size:47
Alignment explanation
Indices: 65553613--65553717 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
65553603 TAGTATTAAT
*
65553613 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
65553660 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
65553707 AATGTGATAAG
1 TATGTGATAAG
65553718 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:65555345 original size:46 final size:46
Alignment explanation
Indices: 65555202--65555345 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
65555192 CCCACCCATA
*
65555202 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
65555251 --CGAACTCGGACTCAACTCAACGAGTTCGAGCATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCG-G-ATGCCCATACATCCT
* *
65555295 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
65555341 AGTGA
1 AGTGA
65555346 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 31 0.41
47 30 0.39
48 1 0.01
49 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:65557296 original size:40 final size:40
Alignment explanation
Indices: 65557241--65557458 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
65557231 CGGATGATAA
* *
65557241 CCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATA-T
65557281 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
**
65557321 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
*
65557361 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
* *
65557401 CCGGGCTAAGTCCCGAAGGCATTTGAGCG-AGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATAT
* *
65557441 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65557459 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
39 16 0.10
40 144 0.88
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
Found at i:65557374 original size:80 final size:80
Alignment explanation
Indices: 65557241--65557458 Score: 350
Period size: 80 Copynumber: 2.7 Consensus size: 80
65557231 CGGATGATAA
* *
65557241 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATT-CGGGCTAAGTCCCGAAGGCATTT
65557305 GTGCGAACTACTATAT
65 GTGCGAACTACTATAT
*
65557321 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATTCGGGCTAAGTCCCGAAGGCATTTG
65557386 TGCGAACTACTATAT
66 TGCGAACTACTATAT
* * * *
65557401 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATA-TCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATTCGGGCTAAGTCCCGAAGG
65557459 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
79 16 0.12
80 111 0.85
81 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATTCGGGCTAAGTCCCGAAGGCATTTG
TGCGAACTACTATAT
Found at i:65561572 original size:47 final size:47
Alignment explanation
Indices: 65561518--65561639 Score: 162
Period size: 46 Copynumber: 2.6 Consensus size: 47
65561508 TGTGTGCTAG
*
65561518 TGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-AA-TGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGG-C-CATTGA-GACAAGAGCCAA
* *
65561565 TGTAAGACATGTCTGGGACATGCATCGG-TATTGAGACAAGAGCCAT
1 TGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACAAGAGCCAA
65561611 TGTAAGACATGTCTGGGACATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
65561640 TACAAGATGT
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 5 0.07
45 3 0.04
46 32 0.47
47 28 0.41
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACAAGAGCCAA
Found at i:65561820 original size:47 final size:48
Alignment explanation
Indices: 65561703--65561828 Score: 166
Period size: 47 Copynumber: 2.6 Consensus size: 48
65561693 TGTGAGATCT
* * *
65561703 AGTGTAAGACCATGTTTGGGACATGGCGTCGACCTCAATTTTGATAGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACCTCAA-TTGGATAGCC
**
65561752 AGTGTAAGACCATGTTTGGGACATGGCATCGA-CTTGA-TGGATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACCTCAATTGGAT-AGCC
*
65561799 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTTTGGGACATGGCATC
65561829 AGCATTATAC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
46 4 0.06
47 32 0.46
48 3 0.04
49 31 0.44
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGACCTCAATTGGATAGCC
Found at i:65564568 original size:43 final size:43
Alignment explanation
Indices: 65564521--65564687 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
65564511 TCTCATATCG
* * * *
65564521 ATGCCACTGTCCCAAACAGGGTCTTACACATAATC-GATTAACA
1 ATGCCAATGTCCCAAACATGGTCTTACACATAATCACAAT-ACA
** *
65564564 ATGCCAAT-TATCAAGACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAA-ACATGGTCTTACACATAATCACAATACA
* *
65564607 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAATACA
1 ATGCCAATGTCCCAAACATGGTCTTACACATAATCACAATACA
* * **
65564650 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAAACATGGTCTTACACATAATCACA
65564688 TTATTGTAAC
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 4 0.04
43 99 0.93
44 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACATAATCACAATACA
Found at i:65564611 original size:86 final size:87
Alignment explanation
Indices: 65564475--65564687 Score: 238
Period size: 86 Copynumber: 2.5 Consensus size: 87
65564465 CATAAGCTCG
* * * * * * *
65564475 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCTC-ATATCGATGCCACTGTCCCAAAC
1 TACAATGCCAATGTCCAAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAAC
* *
65564538 AGGGTCTTACACATAATC-GAT
66 AGGGTCTTACACATAATCACAA
* * * *
65564559 TAACAATGCCAAT-TATCAAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCTAG
1 T-ACAATGCCAATGT-CCAAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAA
*
65564622 ACATGGTCTTACACATAATCACAA
64 ACAGGGTCTTACACATAATCACAA
*
65564646 TACAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCAAGACATGGTCTTACATGTAATCACA
65564688 TTATTGTAAC
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
84 1 0.01
85 9 0.08
86 91 0.85
87 6 0.06
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (87 bp):
TACAATGCCAATGTCCAAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAAC
AGGGTCTTACACATAATCACAA
Found at i:65569835 original size:29 final size:29
Alignment explanation
Indices: 65569771--65569836 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
65569761 ATTTCATTTA
* *
65569771 TTTCACAATTTAAACCCTCAATTTACACT
1 TTTCTCAATTTAAACCCTCAATATACACT
* * *
65569800 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAAACCCTCAATATACACT
65569828 TTTACTCAA
1 TTT-CTCAA
65569837 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAAACCCTCAATATACACT
Found at i:65576774 original size:26 final size:26
Alignment explanation
Indices: 65576736--65576812 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
65576726 ACCAACACAC
*
65576736 CAATATCGCAGCAAAGTTGCTAGTAA
1 CAATATCGCAGCAAAGTTGCCAGTAA
* *
65576762 TAATATCGTAGCAAAGTTGCCAGTAA
1 CAATATCGCAGCAAAGTTGCCAGTAA
* **
65576788 CAATAACGCAGCAAAACTGCCAGTA
1 CAATATCGCAGCAAAGTTGCCAGTA
65576813 TCAGTATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (26 bp):
CAATATCGCAGCAAAGTTGCCAGTAA
Found at i:65576999 original size:27 final size:27
Alignment explanation
Indices: 65576967--65577025 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
65576957 AAATCAGTCA
*
65576967 TTACCCTCGAGGGGTATTTTGGTCATT
1 TTACCCTAGAGGGGTATTTTGGTCATT
*
65576994 TTACCCTATAGGGGTATTTTGGTCATT
1 TTACCCTAGAGGGGTATTTTGGTCATT
65577021 TTACC
1 TTACC
65577026 TGCCTTGGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
TTACCCTAGAGGGGTATTTTGGTCATT
Found at i:65580813 original size:28 final size:29
Alignment explanation
Indices: 65580739--65580813 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
65580729 ATCTGGCCAT
* *
65580739 CCCAATCATATTCATATGGCCCTTTTAGA
1 CCCAATCACATTCATATGGCCCTGTTAGA
* *
65580768 CCCAAATCACATTTATATGGCCC-GTTAGG
1 CCC-AATCACATTCATATGGCCCTGTTAGA
*
65580797 CCCAGTCACATTCATAT
1 CCCAATCACATTCATAT
65580814 TCGTGCTCGC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.31
29 10 0.26
30 17 0.44
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (29 bp):
CCCAATCACATTCATATGGCCCTGTTAGA
Done.