Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 397 of 410
Found at i:120473039 original size:46 final size:46
Alignment explanation
Indices: 120472864--120473039 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
120472854 TGTAACCCGC
* * *
120472864 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
120472910 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
120472960 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
120473003 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
120473040 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:120479577 original size:69 final size:71
Alignment explanation
Indices: 120479408--120479583 Score: 203
Period size: 72 Copynumber: 2.5 Consensus size: 71
120479398 TTTTCAAGGG
* ** * *
120479408 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGATATTTTTAATTTTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATATTTTTAAGTTTAT
120479473 GTTTTCA
66 GTTTT-A
* * ** * *
120479480 AAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTT-AGTTTAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATATTTTTAAGTTTAT
120479544 GTTTT-
66 GTTTTA
** *
120479549 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
120479584 TTTAATTTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
69 30 0.34
71 10 0.11
72 48 0.55
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (71 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATATTTTTAAGTTTAT
GTTTTA
Found at i:120479704 original size:72 final size:71
Alignment explanation
Indices: 120479583--120479748 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
120479573 GAGTTAAGCC
** * * *
120479583 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCTCGGGGCATGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGC
120479647 TGAGGTA
65 TGAGGTA
* *
120479654 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGC
120479719 TGAGGTA
65 TGAGGTA
* *
120479726 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
120479749 ACGTTGTTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:120479847 original size:140 final size:140
Alignment explanation
Indices: 120479681--120480435 Score: 1259
Period size: 140 Copynumber: 5.5 Consensus size: 140
120479671 TTAATTTCAA
120479681 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
120479746 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
*
120479811 TCAAAATCAA
131 TCAAAATCAG
120479821 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
120479886 TTTACGTTGTTCAAGAATCAACTCATATTGCGAAAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
120479951 TCAAAATCAG
131 TCAAAATCAG
* *
120479961 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTATTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
120480026 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
120480091 TCAAAATCAG
131 TCAAAATCAG
120480101 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* ** *
120480166 TTTATGTTGTTCAAGAATCAACTCATATTATGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
120480231 TCAAAATCAG
131 TCAAAATCAG
120480241 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA-------TTTC--
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
120480297 --T--GTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
120480358 TCAAAATCAG
131 TCAAAATCAG
* * * *
120480368 CTCATATTGTGAGAGGTGAGTTGAGCTTC-GGTTCATATGCTAAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TC--ACGCTGAGGTATTTTCAATTTCTGT-TT
120480432 TCAA
62 TCAA
120480436 AAAAAAAATT
Statistics
Matches: 584, Mismatches: 18, Indels: 27
0.93 0.03 0.04
Matches are distributed among these distances:
126 2 0.00
127 96 0.16
129 17 0.03
133 4 0.01
137 4 0.01
140 461 0.79
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:120480022 original size:13 final size:13
Alignment explanation
Indices: 120480004--120480028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120479994 CACGCTAAGG
120480004 TATTTTCAATTTC
1 TATTTTCAATTTC
120480017 TATTTTCAATTT
1 TATTTTCAATTT
120480029 ACGTTGTTCA
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTCAATTTC
Found at i:120480164 original size:13 final size:13
Alignment explanation
Indices: 120480146--120480179 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
120480136 CGCTGAGGTA
*
120480146 TTTTCAATTTCTG
1 TTTTCAATTTATG
120480159 TTTTCAATTTATG
1 TTTTCAATTTATG
120480172 TTGTTCAA
1 TT-TTCAA
120480180 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:120480340 original size:127 final size:128
Alignment explanation
Indices: 120480159--120480428 Score: 436
Period size: 127 Copynumber: 2.1 Consensus size: 128
120480149 TCAATTTCTG
* *
120480159 TTTTCAATTTATGTTGTTCAAGAATCAACTCATATTATGAGAAGTGGGTTGAACCTTTTAATTTC
1 TTTTCAATTTCTGTTGTTCAAGAATCAACTCATATTACGAGAAGTGGGTTGAACCTTTTAATTTC
*
120480224 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TC-ACGCTGAGGTA
66 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAACGCTAAGGTA
* *
120480286 TTTTCAATTTCTGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTTCAATTTCTGTTGTTCAAGAATCAACTCATATTACGAGAAGTGGGTTGAACCTTTTAATTTC
* * *
120480351 TACTTTTTCAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCTTCGGTTCATATGCTAAGGTA
66 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCA-ACGCTAAGGTA
120480415 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
120480429 CTTTCAAAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
126 2 0.02
127 107 0.81
129 23 0.17
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (128 bp):
TTTTCAATTTCTGTTGTTCAAGAATCAACTCATATTACGAGAAGTGGGTTGAACCTTTTAATTTC
TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCAACGCTAAGGTA
Found at i:120480493 original size:208 final size:201
Alignment explanation
Indices: 120480233--120480748 Score: 515
Period size: 201 Copynumber: 2.5 Consensus size: 201
120480223 CTACTTTTTC
* ** * *
120480233 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
* *
120480298 GTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAA
66 -TTGTTCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAA--TTTCAATTTCT--GTTTTCAAA
* * ** * * * *
120480363 A-TCAGCTCATATTGTGAGAGGTGAGTTGAGCTTC-GGTTCATATGCTAAGGTATTTTCAATTTC
125 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACATGCTAAGGTACTTTCAATTTC
120480426 TGTCTTTCAAAAAAA
187 TGTCTTTCAAAAAAA
* * *
120480441 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TT-T
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
* ** * *** * *
120480504 TTGTTCAAAATGAGTTGAGCCT-CAAGACACGCTGAGG-T-AATTTCAATTTCTGTTTTCAAAAT
66 TTGTTCAAAATCAACTCATATTGC--GAGA-GGTG-GGTTGAATTTCAATTTCTGTTTTCAAAAT
* * *
120480566 TCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTACTTTCAATTTCTGTTT
127 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTACTTTCAATTTCTGTCT
120480631 TTCAAAAAAAA
192 TTC-AAAAAAA
* *
120480642 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
* *
120480707 ATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 -TTGTTC---AAAATCAACTCATATTGCGAGAGGTGGGTTGA
120480749 GCCTCAGGAC
Statistics
Matches: 246, Mismatches: 46, Indels: 34
0.75 0.14 0.10
Matches are distributed among these distances:
200 28 0.11
201 71 0.29
202 29 0.12
203 13 0.05
204 13 0.05
205 17 0.07
206 9 0.04
207 13 0.05
208 53 0.22
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (201 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
TTGTTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAATTTCAATTTCTGTTTTCAAAATTCAA
CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTACTTTCAATTTCTGTCTTTCA
AAAAAA
Found at i:120480519 original size:49 final size:49
Alignment explanation
Indices: 120480462--120480557 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
120480452 ATATTGCGAG
* *
120480462 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
120480511 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
120480558 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:120480700 original size:80 final size:76
Alignment explanation
Indices: 120480514--120480865 Score: 387
Period size: 75 Copynumber: 4.7 Consensus size: 76
120480504 TTGTTCAAAA
* *
120480514 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC---AAAATTCAACTCAT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCAT
* **
120480575 ATTGCGAGAAA
66 ATTGTGAGAGG
* * *
120480586 TTAGTTGAGCCTCAAGACATGCTGAGGTACTTTCAATTTCTGTTTTTCAAAAAAAAAAAATCAAC
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAAAATCAAC
**
120480651 TCATATTGTGAGAAA
62 TCATATTGTGAGAGG
* *
120480666 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTC-AAAAAAATCAACTCAT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCAT
*
120480730 ATTGCGAGAGG
66 ATTGTGAGAGG
* * * * *
120480741 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-ATTGTC-AAAAAAATCAACTCGT
1 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCAT
120480804 ATTGTGAGAGG
66 ATTGTGAGAGG
* * ** *
120480815 CGAGTTGAGCCTC-GGTCACACGCCAAGGTATTTTCAATTTCCGTTTTTCAA
1 TGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
120480866 TTCCTGCCTT
Statistics
Matches: 243, Mismatches: 25, Indels: 19
0.85 0.09 0.07
Matches are distributed among these distances:
72 39 0.16
73 7 0.03
74 41 0.17
75 83 0.34
76 4 0.02
77 1 0.00
80 68 0.28
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (76 bp):
TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCAT
ATTGTGAGAGG
Found at i:120481025 original size:80 final size:78
Alignment explanation
Indices: 120480858--120481074 Score: 258
Period size: 78 Copynumber: 2.7 Consensus size: 78
120480848 TCAATTTCCG
* * *
120480858 TTTTTCAATTCCTGCCTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGG
1 TTTTTCAATTTCTGTCTTTC--AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAG-CTTAG
* * *
120480923 CTCACGCGCTGAGCTA
63 ATCACACACTGAGCTA
120480939 -TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGAT
1 TTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTT-AGAT
*
120481003 CACACACTGAGGTA
65 CACACACTGAGCTA
* * * * * *
120481017 TTTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGAGAGATGTGAGTTGAGC
1 -TTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
120481075 CTCGGGTCAC
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
77 3 0.03
78 50 0.42
79 34 0.28
80 33 0.28
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (78 bp):
TTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTAGATC
ACACACTGAGCTA
Found at i:120481085 original size:79 final size:78
Alignment explanation
Indices: 120480880--120481236 Score: 267
Period size: 78 Copynumber: 4.5 Consensus size: 78
120480870 TGCCTTTCAA
* * * *
120480880 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCA
* *
120480945 ATTTCTGTCTTTC
66 ATTTATATCTTTC
* * *
120480958 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTA--TTTT
*
120481023 CAATTTATATTTTTC
64 CAATTTATATCTTTC
* * * * ** *
120481038 -AAAAAAATCAACTCACATTGAGAGATGTGAGTTGAGCCTCGGGTCACA-TGTCGAGGTATTTTC
1 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGATCACACACT-GAGCTATTTTC
** * *
120481101 AAAATCTATTTTTC
65 AATTTATATCTTTC
* * * * * ***
120481115 AGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 A-A---------AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGATCACACACTGA
*
120481180 GTTATTTTC-ATTT-T-T-TTTC
56 GCTATTTTCAATTTATATCTTTC
* *
120481199 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
120481237 TTTTTAATTT
Statistics
Matches: 228, Mismatches: 36, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
74 33 0.14
77 16 0.07
78 53 0.23
79 49 0.21
80 16 0.07
83 1 0.00
84 5 0.02
85 1 0.00
86 1 0.00
87 2 0.01
88 50 0.22
89 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (78 bp):
AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATTTTCA
ATTTATATCTTTC
Found at i:120481134 original size:245 final size:241
Alignment explanation
Indices: 120480640--120481446 Score: 845
Period size: 246 Copynumber: 3.3 Consensus size: 241
120480630 TTTCAAAAAA
* * ** * *
120480640 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * * *
120480702 TTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCT
65 TTTCT-GTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACT
* * * * * *
120480764 GAGGTA-ATTTCAATTTCTA-TTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCT
129 GAGGTATTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT
* * * ** *
120480827 CGGTCACACGCCAAGGTATTTTCAATTTCCGTTTTTCAATTCCTGCCTTTC
194 CGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAATT-CTG--TTTC
* * *
120480878 AAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
1 ----AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
*
120480943 CAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACAC
62 CAATTTCTGT-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
* *
120481008 ACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGAGAGATGTGAGTTGA
126 ACTGAGGTA-TTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGA
*
120481073 GCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTATTTTTCAGATTCTGTTTTC
190 GCCTC-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCA-ATTCTG-TTTC
*
120481128 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGTTATTTTC-AT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* * *
120481191 TT-T-TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGA
66 TTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC-AC-A
* * ** * * *
120481253 GAGTTGAGTTGGGTCTTTT-AATTTATGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTAAG
125 CA-CTGAG--GTAT-TTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGAGAGAGGTGAG
* * * * **
120481315 TTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC
186 TTGAGCC-TCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAA-TTCTGTTTC
*
120481373 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
120481438 TTCTGTTTT
66 TTCTGTTTT
120481447 TAATGTCTGT
Statistics
Matches: 483, Mismatches: 54, Indels: 49
0.82 0.09 0.08
Matches are distributed among these distances:
241 40 0.08
242 37 0.08
243 6 0.01
244 32 0.07
245 104 0.22
246 128 0.27
247 22 0.05
248 15 0.03
249 20 0.04
250 43 0.09
251 33 0.07
252 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (241 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGA
GGTATTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCG
GTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAATTCTGTTTC
Found at i:120481254 original size:30 final size:30
Alignment explanation
Indices: 120481218--120481276 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
120481208 CAACTCATAT
120481218 TGCGAGAGGTGAGTTGAGCT-TTTTAATTTC
1 TGCGAGAGGTGAGTTG-GCTCTTTTAATTTC
* *
120481248 TGCGAGAGTTGAGTTGGGTCTTTTAATTT
1 TGCGAGAGGTGAGTTGGCTCTTTTAATTT
120481277 ATGTTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGGCTCTTTTAATTTC
Found at i:120482008 original size:27 final size:27
Alignment explanation
Indices: 120481968--120482086 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
120481958 CCAAATTGCC
*
120481968 TATC-GATCTAGTGGCTCTGCCACAAA
1 TATCTGATCTGGTGGCTCTGCCACAAA
* *
120481994 TATCTGATCTGGTGGCTTTGCCACATA
1 TATCTGATCTGGTGGCTCTGCCACAAA
* * *
120482021 TATCTGTTCTGGTGGCTCTGCCACGAT
1 TATCTGATCTGGTGGCTCTGCCACAAA
* * *
120482048 TATCTGTATCTGGTGACTCTGTCAC-AT
1 TATCTG-ATCTGGTGGCTCTGCCACAAA
*
120482075 TATCTGTTCTGG
1 TATCTGATCTGG
120482087 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 9 0.11
27 55 0.70
28 15 0.19
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TATCTGATCTGGTGGCTCTGCCACAAA
Found at i:120482079 original size:54 final size:54
Alignment explanation
Indices: 120481978--120482086 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
120481968 TATCGATCTA
* *
120481978 GTGGCTCTGCCACAAATATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * *
120482032 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTG
120482086 G
1 G
120482087 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:120492354 original size:46 final size:46
Alignment explanation
Indices: 120492304--120492479 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
120492294 TGGTTGAGCA
120492304 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
120492350 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
120492395 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
120492443 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120492480 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:120492460 original size:93 final size:93
Alignment explanation
Indices: 120492301--120492472 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
120492291 GGATGGTTGA
* *
120492301 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
120492366 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
120492394 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
120492459 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
120492473 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:120499929 original size:46 final size:46
Alignment explanation
Indices: 120499879--120500054 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
120499869 TGGTTGAGCA
120499879 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
120499925 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
120499970 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
120500018 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120500055 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:120500035 original size:93 final size:93
Alignment explanation
Indices: 120499876--120500047 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
120499866 GGATGGTTGA
* *
120499876 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
120499941 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
120499969 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
120500034 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
120500048 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:120503911 original size:77 final size:78
Alignment explanation
Indices: 120503815--120504109 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
120503805 AATAGTAGTA
*
120503815 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTATTAGGGTAACAGGCTGAAGATTGCAGAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
120503880 CTC-TCTCCAGTG
66 CTCATCTCCAGTG
* **
120503892 GAGTAGATCGAAGAAGCAAGCCTTAACCCTTTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
* *
120503957 CTCGTCTCCAGCG
66 CTCATCTCCAGTG
* *
120503970 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAGATTACAGAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
120504035 CTCATCTCCAGTG
66 CTCATCTCCAGTG
* * * * **
120504048 GAGCAGATCAAAGAAAACAAACCTTAACCCCCTAAGTAGTAGGGTGACAGGCCAAAGATTGC
1 GAGCAGATCGAAG-AAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGC
120504110 GGATTTTGTC
Statistics
Matches: 196, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
77 64 0.33
78 91 0.46
79 41 0.21
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (78 bp):
GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
CTCATCTCCAGTG
Found at i:120505800 original size:46 final size:46
Alignment explanation
Indices: 120505750--120505925 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
120505740 TGGTTGAGCA
120505750 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
120505796 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
120505841 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
120505889 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120505926 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:120505906 original size:93 final size:93
Alignment explanation
Indices: 120505747--120505918 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
120505737 GGATGGTTGA
* *
120505747 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
120505812 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
120505840 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
120505905 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
120505919 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:120507580 original size:18 final size:18
Alignment explanation
Indices: 120507554--120507590 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
120507544 GACCTCCCCC
*
120507554 ACCTCCCCCAATTCCTCA
1 ACCTCCCCCAATGCCTCA
*
120507572 ACCTGCCCCAATGCCTCA
1 ACCTCCCCCAATGCCTCA
120507590 A
1 A
120507591 GGATGGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.51, G:0.05, T:0.19
Consensus pattern (18 bp):
ACCTCCCCCAATGCCTCA
Found at i:120511007 original size:14 final size:14
Alignment explanation
Indices: 120510988--120511020 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
120510978 ATCATATGTG
120510988 TATATTGTATATAT-
1 TATATT-TATATATA
120511002 TATATTTATATATA
1 TATATTTATATATA
120511016 TATAT
1 TATAT
120511021 ATTCTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATATTTATATATA
Found at i:120511548 original size:15 final size:15
Alignment explanation
Indices: 120511528--120511557 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
120511518 ATATTATATA
*
120511528 TATGTATGTATGTTT
1 TATGTATATATGTTT
120511543 TATGTATATATGTTT
1 TATGTATATATGTTT
120511558 ATTTTCTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
TATGTATATATGTTT
Found at i:120513259 original size:12 final size:12
Alignment explanation
Indices: 120513239--120513274 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
120513229 ATTCATTTAA
120513239 CATTCATGCATT
1 CATTCATGCATT
*
120513251 CATTTATGCATT
1 CATTCATGCATT
*
120513263 CATTCATTCATT
1 CATTCATGCATT
120513275 GCATATTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:120520311 original size:71 final size:69
Alignment explanation
Indices: 120520117--120520380 Score: 323
Period size: 71 Copynumber: 3.7 Consensus size: 69
120520107 GAATTAAGCC
* *
120520117 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
120520182 GAGGTAT
63 GAGGTAT
* * ** * *
120520189 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
120520253 AGGTAT
64 AGGTAT
120520259 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
*
120520324 AAGTAT
64 AGGTAT
* * ** * *
120520330 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
120520381 TTTAATTTTT
Statistics
Matches: 166, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
69 35 0.21
70 56 0.34
71 59 0.36
72 16 0.10
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:120520425 original size:122 final size:124
Alignment explanation
Indices: 120520259--120520505 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
120520249 GTTGAGGTAT
120520259 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
120520324 AAGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AAGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
120520380 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * * *
120520445 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAAGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
120520505 T
1 T
120520506 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 12 0.11
122 59 0.52
123 1 0.01
124 13 0.12
125 28 0.25
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AAGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:120520468 original size:263 final size:257
Alignment explanation
Indices: 120519950--120520542 Score: 1006
Period size: 263 Copynumber: 2.3 Consensus size: 257
120519940 TTTCAAGGAA
* *
120519950 AATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
120520015 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGACACGCTGAAGTATTTTTAGT
120520080 TTTAAATTGACTCATATTGCGAGAGGTGAATTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAATTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
120520145 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
120520207 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
* *
120520272 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAAGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGACACGCTGAAGTA---TT--T
*
120520337 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAATTAAGCCTTTTAATTTTTGTTTTTCAAAA
120520402 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
120520467 TTT
255 TTT
* * * * * *
120520470 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
120520535 GTTTTCAA
64 GTTTTCAA
120520543 TTTACGTTGT
Statistics
Matches: 316, Mismatches: 12, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
257 117 0.37
260 2 0.01
262 4 0.01
263 130 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGACACGCTGAAGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAATTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:120520501 original size:72 final size:71
Alignment explanation
Indices: 120520380--120520820 Score: 306
Period size: 72 Copynumber: 6.1 Consensus size: 71
120520370 GAGTTAAGCC
*
120520380 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
120520444 TGAGGTA
65 TGAGGTA
** * *
120520451 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
120520516 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** *
120520523 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTA
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
120520582 GGTTGA-ACC
62 CGCTGAGGTA
** * * *
120520591 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
120520655 CTGAGGTA
64 CTGAGGTA
* * ** *
120520663 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
120520728 GCTGAGGTA
63 GCTGAGGTA
* ** * * **
120520737 TTTTCAATTTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
*
120520802 GCCGAGGTA
63 GCTGAGGTA
120520811 TTTTCAATTT
1 TTTTCAATTT
120520821 CCGTTTTTCA
Statistics
Matches: 271, Mismatches: 77, Indels: 41
0.70 0.20 0.11
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 8 0.03
69 13 0.05
70 6 0.02
71 15 0.06
72 110 0.41
73 16 0.06
74 87 0.32
75 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:120520803 original size:74 final size:74
Alignment explanation
Indices: 120520610--120520821 Score: 259
Period size: 74 Copynumber: 2.9 Consensus size: 74
120520600 CTACTTTTTC
* *
120520610 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
120520675 GTTGTCAAA
66 GTTGTCAAA
* * *
120520684 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
***
120520748 -TATGT-TTT
66 GT-TGTCAAA
** * * *
120520756 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
120520821 C
64 C
120520822 CGTTTTTCAA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
72 35 0.30
73 4 0.03
74 79 0.67
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTGTCAAA
Found at i:120520830 original size:14 final size:14
Alignment explanation
Indices: 120520811--120520845 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
120520801 CGCCGAGGTA
120520811 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
120520825 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
120520839 CTTTCAA
1 TTTTCAA
120520846 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:120520952 original size:74 final size:77
Alignment explanation
Indices: 120520826--120521518 Score: 314
Period size: 72 Copynumber: 8.8 Consensus size: 77
120520816 AATTTCCGTT
* *
120520826 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
120520890 CACGCTGAGGTAA
65 CACGCCGAGGTAA
* *
120520903 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
120520966 CACGCCGAGGTAT
65 CACGCCGAGGTAA
* * * * * * *
120520979 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAA--AA-TCAACTCATAT-TGCGAGAGGTG
1 TTTCAATTTCTGTCTGTCAA-----------AAAAAATCAACTC-A-T-AT-TGCGAGA--GGCG
*
120521040 AGTTGAGCCTCAGG-ACACGCTGAGGTAA
49 AGTTGAGCCTCAGGCACACGCCGAGGTAA
* * * *
120521068 TTTCAATTTCTGT-TGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
*
120521131 CACGTCGAGGTATTTTCAA
65 CACGCCGAGG-----T-AA
* * ** *
120521150 TTTCCATTTTTCAATTTCTGCCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTT-CA-ATTTC--TGTCTG--TCAAAAAAA---ATCAACTCATATTGCGAGAGGCGAGTTGAGC
* **
120521215 CTC-GGGACACGTTGAGGTAA
57 CTCAGGCACACGCCGAGGTAA
* * *** *
120521235 TTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
** *
120521295 ACGTTGAGGTAT
66 ACGCCGAGGTAA
* * * * * * *
120521307 TTTTAATTTCTGT-TTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
* * *
120521368 ATGCGCTGAGCTAT
66 A--CGCCGAGGTAA
* * * * *
120521382 TTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
*** *
120521446 CACATTGAGGTATTT
65 CACGCCGAGGTA--A
* * * * * * *
120521461 TTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
120521519 GGGTTACATG
Statistics
Matches: 491, Mismatches: 70, Indels: 108
0.73 0.10 0.16
Matches are distributed among these distances:
72 61 0.12
73 35 0.07
74 57 0.12
75 25 0.05
76 49 0.10
77 59 0.12
78 5 0.01
79 59 0.12
80 1 0.00
81 3 0.01
82 5 0.01
83 6 0.01
84 6 0.01
85 5 0.01
86 5 0.01
87 5 0.01
88 4 0.01
89 34 0.07
90 7 0.01
91 27 0.05
92 1 0.00
93 32 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:120520984 original size:76 final size:76
Alignment explanation
Indices: 120520825--120521543 Score: 333
Period size: 77 Copynumber: 9.1 Consensus size: 76
120520815 CAATTTCCGT
* *
120520825 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA
*
120520890 CACGCTGAGGTA
65 CACGCCGAGGTA
* * *
120520902 ATTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--
120520965 ACACGCCGAGGTA
64 ACACGCCGAGGTA
* * * * * * *
120520978 TTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAA--AA-TCAACTCATAT-TGCGAGAGGT
1 TTTTCAATTTCTGTCTGTCAA-----------AAAAAATCAACTC-A-T-AT-TGCGAGA--GGC
*
120521039 GAGTTGAGCCTCAGGACACGCTGAGGTA
49 GAGTTGAGCCTCAGGACACGCCGAGGTA
* * * * *
120521067 ATTTCAATTTCTGT-TGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG--G
*
120521130 ACACGTCGAGGTA
64 ACACGCCGAGGTA
* ** *
120521143 TTTTCAATTTCCATTTTTCAATTTCTGCCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGA
1 TTTTC-A-----A--TTTC--TGTCTG--TCAAAAAAA---ATCAACTCATATTGCGAGAGGCGA
* **
120521208 GTTGAGCCTCGGGACACGTTGAGGTA
51 GTTGAGCCTCAGGACACGCCGAGGTA
* * * *** *
120521234 ATTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGAC
**
120521295 ACGTTGAGGTA
66 ACGCCGAGGTA
* * * * * * *
120521306 TTTTTAATTTCTGT-TTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCT
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-A
* *
120521367 CATGCGCTGAGCTA
65 CA--CGCCGAGGTA
* * * *
120521381 TTTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GAT
1 TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA-
* *
120521444 CACACATTGAGGTA
65 CACGC--CGAGGTA
* * * * * * * *
120521458 TTTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG
* *
120521522 TTACATGTCGAGGTA
64 --ACACGCCGAGGTA
120521537 TTTTCAA
1 TTTTCAA
120521544 AATCTATTTT
Statistics
Matches: 508, Mismatches: 75, Indels: 118
0.72 0.11 0.17
Matches are distributed among these distances:
72 62 0.12
73 34 0.07
74 57 0.11
75 27 0.05
76 55 0.11
77 69 0.14
78 4 0.01
79 62 0.12
80 2 0.00
81 4 0.01
82 2 0.00
83 4 0.01
84 4 0.01
85 1 0.00
86 4 0.01
87 5 0.01
88 4 0.01
89 34 0.07
90 8 0.02
91 33 0.06
93 33 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (76 bp):
TTTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGAC
ACGCCGAGGTA
Found at i:120520987 original size:167 final size:165
Alignment explanation
Indices: 120520664--120521322 Score: 931
Period size: 165 Copynumber: 4.0 Consensus size: 165
120520654 GCTGAGGTAA
* * *
120520664 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTTCTGCCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *** *
120520727 CGCTGAGGTATTTTCAATTT-T-TATGT-TTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAG
65 CGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAG
120520789 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
129 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
120520826 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTCAATTTCTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
120520891 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAG
64 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAG
120520956 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
129 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
120520993 TTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
120521058 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
* * *
120521123 TCAGATCACACGTCGAGGTATTTTCAATTTCCATT
131 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
* *
120521158 TTTCAATTTCTGCCTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
1 TTTCAATTTCTGCCTTT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * ***
120521223 ACGTTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAG
64 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAG
* ** * *
120521286 CCTCAAG--ACACGTTGAGGTATTTTTAATTTCTGTT
129 CCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
120521321 TT
1 TT
120521323 CAAAAAATCA
Statistics
Matches: 455, Mismatches: 33, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
162 12 0.03
163 28 0.06
164 2 0.00
165 254 0.56
166 4 0.01
167 155 0.34
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (165 bp):
TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCC
TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
Found at i:120521281 original size:72 final size:73
Alignment explanation
Indices: 120521179--120521686 Score: 397
Period size: 72 Copynumber: 6.5 Consensus size: 73
120521169 GCCTTTAAAA
*
120521179 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTT
120521244 CTGTTTTC
66 CTGTTTTC
* ** ** *
120521252 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTT
120521316 CTGTTTTC
66 CTGTTTTC
* * * ** * *
120521324 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGTTGAGGTATTTTCAAT
*
120521389 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
120521400 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACATTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGTTGAGGTA--TTTTC
* *
120521465 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * * *
120521479 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGTTGAGGTATTTTC--
* *
120521544 AATCTATTTTTCAAATTCTGTTTT
61 -A---A--TTTC----TGT-TTTC
* * * ** *
120521568 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGT--TGAGGTATTTTCAAT
120521633 TTCTGTTTTTTTTTTC
64 TTCTG------TTTTC
120521649 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
120521687 TTTTTAATTT
Statistics
Matches: 344, Mismatches: 56, Indels: 60
0.75 0.12 0.13
Matches are distributed among these distances:
72 65 0.19
73 34 0.10
75 20 0.06
76 5 0.01
77 47 0.14
78 2 0.01
79 65 0.19
80 6 0.02
81 3 0.01
82 7 0.02
83 30 0.09
85 4 0.01
86 4 0.01
88 48 0.14
89 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:120521483 original size:79 final size:76
Alignment explanation
Indices: 120521178--120521896 Score: 416
Period size: 88 Copynumber: 9.0 Consensus size: 76
120521168 TGCCTTTAAA
** *
120521178 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGTTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
120521241 TTTCTGTTTTC
66 TTTCTGTTTTC
* ** * *
120521252 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTTAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
120521313 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** * *
120521324 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
*
120521388 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
120521400 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACATTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTA--TTTTC
* *
120521465 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * * *
120521479 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
** *
120521544 AATCTATTTTTC
66 TTTCT-GTTTTC
* ** * ** *
120521556 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGA
*
120521621 GCTATTTTCAATTTCTGTTTTTTTTTTC
55 GGTATTTTCAATTTCTG------TTTTC
* * * * *
120521649 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGTTGAGGT
*
120521713 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* ** *
120521736 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATATCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGTTGAGGTATTTTC-
* *
120521798 AAATCTGCTTTTCAAGTTAAGTTT
64 -AA------TTTC-TGTT---TTC
** * * * *
120521822 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
120521887 TTTCTGTTTT
66 TTTCTGTTTT
120521897 TAATGTCTGT
Statistics
Matches: 502, Mismatches: 88, Indels: 108
0.72 0.13 0.15
Matches are distributed among these distances:
72 65 0.13
73 32 0.06
75 24 0.05
76 7 0.01
77 65 0.13
78 7 0.01
79 68 0.14
80 6 0.01
81 2 0.00
82 6 0.01
83 36 0.07
84 30 0.06
85 7 0.01
86 6 0.01
87 8 0.02
88 107 0.21
89 6 0.01
90 1 0.00
91 1 0.00
92 13 0.03
93 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:120521704 original size:30 final size:30
Alignment explanation
Indices: 120521668--120521729 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
120521658 CAACTCATAT
120521668 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
120521698 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
120521728 TG
1 TG
120521730 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:120521830 original size:255 final size:248
Alignment explanation
Indices: 120521324--120521897 Score: 741
Period size: 255 Copynumber: 2.3 Consensus size: 248
120521314 TTCTGTTTTC
* * *
120521324 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
*
120521389 TTC-----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
66 TTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
* *
120521449 ATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA
131 ATTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTTGA
* ** * * * ** *
120521514 GCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCTGTTTT
195 ACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAAGTTTA
* * *
120521568 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
* *
120521633 TTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTT
66 TTCTGTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--T
* * * * * *
120521697 CTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAG
126 C-AC-ACA-TTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAG
* *
120521760 GTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTA
186 GTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAAGTTTA
120521823 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
120521888 TTCTGTTTTT
66 TTCTGTTTTT
120521898 AATGTCTGTT
Statistics
Matches: 284, Mismatches: 31, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.22
249 13 0.05
250 30 0.11
251 1 0.00
252 3 0.01
253 2 0.01
254 1 0.00
255 148 0.52
256 6 0.02
257 13 0.05
258 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (248 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
TTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
ATTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAA
CCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAAGTTTA
Found at i:120522562 original size:16 final size:16
Alignment explanation
Indices: 120522543--120522578 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
120522533 AACCTAACCC
*
120522543 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
120522558 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
120522574 AAAAA
1 AAAAA
120522579 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:120522593 original size:16 final size:17
Alignment explanation
Indices: 120522574--120522611 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
120522564 AAAGAAAAAG
*
120522574 AAAAACTTA-CCCCAAA
1 AAAAACTAACCCCCAAA
*
120522590 AAAACCTAACCCCCAAA
1 AAAAACTAACCCCCAAA
120522607 AAAAA
1 AAAAA
120522612 AAGAAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.61, C:0.32, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAAACTAACCCCCAAA
Found at i:120523439 original size:11 final size:11
Alignment explanation
Indices: 120523421--120523450 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
120523411 GTGTATATTG
120523421 TATATATTATA
1 TATATATTATA
*
120523432 TTTATATTATA
1 TATATATTATA
120523443 TATATATT
1 TATATATT
120523451 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:120527121 original size:26 final size:26
Alignment explanation
Indices: 120527091--120527152 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
120527081 TAAATAGGAG
*
120527091 TCCATGATAATAGGTTAGGTAAATGT
1 TCCATGATAATAGGCTAGGTAAATGT
120527117 TCCATGATAATAGGCTAGGTAAATGT
1 TCCATGATAATAGGCTAGGTAAATGT
*
120527143 TTCATGATAA
1 TCCATGATAA
120527153 GAATTTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (26 bp):
TCCATGATAATAGGCTAGGTAAATGT
Found at i:120529185 original size:137 final size:137
Alignment explanation
Indices: 120528939--120529225 Score: 493
Period size: 137 Copynumber: 2.1 Consensus size: 137
120528929 GAGTAGTCTC
*
120528939 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
120529004 TGTTATCTGAATAAGGGGCTAAAGCCTAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAAGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
120529069 ACTGTTA
131 ACTATTA
*
120529076 CCCAAATGGGCTTGCATATGTTTATTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
120529141 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAAGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
120529206 ACTATTA
131 ACTATTA
**
120529213 CCTGAATGGGCTT
1 CCCAAATGGGCTT
120529226 AGGCCCAATG
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 141 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAAGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:120530490 original size:13 final size:13
Alignment explanation
Indices: 120530472--120530501 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
120530462 ATTAAAACAT
120530472 AAAAAAATATACA
1 AAAAAAATATACA
120530485 AAAAAAATATACA
1 AAAAAAATATACA
120530498 AAAA
1 AAAA
120530502 TTTTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAATATACA
Found at i:120530587 original size:11 final size:11
Alignment explanation
Indices: 120530571--120530605 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
120530561 CCGGATTCCC
120530571 CTCCCTTCTCT
1 CTCCCTTCTCT
120530582 CTCCCTTCTCT
1 CTCCCTTCTCT
120530593 CTTCCC-TCTCT
1 C-TCCCTTCTCT
120530604 CT
1 CT
120530606 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:120531093 original size:3 final size:3
Alignment explanation
Indices: 120531085--120531323 Score: 159
Period size: 3 Copynumber: 77.0 Consensus size: 3
120531075 TGCATTTCAA
120531085 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
120531133 TAT TAT TGT TAT TGA- AAT ACAT TAGT GTAT ATCT TCAT GTAT GTA- TAT
1 TAT TAT TAT TAT T-AT TAT -TAT TA-T -TAT -TAT T-AT -TAT -TAT TAT
* * * * * *
120531181 ATAT ATAT GTAG TAA TGT T-T CTAT TAC T-T TAT T-T TAA TAT TTT TAT
1 -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
120531227 TAT AAT GGCT T-T TGT GT-T TCAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
120531273 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
120531321 TAT
1 TAT
120531324 ATATCATTGT
Statistics
Matches: 193, Mismatches: 25, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
2 10 0.05
3 154 0.80
4 26 0.13
5 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:120531380 original size:14 final size:16
Alignment explanation
Indices: 120531361--120531392 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
120531351 ATATTACTGT
120531361 TTTTAATA-C-TTTTA
1 TTTTAATATCATTTTA
120531375 TTTTAATATCATTTTA
1 TTTTAATATCATTTTA
120531391 TT
1 TT
120531393 ATATTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATATCATTTTA
Found at i:120531596 original size:33 final size:30
Alignment explanation
Indices: 120531538--120531609 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 30
120531528 TAATATTATG
*
120531538 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
120531568 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
120531601 TATAT-TTTT
1 TATATATTTT
120531610 CTTAGTACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 1 0.03
30 3 0.08
31 5 0.14
32 9 0.25
33 18 0.50
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:120532778 original size:19 final size:20
Alignment explanation
Indices: 120532756--120532840 Score: 79
Period size: 19 Copynumber: 4.3 Consensus size: 20
120532746 TAATAATAAT
120532756 ATAAAATAATA-ATATGTAC
1 ATAAAATAATATATATGTAC
* *
120532775 ATAAAATACATATATATATGC
1 ATAAAATA-ATATATATGTAC
*
120532796 ATATAATAA-ATATATGTA-
1 ATAAAATAATATATATGTAC
*
120532814 ATAATAATAATA-ATATCTAC
1 ATAA-AATAATATATATGTAC
120532834 AATAAAA
1 -ATAAAA
120532841 GAAAATATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
18 3 0.06
19 26 0.49
20 7 0.13
21 17 0.32
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAAAATAATATATATGTAC
Found at i:120532924 original size:17 final size:17
Alignment explanation
Indices: 120532902--120532962 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
120532892 ACAATAATAT
120532902 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
120532919 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
120532936 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
120532950 AAAATATATATAT
1 AAAATATATATAT
120532963 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:120533742 original size:15 final size:16
Alignment explanation
Indices: 120533724--120533761 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
120533714 TTTGTTGTTT
120533724 TTTTTTTGCTGAA-AA
1 TTTTTTTGCTGAATAA
120533739 TTTTTTTGCTGAATAA
1 TTTTTTTGCTGAATAA
120533755 TTTTTTT
1 TTTTTTT
120533762 TTGCTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTTTTTGCTGAATAA
Found at i:120533764 original size:18 final size:17
Alignment explanation
Indices: 120533722--120533766 Score: 67
Period size: 15 Copynumber: 2.7 Consensus size: 17
120533712 TTTTTGTTGT
120533722 TTTTTTTTTGCTGAAAA
1 TTTTTTTTTGCTGAAAA
120533739 --TTTTTTTGCTGAATAA
1 TTTTTTTTTGCTGAA-AA
120533755 TTTTTTTTTGCT
1 TTTTTTTTTGCT
120533767 CTTTTTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.52
16 2 0.08
18 10 0.40
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (17 bp):
TTTTTTTTTGCTGAAAA
Found at i:120534007 original size:29 final size:30
Alignment explanation
Indices: 120533975--120534107 Score: 87
Period size: 29 Copynumber: 4.5 Consensus size: 30
120533965 CTTCTGGGCT
*
120533975 AAATGTAATTTTTA-GAAAATTTAGGGTTA
1 AAATGTAATTTTTAGGAAAATTTAGGGTCA
* * **
120534004 AAATGTAA-TTTAAGGAAAGTTTAGGGTTT
1 AAATGTAATTTTTAGGAAAATTTAGGGTCA
* * * * *
120534033 TAA-GTGAAATTTAAAGAAAGTTTAAGGGTCA
1 AAATGT-AATTTTTAGGAAAATTT-AGGGTCA
*
120534064 AAATG-AA-ATTTAGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTTTAGGAAAA-TTTA-GGGTCA
*
120534094 AAATGCAATTTTTA
1 AAATGTAATTTTTA
120534108 TTTTTTGAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
28 6 0.07
29 33 0.40
30 29 0.35
31 9 0.11
32 5 0.06
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (30 bp):
AAATGTAATTTTTAGGAAAATTTAGGGTCA
Found at i:120534046 original size:30 final size:29
Alignment explanation
Indices: 120533989--120534104 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
120533979 GTAATTTTTA
* * *
120533989 GAAAATTTAGGGTTAAAATGTAATTTAAG
1 GAAAGTTTAGGGTCAAAATGAAATTTAAG
** * *
120534018 GAAAGTTTAGGGTTTTAAGTGAAATTTAAA
1 GAAAGTTTAGGG-TCAAAATGAAATTTAAG
120534048 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTT-AGGGTCAAAATGAAATTTAAG
*
120534077 GAAAAGTTTAGGGGTCAAAATGCAATTT
1 G-AAAGTTTA-GGGTCAAAATGAAATTT
120534105 TTATTTTTTG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 14 0.19
30 55 0.75
31 4 0.05
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (29 bp):
GAAAGTTTAGGGTCAAAATGAAATTTAAG
Found at i:120534104 original size:60 final size:59
Alignment explanation
Indices: 120533988--120534104 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 59
120533978 TGTAATTTTT
* * * ** *
120533988 AGAAAATTTAGGGTTAAAATGTAATTTAAGGAAAGTTTAGGGTTTTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
120534047 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
120534105 TTATTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 11 0.23
60 37 0.77
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.32
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:120534129 original size:24 final size:24
Alignment explanation
Indices: 120534101--120534146 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
120534091 TCAAAATGCA
120534101 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
120534125 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
120534147 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:120534603 original size:76 final size:77
Alignment explanation
Indices: 120534336--120535035 Score: 439
Period size: 87 Copynumber: 8.6 Consensus size: 77
120534326 GACCCGAAGT
*
120534336 TCAACTCACCTCTCG-AATTATGAGTTGATCTTTTGAAAAAGCAAAA--AATTGAAAATACCTCA
1 TCAACTCACCTCTCGCAA-TATGAGTTGAT-TTTTGAAAAAGAAAAAGGAATTGAAAATACCTCA
*
120534398 GCGTGTGACCTGAGGC
64 ACGTGT--CCTGAGGC
* * *** * * *
120534414 TTAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAG--ACAGAAATTGAAAATACCTCAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAAAAAGGAATTGAAAATACCTCAAC
*
120534477 GTGTCTTGAGGC
66 GTGTCCTGAGGC
** * * * *
120534489 TCAACTCATTTCTCGCAATATGAGATG-TCTTTTTAAAAA-AAAAAGGAATTGAAATTACCTCAG
1 TCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAAAAGAAAAAGGAATTGAAAATACCTCAA
* *
120534552 CGTATCCCGAGGC
65 CGTGTCCTGAGGC
* * *
120534565 TCAACTCACCTCTCGTAATATGAATTGATTTTTGAAAAACATAAATTGAAAAATGGAAATCGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG----A-A-AAA--GAAAAA-GG-AATTGAAA
120534630 ATACCTCAACGTGTCCTGAGGC
56 ATACCTCAACGTGTCCTGAGGC
* *
120534652 TCAATTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGGGAAAAACAGAAATTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG---AA-A-A-A----G-AAAA-AGGAATTGA
*
120534717 AAATACCTCAGCGTGTCCTGAGGC
54 AAATACCTCAACGTGTCCTGAGGC
* * *
120534741 TCAACTCACCTCTCGCAATATGAGTTGA--TTTAAAAACAGTCATTAAGAATAGAAATTAAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-AG-----AA-AA-AGGAATTGAAAAT
* * *
120534804 ACCTCAGCGTGTCTTGAGAC
58 ACCTCAACGTGTCCTGAGGC
* **
120534824 TCAACTCACCTCTCGCAATATGAATTGATTTTTGCAAAATATAAATTGAAAAACATAAATTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG----A-A-AAA--G-AAAA-AGGAATTGAAA
* *
120534889 TTACCTCAGCGTGTCCTGAGGC
56 ATACCTCAACGTGTCCTGAGGC
* * ***** **
120534911 TCAACTCACCTCTTGCAATATGAGTCGACTTTTT-TTTTTGATAAACAATAATTGAAAATACCTC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAGA-AAA-AGGAATTGAAAATACCTC
* * *
120534975 GACGTGCCCCGAGGC
63 AACGTGTCCTGAGGC
* *
120534990 TCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-AGAAAAA
120535036 ACATCAAAAT
Statistics
Matches: 495, Mismatches: 84, Indels: 86
0.74 0.13 0.13
Matches are distributed among these distances:
74 1 0.00
75 39 0.08
76 53 0.11
77 29 0.06
78 31 0.06
79 61 0.12
80 3 0.01
81 1 0.00
82 7 0.01
83 60 0.12
84 2 0.00
85 11 0.02
86 7 0.01
87 115 0.23
88 7 0.01
89 57 0.12
90 7 0.01
91 3 0.01
92 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (77 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAGAAAAAGGAATTGAAAATACCTCAAC
GTGTCCTGAGGC
Found at i:120534742 original size:89 final size:87
Alignment explanation
Indices: 120534526--120534944 Score: 524
Period size: 87 Copynumber: 4.8 Consensus size: 87
120534516 TCTTTTTAAA
* * * * * * *
120534526 AAAAAAAGGAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGTAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
120534591 GATTTTTGAAAAACATAAATTG
66 GATTTTTGAAAAACATAAATTG
** * * *
120534613 AAAAATGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
120534678 GATTTTTGAAAAATATAGATTGGG
66 GATTTTTGAAAAACATAAATT--G
120534702 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
120534767 GA--TTT-AAAAACAGT-CATT-
66 GATTTTTGAAAAACA-TAAATTG
* * * * * *
120534785 AAGAATAGAAATTAAAAATACCTCAGCGTGTCTTGAGACTCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
120534850 GATTTTTGCAAAATATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * *
120534872 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTC
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
120534937 GACTTTTT
66 GA-TTTTT
120534945 TTTTTGATAA
Statistics
Matches: 284, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
83 61 0.21
85 4 0.01
86 17 0.06
87 134 0.47
88 5 0.02
89 63 0.22
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACATAAATTG
Found at i:120534881 original size:14 final size:14
Alignment explanation
Indices: 120534859--120534888 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
120534849 TGATTTTTGC
*
120534859 AAAATATAAATTGA
1 AAAACATAAATTGA
120534873 AAAACATAAATTGA
1 AAAACATAAATTGA
120534887 AA
1 AA
120534889 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:120534906 original size:259 final size:253
Alignment explanation
Indices: 120534449--120534944 Score: 645
Period size: 259 Copynumber: 1.9 Consensus size: 253
120534439 TGATTTTTTT
* * * **
120534449 GAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGA
1 GAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGA
* ** * * * *
120534514 TGTCTTTTTAAAAAAAAAAGGAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTCACCTCTC
66 TGTATTTAAAAAAAAAAAAGAAATTAAAAATACCTCAGCGTATCCCGAGACTCAACTCACCTCTC
* **
120534579 GTAATATGAATTGATTTTTGAAAAACATAAATTGAAAAATGGAAATCGAAAATACCTCAACGTGT
131 GCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGT
* *
120534644 CCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAGATTGG
196 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTTGAAAAATATAGATTGG
* *
120534701 GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGA
* **
120534766 TG-ATTTAAAAACAGTCATTAAGAATAGAAATTAAAAATACCTCAGCGTGTCTTGAGACTCAACT
66 TGTATTTAAAAA-A---A--AA-AA-AGAAATTAAAAATACCTCAGCGTATCCCGAGACTCAACT
* * * * *
120534830 CACCTCTCGCAATATGAATTGATTTTTGCAAAATATAAATTGAAAAACATAAATTGAAATTACCT
123 CACCTCTCGCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCT
* *
120534895 CAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTCGACTTTTT
188 CAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTT
120534945 TTTTTGATAA
Statistics
Matches: 206, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
251 6 0.03
252 61 0.30
255 1 0.00
257 2 0.01
258 2 0.01
259 129 0.63
260 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (253 bp):
GAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGA
TGTATTTAAAAAAAAAAAAGAAATTAAAAATACCTCAGCGTATCCCGAGACTCAACTCACCTCTC
GCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGT
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTTGAAAAATATAGATTGG
Found at i:120534919 original size:170 final size:174
Alignment explanation
Indices: 120534526--120534935 Score: 569
Period size: 172 Copynumber: 2.4 Consensus size: 174
120534516 TCTTTTTAAA
* * * * * *
120534526 AAAAAAAGGAATTGAAATTACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGTAATATGAATT
1 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
120534591 GATTTTTGAAAAACATAAATTGAAAAATGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAA
66 GA-TTTTGAAAAACATAAATTGAAAAATAGAAATCAAAAATACCTCAACGTGTCCTGAGACTCAA
* * *
120534656 TTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGGG
130 CTCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAATT-GG
*
120534702 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * *
120534767 GA-TTT-AAAAACAGT-CATT-AAGAATAGAAATTAAAAATACCTCAGCGTGTCTTGAGACTCAA
66 GATTTTGAAAAACA-TAAATTGAAAAATAGAAATCAAAAATACCTCAACGTGTCCTGAGACTCAA
*
120534828 CTCACCTCTCGCAATATGAATTGATTTTTGCAAAATATAAATT-G
130 CTCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAATTGG
* *
120534872 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
120534936 CGACTTTTTT
Statistics
Matches: 211, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
170 62 0.29
172 75 0.36
173 10 0.05
174 4 0.02
176 60 0.28
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (174 bp):
AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGAAAAACATAAATTGAAAAATAGAAATCAAAAATACCTCAACGTGTCCTGAGACTCAAC
TCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAATTGG
Found at i:120551998 original size:72 final size:70
Alignment explanation
Indices: 120551813--120552125 Score: 359
Period size: 72 Copynumber: 4.4 Consensus size: 70
120551803 AAATGAGTTG
*
120551813 AGCCTCAGGTCACGCGCTGAGTTATTTTTAA-TTTATGTTTTAAAAATTTGACTCATATTGCGAG
1 AGCCTCAGGTCA--CGCTGAGGTA-TTTTAAGTTTATGTTTTAAAAA-TTG-CTCATATTGCGAG
120551877 AGGTGAGTCA
61 AGGTGAGTCA
*
120551887 AGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTTAAAAATTGCTCATATTGCGAGAGG
1 AGCCTCAGGT--CACGCTGAGGTATTTTAAGTTTATGTTTTAAAAATTGCTCATATTGCGAGAGG
120551952 TGAGTCA
64 TGAGTCA
* * * *
120551959 AGCCTCAGGTCACGCTGAGGTATTTTAATTCCTTTTGTTTCAAAAATCAGCTCATATTGCGAG-G
1 AGCCTCAGGTCACGCTGAGGTATTTTAAGT--TTATGTTTTAAAAAT-TGCTCATATTGCGAGAG
**
120552023 GTGAGTTG
63 GTGAGTCA
* * * * *
120552031 AGCCTCGGGGCAGGCTGAGGTATTTTTAGTTTATG-TTTAGAAAA-TACTCATATTGCGAGAGGT
1 AGCCTCAGGTCACGCTGAGGTATTTTAAGTTTATGTTTTA-AAAATTGCTCATATTGCGAGAGGT
120552094 GAGTCA
65 GAGTCA
*
120552100 AGCCTC-GG-CACGCTGAGGTAATTTAA
1 AGCCTCAGGTCACGCTGAGGTATTTTAA
120552126 TTTCTATTGT
Statistics
Matches: 208, Mismatches: 23, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
67 15 0.07
68 15 0.07
69 16 0.08
70 26 0.12
72 78 0.38
73 22 0.11
74 34 0.16
76 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (70 bp):
AGCCTCAGGTCACGCTGAGGTATTTTAAGTTTATGTTTTAAAAATTGCTCATATTGCGAGAGGTG
AGTCA
Found at i:120552154 original size:141 final size:145
Alignment explanation
Indices: 120551863--120552173 Score: 402
Period size: 141 Copynumber: 2.2 Consensus size: 145
120551853 TAAAAATTTG
**
120551863 ACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTT
* * *
120551928 AAAAATTGCTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTT
66 AAAAATTACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTAATTTAATTCCTA
*** *
120551993 TTGTTTCAAAAATCA
131 TTGTAAAAAAAACCA
* ** *
120552008 GCTCATATTGCGAG-GGTGAGTTGAGCCTC-GG-GGCAGGCTGAGGTATTTTTAGTTTATG-TTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTT
*
120552069 AGAAAA-TACTCATATTGCGAGAGGTGAGTCAAGCCTC-GG-CACGCTGAGGTAATTTAATTTCT
66 A-AAAATTACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTAATTTAATTCCT
120552131 ATTGTCAAAAAAGAACCA
130 ATTGT-AAAAAA-AACCA
* *
120552149 ACTCATATTACGAGAGGTGGGTTGA
1 ACTCATATTGCGAGAGGTGAGTTGA
120552174 ACCTTTTAAT
Statistics
Matches: 145, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
139 25 0.17
140 5 0.03
141 50 0.34
142 37 0.26
143 2 0.01
144 13 0.09
145 13 0.09
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (145 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTTATGTTTT
AAAAATTACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTAATTTAATTCCTA
TTGTAAAAAAAACCA
Found at i:120552164 original size:73 final size:71
Alignment explanation
Indices: 120551863--120552167 Score: 273
Period size: 72 Copynumber: 4.3 Consensus size: 71
120551853 TAAAAATTTG
* * *
120551863 ACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTTAGTT-TA-TGTT
1 ACTCATATTGCGAGAGGTGAGTCAAGCCTC-GG--GCACGCTGAGGTATTTTAATTTCTATTGTT
* **
120551926 TTAAAAATT
63 TAAAAAACA
* * * *
120551935 GCTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTTTTGTTTC
1 ACTCATATTGCGAGAGGTGAGTCAAGCCTC-GGGCACGCTGAGGTATTTTAATTTCTATTGTTT-
*
120552000 AAAAATCA
64 AAAAAACA
* ** * * *
120552008 GCTCATATTGCGAG-GGTGAGTTGAGCCTCGGGGCAGGCTGAGGTATTTTTAGTT-TA-TGTTTA
1 ACTCATATTGCGAGAGGTGAGTCAAGCCTC-GGGCACGCTGAGGTATTTTAATTTCTATTGTTTA
* *
120552070 GAAAA-T
65 AAAAACA
* **
120552076 ACTCATATTGCGAGAGGTGAGTCAAGCCTC-GGCACGCTGAGGTAATTTAATTTCTATTGTCAAA
1 ACTCATATTGCGAGAGGTGAGTCAAGCCTCGGGCACGCTGAGGTATTTTAATTTCTATTGT-TTA
120552140 AAAGAACCA
65 AAA-AA-CA
*
120552149 ACTCATATTACGAGAGGTG
1 ACTCATATTGCGAGAGGTG
120552168 GGTTGAACCT
Statistics
Matches: 189, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
67 19 0.10
68 15 0.08
69 20 0.11
70 26 0.14
71 4 0.02
72 69 0.37
73 36 0.19
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (71 bp):
ACTCATATTGCGAGAGGTGAGTCAAGCCTCGGGCACGCTGAGGTATTTTAATTTCTATTGTTTAA
AAAACA
Found at i:120554429 original size:17 final size:17
Alignment explanation
Indices: 120554407--120554440 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
120554397 TATCCACTTT
120554407 TTATATTATTATTATTA
1 TTATATTATTATTATTA
*
120554424 TTATATTATTTTTATTA
1 TTATATTATTATTATTA
120554441 CTATGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:120554439 original size:14 final size:15
Alignment explanation
Indices: 120554404--120554440 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
120554394 TTTTATCCAC
120554404 TTTTTA-TATTATTA
1 TTTTTATTATTATTA
*
120554418 TTATTATTA-TATTA
1 TTTTTATTATTATTA
120554432 TTTTTATTA
1 TTTTTATTA
120554441 CTATGGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATTATTATTA
Found at i:120557768 original size:7 final size:7
Alignment explanation
Indices: 120557756--120557782 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
120557746 CTTGTAGATG
120557756 ATTAGAA
1 ATTAGAA
120557763 ATTAGAA
1 ATTAGAA
120557770 ATTAGAA
1 ATTAGAA
120557777 ATTAGA
1 ATTAGA
120557783 GGTGTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (7 bp):
ATTAGAA
Found at i:120558053 original size:36 final size:36
Alignment explanation
Indices: 120558006--120558079 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
120557996 ATATATATTT
*
120558006 TTCTTTTACATTAATATATACTGTTAACTAATAAGA
1 TTCTTTTACATTAATATATACTGTTAACCAATAAGA
120558042 TTCTTTTACATTAATATATACTGTTAACCAATAAGA
1 TTCTTTTACATTAATATATACTGTTAACCAATAAGA
120558078 TT
1 TT
120558080 AATAAGGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (36 bp):
TTCTTTTACATTAATATATACTGTTAACCAATAAGA
Found at i:120559498 original size:6 final size:6
Alignment explanation
Indices: 120559487--120559515 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
120559477 CTTTATTATA
120559487 AAAAAG AAAAAG AAAAA- AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
120559516 CAAATATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:120559507 original size:11 final size:12
Alignment explanation
Indices: 120559487--120559515 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
120559477 CTTTATTATA
120559487 AAAAAGAAAAAG
1 AAAAAGAAAAAG
120559499 AAAAA-AAAAAG
1 AAAAAGAAAAAG
120559510 AAAAAG
1 AAAAAG
120559516 CAAATATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:120561623 original size:27 final size:29
Alignment explanation
Indices: 120561590--120561650 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
120561580 AAGAACCCTT
*
120561590 AAAATTAAAAATATAT-A-TACATTTAAA
1 AAAATTAAAAATATATAATTAAATTTAAA
*
120561617 AAAATTAAATATATATGAATTAAATTTAAA
1 AAAATTAAAAATATAT-AATTAAATTTAAA
120561647 AAAA
1 AAAA
120561651 ATGCTAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 15 0.52
29 1 0.03
30 13 0.45
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATTAAAAATATATAATTAAATTTAAA
Found at i:120563485 original size:19 final size:20
Alignment explanation
Indices: 120563463--120563535 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
120563453 TAATAATAAT
120563463 ATAAAATAATA-ATATGTAC
1 ATAAAATAATATATATGTAC
*
120563482 ATAAAAATACATATATATATATGC
1 AT-AAAATA-ATATATATGTA--C
*
120563506 ATATAATAA-ATATATGTA-
1 ATAAAATAATATATATGTAC
120563524 ATAATAATAATA
1 ATAA-AATAATA
120563536 ATAATATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
18 3 0.07
19 7 0.16
20 7 0.16
21 11 0.26
22 7 0.16
23 5 0.12
24 3 0.07
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
ATAAAATAATATATATGTAC
Found at i:120563636 original size:17 final size:19
Alignment explanation
Indices: 120563614--120563657 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
120563604 ACAATAATAT
120563614 AAAATA-AT-GATATGTAC
1 AAAATATATAGATATGTAC
*
120563631 AAAATATATATATATGTAC
1 AAAATATATAGATATGTAC
*
120563650 ATAATATA
1 AAAATATA
120563658 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 15 0.65
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAATATATAGATATGTAC
Found at i:120564464 original size:16 final size:14
Alignment explanation
Indices: 120564443--120564479 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
120564433 TTTTGTTGTT
120564443 TTTTTTTGCTGGAAAA
1 TTTTTTTGCT-G-AAA
120564459 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
120564473 TTTTTTT
1 TTTTTTT
120564480 TTTGCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:120564480 original size:15 final size:16
Alignment explanation
Indices: 120564442--120564480 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
120564432 TTTTTGTTGT
120564442 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
*
120564458 ATTTTTTTGCT-GAAA
1 TTTTTTTTGCTGGAAA
120564473 TTTTTTTT
1 TTTTTTTT
120564481 TTGCTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:120564485 original size:17 final size:17
Alignment explanation
Indices: 120564441--120564481 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
120564431 TTTTTTGTTG
120564441 TTTTTTTTTGCTGGAAA
1 TTTTTTTTTGCTGGAAA
*
120564458 -ATTTTTTTGCT-GAAA
1 TTTTTTTTTGCTGGAAA
120564473 TTTTTTTTT
1 TTTTTTTTT
120564482 TGCTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTGCTGGAAA
Found at i:120564765 original size:30 final size:30
Alignment explanation
Indices: 120564729--120564823 Score: 120
Period size: 30 Copynumber: 3.2 Consensus size: 30
120564719 GGTTAAAATC
* ** *
120564729 AATTTAAGGAAAGTTTAGGGGTCTAAGTGA
1 AATTTAAGGAAAGTTTAAGGGTAAAAATGA
*
120564759 AATTTAAAGAAAGTTTAAGGGTAAAAATGA
1 AATTTAAGGAAAGTTTAAGGGTAAAAATGA
*
120564789 AATTT-AGGAAAAGTTTAAGGGTAAAAATGC
1 AATTTAAGG-AAAGTTTAAGGGTAAAAATGA
120564819 AATTT
1 AATTT
120564824 TTATTTTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 2 0.04
30 55 0.96
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.29
Consensus pattern (30 bp):
AATTTAAGGAAAGTTTAAGGGTAAAAATGA
Found at i:120564823 original size:60 final size:58
Alignment explanation
Indices: 120564708--120564823 Score: 126
Period size: 60 Copynumber: 2.0 Consensus size: 58
120564698 TGTAATTTTT
* * * ** *
120564708 AGAAAATTTAGGGTTAAAATCAATTTAAGGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTAAAAATAAATTTAAGGAAAGTTTAAGGGTAAAAATGAAATTTAA
* *
120564766 AGAAAGTTTAAGGGTAAAAATGAAATTT-AGGAAAAGTTTAAGGGTAAAAATGCAATTT
1 AGAAAATTT-AGGGTAAAAAT-AAATTTAAGG-AAAGTTTAAGGGTAAAAATGAAATTT
120564824 TTATTTTTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
58 8 0.17
59 13 0.28
60 26 0.55
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.29
Consensus pattern (58 bp):
AGAAAATTTAGGGTAAAAATAAATTTAAGGAAAGTTTAAGGGTAAAAATGAAATTTAA
Found at i:120564851 original size:24 final size:24
Alignment explanation
Indices: 120564820--120564865 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
120564810 TAAAAATGCA
*
120564820 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTAAAAATTTTTT
120564844 ATTTTTATTTTTTAAAAATTTT
1 ATTTTTATTTTTTAAAAATTTT
120564866 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTTTATTTTTTAAAAATTTTTT
Found at i:120565219 original size:75 final size:74
Alignment explanation
Indices: 120565052--120565336 Score: 286
Period size: 80 Copynumber: 3.7 Consensus size: 74
120565042 GACCCGAAGT
* * *
120565052 TCAACTCACCTTTCG-AATTATGAGTTGATCTTTTGAAAAAGCAAAAAATTGAAAATACCTCAGC
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTGAAAAA-C-AGAAATTGAAAATACCTCA--
*
120565116 GTGTGACCTGAGGC
61 GTGTGTCCTGAGGC
* * *
120565130 TTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGT
*
120565195 GTCTTGAGGC
65 GTCCTGAGGC
** * * *
120565205 TCAACTCATTTCTCGCAATATGAGTTGACTTTTTTTTAAAAAAAAACAGGAATTGAAATTACCTC
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTTT---GAAAAACAGAAATTGAAAATACCTC
* *
120565270 AGCGTGTCCCGAGGC
60 AGTGTGTCCTGAGGC
* * *
120565285 TCAACTCACCTCTCGTAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA
120565337 ACGGAAATCA
Statistics
Matches: 173, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
73 15 0.09
75 36 0.21
76 5 0.03
77 25 0.14
78 24 0.14
79 12 0.07
80 56 0.32
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGTGTG
TCCTGAGGC
Found at i:120565462 original size:88 final size:87
Alignment explanation
Indices: 120565246--120565662 Score: 531
Period size: 87 Copynumber: 4.8 Consensus size: 87
120565236 TTTTTTAAAA
* * * * * *
120565246 AAAAACAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
120565311 GATTTTTGAAAAACATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * * **
120565333 AAAAACGGAAATCAAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTAACAATATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
120565398 GATTTTTGAAAAATATAGATTG
66 GATTTTTGAAAAACATAAATTG
*
120565420 AAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGT
1 -AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
120565485 TGA--TTT-AAAAACAGT-CATT-
65 TGATTTTTGAAAAACA-TAAATTG
* * *
120565504 AATAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGA-AT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
120565568 GATTTTTGCAAAATATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * * *
120565590 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTC
1 AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
120565655 GACTTTTT
66 GA-TTTTT
120565663 TTTTGACAAA
Statistics
Matches: 283, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
82 3 0.01
83 59 0.21
84 4 0.01
85 17 0.06
86 60 0.21
87 75 0.27
88 65 0.23
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (87 bp):
AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACATAAATTG
Found at i:120565599 original size:14 final size:14
Alignment explanation
Indices: 120565577--120565606 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
120565567 TGATTTTTGC
*
120565577 AAAATATAAATTGA
1 AAAACATAAATTGA
120565591 AAAACATAAATTGA
1 AAAACATAAATTGA
120565605 AA
1 AA
120565607 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:120577890 original size:17 final size:17
Alignment explanation
Indices: 120577868--120577928 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
120577858 ACAATAATAT
120577868 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
120577885 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
120577902 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
120577916 AAAATATATATAT
1 AAAATATATATAT
120577929 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:120578709 original size:16 final size:14
Alignment explanation
Indices: 120578688--120578724 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
120578678 TTTTGTTGTT
120578688 TTTTTTTGCTGGAAAA
1 TTTTTTTGCT-G-AAA
120578704 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
120578718 TTTTTTT
1 TTTTTTT
120578725 TTTGCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:120578725 original size:15 final size:16
Alignment explanation
Indices: 120578687--120578725 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
120578677 TTTTTGTTGT
120578687 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
*
120578703 ATTTTTTTGCT-GAAA
1 TTTTTTTTGCTGGAAA
120578718 TTTTTTTT
1 TTTTTTTT
120578726 TTGCTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:120578730 original size:17 final size:17
Alignment explanation
Indices: 120578686--120578726 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
120578676 TTTTTTGTTG
120578686 TTTTTTTTTGCTGGAAA
1 TTTTTTTTTGCTGGAAA
*
120578703 -ATTTTTTTGCT-GAAA
1 TTTTTTTTTGCTGGAAA
120578718 TTTTTTTTT
1 TTTTTTTTT
120578727 TGCTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTGCTGGAAA
Found at i:120579012 original size:30 final size:30
Alignment explanation
Indices: 120578955--120579070 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
120578945 GTAATTTTTA
* *
120578955 GAAAATTTAA-GGTTAAAAT-ACAATTTAAG
1 GAAAGTTTAAGGGTCAAAATGA-AATTTAAG
* * *
120578984 GAAAGTTTAAGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
120579014 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* *
120579043 GAAAAGTTTAGGGGTCAAAATGTAATTT
1 G-AAAGTTTAAGGGTCAAAATGAAATTT
120579071 TTATTTTTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.15
30 62 0.84
31 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (30 bp):
GAAAGTTTAAGGGTCAAAATGAAATTTAAG
Found at i:120579070 original size:60 final size:59
Alignment explanation
Indices: 120578941--120579070 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 59
120578931 TTCTGGGGCT
** * *
120578941 AAATGTAATTTTTAGAAAATTTAAGGTTAAAATACAATTTAAGGAAAGTTTAAGGGTCT
1 AAATGTAATTTAAAGAAAATTTAAGGTCAAAATACAATTTAAGGAAAGTTTAAGGGTCA
* * * *
120579000 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGA-AATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTTAA-GGTCAAAAT-ACAATTTAAGG-AAAGTTTAAGGGTCA
120579060 AAATGTAATTT
1 AAATGTAATTT
120579071 TTATTTTTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
59 22 0.38
60 35 0.60
61 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAAGGTCAAAATACAATTTAAGGAAAGTTTAAGGGTCA
Found at i:120579101 original size:23 final size:24
Alignment explanation
Indices: 120579067--120579111 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
120579057 TCAAAATGTA
120579067 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
120579091 ATTTTTATTTTTT-AAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
120579112 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:120584216 original size:14 final size:14
Alignment explanation
Indices: 120584199--120584315 Score: 75
Period size: 14 Copynumber: 8.2 Consensus size: 14
120584189 TTTTCTTATC
120584199 ATTATTATATTACT
1 ATTATTATATTACT
120584213 ATTATTATATTA-T
1 ATTATTATATTACT
120584226 A-T-TTAGTATTATCTTT
1 ATTATTA-TATTA-C--T
* *
120584242 AATATTATATTTCT
1 ATTATTATATTACT
120584256 ATTATTATATT--T
1 ATTATTATATTACT
120584268 ATTATTATCTATTACTTT
1 ATTATTA--TATTAC--T
* * *
120584286 ATTTTTATTTTAAT
1 ATTATTATATTACT
120584300 ATTATTATATTA-T
1 ATTATTATATTACT
120584313 ATT
1 ATT
120584316 CACCTTTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 27
0.71 0.06 0.23
Matches are distributed among these distances:
11 3 0.04
12 14 0.17
13 6 0.07
14 38 0.46
16 7 0.08
17 5 0.06
18 10 0.12
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (14 bp):
ATTATTATATTACT
Found at i:120584218 original size:3 final size:3
Alignment explanation
Indices: 120584180--120584312 Score: 63
Period size: 3 Copynumber: 46.3 Consensus size: 3
120584170 TGCTTTAACG
* * * *
120584180 TTA TTA CTA TT- TTC TTA TCA TTA TTA -TA TTA CTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
120584225 -TA TTTA GTA TTA TCT- TTA ATA TTA -TA TT- TCTA TTA TTA -TA TTTA
1 TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA
* * *
120584269 TTA TTA TCTA TTA CT- TTA TTT TTA TT- TTA ATA TTA TTA -TA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
120584312 T
1 T
120584313 ATTCACCTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
2 19 0.20
3 69 0.71
4 9 0.09
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:120584261 original size:26 final size:24
Alignment explanation
Indices: 120584219--120584275 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
120584209 TACTATTATT
*
120584219 ATATTATATTTAGTATTATCTTTA
1 ATATTATATTTAGTATTATATTTA
*
120584243 ATATTATATTTCTATTATTATATTTA
1 ATATTATA-TT-TAGTATTATATTTA
*
120584269 TTATTAT
1 ATATTAT
120584276 CTATTACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 2 0.07
26 18 0.64
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTATATTTAGTATTATATTTA
Found at i:120584431 original size:16 final size:17
Alignment explanation
Indices: 120584402--120584437 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
120584392 CTTTTATATA
*
120584402 GTTTTTTTTATTACTTT
1 GTTTTTATTATTACTTT
120584419 GTTTTTATT-TTACTTT
1 GTTTTTATTATTACTTT
120584435 GTT
1 GTT
120584438 ATATTTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.11, C:0.06, G:0.08, T:0.75
Consensus pattern (17 bp):
GTTTTTATTATTACTTT
Found at i:120584836 original size:11 final size:11
Alignment explanation
Indices: 120584814--120584844 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
120584804 CAATATCTAT
120584814 TATATATATATG
1 TATATAT-TATG
120584826 TATATATTATG
1 TATATATTATG
120584837 TATATATT
1 TATATATT
120584845 TTAACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:120591488 original size:30 final size:30
Alignment explanation
Indices: 120591454--120591515 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
120591444 CTTAACAAGT
120591454 AAATG-CCTCTAAAATAATAACAAAATTAAC
1 AAATGTCCT-TAAAATAATAACAAAATTAAC
120591484 AAATGTCCTTAAAATAATAACAAAATTAAC
1 AAATGTCCTTAAAATAATAACAAAATTAAC
120591514 AA
1 AA
120591516 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGTCCTTAAAATAATAACAAAATTAAC
Found at i:120594274 original size:2 final size:2
Alignment explanation
Indices: 120594269--120594297 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
120594259 ATACATACAG
120594269 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
120594298 TATATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:120594846 original size:26 final size:26
Alignment explanation
Indices: 120594808--120594943 Score: 186
Period size: 26 Copynumber: 5.2 Consensus size: 26
120594798 TGATACAAAT
*
120594808 TGATAAT-AGGTTAGGTAAATGTTCCA
1 TGATAATGA-GTTAGGTAAATGTTTCA
120594834 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTTCA
* *
120594860 TGATAAT-AGGTAAGGTAAATGTTCCA
1 TGATAATGA-GTTAGGTAAATGTTTCA
* *
120594886 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTTCA
*
120594912 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTTCA
120594938 TGATAA
1 TGATAA
120594944 GAATATCATG
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
25 1 0.01
26 97 0.98
27 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTTCA
Found at i:120594865 original size:52 final size:52
Alignment explanation
Indices: 120594808--120594943 Score: 227
Period size: 52 Copynumber: 2.6 Consensus size: 52
120594798 TGATACAAAT
*
120594808 TGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAACGAGTTAGGTAAATGTTTCA
* *
120594860 TGATAATAGGTAAGGTAAATGTTCCATGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAACGAGTTAGGTAAATGTTTCA
* *
120594912 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
120594944 GAATATCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAACGAGTTAGGTAAATGTTTCA
Found at i:120596974 original size:136 final size:136
Alignment explanation
Indices: 120596729--120597150 Score: 799
Period size: 136 Copynumber: 3.1 Consensus size: 136
120596719 GAGTAGTCTC
120596729 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
120596794 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
120596859 ACTGTTA
130 ACTGTTA
120596866 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
120596931 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
120596996 CTGTTA
131 CTGTTA
120597002 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
120597067 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
120597132 CTGTTA
131 CTGTTA
**
120597138 CCTGAATGGGCTT
1 CCCAAATGGGCTT
120597151 AGGCCCAATA
Statistics
Matches: 281, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
136 261 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:120598136 original size:41 final size:41
Alignment explanation
Indices: 120598089--120598227 Score: 122
Period size: 41 Copynumber: 3.4 Consensus size: 41
120598079 GCTCGAAGGC
* * *
120598089 TGAACAGAAG-TACATAAGTGCT-AACGGAAACTAGTAAGGGT
1 TGAACAGAAGCT-CATAAGAGCTGAACGAAAACCAGT-AGGGT
120598130 TGAACAGAAGCTCATAAGAGCTGAACGAAAACCAGTAGGGT
1 TGAACAGAAGCTCATAAGAGCTGAACGAAAACCAGTAGGGT
* * * ** * *
120598171 TAAACTGAAACTCATAAGAATTGAACTGAAACCCATTAGGGT
1 TGAACAGAAGCTCATAAGAGCTGAAC-GAAAACCAGTAGGGT
* *
120598213 T-AACTGAAACTCATA
1 TGAACAGAAGCTCATA
120598228 TGAGTTAACT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
41 59 0.69
42 26 0.31
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (41 bp):
TGAACAGAAGCTCATAAGAGCTGAACGAAAACCAGTAGGGT
Found at i:120598154 original size:21 final size:21
Alignment explanation
Indices: 120598087--120598155 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
120598077 AAGCTCGAAG
*
120598087 GCTGAACAGAAG-TACATAAGT
1 GCTGAACAGAAGCT-CATAAGA
* * *
120598108 GCT-AACGGAAACT-AGTAAGG
1 GCTGAACAGAAGCTCA-TAAGA
*
120598128 GTTGAACAGAAGCTCATAAGA
1 GCTGAACAGAAGCTCATAAGA
120598149 GCTGAAC
1 GCTGAAC
120598156 GAAAACCAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 1 0.03
20 12 0.33
21 22 0.61
22 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (21 bp):
GCTGAACAGAAGCTCATAAGA
Found at i:120598197 original size:21 final size:20
Alignment explanation
Indices: 120598173--120598246 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
120598163 AGTAGGGTTA
*
120598173 AACTGAAACTCATAAGAATT
1 AACTGAAACTCATAAGAGTT
* * *
120598193 GAACTGAAACCCATTAGGGTT
1 -AACTGAAACTCATAAGAGTT
*
120598214 AACTGAAACTCATATGAGTT
1 AACTGAAACTCATAAGAGTT
*
120598234 AACTGAAGCTCAT
1 AACTGAAACTCAT
120598247 GAAAGCTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
AACTGAAACTCATAAGAGTT
Found at i:120601353 original size:85 final size:85
Alignment explanation
Indices: 120601199--120601402 Score: 291
Period size: 85 Copynumber: 2.4 Consensus size: 85
120601189 CCAAAAACAT
* * *
120601199 TGTGGTTCGTTCACGAACCAAGTGGCAGTTTTTTTTAAAATACAAATATGTTGTGCACCCACAAC
1 TGTGGTTCGATCACGAACCAAGTGGCAG-TTTGTTTAAAATACAAATATGTTGTGCACCCACAAA
*
120601264 AAGTGGCAGTAACTGCAAATA
65 AAGTGGCAGTAACTACAAATA
* * *
120601285 TGTGGTTTGATCACGAACCAAGTGGCAGTTTGTTTAATATGCAAATATGTTGTGCACCCACAAAA
1 TGTGGTTCGATCACGAACCAAGTGGCAGTTTGTTTAAAATACAAATATGTTGTGCACCCACAAAA
120601350 AGTGGCAGTAACTACAAATA
66 AGTGGCAGTAACTACAAATA
* * * * *
120601370 TGCGGTTCAATCACAAACTAAGTGGCAGCTTGT
1 TGTGGTTCGATCACGAACCAAGTGGCAGTTTGT
120601403 CTAGAAATCT
Statistics
Matches: 105, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 79 0.75
86 26 0.25
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (85 bp):
TGTGGTTCGATCACGAACCAAGTGGCAGTTTGTTTAAAATACAAATATGTTGTGCACCCACAAAA
AGTGGCAGTAACTACAAATA
Found at i:120603320 original size:2 final size:2
Alignment explanation
Indices: 120603313--120603346 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
120603303 TTCAAATCTA
120603313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120603347 TGATAAGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120605118 original size:2 final size:2
Alignment explanation
Indices: 120605111--120605149 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
120605101 TTTATAAGTA
120605111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120605150 AAGAAAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120607985 original size:3 final size:3
Alignment explanation
Indices: 120607977--120608043 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
120607967 AAAAATATAC
*
120607977 ATA ATA ATA TTA A-A ATA A-A ATA ATA AGTA ATA ATA ATGA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT-A ATA ATA
* * *
120608021 ATA GTT ATA ATA ATA ATT ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
120608044 GATATACGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.12
3 40 0.78
4 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:120608043 original size:21 final size:22
Alignment explanation
Indices: 120607977--120608034 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
120607967 AAAAATATAC
*
120607977 ATAATAA-TATTAA-AAT-AAA
1 ATAATAAGTAATAATAATGAAA
120607996 ATAATAAGTAATAATAATGAAA
1 ATAATAAGTAATAATAATGAAA
*
120608018 ATAAT-AGTTATAATAAT
1 ATAATAAGTAATAATAAT
120608035 AATTATAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.21
20 5 0.15
21 14 0.41
22 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
ATAATAAGTAATAATAATGAAA
Found at i:120608483 original size:28 final size:27
Alignment explanation
Indices: 120608451--120608507 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
120608441 AAAATAAATA
120608451 ATATATATATGATGTGGTATT-AAAAG
1 ATATATATATGATGTGGTATTAAAAAG
120608477 ATATATATATGATGTGGTATTAAAAAG
1 ATATATATATGATGTGGTATTAAAAAG
120608504 ATAT
1 ATAT
120608508 GAAAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.39
Consensus pattern (27 bp):
ATATATATATGATGTGGTATTAAAAAG
Found at i:120610004 original size:26 final size:26
Alignment explanation
Indices: 120609949--120610013 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
120609939 TCTGTTTTGG
*
120609949 GTTTGGAGTTTTAAGTGGGTTTGGGCTA
1 GTTTGG-GTTTTAAGT-GGTTTAGGCTA
*
120609977 GTGTTGGGTTTTAAGT-GTTTAGGTTA
1 GT-TTGGGTTTTAAGTGGTTTAGGCTA
120610003 GTTTGGGTTTT
1 GTTTGGGTTTT
120610014 GATATAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 9 0.26
26 10 0.29
28 11 0.32
29 4 0.12
ACGTcount: A:0.12, C:0.02, G:0.37, T:0.49
Consensus pattern (26 bp):
GTTTGGGTTTTAAGTGGTTTAGGCTA
Found at i:120612444 original size:40 final size:40
Alignment explanation
Indices: 120612422--120612647 Score: 346
Period size: 40 Copynumber: 5.7 Consensus size: 40
120612412 ATGGTCACTA
*
120612422 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTC
* * *
120612462 GCACAAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
*
120612502 GCACAAATGCCTTTGGGACTTAACCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
120612542 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
* * * *
120612582 GCACAAATGCCTTCGAGACTTAACCCGGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
*
120612622 GCACAAATGTCTTCGGGACTTAACCC
1 GCACAAATGCCTTCGGGACTTAACCC
120612648 CGTTATCATC
Statistics
Matches: 172, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 170 0.99
41 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
Found at i:120619306 original size:40 final size:40
Alignment explanation
Indices: 120619291--120619515 Score: 371
Period size: 40 Copynumber: 5.6 Consensus size: 40
120619281 TGGTCACTAC
*
120619291 CACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCG
*
120619331 CACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCG
120619371 CACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCG
120619411 CACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCG
* * * *
120619451 CACAAATGCCTTCGGGATTTAACCCGGAATTAATCACTAG
1 CACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCG
*
120619491 CACAAATGTCTTCGGGACTTAACCC
1 CACAAATGCCTTCGGGACTTAACCC
120619516 CGTTATCATC
Statistics
Matches: 177, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 175 0.99
41 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCG
Found at i:120624794 original size:26 final size:26
Alignment explanation
Indices: 120624752--120624804 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
120624742 AGTCAAACAT
120624752 GCATTTAGGTCAATTTA-ACCTTAGGG
1 GCATTTAGGTCAATTTACACC-TAGGG
*
120624778 GCATTTTGGT-AATTTTACACCTAGGG
1 GCATTTAGGTCAA-TTTACACCTAGGG
120624804 G
1 G
120624805 TATAACAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.08
26 19 0.79
27 3 0.12
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (26 bp):
GCATTTAGGTCAATTTACACCTAGGG
Found at i:120626311 original size:26 final size:26
Alignment explanation
Indices: 120626280--120626387 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
120626270 TGAAATGCCC
*
120626280 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
120626306 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
120626332 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
120626358 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
120626384 ATCA
1 ATCA
120626388 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:120627652 original size:20 final size:20
Alignment explanation
Indices: 120627627--120627666 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
120627617 ATAAAACAAA
*
120627627 AGAATAATGAAAATGATACC
1 AGAATAATGAAAATAATACC
120627647 AGAATAATGAAAATAATACC
1 AGAATAATGAAAATAATACC
120627667 TTAACAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.20
Consensus pattern (20 bp):
AGAATAATGAAAATAATACC
Found at i:120627675 original size:20 final size:20
Alignment explanation
Indices: 120627627--120627676 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
120627617 ATAAAACAAA
* *
120627627 AGAATAATGAAAATGATACC
1 AGAACAATGAAAATAATACC
*
120627647 AGAATAATGAAAATAATACC
1 AGAACAATGAAAATAATACC
**
120627667 TTAACAATGA
1 AGAACAATGA
120627677 TATGGTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (20 bp):
AGAACAATGAAAATAATACC
Found at i:120627690 original size:3 final size:3
Alignment explanation
Indices: 120627682--120627942 Score: 221
Period size: 3 Copynumber: 86.7 Consensus size: 3
120627672 AATGATATGG
* * * *
120627682 TAA TAA TAA TAG TAA TAGA GAA TCA CAA TACA TTAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A -TAA TAA TAA TAA TAA
*
120627729 -AA -AA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * **
120627775 TAA TAA TAA TAA TGT TGA CAA TAGA TAA TAA TAA TAA -AA -AA GGCA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA -TAA
* * * * *
120627820 TAA TAA TAA TAG TAA TAAA CAA AAA TAG TAA TAA TAA TAA TGAA -AG
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * *
120627866 TAG TGGA -AA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
120627911 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
120627943 GCAAAAATAA
Statistics
Matches: 211, Mismatches: 34, Indels: 26
0.78 0.13 0.10
Matches are distributed among these distances:
2 12 0.06
3 185 0.88
4 12 0.06
5 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:120629180 original size:21 final size:21
Alignment explanation
Indices: 120629154--120629203 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
120629144 CCTAGCCACC
120629154 AATACATCCGTTTCAAATCAT
1 AATACATCCGTTTCAAATCAT
120629175 AATACATCCGTTTCAAATCAT
1 AATACATCCGTTTCAAATCAT
120629196 AATACATC
1 AATACATC
120629204 TTTGTACTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (21 bp):
AATACATCCGTTTCAAATCAT
Found at i:120633279 original size:42 final size:42
Alignment explanation
Indices: 120633221--120633331 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 42
120633211 GGTTCAAAGG
* * *
120633221 ACACACGACCAGACCACACGTTCC-TGTGCTAGGCCGTGTGTC
1 ACACACGGCCAGACCACACG-CCCATGTGCCAGGCCGTGTGTC
120633263 ACACACGGCCAGACCACACGCCCATGTGCCAGGCCGTGTGTC
1 ACACACGGCCAGACCACACGCCCATGTGCCAGGCCGTGTGTC
*
120633305 ACACACGGCTGAGA-CACACGCCCATGT
1 ACACACGGC-CAGACCACACGCCCATGT
120633332 CTCTGCTCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
41 2 0.03
42 58 0.92
43 3 0.05
ACGTcount: A:0.23, C:0.38, G:0.24, T:0.14
Consensus pattern (42 bp):
ACACACGGCCAGACCACACGCCCATGTGCCAGGCCGTGTGTC
Done.