Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 35 of 54
Found at i:14220351 original size:49 final size:47
Alignment explanation
Indices: 14220274--14220413 Score: 144
Period size: 49 Copynumber: 3.0 Consensus size: 47
14220264 CTTGTAGACC
** *
14220274 ACTTCATCCAAAATTCTA-AAATTCCAAAAGTAAGTCTTGGTCAACCAA
1 ACTTCATCCAAAATTCTAGAAA-AACAAAAGAAAGTCTTGGTCAACC-A
* * **
14220322 TACTTCATCCAAAATTCCAGAAAAACAAAAGCAAGTCTTGGTCATTC-
1 -ACTTCATCCAAAATTCTAGAAAAACAAAAGAAAGTCTTGGTCAACCA
* *
14220369 ACTTCATCC-AAATTCTAG-AAAACAAAAGAAAATCTTTGTCAACCA
1 ACTTCATCCAAAATTCTAGAAAAACAAAAGAAAGTCTTGGTCAACCA
14220414 TATCCCAACA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
44 21 0.27
45 8 0.10
46 9 0.12
49 36 0.47
50 3 0.04
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (47 bp):
ACTTCATCCAAAATTCTAGAAAAACAAAAGAAAGTCTTGGTCAACCA
Found at i:14224176 original size:11 final size:11
Alignment explanation
Indices: 14224160--14224201 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
14224150 GTTTGAATTA
14224160 TTATTATTTAT
1 TTATTATTTAT
14224171 TTATTATTTAT
1 TTATTATTTAT
14224182 TTATTATTTA-
1 TTATTATTTAT
14224192 TTATT-TTTAT
1 TTATTATTTAT
14224202 CAAGTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 4 0.13
10 5 0.17
11 21 0.70
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:14224177 original size:7 final size:7
Alignment explanation
Indices: 14224156--14224201 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
14224146 ATATGTTTGA
14224156 ATTA-TT
1 ATTATTT
14224162 ATTATTT
1 ATTATTT
14224169 ATT-TATT
1 ATTAT-TT
14224176 ATTTATTT
1 A-TTATTT
14224184 ATTATTT
1 ATTATTT
14224191 ATTATTT
1 ATTATTT
14224198 -TTAT
1 ATTAT
14224202 CAAGTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 9 0.25
7 21 0.58
8 5 0.14
9 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTATTT
Found at i:14224862 original size:43 final size:43
Alignment explanation
Indices: 14224789--14224878 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
14224779 TTCTCCTTTC
* * *
14224789 CACGCCGGTGAACTCCTCTTAGGCGTCGATCTGCAGGAGGCCT
1 CACGCCGGCGAACTCCTCTTAGCCGCCGATCTGCAGGAGGCCT
** *
14224832 CACGCCGGCGAACTCCTCCTT-GCCGCCGATCTGTTGGTGGCCT
1 CACGCCGGCGAACTCCT-CTTAGCCGCCGATCTGCAGGAGGCCT
14224875 CACG
1 CACG
14224879 GGTTCCCTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 37 0.93
44 3 0.08
ACGTcount: A:0.13, C:0.37, G:0.29, T:0.21
Consensus pattern (43 bp):
CACGCCGGCGAACTCCTCTTAGCCGCCGATCTGCAGGAGGCCT
Found at i:14225770 original size:37 final size:38
Alignment explanation
Indices: 14225727--14226034 Score: 378
Period size: 37 Copynumber: 8.1 Consensus size: 38
14225717 CCAAATTTTT
* *
14225727 TTTTAAAATAAATTCCTCAAAACTGAGGTC-ACGAG-AC
1 TTTTAAAATGAACTCCTCAAAACTGAGG-CAACGAGAAC
*
14225764 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACG-GGAC
1 TTTT-AAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
*
14225802 TTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
1 TTTTAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
14225840 TTTTAAAAGTGAACTCCTCAAAACTTGAGGCAACGAGAAC
1 TTTTAAAA-TGAACTCCTCAAAAC-TGAGGCAACGAGAAC
* *
14225880 TTTTAAAAGTGAATTCCTCAAAACTGAGGCAACG-GTAC
1 TTTTAAAA-TGAACTCCTCAAAACTGAGGCAACGAGAAC
*
14225918 TTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
1 TTTTAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
* * * *
14225956 TTTTAAAAGTGAGCCCCTCAAAGCTGAGGCAAC--GTAC
1 TTTTAAAA-TGAACTCCTCAAAACTGAGGCAACGAGAAC
* * *
14225993 TTTAAAAATGAATTCCTCAAAATTGAGGCAACGA-AACC
1 TTTTAAAATGAACTCCTCAAAACTGAGGCAACGAGAA-C
14226031 TTTT
1 TTTT
14226035 TTCTTTTTTG
Statistics
Matches: 237, Mismatches: 23, Indels: 21
0.84 0.08 0.07
Matches are distributed among these distances:
36 19 0.08
37 70 0.30
38 64 0.27
39 46 0.19
40 38 0.16
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (38 bp):
TTTTAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
Found at i:14225864 original size:76 final size:76
Alignment explanation
Indices: 14225726--14226034 Score: 387
Period size: 75 Copynumber: 4.1 Consensus size: 76
14225716 ACCAAATTTT
* * *
14225726 TTTTTAAAATAAATTCCTCAAAACTGAGGTC-ACGAG-ACTTTTAAAAATGAACTCCTCAAAACT
1 TTTTAAAAATGAACTCCTCAAAACTGAGG-CAACG-GTAC-TTTAAAAATGAACTCCTCAAAACT
*
14225789 GAGGCAACG-GGAC
63 GAGGCAACGAGAAC
* *
14225802 -TTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAACTTTTAAAAGTGAACTCCTCAAAACTT
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACG-GTAC-TTTAAAAATGAACTCCTCAAAAC-T
14225866 GAGGCAACGAGAAC
63 GAGGCAACGAGAAC
* *
14225880 TTTTAAAAGTGAATTCCTCAAAACTGAGGCAACGGTACTTTAAAAATGAACTCCTCAAAACTGAG
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGGTACTTTAAAAATGAACTCCTCAAAACTGAG
14225945 GCAACGAGAAC
66 GCAACGAGAAC
* * * * * *
14225956 TTTTAAAAGTGAGCCCCTCAAAGCTGAGGCAAC-GTACTTTAAAAATGAATTCCTCAAAATTGAG
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGGTACTTTAAAAATGAACTCCTCAAAACTGAG
14226020 GCAACGA-AACC
66 GCAACGAGAA-C
14226031 TTTT
1 TTTT
14226035 TTCTTTTTTG
Statistics
Matches: 212, Mismatches: 15, Indels: 13
0.88 0.06 0.05
Matches are distributed among these distances:
74 3 0.01
75 71 0.33
76 69 0.33
77 32 0.15
78 6 0.03
79 31 0.15
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.24
Consensus pattern (76 bp):
TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGGTACTTTAAAAATGAACTCCTCAAAACTGAG
GCAACGAGAAC
Found at i:14225966 original size:116 final size:114
Alignment explanation
Indices: 14225727--14226025 Score: 453
Period size: 116 Copynumber: 2.6 Consensus size: 114
14225717 CCAAATTTTT
* * *
14225727 TTTTAAAA-TAAATTCCTCAAAACTGAGGTC-ACGAGACTTTTAAAAATGAACTCCTCAAAACTG
1 TTTTAAAAGTGAACTCCTCAAAACTGAGG-CAACGAGACTTTTAAAAATGAATTCCTCAAAACTG
14225790 AGGCAACGGGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
65 AGGCAACGGGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
*
14225840 TTTTAAAAGTGAACTCCTCAAAACTTGAGGCAACGAGAACTTTTAAAAGTGAATTCCTCAAAACT
1 TTTTAAAAGTGAACTCCTCAAAAC-TGAGGCAACGAG-ACTTTTAAAAATGAATTCCTCAAAACT
*
14225905 GAGGCAACGGTACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
64 GAGGCAACGGGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
* * * * *
14225956 TTTTAAAAGTGAGCCCCTCAAAGCTGAGGCAACG-TAC-TTTAAAAATGAATTCCTCAAAATTGA
1 TTTTAAAAGTGAACTCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAATTCCTCAAAACTGA
14226019 GGCAACG
66 GGCAACG
14226026 AAACCTTTTT
Statistics
Matches: 171, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
112 31 0.18
113 10 0.06
114 14 0.08
115 20 0.12
116 96 0.56
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (114 bp):
TTTTAAAAGTGAACTCCTCAAAACTGAGGCAACGAGACTTTTAAAAATGAATTCCTCAAAACTGA
GGCAACGGGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC
Found at i:14238224 original size:9 final size:9
Alignment explanation
Indices: 14238200--14238253 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
14238190 NNNNNNNNNC
*
14238200 TATTTTTTT
1 TATTTTTTA
*
14238209 TAATTTTTA
1 TATTTTTTA
14238218 TATTTTTTA
1 TATTTTTTA
* *
14238227 TTTTTTATTT
1 TATTTT-TTA
14238237 TATTTTTTA
1 TATTTTTTA
*
14238246 CATTTTTT
1 TATTTTTT
14238254 TATAGTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
9 29 0.81
10 7 0.19
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (9 bp):
TATTTTTTA
Found at i:14238225 original size:16 final size:14
Alignment explanation
Indices: 14238204--14238245 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 14
14238194 NNNNNCTATT
14238204 TTTTTTAATTTTTATA
1 TTTTTT-ATTTTT-TA
14238220 TTTTTTATTTTTTA
1 TTTTTTATTTTTTA
14238234 --TTTTATTTTTTA
1 TTTTTTATTTTTTA
14238246 CATTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
14 2 0.08
15 6 0.23
16 6 0.23
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTATTTTTTA
Found at i:14238262 original size:29 final size:28
Alignment explanation
Indices: 14238206--14238263 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
14238196 NNNCTATTTT
* **
14238206 TTTTAATTTTTATATTTTTTATTTTTTA
1 TTTTAATTTTTACATTTTTTATAGTTTA
*
14238234 TTTTATTTTTTACATTTTTTTATAGTTTA
1 TTTTAATTTTTACA-TTTTTTATAGTTTA
14238263 T
1 T
14238264 GCCATTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (28 bp):
TTTTAATTTTTACATTTTTTATAGTTTA
Found at i:14239811 original size:21 final size:21
Alignment explanation
Indices: 14239779--14239829 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
14239769 CTCTCCCTTC
* * *
14239779 TTTTTCATTTTTTTTTTA-AT
1 TTTTTTATTTTTATTATATAT
14239799 TTTTATTATTTTTATTATATAT
1 TTTT-TTATTTTTATTATATAT
14239821 TTTTTTATT
1 TTTTTTATT
14239830 CATTTTTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 16 0.62
22 6 0.23
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTATTTTTATTATATAT
Found at i:14239816 original size:12 final size:11
Alignment explanation
Indices: 14239785--14239836 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
14239775 CTTCTTTTTC
*
14239785 ATTTTTTTTTT
1 ATTTTTTTATT
*
14239796 A-ATTTTTATT
1 ATTTTTTTATT
14239806 ATTTTTATTATAT
1 ATTTTT-TTAT-T
14239819 ATTTTTTTATT
1 ATTTTTTTATT
14239830 CATTTTT
1 -ATTTTT
14239837 GTGTTTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 8 0.24
11 5 0.15
12 14 0.41
13 7 0.21
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTTTTATT
Found at i:14245111 original size:33 final size:31
Alignment explanation
Indices: 14245074--14245134 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 31
14245064 TTGACAGACA
* *
14245074 TTTACCTTTTCTTTTATTTTGTTATATTTTTAT
1 TTTACCTGTTCATTTATTTT-TT-TATTTTTAT
14245107 TTTACCTGTTCATTTATTTTTTTATTTT
1 TTTACCTGTTCATTTATTTTTTTATTTT
14245135 CTGTTAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 6 0.23
32 2 0.08
33 18 0.69
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTACCTGTTCATTTATTTTTTTATTTTTAT
Found at i:14246273 original size:22 final size:23
Alignment explanation
Indices: 14246248--14246290 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14246238 TTATTGATTT
14246248 TTTG-TTTCTCTTTTTGGTTTCG
1 TTTGTTTTCTCTTTTTGGTTTCG
* *
14246270 TTTGTTTTTTTTTTTTGGTTT
1 TTTGTTTTCTCTTTTTGGTTT
14246291 TTCTATTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.00, C:0.07, G:0.16, T:0.77
Consensus pattern (23 bp):
TTTGTTTTCTCTTTTTGGTTTCG
Found at i:14247236 original size:118 final size:117
Alignment explanation
Indices: 14246956--14247281 Score: 401
Period size: 118 Copynumber: 2.8 Consensus size: 117
14246946 AGCACGACCC
* * *
14246956 ATCTCAAAATAGGTTCG-TTCTAAAAATGAAAATTTCTAGACTTGATCTAGGCTCGACCTATCTT
1 ATCTCAAAATAGGTTCGATT-TAAAAATTAAAGTTTCTAGACTTGATCTAGGCTCGACCTATCTC
* *
14247020 AGAACAAGTTCAATTTTGAAAATTGAAATTCCTAGACTTGATCTAGGCTCGATCT
65 ACAACAAGTTCAA-TTT-AAAATTGAAATCCCTAGACTTGATCTAGGCTCGATCT
* ** * *
14247075 ATCGT-AAAACAAATTTGATTTAAAAATTGAAG-TTCTTAGACTTGATCTAGGCTCGACCTATCT
1 ATC-TCAAAATAGGTTCGATTTAAAAATTAAAGTTTC-TAGACTTGATCTAGGCTCGACCTATCT
14247138 CACAACAAGTTCAATTTAAACATT-AAAGTCCCTAGACTTGATCTAGGCTCGA-CTT
64 CACAACAAGTTCAATTTAAA-ATTGAAA-TCCCTAGACTTGATCTAGGCTCGATC-T
* *
14247193 ATCTCACAATAGGTTCGATTTAAAAATTAAAGTTTCTATACTTGATCTAGGCTCGACCTATCTCA
1 ATCTCAAAATAGGTTCGATTTAAAAATTAAAGTTTCTAGACTTGATCTAGGCTCGACCTATCTCA
* * *
14247258 CAATAGGTTCGATTTAAAAATTGA
66 CAACAAGTTCAATTT-AAAATTGA
14247282 TGCCAACTTC
Statistics
Matches: 177, Mismatches: 20, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
117 8 0.05
118 100 0.56
119 66 0.37
120 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (117 bp):
ATCTCAAAATAGGTTCGATTTAAAAATTAAAGTTTCTAGACTTGATCTAGGCTCGACCTATCTCA
CAACAAGTTCAATTTAAAATTGAAATCCCTAGACTTGATCTAGGCTCGATCT
Found at i:14247279 original size:59 final size:59
Alignment explanation
Indices: 14246950--14247279 Score: 353
Period size: 59 Copynumber: 5.6 Consensus size: 59
14246940 GATTCAAGCA
* * * * * *
14246950 CGACCCATCTCAAAATAGGTTCG-TTCTAAAAATGAAAATTTCTAGACTTGATCTAGGCT
1 CGACCTATCTCACAACAAGTTCGATT-TAAAAATTAAAGTTTCTAGACTTGATCTAGGCT
* * * * *
14247009 CGACCTATCTTAGAACAAGTTCAATTTTGAAAATTGAAA-TTCCTAGACTTGATCTAGGCT
1 CGACCTATCTCACAACAAGTTCGA-TTTAAAAATT-AAAGTTTCTAGACTTGATCTAGGCT
* * * * *
14247069 CGATCTATCGT-AAAACAAATTTGATTTAAAAATTGAAG-TTCTTAGACTTGATCTAGGCT
1 CGACCTATC-TCACAACAAGTTCGATTTAAAAATTAAAGTTTC-TAGACTTGATCTAGGCT
* * **
14247128 CGACCTATCTCACAACAAGTTCAATTTAAACATTAAAGTCCCTAGACTTGATCTAGGCT
1 CGACCTATCTCACAACAAGTTCGATTTAAAAATTAAAGTTTCTAGACTTGATCTAGGCT
* * * *
14247187 CGACTTATCTCACAATAGGTTCGATTTAAAAATTAAAGTTTCTATACTTGATCTAGGCT
1 CGACCTATCTCACAACAAGTTCGATTTAAAAATTAAAGTTTCTAGACTTGATCTAGGCT
* *
14247246 CGACCTATCTCACAATAGGTTCGATTTAAAAATT
1 CGACCTATCTCACAACAAGTTCGATTTAAAAATT
14247280 GATGCCAACT
Statistics
Matches: 228, Mismatches: 35, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
58 5 0.02
59 173 0.76
60 44 0.19
61 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (59 bp):
CGACCTATCTCACAACAAGTTCGATTTAAAAATTAAAGTTTCTAGACTTGATCTAGGCT
Found at i:14262666 original size:21 final size:20
Alignment explanation
Indices: 14262636--14262697 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
14262626 AAGCATTTAC
*
14262636 TTTTTCTTTTATTTTGTTAT
1 TTTTTATTTTATTTTGTTAT
* *
14262656 ATTTTTATTTTACTTGGTTAT
1 -TTTTTATTTTATTTTGTTAT
*
14262677 TTATTTTTTTTATTTT-TTAT
1 TT-TTTATTTTATTTTGTTAT
14262697 T
1 T
14262698 AACCATTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTATTTTGTTAT
Found at i:14263591 original size:33 final size:33
Alignment explanation
Indices: 14263506--14263602 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 33
14263496 AACACCCTAG
* * *
14263506 CCGGCAGCTTAGATCTCTCTCTCCTTCCCTCCA
1 CCGGCAGCTCAGATCTCTCTCTCCTTTCGTCCA
* * *
14263539 ACGGCGGCCCAGATTTCTCTCTCTCCTTTCGTCCA
1 CCGGCAGCTCAGA--TCTCTCTCTCCTTTCGTCCA
* * *
14263574 CCGGCAGCTCGGATCTCTCCCTCTTTTCG
1 CCGGCAGCTCAGATCTCTCTCTCCTTTCG
14263603 CACAAAAACT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
33 23 0.46
35 27 0.54
ACGTcount: A:0.10, C:0.42, G:0.16, T:0.31
Consensus pattern (33 bp):
CCGGCAGCTCAGATCTCTCTCTCCTTTCGTCCA
Found at i:14263851 original size:22 final size:23
Alignment explanation
Indices: 14263826--14263868 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14263816 TTGTTGATTT
14263826 TTTG-TTTCTCTTTTTGGTTTCG
1 TTTGTTTTCTCTTTTTGGTTTCG
* *
14263848 TTTGTTTTGTTTTTTTGGTTT
1 TTTGTTTTCTCTTTTTGGTTT
14263869 TTCAATCGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.00, C:0.07, G:0.19, T:0.74
Consensus pattern (23 bp):
TTTGTTTTCTCTTTTTGGTTTCG
Found at i:14264326 original size:18 final size:19
Alignment explanation
Indices: 14264287--14264327 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14264277 TTCATTCCCC
*
14264287 TTTTCTTCA-TTTTTTAAT
1 TTTTCTTCATTTTTTTTAT
14264305 TTTTCTTCATTTTTTTTAT
1 TTTTCTTCATTTTTTTTAT
14264324 TTTT
1 TTTT
14264328 TGTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTCATTTTTTTTAT
Found at i:14264370 original size:36 final size:36
Alignment explanation
Indices: 14264296--14264371 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
14264286 CTTTTCTTCA
* * *
14264296 TTTTTTAATTTTTCTTCATTTTTTTTATTTTTTGTT
1 TTTTTTAATTTATCTTCATTTTATTTATTTTTTATT
14264332 TTTTTTAATTATAT-TTCATTATTATTTA-TTTTTATT
1 TTTTTTAATT-TATCTTCATT-TTATTTATTTTTTATT
14264368 TTTT
1 TTTT
14264372 GATATCGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 27 0.77
37 8 0.23
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (36 bp):
TTTTTTAATTTATCTTCATTTTATTTATTTTTTATT
Found at i:14269606 original size:147 final size:147
Alignment explanation
Indices: 14269383--14269722 Score: 439
Period size: 147 Copynumber: 2.3 Consensus size: 147
14269373 ACATCATGTC
14269383 GTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACGCCACACTTGTTAGATGTCGTTTACAT
1 GTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACGCCACACTTGTTAGATGTCGTTTACAT
* * * * *
14269448 ATTGCTATGACATGCCATGTCGTTGACATATTATATTGTCACACGCCACACTCTAATTGTTAGAT
66 ATTGCTATGACACGCCAGGTCATTGACATATTATATTGTCACACACCACACTCAAATTGTTAGAT
*
14269513 GTCATTTATATCTTATG
131 GTCATTTACATCTTATG
* * * * ** *
14269530 GTGACATGCCATGTTGTTGACGTATTATAGGGTTATATGCCATGCTTGTTAGATGTCGTTTGCAT
1 GTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACGCCACACTTGTTAGATGTCGTTTACAT
* * * *
14269595 ATTG-TCGTGACACGCTAGGTCATTGACATATTATATTGTTACACACCACGCTCAAATTGTTAGA
66 ATTGCT-ATGACACGCCAGGTCATTGACATATTATATTGTCACACACCACACTCAAATTGTTAGA
* *
14269659 TGTCGTTTACATCTTGTG
130 TGTCATTTACATCTTATG
* * * * * *
14269677 GTGACACGCCATGTCATTGCAGTATCATAGGTTTACACACCACACT
1 GTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACGCCACACT
14269723 CGAATTGTTA
Statistics
Matches: 161, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
146 1 0.01
147 160 0.99
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (147 bp):
GTGACATGCCATGTCGTTGAAGTATTATAGGGTTACACGCCACACTTGTTAGATGTCGTTTACAT
ATTGCTATGACACGCCAGGTCATTGACATATTATATTGTCACACACCACACTCAAATTGTTAGAT
GTCATTTACATCTTATG
Found at i:14269919 original size:228 final size:223
Alignment explanation
Indices: 14269488--14269977 Score: 584
Period size: 228 Copynumber: 2.2 Consensus size: 223
14269478 TTATATTGTC
* ** *
14269488 ACACGCCACACTCTAATTGTTAGATGTCATTTATATCTTATGGTGACATGCCATGTTGTTGACGT
1 ACACGCCACACTCCAATTGTTAGATGTCATTTATATCTTATGGTGACACACCATGTCGTTGACGT
* ** * * * * *
14269553 ATTATAGGGTTATATGCCATGCTTGTTAGATGTCGTTTGCATATTGTCGTGACACGCTAGGTCAT
66 ATTATAAGGTTATACACCATGATTGTTAGATGTCGTTTACATATTGTAGTGACACGCCAGGCCAT
* * *
14269618 TGACATATTATATTGTTACACACCACGCTCAAATTGTTAGATGTCGTTTACATCTTGTGGTGACA
131 TGACATAGTATATTGTTACACACCACGCTCAAATTGTTAAATGTCATTTACATCTTGTGGTGACA
* * *
14269683 CGCCATGTCATTGCAGTATCATAGGTTT
196 CACCATGTCATTGCAATATCATAGGGTT
* * * * *
14269711 ACACACCACACTCGAATTGTTATATGTCATTTATATCTTGTGGTGACACACCATGTCGTTGGCGT
1 ACACGCCACACTCCAATTGTTAGATGTCATTTATATCTTATGGTGACACACCATGTCGTTGACGT
* * * *
14269776 ATTATAAGGTTATACACCACGCTTGAATTGTTAGATGTTGTTTACATCTTGTAGTGACATGCCAT
66 ATTATAAGGTTATACACCA----TG-ATTGTTAGATGTCGTTTACATATTGTAGTGACACGCCAG
* * ** *
14269841 GCCGTTGACGTAGTATATTGTTACATGCCACGCTCGAATTGTTAAATGTCATTTACATCTTGTGG
126 GCCATTGACATAGTATATTGTTACACACCACGCTCAAATTGTTAAATGTCATTTACATCTTGTGG
* * *
14269906 TGACTCACCATGTCGTTGCAATATTATAGGGTT
191 TGACACACCATGTCATTGCAATATCATAGGGTT
** * *
14269939 ACACGCCATGCTCCAATTGTTAGATGTCGTTTACATCTT
1 ACACGCCACACTCCAATTGTTAGATGTCATTTATATCTT
14269978 TTCATGACAC
Statistics
Matches: 221, Mismatches: 41, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
223 73 0.33
227 2 0.01
228 146 0.66
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (223 bp):
ACACGCCACACTCCAATTGTTAGATGTCATTTATATCTTATGGTGACACACCATGTCGTTGACGT
ATTATAAGGTTATACACCATGATTGTTAGATGTCGTTTACATATTGTAGTGACACGCCAGGCCAT
TGACATAGTATATTGTTACACACCACGCTCAAATTGTTAAATGTCATTTACATCTTGTGGTGACA
CACCATGTCATTGCAATATCATAGGGTT
Found at i:14270009 original size:76 final size:76
Alignment explanation
Indices: 14269357--14269977 Score: 523
Period size: 76 Copynumber: 8.3 Consensus size: 76
14269347 CATGCTCTGC
* * * * *
14269357 TTGTTAGATGTTGTTGACATCATGTCGTGACATGCCATGTCGTTGA-AGTATTATAGGGTTACAC
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGACA-TATTATAGGGTTACAC
*
14269421 GCCA-----CAC
65 GCCACGCTCCAA
* * * ** *
14269428 TTGTTAGATGTCGTTTACATATTGCT-ATGACATGCCATGTCGTTGACATATTATATTGTCACAC
1 TTGTTAGATGTCGTTTACATCTTG-TGGTGACACGCCATGTCGTTGACATATTATAGGGTTACAC
* *
14269492 GCCACACTCTAA
65 GCCACGCTCCAA
* * * * * * * *
14269504 TTGTTAGATGTCATTTATATCTTATGGTGACATGCCATGTTGTTGACGTATTATAGGGTTATATG
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGACATATTATAGGGTTACACG
*
14269569 CCA---TGC--
66 CCACGCTCCAA
* * * * * * ** *
14269575 TTGTTAGATGTCGTTTGCATATTGTCGTGACACGCTAGGTCATTGACATATTATATTGTTACACA
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGACATATTATAGGGTTACACG
*
14269640 CCACGCTCAAA
66 CCACGCTCCAA
* * *
14269651 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCATTG-CAGTATCATAGGTTTACAC
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGACA-TATTATAGGGTTACAC
* * *
14269715 ACCACACTCGAA
65 GCCACGCTCCAA
* * * * * * * * *
14269727 TTGTTATATGTCATTTATATCTTGTGGTGACACACCATGTCGTTGGCGTATTATAAGGTTATACA
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGACATATTATAGGGTTACACG
**
14269792 CCACGCTTGAA
66 CCACGCTCCAA
* * * * * * ** *
14269803 TTGTTAGATGTTGTTTACATCTTGTAGTGACATGCCATGCCGTTGACGTAGTATATTGTTACATG
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGACATATTATAGGGTTACACG
*
14269868 CCACGCTCGAA
66 CCACGCTCCAA
* * * *
14269879 TTGTTAAATGTCATTTACATCTTGTGGTGACTCACCATGTCGTTG-CAATATTATAGGGTTACAC
1 TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGAC-ATATTATAGGGTTACAC
*
14269943 GCCATGCTCCAA
65 GCCACGCTCCAA
14269955 TTGTTAGATGTCGTTTACATCTT
1 TTGTTAGATGTCGTTTACATCTT
14269978 TTCATGACAC
Statistics
Matches: 435, Mismatches: 99, Indels: 27
0.78 0.18 0.05
Matches are distributed among these distances:
71 107 0.25
72 2 0.00
73 1 0.00
74 1 0.00
75 4 0.01
76 319 0.73
77 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (76 bp):
TTGTTAGATGTCGTTTACATCTTGTGGTGACACGCCATGTCGTTGACATATTATAGGGTTACACG
CCACGCTCCAA
Found at i:14271434 original size:81 final size:81
Alignment explanation
Indices: 14271297--14271449 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
14271287 GATTCATCGT
* * *
14271297 CTCCTTCAGCATCAACTGATTCAAGGTTCCCATCCCCACGCACAACTGCATCAACAA-GTGCATC
1 CTCCTTCAGCATCAACTGATTCAAGGTGCACATCCCCACCCACAACTGCATCAACAACGT-CATC
14271361 GACATGAGGTACATGGC
65 GACATGAGGTACATGGC
* * ** * * *
14271378 CTCCTTCAGCATCAATTGATTGAAGGTGCACATCCCTTCCCACAACTTCATTAACAACGTCATTG
1 CTCCTTCAGCATCAACTGATTCAAGGTGCACATCCCCACCCACAACTGCATCAACAACGTCATCG
14271443 ACATGAG
66 ACATGAG
14271450 TTGCATTATC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (81 bp):
CTCCTTCAGCATCAACTGATTCAAGGTGCACATCCCCACCCACAACTGCATCAACAACGTCATCG
ACATGAGGTACATGGC
Found at i:14273104 original size:13 final size:13
Alignment explanation
Indices: 14273086--14273110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14273076 GGAAAATGGG
14273086 ATTTTATAAAATA
1 ATTTTATAAAATA
14273099 ATTTTATAAAAT
1 ATTTTATAAAAT
14273111 TTTTAAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:14281643 original size:23 final size:23
Alignment explanation
Indices: 14281592--14281636 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
14281582 AATTTATGTC
*
14281592 GTGTCACATATTCTATCCATGGT
1 GTGTCACATATTCCATCCATGGT
14281615 GTGTCACATATTCCATCCATGG
1 GTGTCACATATTCCATCCATGG
14281637 CTTGTCAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (23 bp):
GTGTCACATATTCCATCCATGGT
Found at i:14281699 original size:23 final size:23
Alignment explanation
Indices: 14281673--14282276 Score: 290
Period size: 23 Copynumber: 26.3 Consensus size: 23
14281663 CTTTGTTGTT
* *
14281673 TCACATATTCTCACCACGTCGTG
1 TCACATATTCTCACCATGCCGTG
* *
14281696 TCACATATTCTCACCATGTCGTC
1 TCACATATTCTCACCATGCCGTG
* * *
14281719 TCACATATTCTCTCTATGGCGTG
1 TCACATATTCTCACCATGCCGTG
* *
14281742 TCACATATTCTCACCCTGCCATG
1 TCACATATTCTCACCATGCCGTG
* *
14281765 TCACATATTCTCACCTTGTCGTG
1 TCACATATTCTCACCATGCCGTG
* * * *
14281788 TCACATATTTTGACCCTGCCGTC
1 TCACATATTCTCACCATGCCGTG
* * *
14281811 TCACAGACTCTTACCATGCCGTG
1 TCACATATTCTCACCATGCCGTG
*
14281834 TCACATACTCTCACCATGCCGTG
1 TCACATATTCTCACCATGCCGTG
* * * *
14281857 TCACATA-TCCCTCCATGGCATG
1 TCACATATTCTCACCATGCCGTG
* * * *
14281879 TCACGTATTCTCACCCTACTGTG
1 TCACATATTCTCACCATGCCGTG
*
14281902 TCACATATTCTCACCATGCCTTG
1 TCACATATTCTCACCATGCCGTG
** * ** * *** *
14281925 TTGCATATTCCCTTCAGGGTATA
1 TCACATATTCTCACCATGCCGTG
* * * * **
14281948 TCATAGATTCCCACCCTGTTGTG
1 TCACATATTCTCACCATGCCGTG
* * ** * * *
14281971 CCACAAACCTT-GAACCCTACCATG
1 TCACATA--TTCTCACCATGCCGTG
* * * **
14281995 TCAAATATTCCCTCCATG--GCA
1 TCACATATTCTCACCATGCCGTG
* *
14282016 TCACATATTCCCACCATGGCGTG
1 TCACATATTCTCACCATGCCGTG
** * * **
14282039 TCACA-AACCTAAACCCTATCGTG
1 TCACATATTCT-CACCATGCCGTG
* * * *
14282062 TCACATATTTTCACCATGTCATC
1 TCACATATTCTCACCATGCCGTG
* *
14282085 TCACATATTCTCACCACGCCTTG
1 TCACATATTCTCACCATGCCGTG
* * * * *
14282108 TCACATATT-GCATCCAAGTCATT
1 TCACATATTCTCA-CCATGCCGTG
* *
14282131 TCACATATTC-C-CTCATGGCATG
1 TCACATATTCTCAC-CATGCCGTG
**
14282153 TCACATATTCTCACCCCA-AACGTG
1 TCACATATTCTCA--CCATGCCGTG
*
14282177 TCACATATTCTCACCATGACGTG
1 TCACATATTCTCACCATGCCGTG
* *
14282200 TCACATATTCTCAACATGCTGTG
1 TCACATATTCTCACCATGCCGTG
* * * * *
14282223 TCACATTTTCCCTCCATGTCGTA
1 TCACATATTCTCACCATGCCGTG
14282246 TCACATATTCTCACCATGCCGTG
1 TCACATATTCTCACCATGCCGTG
*
14282269 TCAAATAT
1 TCACATAT
14282277 AGTTCTTACA
Statistics
Matches: 428, Mismatches: 137, Indels: 32
0.72 0.23 0.05
Matches are distributed among these distances:
21 17 0.04
22 42 0.10
23 335 0.78
24 29 0.07
25 4 0.01
26 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.32
Consensus pattern (23 bp):
TCACATATTCTCACCATGCCGTG
Found at i:14281767 original size:69 final size:69
Alignment explanation
Indices: 14281673--14282276 Score: 328
Period size: 69 Copynumber: 8.8 Consensus size: 69
14281663 CTTTGTTGTT
* * *
14281673 TCACATATTCTCACCAC-GTCGTGTCACATATTCTCACCATGTCGTCTCACATATTCTCTCTATG
1 TCACATATTCTCACC-CTGCCGTGTCACATATTCTCACCATGTCGTGTCACATATTCTCTCCATG
14281737 GCGTG
65 GCGTG
* * * ** * *
14281742 TCACATATTCTCACCCTGCCATGTCACATATTCTCACCTTGTCGTGTCACATATTTTGACCCTGC
1 TCACATATTCTCACCCTGCCGTGTCACATATTCTCACCATGTCGTGTCACATATTCTCTCCATGG
*
14281807 CGTC
66 CGTG
* * * * * * *
14281811 TCACAGACTCTTACCATGCCGTGTCACATACTCTCACCATGCCGTGTCACATA-TCCCTCCATGG
1 TCACATATTCTCACCCTGCCGTGTCACATATTCTCACCATGTCGTGTCACATATTCTCTCCATGG
*
14281875 CATG
66 CGTG
* * * * * ** * * *
14281879 TCACGTATTCTCACCCTACTGTGTCACATATTCTCACCATGCCTTGTTGCATATTCCCTTCAGGG
1 TCACATATTCTCACCCTGCCGTGTCACATATTCTCACCATGTCGTGTCACATATTCTCTCCATGG
** *
14281944 TATA
66 CGTG
* * * ** * * ** * ** * * *
14281948 TCATAGATTCCCACCCTGTTGTGCCACAAACCTT-GAACCCTACCATGTCAAATATTCCCTCCAT
1 TCACATATTCTCACCCTGCCGTGTCACATA--TTCTCACCATGTCGTGTCACATATTCTCTCCAT
*
14282012 GGC--A
64 GGCGTG
* * * ** * * * * *
14282016 TCACATATTCCCACCATGGCGTGTCACA-AACCTAAACCCTATCGTGTCACATATTTTCACCATG
1 TCACATATTCTCACCCTGCCGTGTCACATATTCT-CACCATGTCGTGTCACATATTCTCTCCATG
* * *
14282080 TCATC
65 GCGTG
* * * * * *
14282085 TCACATATTCTCACCAC-GCCTTGTCACATATT-GCATCCAAGTCATTTCACATATTCCCT-CAT
1 TCACATATTCTCACC-CTGCCGTGTCACATATTCTCA-CCATGTCGTGTCACATATTCTCTCCAT
*
14282147 GGCATG
64 GGCGTG
*** * **
14282153 TCACATATTCTCACCCCAAACGTGTCACATATTCTCACCATGACGTGTCACATATTCTCAACAT-
1 TCACATATTCTCA-CCCTGCCGTGTCACATATTCTCACCATGTCGTGTCACATATTCTCTCCATG
14282217 GCTGTG
65 GC-GTG
* * * * * * * *
14282223 TCACATTTTCCCTCCATGTCGTATCACATATTCTCACCATGCCGTGTCAAATAT
1 TCACATATTCTCACCCTGCCGTGTCACATATTCTCACCATGTCGTGTCACATAT
14282277 AGTTCTTACA
Statistics
Matches: 402, Mismatches: 117, Indels: 32
0.73 0.21 0.06
Matches are distributed among these distances:
67 26 0.06
68 95 0.24
69 239 0.59
70 40 0.10
71 2 0.00
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.32
Consensus pattern (69 bp):
TCACATATTCTCACCCTGCCGTGTCACATATTCTCACCATGTCGTGTCACATATTCTCTCCATGG
CGTG
Found at i:14282079 original size:67 final size:69
Alignment explanation
Indices: 14281954--14282100 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 69
14281944 TATATCATAG
* ** * *
14281954 ATTCCCACCCTGTTGTGCCACAAACCTTGAACCCTACCATGTCAAATATTCCCTCCATGGCA-TC
1 ATTCCCACCATGGCGTGCCACAAACCTTAAACCCTACCATGTCAAATATTCCCACCATGGCACTC
14282018 ACAT
66 ACAT
* * * * ** *
14282022 ATTCCCACCATGGCGTGTCACAAACC-TAAACCCTATCGTGTCACATATTTTCACCATGTCATCT
1 ATTCCCACCATGGCGTGCCACAAACCTTAAACCCTACCATGTCAAATATTCCCACCATGGCA-CT
14282086 CACAT
65 CACAT
*
14282091 ATTCTCACCA
1 ATTCCCACCA
14282101 CGCCTTGTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
67 27 0.42
68 22 0.34
69 15 0.23
ACGTcount: A:0.27, C:0.35, G:0.10, T:0.28
Consensus pattern (69 bp):
ATTCCCACCATGGCGTGCCACAAACCTTAAACCCTACCATGTCAAATATTCCCACCATGGCACTC
ACAT
Found at i:14282900 original size:16 final size:15
Alignment explanation
Indices: 14282879--14282915 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
14282869 TGAAAATGAC
14282879 AAAAAAAT-AATAAAG
1 AAAAAAATGAA-AAAG
14282894 AAAAAAATGAAAAAG
1 AAAAAAATGAAAAAG
14282909 AAAAAAA
1 AAAAAAA
14282916 AAAGGGGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAATGAAAAAG
Found at i:14284541 original size:15 final size:15
Alignment explanation
Indices: 14284505--14284534 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14284495 ACAAAATCAT
*
14284505 TAAAAAAATAAATAA
1 TAAAATAATAAATAA
14284520 TAAAATAATAAATAA
1 TAAAATAATAAATAA
14284535 ACAAATAGTA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAATAATAAATAA
Found at i:14284829 original size:8 final size:8
Alignment explanation
Indices: 14284795--14284881 Score: 76
Period size: 8 Copynumber: 11.2 Consensus size: 8
14284785 AAATATAGGG
14284795 AAAAT-AT
1 AAAATAAT
14284802 AAAAT-AT
1 AAAATAAT
14284809 AAAA-AA-
1 AAAATAAT
14284815 AATAATAAT
1 AA-AATAAT
*
14284824 AAAATAAA
1 AAAATAAT
14284832 AAAAT-AT
1 AAAATAAT
* *
14284839 GATAATAAA
1 -AAAATAAT
14284848 AAAATAAT
1 AAAATAAT
*
14284856 AAAATAAA
1 AAAATAAT
*
14284864 AAAATAAA
1 AAAATAAT
14284872 AAAATAAT
1 AAAATAAT
14284880 AA
1 AA
14284882 TAAATGACCA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
6 2 0.03
7 15 0.23
8 46 0.70
9 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:14284830 original size:62 final size:59
Alignment explanation
Indices: 14284763--14284885 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 59
14284753 TGTGTAAAAG
* * *
14284763 AAATAAAAAAATAT-ATCAAGAAAAATATAGGGAAAATATAAAATATAAAAAAAATAATAATA
1 AAATAAAAAAATATGAT-AAGAAAAAAATA-AGAAAATA-AAAAAAT-AAAAAAATAATAATA
* *
14284825 AAATAAAAAAATATGATAATAAAAAAATAATAAAATAAAAAAATAAAAAAATAATAATA
1 AAATAAAAAAATATGATAAGAAAAAAATAAGAAAATAAAAAAATAAAAAAATAATAATA
14284884 AA
1 AA
14284886 TGACCAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
59 17 0.31
60 6 0.11
61 6 0.11
62 24 0.44
63 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (59 bp):
AAATAAAAAAATATGATAAGAAAAAAATAAGAAAATAAAAAAATAAAAAAATAATAATA
Found at i:14284843 original size:24 final size:22
Alignment explanation
Indices: 14284800--14284884 Score: 99
Period size: 21 Copynumber: 4.0 Consensus size: 22
14284790 TAGGGAAAAT
14284800 ATAAAATATAAAAAA-AATAATA
1 ATAAAATA-AAAAAATAATAATA
*
14284822 ATAAAATAAAAAAAT-ATGATA
1 ATAAAATAAAAAAATAATAATA
*
14284843 AT-AAA-AAAATAATAA-AATA
1 ATAAAATAAAAAAATAATAATA
*
14284862 AAAAAATAAAAAAATAATAATA
1 ATAAAATAAAAAAATAATAATA
14284884 A
1 A
14284885 ATGACCAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
19 11 0.21
20 7 0.13
21 22 0.42
22 13 0.25
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (22 bp):
ATAAAATAAAAAAATAATAATA
Found at i:14284859 original size:32 final size:33
Alignment explanation
Indices: 14284807--14284884 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 33
14284797 AATATAAAAT
14284807 ATAAAAAAAATAATAATAAAATAAAAAAATATG
1 ATAAAAAAAATAATAATAAAATAAAAAAATATG
*
14284840 ATAATAAAAA-AATAATAAAATAAAAAAATA--
1 ATAAAAAAAATAATAATAAAATAAAAAAATATG
*
14284870 A-AAAAATAATAATAA
1 ATAAAAAAAATAATAA
14284885 ATGACCAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.15
30 6 0.15
32 20 0.49
33 9 0.22
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (33 bp):
ATAAAAAAAATAATAATAAAATAAAAAAATATG
Found at i:14284876 original size:16 final size:16
Alignment explanation
Indices: 14284802--14284878 Score: 97
Period size: 16 Copynumber: 4.9 Consensus size: 16
14284792 GGGAAAATAT
14284802 AAAAT-ATAAAA-AAA
1 AAAATAATAAAATAAA
*
14284816 ATAATAATAAAATAAA
1 AAAATAATAAAATAAA
*
14284832 AAAAT-ATGATAATAAA
1 AAAATAAT-AAAATAAA
14284848 AAAATAATAAAATAAA
1 AAAATAATAAAATAAA
*
14284864 AAAATAAAAAAATAA
1 AAAATAATAAAATAA
14284879 TAATAAATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
14 4 0.07
15 8 0.15
16 40 0.74
17 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAATAAA
Found at i:14284894 original size:27 final size:24
Alignment explanation
Indices: 14284802--14284881 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
14284792 GGGAAAATAT
* *
14284802 AAAAT-ATAAAA-AAAATAATAAT
1 AAAATAATAAAATAAAAAAATAAA
* ** *
14284824 AAAATAAAAAAATATGATAATAAA
1 AAAATAATAAAATAAAAAAATAAA
14284848 AAAATAATAAAATAAAAAAATAAA
1 AAAATAATAAAATAAAAAAATAAA
14284872 AAAATAATAA
1 AAAATAATAA
14284882 TAAATGACCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 5 0.10
23 5 0.10
24 38 0.79
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.20
Consensus pattern (24 bp):
AAAATAATAAAATAAAAAAATAAA
Found at i:14296968 original size:38 final size:37
Alignment explanation
Indices: 14296926--14297203 Score: 359
Period size: 38 Copynumber: 7.5 Consensus size: 37
14296916 AGTTTCATTA
*
14296926 CCTCAGTTTTGAGGAGTTCATTTTTAAAAGTCATGTTG
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGT-ATGTTG
*
14296964 CCTCAGCTTTGAAGAGTTCA-TTTTAAAAGT-TCGTTG
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTAT-GTTG
* *
14297000 CCTCGGCTTTGAGGAGTTCATTTTTAAAAGTCACGTTG
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGT-ATGTTG
*
14297038 CCTCAGCTTTGAAGAGTTCA-TTTTAAAAGT-TCGTTG
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTAT-GTTG
*
14297074 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTTGTTG
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAG-TATGTTG
* *
14297112 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTGTCATTG
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTAT-GTTG
* * *
14297150 CCTCACCTTTAAGGAGTTCATTTTT-AAAGTTTCGTTG
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTAT-GTTG
14297187 CCTCAGCTTTGAGGAGT
1 CCTCAGCTTTGAGGAGT
14297204 CTTATTAAAA
Statistics
Matches: 214, Mismatches: 17, Indels: 19
0.86 0.07 0.08
Matches are distributed among these distances:
35 1 0.00
36 45 0.21
37 66 0.31
38 101 0.47
39 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (37 bp):
CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTATGTTG
Found at i:14297054 original size:74 final size:74
Alignment explanation
Indices: 14296926--14297203 Score: 414
Period size: 74 Copynumber: 3.7 Consensus size: 74
14296916 AGTTTCATTA
* *
14296926 CCTCAGTTTTGAGGAGTTCATTTTTAAAAGTCATGTTGCCTCAGCTTTGAAGAGTTCATTTTAAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCACGTTGCCTCAGCTTTGAAGAGTTCATTTTAAA
14296991 AGTTCGTTG
66 AGTTCGTTG
*
14297000 CCTCGGCTTTGAGGAGTTCATTTTTAAAAGTCACGTTGCCTCAGCTTTGAAGAGTTCATTTTAAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCACGTTGCCTCAGCTTTGAAGAGTTCATTTTAAA
14297065 AGTTCGTTG
66 AGTTCGTTG
*** *
14297074 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCACGTTGCCTCAGCTTTGAAGAGTTCA-TTTTAA
*
14297139 AAGTGTCATTG
65 AAGT-TCGTTG
* * ** *
14297150 CCTCACCTTTAAGGAGTTCATTTTT-AAAGTTTCGTTGCCTCAGCTTTGAGGAGT
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCACGTTGCCTCAGCTTTGAAGAGT
14297204 CTTATTAAAA
Statistics
Matches: 190, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
74 124 0.65
75 38 0.20
76 28 0.15
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (74 bp):
CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCACGTTGCCTCAGCTTTGAAGAGTTCATTTTAAA
AGTTCGTTG
Found at i:14297112 original size:112 final size:110
Alignment explanation
Indices: 14296921--14297203 Score: 390
Period size: 112 Copynumber: 2.5 Consensus size: 110
14296911 AAAAAAGTTT
* * * *
14296921 CATTACCTCAGTTTTGAGGAGTTCATTTTTAAAAG-TCATGTTGCCTCAGCTTTGAAGAGTTCAT
1 CATTGCCTCAGCTTTGAAGAGTTCA-TTTTAAAAGTTC--GTTGCCTCAGCTTTGAGGAGTTCAT
*
14296985 TTTAAAAGTTCGTTGCCTCGGCTTTGAGGAGTTCATTTTTAAAAGTCA
63 TTTAAAAGTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCA
*
14297033 CGTTGCCTCAGCTTTGAAGAGTTCATTTTAAAAGTTCGTTGCCTCAGCTTTGAGGAGTTCATTTT
1 CATTGCCTCAGCTTTGAAGAGTTCATTTTAAAAGTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTT
* **
14297098 TAAAAGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTGT
65 TAAAAG-TTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCA
* *
14297145 CATTGCCTCACCTTT-AAGGAGTTCATTTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGT
1 CATTGCCTCAGCTTTGAA-GAGTTCATTTTAAAAG-TTCGTTGCCTCAGCTTTGAGGAGT
14297204 CTTATTAAAA
Statistics
Matches: 154, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
110 23 0.15
111 20 0.13
112 87 0.56
113 24 0.16
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (110 bp):
CATTGCCTCAGCTTTGAAGAGTTCATTTTAAAAGTTCGTTGCCTCAGCTTTGAGGAGTTCATTTT
AAAAGTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCA
Found at i:14297243 original size:18 final size:17
Alignment explanation
Indices: 14297222--14297271 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
14297212 AAAAAATTTT
*
14297222 AAAAAAACAAAAAAGAA
1 AAAAAAACAAAAAACAA
*
14297239 CAAAAAAACCAAAAACAA
1 -AAAAAAACAAAAAACAA
14297257 AAACAAAA-AAAAAAC
1 AAA-AAAACAAAAAAC
14297272 TTGGTAAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAAACAA
Found at i:14297258 original size:25 final size:24
Alignment explanation
Indices: 14297224--14297271 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
14297214 AAAATTTTAA
14297224 AAAAACAAAAA-AGAACAAAAAAACC
1 AAAAACAAAAACA-AA-AAAAAAACC
14297249 AAAAACAAAAACAAAAAAAAAAC
1 AAAAACAAAAACAAAAAAAAAAC
14297272 TTGGTAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
25 13 0.59
26 1 0.05
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (24 bp):
AAAAACAAAAACAAAAAAAAAACC
Found at i:14299451 original size:54 final size:55
Alignment explanation
Indices: 14299333--14299461 Score: 144
Period size: 54 Copynumber: 2.4 Consensus size: 55
14299323 AATATTGTGT
* *
14299333 AAAA-AAAATAAAAA-AATATATCAAGAAAAATATAGGGAAAATATAAAATATAAA
1 AAAATAAAATAAAAATAATA-ATCAAGAAAAATATAGGAAAAATATAAAATAAAAA
* **
14299387 AAAAT-TAATAAAAATAATAAT-AAGAAAAA-ATA-GAAAAATATGGTAATAAAAA
1 AAAATAAAATAAAAATAATAATCAAGAAAAATATAGGAAAAATAT-AAAATAAAAA
14299439 AATAATAAAATAAAAATAATAAT
1 AA-AATAAAATAAAAATAATAAT
14299462 TAAATAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
51 8 0.12
52 12 0.19
53 11 0.17
54 29 0.45
55 4 0.06
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (55 bp):
AAAATAAAATAAAAATAATAATCAAGAAAAATATAGGAAAAATATAAAATAAAAA
Found at i:14299453 original size:14 final size:14
Alignment explanation
Indices: 14299436--14299475 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
14299426 ATGGTAATAA
14299436 AAAAATAATAAAAT
1 AAAAATAATAAAAT
*
14299450 AAAAATAAT-AATT
1 AAAAATAATAAAAT
14299463 AAATAATAATAAA
1 AAA-AATAATAAA
14299476 TGACCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.26
14 15 0.65
15 2 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAAATAATAAAAT
Found at i:14299458 original size:25 final size:25
Alignment explanation
Indices: 14299370--14299471 Score: 77
Period size: 24 Copynumber: 4.1 Consensus size: 25
14299360 AAATATAGGG
14299370 AAAATATAAAAT-ATAAAAAAATTAAT
1 AAAATA-AAAATAATAAAAAAA-TAAT
* *
14299396 AAAAATAATAATAA-GAAAAAATAGA-
1 -AAAATAAAAATAATAAAAAAATA-AT
***
14299421 AAAAT-ATGGTAATAAAAAAATAAT
1 AAAATAAAAATAATAAAAAAATAAT
**
14299445 AAAATAAAAATAATAATTAAATAAT
1 AAAATAAAAATAATAAAAAAATAAT
14299470 AA
1 AA
14299472 TAAATGACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
23 6 0.10
24 18 0.30
25 18 0.30
26 11 0.18
27 7 0.12
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATAAAAATAATAAAAAAATAAT
Found at i:14299472 original size:11 final size:10
Alignment explanation
Indices: 14299430--14299476 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 10
14299420 AAAAATATGG
14299430 TAATAA-AAA
1 TAATAATAAA
14299439 -AATAAT-AA
1 TAATAATAAA
14299447 -AATAA-AAA
1 TAATAATAAA
14299455 TAATAATTAAA
1 TAATAA-TAAA
14299466 TAATAATAAA
1 TAATAATAAA
14299476 T
1 T
14299477 GACCAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 14 0.42
9 5 0.15
10 5 0.15
11 9 0.27
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAATAATAAA
Found at i:14299473 original size:17 final size:17
Alignment explanation
Indices: 14299375--14299474 Score: 64
Period size: 16 Copynumber: 5.9 Consensus size: 17
14299365 TAGGGAAAAT
*
14299375 ATAAAATATAAAAAAATTA
1 ATAAAATA-AAAATAA-TA
* *
14299394 ATAAAAATAATAATAAGA
1 AT-AAAATAAAAATAATA
*
14299412 A-AAAATAGAAA-AAT-
1 ATAAAATAAAAATAATA
**
14299426 ATGGTAATAAAAA-AATA
1 AT-AAAATAAAAATAATA
14299443 ATAAAATAAAAATAATA
1 ATAAAATAAAAATAATA
* *
14299460 ATTAAATAATAATAA
1 ATAAAATAAAAATAA
14299475 ATGACCAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
14 1 0.02
15 2 0.03
16 26 0.41
17 19 0.30
18 2 0.03
19 7 0.11
20 6 0.10
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (17 bp):
ATAAAATAAAAATAATA
Found at i:14303502 original size:18 final size:18
Alignment explanation
Indices: 14303465--14303499 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14303455 TTGAACTTAA
14303465 ATAATAATAAAAAAATTT
1 ATAATAATAAAAAAATTT
*
14303483 ATAATAA-AAAATAATTT
1 ATAATAATAAAAAAATTT
14303500 TATGTAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATAATAAAAAAATTT
Found at i:14304443 original size:18 final size:19
Alignment explanation
Indices: 14304397--14304447 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
14304387 GGAAAAAAGT
* *
14304397 AAAGTAAAAATAAAGGACA
1 AAAGAAAAAAGAAAGGACA
14304416 AAAGAAAAAAGAAAGAGA-A
1 AAAGAAAAAAGAAAG-GACA
*
14304435 AAAAAAAAAAGAA
1 AAAGAAAAAAGAA
14304448 GTAAAGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (19 bp):
AAAGAAAAAAGAAAGGACA
Found at i:14305276 original size:2 final size:2
Alignment explanation
Indices: 14305269--14305297 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14305259 AAATAATAAA
14305269 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 A
14305298 AAGGAGGAAT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14305867 original size:18 final size:17
Alignment explanation
Indices: 14305846--14305904 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
14305836 GGGAAGCAAG
14305846 GAGAGAAAGAAAGAAAGA
1 GAGAGAAAGAAA-AAAGA
*
14305864 GAGAGAAAGAATAAAGAA
1 GAGAGAAAGAAAAAAG-A
* *
14305882 AAGGGAAAGAAAAAAG-
1 GAGAGAAAGAAAAAAGA
14305898 GAGAGAA
1 GAGAGAA
14305905 GAAGAGAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.15
17 4 0.12
18 25 0.74
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (17 bp):
GAGAGAAAGAAAAAAGA
Found at i:14305975 original size:22 final size:22
Alignment explanation
Indices: 14305950--14305991 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14305940 TGAAGGGGAA
14305950 AAAGAGAAAGAAAAGAAAGAAT
1 AAAGAGAAAGAAAAGAAAGAAT
*
14305972 AAAGAGAAAGAAAATAAAGA
1 AAAGAGAAAGAAAAGAAAGA
14305992 GAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (22 bp):
AAAGAGAAAGAAAAGAAAGAAT
Found at i:14305981 original size:17 final size:16
Alignment explanation
Indices: 14305956--14306006 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
14305946 GGAAAAAGAG
14305956 AAAGA-AAAGAAAGAAT
1 AAAGAGAAAGAAA-AAT
14305972 AAAGAGAAAG-AAAAT
1 AAAGAGAAAGAAAAAT
*
14305987 AAAGAGAAATAAAAAAT
1 AAAGAGAAA-GAAAAAT
14306004 AAA
1 AAA
14306007 AAAAGGGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 12 0.39
16 7 0.23
17 12 0.39
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAGAGAAAGAAAAAT
Found at i:14318667 original size:21 final size:19
Alignment explanation
Indices: 14318642--14318695 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
14318632 GTTTTTTATC
14318642 ATTTATATTTGTTTATTTCTT
1 ATTTATATTT-TTTATTT-TT
*
14318663 ATTTAT-TTTATTATTTTT
1 ATTTATATTTTTTATTTTT
14318681 ATTATATATATTTTT
1 ATT-TATAT-TTTTT
14318696 TATATGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 5 0.18
19 9 0.32
20 4 0.14
21 10 0.36
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTATATTTTTTATTTTT
Found at i:14320338 original size:38 final size:37
Alignment explanation
Indices: 14320223--14320469 Score: 363
Period size: 37 Copynumber: 6.6 Consensus size: 37
14320213 TTTTTGGGAT
*
14320223 TCCTTAAAGCTGAGGCAACGAAACTTTAAAAATGAAC
1 TCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAAC
* *
14320260 TCTTTAAAGCTGAGGCAACGAAACTTTAAAAATGAAC
1 TCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAAC
*
14320297 TCCTCAAAACTGAGGCAACGAAACTTTAAAAAATGAAC
1 TCCTCAAAGCTGAGGCAACGAAACTTT-AAAAATGAAC
*
14320335 TCCTCAAAGCTGAGGCAACGAATCTTTAAAAATGAAC
1 TCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAAC
*
14320372 TCCTCAAAGATGAGGC-ACGAAACTTTAAAAATGAAC
1 TCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAAC
14320408 TCCTCAAAGCTGAGG-ACACGAAACTTTTAAAAATGAAC
1 TCCTCAAAGCTGAGGCA-ACGAAAC-TTTAAAAATGAAC
** * *
14320446 TTTTCAAAACTGAGGTAACGAAAC
1 TCCTCAAAGCTGAGGCAACGAAAC
14320470 CTTTTTTTCT
Statistics
Matches: 193, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
36 33 0.17
37 92 0.48
38 67 0.35
39 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (37 bp):
TCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAAC
Found at i:14332658 original size:9 final size:8
Alignment explanation
Indices: 14332624--14332674 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
14332614 AAAAATTTTA
*
14332624 TTATTTTT
1 TTATATTT
* *
14332632 TTCTACTT
1 TTATATTT
14332640 TT-TATTT
1 TTATATTT
14332647 TTATATTAT
1 TTATATT-T
14332656 TTATTATTT
1 TTA-TATTT
14332665 TTATATTT
1 TTATATTT
14332673 TT
1 TT
14332675 TATGTTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 6 0.17
8 18 0.50
9 8 0.22
10 4 0.11
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATATTT
Found at i:14332662 original size:18 final size:18
Alignment explanation
Indices: 14332620--14332677 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
14332610 GGACAAAAAT
14332620 TTTATTATTTTT-T-TCTA
1 TTTATTATTTTTATAT-TA
14332637 CTTT-TTATTTTTATATTA
1 -TTTATTATTTTTATATTA
*
14332655 TTTATTATTTTTATATTT
1 TTTATTATTTTTATATTA
14332673 TTTAT
1 TTTAT
14332678 GTTTTGATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 11 0.31
18 24 0.67
19 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTATTTTTATATTA
Found at i:14332671 original size:15 final size:16
Alignment explanation
Indices: 14332620--14332707 Score: 63
Period size: 18 Copynumber: 5.2 Consensus size: 16
14332610 GGACAAAAAT
*
14332620 TTTATTATTTTTTTCTA
1 TTTATTATTTTTAT-TA
14332637 CTTT-TTATTTTTATATTA
1 -TTTATTA-TTTT-TATTA
14332655 TTTATTATTTTTA-TA
1 TTTATTATTTTTATTA
*
14332670 TTTTTTATGTTTTGATTA
1 TTTATTAT-TTTT-ATTA
* *
14332688 TCATATTATTATTATTA
1 T-TTATTATTTTTATTA
14332705 TTT
1 TTT
14332708 TTTGTAAGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
15 9 0.16
16 7 0.12
17 16 0.28
18 18 0.32
19 7 0.12
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTATTATTTTTATTA
Found at i:14333229 original size:19 final size:19
Alignment explanation
Indices: 14333207--14333244 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14333197 ATATCATTTA
*
14333207 TATTTT-TTTATTTATTATT
1 TATTTTATTAATTT-TTATT
14333226 TATTTTATTAATTTTTATT
1 TATTTTATTAATTTTTATT
14333245 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTATTAATTTTTATT
Found at i:14339921 original size:27 final size:27
Alignment explanation
Indices: 14339861--14339936 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
14339851 ACTTTAAAAG
* *
14339861 TTTTATAATTTTATAA-TTTCCCTTTTT
1 TTTTA-AATTTTATAATTTTCCCTCTAT
*
14339888 TTCTTAAATTTTATAATTTTGCCTCTAT
1 TT-TTAAATTTTATAATTTTCCCTCTAT
*
14339916 TTTTAAAAATTTTATAGTTTT
1 TTTT--AAATTTTATAATTTT
14339937 ATCCCTACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 14 0.34
28 13 0.32
29 14 0.34
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTAAATTTTATAATTTTCCCTCTAT
Found at i:14340499 original size:69 final size:71
Alignment explanation
Indices: 14340376--14340520 Score: 197
Period size: 69 Copynumber: 2.1 Consensus size: 71
14340366 AATTCTTTTG
* *
14340376 TTTA-CAACGGAAAAAGTTAACTTTATTTTTTTATCTATTTAAAACAAAAATTTGGAAATATAAA
1 TTTATCAACGGAAAAAGATAACTTTA-TTTTTTATCTACTTAAAACAAAAATTTGGAAATATAAA
14340440 A-GTAAT
65 AGGTAAT
* * ** *
14340446 TTTATCAATGGAAAAAGATAACTTTA-TTTTTATCTACTTAAAACCAATTTTTGGAAATGTAAAA
1 TTTATCAACGGAAAAAGATAACTTTATTTTTTATCTACTTAAAACAAAAATTTGGAAATATAAAA
14340510 GGTAAT
66 GGTAAT
14340516 TTTAT
1 TTTAT
14340521 ATAACATAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
69 33 0.50
70 14 0.21
71 19 0.29
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.40
Consensus pattern (71 bp):
TTTATCAACGGAAAAAGATAACTTTATTTTTTATCTACTTAAAACAAAAATTTGGAAATATAAAA
GGTAAT
Found at i:14342259 original size:2 final size:2
Alignment explanation
Indices: 14342252--14342281 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14342242 AACCAACACG
14342252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14342282 GTTACGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14363853 original size:34 final size:34
Alignment explanation
Indices: 14363805--14363917 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
14363795 AACACCGAAA
* * * * * *
14363805 CTTCAGCACTAGATGTTATATACGAAGGCCAAAG
1 CTTCACCACCAGATGTTAAATGCCAAGGTCAAAG
* *
14363839 CTTCACCACCAGATGTTACATGCTAAGGTCAAAG
1 CTTCACCACCAGATGTTAAATGCCAAGGTCAAAG
* *
14363873 CTTCACCACCATATATTAAATGCCAAGGTCAAAG
1 CTTCACCACCAGATGTTAAATGCCAAGGTCAAAG
*
14363907 CTTCAACACCA
1 CTTCACCACCA
14363918 TATATTACAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (34 bp):
CTTCACCACCAGATGTTAAATGCCAAGGTCAAAG
Found at i:14363918 original size:34 final size:34
Alignment explanation
Indices: 14363829--14363924 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 34
14363819 GTTATATACG
* * * * *
14363829 AAGGCCAAAGCTTCACCACCAGATGTTACATGCT
1 AAGGTCAAAGCTTCACCACCATATATTAAATGCC
14363863 AAGGTCAAAGCTTCACCACCATATATTAAATGCC
1 AAGGTCAAAGCTTCACCACCATATATTAAATGCC
*
14363897 AAGGTCAAAGCTTCAACACCATATATTA
1 AAGGTCAAAGCTTCACCACCATATATTA
14363925 CATGACAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.23
Consensus pattern (34 bp):
AAGGTCAAAGCTTCACCACCATATATTAAATGCC
Found at i:14369235 original size:4 final size:4
Alignment explanation
Indices: 14369226--14369252 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
14369216 ATGGACAAAA
14369226 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
14369253 ACTCTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:14370838 original size:24 final size:23
Alignment explanation
Indices: 14370810--14370886 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 23
14370800 TTTTTGGTCA
14370810 TTTATTAATATTTAATTATATTTT
1 TTTATTAAT-TTTAATTATATTTT
* * *
14370834 TTTATTATTTTTATTTTTTATTTT
1 TTTATTAATTTTA-ATTATATTTT
14370858 ATTT-TTAATTATT-ATTATTATTTT
1 -TTTATTAATT-TTAATTA-TATTTT
14370882 TTTAT
1 TTTAT
14370887 ACTTTACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 9 0.21
24 28 0.67
25 5 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTAATTTTAATTATATTTT
Found at i:14370849 original size:6 final size:6
Alignment explanation
Indices: 14370828--14370882 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
14370818 TATTTAATTA
* * *
14370828 TATTTT T-TTAT TATTTT TATTTT T-TATTT TATTTT TAATTAT TATTAT
1 TATTTT TATTTT TATTTT TATTTT TAT-TTT TATTTT T-ATTTT TATTTT
14370876 TATTTT T
1 TATTTT T
14370883 TTATACTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 5 0.12
6 30 0.73
7 6 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:14370854 original size:13 final size:13
Alignment explanation
Indices: 14370818--14370882 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 13
14370808 CATTTATTAA
14370818 TATTTAATTATATTT
1 TATTT-ATTAT-TTT
14370833 T-TTTATTATTTT
1 TATTTATTATTTT
*
14370845 TATTTTTTA-TTT
1 TATTTATTATTTT
*
14370857 TATTT-TTAATTAT
1 TATTTATT-ATTTT
14370870 TA-TTATTATTTT
1 TATTTATTATTTT
14370882 T
1 T
14370883 TTATACTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
11 2 0.05
12 20 0.47
13 17 0.40
14 3 0.07
15 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTATTATTTT
Found at i:14370857 original size:21 final size:21
Alignment explanation
Indices: 14370833--14370906 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 21
14370823 AATTATATTT
14370833 TTTTATTATTTTTATTTTTTA
1 TTTTATTATTTTTATTTTTTA
14370854 TTTTATT-TTTAATTATTATTATTA
1 TTTTATTATTT--TTATT-TT-TTA
* *
14370878 TTTTTTTATACTTTACATTTTTTA
1 TTTTATTAT--TTT-TATTTTTTA
14370902 TTTTA
1 TTTTA
14370907 AGTTACTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
20 3 0.07
21 7 0.17
22 5 0.12
23 2 0.05
24 16 0.38
25 4 0.10
26 3 0.07
27 2 0.05
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTATTTTTATTTTTTA
Found at i:14370866 original size:48 final size:49
Alignment explanation
Indices: 14370809--14370906 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 49
14370799 TTTTTTGGTC
**
14370809 ATTTATTAA-TATTTAATTA-TATTTTTTTATTA-TTTTTATTTTTTATTTT
1 ATTTATTAATTA-TT-ATTATTATTTTTTTA-TACTTTACATTTTTTATTTT
14370858 ATTT-TTAATTATTATTATTATTTTTTTATACTTTACATTTTTTATTTT
1 ATTTATTAATTATTATTATTATTTTTTTATACTTTACATTTTTTATTTT
14370906 A
1 A
14370907 AGTTACTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
47 6 0.14
48 32 0.73
49 6 0.14
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (49 bp):
ATTTATTAATTATTATTATTATTTTTTTATACTTTACATTTTTTATTTT
Found at i:14370892 original size:28 final size:28
Alignment explanation
Indices: 14370837--14370892 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
14370827 ATATTTTTTT
* * *
14370837 ATTATTTTTATTTTTTATTTTATTTTTA
1 ATTATTATTATTATTTATTTTATCTTTA
14370865 ATTATTATTATTATTT-TTTTATACTTTA
1 ATTATTATTATTATTTATTTTAT-CTTTA
14370893 CATTTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (28 bp):
ATTATTATTATTATTTATTTTATCTTTA
Found at i:14371002 original size:20 final size:20
Alignment explanation
Indices: 14370977--14371016 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14370967 AGTGACAAAA
*
14370977 ATTTTATATTTTTTTATTTT
1 ATTTTATATTTTTATATTTT
14370997 ATTTTATATTTTTATATTTT
1 ATTTTATATTTTTATATTTT
14371017 GTATATATAT
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:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
ATTTTATATTTTTATATTTT
Found at i:14372782 original size:72 final size:72
Alignment explanation
Indices: 14372647--14372793 Score: 215
Period size: 72 Copynumber: 2.0 Consensus size: 72
14372637 GGCTTTTGCA
* * *
14372647 GGGTGTCCTCCCACTACTTTGCCAGACGCGATTTTCGCGTCTGGCACTGTAGTGGTTGTTTGGTG
1 GGGTGTCCTCCCACTACGTTGCCAGACGCGATTTTCGCGTCTGGCACTATAGTGGTTGTTTGGTA
14372712 CTAGCAG
66 CTAGCAG
* * *
14372719 GGGTGTCCTCCCATTACGTTGCCAGACGCGATTTTCGCTTCTGGCACTATAGT-GTTTTCTTGGT
1 GGGTGTCCTCCCACTACGTTGCCAGACGCGATTTTCGCGTCTGGCACTATAGTGGTTGT-TTGGT
*
14372783 ACTGGCAG
65 ACTAGCAG
14372791 GGG
1 GGG
14372794 CATCCCTGCC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 4 0.06
72 63 0.94
ACGTcount: A:0.13, C:0.24, G:0.30, T:0.33
Consensus pattern (72 bp):
GGGTGTCCTCCCACTACGTTGCCAGACGCGATTTTCGCGTCTGGCACTATAGTGGTTGTTTGGTA
CTAGCAG
Found at i:14372842 original size:2 final size:2
Alignment explanation
Indices: 14372835--14372859 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14372825 ATGGTTTTAT
14372835 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14372860 TAATTATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14373024 original size:1 final size:1
Alignment explanation
Indices: 14373014--14373129 Score: 79
Period size: 1 Copynumber: 116.0 Consensus size: 1
14373004 AGGCTCCTTC
* * * * * * * * * *
14373014 TTTTTCTTTTTTTTTTCTTTTTTTTATTTGTTTGTTGTTGTTTTTTTTTTGTTTTTTTGTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * * * *
14373079 TTTTTGGTTTTTTTGTTTTTTTTTTCTTCTTTTTTTTTATTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14373130 ATTTATTTAT
Statistics
Matches: 83, Mismatches: 32, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:14373057 original size:21 final size:19
Alignment explanation
Indices: 14373014--14373150 Score: 116
Period size: 21 Copynumber: 6.8 Consensus size: 19
14373004 AGGCTCCTTC
14373014 TTTTTCTTTTT-TTTTTCTT-
1 TTTTT-TTTTTGTTTTT-TTG
*
14373033 TTTTTTATTTGTTTGTTGTTG
1 TTTTTTTTTTGTTT-TT-TTG
14373054 TTTTTTTTTTGTTTTTTTG
1 TTTTTTTTTTGTTTTTTTG
14373073 TTTTGTTTTTTGGTTTTTTTG
1 TTTT-TTTTTT-GTTTTTTTG
* *
14373094 TTTTTTTTTTCTTCTTTTTT
1 TTTTTTTTTTGTT-TTTTTG
* *
14373114 TTTATTTTTTTATTTTATTTA
1 TTT-TTTTTTTGTTTT-TTTG
* *
14373135 TTTATTTATTGTTTTT
1 TTTTTTTTTTGTTTTT
14373151 AAATGAACTC
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.04
19 18 0.18
20 37 0.37
21 41 0.41
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTTGTTTTTTTG
Found at i:14373062 original size:24 final size:24
Alignment explanation
Indices: 14373031--14373149 Score: 86
Period size: 25 Copynumber: 4.9 Consensus size: 24
14373021 TTTTTTTTTC
14373031 TTTTTTTTATTTGTTTGTTGTTGTT
1 TTTTTTTTATTTGTTTGTT-TTGTT
* *
14373056 TTTTTTTTGTTTTTTTGTTTTGTT
1 TTTTTTTTATTTGTTTGTTTTGTT
14373080 TTTTGGTTTT-TTTGTTT-TTTT-TT
1 TTTT--TTTTATTTGTTTGTTTTGTT
* * *
14373103 TCTTCTTTTTTTTTATTT-TTTTATT
1 T-TT-TTTTTATTTGTTTGTTTTGTT
*
14373128 TTATTTATTTATTT-ATTGTTTT
1 TT-TTT-TTTATTTGTTTGTTTT
14373150 TAAATGAACT
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
23 7 0.09
24 30 0.38
25 38 0.48
26 4 0.05
ACGTcount: A:0.06, C:0.02, G:0.09, T:0.83
Consensus pattern (24 bp):
TTTTTTTTATTTGTTTGTTTTGTT
Found at i:14373063 original size:34 final size:30
Alignment explanation
Indices: 14373020--14373150 Score: 100
Period size: 34 Copynumber: 3.9 Consensus size: 30
14373010 CTTCTTTTTC
*
14373020 TTTTTTTTTTCTTTTTTTTATTTGTTTGTTGTTG
1 TTTTTTTTTT-TTTTTTTT-TTTGTTT-TT-TGG
14373054 TTTTTTTTTTGTTTTTTTGTTTTGTTTTTTGG
1 TTTTTTTTTT-TTTTTTT-TTTTGTTTTTTGG
* **
14373086 TTTTTTTGTTTTTTTTTTCTTCTTTTTTTTTAT
1 TTTTTTT-TTTTTTTTTT-TT-TTGTTTTTTGG
14373119 TTTTTTATTTTATTTATTTATTTATTGTTTTT
1 TTTTTT-TTTT-TTT-TTT-TTT-TTGTTTTT
14373151 AAATGAACTC
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
32 18 0.22
33 22 0.27
34 28 0.34
35 13 0.16
36 1 0.01
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.84
Consensus pattern (30 bp):
TTTTTTTTTTTTTTTTTTTTTGTTTTTTGG
Found at i:14373130 original size:13 final size:13
Alignment explanation
Indices: 14373054--14373151 Score: 67
Period size: 13 Copynumber: 7.5 Consensus size: 13
14373044 TTTGTTGTTG
*
14373054 TTTTTT-TTTTGT
1 TTTTTTATTTTAT
* *
14373066 TTTTTTGTTTTGT
1 TTTTTTATTTTAT
** *
14373079 TTTTTGGTTTTTT
1 TTTTTTATTTTAT
* *
14373092 TGTTTTTTTTTTCT
1 T-TTTTTATTTTAT
14373106 TCTTTTT-TTTTAT
1 T-TTTTTATTTTAT
14373119 TTTTTTATTTTAT
1 TTTTTTATTTTAT
*
14373132 TTATTTA-TTTAT
1 TTTTTTATTTTAT
14373144 TGTTTTTA
1 T-TTTTTA
14373152 AATGAACTCC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
12 17 0.23
13 41 0.56
14 15 0.21
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:14373203 original size:38 final size:38
Alignment explanation
Indices: 14373151--14373592 Score: 523
Period size: 38 Copynumber: 11.7 Consensus size: 38
14373141 TATTGTTTTT
* *
14373151 AAATGAACTCCTCAAAGCTAAAGCAATGAGACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* * **
14373189 AAATGAATTTCTCAAAATTGAGGCAATGAGACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* * *
14373227 AAATGAACTCCTCAAAGCTGAGGTAACGAAACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* * *
14373265 AATTGAACTCCTCAAAACTGAGACAATGAGACTTTT-A
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
*
14373302 AAATGAACTCCTCAAAGCTGAGGCAATGAAACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* * *
14373340 AAATGAACTTCTCAAAGCTGAGGCAACGAAACTTTT-A
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* * * * *
14373377 AAATGAACTCTTCAAAGCTGAGGAAACGAAACTTTTAG
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* **
14373415 AAATGAGCTCCTCAAAGCTGAGGCAACAAGACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* *
14373453 AAATGAACTTCTCAAAGCTGAGGCAATGAGACTTTAAA
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
* ** *
14373491 AAATGAACTCCTCAAAACTGAGGCAACCAAAACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAA-TGAGACTTTTAA
* * *
14373530 AAATGAACTCCTTAAAGCTGAGGCAACG-TA-TCTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAATGAGACT-TTTAA
* *
14373567 AAATGAATTCCTCAAAACTGAGGCAA
1 AAATGAACTCCTCAAAGCTGAGGCAA
14373593 CGAAACCTTT
Statistics
Matches: 347, Mismatches: 53, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
36 1 0.00
37 96 0.28
38 218 0.63
39 32 0.09
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (38 bp):
AAATGAACTCCTCAAAGCTGAGGCAATGAGACTTTTAA
Found at i:14373330 original size:113 final size:113
Alignment explanation
Indices: 14373146--14373603 Score: 539
Period size: 113 Copynumber: 4.0 Consensus size: 113
14373136 TTATTTATTG
* * * * * * * **
14373146 TTTTTAAATGAACTCCTCAAAGCT-AAAGCAATGAGACTTTTAAAAATGAATTTCTCAAAATTGA
1 TTTTAAAATGAACTCCTCAAAACTGAGA-CAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGA
* *
14373210 GGCAATGAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGTAACGAAAC
65 GGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
14373259 TTTTAAAATTGAACTCCTCAAAACTGAGACAATGAGACTTTT-AAAATGAACTCCTCAAAGCTGA
1 TTTTAAAA-TGAACTCCTCAAAACTGAGACAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGA
* * *
14373323 GGCAATGAAACTTTTAAAAATGAACTTCTCAAAGCTGAGGCAACGAAAC
65 GGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * *
14373372 TTTTAAAATGAACTCTTCAAAGCTGAGGA-AACGAAACTTTTAGAAATGAGCTCCTCAAAGCTGA
1 TTTTAAAATGAACTCCTCAAAACTGA-GACAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGA
* * * *
14373436 GGCAACAAGACTTTTAAAAATGAACTTCTCAAAGCTGAGGCAATGAGAC
65 GGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * *
14373485 TTTAAAAAATGAACTCCTCAAAACTGAGGCAACCAAAACTTTTAAAAATGAACTCCTTAAAGCTG
1 TTT-TAAAATGAACTCCTCAAAACTGAGACAA-CGAAACTTTTAAAAATGAACTCCTCAAAGCTG
* * *
14373550 AGGCAACG-TA-TCTTTAAAAATGAATTCCTCAAAACTGAGGCAACGAAACC
64 AGGCAACGAGACT-TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAA-C
14373600 TTTT
1 TTTT
14373604 TTTCCTTTTT
Statistics
Matches: 299, Mismatches: 37, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
112 26 0.09
113 150 0.50
114 82 0.27
115 41 0.14
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (113 bp):
TTTTAAAATGAACTCCTCAAAACTGAGACAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAG
GCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
Found at i:14385558 original size:13 final size:12
Alignment explanation
Indices: 14385540--14385587 Score: 71
Period size: 13 Copynumber: 3.9 Consensus size: 12
14385530 AAATATGTAT
14385540 ATGCAATGATATG
1 ATGCAAT-ATATG
14385553 ATGCAATATAT-
1 ATGCAATATATG
14385564 ATGCAATGATATG
1 ATGCAAT-ATATG
14385577 ATGCAATATAT
1 ATGCAATATAT
14385588 ATGATATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.21
12 12 0.36
13 14 0.42
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (12 bp):
ATGCAATATATG
Found at i:14385565 original size:24 final size:24
Alignment explanation
Indices: 14385537--14385590 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
14385527 TAGAAATATG
14385537 TATATGCAATGATATGATGCAATA
1 TATATGCAATGATATGATGCAATA
14385561 TATATGCAATGATATGATGCAATA
1 TATATGCAATGATATGATGCAATA
14385585 TATATG
1 TATATG
14385591 ATATGTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (24 bp):
TATATGCAATGATATGATGCAATA
Found at i:14385590 original size:14 final size:14
Alignment explanation
Indices: 14385531--14385592 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 14
14385521 CGAAAATAGA
*
14385531 AATATGTAT-ATGC
1 AATATATATGATGC
*
14385544 AAT-GATATGATGC
1 AATATATATGATGC
14385557 -A-ATATAT-ATGC
1 AATATATATGATGC
*
14385568 AAT-GATATGATGC
1 AATATATATGATGC
14385581 AATATATATGAT
1 AATATATATGAT
14385593 ATGTTAATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
11 4 0.11
12 13 0.34
13 14 0.37
14 7 0.18
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (14 bp):
AATATATATGATGC
Found at i:14385654 original size:6 final size:6
Alignment explanation
Indices: 14385645--14385708 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
14385635 TTAATTATAT
* * *
14385645 TTTTTA TTTTTT TTTATTA TTTTTA TTTTCTA -TTTTA TTTCTAA TTATTA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTT-TA TTTTTA TTT-TTA TTTTTA
*
14385695 TTTTTT TTTTTA TT
1 TTTTTA TTTTTA TT
14385709 ACTTTACATT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 2 0.04
6 33 0.72
7 11 0.24
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:14385706 original size:25 final size:25
Alignment explanation
Indices: 14385636--14385708 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
14385626 TATTAATATT
*
14385636 TAATTA-TATTTTTTATTTTTTTTTA
1 TAATTATTATTTTTT-TTTTTATTTA
* * * * *
14385661 TTATTTTTATTTTCTATTTTATTTC
1 TAATTATTATTTTTTTTTTTATTTA
14385686 TAATTATTATTTTTTTTTTTATT
1 TAATTATTATTTTTTTTTTTATT
14385709 ACTTTACATT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 30 0.81
26 7 0.19
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (25 bp):
TAATTATTATTTTTTTTTTTATTTA
Found at i:14385745 original size:24 final size:24
Alignment explanation
Indices: 14385693--14385745 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
14385683 TTCTAATTAT
* * *
14385693 TATTTTTTTTTTTATTACTTTACA
1 TATTTTTGTTTTAATTACTCTACA
14385717 T-TTTTTGTTTTAAGTTACTCTA-A
1 TATTTTTGTTTTAA-TTACTCTACA
14385740 TATTTT
1 TATTTT
14385746 CCTTTTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.68
Consensus pattern (24 bp):
TATTTTTGTTTTAATTACTCTACA
Found at i:14385824 original size:20 final size:20
Alignment explanation
Indices: 14385799--14385838 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14385789 AGTGACAAAA
*
14385799 ATTTTATATTTTTTTATTTT
1 ATTTTATATTTTTATATTTT
14385819 ATTTTATATTTTTATATTTT
1 ATTTTATATTTTTATATTTT
14385839 GTATATAGAT
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:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
ATTTTATATTTTTATATTTT
Found at i:14385948 original size:19 final size:19
Alignment explanation
Indices: 14385926--14385979 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
14385916 ATATATTCTA
14385926 ATTTTTATTATTATTATTT
1 ATTTTTATTATTATTATTT
*
14385945 A-TTTTATCTATTGTTATTT
1 ATTTTTAT-TATTATTATTT
*
14385964 ATTTATTATTTTTATT
1 ATTT-TTATTATTATT
14385980 GAGTAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.21
19 12 0.41
20 7 0.24
21 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATTATTATTT
Found at i:14387462 original size:72 final size:72
Alignment explanation
Indices: 14387383--14387526 Score: 225
Period size: 72 Copynumber: 2.0 Consensus size: 72
14387373 TTTGCAGGGT
* * * *
14387383 GTCCTCCCACTACTTTGCCAGCCGCAATTTTCGCGTCTGGCACTATAGTGGTTGTTTGGTGCTGG
1 GTCCTCCCACTACATTGCCAGACGCAATTTTCGCGTCTGGCACTATAGTGGTTGCTTGGTACTGG
14387448 CAGGGGC
66 CAGGGGC
* * *
14387455 GTCCTCCCACTACATTGCCAGACGCGATTTTCGCGTCTGGCACTGTAGTGTTTGCTTGGTACTGG
1 GTCCTCCCACTACATTGCCAGACGCAATTTTCGCGTCTGGCACTATAGTGGTTGCTTGGTACTGG
14387520 CAGGGGC
66 CAGGGGC
14387527 ATCCCTGCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.13, C:0.28, G:0.29, T:0.30
Consensus pattern (72 bp):
GTCCTCCCACTACATTGCCAGACGCAATTTTCGCGTCTGGCACTATAGTGGTTGCTTGGTACTGG
CAGGGGC
Found at i:14390652 original size:45 final size:45
Alignment explanation
Indices: 14390592--14390678 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
14390582 ACCAACATAG
* * * * *
14390592 GTGCTTCCTAGGGAACACGTGAATAGTGCTCCCCAAGGAGCATTT
1 GTGCTCCCTAAGGAACAAGCGAATAGTGCTCCACAAGGAGCATTT
*
14390637 GTGCTCCCTAAGGAACAAGCGAATGGTGCTCCACAAGGAGCA
1 GTGCTCCCTAAGGAACAAGCGAATAGTGCTCCACAAGGAGCA
14390679 CCACCTGAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (45 bp):
GTGCTCCCTAAGGAACAAGCGAATAGTGCTCCACAAGGAGCATTT
Found at i:14391462 original size:18 final size:20
Alignment explanation
Indices: 14391431--14391469 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
14391421 TTTTATATTA
14391431 ATATGTTAATATTTTAAAAT
1 ATATGTTAATATTTTAAAAT
14391451 ATAT-TTAA-ATTTTAAAAT
1 ATATGTTAATATTTTAAAAT
14391469 A
1 A
14391470 AAATAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 4 0.21
20 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATATGTTAATATTTTAAAAT
Found at i:14394880 original size:22 final size:22
Alignment explanation
Indices: 14394848--14394918 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
14394838 ATGTATTTCG
*
14394848 GCTACAACCAAAATGGATTCTC
1 GCTATAACCAAAATGGATTCTC
* * *
14394870 GCTATAGCCAAAATAGA-TCTT
1 GCTATAACCAAAATGGATTCTC
* **
14394891 GTTGCAACCAAAATGGATTCTC
1 GCTATAACCAAAATGGATTCTC
14394913 GCTATA
1 GCTATA
14394919 CTGAGAAAGT
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (22 bp):
GCTATAACCAAAATGGATTCTC
Found at i:14401613 original size:2 final size:2
Alignment explanation
Indices: 14401600--14401652 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
14401590 ACTACTGCAT
*
14401600 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14401642 TA TA TA TA TA T
1 TA TA TA TA TA T
14401653 GTTGTGCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14405865 original size:111 final size:112
Alignment explanation
Indices: 14405683--14405920 Score: 252
Period size: 111 Copynumber: 2.1 Consensus size: 112
14405673 TACATTCTTC
* * * * ** *
14405683 CATGCATCGATACATGTAAGAACAAGTATCCATAGATCTTCAAATCTATAGATACAATCTGTCCA
1 CATGTATCGATACATGCAAGAACAAGAATCAATAGATCACCAAATCTATAGATACAATCTATCCA
** *
14405748 TTAGCC-AAAAT-TAAAATCCTATGAA-AAATGTATCAATACATAGGCA
66 AAAGCCAAAAATAAAAAAT-CTAT-AATAAATGTATCAATACATAGGCA
*
14405794 CATGTATCGATACATGCAAGAACATA-AATCAATAGATCACCAAATCTATAGATAC-ATTTCATC
1 CATGTATCGATACATGCAAGAACA-AGAATCAATAGATCACCAAATCTATAGATACAATCT-ATC
* * ** *
14405857 TAAAAGCCAAAAATAAAAAATCTATAATGAATGTATTGATACATGGGCA
64 CAAAAGCCAAAAATAAAAAATCTATAATAAATGTATCAATACATAGGCA
*
14405906 CATTTATCGATACAT
1 CATGTATCGATACAT
14405921 CTTGCATTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
110 3 0.03
111 56 0.53
112 41 0.39
113 5 0.05
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (112 bp):
CATGTATCGATACATGCAAGAACAAGAATCAATAGATCACCAAATCTATAGATACAATCTATCCA
AAAGCCAAAAATAAAAAATCTATAATAAATGTATCAATACATAGGCA
Found at i:14410908 original size:19 final size:20
Alignment explanation
Indices: 14410881--14410926 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
14410871 AGGAGACAAG
*
14410881 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
14410900 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
14410919 ATAATATT
1 ATAATATT
14410927 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:14414632 original size:60 final size:61
Alignment explanation
Indices: 14414511--14414643 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 61
14414501 TCGATAAAAA
* * * **
14414511 TTCAACAAAATGCTTATTGCCTCAAAAGTGTTGATACATTAACAAATGTATTGAGACATTT
1 TTCAACAAAATGCTTATTGCCTCAAAAGTATCGATAAATTAACAAATGTATCAAGACATTT
* * *
14414572 TT-AACAAAATGCTCT-TTGCTTCAAAAGTATCGATAAATTAACAAATGTATCAATATATTT
1 TTCAACAAAATGCT-TATTGCCTCAAAAGTATCGATAAATTAACAAATGTATCAAGACATTT
*
14414632 TTCAACAGAATG
1 TTCAACAAAATG
14414644 GTCAAACCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
60 50 0.82
61 11 0.18
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (61 bp):
TTCAACAAAATGCTTATTGCCTCAAAAGTATCGATAAATTAACAAATGTATCAAGACATTT
Found at i:14417414 original size:24 final size:26
Alignment explanation
Indices: 14417357--14417414 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
14417347 TATATATATT
*
14417357 ATATAAAATATATTTACAAGCTTAAA
1 ATATAAAATATATCTACAAGCTTAAA
* *
14417383 ATACAAAATA-ATCTACAAG-TTCAA
1 ATATAAAATATATCTACAAGCTTAAA
*
14417407 ATGTAAAA
1 ATATAAAA
14417415 CAGACTTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 10 0.37
25 8 0.30
26 9 0.33
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.29
Consensus pattern (26 bp):
ATATAAAATATATCTACAAGCTTAAA
Found at i:14418731 original size:28 final size:28
Alignment explanation
Indices: 14418698--14418751 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
14418688 TGTTACAAAC
14418698 AAATAAATTACACCAAATATAAATAAGT
1 AAATAAATTACACCAAATATAAATAAGT
* * *
14418726 AAATAACTTACATCAAATGTAAATAA
1 AAATAAATTACACCAAATATAAATAA
14418752 AGTTACAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.26
Consensus pattern (28 bp):
AAATAAATTACACCAAATATAAATAAGT
Found at i:14419063 original size:22 final size:23
Alignment explanation
Indices: 14419035--14419106 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
14419025 ATATTATTGG
*
14419035 TAACTAAATTATTAATTTTATA-
1 TAACTAAATTATTAATTTTAAAT
*
14419057 TAACTAAATATATAAAATTATTAAAT
1 TAACTAAAT-TAT-TAATT-TTAAAT
*
14419083 TAATTAAAATTATTAA-TTTAAAT
1 TAACT-AAATTATTAATTTTAAAT
14419106 T
1 T
14419107 TTTTTTAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
22 9 0.22
23 10 0.24
24 5 0.12
25 6 0.15
26 7 0.17
27 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (23 bp):
TAACTAAATTATTAATTTTAAAT
Found at i:14419092 original size:18 final size:18
Alignment explanation
Indices: 14419069--14419103 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14419059 ACTAAATATA
14419069 TAAAATTATTAAATTAAT
1 TAAAATTATTAAATTAAT
*
14419087 TAAAATTATTAATTTAA
1 TAAAATTATTAAATTAA
14419104 ATTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAATTATTAAATTAAT
Found at i:14422605 original size:21 final size:21
Alignment explanation
Indices: 14422575--14422617 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14422565 CGTATCGAGA
* *
14422575 TAAAACAATAAAAAATACTTT
1 TAAAAAAATAAAAAATAATTT
*
14422596 TAAAAAAATAATAAATAATTT
1 TAAAAAAATAAAAAATAATTT
14422617 T
1 T
14422618 TTAAATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAAAATAAAAAATAATTT
Found at i:14426727 original size:25 final size:25
Alignment explanation
Indices: 14426693--14426754 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
14426683 TAGTGTTCAA
14426693 CAAATTTGTTCAAATGACAATCTAG
1 CAAATTTGTTCAAATGACAATCTAG
14426718 CAAATTTGTTCAAATGACAATCTAG
1 CAAATTTGTTCAAATGACAATCTAG
14426743 CAAATTTGTTCA
1 CAAATTTGTTCA
14426755 CCAAAGCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (25 bp):
CAAATTTGTTCAAATGACAATCTAG
Found at i:14427451 original size:63 final size:64
Alignment explanation
Indices: 14427352--14427472 Score: 217
Period size: 63 Copynumber: 1.9 Consensus size: 64
14427342 TTTATATGAG
*
14427352 TTTTAATAATGATATTCAGTATCATAGTTTCACATGCACTTAAAA-AGAAAAAAAAATAATATC
1 TTTTAATAATGATATTCAATATCATAGTTTCACATGCACTTAAAAGAGAAAAAAAAATAATATC
14427415 TTTTAATAATGATATTCAATATCATAGTTTCACATGCACTTAAAAGTAGAAAAAAAAA
1 TTTTAATAATGATATTCAATATCATAGTTTCACATGCACTTAAAAG-AGAAAAAAAAA
14427473 AAGGCATCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
63 44 0.80
65 11 0.20
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (64 bp):
TTTTAATAATGATATTCAATATCATAGTTTCACATGCACTTAAAAGAGAAAAAAAAATAATATC
Found at i:14428460 original size:19 final size:19
Alignment explanation
Indices: 14428433--14428469 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14428423 GCCTCAAACT
14428433 AGATCAAATAGAGAATTTA
1 AGATCAAATAGAGAATTTA
* *
14428452 AGATGAAATTGAGAATTT
1 AGATCAAATAGAGAATTT
14428470 TAAATTCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (19 bp):
AGATCAAATAGAGAATTTA
Found at i:14438480 original size:20 final size:22
Alignment explanation
Indices: 14438455--14438512 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
14438445 TTAATATAGT
14438455 AAATAAAAAATATTT-TTTT-A
1 AAATAAAAAATATTTATTTTAA
14438475 AAAT--AAAATATTTATTTTAA
1 AAATAAAAAATATTTATTTTAA
*
14438495 AAATTAATAAATATTTAT
1 AAA-TAAAAAATATTTAT
14438513 GTAATTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 9 0.28
19 4 0.12
20 8 0.25
21 1 0.03
23 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAAAAAATATTTATTTTAA
Found at i:14438484 original size:18 final size:19
Alignment explanation
Indices: 14438461--14438496 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
14438451 TAGTAAATAA
14438461 AAAATATTT-TTTTAAAAT
1 AAAATATTTATTTTAAAAT
14438479 AAAATATTTATTTTAAAA
1 AAAATATTTATTTTAAAA
14438497 ATTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATATTTATTTTAAAAT
Found at i:14446269 original size:6 final size:6
Alignment explanation
Indices: 14446258--14446285 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14446248 AACTCCAGCA
14446258 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
14446286 TAAAGAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:14449065 original size:21 final size:21
Alignment explanation
Indices: 14449015--14449058 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14449005 TTAAAACATG
14449015 TTCAAATA-TCATTCAAGAAAT
1 TTCAAA-ACTCATTCAAGAAAT
*
14449036 TTCAAAACTCATTCAAGTAAT
1 TTCAAAACTCATTCAAGAAAT
14449057 TT
1 TT
14449059 TGAAACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TTCAAAACTCATTCAAGAAAT
Found at i:14449129 original size:22 final size:23
Alignment explanation
Indices: 14449104--14449150 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
14449094 AAAATTATTT
* *
14449104 AAAAAAGTTTAAAAACT-ATTCA
1 AAAAAAATTGAAAAACTCATTCA
14449126 AAAAAAATTGAAAAACTCATTCA
1 AAAAAAATTGAAAAACTCATTCA
14449149 AA
1 AA
14449151 CCACTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.23
Consensus pattern (23 bp):
AAAAAAATTGAAAAACTCATTCA
Found at i:14449166 original size:21 final size:21
Alignment explanation
Indices: 14449136--14449191 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
14449126 AAAAAAATTG
*
14449136 AAAAACTCATTCAAACCACTTC
1 AAAAA-TCATTCAAACAACTTC
* *
14449158 AAAAATCATTCAAACAAGTTT
1 AAAAATCATTCAAACAACTTC
*
14449179 AAAGATCATTCAA
1 AAAAATCATTCAA
14449192 GTAGTTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAATCATTCAAACAACTTC
Found at i:14449310 original size:21 final size:21
Alignment explanation
Indices: 14449286--14449351 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
14449276 TCAAAAACAT
* *
14449286 ATTCAAACAACTTCAAAAATC
1 ATTCAAACAAGTTCAAAGATC
*
14449307 ATTCAAACAAGTTCAAGGATC
1 ATTCAAACAAGTTCAAAGATC
*
14449328 ACTCAAACAAGTTCAAAGATC
1 ATTCAAACAAGTTCAAAGATC
14449349 ATT
1 ATT
14449352 AAAGCAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (21 bp):
ATTCAAACAAGTTCAAAGATC
Found at i:14449870 original size:21 final size:21
Alignment explanation
Indices: 14449846--14449887 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14449836 CAATAAAATA
14449846 TGTTGTCTTAAT-TAAGACAAG
1 TGTTGTCTTAATGT-AGACAAG
14449867 TGTTGTCTTAATGTAGACAAG
1 TGTTGTCTTAATGTAGACAAG
14449888 GTACATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
TGTTGTCTTAATGTAGACAAG
Found at i:14449906 original size:49 final size:51
Alignment explanation
Indices: 14449800--14449952 Score: 163
Period size: 50 Copynumber: 3.1 Consensus size: 51
14449790 TTTATATGTT
* * * * * *
14449800 TTGTCTTAATTAAAGACAAGAGTTAT-TTTATTTAAACAA-TA-AAATATG
1 TTGTATTAATTAAAGACAAGAGTTGTCTTAATGTAAACAAGGATACATATG
* * *
14449848 TTGTCTTAATT-AAGACAAGTGTTGTCTTAATGTAGACAAGG-TACATATG
1 TTGTATTAATTAAAGACAAGAGTTGTCTTAATGTAAACAAGGATACATATG
* * *
14449897 TTGTATTAATTAAAGACAAGAGTTGTCTTAATTTAAACAAGGATATATGTG
1 TTGTATTAATTAAAGACAAGAGTTGTCTTAATGTAAACAAGGATACATATG
14449948 TTGTA
1 TTGTA
14449953 ATTTTTAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
47 12 0.14
48 21 0.24
49 16 0.18
50 27 0.31
51 11 0.13
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (51 bp):
TTGTATTAATTAAAGACAAGAGTTGTCTTAATGTAAACAAGGATACATATG
Found at i:14451951 original size:22 final size:22
Alignment explanation
Indices: 14451926--14451971 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14451916 ATATTGAGTT
14451926 ATTTGAGCTTAATT-TGATAATA
1 ATTT-AGCTTAATTCTGATAATA
* *
14451948 ATTTAGCTTAGTTCTTATAATA
1 ATTTAGCTTAATTCTGATAATA
14451970 AT
1 AT
14451972 GCATAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.48
Consensus pattern (22 bp):
ATTTAGCTTAATTCTGATAATA
Found at i:14458095 original size:3 final size:3
Alignment explanation
Indices: 14458087--14458124 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
14458077 TTATCTCTAA
* *
14458087 TAG TAG TAG TAA TAG TAG TAG TAG TAG TAG TAG GAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
14458125 ATTATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
TAG
Found at i:14477174 original size:2 final size:2
Alignment explanation
Indices: 14477162--14477262 Score: 98
Period size: 2 Copynumber: 50.0 Consensus size: 2
14477152 TATGAACATC
* * *
14477162 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
14477204 CA CA -A TCA TCA TA TGA -A CA TC TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A T-A TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
14477245 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
14477263 CTCATATTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
1 2 0.02
2 78 0.91
3 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (2 bp):
TA
Found at i:14477235 original size:63 final size:62
Alignment explanation
Indices: 14477136--14477260 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 62
14477126 CCATCACAAT
14477136 AGATACACAATCATCATATGAACATCTATACATATATATATATATATATATATATATATATA
1 AGATACACAATCATCATATGAACATCTATACATATATATATATATATATATATATATATATA
*
14477198 NAGATACACAATCATCATATGAACATCTATATATATATATATATATATATATATATATATATA
1 -AGATACACAATCATCATATGAACATCTATACATATATATATATATATATATATATATATATA
14477261 TACTCATATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.38
Consensus pattern (62 bp):
AGATACACAATCATCATATGAACATCTATACATATATATATATATATATATATATATATATA
Found at i:14480463 original size:21 final size:21
Alignment explanation
Indices: 14480433--14480500 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
14480423 GGCTATGTTC
*
14480433 ATGCAATTCATGACAAAAACTG
1 ATGC-ATTCATGACAAAGACTG
* *
14480455 ATGCATTCATAACAAAGATTG
1 ATGCATTCATGACAAAGACTG
* * *
14480476 ATACATTTATGATAAAGACTG
1 ATGCATTCATGACAAAGACTG
14480497 ATGC
1 ATGC
14480501 CTCCATTCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 33 0.89
22 4 0.11
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
ATGCATTCATGACAAAGACTG
Done.