Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 107 of 213
Found at i:30362129 original size:41 final size:41
Alignment explanation
Indices: 30362049--30362166 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
30362039 TTTCTACCTT
30362049 TCAGATCTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-AAAAAAGCGCCGCTAATGC
30362091 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* ** *
30362132 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
30362167 AAAAACATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 50 0.69
42 22 0.31
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
Found at i:30362575 original size:14 final size:15
Alignment explanation
Indices: 30362547--30362577 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
30362537 AAGGTTTATA
30362547 GATTATGGAATTAGG
1 GATTATGGAATTAGG
30362562 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
30362576 GA
1 GA
30362578 CTCTGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:30362616 original size:14 final size:14
Alignment explanation
Indices: 30362599--30362650 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
30362589 GGGTTGTGAT
* *
30362599 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
30362613 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
30362627 TTAAGTGTTAGAGG
1 TTAAGGGTTAGGGG
*
30362641 TTAAGAGTTA
1 TTAAGGGTTA
30362651 AGGATTTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:30362620 original size:7 final size:7
Alignment explanation
Indices: 30362599--30362663 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
30362589 GGGTTGTGAT
*
30362599 TTAAGGT
1 TTAAGGG
*
30362606 TTATGGG
1 TTAAGGG
30362613 TTAAGGG
1 TTAAGGG
*
30362620 TTAGGGG
1 TTAAGGG
*
30362627 TTAAGTG
1 TTAAGGG
30362634 TT-AGAGG
1 TTAAG-GG
*
30362641 TTAAGAG
1 TTAAGGG
*
30362648 TTAAGGA
1 TTAAGGG
*
30362655 TTTAGGG
1 TTAAGGG
30362662 TT
1 TT
30362664 TATAGATTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
6 2 0.05
7 40 0.91
8 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (7 bp):
TTAAGGG
Found at i:30363280 original size:18 final size:17
Alignment explanation
Indices: 30363247--30363280 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30363237 TATTAGATTT
*
30363247 AAAAAAATTAATAAATA
1 AAAAAAATTAACAAATA
30363264 AAAAAAATGTAACAAAT
1 AAAAAAAT-TAACAAAT
30363281 TGATACGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAAAATTAACAAATA
Found at i:30363819 original size:76 final size:76
Alignment explanation
Indices: 30363739--30363905 Score: 271
Period size: 76 Copynumber: 2.2 Consensus size: 76
30363729 CGTTTTAAAG
* * **
30363739 AAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAATATTTAGTG
1 AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACATTTAGCA
*
30363804 GCGTTTTTATA
66 GCGTTTTCATA
*
30363815 AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAAAACATTTAGCA
1 AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACATTTAGCA
30363880 GCGTTTTCATA
66 GCGTTTTCATA
*
30363891 AAAAACGCCGCAAAA
1 AAAAACGCCACAAAA
30363906 GGTAAGCAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 84 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (76 bp):
AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACATTTAGCA
GCGTTTTCATA
Found at i:30363964 original size:115 final size:116
Alignment explanation
Indices: 30363803--30364135 Score: 589
Period size: 115 Copynumber: 2.9 Consensus size: 116
30363793 AATATTTAGT
30363803 GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCA
1 GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCA
* *
30363868 AAACATTTAGCAGCGTTTTCATAAAAAACGCCGCAAAAGGTAAGCAATAGC
66 AAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAATAGC
30363919 GGCGTTTTTATAAAAAACGCCAC-AAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCA
1 GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCA
*
30363983 AAATATTTAGCGGCGTTTTTAT-AAAAACGCCGCAAAAGGTAAGCAATAGC
66 AAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAATAGC
* *
30364033 GGCGTTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCA
1 GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCA
* *
30364098 AAACATTTAGCGGCGTTTTTATAAAAAAAGCCACAAAA
66 AAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAA
30364136 AATAATTTTA
Statistics
Matches: 207, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
114 50 0.24
115 121 0.58
116 36 0.17
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (116 bp):
GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCA
AAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAATAGC
Found at i:30364110 original size:76 final size:76
Alignment explanation
Indices: 30364029--30364210 Score: 321
Period size: 76 Copynumber: 2.4 Consensus size: 76
30364019 AGGTAAGCAA
*
30364029 TAGCGGCGTTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
30364094 AGCAAAACATT
66 AGCAAAACATT
*
30364105 TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
*
30364170 AGCAAAATATT
66 AGCAAAACATT
*
30364181 TAGCGGCGTTTTTAT-AAAAACGCCACAAAA
1 TAGCGGCGTTTTTATAAAAAAAGCCACAAAA
30364211 GGTAAGCAGT
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 14 0.14
76 88 0.86
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (76 bp):
TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
AGCAAAACATT
Found at i:30364139 original size:191 final size:191
Alignment explanation
Indices: 30363915--30364399 Score: 873
Period size: 191 Copynumber: 2.5 Consensus size: 191
30363905 AGGTAAGCAA
30363915 TAGCGGCGTTTTTATAAAAAACGCCAC-AAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
*
30363979 AGCAAAATATTTAGCGGCGTTTTTATAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTAT
66 AGCAAAATATTTAGCGGCGTTTTTATAAAAACGCCACAAAAGGTAAGCAATAGCGGCGTTTTTAT
* *
30364044 AAAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACATT
131 AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATT
*
30364105 TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
*
30364170 AGCAAAATATTTAGCGGCGTTTTTATAAAAACGCCACAAAAGGTAAGCAGTAGCGGCGTTTTTAT
66 AGCAAAATATTTAGCGGCGTTTTTATAAAAACGCCACAAAAGGTAAGCAATAGCGGCGTTTTTAT
*
30364235 AAAAAACGCTACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATT
131 AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATT
* *
30364296 TAGCGGCATTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAATCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
*
30364361 AGCAAAATATTTAGCTGCGTTTTTATAAAAAACGCCACA
66 AGCAAAATATTTAGCGGCGTTTTTAT-AAAAACGCCACA
30364400 TAAAATAATT
Statistics
Matches: 283, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
190 26 0.09
191 245 0.87
192 12 0.04
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (191 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
AGCAAAATATTTAGCGGCGTTTTTATAAAAACGCCACAAAAGGTAAGCAATAGCGGCGTTTTTAT
AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATT
Found at i:30364224 original size:115 final size:116
Alignment explanation
Indices: 30364105--30364326 Score: 383
Period size: 115 Copynumber: 1.9 Consensus size: 116
30364095 GCAAAACATT
*
30364105 TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
* * *
30364170 AGCAAAATATTTAGCGGCGTTTTTAT-AAAAACGCCACAAAAGGTAAGCAG
66 AACAAAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAAGGTAAGCAG
* *
30364220 TAGCGGCGTTTTTATAAAAAACGCTACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
30364285 AACAAAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAA
66 AACAAAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAA
30364327 AATAATTTTA
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 85 0.85
116 15 0.15
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.30
Consensus pattern (116 bp):
TAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
AACAAAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAAGGTAAGCAG
Found at i:30364281 original size:306 final size:307
Alignment explanation
Indices: 30363725--30364326 Score: 1030
Period size: 306 Copynumber: 2.0 Consensus size: 307
30363715 ATAATTTTTT
30363725 GCGGCGTTTTAAAGAAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAG
1 GCGGCGTTTTAAAGAAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAG
* * *
30363790 CAAAATATTTAGTGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTC
66 CAAAACATTTAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGTC
*
30363855 ATTTTATATAGCAAAACATTTAGCAGCGTTTTCATAAAAAACGCCGCAAAAGGTAAGCAATAGCG
131 ATTTTATATAGCAAAACATTTAGCAGCGTTTTCATAAAAAACGCCACAAAAGGTAAGCAATAGCG
* *
30363920 GCGTTTTTATAAAAAACGCCACAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAAA
196 GCGTTTTTATAAAAAACGCCACAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAA
* * *
30363985 ATATTTAGCGGCGTTTTTAT-AAAAACGCCGCAAAAGGTAAGCAATA
261 ACATTTAGCGGCATTTTTATAAAAAACGCCACAAAAGGTAAGCAATA
*
30364031 GCGGCGTTTTTATA-AAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATA
1 GCGGCG-TTTTAAAGAAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATA
30364095 GCAAAACATTTAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGT
65 GCAAAACATTTAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGT
* * * *
30364160 CATTTTATATAGCAAAATATTTAGCGGCGTTTTTAT-AAAAACGCCACAAAAGGTAAGCAGTAGC
130 CATTTTATATAGCAAAACATTTAGCAGCGTTTTCATAAAAAACGCCACAAAAGGTAAGCAATAGC
*
30364224 GGCGTTTTTATAAAAAACGCTACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACA
195 GGCGTTTTTATAAAAAACGCCAC-AAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACA
30364289 AAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAA
259 AAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAA
30364327 AATAATTTTA
Statistics
Matches: 278, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
305 48 0.17
306 210 0.76
307 20 0.07
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (307 bp):
GCGGCGTTTTAAAGAAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAG
CAAAACATTTAGCGGCGTTTTTATAAAAAAAGCCACAAAAAATAATTTTACTTTAAAAAATAGTC
ATTTTATATAGCAAAACATTTAGCAGCGTTTTCATAAAAAACGCCACAAAAGGTAAGCAATAGCG
GCGTTTTTATAAAAAACGCCACAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAA
ACATTTAGCGGCATTTTTATAAAAAACGCCACAAAAGGTAAGCAATA
Found at i:30364308 original size:76 final size:76
Alignment explanation
Indices: 30364220--30364489 Score: 441
Period size: 76 Copynumber: 3.5 Consensus size: 76
30364210 AGGTAAGCAG
* *
30364220 TAGCGGCGTTTTTATAAAAAACGCTACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
30364285 AACAAAACATT
66 AACAAAACATT
* *
30364296 TAGCGGCATTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAATCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
* *
30364361 AGCAAAATATT
66 AACAAAACATT
* * *
30364372 TAGCTGCGTTTTTATAAAAAACGCCACATAAAATAATTTTACTTTAAAAAATAACTATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
30364437 AACAAAACATT
66 AACAAAACATT
*
30364448 TAGCAGCGTTTTTATAAAAAACGCCACAAAAAAATAATTTTA
1 TAGCGGCGTTTTTATAAAAAACGCCAC-AAAAAATAATTTTA
30364490 TAAAAAAAAT
Statistics
Matches: 178, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
76 165 0.93
77 13 0.07
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (76 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
AACAAAACATT
Found at i:30364556 original size:22 final size:19
Alignment explanation
Indices: 30364523--30364570 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
30364513 TAAAATCCCC
30364523 TTCCCCCAAAATCCCCAACT
1 TTCCCCCAAAATCCCCAA-T
*
30364543 TTCCCTCCTAAAATCCCTAAT
1 TTCCC-CC-AAAATCCCCAAT
30364564 TTCCCCC
1 TTCCCCC
30364571 CTTGAAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.25, C:0.48, G:0.00, T:0.27
Consensus pattern (19 bp):
TTCCCCCAAAATCCCCAAT
Found at i:30369028 original size:43 final size:42
Alignment explanation
Indices: 30368814--30369060 Score: 314
Period size: 43 Copynumber: 5.8 Consensus size: 42
30368804 GAATTGTACT
* ** * *
30368814 TTTAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
30368857 TTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
* *
30368900 TTCAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
* *
30368943 TTTAGCGGCATTTGTGAGAAAAGCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGC-GCTAAAGGTCATGGTC
* * * *
30368986 TTTAGCGGCGTTTTTGGGAAAAGCACTGCTAAAAGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGC-GCTAAAGGTCATGGTC
* *
30369029 TTTAGTGGCATTTGTGGGAAAAGCGCGCTAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCGCTAAA
30369061 ATTAGCGACG
Statistics
Matches: 180, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
42 7 0.04
43 173 0.96
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCGCTAAAGGTCATGGTC
Found at i:30369029 original size:129 final size:128
Alignment explanation
Indices: 30368814--30369060 Score: 352
Period size: 129 Copynumber: 1.9 Consensus size: 128
30368804 GAATTGTACT
* * *
30368814 TTTAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCAGCATTTGTGAGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAA
* * *
30368879 GCGACGCTAAAGGTCATGGTCTTCAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
66 GCGACGCTAAAAGTCATGGTCTTCAGCGGCATTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
* * * *
30368943 TTTAGCGGCATTTGTGAGAAAAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTGGGAAAA
1 TTTAGCAGCATTTGTGAGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAA
* * *
30369008 GC-ACTGCTAAAAGTCTTGGTCTTTAGTGGCATTTGTGGGAAAAGCGCGCTAAA
66 GCGAC-GCTAAAAGTCATGGTCTTCAGCGGCATTTGTGGGAAAAGCGCGCTAAA
30369061 ATTAGCGACG
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
128 9 0.09
129 95 0.91
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (128 bp):
TTTAGCAGCATTTGTGAGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAA
GCGACGCTAAAAGTCATGGTCTTCAGCGGCATTTGTGGGAAAAGCGCGCTAAAGGTCATGGTC
Found at i:30376823 original size:17 final size:16
Alignment explanation
Indices: 30376785--30376834 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
30376775 GACAATGTGT
* *
30376785 GAGCTATGTCTAAATG
1 GAGCTATGTTTATATG
30376801 GTAGCTATGTTTATATG
1 G-AGCTATGTTTATATG
*
30376818 CGAGCTGTGTTTATATG
1 -GAGCTATGTTTATATG
30376835 TTAATTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 1 0.03
17 27 0.93
18 1 0.03
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (16 bp):
GAGCTATGTTTATATG
Found at i:30376860 original size:17 final size:17
Alignment explanation
Indices: 30376808--30376861 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
30376798 ATGGTAGCTA
**
30376808 TGTTTATATGCGAGCTG
1 TGTTTATATGCGAAATG
** *
30376825 TGTTTATATGTTAATTG
1 TGTTTATATGCGAAATG
30376842 TGTTTATATGCGAAATG
1 TGTTTATATGCGAAATG
30376859 TGT
1 TGT
30376862 GTGAATTATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.48
Consensus pattern (17 bp):
TGTTTATATGCGAAATG
Found at i:30378022 original size:33 final size:33
Alignment explanation
Indices: 30377975--30378040 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
30377965 ATTTACCTAT
*
30377975 ATCAGCTCATTGATCTTCATTCTTTGACTTGAC
1 ATCAGCTCATTGATCTTCATTATTTGACTTGAC
*
30378008 ATCATCTCATTGATCTTCATTATTTGACTTGAC
1 ATCAGCTCATTGATCTTCATTATTTGACTTGAC
30378041 TTTTATGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (33 bp):
ATCAGCTCATTGATCTTCATTATTTGACTTGAC
Found at i:30378366 original size:27 final size:27
Alignment explanation
Indices: 30378347--30378445 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
30378337 TTAGTGTTCT
*
30378347 CCATACGTACTATTCCTTTAGAGTTTG
1 CCATATGTACTATTCCTTTAGAGTTTG
* * *
30378374 CCATGTGTATTATT-CTTTCAGTGTTTG
1 CCATATGTACTATTCCTTT-AGAGTTTG
* * *
30378401 TCATA-GTACTATTCATTTAGAGTTCG
1 CCATATGTACTATTCCTTTAGAGTTTG
*
30378427 CCATATTTACTATTCCTTT
1 CCATATGTACTATTCCTTT
30378446 TCTGTTTACC
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 21 0.38
27 35 0.62
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (27 bp):
CCATATGTACTATTCCTTTAGAGTTTG
Found at i:30378520 original size:26 final size:26
Alignment explanation
Indices: 30378491--30378577 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
30378481 CCACAAATGT
*
30378491 CATTCTTCGAGGCTTGTCATACTTAC
1 CATTCTTCAAGGCTTGTCATACTTAC
* * *
30378517 CATTCTTCAAAGCTAGTCATGAC-TAT
1 CATTCTTCAAGGCTTGTCAT-ACTTAC
* * *
30378543 CATTCTTCTAGGGTTTCTCATACTTAC
1 CATTCTTC-AAGGCTTGTCATACTTAC
30378570 CATTCTTC
1 CATTCTTC
30378578 TCTGTCAGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
26 29 0.60
27 19 0.40
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.40
Consensus pattern (26 bp):
CATTCTTCAAGGCTTGTCATACTTAC
Found at i:30383799 original size:33 final size:33
Alignment explanation
Indices: 30383762--30383828 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
30383752 TTTTGTCGAG
30383762 GTAAGTTCGTATAAGGATTTAAATTCATTAATT
1 GTAAGTTCGTATAAGGATTTAAATTCATTAATT
*
30383795 GTAAGTTTGTATAAGGATTTAAATTCATTAATT
1 GTAAGTTCGTATAAGGATTTAAATTCATTAATT
30383828 G
1 G
30383829 ATGTTTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.43
Consensus pattern (33 bp):
GTAAGTTCGTATAAGGATTTAAATTCATTAATT
Found at i:30385347 original size:53 final size:53
Alignment explanation
Indices: 30385246--30385347 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
30385236 ATTTTGGTGC
* * * *
30385246 CCACATAGTCATAGAGAGTCACATGATCTGGCGACATGGCTGTTTGACCTGAA
1 CCACATAGTCACAGAGAGTCACATGACCTGGCAACATGGCTGTGTGACCTGAA
* * *
30385299 CCACATGGTCACAGAGAGTTACATGGCCTGGCAACATGG-TCGTGTGACC
1 CCACATAGTCACAGAGAGTCACATGACCTGGCAACATGGCT-GTGTGACC
30385348 CTATTTTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.02
53 40 0.98
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (53 bp):
CCACATAGTCACAGAGAGTCACATGACCTGGCAACATGGCTGTGTGACCTGAA
Found at i:30385480 original size:21 final size:22
Alignment explanation
Indices: 30385437--30385485 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
30385427 GTGTGACCCC
*
30385437 TGTTTCCAAAATTTTTTAGTTT
1 TGTTTCCAAAATTTTCTAGTTT
*
30385459 TTTTTCCAAAATTTTCTA-TTT
1 TGTTTCCAAAATTTTCTAGTTT
30385480 TGTTTC
1 TGTTTC
30385486 AGAATGATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.20, C:0.12, G:0.06, T:0.61
Consensus pattern (22 bp):
TGTTTCCAAAATTTTCTAGTTT
Found at i:30391004 original size:90 final size:90
Alignment explanation
Indices: 30390851--30391030 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
30390841 TAGACTGGCT
*
30390851 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGCGAGACTAAAGTTCTTGTCC
1 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
30390916 CGTGACAACACCCTATGATTAGAAC
66 CGTGACAACACCCTATGATTAGAAC
30390941 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
1 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
30391006 CGTGACAACACCCTATGATTAGAAC
66 CGTGACAACACCCTATGATTAGAAC
30391031 AATTGAGATT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (90 bp):
TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
CGTGACAACACCCTATGATTAGAAC
Found at i:30392025 original size:15 final size:14
Alignment explanation
Indices: 30391985--30392044 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
30391975 TGTTCTTGCG
*
30391985 TTTTTTATTTACTT
1 TTTTTTATTTATTT
* *
30391999 TCTTCTATTTTATTT
1 TTTTTTA-TTTATTT
30392014 TTTTTATATTTATATT
1 TTTTT-TATTTAT-TT
*
30392030 TTTTTTGTTTATTT
1 TTTTTTATTTATTT
30392044 T
1 T
30392045 CTACAACTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 8 0.22
15 20 0.54
16 9 0.24
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTTATTTATTT
Found at i:30392031 original size:17 final size:16
Alignment explanation
Indices: 30392004--30392035 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30391994 TACTTTCTTC
30392004 TATTTTATTTTTTTTA
1 TATTTTATTTTTTTTA
30392020 TATTTATATTTTTTTT
1 TATTT-TATTTTTTTT
30392036 GTTTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTATTTTTTTTA
Found at i:30393104 original size:42 final size:43
Alignment explanation
Indices: 30393013--30393104 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 43
30393003 ATATATTTTG
* * * *
30393013 TATATATATTCTTTATATTTTATGATTCCTATATATGTACCTA
1 TATATATACTCTTTATATTTTATGATACCTATATACGTACATA
** *
30393056 TATATATACT-TTTATATTTTATGATAGTTATATACGTATATA
1 TATATATACTCTTTATATTTTATGATACCTATATACGTACATA
*
30393098 TGTATAT
1 TATATAT
30393105 GCTTACTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.78
43 9 0.22
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.53
Consensus pattern (43 bp):
TATATATACTCTTTATATTTTATGATACCTATATACGTACATA
Found at i:30395244 original size:30 final size:30
Alignment explanation
Indices: 30395182--30395248 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
30395172 TTTCTTAAGC
* *
30395182 TTAATTTGTATCCTAATAAATCCTTTCATT
1 TTAATTTGTATCCTAATAAATCCTCTAATT
30395212 TTAATTTGTATCC-ACATAAAT-CTCTAATTT
1 TTAATTTGTATCCTA-ATAAATCCTCTAA-TT
30395242 TTAATTT
1 TTAATTT
30395249 ATACTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (30 bp):
TTAATTTGTATCCTAATAAATCCTCTAATT
Found at i:30396783 original size:64 final size:64
Alignment explanation
Indices: 30396703--30396822 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
30396693 CATTTATCTT
* * * *
30396703 TCTCTTTAAAGATGTAATTTAAGTTTTATTATAAAAAAGAAAAAGGAAAGGAAACACTTACCTC
1 TCTCCTTAAAGATGTAATATAAGCTTTATTATAAAAAAGAAAAAAGAAAGGAAACACTTACCTC
* *
30396767 TCTCCTTAAAGTTGTAATATAAGCTTTATTATTAAAAAGAAAAAAGAAAGGAAACA
1 TCTCCTTAAAGATGTAATATAAGCTTTATTATAAAAAAGAAAAAAGAAAGGAAACA
30396823 GAGGCCGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (64 bp):
TCTCCTTAAAGATGTAATATAAGCTTTATTATAAAAAAGAAAAAAGAAAGGAAACACTTACCTC
Found at i:30397137 original size:60 final size:62
Alignment explanation
Indices: 30397048--30397180 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 62
30397038 ATTTTTTTTG
* * * * *
30397048 AAAATTTTAATTAAGCTCTCTAAAA-TTTTT-GAAAATTCTGATTGATCTCTTAAAAAATTA
1 AAAATTTTAATTAAGCTCCCTAAAATTTTTTAAAAAATTCTCATTAAACTCTTAAAAAATTA
* **
30397108 AAAATTTTAATT-AGAC-CCCTAAAGCTTTTTTAAAAAATTCTCATTAAACTCTTAAAATTTTA
1 AAAATTTTAATTAAG-CTCCCTAAA-ATTTTTTAAAAAATTCTCATTAAACTCTTAAAAAATTA
30397170 AAAATTTTAAT
1 AAAATTTTAAT
30397181 AAATCCGTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 8 0.13
60 13 0.21
61 5 0.08
62 35 0.57
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (62 bp):
AAAATTTTAATTAAGCTCCCTAAAATTTTTTAAAAAATTCTCATTAAACTCTTAAAAAATTA
Found at i:30415938 original size:17 final size:17
Alignment explanation
Indices: 30415916--30415958 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
30415906 ATTATATGAC
**
30415916 TTATTTTTAGTTTTATT
1 TTATTTTTAGTCCTATT
*
30415933 TTATTTTAAGTCCTATT
1 TTATTTTTAGTCCTATT
*
30415950 ATATTTTTA
1 TTATTTTTA
30415959 ATAGAGTATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (17 bp):
TTATTTTTAGTCCTATT
Found at i:30416428 original size:9 final size:9
Alignment explanation
Indices: 30416414--30416472 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
30416404 TTTGGTTAAA
30416414 AATTAACCG
1 AATTAACCG
*
30416423 AATTAACTG
1 AATTAACCG
30416432 AATT-ACCAG
1 AATTAACC-G
*
30416441 AATTAACCA
1 AATTAACCG
30416450 AATTAACCG
1 AATTAACCG
*
30416459 AATTACCCG
1 AATTAACCG
30416468 AATTA
1 AATTA
30416473 TATGTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 38 0.88
10 3 0.07
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:30416444 original size:27 final size:27
Alignment explanation
Indices: 30416414--30416472 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
30416404 TTTGGTTAAA
* *
30416414 AATTAACCGAATTAACTGAATTACCAG
1 AATTAACCAAATTAACCGAATTACCAG
*
30416441 AATTAACCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTACCAG
30416468 AATTA
1 AATTA
30416473 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.25
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTACCAG
Found at i:30417146 original size:16 final size:16
Alignment explanation
Indices: 30417124--30417163 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
30417114 CGTTTGGTTT
30417124 ACTGTAATGGAATA-A
1 ACTGTAATGGAATAGA
30417139 AGCTGTAATGGAATAGA
1 A-CTGTAATGGAATAGA
30417156 ACTGTAAT
1 ACTGTAAT
30417164 TAGTAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 20 0.87
17 2 0.09
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:30419397 original size:17 final size:17
Alignment explanation
Indices: 30419375--30419410 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30419365 CGATTGCATG
30419375 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
30419392 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
30419409 TT
1 TT
30419411 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:30419801 original size:32 final size:34
Alignment explanation
Indices: 30419738--30419802 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
30419728 TCTAATAATT
* *
30419738 TCACTATTATAAAACTATTTTCCTTAAAAGAAAG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAAAG
30419772 TCAC-ATTATAAAACCATTCT-CTTAAAAGAAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAAA
30419803 ATCGAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 11 0.38
33 14 0.48
34 4 0.14
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAAAG
Found at i:30420699 original size:22 final size:21
Alignment explanation
Indices: 30420672--30420763 Score: 80
Period size: 23 Copynumber: 4.1 Consensus size: 21
30420662 AAATTGTTGC
* *
30420672 ATTTGTTTTGATATTGTTCTTG
1 ATTTGTTCTGAAATTGTT-TTG
30420694 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTTTTG
*
30420715 A-TTGTCTGCTGGAAATTGTTATG
1 ATTTGT-T-CT-GAAATTGTTTTG
30420738 A-TTGTCTGCTGGAAATTGTTTTG
1 ATTTGT-T-CT-GAAATTGTTTTG
30420761 ATT
1 ATT
30420764 GTCTGCTGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.06
21 5 0.08
22 18 0.29
23 34 0.55
24 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.22, T:0.53
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTTTTG
Found at i:30420731 original size:23 final size:23
Alignment explanation
Indices: 30420703--30420778 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
30420693 GATTTGTTCT
30420703 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
30420726 GAAATTGTTATGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
30420749 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
30420772 GAAATTG
1 GAAATTG
30420779 AATTTGTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:30422006 original size:25 final size:25
Alignment explanation
Indices: 30421972--30422071 Score: 120
Period size: 25 Copynumber: 4.0 Consensus size: 25
30421962 TACATCAATA
30421972 ATTAAAATAAGGACT-TCAATATTT
1 ATTAAAATAAGGACTATCAATATTT
30421996 CATTAAAATAAGGACTAATCAATA---
1 -ATTAAAATAAGGACT-ATCAATATTT
*
30422020 ATTAAAATAAGGACT-TTAATATTTT
1 ATTAAAATAAGGACTATCAATA-TTT
30422045 ATTAAAATAAGGACTAATCAATATTT
1 ATTAAAATAAGGACT-ATCAATATTT
30422071 A
1 A
30422072 AAATGACTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
21 5 0.08
23 15 0.23
25 30 0.46
26 4 0.06
27 11 0.17
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (25 bp):
ATTAAAATAAGGACTATCAATATTT
Found at i:30422020 original size:48 final size:48
Alignment explanation
Indices: 30421965--30422096 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
30421955 AAATAATTAC
* *
30421965 ATCAATAATTAAAATAAGGACTTCAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
30422013 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
30422061 ATCAATATTTAAAAT---GACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
30422097 ATCAAGAAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
45 21 0.26
48 60 0.74
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:30425710 original size:92 final size:91
Alignment explanation
Indices: 30425553--30425761 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
30425543 TTGATTTTAG
* * * *
30425553 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
30425618 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
30425645 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
30425709 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
30425737 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30425762 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:30425724 original size:24 final size:25
Alignment explanation
Indices: 30425689--30425736 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30425679 TTATGAAATT
30425689 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
30425713 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
30425737 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:30425890 original size:66 final size:63
Alignment explanation
Indices: 30425815--30426025 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
30425805 AAATATATTT
30425815 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
30425880 G
63 G
* * * * **
30425881 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
30425935 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
30425999 AG
62 AG
*
30426001 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
30426026 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:30425915 original size:120 final size:120
Alignment explanation
Indices: 30425777--30426069 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
30425767 AATTATTTTA
* * *
30425777 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
30425839 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
30425897 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
30425962 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
30426017 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
30426070 TAAATATGAT
Statistics
Matches: 166, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
119 6 0.04
120 158 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:30425937 original size:15 final size:15
Alignment explanation
Indices: 30425902--30425953 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30425892 TTAAGAATTT
*
30425902 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30425916 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30425930 TATTTAATAATAAT-
1 TATTTAATTATAATA
30425944 TATGTTAATT
1 TAT-TTAATT
30425954 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30426052 original size:16 final size:16
Alignment explanation
Indices: 30426031--30426072 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30426021 TTATTAAATT
*
30426031 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30426047 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30426062 AT-TATGTTTAA
1 ATATAT-TTTAA
30426073 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30426057 original size:15 final size:15
Alignment explanation
Indices: 30426022--30426063 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30426012 TTAAGAATTT
*
30426022 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30426036 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30426050 TATTTAATAATAAT
1 TATTTAATTATAAT
30426064 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30426184 original size:157 final size:157
Alignment explanation
Indices: 30426006--30426322 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
30425996 ATAAGAATAT
*
30426006 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
30426071 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
30426136 TAATAATTTACCAAAACAAGTTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
30426163 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
30426228 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
30426293 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
30426320 TAA
1 TAA
30426323 GGTTATTCTA
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:30426203 original size:18 final size:17
Alignment explanation
Indices: 30426175--30426209 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30426165 ATTATTAAGA
*
30426175 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30426192 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30426210 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30428710 original size:4 final size:4
Alignment explanation
Indices: 30428694--30428743 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
30428684 GCATTTGAGA
* * * *
30428694 TCAT TCAT CCAT TCAT TCAT TCAT CCA- TCAC TCAT TCAT TCAT TTAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
30428741 TCA
1 TCA
30428744 CACAACACAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 2 0.05
4 36 0.95
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (4 bp):
TCAT
Found at i:30430344 original size:27 final size:27
Alignment explanation
Indices: 30430282--30430333 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
30430272 GAAAGTTAAT
*
30430282 AATAGCCTTTGTGGCAAACTCTGAAAG
1 AATAGCCTTTATGGCAAACTCTGAAAG
* *
30430309 AATAACCTTTATGGCTAACTCTGAA
1 AATAGCCTTTATGGCAAACTCTGAA
30430334 TGGATTGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
AATAGCCTTTATGGCAAACTCTGAAAG
Found at i:30433992 original size:21 final size:22
Alignment explanation
Indices: 30433951--30433997 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
30433941 GTGAATTAAT
* *
30433951 TTTGATTGCTCAAAATTATGTC
1 TTTGATTGCTCAAAATGATGTA
*
30433973 TTTGATT-CTGAAAATGATGTA
1 TTTGATTGCTCAAAATGATGTA
30433994 TTTG
1 TTTG
30433998 GTTTGTGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (22 bp):
TTTGATTGCTCAAAATGATGTA
Found at i:30445255 original size:12 final size:11
Alignment explanation
Indices: 30445227--30445270 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
30445217 AGATAAATGT
*
30445227 TATTTAATTAA
1 TATTTTATTAA
30445238 TATTTTATTAA
1 TATTTTATTAA
* *
30445249 TATTTTTAGTAT
1 TA-TTTTATTAA
30445261 TATTTTATTA
1 TATTTTATTA
30445271 TTTAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:30448843 original size:40 final size:40
Alignment explanation
Indices: 30448798--30449020 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
30448788 CAAGCTCAAT
* * * * *
30448798 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* * *
30448838 TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
30448878 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
30448918 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
30448958 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
30448998 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
30449021 GTATTCAAAT
Statistics
Matches: 176, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:30453985 original size:29 final size:29
Alignment explanation
Indices: 30453935--30453997 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
30453925 GTGTGCTGCC
* *
30453935 CGTGTGTGACACACGGTCGTGTGACAGCT
1 CGTGTGTGACACACGCTCGTGTGAAAGCT
*
30453964 CGTGTGTGACTCACGACT-GTGTGAAAGCT
1 CGTGTGTGACACACG-CTCGTGTGAAAGCT
*
30453993 TGTGT
1 CGTGT
30453998 CCTAGGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (29 bp):
CGTGTGTGACACACGCTCGTGTGAAAGCT
Found at i:30457299 original size:12 final size:12
Alignment explanation
Indices: 30457282--30457306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30457272 TAAGTGATTT
30457282 TTAATTTCATTC
1 TTAATTTCATTC
30457294 TTAATTTCATTC
1 TTAATTTCATTC
30457306 T
1 T
30457307 ATTTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAATTTCATTC
Found at i:30457976 original size:29 final size:29
Alignment explanation
Indices: 30457944--30458039 Score: 129
Period size: 29 Copynumber: 3.3 Consensus size: 29
30457934 GATCATCAAC
* * * *
30457944 TATGAAATGGAATAGTTTCGGCTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
*
30457973 TATGAAAAGGGATAACTTCGACTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
* *
30458002 TATGAAAAGGGGTAGCTTCGACTGTCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
30458031 TATGAAAAG
1 TATGAAAAG
30458040 CGGCAGTGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (29 bp):
TATGAAAAGGGATAGCTTCGACTATCGAT
Found at i:30458061 original size:29 final size:28
Alignment explanation
Indices: 30458029--30458114 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 28
30458019 TCGACTGTCG
30458029 ATTATGAAAAGCGGCA-GTGACAACCATCA
1 ATTATGAAAAG-GG-AGGTGACAACCATCA
30458058 ATTATGAAAAGGGATGGTGACAACCATCA
1 ATTATGAAAAGGGA-GGTGACAACCATCA
* *
30458087 ACTATGAAAAGGGATGGTGACGACCATC
1 ATTATGAAAAGGGA-GGTGACAACCATC
30458115 GTGACTCCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.02
28 2 0.04
29 50 0.94
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (28 bp):
ATTATGAAAAGGGAGGTGACAACCATCA
Found at i:30463725 original size:80 final size:79
Alignment explanation
Indices: 30463576--30463798 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
30463566 TTGAATGCTG
* * * ** * * * * *
30463576 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAGCCGGGCTAAG-TCCCGAAGGCATT
*
30463640 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* *
30463656 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATTC
* **
30463721 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
30463736 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATT
30463799 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 35 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:30463779 original size:39 final size:40
Alignment explanation
Indices: 30463629--30463798 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
30463619 GGACTAAGAT
* * *
30463629 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
30463669 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
30463709 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
30463749 CCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
30463788 CCGAAGGCATT
1 CCGAAGGCATT
30463799 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:30463818 original size:79 final size:80
Alignment explanation
Indices: 30463651--30463833 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
30463641 GTGCGAGATA
* *
30463651 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
** **
30463716 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
30463731 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
*
30463795 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
30463810 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
30463834 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:30470175 original size:93 final size:91
Alignment explanation
Indices: 30470009--30470213 Score: 279
Period size: 93 Copynumber: 2.2 Consensus size: 91
30469999 AGTTATATGA
* * *
30470009 TTAAATTTAGTAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACT
1 TTAAATTTA-TAAATTCATATAAGAAAATTTTACTATCAAGAATTTTATGAAATTATATATCACT
*
30470074 ATATAATTATATTTAAT-ATTAATTATT
65 ATATAATTATATGTAATAATT-ATTATT
* *
30470101 TTAAATTGTATAAATTCATATAAGAAAATTTTTACTATCAAGAATTTTATGAAATTATATATTAT
1 TTAAATT-TATAAATTCATATAAGAAAA-TTTTACTATCAAGAATTTTATGAAATTATATATCAC
30470166 TAT-TAAATTATATGTAATAATTATTATT
64 TATAT-AATTATATGTAATAATTATTATT
*
30470194 TTAAATTATACAAATTCATA
1 TTAAATT-TATAAATTCATA
30470214 AACTATAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
92 25 0.25
93 73 0.72
94 3 0.03
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TTAAATTTATAAATTCATATAAGAAAATTTTACTATCAAGAATTTTATGAAATTATATATCACTA
TATAATTATATGTAATAATTATTATT
Found at i:30470261 original size:48 final size:52
Alignment explanation
Indices: 30470191--30470289 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
30470181 AATAATTATT
30470191 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
30470239 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
30470290 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:30470271 original size:17 final size:17
Alignment explanation
Indices: 30470246--30470279 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30470236 ATAATTTTAA
*
30470246 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
30470263 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
30470280 TAGTTATAAT
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:30470296 original size:17 final size:16
Alignment explanation
Indices: 30470251--30470298 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
30470241 TTTAAATTTT
30470251 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
30470268 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
30470282 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
30470299 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:30470353 original size:54 final size:54
Alignment explanation
Indices: 30470295--30470473 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
30470285 ATAATCATAT
30470295 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
30470349 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
30470412 TA
54 -A
*
30470414 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
30470469 ATTAT
1 ATTAT
30470474 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:30470356 original size:61 final size:61
Alignment explanation
Indices: 30470291--30470478 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
30470281 AGTTATAATC
30470291 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
30470352 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
30470411 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
30470472 ATATATT
1 ATATATT
30470479 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:30470370 original size:18 final size:17
Alignment explanation
Indices: 30470339--30470373 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30470329 ATTATTAAGA
30470339 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
30470356 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
30470374 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:30470412 original size:120 final size:120
Alignment explanation
Indices: 30470288--30470510 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
30470278 ATTAGTTATA
30470288 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
30470353 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
30470408 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
30470473 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
30470511 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:30470487 original size:18 final size:17
Alignment explanation
Indices: 30470459--30470493 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30470449 ATTATTAAGA
*
30470459 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30470476 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30470494 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30470505 original size:54 final size:54
Alignment explanation
Indices: 30470322--30470507 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
30470312 TTCATATAAG
* *
30470322 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
30470376 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
30470439 AAG
53 -TT
* *
30470442 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
30470496 AATAATAATTAT
1 AATAATAATTAT
30470508 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:30470614 original size:144 final size:147
Alignment explanation
Indices: 30470447--30470718 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
30470437 ATAAGAATAT
*
30470447 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
30470512 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
30470574 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
30470591 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
30470656 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
30470719 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:30470631 original size:18 final size:17
Alignment explanation
Indices: 30470603--30470637 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30470593 ATTATTAAGA
*
30470603 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30470620 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30470638 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30470848 original size:44 final size:45
Alignment explanation
Indices: 30470799--30470893 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
30470789 TTACACCTCT
* *
30470799 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
30470843 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
30470888 ATTACA
1 ATTACA
30470894 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:30470893 original size:16 final size:16
Alignment explanation
Indices: 30470872--30470904 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30470862 TTGATTTGCT
*
30470872 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
30470888 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
30470904 A
1 A
30470905 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:30470914 original size:21 final size:21
Alignment explanation
Indices: 30470885--30470927 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
30470875 ACACCTCTAT
*
30470885 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
30470906 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
30470927 T
1 T
30470928 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:30474004 original size:80 final size:79
Alignment explanation
Indices: 30473855--30474077 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
30473845 TTGAATGCTG
* * * ** * * * * *
30473855 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAGCCGGGCTAAG-TCCCGAAGGCATT
*
30473919 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* *
30473935 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATTC
* **
30474000 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
30474015 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATT
30474078 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 35 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:30474058 original size:39 final size:40
Alignment explanation
Indices: 30473908--30474077 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
30473898 GGACTAAGAT
* * *
30473908 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
30473948 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
30473988 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
30474028 CCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
30474067 CCGAAGGCATT
1 CCGAAGGCATT
30474078 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:30474097 original size:79 final size:80
Alignment explanation
Indices: 30473930--30474112 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
30473920 GTGCGAGATA
* *
30473930 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
** **
30473995 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
30474010 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
*
30474074 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
30474089 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
30474113 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:30486353 original size:29 final size:29
Alignment explanation
Indices: 30486281--30486467 Score: 173
Period size: 29 Copynumber: 6.4 Consensus size: 29
30486271 AATCATCAAC
*
30486281 TATGAAAAGGGATAGTTTCGACTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
** * *
30486310 TATGAAAAGCAATGGCTTCGGCTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
* * * * *
30486339 TATGAAAAGGGAT-GGTGACGACCATCAAC
1 TATGAAAAGGGATAGCT-TCGACTATCGAT
* * *
30486368 TATGTAAAGGGAT-G-TTGACGACCATCGAA
1 TATGAAAAGGGATAGCTT--CGACTATCGAT
*
30486397 TATGAAAAGGGATAGCTTCGGCTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
* * *
30486426 TATGAAAAGGGGTAGCTTTGACTATTGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
30486455 TATGAAAAGGGAT
1 TATGAAAAGGGAT
30486468 GGTGACGACC
Statistics
Matches: 127, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.02
29 121 0.95
30 1 0.01
31 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (29 bp):
TATGAAAAGGGATAGCTTCGACTATCGAT
Found at i:30486420 original size:87 final size:87
Alignment explanation
Indices: 30486274--30486436 Score: 247
Period size: 87 Copynumber: 1.9 Consensus size: 87
30486264 TAACGATAAT
* * * *
30486274 CATCAACTATGAAAAGGGATAGTTTCGACTATCGATTATGAAAAGCAATGGCTTCGGCTATCGAT
1 CATCAACTATGAAAAGGGATAGTTACGACCATCGAATATGAAAAGCAATAGCTTCGGCTATCGAT
30486339 TATGAAAAGGGATGGTGACGAC
66 TATGAAAAGGGATGGTGACGAC
* **
30486361 CATCAACTATGTAAAGGGAT-GTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGA
1 CATCAACTATGAAAAGGGATAGTT-ACGACCATCGAATATGAAAAGCAATAGCTTCGGCTATCGA
30486425 TTATGAAAAGGG
65 TTATGAAAAGGG
30486437 GTAGCTTTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 3 0.04
87 65 0.96
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (87 bp):
CATCAACTATGAAAAGGGATAGTTACGACCATCGAATATGAAAAGCAATAGCTTCGGCTATCGAT
TATGAAAAGGGATGGTGACGAC
Found at i:30486464 original size:87 final size:87
Alignment explanation
Indices: 30486274--30486496 Score: 245
Period size: 87 Copynumber: 2.6 Consensus size: 87
30486264 TAACGATAAT
* * * ** *
30486274 CATCAACTATGAAAAGGGATAGTT-TCGACTATCGATTATGAAAAGCAATGGCTTCGGCTATCGA
1 CATCAACTATGAAAAGGGAT-GTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGA
*
30486338 TTATGAAAAGGGATGGTGACGAC
65 TTATGAAAAGGGATGCTGACGAC
*
30486361 CATCAACTATGTAAAGGGATGTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGAT
1 CATCAACTATGAAAAGGGATGTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGAT
* **
30486426 TATGAAAAGGGGTAGCT-TTGAC
66 TATGAAAAGGGAT-GCTGACGAC
* ** * * *
30486448 TATTGATTATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAAGGAT
1 CATCAACTATGAAAAGGGATGTTGACGACCATCGAA-TATGAAAAGGGAT
30486497 GGTGACGACC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
86 5 0.04
87 108 0.94
88 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (87 bp):
CATCAACTATGAAAAGGGATGTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGAT
TATGAAAAGGGATGCTGACGAC
Found at i:30486485 original size:116 final size:116
Alignment explanation
Indices: 30486281--30486506 Score: 344
Period size: 116 Copynumber: 1.9 Consensus size: 116
30486271 AATCATCAAC
* * *
30486281 TATGAAAAGGGATAGTTTCGACTATCGATTATGAAAAGCAATGGCTTCGGCTATCGATTATGAAA
1 TATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGCAATAGCTTCGACTATCGATTATGAAA
* * *
30486346 AGGGATGGTGACGACCATCAACTATGTAAAGGGATGTTGACGACCATCGAA
66 AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACCATCGAA
* *** * *
30486397 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGGTAGCTTTGACTATTGATTATGAAA
1 TATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGCAATAGCTTCGACTATCGATTATGAAA
30486462 AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACC
66 AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACC
30486507 GTCGTGATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.25
Consensus pattern (116 bp):
TATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGCAATAGCTTCGACTATCGATTATGAAA
AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACCATCGAA
Found at i:30486488 original size:58 final size:57
Alignment explanation
Indices: 30486331--30486497 Score: 167
Period size: 58 Copynumber: 2.9 Consensus size: 57
30486321 ATGGCTTCGG
*
30486331 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGTAAAGGGATGTTGACGA
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGTT-ACGA
* * * * * * * * * *
30486389 CCATCGAATATGAAAAGGGATAGCT-TCGGCTATCGATTATGAAAAGGGGTAGCTT-TGA
1 CTATCGATTATGAAAAGGGAT-GGTGACGACCATCAACTATGAAAAGGGAT-G-TTACGA
* *
30486447 CTATTGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGATG
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATG
30486498 GTGACGACCG
Statistics
Matches: 83, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
57 3 0.04
58 75 0.90
59 3 0.04
60 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (57 bp):
CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGTTACGA
Found at i:30488588 original size:25 final size:25
Alignment explanation
Indices: 30488554--30488603 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30488544 AGTAAGCATA
30488554 TATACTTAGTAAGTTCATAAATCAT
1 TATACTTAGTAAGTTCATAAATCAT
*
30488579 TATACTTAGTAAGTTCGTAAATCAT
1 TATACTTAGTAAGTTCATAAATCAT
30488604 CAACAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (25 bp):
TATACTTAGTAAGTTCATAAATCAT
Found at i:30491409 original size:29 final size:29
Alignment explanation
Indices: 30491376--30491433 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
30491366 GATGTTCGAA
* *
30491376 ACCATCCCTTTTCATATTTGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGGTGTC
*
30491405 ACCATCTCTTTTCATATTCGATGGGTGTC
1 ACCATCCCTTTTCATATTCGATGGGTGTC
30491434 GATACGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGGTGTC
Found at i:30492663 original size:20 final size:19
Alignment explanation
Indices: 30492619--30492667 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
30492609 TCATGGTCTT
*
30492619 TGCTT-CTTCTTTACTTAC
1 TGCTTACTTATTTACTTAC
*
30492637 TCTCTTACTTATTTACTTAC
1 T-GCTTACTTATTTACTTAC
30492657 ATGCTTACTTA
1 -TGCTTACTTA
30492668 AATAACTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 20 0.80
21 1 0.04
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.53
Consensus pattern (19 bp):
TGCTTACTTATTTACTTAC
Found at i:30493060 original size:50 final size:52
Alignment explanation
Indices: 30492977--30493101 Score: 139
Period size: 56 Copynumber: 2.4 Consensus size: 52
30492967 AGCCCATCCT
* * * *
30492977 ATGTCCCAGAAATGGCCTT-TGGGGGACCTCTCAT-CT-TGATGCCAATGCC
1 ATGTCCCAGACATGGTCTTATGGGAGACCTCTCATACTATAATGCCAATGCC
* *
30493026 ATGTCCCAGACATGGTCTTATGTGAGACCTCTCATAGCCTCAATAATGCCAATTCC
1 ATGTCCCAGACATGGTCTTATGGGAGACCTCTCATA--CT--ATAATGCCAATGCC
30493082 ATGTCCCAGACATGGTCTTA
1 ATGTCCCAGACATGGTCTTA
30493102 CATGAGATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
49 17 0.27
50 13 0.21
53 2 0.03
56 31 0.49
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (52 bp):
ATGTCCCAGACATGGTCTTATGGGAGACCTCTCATACTATAATGCCAATGCC
Found at i:30500348 original size:20 final size:20
Alignment explanation
Indices: 30500313--30500361 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
30500303 ATCATGGTAT
*
30500313 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
30500332 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
30500352 TTGCTTACTT
1 TTGCTTACTT
30500362 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:30500705 original size:50 final size:50
Alignment explanation
Indices: 30500651--30500755 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
30500641 ACATGGAGGT
* * **
30500651 TCTCATATCGGTGCCCATGCCATGT-CTCAGACATGGTCTTGTGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCT-AGACATGGTCTTACGGGGGACC
* * *
30500701 TCTCATCTCGGTGCCAACGCTATGTCCTAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCTAGACATGGTCTTACGGGGGACC
30500751 TCTCA
1 TCTCA
30500756 AAGCCTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 45 0.96
51 2 0.04
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.29
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCTAGACATGGTCTTACGGGGGACC
Found at i:30504089 original size:63 final size:63
Alignment explanation
Indices: 30504016--30504156 Score: 165
Period size: 63 Copynumber: 2.2 Consensus size: 63
30504006 CCTAAATCGC
* * * * * * *
30504016 AAACAATGAGTCATACGGCCTGGACACACGCCCGTGTCTCTGGCCCATGTGATCCTTAATGGT
1 AAACAGTGAGTCACACGACCTGGACACACGCCCATGTCTCTAGCCCATGTGATCCCTAAAGGT
* * * *
30504079 AAACAGTGAGTCACACGACCTGGACACATGCCTATGTCTCTAGCCCGTGTGGTCCCTAAAGGT
1 AAACAGTGAGTCACACGACCTGGACACACGCCCATGTCTCTAGCCCATGTGATCCCTAAAGGT
* *
30504142 AAATAGTAAGTCACA
1 AAACAGTGAGTCACA
30504157 TGGCCTAACA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (63 bp):
AAACAGTGAGTCACACGACCTGGACACACGCCCATGTCTCTAGCCCATGTGATCCCTAAAGGT
Found at i:30515940 original size:30 final size:30
Alignment explanation
Indices: 30515904--30515978 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
30515894 AGGTGAAGCT
30515904 ATCCCTTTTCATAATTTGATGGTCGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGCCACC
* *
30515934 ATCCCTTTTCAT-AGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGCCACC
* *
30515963 ATCCTTTTTCAAAATT
1 ATCCCTTTTCATAATT
30515979 GAGTGATCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGCCACC
Found at i:30515980 original size:29 final size:29
Alignment explanation
Indices: 30515904--30515989 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
30515894 AGGTGAAGCT
* *
30515904 ATCCCTTTTCATAATTTGATGGTCGCCACC
1 ATCCCTTTTCA-AAATTGATGGTCGTCACC
* *
30515934 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCAAAATTGATGGTCGTCACC
* *
30515963 ATCCTTTTTCAAAATTGAGTGATCGTC
1 ATCCCTTTTCAAAATTGA-TGGTCGTC
30515990 GATACGTCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 30 0.62
30 18 0.38
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCAAAATTGATGGTCGTCACC
Found at i:30517404 original size:15 final size:15
Alignment explanation
Indices: 30517386--30517416 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30517376 TGGTTTAAAT
30517386 TTATATATTATCATC
1 TTATATATTATCATC
*
30517401 TTATATATTATTATC
1 TTATATATTATCATC
30517416 T
1 T
30517417 ATGTAAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:30517718 original size:23 final size:23
Alignment explanation
Indices: 30517692--30517752 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
30517682 ACATACTTAT
*
30517692 ATATATTCTTTATATTCTCAAAA
1 ATATATTCTTTATATTCACAAAA
* * *
30517715 ATAT-TTTTTTATACTTCACATAC
1 ATATATTCTTTATA-TTCACAAAA
30517738 ATATATTC-TTATATT
1 ATATATTCTTTATATT
30517753 ATTACAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.32
23 19 0.61
24 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATATTCTTTATATTCACAAAA
Found at i:30517859 original size:26 final size:27
Alignment explanation
Indices: 30517830--30517885 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
30517820 TTATTTAATA
30517830 TATA-TAAATATATTTATATACATTT-T
1 TATACTAAATA-ATTTATATACATTTCT
** *
30517856 TATACTCTATAATTTATATGCATTTCT
1 TATACTAAATAATTTATATACATTTCT
30517883 TAT
1 TAT
30517886 TTTCATAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.54
Consensus pattern (27 bp):
TATACTAAATAATTTATATACATTTCT
Found at i:30518481 original size:107 final size:107
Alignment explanation
Indices: 30518180--30518589 Score: 610
Period size: 106 Copynumber: 3.9 Consensus size: 107
30518170 AGGTTTTTCT
30518180 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
* *
30518245 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTCAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * *
30518287 AAATAAGACAATATTTCACATTTGG-AAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
30518351 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * * *
30518393 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTACCCTAACGTGTTAGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
* **
30518458 TCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAAATTTCG
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * * * * * *
30518499 AAGTAAGGCAATATTT-GCGTTTGGAAATTTGGGAGAATGTGCCCTAACGTGCTGGGTCTCAATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
30518563 TCTCGTTTGACCAAATAGCCAAATATC
66 TCTCGTTTGACCAAATAGCCAAATATC
30518590 TTCTTAACTT
Statistics
Matches: 273, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
105 63 0.23
106 126 0.46
107 84 0.31
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:30523096 original size:12 final size:12
Alignment explanation
Indices: 30523079--30523124 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
30523069 AAGGCAAGAA
30523079 CCCAACACAAGG
1 CCCAACACAAGG
30523091 CCCAACACAAGG
1 CCCAACACAAGG
30523103 CCCAACACAAGG
1 CCCAACACAAGG
*
30523115 CCTAACACAA
1 CCCAACACAA
30523125 AGAGACTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.43, C:0.41, G:0.13, T:0.02
Consensus pattern (12 bp):
CCCAACACAAGG
Found at i:30530249 original size:132 final size:132
Alignment explanation
Indices: 30530007--30530714 Score: 630
Period size: 132 Copynumber: 5.4 Consensus size: 132
30529997 TGAAGTCATT
* *
30530007 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAAATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
30530072 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGATCGA
30530137 AG
131 AG
* * *
30530139 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGATAGTAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
** * *
30530204 TATTGGTAGGACCTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGATCGA
30530269 AG
131 AG
30530271 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
* * * * * * *
30530335 TATTGGTAGGAAGTGGATCGAAGATAGCAGGTCGTATCTTTCTATATTGGTAG-GAAGTG-GATC
66 TATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAG-GAGATC
30530398 GAAG
129 GAAG
* *** * * * * * * * *
30530402 -ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCATGTCTTCAT
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCT
* * * * * * * * * * * *
30530466 GTATTGG-CGTGAAGTAGATCGAGGATATCAGGTCCTATCTTCCTATATTGGTAG-GAAGTAGAT
65 ATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGAT
30530529 CGAAG
128 CGAAG
* *** * * * * * * * *
30530534 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCAT
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCT
* * * * * * * * *
30530598 GTATTGG-CGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTG-GAT
65 ATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAG-GAGAT
30530660 CGAAG
128 CGAAG
* * * * * * * *
30530665 ATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAG
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAG
30530715 ATCTTCTCTT
Statistics
Matches: 510, Mismatches: 58, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
130 25 0.05
131 120 0.24
132 365 0.72
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGATCGA
AG
Found at i:30530398 original size:175 final size:175
Alignment explanation
Indices: 30530169--30530714 Score: 722
Period size: 175 Copynumber: 3.1 Consensus size: 175
30530159 GTATTGGCGT
* * **
30530169 GAAGTAGATTGAAGATAGTAGGTCCTATCTTCCTATATTGGTAGGACCTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGAT-GCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
*
30530234 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
65 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGC
30530299 GTGAAGTAGATCGAAGAT-GCAGGTCCTATCTTCCTATATTGGTAG
130 GTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG
* * *
30530344 GAAGTGGATCGAAGATAGCAGGTCGTATCTTTCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGAT-GCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
*
30530409 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGC
65 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGC
* *
30530474 GTGAAGTAGATCGAGGATATCAGGTCCTATCTTCCTATATTGGTAG
130 GTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG
* * * * * * * *
30530520 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAG
1 GAAGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAG
*** * * * * * * * *
30530585 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG-ATGCAGGTCCTATCTTCCTATATTGG
64 ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGG
* *
30530648 TAG-GAAGTGGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG
129 -CGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG
*
30530695 GAAGTGGATCGAAGATGCAG
1 GAAGTAGATCGAAGATGCAG
30530715 ATCTTCTCTT
Statistics
Matches: 329, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
175 239 0.73
176 69 0.21
177 21 0.06
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (175 bp):
GAAGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGAT
CTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGCG
TGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG
Found at i:30530597 original size:307 final size:307
Alignment explanation
Indices: 30530043--30530753 Score: 1244
Period size: 307 Copynumber: 2.3 Consensus size: 307
30530033 GCGTGAAATA
*
30530043 GATCGAAAATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
1 GATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
* * *
30530108 CTTCCCATACTGGTGGCGAAGGAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAG
66 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGCGTGAAG
* * *
30530173 TAGATTGAAGATAGTAGGTCCTATCTTCCTATATTGGTAGGACCTGGATCGAAGATGCAGATCTT
131 TAGATCGAAGATAGTAGGTCCTATCTTCCTATATTGGTAGGAACTAGATCGAAGATGCAGATCTT
* *
30530238 GTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
196 GTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
30530303 AGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAGGAAGTG
261 AGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAGGAAGTG
* *
30530350 GATCGAAGATAGCAGGTCGTATCTTTCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
1 GATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
30530415 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGCGTGAAG
66 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGCGTGAAG
* *
30530480 TAGATCGAGGATA-TCAGGTCCTATCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCT
131 TAGATCGAAGATAGT-AGGTCCTATCTTCCTATATTGGTAGGAACTAGATCGAAGATGCAGATCT
*
30530544 TGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
195 TGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
30530609 AAGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAGGAAGTG
260 AAGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAGGAAGTG
*
30530657 GATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTCT
1 GATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
* * *
30530722 CTTCTCATACTAGTGGCAAAGTAGATCGAAGA
66 CTTCCCATACTGGTGGCGAAGTAGATCGAAGA
30530754 CCACAGATCT
Statistics
Matches: 383, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
306 1 0.00
307 382 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (307 bp):
GATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCATGTCTTCATGTATTGGCGTGAAG
TAGATCGAAGATAGTAGGTCCTATCTTCCTATATTGGTAGGAACTAGATCGAAGATGCAGATCTT
GTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
AGTAGATCGAAGATGCAGGTCCTATCTTCCTATATTGGTAGGAAGTG
Found at i:30530749 original size:44 final size:43
Alignment explanation
Indices: 30530010--30530753 Score: 341
Period size: 44 Copynumber: 17.0 Consensus size: 43
30530000 AGTCATTAAA
* * *
30530010 GCAGATCTTGTC-T-TCATGTATTGGCGTGAAATAGATCGAAAAT
1 GCAGATCTTGTCTTCTCATATATTGGC--GAAGTAGATCGAAGAT
* * * * *
30530053 AGCAGGTCCTATCTTC-C-TATATTGGTAGGAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCTCATATATTGG--CGAAGTAGATCGAAGAT
* ** * *
30530097 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGATCGAAGAAA
1 GCAGATCTTGTCTTCTCATA-TATTGGCGAAGTAGATCGAAG-AT
* * *
30530142 GTAGATCTTGTC-T-TCATGTATTGGCGTGAAGTAGATTGAAGAT
1 GCAGATCTTGTCTTCTCATATATTGGC--GAAGTAGATCGAAGAT
* * * * * ** *
30530185 AGTAGGTCCTATCTTC-C-TATATTGGTAGGACCTGGATCGAAGAT
1 -GCAGATCTTGTCTTCTCATATATTGG--CGAAGTAGATCGAAGAT
* ** * *
30530229 GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCTCATA-TATTGGCGAAGTAGATCGAAG-AT
*
30530274 GCAGATCTTGTC-T-TCATGTATTGGCGTGAAGTAGATCGAAGAT
1 GCAGATCTTGTCTTCTCATATATTGGC--GAAGTAGATCGAAGAT
* * * * *
30530317 GCAGGTCCTATCTTC-C-TATATTGGTAGGAAGTGGATCGAAGAT
1 GCAGATCTTGTCTTCTCATATATTGG--CGAAGTAGATCGAAGAT
* * * * *
30530360 AGCAGGTCGTATCTT-TC-TATATTGGTAGGAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCTCATATATTGG--CGAAGTAGATCGAAGAT
* ** *
30530404 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCTCATA-TATTGGCGAAGTAGATCGAAG-AT
* * *
30530449 GCAGATCATGTC-T-TCATGTATTGGCGTGAAGTAGATCGAGGAT
1 GCAGATCTTGTCTTCTCATATATTGGC--GAAGTAGATCGAAGAT
* * * * *
30530492 ATCAGGTCCTATCTTC-C-TATATTGGTAGGAAGTAGATCGAAGAT
1 -GCAGATCTTGTCTTCTCATATATTGG--CGAAGTAGATCGAAGAT
* * *
30530536 GCAGATCTTGTCTTCCCATAT-TGGTGGCGAAGTAGATCAAAGAAA
1 GCAGATCTTGTCTTCTCATATAT--TGGCGAAGTAGATCGAAG-AT
*
30530581 GCAGATCTTGTC-T-TCATGTATTGGCGTGAAGTAGATCGAAGAT
1 GCAGATCTTGTCTTCTCATATATTGGC--GAAGTAGATCGAAGAT
* * * * *
30530624 GCAGGTCCTATCTTC-C-TATATTGGTAGGAAGTGGATCGAAGAT
1 GCAGATCTTGTCTTCTCATATATTGG--CGAAGTAGATCGAAGAT
* * * * *
30530667 AGCAGGTCCTATCTTC-C-TATATTGGTAGGAAGTGGATCGAAGAT
1 -GCAGATCTTGTCTTCTCATATATTGG--CGAAGTAGATCGAAGAT
* * *
30530711 GCAGATCTTCTCTTCTCATACTAGTGGCAAAGTAGATCGAAGA
1 GCAGATCTTGTCTTCTCATA-TATTGGCGAAGTAGATCGAAGA
30530754 CCACAGATCT
Statistics
Matches: 541, Mismatches: 105, Indels: 108
0.72 0.14 0.14
Matches are distributed among these distances:
42 18 0.03
43 136 0.25
44 300 0.55
45 67 0.12
46 20 0.04
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
GCAGATCTTGTCTTCTCATATATTGGCGAAGTAGATCGAAGAT
Found at i:30532764 original size:23 final size:23
Alignment explanation
Indices: 30532738--30532799 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
30532728 ACATACTTAT
*
30532738 ATATATTCTTTATATTCTCAAAA
1 ATATATTCTTTATATTCACAAAA
* * * *
30532761 ATATTTTTTTTATACTTCACATAC
1 ATATATTCTTTATA-TTCACAAAA
30532785 ATATATTC-TTATATT
1 ATATATTCTTTATATT
30532800 ATTACAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 2 0.06
23 17 0.55
24 12 0.39
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATATTCTTTATATTCACAAAA
Found at i:30533443 original size:107 final size:107
Alignment explanation
Indices: 30533191--30533600 Score: 619
Period size: 107 Copynumber: 3.9 Consensus size: 107
30533181 AGGTTTTTCT
* * *
30533191 AAATAAGGCAATATTTCACGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCAATT
*
30533256 TCTCGTTTGACCAAACAG-CAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
30533297 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCAATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCAATT
*
30533362 TCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * * *
30533404 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCAATT
* **
30533469 TCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAAGTTTCG
66 TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* * * * * * *
30533510 AAGTAAGGCAATATTT-GCGTTTGGAAATTTGAGAGAATGTGCCCTAACATGCTGGGTCTCAATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCAATT
30533574 TCTCGTTTGACCAAATAGCCAAATATC
66 TCTCGTTTGACCAAATAGCCAAATATC
30533601 TTCTTAACTT
Statistics
Matches: 277, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
105 64 0.23
106 103 0.37
107 110 0.40
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCAATT
TCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:30541653 original size:40 final size:40
Alignment explanation
Indices: 30541578--30541653 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
30541568 GTTTGGACAA
* *
30541578 AAAATGCTGCTAAAAATTGAGCATTAGTGGCGCTTTATGG
1 AAAATGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATGG
* * *
30541618 AAAATGCCGCTAAAGATTGAGCATTTGCGGTGCTTT
1 AAAATGCCGCTAAAAATTGAGCATTAGCGGCGCTTT
30541654 TCAGAACACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (40 bp):
AAAATGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATGG
Found at i:30541833 original size:28 final size:28
Alignment explanation
Indices: 30541787--30541844 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
30541777 CGCTAATGCT
* *
30541787 CGGTGCTTTAGCAGTGTTTTTGAAAAAG
1 CGGTGCTTTAACAGCGTTTTTGAAAAAG
* *
30541815 CGGTGCTTTAACGGCGTTTTTGGAAAAG
1 CGGTGCTTTAACAGCGTTTTTGAAAAAG
30541843 CG
1 CG
30541845 CCGCTAATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (28 bp):
CGGTGCTTTAACAGCGTTTTTGAAAAAG
Found at i:30541876 original size:41 final size:40
Alignment explanation
Indices: 30541818--30542004 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 40
30541808 GAAAAAGCGG
*
30541818 TGCTTTAACGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGA
1 TGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCGA
*
30541859 TGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC-A
1 TGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGA
* *
30541899 GTGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGG
1 -TGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGA
* *
30541941 TGCTTTAGCGGCGTTTTT-ACAGAAGTGCCGCTAATGCTCGG
1 TGCTTTAGCGGCGTTTTTGA-A-AAGCGCCGCTAATGCTCGA
30541982 TGCTTTAGCGGCGTTTTTGAAAA
1 TGCTTTAGCGGCGTTTTTGAAAA
30542005 TGCACCGCAA
Statistics
Matches: 136, Mismatches: 5, Indels: 11
0.89 0.03 0.07
Matches are distributed among these distances:
40 7 0.05
41 128 0.94
42 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (40 bp):
TGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGA
Found at i:30541958 original size:82 final size:81
Alignment explanation
Indices: 30541817--30542004 Score: 288
Period size: 82 Copynumber: 2.3 Consensus size: 81
30541807 TGAAAAAGCG
*
30541817 GTGCTTTAACGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTTGA-AG
1 GTGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTT-ACAG
30541881 AAGCGCCGCTAATGCTCA
64 AAGCGCCGCTAATGCTCA
* * *
30541899 GTGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGTGCTTTAGCGGCGTTTTTACAGA
1 GTGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTTACAGA
* *
30541964 AGTGCCGCTAATGCTCG
65 AGCGCCGCTAATGCTCA
30541981 GTGCTTTAGCGGCGTTTTTGAAAA
1 GTGCTTTAGCGGCGTTTTTGAAAA
30542005 TGCACCGCAA
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
81 6 0.06
82 91 0.94
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (81 bp):
GTGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTTACAGAA
GCGCCGCTAATGCTCA
Found at i:30542407 original size:21 final size:22
Alignment explanation
Indices: 30542383--30542438 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
30542373 TAGGGATTAT
*
30542383 GGTTTATGATTTAAGGGCT-GG
1 GGTTTATGATTTAAAGGCTAGG
* * *
30542404 GGTTTAAGGTTTAAAGGTTAGG
1 GGTTTATGATTTAAAGGCTAGG
*
30542426 GGTTTCTGATTTA
1 GGTTTATGATTTA
30542439 TGGTTGAATG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (22 bp):
GGTTTATGATTTAAAGGCTAGG
Found at i:30542629 original size:22 final size:22
Alignment explanation
Indices: 30542604--30542646 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30542594 GAGTTACTAT
*
30542604 CTTAAGGTTTATGGATTATGGG
1 CTTAAGGATTATGGATTATGGG
* *
30542626 CTTAGGGATTATGGTTTATGG
1 CTTAAGGATTATGGATTATGG
30542647 TTTAAGGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.42
Consensus pattern (22 bp):
CTTAAGGATTATGGATTATGGG
Found at i:30542669 original size:16 final size:16
Alignment explanation
Indices: 30542648--30542678 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30542638 GGTTTATGGT
30542648 TTAAGGGTTAGGGGTA
1 TTAAGGGTTAGGGGTA
30542664 TTAAGGGTTAGGGGT
1 TTAAGGGTTAGGGGT
30542679 TTATGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (16 bp):
TTAAGGGTTAGGGGTA
Found at i:30542695 original size:7 final size:7
Alignment explanation
Indices: 30542627--30542717 Score: 60
Period size: 7 Copynumber: 12.6 Consensus size: 7
30542617 GATTATGGGC
*
30542627 TTAGGGA
1 TTAGGGT
*
30542634 TTATGGT
1 TTAGGGT
*
30542641 TTATGGT
1 TTAGGGT
30542648 TTAAGGG-
1 TT-AGGGT
30542655 TTAGGGGT
1 TTA-GGGT
30542663 ATTAAGGG-
1 -TT-AGGGT
30542671 TTAGGGGT
1 TTA-GGGT
* *
30542679 TTATGAT
1 TTAGGGT
30542686 TTAGGGT
1 TTAGGGT
*
30542693 TTAGGGA
1 TTAGGGT
*
30542700 TAAGGGT
1 TTAGGGT
30542707 TTAGGGT
1 TTAGGGT
30542714 TTAG
1 TTAG
30542718 ATTAATTAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
6 2 0.03
7 52 0.79
8 6 0.09
9 5 0.08
10 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (7 bp):
TTAGGGT
Found at i:30542738 original size:242 final size:248
Alignment explanation
Indices: 30542231--30542804 Score: 824
Period size: 242 Copynumber: 2.3 Consensus size: 248
30542221 CATTATTGAT
*
30542231 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGCAAAAGAGATAGTATTAATTTTAA
1 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
* *
30542296 AATATTGAATTAATTATCATATAGTTTAGGGTTTAAGGTTTAGGAGTTACTTTCTTAAGGTTTAT
66 AATATTAAATTAATTATCATATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTAT
*
30542361 GGATCATGGGTTTAGGGATTATGGTTTATGATTTAAGGGCTGGGGTTTAAGGTTTAAAGGTTAGG
131 GGATCATGGGCTTAGGGATTATGGTTTATGATTTAAGGGCTGGGG-TTAA-G-TTAAAGGTTAGG
*
30542426 GGTTTCTGATTTATGGTTGAATGGATAGGGGATAGTGGTTTAAGGTTGAGATTAATTAG
193 GGTTTATGATTTATGG-TG-AT-GATAGGGGATAGTGGTTTAAGGTTGAGATTAATTAG
*
30542485 TGTTATTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
1 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
*
30542550 AATATTAAATTAATTATCATTATAGTTTTGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTA
66 AATATTAAATTAATTATCA-TATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTA
* * * *
30542615 TGGATTATGGGCTTAGGGATTATGGTTTATGGTTTAAGGGTTAGGGG-T-A-TTAAGGGTTAGGG
130 TGGATCATGGGCTTAGGGATTATGGTTTATGATTTAAGGGCT-GGGGTTAAGTTAAAGGTTAGGG
* * *
30542677 GTTTATGATTTA-GG-G-T-TTA-GGGATAAG-GGTTTAGGGTTTAGATTAATTAG
194 GTTTATGATTTATGGTGATGATAGGGGAT-AGTGGTTTAAGGTTGAGATTAATTAG
* * * *
30542727 TGTTTTTTAATTTATATGTTAAATAATTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAT
1 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
*
30542792 TATATTAACATTA
66 AATATTAA-ATTA
30542805 TGATTATAGT
Statistics
Matches: 296, Mismatches: 20, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
242 93 0.31
243 8 0.03
245 1 0.00
247 1 0.00
249 2 0.01
250 23 0.08
253 1 0.00
254 82 0.28
255 81 0.27
256 4 0.01
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (248 bp):
TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
AATATTAAATTAATTATCATATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTAT
GGATCATGGGCTTAGGGATTATGGTTTATGATTTAAGGGCTGGGGTTAAGTTAAAGGTTAGGGGT
TTATGATTTATGGTGATGATAGGGGATAGTGGTTTAAGGTTGAGATTAATTAG
Found at i:30545185 original size:43 final size:43
Alignment explanation
Indices: 30545110--30545297 Score: 288
Period size: 43 Copynumber: 4.3 Consensus size: 43
30545100 AAAACAGGTT
* * * *
30545110 TTTAGCGGTGCTTTTTAGCACAAATGCTGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCA-CACAAACGCCGCTATAGACCATGACC
*
30545154 TTTAGTGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
*
30545197 TTTAGCGGCGCTTTTC-CAACAAACGCCGTTATAGACCATGACC
1 TTTAGCGGCGCTTTTCAC-ACAAACGCCGCTATAGACCATGACC
*
30545240 TTTAGCGGCACTTTTCACACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
30545283 TTTAGCGGCGCTTTT
1 TTTAGCGGCGCTTTT
30545298 GTCACATGCT
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 116 0.88
44 15 0.11
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
Found at i:30547422 original size:14 final size:15
Alignment explanation
Indices: 30547396--30547424 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30547386 TTTAACCCCT
30547396 AACCCCTAACCCTTA
1 AACCCCTAACCCTTA
30547411 AACCCC-AACCCTTA
1 AACCCCTAACCCTTA
30547425 TAACTGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:30548381 original size:41 final size:42
Alignment explanation
Indices: 30548293--30548382 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 42
30548283 GAGTATCAGT
* * *
30548293 GGCGCTTTTTAAAAAAACGTCGCTAAAACCCTGAGCATTAGT
1 GGCGCTTTTTAAAAAAACGTCGCCAAAACCCCGAGCATTAGC
* * * * *
30548335 AGCGCTTTTT-CATAAACGTCTCCAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTAAAAAAACGTCGCCAAAACCCCGAGCATTAGC
30548376 GGCGCTT
1 GGCGCTT
30548383 CGCGTTTCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 30 0.77
42 9 0.23
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (42 bp):
GGCGCTTTTTAAAAAAACGTCGCCAAAACCCCGAGCATTAGC
Found at i:30549300 original size:86 final size:86
Alignment explanation
Indices: 30549151--30549401 Score: 267
Period size: 86 Copynumber: 2.9 Consensus size: 86
30549141 TAAAAATTGA
* * * *
30549151 AAATTGAAAATTTAGTCTGGTTGTTTGTAAATGCATGAACTTGAACCATTTATTTTTGCTAATTT
1 AAATTGAAAAATTAGTCTGATTGTTTGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTT
* *
30549216 GTTGCATATAAGTTGTTATA-
66 GTTGCATATAAATCGTTATAG
*
30549236 AATATTGAAAAATTAGTCTGATT-TTTGGTAAATACATGAACTTGAACCATTGATTTTTGTTAAT
1 AA-ATTGAAAAATTAGTCTGATTGTTT-GTAAATACATGAACTTGAACCATTGATTTTTGCTAAT
30549300 TTGTTGCATATAAATCGTTATAG
64 TTGTTGCATATAAATCGTTATAG
* * * *** * * *
30549323 AAATTGAAGATTTAGCCCT-ATTGCCGGTAAATATATGAACTACGAA-TAGTTGATTTTTGCTAA
1 AAATTGAAAAATTAG-TCTGATTGTTTGTAAATACATGAACT-TGAACCA-TTGATTTTTGCTAA
* *
30549386 TTTGTTTCACATAAAT
63 TTTGTTGCATATAAAT
30549402 TGTTGTAAGA
Statistics
Matches: 140, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
85 5 0.04
86 101 0.72
87 34 0.24
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (86 bp):
AAATTGAAAAATTAGTCTGATTGTTTGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTT
GTTGCATATAAATCGTTATAG
Found at i:30549416 original size:40 final size:40
Alignment explanation
Indices: 30549371--30549496 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
30549361 ACTACGAATA
* * * * *
30549371 GTTGATTTTTGCTAATTTGTTTCACATAAATTGTTGTAA-
1 GTTGATTTTTGATAATTTCTTGCACATAAATTATTGAAAT
* * *
30549410 GATTGATTTGTGTTAATTTCTTGCATATAAATTATTGAAAT
1 G-TTGATTTTTGATAATTTCTTGCACATAAATTATTGAAAT
* * * *
30549451 GTTGATTTTTGATAATTCCTTACATATTAAA-TATTGAAGT
1 GTTGATTTTTGATAATTTCTTGCACA-TAAATTATTGAAAT
30549491 GTTGAT
1 GTTGAT
30549497 ATTCAAGCTA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 66 0.92
41 5 0.07
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.49
Consensus pattern (40 bp):
GTTGATTTTTGATAATTTCTTGCACATAAATTATTGAAAT
Found at i:30551563 original size:43 final size:43
Alignment explanation
Indices: 30551516--30551825 Score: 274
Period size: 43 Copynumber: 7.2 Consensus size: 43
30551506 GAACCATACT
* *
30551516 TTTAGCGGCGTTTGTGATAAAAGCACCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATGTTC
* *
30551559 TTTAGCGGCGTTTATGGGT-AAAGCGCTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGATCATGTTC
* * * *
30551602 TTTAGCGGCGTTCGTTGGTAAAA-TGCCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTG-TGGTAAAAGCGCCGCTAAAGATCATGTTC
* *
30551645 TTTAGCAGCGTTTGTGGGT-AAAGCACCGCTAAA-ACTCATGTTC
1 TTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGA-TCATGTTC
* * * *
30551688 TATAGCAGCGTTTGTAGG-AAAACCGCCGCTAAA-AGTCATGATC
1 TTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGA-TCATGTTC
* * * * * *
30551731 TATAGCGGCATTTGTGGGAAAAGCGCTGTTAAA-AGTCATGATC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGA-TCATGTTC
* * * * **
30551774 TATAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATGTTC
30551817 TTTAGCGGC
1 TTTAGCGGC
30551826 ATTTTTGTAC
Statistics
Matches: 224, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
42 6 0.03
43 212 0.95
44 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATGTTC
Found at i:30551737 original size:129 final size:129
Alignment explanation
Indices: 30551516--30551813 Score: 320
Period size: 129 Copynumber: 2.3 Consensus size: 129
30551506 GAACCATACT
* * * * *
30551516 TTTAGCGGCGTTTGT-GATAAAAGCACCGCTAAAGATCATGTTCTTTAGCGGCGTTTATGGGTAA
1 TTTAGCGGCGTTTGTGGGT-AAAGCACCGCTAAAGATCATGTTCTATAGCAGCGTTTATAGGAAA
* * * * * * * *
30551580 AGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTCGTTGGTAAAATGC-CT-CTAAAGGTCATGT
65 ACCGCCGCTAAAGATCATGATCTATAGCGGCATTCG-TGGGAAAA-GCGCTGCTAAAAGTCATGA
30551643 TC
128 TC
* *
30551645 TTTAGCAGCGTTTGTGGGTAAAGCACCGCTAAA-ACTCATGTTCTATAGCAGCGTTTGTAGGAAA
1 TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGA-TCATGTTCTATAGCAGCGTTTATAGGAAA
* *
30551709 ACCGCCGCTAAA-AGTCATGATCTATAGCGGCATTTGTGGGAAAAGCGCTGTTAAAAGTCATGAT
65 ACCGCCGCTAAAGA-TCATGATCTATAGCGGCATTCGTGGGAAAAGCGCTGCTAAAAGTCATGAT
30551773 C
129 C
* * *
30551774 TATAGCGGCGTTTGTGGG-AGAAGCGCCGCTAAAGGTCATG
1 TTTAGCGGCGTTTGTGGGTA-AAGCACCGCTAAAGATCATG
30551814 ACCTTTAGCG
Statistics
Matches: 141, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
127 2 0.01
128 12 0.09
129 125 0.89
130 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (129 bp):
TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGATCATGTTCTATAGCAGCGTTTATAGGAAAA
CCGCCGCTAAAGATCATGATCTATAGCGGCATTCGTGGGAAAAGCGCTGCTAAAAGTCATGATC
Done.