Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold201
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: 841227
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 75646 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:52 original size:27 final size:26
Alignment explanation
Indices: 3--1326 Score: 1017
Period size: 27 Copynumber: 48.8 Consensus size: 26
1 GT
*
3 TTGTGGTACTTGAAAGGTTGCCACGGAG
1 TTGTGG-ACTTAAAAGG-TGCCACGGAG
* * *
31 TTGTAGACTTTAAAAGGCGCCACGGTG
1 TTGTGGAC-TTAAAAGGTGCCACGGAG
**
58 TTGTGGACTT-AAAGTGTGCCAAAGAG
1 TTGTGGACTTAAAAG-GTGCCACGGAG
**
84 TTAAGGACTTAAAAGGTTGCCACCGGAG
1 TTGTGGACTTAAAAGG-TGCCA-CGGAG
* * *
112 TTGTGAACTTTGAAAGGGTGCCATGGAG
1 TTGTGGAC-TT-AAAAGGTGCCACGGAG
* *
140 TTATGGACTTAAAAAAGGTGCCACTGAG
1 TTGTGGACTT--AAAAGGTGCCACGGAG
* * * *
168 TTGTGGTCTGAAAAGTATGCCAAGGAG
1 TTGTGGACTTAAAAG-GTGCCACGGAG
*
195 TT-TGGACTTTAAAAAGGTGCCACGAAG
1 TTGTGGAC-TT-AAAAGGTGCCACGGAG
* **
222 CTAAGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* *
249 TTGTGGACCT--AGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGTGCCACGGAG
* * *
273 CTGTTGACTTAAAAGGTTGCCACGAAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
***
300 TTGTGGACTTAAAAGGTTGCCAAAAAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * ** *
327 CTATGGACTTAAAATATTGCCATGGAG
1 TTGTGGACTTAAAA-GGTGCCACGGAG
* * *
354 TTGTAGACTTTTAAAGGGTGCCATGGAG
1 TTGTGGAC--TTAAAAGGTGCCACGGAG
382 TTGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * *
409 TTATGGACTTAAAAGGTTGCCATGGAA
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * *
436 CTATGGACTTAAAAATGTGCCACGGAG
1 TTGTGGACTT-AAAAGGTGCCACGGAG
* * *
463 TTGCGGAGTTTAAAGGGTGCCACGGAG
1 TTGTGGA-CTTAAAAGGTGCCACGGAG
*
490 TTATGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * *
517 TTATGGACTTAATAGGTTGCCACAGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
*
544 TTGTAGACTTTAAAAGTGTGCCAC-GAG
1 TTGTGGAC-TTAAAAG-GTGCCACGGAG
* * * *
571 CTGTAGACTTAAAAGGTTGCCATGGAC
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * *
598 TTATGGACTTAAAAGGTTGCCATGGAA
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* *
625 CTGTGGACTTAAAAATGTGCCACGGAG
1 TTGTGGACTT-AAAAGGTGCCACGGAG
*
652 TTGTGGACTTTAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGTGCCACGGAG
* *
679 TTGTGGACGTAAAAGGTTGCCACAGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
*
706 TTGTGGACTTAAAAGGTTGCCACGAAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
*
733 TTAG-GGACTTTAAAAAGGCGCCACGGAG
1 TT-GTGGAC-TT-AAAAGGTGCCACGGAG
* * *
761 TTGTGGACTTAAAAGTTTACCAAGGAG
1 TTGTGGACTTAAAAG-GTGCCACGGAG
* * **
788 TTATGGACTTAAAAGGTTACCGTGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
815 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAA-GGTGCCACGGAG
*
843 TTGTGGACTTAAAAAGGGTACCACGGAG
1 TTGTGGACTT-AAAA-GGTGCCACGGAG
* *
871 TTGTGGACTTTAAAAGGGGCCACAGAG
1 TTGTGGAC-TTAAAAGGTGCCACGGAG
*
898 ATGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
*
925 TTGTGGACTT-AAAGGTTGCCATGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * ** **
951 GTGTGCACTTAAAAATTTGCCATTGAG
1 TTGTGGACTT-AAAAGGTGCCACGGAG
978 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAA-GGTGCCACGGAG
* * *
1005 TTCTGGACTT-AATGGTTGCCATGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* *
1031 TTGTGGACTTAAAAGTTTGCCACAGAG
1 TTGTGGACTTAAAAG-GTGCCACGGAG
** * * *
1058 TTGTAAACTTTACAATGGCGCCACGGTG
1 TTGTGGAC-TTA-AAAGGTGCCACGGAG
**
1086 TTGTGGACTTAAAAGTGTGCCAAAGAG
1 TTGTGGACTTAAAAG-GTGCCACGGAG
* *
1113 TTATGGACTTACAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * *
1140 TTGTGAACTTTGGAAGGGTGCCACGGAG
1 TTGTGGAC-TT-AAAAGGTGCCACGGAG
* *
1168 TTGTGGAGTTAACAAGGGTGCCAAGGAG
1 TTGTGGACTTAA-AA-GGTGCCACGGAG
*
1196 TTGTGGACTTAAAAGTGTGCCAAGGAG
1 TTGTGGACTTAAAAG-GTGCCACGGAG
1223 TTGTGGACTTTAAAAAGGTGCCACGGAG
1 TTGTGGAC-TT-AAAAGGTGCCACGGAG
* ** * *
1251 CTAAGGACTTAAAAGGCTGCTACCGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
* * **
1278 CTGTTGACTTCGAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGG-TGCCACGGAG
*
1305 TTGTGGACTTAAAAGGTTCCAC
1 TTGTGGACTTAAAAGGTGCCAC
1327 AACCCCAAGG
Statistics
Matches: 1036, Mismatches: 201, Indels: 120
0.76 0.15 0.09
Matches are distributed among these distances:
24 17 0.02
25 10 0.01
26 145 0.14
27 581 0.56
28 244 0.24
29 34 0.03
30 5 0.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (26 bp):
TTGTGGACTTAAAAGGTGCCACGGAG
Found at i:334 original size:78 final size:79
Alignment explanation
Indices: 199--403 Score: 189
Period size: 78 Copynumber: 2.6 Consensus size: 79
189 AAGGAGTTTG
* ** *** * * *
199 GACTTTAAAAAGGTGCCACGAAGCTAAGGACTTAAAAGGTTGCCACGGAGTTGTGGACCT-AGGG
1 GACTTT-AAAAGGTGCCACGAAGTTGTGGACTTAAAAGGTTGCCAAAAAGCTATGGACCTAAGAG
*
263 TGCCACGGAGCTGTT
65 TGCCACGGAGCTGTA
* *
278 GAC-TTAAAAGGTTGCCACGAAGTTGTGGACTTAAAAGGTTGCCAAAAAGCTATGGACTTAAAAT
1 GACTTTAAAAGG-TGCCACGAAGTTGTGGACTTAAAAGGTTGCCAAAAAGCTATGGACCT--AAG
* * *
342 ATTGCCATGGAGTTGTA
63 AGTGCCACGGAGCTGTA
* * *
359 GACTTTTAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGTTGCCA
1 GAC-TTTAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGTTGCCA
404 CGGAGTTATG
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
77 6 0.06
78 40 0.39
79 3 0.03
81 16 0.16
82 30 0.29
83 7 0.07
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
GACTTTAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGTTGCCAAAAAGCTATGGACCTAAGAGT
GCCACGGAGCTGTA
Found at i:506 original size:81 final size:81
Alignment explanation
Indices: 3--1326 Score: 1031
Period size: 82 Copynumber: 16.3 Consensus size: 81
1 GT
* * * * *
3 TTGTGGTACTTGAAAGGTTGCCACGGAGTTGTAGACTTTAAAAGGCGCCACGGTGTTGTGGACTT
1 TTGTGG-ACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTT
* **
68 -AAAGTGTGCCAAAGAG
65 AAAAGGGTGCCACGGAG
** * * * * *
84 TTAAGGACTTAAAAGGTTGCCACCGGAGTTGTGAACTTTGAAAGGGTGCCATGGAGTTATGGACT
1 TTGTGGACTTAAAAGGTTGCCA-CGGAGTTGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACT
* *
149 TAAAAAAGGTGCCACTGAG
64 T-AAAAGGGTGCCACGGAG
* * * * * **
168 TTGTGGTCTGAAAA-GTATGCCAAGGAGTT-TGGACTTTAAAAAGGTGCCACGAAGCTAAGGACT
1 TTGTGGACTTAAAAGGT-TGCCACGGAGTTGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACT
*
231 TAAAAGGTTGCCACGGAG
64 TAAAAGGGTGCCACGGAG
* * * * *
249 TTGTGGACCT---AGGGTGCCACGGAGCTGTTGACTT-AAAAGGTTGCCACGAAGTTGTGGACTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTT
* ***
310 AAAAGGTTGCCAAAAAG
65 AAAAGGGTGCCACGGAG
* * ** * * * * *
327 CTATGGACTTAAAATATTGCCATGGAGTTGTAGACTTTTAAAGGGTGCCATGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACTT
*
392 AAAAGGTTGCCACGGAG
65 AAAAGGGTGCCACGGAG
* * ** * * * * *
409 TTATGGACTTAAAAGGTTGCCATGGAACTATGGACTTAAAAATGTGCCACGGAGTTGCGGAGTTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTA
474 AAAGGGTGCCACGGAG
66 AAAGGGTGCCACGGAG
* * * * *
490 TTATGGACTTAAAAGGTTGCCACGGAGTTATGGACTT-AATAGGTTGCCACAGAGTTGTAGACTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGAC-T
*
554 TAAAAGTGTGCCAC-GAG
64 TAAAAGGGTGCCACGGAG
* * * * * * **
571 CTGTAGACTTAAAAGGTTGCCATGGACTTATGGACTT-AAAAGGTTGCCATGGAACTGTGGACTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTT
**
635 AAAAATGTGCCACGGAG
65 AAAAGGGTGCCACGGAG
* * * *
652 TTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACGT-AAAAGGTTGCCACAGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTT
* *
716 AAAAGGTTGCCACGAAG
65 AAAAGGGTGCCACGGAG
* * * * *
733 TTAG-GGACTTTAAAAAGG-CGCCACGGAGTTGTGGACTT-AAAAGTTTACCAAGGAGTTATGGA
1 TT-GTGGAC-TT-AAAAGGTTGCCACGGAGTTGTGGACTTAAAAAG-GTGCCACGGAGTTGTGGA
* * **
795 CTTAAAAGGTTACCGTGGAG
62 CTTAAAAGGGTGCCACGGAG
* *
815 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGTACCACGGAGTTGTGGACT
1 TTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAA-GGTGCCACGGAGTTGTGGAC-
*
880 TTAAAAGGG-GCCACAGAG
63 TTAAAAGGGTGCCACGGAG
* * * *
898 ATGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTT--AAAGGTTGCCATGGAGGTGTGCACTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTT
*** **
961 AAAAATTTGCCATTGAG
65 AAAAGGGTGCCACGGAG
* * * *
978 TTGTGGACTTAAAAGGGTGCCACGGAGTTCTGGACTT--AATGGTTGCCATGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTT
** *
1041 AAAAGTTTGCCACAGAG
65 AAAAGGGTGCCACGGAG
** * * * ** *
1058 TTGTAAACTTTACAATGG-CGCCACGGTGTTGTGGACTT-AAAAGTGTGCCAAAGAGTTATGGAC
1 TTGTGGAC-TTA-AAAGGTTGCCACGGAGTTGTGGACTTAAAAAG-GTGCCACGGAGTTGTGGAC
* *
1121 TTACAAGGTTGCCACGGAG
63 TTAAAAGGGTGCCACGGAG
* ** * * * *
1140 TTGTGAACTTTGGAAGGGTGCCACGGAGTTGTGGAGTTAACAAGGGTGCCAAGGAGTTGTGGACT
1 TTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTTAA-AAAGGTGCCACGGAGTTGTGGACT
* *
1205 TAAAAGTGTGCCAAGGAG
64 TAAAAGGGTGCCACGGAG
* ** * * * *
1223 TTGTGGACTTTAAAAAGG-TGCCACGGAGCTAAGGACTT-AAAAGGCTGCTACCGAGCTGTTGAC
1 TTGTGGAC-TT-AAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGAC
** *
1286 TTCGAAGGTTGCCACGGAG
63 TTAAAAGGGTGCCACGGAG
1305 TTGTGGACTTAAAAGGTT-CCAC
1 TTGTGGACTTAAAAGGTTGCCAC
1327 AACCCCAAGG
Statistics
Matches: 1008, Mismatches: 198, Indels: 75
0.79 0.15 0.06
Matches are distributed among these distances:
77 6 0.01
78 51 0.05
79 13 0.01
80 144 0.14
81 303 0.30
82 338 0.34
83 110 0.11
84 43 0.04
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (81 bp):
TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTA
AAAGGGTGCCACGGAG
Found at i:1142 original size:325 final size:325
Alignment explanation
Indices: 21--1266 Score: 595
Period size: 325 Copynumber: 3.8 Consensus size: 325
11 CTTGAAAGGT
* * * * * *
21 TGCCACGGAGTTGTAGACTTTAAAA-GGCGCCACGGTGTTGTGGACTTAAA-GTGTGCCAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTCTGGACGTAAAGGT-TGCCACAGAG
** * * * * *
84 TTAAGGACTTAAAAG-GTTGCCACCGGAGTTGTGAACTTTGAAAGGGTGCCATGGAGTTATGGAC
65 TTGTGGACTTAAAAGTGTTGCCA-CGGAGTTGTGGACTTT-AAAAGGCGCCACGGAGTTGTGGAC
* ** * * * * *
148 TTAAAAAAGGTGCCACTGAGTTGTGGTCTGAAAA-GTATGCCAAGGAGTT-TGGACTTTAAAAAG
128 TT-AAAAATGTGCCAAGGAGTTATGGACTTAAAAGGT-TGCCACGGAGTTGTGGACTTTAAAAGG
* * ** * * * *
211 GTGCCACGAAGCTAAGGACTTAAAAGGTTGCCACGGAGTTGTGGAC-CT---AGGGTGCCACGGA
191 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGTGTGCCAC-GA
* * * * * ** * *
272 GCTGTTGACTTAAAAGGTTGCCACGAAGTTGTGGACTTAAAAGGTTGCCA-AAAAGCTATGGACT
255 GATGTGGACTTAAAAGGTTGCCACGGACTTATGGACTT-AAAGGTTGCCATGGAA-CTGTGCACT
336 TAAAATAT-
318 TAAAA-ATG
* * * * * * *
344 TGCCATGGAGTTGTAGACTTTTAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTCTGGACGT-AAAGGTTGCCACAGAG
* * ** * * * * * *
409 TTATGGACTTAAAAG-GTTGCCATGGAACTATGGACTTAAAAATGTGCCACGGAGTTGCGGAGTT
65 TTGTGGACTTAAAAGTGTTGCCACGGAGTTGTGGACTTTAAAAGGCGCCACGGAGTTGTGGACTT
* ** * * * *
473 TAAAGGGTGCCACGGAGTTATGGACTTAAAAGGTTGCCACGGAGTTATGGAC-TTAATAGGTTGC
130 AAAAATGTGCCAAGGAGTTATGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGGGTGC
* * * * * *
537 CACAGAGTTGTAGACTTTAAAAGTGTGCCAC-GAGCTGTAGAC-TTAAAAG-GTTGCCATG-GAC
195 CACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGTG-TGCCACGAGA-
* * * ** * ** *
598 TTATGGACTTAAAAGGTTGCCATGGAAC-TGTGGACTTAAAAATGTGCCACGGAGTTGTGGACTT
257 -TGTGGACTTAAAAGGTTGCCACGG-ACTTATGGACTTAAAGGT-TGCCATGGAACTGTGCACTT
* **
662 TAAAGGG
319 AAAAATG
* * * * *
669 TGCCACGGAGTTGTGGAC-GTAAAAGGTTGCCACAGAGTTGTGGACTTAAAAGGTTGCCAC-GAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTCTGGACGT-AAAGGTTGCCACAG-A
* *** * *
732 GTTAG-GGACTTTAAAAAG-G-CGCCACGGAGTTGTGGAC-TTAAAAGTTTACCAAGGAGTTATG
64 GTT-GTGGAC-TT-AAAAGTGTTGCCACGGAGTTGTGGACTTTAAAAG-GCGCCACGGAGTTGTG
* * ** * * *
793 GACTT-AAAAGGTTACCGTGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
125 GACTTAAAAATG-TGCCAAGGAGTTATGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTTTAAA
* *
857 AGGGTACCACGGAGTTGTGGACTTTAAAAGGG-GCCACAGAGATGTGGAC-TTAAAAG-GTTGCC
188 AGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGTG-TGCC
* * ** * * ** * **
919 ACGGAGTTGTGGACTT-AAAGGTTGCCATGGAGGTGTGCACTTAAAAATTTGCCATTGAGTTGTG
251 AC-GAGATGTGGACTTAAAAGGTTGCCACGGACTTATGGACTT-AAAGGTTGCCATGGAACTGTG
* **
983 GACTTAAAAGGG
314 CACTTAAAAATG
* * * * * * *
995 TGCCACGGAGTTCTGGAC-TT-AATGGTTGCCATGGAGTTGTGGACTTAAAAGTTTGCCACAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTCTGGACGT-AAAGGTTGCCACAGAG
** * ** * * ** *
1058 TTGTAAACTTTACAA-TGGCGCCACGGTGTTGTGGAC-TTAAAAGTGTGCCAAAGAGTTATGGAC
65 TTGTGGAC-TTAAAAGTGTTGCCACGGAGTTGTGGACTTTAAAAG-GCGCCACGGAGTTGTGGAC
* * * * * ** * *
1121 TT-ACAAGGTTGCCACGGAGTTGTGAACTTTGGAAGGGTGCCACGGAGTTGTGGA-GTTAACAAG
128 TTAAAAATG-TGCCAAGGAGTTATGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTTTAA-AAG
* *
1184 GGTGCCAAGGAGTTGTGGACTTAAAAGTGTGCCA-AGGAGTTGTGGACTTTAAAAAG-GTGCCAC
190 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA-GAGTTGTGGACTTT-AAAAGTGTGCCAC
* **
1247 GGAGCTAAGGACTTAAAAGG
253 -GAGATGTGGACTTAAAAGG
1267 CTGCTACCGA
Statistics
Matches: 751, Mismatches: 133, Indels: 74
0.78 0.14 0.08
Matches are distributed among these distances:
322 64 0.09
323 65 0.09
324 107 0.14
325 312 0.42
326 124 0.17
327 77 0.10
328 1 0.00
329 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (325 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTCTGGACGTAAAGGTTGCCACAGAGT
TGTGGACTTAAAAGTGTTGCCACGGAGTTGTGGACTTTAAAAGGCGCCACGGAGTTGTGGACTTA
AAAATGTGCCAAGGAGTTATGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGGGTGCC
ACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGTGTGCCACGAGATGTG
GACTTAAAAGGTTGCCACGGACTTATGGACTTAAAGGTTGCCATGGAACTGTGCACTTAAAAATG
Found at i:1320 original size:54 final size:54
Alignment explanation
Indices: 3--1326 Score: 1130
Period size: 54 Copynumber: 24.4 Consensus size: 54
1 GT
* * * *
3 TTGTGGTACTTGAAAGGTTGCCACGGAGTTGTAGACTTTAAAAGG-CGCCACGGTG
1 TTGTGG-ACTTAAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACGGAG
** **
58 TTGTGGACTT-AAA-GTGTGCCAAAGAGTTAAGGACTTAAAAGGTTGCCACCGGAG
1 TTGTGGACTTAAAAGGT-TGCCACGGAGTTGTGGACTTAAAAGGTTGCCA-CGGAG
* * * * * *
112 TTGTGAACTTTGAAAGGGTGCCATGGAGTTATGGACTTAAAAAAGG-TGCCACTGAG
1 TTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTT--AAAAGGTTGCCACGGAG
* * * *
168 TTGTGGTCTGAAAA-GTATGCCAAGGAGTT-TGGACTTTAAAAAGG-TGCCACGAAG
1 TTGTGGACTTAAAAGGT-TGCCACGGAGTTGTGGAC-TT-AAAAGGTTGCCACGGAG
* ** * *
222 CTAAGGACTTAAAAGGTTGCCACGGAGTTGTGGACCT---AGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * * ***
273 CTGTTGACTTAAAAGGTTGCCACGAAGTTGTGGACTTAAAAGGTTGCCAAAAAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * ** * * * * *
327 CTATGGACTTAAAATATTGCCATGGAGTTGTAGACTTTTAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACGGAG
* * *
382 TTGTGGACTTAAAAGGTTGCCACGGAGTTATGGACTTAAAAGGTTGCCATGGAA
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * * * * * *
436 CTATGGACTTAAAA-ATGTGCCACGGAGTTGCGGAGTTTAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGT-TGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * * *
490 TTATGGACTTAAAAGGTTGCCACGGAGTTATGGACTTAATAGGTTGCCACAGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * * * *
544 TTGTAGACTTTAAAA-GTGTGCCAC-GAGCTGTAGACTTAAAAGGTTGCCATGGAC
1 TTGTGGAC-TTAAAAGGT-TGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * ** *
598 TTATGGACTTAAAAGGTTGCCATGGAACTGTGGACTTAAAA-ATGTGCCACGGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGT-TGCCACGGAG
* * * *
652 TTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACGTAAAAGGTTGCCACAGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* *
706 TTGTGGACTTAAAAGGTTGCCACGAAGTTAG-GGACTTTAAAAAGG-CGCCACGGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTT-GTGGAC-TT-AAAAGGTTGCCACGGAG
* * * * * **
761 TTGTGGACTTAAAAGTTTACCAAGGAGTTATGGACTTAAAAGGTTACCGTGGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * *
815 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGTACCACGGAG
1 TTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTT-AAAAGGTTGCCACGGAG
* * *
871 TTGTGGACTTTAAAAGG-GGCCACAGAGATGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * * ** **
925 TTGTGGACTT-AAAGGTTGCCATGGAGGTGTGCACTTAAAAATTTGCCATTGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * * *
978 TTGTGGACTTAAAAGGGTGCCACGGAGTTCTGGACTT-AATGGTTGCCATGGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* * ** * * *
1031 TTGTGGACTTAAAAGTTTGCCACAGAGTTGTAAACTTTACAATGG-CGCCACGGTG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGAC-TTA-AAAGGTTGCCACGGAG
** * *
1086 TTGTGGACTTAAAA-GTGTGCCAAAGAGTTATGGACTTACAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGGT-TGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
* ** * * * *
1140 TTGTGAACTTTGGAAGGGTGCCACGGAGTTGTGGAGTTAACAAGGGTGCCAAGGAG
1 TTGTGGAC-TTAAAAGGTTGCCACGGAGTTGTGGACTTAA-AAGGTTGCCACGGAG
*
1196 TTGTGGACTTAAAA-GTGTGCCAAGGAGTTGTGGACTTTAAAAAGG-TGCCACGGAG
1 TTGTGGACTTAAAAGGT-TGCCACGGAGTTGTGGAC-TT-AAAAGGTTGCCACGGAG
* ** * * * * * **
1251 CTAAGGACTTAAAAGGCTGCTACCGAGCTGTTGACTTCGAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
1305 TTGTGGACTTAAAAGGTT-CCAC
1 TTGTGGACTTAAAAGGTTGCCAC
1327 AACCCCAAGG
Statistics
Matches: 1019, Mismatches: 203, Indels: 96
0.77 0.15 0.07
Matches are distributed among these distances:
50 3 0.00
51 41 0.04
52 15 0.01
53 130 0.13
54 439 0.43
55 277 0.27
56 100 0.10
57 8 0.01
58 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (54 bp):
TTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAG
Found at i:1365 original size:27 final size:27
Alignment explanation
Indices: 1346--3802 Score: 938
Period size: 27 Copynumber: 89.9 Consensus size: 27
1336 GCAACCAATT
* *
1346 AAGTCCACAACTCTGTGGCACCTTTTG
1 AAGTCCACAACTCCGTGGCACCTTTTC
*
1373 AAGTCCACAACTCCGTGGCACATTTTC
1 AAGTCCACAACTCCGTGGCACCTTTTC
* * * *
1400 AAATGCACACCTCCATGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* *
1427 AAGTCCACATCTCCGTGGCACACTTTTA
1 AAGTCCACAACTCCGTGGCAC-CTTTTC
* * *
1455 AAGTCCACAATTCTGTGGCACCCTTTCC
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
*
1483 AAGTTCACAACTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * **
1510 AAGCCCAAAACTCTTTGGCACACTTTT-
1 AAGTCCACAACTCCGTGGCAC-CTTTTC
* *
1537 AAGTCCACAACACCGTGGCACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* *
1565 AAGTCTACAACTCCATGGCAACC-TTTC
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* ** *
1592 AAGTCCACAACCCCAAGGTAGCCTTTT-
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
1619 AAGTCCACAACTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * *
1646 AAGTCAACAGCT-CGATAGCAACCTTTT-
1 AAGTCCACAACTCCG-TGGC-ACCTTTTC
* * * *
1673 AAGTCCATAGCTCC-TGGCGCCTGTTTA
1 AAGTCCACAACTCCGTGGCACCT-TTTC
*
1700 AAGTCCATAACTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * *
1727 AAGTCCATAACCCCTTGGCACACTTTT-
1 AAGTCCACAACTCCGTGGCAC-CTTTTC
* * * *
1754 AAGTCCATAACTCCGTGACACTTTTTTTT
1 AAGTCCACAACTCCGTGGCAC--CTTTTC
*
1783 AAGTCCACAACTCCGTGGCACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* * *
1811 AAGTCCATAACTCCATGGCAACCATTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* *
1838 AAGTCCACAGCTTCGTGG--CCTATTTC
1 AAGTCCACAACTCCGTGGCACCT-TTTC
* *
1864 TAAGCCCACAGCTCCGTGGCAACCTTTT-
1 -AAGTCCACAACTCCGTGGC-ACCTTTTC
**
1892 AAGTCCATGACTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * * *
1919 AAGTCCATAGCTCCATGGCACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* * *
1947 AAGTCTACAACCCCATGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* *
1974 AAGTCCACAACTCCGTGGCAAC-ATTC
1 AAGTCCACAACTCCGTGGCACCTTTTC
*
2000 TAAGTCTACAACTCCGTGGCACCCTTTT-
1 -AAGTCCACAACTCCGTGGCA-CCTTTTC
* * * *
2028 AAGTCTACAACTCTGCGGCACATCTTT-
1 AAGTCCACAACTCCGTGGCACCT-TTTC
* *
2055 AAGTCCACAGCTCCATGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
*
2082 AAGTCCACAACTCTGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * * *
2109 AAGTCAACAGCTCCATAGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * * *
2136 AAGTCCATATCTCCGTGGCACTTTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTC
*
2163 AAGTCCACAACTTCCG-GGTAACCTTTT-
1 AAGTCCACAAC-TCCGTGG-CACCTTTTC
* * * *
2190 ACGTCTATAACTCCTTGGCACACTTTT-
1 AAGTCCACAACTCCGTGGCAC-CTTTTC
* * *
2217 AAGCCCACAACTCCATGGCACCTTTTTTT
1 AAGTCCACAACTCCGTGGCACC--TTTTC
* *
2246 AAGTCCACAACTCCGTGGTACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
**
2274 AAGTCCACAACTCCCAGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * * *
2301 AAGCCCATAACTCCTTGGCACAATTTT-
1 AAGTCCACAACTCCGTGGCAC-CTTTTC
* ** *** * * *
2328 AAGTGGC-GTA-TTTTTAAG-TCC---AC
1 AAGT-CCACAACTCCGT-GGCACCTTTTC
* * * * *** **
2351 AACTCCATGGAA-ACCTTTTAAGTCCATAACTC
1 AAGTCCA--CAACTCCGTGGCA--CC-T-TTTC
* * ** * *
2383 -TGTGGCACATTTTTACGT-CCACAGCTCTTTGGC
1 AAGT-CCACA--ACTCCGTGGCAC--CT-TTT--C
** * **** * * **
2416 AA--CCTTTTAAGTCCACAACTCCATGGC
1 AAGTCC--ACAACTCCGTGGCACCTTTTC
** * **** * * **
2443 AA--CCTTTTAAGTCAACAGCTCCGTGGC
1 AAGTCC--ACAACTCCGTGGCACCTTTTC
** ** **** * * **
2470 AA--CCTTTTAGGTCCACAACTCCGTGGC
1 AAGTCC--ACAACTCCGTGGCACCTTTTC
** * * ** * *
2497 AA--CCTTTTAAGTCCATAACTCCTTGGCATACTTTT
1 AAGTCC--ACAACTCCGTGGCACC------T--TTTC
* *
2532 AAGTCCACAAGTCTGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * *
2559 AAGTCCATAACTCCGTGGCACATTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC
* * *
2586 AAGTCCACAGCTCTGAGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
** *
2613 AAGTCCACAACTCCACGACAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
*
2640 AAGTCCACAACTCCGTGGCAACTTCTT-
1 AAGTCCACAACTCCGTGGCACCTT-TTC
* *
2667 AAGTCCACAACGCCTTGGCACCCTTTT-
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* * * *
2694 AAGTCCACAGCTCTGTGGCACATTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC
* * *
2721 AAGTCTACAGCTCTGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
*
2748 AAGTCCACAGCTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* *
2775 AGGTCCACAACTCTGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * *
2802 AAGTCCATAACTCCTTGGCATACTTTT-
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* * * *
2829 AAGTCCACAAGTCTGAGACAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * *
2856 AAGTCCATAACTCCGTGGCACATTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC
* ***
2883 AAGTCCACAGCTCTAAGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
2910 AAGTCCACAACTCCAG-GGCAACCTTTT-
1 AAGTCCACAACTCC-GTGGC-ACCTTTTC
*
2937 AAGTACACAACTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
2964 AAGTCCACAA-TCCCGTGGCACCCTTTT-
1 AAGTCCACAACT-CCGTGGCA-CCTTTTC
* * * *
2991 AAGTCCATAACTCTGTGGCACTTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC
* * *
3018 AAATCCACAGCTCCGTGACAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
3045 AAGTCCACAACTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
*
3072 AAGTCCACAACTCCTTGGCACGCTTTT-
1 AAGTCCACAACTCCGTGGCAC-CTTTTC
** *
3099 AAGTCCACAACTCTATGGCACCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* *
3127 AAGTCCACAACTCCGTGCCACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* *
3155 AAGTCCACAACTCAGTGGCAACC-TTTA
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* *
3182 AAGTCCACAACTCCGTGGCACATTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC
*
3209 AAGTCCACAACTCCATGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
3236 AAGTCCACAACTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
*
3263 AAGTCCACAACTCCATGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
** * *
3290 AAGTTTACAACTCCGTGACACCCTTTTA
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* *
3318 AAGTCCACAACCCCATGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * *
3345 AAGTCTAAAACTCCGTGCCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * *
3372 AAGCCCACAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTC
* *
3399 AAGTCCACAACTTCGTGGC-CCATTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTC
* * * *
3426 AAGTCCAGAGCTCCATGGCAACTTTT-
1 AAGTCCACAACTCCGTGGCACCTTTTC
*
3452 AAGTCCACAACTCTGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
*
3479 AAGTCCACAACTCCGTGGCACACTTTTA
1 AAGTCCACAACTCCGTGGCAC-CTTTTC
* * **
3507 AAGTCCCCAACCCCACAGT-AAACCTTTT-
1 AAGTCCACAA-CTC-C-GTGGCACCTTTTC
* *
3535 AAGTCCACAACTCTGTGGCACCTTTTTA
1 AAGTCCACAACTCCGTGGCACC-TTTTC
** *
3563 AAGTCTGCAACTCTGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* * * *
3590 AAGTCCACAAGTCTGCGGCAACCATTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* ** * * *
3617 AAGTCCATAACTTTGTGCCACATTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC
* * *
3644 AGGTCCACAGCTCCGT-GCAACATTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
*
3670 AAGTCCACAGCTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
* *
3697 AAGTTCACAACCCCGTGGCACCCTTTT-
1 AAGTCCACAACTCCGTGGCA-CCTTTTC
* * * *
3724 AAGTCCACAACTCCATAGCACATTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTC
* *
3751 AAGTCCGCAGCTCCGTGGCAACCTTTT-
1 AAGTCCACAACTCCGTGGC-ACCTTTTC
3778 AAGTCCACAACTCCGTGGCAACCTT
1 AAGTCCACAACTCCGTGGC-ACCTT
3803 GTAACTCAAC
Statistics
Matches: 1922, Mismatches: 377, Indels: 262
0.75 0.15 0.10
Matches are distributed among these distances:
22 1 0.00
23 3 0.00
24 2 0.00
25 14 0.01
26 128 0.07
27 1343 0.70
28 323 0.17
29 62 0.03
30 13 0.01
31 8 0.00
32 7 0.00
33 4 0.00
35 10 0.01
36 2 0.00
37 2 0.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCTTTTC
Found at i:1431 original size:54 final size:53
Alignment explanation
Indices: 1344--3829 Score: 2092
Period size: 54 Copynumber: 46.0 Consensus size: 53
1334 AGGCAACCAA
* *
1344 TTAAGTCCACAACTCTGTGGC-ACCTTTTGAAGTCCACAACTCCGTGGCACATT
1 TTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCACCTT
* * * * *
1397 TTCAAATGCACACCTCCATGGCAACCTTTTAAGTCCACATCTCCGTGGCACACTT
1 TT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAC-CTT
* * * * *
1452 TTAAAGTCCACAATTCTGTGGCACCCTTTCCAAGTTCACAACTCCGTGGCAACCTT
1 TT-AAGTCCACAACTCCGTGGCAACCTTT-TAAGTCCACAACTCCGTGGC-ACCTT
* * ** *
1508 TTAAGCCCAAAACTCTTTGGC-ACACTTTTAAGTCCACAACACCGTGGCACCCTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCA-CCTT
* * * * ** *
1562 TTAAAGTCTACAACTCCATGGCAACCTTTCAAGTCCACAACCCCAAGGTAGCCTT
1 TT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCA-CCTT
* * *
1617 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCAACAGCT-CGATAGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCG-TGGC-ACCTT
* * * *
1671 TTAAGTCCATAGCTCC-TGGC-GCCTGTTTAAAGTCCATAACTCCGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCT-TTT-AAGTCCACAACTCCGTGGC-ACCTT
* * * * * *
1725 TTAAGTCCATAACCCCTTGGC-ACACTTTTAAGTCCATAACTCCGTGACACTTTTTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCAC---CTT
* * * *
1781 TTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCATAACTCCATGGCAACCAT
1 TTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGC-ACCTT
* * * * *
1836 TTAAGTCCACAGCTTCGTGGC--CTATTTCTAAGCCCACAGCTCCGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTT-TAAGTCCACAACTCCGTGGC-ACCTT
** * * *
1890 TTAAGTCCATGACTCCGTGGCAACCTTTTAAGTCCATAGCTCCATGGCACCCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCA-CCTT
* * * *
1944 TTAAAGTCTACAACCCCATGGCAACCTTTTAAGTCCACAACTCCGTGGCAACATT
1 TT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * * * * * *
1999 CTAAGTCTACAACTCCGTGGCACCCTTTTAAGTCTACAACTCTGCGGCACATCT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCACCT-T
* * *
2053 TTAAGTCCACAGCTCCATGGCAACCTTTTAAGTCCACAACTCTGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * * * * * *
2107 TTAAGTCAACAGCTCCATAGCAACCTTTTAAGTCCATATCTCCGTGGCACTTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCACCTT
* * * * *
2160 TTAAAGTCCACAACTTCCG-GGTAACCTTTTACGTCTATAACTCCTTGGCACACTT
1 TT-AAGTCCACAAC-TCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAC-CTT
* * *
2215 TTAAGCCCACAACTCCATGGC-ACCTTTTTTTAAGTCCACAACTCCGTGGTACCCTT
1 TTAAGTCCACAACTCCGTGGCAACC---TTTTAAGTCCACAACTCCGTGGCA-CCTT
** * * * **
2271 TTAAAGTCCACAACTCCCAGGCAACCTTTTAAGCCCATAACTCCTTGGCACAAT
1 TT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCACCTT
* * * *
2325 TT---T----AA----GTGGCGTA-TTTTTAAGTCCACAACTCCATGGAAACCTT
1 TTAAGTCCACAACTCCGTGGC-AACCTTTTAAGTCCACAACTCCGTGG-CACCTT
* * * * * **
2368 TTAAGTCCATAACTCTGTGGC-ACATTTTTACGTCCACAGCTCTTTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * *
2422 TTAAGTCCACAACTCCATGGCAACCTTTTAAGTCAACAGCTCCGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * * *
2476 TTAGGTCCACAACTCCGTGGCAACCTTTTAAGTCCATAACTCCTTGGCATACTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCA-CCTT
* * * *
2530 TTAAGTCCACAAGTCTGTGGCAACCTTTTAAGTCCATAACTCCGTGGCACATTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAC-CTT
* * * ** *
2584 TTAAGTCCACAGCTCTGAGGCAACCTTTTAAGTCCACAACTCCACGACAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* *
2638 TTAAGTCCACAACTCCGTGGCAA-CTTCTTAAGTCCACAACGCCTTGGCACCCTT
1 TTAAGTCCACAACTCCGTGGCAACCTT-TTAAGTCCACAACTCCGTGGCA-CCTT
* * * * * *
2692 TTAAGTCCACAGCTCTGTGGC-ACATTTTTAAGTCTACAGCTCTGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * *
2746 TTAAGTCCACAGCTCCGTGGCAACCTTTTAGGTCCACAACTCTGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * * * * *
2800 TTAAGTCCATAACTCCTTGGCATA-CTTTTAAGTCCACAAGTCTGAGACAACCTT
1 TTAAGTCCACAACTCCGTGGCA-ACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * * ***
2854 TTAAGTCCATAACTCCGTGGC-ACATTTTTAAGTCCACAGCTCTAAGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGC-ACCTT
*
2908 TTAAGTCCACAACTCCAG-GGCAACCTTTTAAGTACACAACTCCGTGGCAACCTT
1 TTAAGTCCACAACTCC-GTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * * *
2962 TTAAGTCCACAA-TCCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACTTTT
1 TTAAGTCCACAACT-CCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAC-CTT
* * *
3016 TTAAATCCACAGCTCCGTGACAACCTTTTAAGTCCACAACTCCGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* **
3070 TTAAGTCCACAACTCCTTGGC-ACGCTTTTAAGTCCACAACTCTATGGCACCCTTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCA-CC-TT
* * *
3125 TTAAGTCCACAACTCCGTGCCACCCTTTTAAAGTCCACAACTCAGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGC-ACCTT
* * *
3180 TAAAGTCCACAACTCCGTGGC-ACATTTTTAAGTCCACAACTCCATGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGC-ACCTT
*
3234 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
** * * * *
3288 TTAAGTTTACAACTCCGTGACACCCTTTTAAAGTCCACAACCCCATGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGC-ACCTT
* * * *
3343 TTAAGTCTAAAACTCCGTGCCAACCTTTTAAGCCCACAACTCCGTGGCACCCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCA-CCTT
* * * * * *
3397 TAAAGTCCACAACTTCGTGGC--CCATTTTTAAGTCCAGAGCTCCATGGCAACTT
1 TTAAGTCCACAACTCCGTGGCAACC--TTTTAAGTCCACAACTCCGTGGCACCTT
*
3450 TTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCGTGGCACACTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAC-CTT
* * ** ** *
3504 TTAAAGTCCCCAACCCCACAGTAAACCTTTTAAGTCCACAACTCTGTGGCACCTTT
1 TT-AAGTCCACAACTCC-GTGGCAACCTTTTAAGTCCACAACTCCGTGGCACC-TT
** * * * * *
3560 TTAAAGTCTGCAACTCTGTGGCAACCTTTTAAGTCCACAAGTCTGCGGCAACCAT
1 TT-AAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
* ** * * * * *
3615 TTAAGTCCATAACTTTGT-GCCACATTTTTAGGTCCACAGCTCCGT-GCAACATT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * *
3668 TTAAGTCCACAGCTCCGTGGCAACCTTTTAAGTTCACAACCCCGTGGCACCCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCA-CCTT
* * * * *
3722 TTAAGTCCACAACTCCATAGC-ACATTTTTAAGTCCGCAGCTCCGTGGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGC-ACCTT
* * * * *
3776 TTAAGTCCACAACTCCGTGGCAACCTTGTAACTCAACAGCTCCGTAGCAACCTT
1 TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACCTT
3830 GTTAGGATCT
Statistics
Matches: 1987, Mismatches: 343, Indels: 205
0.78 0.14 0.08
Matches are distributed among these distances:
42 22 0.01
43 6 0.00
46 3 0.00
50 3 0.00
52 7 0.00
53 130 0.07
54 1269 0.64
55 360 0.18
56 144 0.07
57 38 0.02
58 5 0.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (53 bp):
TTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCACCTT
Found at i:1712 original size:81 final size:80
Alignment explanation
Indices: 1335--3829 Score: 2044
Period size: 81 Copynumber: 30.8 Consensus size: 80
1325 ACAACCCCAA
** * *
1335 GGCAACCAATTAAGTCCACAACTCTGTGGC-ACCTTTTGAAGTCCACAACTCCGTGGC-ACATTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAACCTTT
* * * *
1398 TCAAATGCACACCTCCAT
65 T-AAGTCCACAACT-CGT
* * * *
1416 GGCAACCTTTTAAGTCCACATCTCCGTGGC-ACACTTTTAAAGTCCACAATTCTGTGGCACCCTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTTT-AAGTCCACAACTCCGTGGCAACCTT
* *
1480 TCCAAGTTCACAACTCCGT
64 T-TAAGTCCACAACT-CGT
* * ** * *
1499 GGCAACCTTTTAAGCCCAAAACTCTTTGGC-ACACTTTTAAGTCCACAACACCGTGGCACCCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTT
* *
1563 TAAAGTCTACAACTCCAT
65 T-AAGTCCACAACT-CGT
* * ** * *
1581 GGCAACCTTTCAAGTCCACAACCCCAAGGTAGCCTTTTAAGTCCACAACTCCGTGGCAACCTTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTT
* *
1646 AAGTCAACAGCTCGAT
66 AAGTCCACAACTCG-T
* * * * *
1662 AGCAACCTTTTAAGTCCATAGCTCC-TGGC-GCCTGTTTAAAGTCCATAACTCCGTGGCAACCTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCT-TTT-AAGTCCACAACTCCGTGGCAACCTT
* * *
1725 TTAAGTCCATAACCCCTT
64 TTAAGTCCACAA-CTCGT
* * * *
1743 GGC-ACACTTTTAAGTCCATAACTCCGTGAC-ACTTTTTTTTAAGTCCACAACTCCGTGGCACCC
1 GGCAAC-CTTTTAAGTCCACAACTCCGTGGCAAC---CTTTTAAGTCCACAACTCCGTGGCAACC
* *
1806 TTTTAAAGTCCATAACTCCAT
62 TTTT-AAGTCCACAACT-CGT
* * * * * *
1827 GGCAACCATTTAAGTCCACAGCTTCGTGGC--CTATTTCTAAGCCCACAGCTCCGTGGCAACCTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTT-TAAGTCCACAACTCCGTGGCAACCTT
**
1890 TTAAGTCCATGACTCCGT
64 TTAAGTCCACAACT-CGT
* * * * * * *
1908 GGCAACCTTTTAAGTCCATAGCTCCATGGCACCCTTTTAAAGTCTACAACCCCATGGCAACCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAACCTTT
1973 TAAGTCCACAACTCCGT
65 TAAGTCCACAACT-CGT
* * * * * * * *
1990 GGCAACATTCTAAGTCTACAACTCCGTGGCACCCTTTTAAGTCTACAACTCTGCGGC-ACATCTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCT-TT
* *
2054 TAAGTCCACAGCTCCAT
65 TAAGTCCACAACT-CGT
* * * * *
2071 GGCAACCTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCAACAGCTCCATAGCAACCTTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTT
* *
2136 AAGTCCATATCTCCGT
66 AAGTCCACAACT-CGT
* * * * * *
2152 GGC-ACTTTTTAAAGTCCACAACTTCCG-GGTAACCTTTTACGTCTATAACTCCTTGGC-ACACT
1 GGCAACCTTTT-AAGTCCACAAC-TCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CT
* *
2214 TTTAAGCCCACAACTCCAT
63 TTTAAGTCCACAACT-CGT
* * **
2233 GGC-ACCTTTTTTTAAGTCCACAACTCCGTGGTACCCTTTTAAAGTCCACAACTCCCAGGCAACC
1 GGCAACC---TTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAACC
* * *
2297 TTTTAAGCCCATAACTCCTT
62 TTTTAAGTCCACAACT-CGT
** * * * *
2317 GGC-ACAATTT---T----AA----GTGGCGTA-TTTTTAAGTCCACAACTCCATGGAAACCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGC-AACCTTTTAAGTCCACAACTCCGTGGCAACCTTT
*
2369 TAAGTCCATAACTCTGT
65 TAAGTCCACAACTC-GT
* * * ** *
2386 GGC-ACATTTTTACGTCCACAGCTCTTTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTTT
1 GGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTT
* *
2450 TAAGTCAACAGCTCCGT
65 TAAGTCCACAACT-CGT
* * *
2467 GGCAACCTTTTAGGTCCACAACTCCGTGGCAACCTTTTAAGTCCATAACTCCTTGGCATA-CTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCA-ACCTTT
*
2531 TAAGTCCACAAGTCTGT
65 TAAGTCCACAACTC-GT
* * * * *
2548 GGCAACCTTTTAAGTCCATAACTCCGTGGC-ACATTTTTAAGTCCACAGCTCTGAGGCAACCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTT
**
2612 TAAGTCCACAACTCCAC
65 TAAGTCCACAACT-CGT
* * * *
2629 GACAACCTTTTAAGTCCACAACTCCGTGGCAA-CTTCTTAAGTCCACAACGCCTTGGCACCCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTT-TTAAGTCCACAACTCCGTGGCAACCTTT
*
2693 TAAGTCCACAGCTCTGT
65 TAAGTCCACAACTC-GT
* * * * *
2710 GGC-ACATTTTTAAGTCTACAGCTCTGTGGCAACCTTTTAAGTCCACAGCTCCGTGGCAACCTTT
1 GGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTT
*
2774 TAGGTCCACAACTCTGT
65 TAAGTCCACAACTC-GT
* * * * * *
2791 GGCAACCTTTTAAGTCCATAACTCCTTGGCATA-CTTTTAAGTCCACAAGTCTGAGACAACCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCA-ACCTTTTAAGTCCACAACTCCGTGGCAACCTTT
*
2855 TAAGTCCATAACTCCGT
65 TAAGTCCACAACT-CGT
* * ***
2872 GGC-ACATTTTTAAGTCCACAGCTCTAAGGCAACCTTTTAAGTCCACAACTCCAG-GGCAACCTT
1 GGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCC-GTGGCAACCTT
*
2935 TTAAGTACACAACTCCGT
64 TTAAGTCCACAACT-CGT
* * * *
2953 GGCAACCTTTTAAGTCCACAA-TCCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGC-ACTTTT
1 GGCAACCTTTTAAGTCCACAACT-CCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTT
* *
3016 TTAAATCCACAGCTCCGT
64 TTAAGTCCACAACT-CGT
* *
3034 GACAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCTTGGC-ACGCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTT
*
3098 TAAGTCCACAACTCTAT
65 TAAGTCCACAACTC-GT
* * * *
3115 GGCACCCTTTTTAAGTCCACAACTCCGTGCCACCCTTTTAAAGTCCACAACTCAGTGGCAACCTT
1 GGCAACC-TTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAACCTT
*
3180 TAAAGTCCACAACTCCGT
64 TTAAGTCCACAACT-CGT
* *
3198 GGC-ACATTTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTT
1 GGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTT
*
3262 TAAGTCCACAACTCCAT
65 TAAGTCCACAACT-CGT
** * * * *
3279 GGCAACCTTTTAAGTTTACAACTCCGTGACACCCTTTTAAAGTCCACAACCCCATGGCAACCTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCGTGGCAACCTTT
* *
3344 TAAGTCTAAAACTCCGT
65 TAAGTCCACAACT-CGT
* * * * *
3361 GCCAACCTTTTAAGCCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTTCGTGGC--CCATTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACC--TT
* * *
3424 TTAAGTCCAGAGCTCCAT
64 TTAAGTCCACAACT-CGT
*
3442 GGCAA-CTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCGTGGC-ACACTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTT
* * **
3505 TAAAGTCCCCAACCCCACA
65 T-AAGTCCACAA-CTC-GT
** * ** *
3524 GTAAACCTTTTAAGTCCACAACTCTGTGGC-ACCTTTTTAAAGTCTGCAACTCTGTGGCAACCTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACC-TTTT-AAGTCCACAACTCCGTGGCAACCTT
* *
3588 TTAAGTCCACAAGTCTGC
64 TTAAGTCCACAACTC-GT
* * ** * * * * *
3606 GGCAACCATTTAAGTCCATAACTTTGT-GCCACATTTTTAGGTCCACAGCTCCGT-GCAACATTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTTTAAGTCCACAACTCCGTGGCAACCTTT
*
3669 TAAGTCCACAGCTCCGT
65 TAAGTCCACAACT-CGT
* * * * * *
3686 GGCAACCTTTTAAGTTCACAACCCCGTGGCACCCTTTTAAGTCCACAACTCCATAGC-ACATTTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAAC-CTTT
* *
3750 TAAGTCCGCAGCTCCGT
65 TAAGTCCACAACT-CGT
* * * * *
3767 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTGTAACTCAACAGCTCCGTAGCAACCTT
1 GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTT
3830 GTTAGGATCT
Statistics
Matches: 1971, Mismatches: 347, Indels: 192
0.79 0.14 0.08
Matches are distributed among these distances:
68 1 0.00
69 41 0.02
70 11 0.01
73 1 0.00
74 2 0.00
77 1 0.00
78 1 0.00
79 6 0.00
80 147 0.07
81 1069 0.54
82 408 0.21
83 173 0.09
84 103 0.05
85 7 0.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (80 bp):
GGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCAACCTTTT
AAGTCCACAACTCGT
Found at i:2389 original size:69 final size:69
Alignment explanation
Indices: 2269--2397 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 69
2259 CGTGGTACCC
*
2269 TTTTAAAGTCCACAACTCCCAGGCAACCTTTTAAGCCCATAACTCCTTGGCACAATTTTAAGTGG
1 TTTTAAAGTCCACAACTCCCAGGAAACCTTTTAAGCCCATAACTCCTTGGCACAATTTTAAGTGG
2334 CGTA
66 CGTA
* * *
2338 TTTTTAAGTCCACAACT-CCATGGAAACCTTTTAAGTCCATAACT-CTGTGGCACATTTTTA
1 TTTTAAAGTCCACAACTCCCA-GGAAACCTTTTAAGCCCATAACTCCT-TGGCACAATTTTA
2398 CGTCCACAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
68 5 0.09
69 49 0.91
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (69 bp):
TTTTAAAGTCCACAACTCCCAGGAAACCTTTTAAGCCCATAACTCCTTGGCACAATTTTAAGTGG
CGTA
Found at i:3818 original size:27 final size:27
Alignment explanation
Indices: 3758--3831 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
3748 TTTAAGTCCG
* * *
3758 CAGCTCCGTGGCAACCTTTTAAGTCCA
1 CAGCTCCGTGGCAACCTTGTAACTCAA
*
3785 CAACTCCGTGGCAACCTTGTAACTCAA
1 CAGCTCCGTGGCAACCTTGTAACTCAA
*
3812 CAGCTCCGTAGCAACCTTGT
1 CAGCTCCGTGGCAACCTTGT
3832 TAGGATCTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (27 bp):
CAGCTCCGTGGCAACCTTGTAACTCAA
Found at i:5055 original size:27 final size:26
Alignment explanation
Indices: 5023--5141 Score: 78
Period size: 29 Copynumber: 4.3 Consensus size: 26
5013 TTTAAAGTTT
5023 ACAACTCTGTGCCA-ACGTTTTAAGTCC
1 ACAACTCT-TGCCACAC-TTTTAAGTCC
* *
5050 ATAACTCCTTGGCACACTTTTAAGTCC
1 ACAACT-CTTGCCACACTTTTAAGTCC
* * *
5077 ACAACTCCGTGGCACCCTTTTTTAAGTCC
1 ACAACT-CTTGCCACAC--TTTTAAGTCC
* * *
5106 ACAACTCCATGGCACCCTTTTTTAAGTCC
1 ACAACT-CTTGCCACAC--TTTTAAGTCC
5135 ACAACTC
1 ACAACTC
5142 CATGGCACGC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
27 33 0.40
28 5 0.06
29 44 0.54
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (26 bp):
ACAACTCTTGCCACACTTTTAAGTCC
Found at i:5202 original size:27 final size:27
Alignment explanation
Indices: 4981--7199 Score: 1775
Period size: 27 Copynumber: 81.3 Consensus size: 27
4971 AAAGCTTTCA
* *
4981 AACCTTTTAAGTCCATAGC-CCTGTGGC
1 AACCTTTTAAGTCCACAACTCC-GTGGC
** * *
5008 -ACCTTTTTAAAGTTTACAACTCTGTGCC
1 AACC-TTTT-AAGTCCACAACTCCGTGGC
* * *
5036 AACGTTTTAAGTCCATAACTCCTTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
5063 -ACACTTTTAAGTCCACAACTCCGTGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
* *
5090 ACCCTTTTTTAAGTCCACAACTCCATGGC
1 AACC--TTTTAAGTCCACAACTCCGTGGC
* *
5119 ACCCTTTTTTAAGTCCACAACTCCATGGC
1 AACC--TTTTAAGTCCACAACTCCGTGGC
* * *
5148 -ACGCTTTTAAAATCCATAACTCCATGGC
1 AAC-CTTTT-AAGTCCACAACTCCGTGGC
* * *
5176 AACCTTTTAAGTACATAATTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
5203 --CCATTTCTAAGTCCACAGCACCGTGGC
1 AACC-TTT-TAAGTCCACAACTCCGTGGC
* *
5230 AACCTTTTAAGTCTACAACTCTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * * * *
5257 AACCTTTTAGGTCCATAGCTCTGTGTC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * ** * *
5284 ACCCTTTTAAAGCCCGTAACCCCATGGC
1 AACCTTTT-AAGTCCACAACTCCGTGGC
*
5312 AACCTCTTAAGTCCACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
5339 AACCTTCTAAGTGCACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
5366 ACCCTTTTAATTCCACAACTCCGTTGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * * *
5393 -ACATCTTTAAGTCTACAGCTCCGTGGT
1 AACCT-TTTAAGTCCACAACTCCGTGGC
* *
5420 AACCTTTTAAGTCTAGAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * * * * *
5447 AACGTTTTAAGTCAATAGCACCGTAGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
5474 GACCTTTTAAGTCCATAACTCCATGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
5501 -ACGCTTTTAAGACCACAACTTCATGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
*
5528 ACCCTTTTTTAAGTCCACAACTCCGTGGC
1 AACC--TTTTAAGTCCACAACTCCGTGGC
* *
5557 -ACCATTTTAAAGTCCATAATTCCGTGGC
1 AACC-TTTT-AAGTCCACAACTCCGTGGC
* *
5585 AACCTTTTAAGTCTAAAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
*
5612 --CCATTTTTAAGCCCACAACTCCGTGGC
1 AACC--TTTTAAGTCCACAACTCCGTGGC
* * *
5639 GACCTTTAAAGTCCACAACTTCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
5666 -ACATTTTAAAGTCCACAGCTCCGTGGC
1 AACCTTTT-AAGTCCACAACTCCGTGGC
* * *
5693 AACCGTTTAAGTCTACAACTCCGTGGT
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
5720 AATCTTTTAAGTCGACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * * *
5747 ACCCTTTTAAAGTCCACAACCCCTTGGT
1 AACCTTTT-AAGTCCACAACTCCGTGGC
* *
5775 AACCTTTTAAGTCTACAACTTCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* **
5802 AACCTTTTAATTCTGCAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
5829 ACCCTTTTAAGTCCACAACTCTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
5856 -ACATTTTTAAGTCAACAGCTCCGTGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
* * * *
5883 ATCCTTTTAAGTCAACAACCCCATGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
5910 AACTTTTTAGGTCCACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
*
5937 AACCTTTTAAGTCCACAACTCTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
5964 ACCCTTTTAAGTACACAAC-CTCATGGC
1 AACCTTTTAAGTCCACAACTC-CGTGGC
** * * *
5991 GCCCTTTTATGTCCACAACTCCATAGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6018 ATA-TTTTTAAGTCCACAGCTCCGTGGC
1 A-ACCTTTTAAGTCCACAACTCCGTGGC
*
6045 AACCTTTTAAGCCCACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * **
6072 AACCTATTAAGTCCACAGCTTTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6099 AACATTTTAAGTCCATAA-TCTCGTGGC
1 AACCTTTTAAGTCCACAACTC-CGTGGC
* *
6126 ACCCTTTTAAGTCCACAACTCCGTGAC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6153 ACCCTTTTAAAGCCCACAACTCCGTGGC
1 AACCTTTT-AAGTCCACAACTCCGTGGC
* *
6181 -ACTCTTTTAAGCCCATAACTCCGTGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
* * * * *
6208 -ACATTTTTAAGTCCATAGCTCTGCGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
*
6235 AATCC-TTTAAGTCAACAACTCCGTGGC
1 AA-CCTTTTAAGTCCACAACTCCGTGGC
* * * * *
6262 AACCTTTTTAGTCAATAGCTCCGTAGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
** * *
6289 AACCTTTTAAGTCCTTAGCTCTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
*
6316 -ACCTTTTTAAAGTCCACAACTCTGTGGC
1 AACC-TTTT-AAGTCCACAACTCCGTGGC
* * * *
6344 AGCCTTTTAAGTCAACAGCTCCGTAGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6371 AACCTTTTAAGTCCATAACTCCTTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6398 -ACACTTTTAAGTCTACAACTCTGTGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
**
6425 ACATTTTTTTAAGTCCACAACTCCG-GGTC
1 A-A-CCTTTTAAGTCCACAACTCCGTGG-C
* * * *
6454 AACCTTTTAAATCCTCAACTCCATGGT
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6481 ACCCTTTTAAGTCCATAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6508 -ACATTTTTAAGTCCACAGCTCCGTGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
* * *
6535 ATCCTTTTATGTCCACAACTCCATGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
6562 AACTTTTTAAGTTCACATCTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6589 ACCCTTTTAAAGTCTACAACTCCGTGGC
1 AACCTTTT-AAGTCCACAACTCCGTGGC
* * * *
6617 ACCCTTTTTAGGTCCATAACTCGGTGGC
1 AACC-TTTTAAGTCCACAACTCCGTGGC
** *
6645 -ACCGTTTTAAAG-CACACAACTCCACGGT
1 AACC-TTTT-AAGTC-CACAACTCCGTGGC
* *
6673 AACCTTTTAAGTCCATAACTCCTTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
6700 -ACACTTTTAAGTCCACAACTCCGTGG-
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
6726 AACCCTTTTAAAGTCCACAACTCCGTGGC
1 AA-CCTTTT-AAGTCCACAACTCCGTGGC
* *
6755 AGCCTTTTATGTCCACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6782 -ACATTTTTAAGTCCACAGCTCCGTGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
*
6809 AACCTTTTAAGTCAACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * * * *
6836 AACCTTTTTAGTCAACACCTCCATAGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
** *
6863 AACCTTTTAAGTCCTTAGCTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
6890 -ACCTTTTTAAAGACCATAACTCTGTGGC
1 AACC-TTTT-AAGTCCACAACTCCGTGGC
* * * *
6918 AGCCTTTTAAGTCAACAAGTCCGTAGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
** *
6945 AACCTTTTAAGTCCGTAACTCCTTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
6972 -ACACTTTTAAGTCCACAAATCCGTGGT
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
** * ** *
6999 GCCCTTTTTTAAGTCTACAACTCCAAGTC
1 AACC--TTTTAAGTCCACAACTCCGTGGC
* **
7028 AACCTTTTAAGTCCTCAACTTTGTGG-
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
7054 TACACTTTTAAGTCCATAACTCCATGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
* *
7082 -ACATTTTTAAGTCCACAGCTCCGTGGC
1 AAC-CTTTTAAGTCCACAACTCCGTGGC
* * *
7109 ATCATTTTAAGTCCACAACTCCGTGGT
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
7136 AACCTTTTAAGTCCGCAGCTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
7163 ATCCTTTTAAAGTCCACAACTCCATGGA
1 AACCTTTT-AAGTCCACAACTCCGTGGC
7191 AACCTTTTA
1 AACCTTTTA
7200 TTTAGGTTAT
Statistics
Matches: 1740, Mismatches: 373, Indels: 158
0.77 0.16 0.07
Matches are distributed among these distances:
25 4 0.00
26 39 0.02
27 1274 0.73
28 287 0.16
29 136 0.08
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
AACCTTTTAAGTCCACAACTCCGTGGC
Found at i:8509 original size:33 final size:33
Alignment explanation
Indices: 8471--8534 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
8461 GTTATAAGCT
* *
8471 ATGTATGGATACAATTCT-TCATGTATCGATATA
1 ATGTATCGATAC-ATTCTACCATGTATCGATATA
*
8504 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCGATACATTCTACCATGTATCGATA
8535 CAAATAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTCTACCATGTATCGATATA
Found at i:10587 original size:21 final size:20
Alignment explanation
Indices: 10540--10593 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
10530 CATTTCAGGC
10540 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
10560 ATGTATCGATACATTCCCTT
1 ATGTATCGATACATTCACTT
10580 ATTGTATCGATACA
1 A-TGTATCGATACA
10594 AATTATTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:11421 original size:78 final size:78
Alignment explanation
Indices: 11330--11549 Score: 273
Period size: 78 Copynumber: 2.8 Consensus size: 78
11320 ATTTTTGGGT
*
11330 TAAAAAGCAGGGTTAGAGTATCCCCTC-AGAAATAATGGGGTTGGAGTATCCTTAATGGTGAAAA
1 TAAAAA-CAGGGTTAGAGTAT-CCCTCGA-AAATAATGGGGTTGGAGTATCCTCAATGGTGAAAA
*
11394 -TCAATATTTTGGAAA
63 TTCAATAATTTGGAAA
* * * * * * * *
11409 TAAAAACGGGGTTGGAGTATCCCTCGAAAATTATTGGGTTGGACTATCCCCGATGGTGAAAATTT
1 TAAAAACAGGGTTAGAGTATCCCTCGAAAATAATGGGGTTGGAGTATCCTCAATGGTGAAAATTC
*
11474 GATAATTTGGAAA
66 AATAATTTGGAAA
* *
11487 TAAAAACAGGGTTAGAGTATGCCCTCGAAAATGATGGGGTTGGAGTATCCTCAATAGTGAAAA
1 TAAAAACAGGGTTAGAGTAT-CCCTCGAAAATAATGGGGTTGGAGTATCCTCAATGGTGAAAA
11550 ATTGATAAAT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
77 34 0.29
78 43 0.36
79 42 0.35
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (78 bp):
TAAAAACAGGGTTAGAGTATCCCTCGAAAATAATGGGGTTGGAGTATCCTCAATGGTGAAAATTC
AATAATTTGGAAA
Found at i:11555 original size:79 final size:78
Alignment explanation
Indices: 11330--11557 Score: 280
Period size: 79 Copynumber: 2.9 Consensus size: 78
11320 ATTTTTGGGT
*
11330 TAAAAAGCAGGGTTAGAGTATCCCCTC-AGAAATAATGGGGTTGGAGTATCCTTAATGGTG-AAA
1 TAAAAA-CAGGGTTAGAGTAT-CCCTCGA-AAATAATGGGGTTGGAGTATCCTCAATGGTGAAAA
** *
11393 ATCAATATTTTGGAAA
63 ATTGATAATTTGGAAA
* * * * * * * *
11409 TAAAAACGGGGTTGGAGTATCCCTCGAAAATTATTGGGTTGGACTATCCCCGATGGTGAAAATTT
1 TAAAAACAGGGTTAGAGTATCCCTCGAAAATAATGGGGTTGGAGTATCCTCAATGGTGAAAAATT
11474 GATAATTTGGAAA
66 GATAATTTGGAAA
* *
11487 TAAAAACAGGGTTAGAGTATGCCCTCGAAAATGATGGGGTTGGAGTATCCTCAATAGTGAAAAAT
1 TAAAAACAGGGTTAGAGTAT-CCCTCGAAAATAATGGGGTTGGAGTATCCTCAATGGTGAAAAAT
11552 TGATAA
65 TGATAA
11558 ATTCTTTTAA
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
77 30 0.24
78 46 0.37
79 49 0.39
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (78 bp):
TAAAAACAGGGTTAGAGTATCCCTCGAAAATAATGGGGTTGGAGTATCCTCAATGGTGAAAAATT
GATAATTTGGAAA
Found at i:12474 original size:20 final size:20
Alignment explanation
Indices: 12449--12501 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
12439 GTTGGGCTCA
12449 ATGTATCGATACAATGCACC
1 ATGTATCGATACAATGCACC
* *
12469 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
12489 ATGTATCGATACA
1 ATGTATCGATACA
12502 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:12508 original size:13 final size:13
Alignment explanation
Indices: 12490--12514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12480 CAATTCATCA
12490 TGTATCGATACAT
1 TGTATCGATACAT
12503 TGTATCGATACA
1 TGTATCGATACA
12515 AAGTGAGTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:13792 original size:21 final size:21
Alignment explanation
Indices: 13766--13805 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13756 AGCATCCATC
*
13766 ATGTCAAAGCATTGATCTACT
1 ATGTCAAAACATTGATCTACT
*
13787 ATGTCAAAACGTTGATCTA
1 ATGTCAAAACATTGATCTA
13806 TGCACTGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATGTCAAAACATTGATCTACT
Found at i:15853 original size:18 final size:18
Alignment explanation
Indices: 15793--15853 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 18
15783 ATATCAACTA
15793 ATTTGGTCATTTAACATG
1 ATTTGGTCATTTAACATG
15811 CATATTTGG-CATTATGAACAT-
1 ---ATTTGGTCATT-T-AACATG
15832 ATTTGGTCATTTAACATG
1 ATTTGGTCATTTAACATG
15850 ATTT
1 ATTT
15854 TTCACAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.14
18 11 0.31
19 4 0.11
20 4 0.11
21 7 0.19
22 5 0.14
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (18 bp):
ATTTGGTCATTTAACATG
Found at i:15974 original size:228 final size:228
Alignment explanation
Indices: 15577--16251 Score: 1296
Period size: 228 Copynumber: 3.0 Consensus size: 228
15567 TGTGACCAAA
*
15577 AACATGCATATTTGGCATTATGAACATATTTGGTCATTTAACATGATTTTTCACAAAATGAATGA
1 AACATGCATATTTGGCATTATGAACATATTTGGTCATTTAACATGATTTTTCACAAAATGAACGA
* *
15642 TAAAGATATTAACAACACAAGTATGAGAGATATCATAAAAGGTATATAAACTTGGCATAAGCACA
66 TAAAGATATTAACAACATAAGTATGAGAGATATCATAAAAGGTATATAAACTTGGCATAAACACA
15707 AAATCAAGGTGGATTCATTAGGCCAAGTTCTCTTCTAATGGTGCAAAATCTATTTTGGTCAAGAG
131 AAATCAAGGTGGATTCATTAGGCCAAGTTCTCTTCTAATGGTGCAAAATCTATTTTGGTCAAGAG
15772 GTTTAGTAAAAATATCAACTAATTTGGTCATTT
196 GTTTAGTAAAAATATCAACTAATTTGGTCATTT
15805 AACATGCATATTTGGCATTATGAACATATTTGGTCATTTAACATGATTTTTCACAAAATGAACGA
1 AACATGCATATTTGGCATTATGAACATATTTGGTCATTTAACATGATTTTTCACAAAATGAACGA
15870 TAAAGATATTAACAACATAAGTATGAGAGATATCATAAAAGGTATATAAACTTGGCATAAACACA
66 TAAAGATATTAACAACATAAGTATGAGAGATATCATAAAAGGTATATAAACTTGGCATAAACACA
15935 AAATCAAGGTGGATTCATTAGGCCAAGTTCTCTTCTAATGGTGCAAAATCTATTTTGGTCAAGAG
131 AAATCAAGGTGGATTCATTAGGCCAAGTTCTCTTCTAATGGTGCAAAATCTATTTTGGTCAAGAG
*
16000 GTTTAGTAAAAATATCTACTAATTTGGTCATTT
196 GTTTAGTAAAAATATCAACTAATTTGGTCATTT
16033 AACATGCATATTTGGCATTATGAACATATTTGGTCATTTAACATGATTTTTCACAAAATGAACGA
1 AACATGCATATTTGGCATTATGAACATATTTGGTCATTTAACATGATTTTTCACAAAATGAACGA
*
16098 TAAAGATATTAACAACATAAGTATGAGAGATATCATAAAAGGTATATAAATTTGGCATAAACACA
66 TAAAGATATTAACAACATAAGTATGAGAGATATCATAAAAGGTATATAAACTTGGCATAAACACA
*
16163 AAATCAAGGTGGATTCATTAGGCTAAGTTCTCTTCTAATGGTGCAAAATCTATTTTGGTCAAGAG
131 AAATCAAGGTGGATTCATTAGGCCAAGTTCTCTTCTAATGGTGCAAAATCTATTTTGGTCAAGAG
16228 GTTTAGTAAAAATATCAACTAATT
196 GTTTAGTAAAAATATCAACTAATT
16252 GGTGTAAGGT
Statistics
Matches: 440, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 440 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (228 bp):
AACATGCATATTTGGCATTATGAACATATTTGGTCATTTAACATGATTTTTCACAAAATGAACGA
TAAAGATATTAACAACATAAGTATGAGAGATATCATAAAAGGTATATAAACTTGGCATAAACACA
AAATCAAGGTGGATTCATTAGGCCAAGTTCTCTTCTAATGGTGCAAAATCTATTTTGGTCAAGAG
GTTTAGTAAAAATATCAACTAATTTGGTCATTT
Found at i:16081 original size:18 final size:18
Alignment explanation
Indices: 16021--16081 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 18
16011 ATATCTACTA
16021 ATTTGGTCATTTAACATG
1 ATTTGGTCATTTAACATG
16039 CATATTTGG-CATTATGAACAT-
1 ---ATTTGGTCATT-T-AACATG
16060 ATTTGGTCATTTAACATG
1 ATTTGGTCATTTAACATG
16078 ATTT
1 ATTT
16082 TTCACAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.14
18 11 0.31
19 4 0.11
20 4 0.11
21 7 0.19
22 5 0.14
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (18 bp):
ATTTGGTCATTTAACATG
Found at i:21760 original size:13 final size:13
Alignment explanation
Indices: 21742--21768 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21732 TAAATTCATC
21742 ATGTATCGATACA
1 ATGTATCGATACA
21755 ATGTATCGATACA
1 ATGTATCGATACA
21768 A
1 A
21769 AGTGAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:21876 original size:33 final size:32
Alignment explanation
Indices: 21817--21880 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
21807 ATTTCAAGGT
21817 GTATCGATACAATGAACATGTATCGATACATA
1 GTATCGATACAATGAACATGTATCGATACATA
*
21849 GTATCGATACTAA-GCAATATGTATCGATACAT
1 GTATCGATAC-AATG-AACATGTATCGATACAT
21881 CTGGTGTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
GTATCGATACAATGAACATGTATCGATACATA
Found at i:24493 original size:20 final size:21
Alignment explanation
Indices: 24468--24512 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
24458 GACTTGTGTT
24468 GATACATTCACT-TATGTATC
1 GATACATTCACTATATGTATC
*
24488 GATACATTCACTATTTGTATC
1 GATACATTCACTATATGTATC
24509 GATA
1 GATA
24513 TAAATTATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (21 bp):
GATACATTCACTATATGTATC
Found at i:25222 original size:12 final size:12
Alignment explanation
Indices: 25193--25245 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
25183 AAAAAAGAAC
25193 AAAAA-GAGAGCA
1 AAAAATGAGAG-A
25205 AAAAATGAGAGA
1 AAAAATGAGAGA
* *
25217 AAAAATAAAAGA
1 AAAAATGAGAGA
*
25229 AAAAAAGAGA-A
1 AAAAATGAGAGA
25240 AAAAAT
1 AAAAAT
25246 AAGTAATAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
11 6 0.18
12 23 0.68
13 5 0.15
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (12 bp):
AAAAATGAGAGA
Found at i:25445 original size:11 final size:12
Alignment explanation
Indices: 25425--25449 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25415 AATCAACATA
25425 TTTTGTTTTTTT
1 TTTTGTTTTTTT
25437 TTTTGTTTTTTT
1 TTTTGTTTTTTT
25449 T
1 T
25450 CTTAAATGTT
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:25945 original size:10 final size:10
Alignment explanation
Indices: 25930--25962 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
25920 GACTTAGGTT
25930 TTTTATGTCA
1 TTTTATGTCA
25940 TTTTATGTCA
1 TTTTATGTCA
*
25950 -TTTAGGTCA
1 TTTTATGTCA
25959 TTTT
1 TTTT
25963 CCATGACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (10 bp):
TTTTATGTCA
Found at i:25954 original size:28 final size:28
Alignment explanation
Indices: 25901--25956 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
25891 CATCCATGCA
* *
25901 TTTTTATGTCATTTTTTATGACTTAGGT
1 TTTTTATGTCATTTTATATCACTTAGGT
* *
25929 TTTTTATGTCATTTTATGTCATTTAGGT
1 TTTTTATGTCATTTTATATCACTTAGGT
25957 CATTTTCCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.18, C:0.07, G:0.14, T:0.61
Consensus pattern (28 bp):
TTTTTATGTCATTTTATATCACTTAGGT
Found at i:26006 original size:58 final size:57
Alignment explanation
Indices: 25934--26497 Score: 322
Period size: 58 Copynumber: 9.7 Consensus size: 57
25924 TAGGTTTTTT
**
25934 ATGTCATTTT-ATGTCATTTAGGTCATTTTCCATGACTTAAAGACTTCGATGCAATTTC
1 ATGT-ATTTTGATGTCATTTAGGTCATTTTCCATGACTTAGGGACTTC-ATGCAATTTC
* * * * *
25992 ATGCATTTTGATGTCATTTTGGTCATTTTTCAT-AATCTATGGACTTTCATGCAATTTTC
1 ATGTATTTTGATGTCATTTAGGTCATTTTCCATGACT-TAGGGAC-TTCATGCAA-TTTC
* * * * * * * * *
26051 ATGTATTTTCATGTTATTTTA-GTAATTTTTCAGGAATTAGGGACTTTGATGTAATTTT
1 ATGTATTTTGATGTCA-TTTAGGTCATTTTCCATGACTTAGGGAC-TTCATGCAATTTC
* * * * * **
26109 ATGCATTTTGATGTTATTTAAGCCATTTTTCATGA-TCTACAGACTTTCATGCAAATTTC
1 ATGTATTTTGATGTCATTTAGGTCATTTTCCATGACT-TAGGGAC-TTCATGC-AATTTC
* * ** * * * * *
26168 ATATATGTTGGGGTTATTTAGGTCATTTTTCATGACTTAGGGATTATAATGTAATTTC
1 ATGTATTTTGATGTCATTTAGGTCATTTTCCATGACTTAGGGACT-TCATGCAATTTC
* ** * * * * *
26226 ATGTATGTTGGGGTCATTTAGGTTA-TTT-CATGA-TCTAGGAACTTTTATGTAATTTT
1 ATGTATTTTGATGTCATTTAGGTCATTTTCCATGACT-TAGGGAC-TTCATGCAATTTC
* ** * * *
26282 ATATATGCTG-GGATCATTTAGGTCATTTTCCATGATTTTAGGGACTTTCATGCAAATTCC
1 ATGTATTTTGATG-TCATTTAGGTCATTTTCCATGA-CTTAGGGAC-TTCATGC-AATTTC
* * * * * *
26342 ATGTTTTTTGGTGTCATTTAGGTCATTTTCCATGACTTAGGGAGTTTGATACAGTTTC
1 ATGTATTTTGATGTCATTTAGGTCATTTTCCATGACTTAGGGA-CTTCATGCAATTTC
** *
26400 ATACATTTTGATGTCATTTAGGTTA-TTTCCATGA-TATAGGGACTTCCATGCAATTTC
1 ATGTATTTTGATGTCATTTAGGTCATTTTCCATGACT-TAGGGACTT-CATGCAATTTC
* * * * *
26457 ATGAATTTTAAAGAT-ATTTAAGTCATTTTCTATGACTTAGG
1 ATGTATTTTGATG-TCATTTAGGTCATTTTCCATGACTTAGG
26498 AATTATTATG
Statistics
Matches: 400, Mismatches: 80, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
55 3 0.01
56 42 0.10
57 59 0.15
58 145 0.36
59 110 0.28
60 40 0.10
61 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (57 bp):
ATGTATTTTGATGTCATTTAGGTCATTTTCCATGACTTAGGGACTTCATGCAATTTC
Found at i:26070 original size:59 final size:59
Alignment explanation
Indices: 25982--26200 Score: 210
Period size: 59 Copynumber: 3.7 Consensus size: 59
25972 AAAGACTTCG
* ** *
25982 ATGCAA-TTTCATGCATTTTGATGTCATTTTGGTCATTTTTCATAATCTATGGACTTTC
1 ATGCAATTTTCATGCATTTTGATGTTATTTAAGTCATTTTTCATAATCTACGGACTTTC
* * * * * * *
26040 ATGCAATTTTCATGTATTTTCATGTTATTTTAGTAATTTTTCAGGAAT-TAGGGACTTTG
1 ATGCAATTTTCATGCATTTTGATGTTATTTAAGTCATTTTTCA-TAATCTACGGACTTTC
* * * *
26099 ATGTAATTTT-ATGCATTTTGATGTTATTTAAGCCATTTTTCATGATCTACAGACTTTC
1 ATGCAATTTTCATGCATTTTGATGTTATTTAAGTCATTTTTCATAATCTACGGACTTTC
* ** * ** *
26157 ATGCAAATTTCATATATGTTGGGGTTATTTAGGTCATTTTTCAT
1 ATGCAATTTTCATGCATTTTGATGTTATTTAAGTCATTTTTCAT
26201 GACTTAGGGA
Statistics
Matches: 129, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
57 2 0.02
58 49 0.38
59 75 0.58
60 3 0.02
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (59 bp):
ATGCAATTTTCATGCATTTTGATGTTATTTAAGTCATTTTTCATAATCTACGGACTTTC
Found at i:26245 original size:117 final size:114
Alignment explanation
Indices: 25949--26329 Score: 302
Period size: 117 Copynumber: 3.3 Consensus size: 114
25939 ATTTTATGTC
* * ** ** * * * *
25949 ATTTAGGTCATTTTCCATGACTTAAAGACTTCGATGCAATTTCATGCATTTTGATGTCATTTTGG
1 ATTTAGGTCATTTTTCATGAATTAGGGACTTTAATGTAATTTCATGCATGTTGAGGTCA-TTTAG
* * * * ***
26014 TCATTTTTCATAATCTATGGACTTTCATGCAATTTTCATGTATTTTCATGTT
65 -CATTTTTCATGATCTA-GGACTTTCATGCAAATTTCATATATGTTGGGGTT
* * * * * * *
26066 ATTTTA-GTAATTTTTCAGGAATTAGGGACTTTGATGTAATTTTATGCATTTTGATGTTATTTAA
1 A-TTTAGGTCATTTTTCATGAATTAGGGACTTTAATGTAATTTCATGCATGTTGAGGTCATTT-A
*
26130 GCCATTTTTCATGATCTACAGACTTTCATGCAAATTTCATATATGTTGGGGTT
64 G-CATTTTTCATGATCTA-GGACTTTCATGCAAATTTCATATATGTTGGGGTT
* * *
26183 ATTTAGGTCATTTTTCATGACTTAGGGA-TTATAATGTAATTTCATGTATGTTGGGGTCATTTAG
1 ATTTAGGTCATTTTTCATGAATTAGGGACTT-TAATGTAATTTCATGCATGTTGAGGTCATTTAG
* * * * * * *
26247 -GTTATTTCATGATCTAGGAACTTTTATG-TAATTTTATATATGCTGGGATC
65 CATT-TTTCATGATCTAGG-ACTTTCATGCAAATTTCATATATGTTGGGGTT
* *
26297 ATTTAGGTCATTTTCCATGATTTTAGGGACTTT
1 ATTTAGGTCATTTTTCATGA-ATTAGGGACTTT
26330 CATGCAAATT
Statistics
Matches: 215, Mismatches: 41, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
114 39 0.18
115 28 0.13
116 13 0.06
117 131 0.61
118 4 0.02
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (114 bp):
ATTTAGGTCATTTTTCATGAATTAGGGACTTTAATGTAATTTCATGCATGTTGAGGTCATTTAGC
ATTTTTCATGATCTAGGACTTTCATGCAAATTTCATATATGTTGGGGTT
Found at i:28582 original size:78 final size:78
Alignment explanation
Indices: 28477--28677 Score: 215
Period size: 79 Copynumber: 2.6 Consensus size: 78
28467 AATAACGGGG
* * * * * * *
28477 TTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCTGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTATGAGAAATCAAT-ATTTAG
*
28541 AAAAAAAATCGCGA
65 AAAAAAAACCGCGA
** *
28555 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTATGAGAAATCAATA-TTTAG
* * * * *
28620 GAATAAAGCCGGGG
65 AAAAAAAACCGCGA
* *
28634 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCTGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGAT
28678 GAAATAACGA
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 49 0.49
79 51 0.50
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTATGAGAAATCAATATTTAGA
AAAAAAACCGCGA
Found at i:28669 original size:28 final size:28
Alignment explanation
Indices: 28629--28700 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
28619 GGAATAAAGC
*
28629 CGGGGTTGGAGTATCCCCTCG-GAAGTAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
28657 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
*
28685 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
28701 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 33 0.85
29 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:28692 original size:107 final size:108
Alignment explanation
Indices: 28555--28754 Score: 262
Period size: 107 Copynumber: 1.9 Consensus size: 108
28545 AAAATCGCGA
* *
28555 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTTG
1 TTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTTG
* * *
28619 GGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
66 GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGG
* * * **
28662 TTGGAGTAT-CCCT-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGATATTTT
1 TTGGAGTATCCCCTCGA--AAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTT
*
28725 TGGAAATAAAATCGGAGTTGGAGTATCCCC
64 TGGAAATAAAACCGGAGTTGGAGTATCCCC
28755 GATTAAAGGA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
105 2 0.03
106 4 0.05
107 44 0.56
108 29 0.37
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (108 bp):
TTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTTG
GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGG
Found at i:28758 original size:52 final size:51
Alignment explanation
Indices: 28688--28909 Score: 248
Period size: 52 Copynumber: 4.3 Consensus size: 51
28678 GAAATAACGA
* * * *
28688 GGTTGGAGTATCCTCGATTGTGAAAAATTGATATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAT-GTTTTGGAAATAAAACCGG
* * * * *
28740 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTGGAAATAAAACCGG
* * *
28792 GGTTGGAGTATCCCCGATTGTGGAAAAATT-AGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGA-TGTTTTGGAAATAAAACCGG
** * **
28844 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGG
28895 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
28910 TCGGAAATAA
Statistics
Matches: 142, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
51 37 0.26
52 96 0.68
53 9 0.06
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGG
Found at i:28986 original size:82 final size:79
Alignment explanation
Indices: 28841--28991 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 79
28831 GCAATAAAAC
* * *
28841 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAATCGGAGTTAGAGTAT
28906 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *** *
28920 CGGGGTTGGAGTATCCCCGATTGTGAAGAAATTTGTGTTTTTTGGAAATAAAATCGGAGTTAGAG
1 CGGGGTTGGAGTATCCCCGATTATGAA-AAA--TCAATATTTTGGAAATAAAATCGGAGTTAGAG
28985 TATCCCC
63 TATCCCC
28992 GATTATAGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 26 0.43
80 3 0.05
82 32 0.52
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAATCGGAGTTAGAGTAT
CCCCTCGGAAATAA
Found at i:29020 original size:51 final size:53
Alignment explanation
Indices: 28928--29046 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
28918 AACGGGGTTG
* * *
28928 GAGTATCCCCGATTGTGAAGAAATTTGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
28982 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
29033 GAATATCCCCGATT
1 GAGTATCCCCGATT
29047 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:29033 original size:133 final size:131
Alignment explanation
Indices: 28789--29042 Score: 341
Period size: 133 Copynumber: 1.9 Consensus size: 131
28779 AAAATAAAAC
* * *
28789 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTA
* * * *
28854 TCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCGGAAATA
66 TCCCCGATTATGAAAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCCTCGGAAATA
28919 A
131 A
* * *
28920 CGGGGTTGGAGTATCCCCGATTGT-GAAGAAATTTGTGTTTTTTGGAAATAAAATCGGAGTTAGA
1 CGGGGTTGGAGTATCCCCGATTGTGGAA-AAATTAGTG--TTTTAGAAATAAAACCGGAGTTAGA
* * *
28984 GTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCC
63 GTATCCCCGATTATGA-AAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCC
29043 GATTGTGGAG
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
130 3 0.03
131 32 0.30
132 1 0.01
133 70 0.66
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (131 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTA
TCCCCGATTATGAAAAATCAATATTTTGAAAATAAAATCGGAGTTGGAATATCCCCTCGGAAATA
A
Found at i:32463 original size:52 final size:52
Alignment explanation
Indices: 32383--32502 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
32373 AAAAGTTACT
* *
32383 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
32435 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
32487 TGCATGTATCGATACA
1 TGCATGTATCGATACA
32503 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:32515 original size:52 final size:52
Alignment explanation
Indices: 32383--32522 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
32373 AAAAGTTACT
* *
32383 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*** *
32435 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*
32487 TGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
32523 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:32529 original size:13 final size:13
Alignment explanation
Indices: 32511--32535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32501 CAAAGATCGG
32511 TGTATCGATACAA
1 TGTATCGATACAA
32524 TGTATCGATACA
1 TGTATCGATACA
32536 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:32613 original size:33 final size:33
Alignment explanation
Indices: 32576--32642 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
32566 AGTAGCTTAA
32576 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
32609 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
32642 A
1 A
32643 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:32616 original size:13 final size:13
Alignment explanation
Indices: 32598--32622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32588 CAAAAAAATA
32598 TGTATCGATACAT
1 TGTATCGATACAT
32611 TGTATCGATACA
1 TGTATCGATACA
32623 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:35063 original size:13 final size:13
Alignment explanation
Indices: 35045--35070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35035 ACAAAGATCC
35045 ATGTATCGATACA
1 ATGTATCGATACA
35058 ATGTATCGATACA
1 ATGTATCGATACA
35071 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:35066 original size:33 final size:33
Alignment explanation
Indices: 35024--35090 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
35014 AAAATTTCCA
***
35024 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
35057 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
35090 A
1 A
35091 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:35134 original size:19 final size:18
Alignment explanation
Indices: 35110--35177 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
35100 CAGTAGCTAA
35110 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
35129 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
35144 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
35161 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
35178 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:35150 original size:13 final size:13
Alignment explanation
Indices: 35132--35156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35122 ACAATACTTA
35132 TGTATCGATACAT
1 TGTATCGATACAT
35145 TGTATCGATACA
1 TGTATCGATACA
35157 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:35154 original size:32 final size:32
Alignment explanation
Indices: 35113--35175 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
35103 TAGCTAATTA
*
35113 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
35145 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
35176 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:35256 original size:21 final size:21
Alignment explanation
Indices: 35232--35289 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
35222 ACATTTGTAG
*
35232 AATGTGTCGATACATTCCACA
1 AATGTATCGATACATTCCACA
35253 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
35274 AATGTATCGATACATT
1 AATGTATCGATACATT
35290 TGGATAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:38977 original size:19 final size:19
Alignment explanation
Indices: 38934--39006 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
38924 CACACCCAGA
*
38934 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
38954 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
38973 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
38993 TGTATCGATACATG
1 TGTATCGATACATG
39007 AAACTGGCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:39095 original size:33 final size:33
Alignment explanation
Indices: 39036--39100 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
39026 TACCATTGTT
*
39036 TGTATCGATACATGGCACATTTTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
39069 TGTATCGATACATGATG-A-ATTGTATCGATACA
1 TGTATCGATACATG--GCACATTGTATCGATACA
39101 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:40401 original size:26 final size:27
Alignment explanation
Indices: 40357--40408 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
40347 TGACAAGTTA
* *
40357 AAAAAATGAGGTTAGAGTATCTCTTCG
1 AAAAAATGAGGTTACAGTATCCCTTCG
*
40384 AAAAAATGGGGTT-CAGTATCCCTTC
1 AAAAAATGAGGTTACAGTATCCCTTC
40409 AGAATAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (27 bp):
AAAAAATGAGGTTACAGTATCCCTTCG
Found at i:42781 original size:52 final size:51
Alignment explanation
Indices: 42724--42862 Score: 179
Period size: 51 Copynumber: 2.7 Consensus size: 51
42714 ATTGACTTGT
* **
42724 ATGTATCGATACATTGAAGAATGTATTAATACATTTAAGTCAAAAACCTAGA
1 ATGTATCGATACAATGAAGAATGTATCGATACATTTAAGTC-AAAACCTAGA
* **
42776 ATGTATCGATACAATGAAGAATGTATCGATATATTTGGGTCAAAACCTAGA
1 ATGTATCGATACAATGAAGAATGTATCGATACATTTAAGTCAAAACCTAGA
* * * *
42827 ATCTATCAATAAAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAGAATGTATCGATACATTT
42863 TCATTTCGGA
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 41 0.54
52 35 0.46
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCGATACATTTAAGTCAAAACCTAGA
Found at i:42976 original size:23 final size:20
Alignment explanation
Indices: 42898--42971 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
42888 GACCTGGCCC
***
42898 TATATCGATACATTTCAGACA
1 TATATCGATACA-TTCACTTA
*
42919 TGTATCGATACATTCACTTA
1 TATATCGATACATTCACTTA
* *
42939 TATGTCAATACATTCACTTA
1 TATATCGATACATTCACTTA
42959 TTATATCGATACA
1 -TATATCGATACA
42972 AATTCTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 22 0.51
21 21 0.49
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
TATATCGATACATTCACTTA
Found at i:44067 original size:21 final size:21
Alignment explanation
Indices: 43999--44075 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
43989 TCCCTCAATG
* *
43999 GAAA-GGTTGCTTTCCTTAGT
1 GAAAGGGTTGGTTCCCTTAGT
** *
44019 GAAAGGGTTGGTTCTTTTTGT
1 GAAAGGGTTGGTTCCCTTAGT
*
44040 TAAAGGGTTGGTTCCCTTAGT
1 GAAAGGGTTGGTTCCCTTAGT
*
44061 GATAGGGGTTGGTTC
1 GA-AAGGGTTGGTTC
44076 TTTTCATGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 4 0.09
21 29 0.66
22 11 0.25
ACGTcount: A:0.17, C:0.10, G:0.32, T:0.40
Consensus pattern (21 bp):
GAAAGGGTTGGTTCCCTTAGT
Found at i:44145 original size:22 final size:22
Alignment explanation
Indices: 44105--44178 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
44095 GCTCAATTAG
*
44105 AGTCATATATACATATAGTTAT
1 AGTCATATGTACATATAGTTAT
** *
44127 AGTTGTATGTACATTTAGTTAT
1 AGTCATATGTACATATAGTTAT
44149 AGTCATATGTACACTCA-A-TTAT
1 AGTCATATGTACA-T-ATAGTTAT
44171 AGTCATAT
1 AGTCATAT
44179 ACATACATAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 41 0.95
23 2 0.05
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (22 bp):
AGTCATATGTACATATAGTTAT
Found at i:44475 original size:22 final size:22
Alignment explanation
Indices: 44428--44511 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
44418 GTTCCCTTAG
* * *
44428 TTATTATGATAAGTACATTA-TG
1 TTATTATGATATGCACA-TACTA
*
44450 TTATTATGATATGTACATACTA
1 TTATTATGATATGCACATACTA
* *
44472 TTA-TAGTGATATGCATATTCTA
1 TTATTA-TGATATGCACATACTA
* *
44494 TTAATGTGATATGCACAT
1 TTATTATGATATGCACAT
44512 TAAGTTATTG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.08
22 47 0.90
23 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (22 bp):
TTATTATGATATGCACATACTA
Found at i:45648 original size:22 final size:22
Alignment explanation
Indices: 45621--45677 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
45611 TTAAAATAAT
45621 ACAATATGTACATCCAGTAAAA
1 ACAATATGTACATCCAGTAAAA
* * **
45643 ATAATATGCACATTTAGTAAAA
1 ACAATATGTACATCCAGTAAAA
*
45665 ACAATATATACAT
1 ACAATATGTACAT
45678 ATGACATAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (22 bp):
ACAATATGTACATCCAGTAAAA
Found at i:45874 original size:8 final size:8
Alignment explanation
Indices: 45861--45891 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
45851 TAAATTTAAT
45861 TATAAAAA
1 TATAAAAA
45869 TATAAAAA
1 TATAAAAA
*
45877 TACAAAAA
1 TATAAAAA
45885 TATAAAA
1 TATAAAA
45892 TATTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (8 bp):
TATAAAAA
Found at i:45940 original size:50 final size:49
Alignment explanation
Indices: 45886--46245 Score: 260
Period size: 51 Copynumber: 7.2 Consensus size: 49
45876 ATACAAAAAT
* *
45886 ATAAAATATTAATAATTTTTTATTAGTTTTAAATAG-AATTTTGAGATTTA
1 ATAAAATATT-TTAATTTTTTATTATTTTTAAATAGTAA-TTTGAGATTTA
45936 ATAAAAATAAGTTTTAA-TTTTTATTATTTTTAAATAGTAATTTGAGATTTA
1 AT-AAAAT-A-TTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTTA
* * * * *
45987 ATATAAGTTTTTTAATTTTTTATTATTTTTAAATAGTAA-CTAAGGTTT-
1 ATA-AAATATTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTTA
** * *
46035 -T-TCA-A----AATCTTTTGTTA-TTTTAAATAGTAATTTGAGATTTGA
1 ATAAAATATTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTT-A
* * ** *
46077 TATAAAATACTTTT-ATCTTTTATTATTTTTAAATAGTAGTTCAAAATTTAA
1 -ATAAAATA-TTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTT-A
*
46128 TATAAAATATTTTTTAATTTTTTATTATTTTTAAATAGTAATTAGAGATTTAA
1 -ATAAAATA--TTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTT-A
* * **
46181 TATAAAATATTTTTAAATTTTTTTGTTATTTTTAAATAGTGATTAAAGATTTA
1 -ATAAAATA-TTTT-AA-TTTTTTATTATTTTTAAATAGTAATTTGAGATTTA
46234 TTATAAAATATT
1 --ATAAAATATT
46246 ATTTTAATAG
Statistics
Matches: 253, Mismatches: 33, Indels: 45
0.76 0.10 0.14
Matches are distributed among these distances:
39 13 0.05
40 16 0.06
44 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
49 12 0.05
50 36 0.14
51 69 0.27
52 15 0.06
53 48 0.19
54 40 0.16
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.53
Consensus pattern (49 bp):
ATAAAATATTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTTA
Found at i:46070 original size:140 final size:143
Alignment explanation
Indices: 45903--46168 Score: 382
Period size: 140 Copynumber: 1.9 Consensus size: 143
45893 ATTAATAATT
*
45903 TTTTATTAGTTTTAAATAGAATTTTGAGATTTAATA-AAAATAAGTTTTAAT-TTTTATTATTTT
1 TTTTATTAGTTTTAAATAGAATTTTGAGATTTAATATAAAAT-ACTTTT-ATCTTTTATTATTTT
** * *
45966 TAAATAGTAATTTGAGATTTAATAT-AA-GTTTTTTAATTTTTTATTATTTTTAAATAGTAACTA
64 TAAATAGTAATTCAAAATTTAATATAAATATTTTTTAATTTTTTATTATTTTTAAATAGTAACTA
46029 AGGTTTTTCAAAATC
129 AGGTTTTTCAAAATC
* *
46044 TTTTGTTA-TTTTAAATAGTAA-TTTGAGATTTGATATAAAATACTTTTATCTTTTATTATTTTT
1 TTTTATTAGTTTTAAATAG-AATTTTGAGATTTAATATAAAATACTTTTATCTTTTATTATTTTT
*
46107 AAATAGTAGTTCAAAATTTAATATAAAATATTTTTTAATTTTTTATTATTTTTAAATAGTAA
65 AAATAGTAATTCAAAATTTAATAT-AAATATTTTTTAATTTTTTATTATTTTTAAATAGTAA
46169 TTAGAGATTT
Statistics
Matches: 111, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
139 2 0.02
140 61 0.55
141 14 0.13
142 2 0.02
143 32 0.29
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (143 bp):
TTTTATTAGTTTTAAATAGAATTTTGAGATTTAATATAAAATACTTTTATCTTTTATTATTTTTA
AATAGTAATTCAAAATTTAATATAAATATTTTTTAATTTTTTATTATTTTTAAATAGTAACTAAG
GTTTTTCAAAATC
Found at i:46157 original size:53 final size:52
Alignment explanation
Indices: 46044--46253 Score: 237
Period size: 53 Copynumber: 4.0 Consensus size: 52
46034 TTTCAAAATC
* * * * * *
46044 TTTTGTTA-TTTTAAATAGTAATTTGAGATTTGATATAAAATA-CTTTT-ATC
1 TTTTATTATTTTTAAATAGTAA-TTAAAATTTAATATAAAATATTTTTTAATT
*
46094 TTTTATTATTTTTAAATAGTAGTTCAAAATTTAATATAAAATATTTTTTAATT
1 TTTTATTATTTTTAAATAGTAATT-AAAATTTAATATAAAATATTTTTTAATT
* *
46147 TTTTATTATTTTTAAATAGTAATTAGAGATTTAATATAAAATATTTTTAAATTT
1 TTTTATTATTTTTAAATAGTAATTA-AAATTTAATATAAAATATTTTTTAA-TT
* * *
46201 TTTTGTTATTTTTAAATAGTGATTAAAGATTTATTATAAAATATTATTTTAAT
1 TTTTATTATTTTTAAATAGTAATTAAA-ATTTAATATAAAATATT-TTTTAAT
46254 AGAGAATTGG
Statistics
Matches: 137, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
50 9 0.07
51 27 0.20
52 5 0.04
53 49 0.36
54 42 0.31
55 5 0.04
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (52 bp):
TTTTATTATTTTTAAATAGTAATTAAAATTTAATATAAAATATTTTTTAATT
Found at i:46170 original size:104 final size:106
Alignment explanation
Indices: 46044--46253 Score: 286
Period size: 107 Copynumber: 2.0 Consensus size: 106
46034 TTTCAAAATC
* * *
46044 TTTTGTTATTTTAAATAGTAATTTGAGATTTGATATAAAATACTTTT-A-TCTTTTATTATTTTT
1 TTTTATTATTTTAAATAGTAATTAGAGATTTAATATAAAATACTTTTAATTCTTTTATTATTTTT
46107 AAATAGT-AGTTCAAA-ATTTAATATAAAATATT-TTTTAATT
66 AAATAGTGA-TT-AAAGATTTAATATAAAATATTATTTTAATT
* * *
46147 TTTTATTATTTTTAAATAGTAATTAGAGATTTAATATAAAATATTTTTAAATTTTTTTGTTATTT
1 TTTTATTA-TTTTAAATAGTAATTAGAGATTTAATATAAAATACTTTT-AATTCTTTTATTATTT
*
46212 TTAAATAGTGATTAAAGATTTATTATAAAATATTATTTTAAT
64 TTAAATAGTGATTAAAGATTTAATATAAAATATTATTTTAAT
46254 AGAGAATTGG
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
103 7 0.08
104 36 0.39
106 4 0.04
107 38 0.41
108 8 0.09
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (106 bp):
TTTTATTATTTTAAATAGTAATTAGAGATTTAATATAAAATACTTTTAATTCTTTTATTATTTTT
AAATAGTGATTAAAGATTTAATATAAAATATTATTTTAATT
Found at i:46231 original size:54 final size:52
Alignment explanation
Indices: 46044--46245 Score: 248
Period size: 54 Copynumber: 3.9 Consensus size: 52
46034 TTTCAAAATC
* ** * * *
46044 TTTTGTTA-TTTTAAATAGTAATTTGAGATTTGATATAAAATACTTTT-ATC
1 TTTTATTATTTTTAAATAGTAATTAAAGATTTAATATAAAATATTTTTAATT
*
46094 TTTTATTATTTTTAAATAGTAGTTCAAA-ATTTAATATAAAATATTTTTTAATT
1 TTTTATTATTTTTAAATAGTAATT-AAAGATTTAATATAAAATA-TTTTTAATT
*
46147 TTTTATTATTTTTAAATAGTAATTAGAGATTTAATATAAAATATTTTTAAATTT
1 TTTTATTATTTTTAAATAGTAATTAAAGATTTAATATAAAATATTTTT-AA-TT
* * *
46201 TTTTGTTATTTTTAAATAGTGATTAAAGATTTATTATAAAATATT
1 TTTTATTATTTTTAAATAGTAATTAAAGATTTAATATAAAATATT
46246 ATTTTAATAG
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
50 7 0.05
51 28 0.21
52 12 0.09
53 42 0.32
54 43 0.33
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.53
Consensus pattern (52 bp):
TTTTATTATTTTTAAATAGTAATTAAAGATTTAATATAAAATATTTTTAATT
Found at i:47182 original size:2 final size:2
Alignment explanation
Indices: 47175--47201 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47165 TTGTTAATAA
47175 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
47202 CTCCCACCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47379 original size:2 final size:2
Alignment explanation
Indices: 47374--47415 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
47364 TCTGTTTCTT
*
47374 TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
47416 CTCCCTATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48393 original size:2 final size:2
Alignment explanation
Indices: 48386--48414 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48376 TCTGCTTAAT
48386 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
48415 GTTCCTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:50359 original size:14 final size:15
Alignment explanation
Indices: 50335--50367 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50325 AATCTTTATT
*
50335 ATATGTTTTTAAATA
1 ATATGTTTTTAAAAA
50350 ATAT-TTTTTAAAAA
1 ATATGTTTTTAAAAA
50364 ATAT
1 ATAT
50368 ATGAATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATATGTTTTTAAAAA
Found at i:53904 original size:2 final size:2
Alignment explanation
Indices: 53897--53928 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
53887 AACCTTTCTC
53897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53929 TATGAGACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55138 original size:11 final size:11
Alignment explanation
Indices: 55122--55165 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
55112 AAAATTTTTA
55122 TATATTTATAT
1 TATATTTATAT
55133 TATATTTATAT
1 TATATTTATAT
*
55144 TAT-TTTTTAT
1 TATATTTATAT
*
55154 TATACTTATAT
1 TATATTTATAT
55165 T
1 T
55166 TAAGTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TATATTTATAT
Found at i:55154 original size:21 final size:20
Alignment explanation
Indices: 55118--55165 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
55108 ATAAAAAATT
55118 TTTATA-TATTTATATTATA
1 TTTATATTATTTATATTATA
*
55137 TTTATATTATTTTTTATTATA
1 TTTATATTA-TTTATATTATA
*
55158 CTTATATT
1 TTTATATT
55166 TAAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 2 0.08
21 17 0.68
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATATTATTTATATTATA
Found at i:55263 original size:18 final size:17
Alignment explanation
Indices: 55240--55277 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
55230 TTTATTCGTA
*
55240 TTATATTATTATTATTTT
1 TTATATTA-TATTATATT
55258 TTATATTATATTATATT
1 TTATATTATATTATATT
55275 TTA
1 TTA
55278 GTCATGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATATTATATTATATT
Found at i:56075 original size:20 final size:20
Alignment explanation
Indices: 56050--56087 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56040 TATCATCAAA
56050 AATTCTA-AATCTCAATTAAG
1 AATTCTATAATCT-AATTAAG
56070 AATTCTATAATCTAATTA
1 AATTCTATAATCTAATTA
56088 TTTTACCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
AATTCTATAATCTAATTAAG
Found at i:58828 original size:45 final size:45
Alignment explanation
Indices: 58777--58868 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
58767 ATCTCATACT
58777 CATGAGCAATCCAAATGTATTGCTTCCAACTACAATCCACACAAA
1 CATGAGCAATCCAAATGTATTGCTTCCAACTACAATCCACACAAA
58822 CATGAGCAATCCAAATGTATTGCTTCCAACTACAATCCACACAAA
1 CATGAGCAATCCAAATGTATTGCTTCCAACTACAATCCACACAAA
58867 CA
1 CA
58869 GCAGTTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (45 bp):
CATGAGCAATCCAAATGTATTGCTTCCAACTACAATCCACACAAA
Found at i:59284 original size:11 final size:11
Alignment explanation
Indices: 59265--59321 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
59255 AGAATTTTTC
*
59265 TCTCCATTCTT
1 TCTCTATTCTT
59276 TCTCTATTCTT
1 TCTCTATTCTT
59287 TCTCTATTCATT
1 TCTCTATTC-TT
*
59299 T-TCTGTT-TT
1 TCTCTATTCTT
59308 CTCTCT-TTCTT
1 -TCTCTATTCTT
59319 TCT
1 TCT
59322 TTACATATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 29 0.73
12 3 0.08
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.63
Consensus pattern (11 bp):
TCTCTATTCTT
Found at i:59295 original size:22 final size:22
Alignment explanation
Indices: 59260--59321 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
59250 GTTACAGAAT
*
59260 TTTTCTCTCCATTCTTTCTCTA
1 TTTTCTCTCTATTCTTTCTCTA
*
59282 TTCTT-TCTCTATTCATTT-TCTG
1 TT-TTCTCTCTATTC-TTTCTCTA
59304 TTTTCTCTCT-TTCTTTCT
1 TTTTCTCTCTATTCTTTCT
59322 TTACATATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.09
21 6 0.18
22 20 0.59
23 5 0.15
ACGTcount: A:0.06, C:0.27, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTCTCTCTATTCTTTCTCTA
Found at i:64175 original size:11 final size:11
Alignment explanation
Indices: 64151--64186 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
64141 ATGGAAGTTA
64151 CTTTCTCTCCATT
1 CTTTCTCT--ATT
64164 CTTTCTCTATT
1 CTTTCTCTATT
64175 CTTTCTCTATT
1 CTTTCTCTATT
64186 C
1 C
64187 ATTTTCTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 15 0.65
13 8 0.35
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.58
Consensus pattern (11 bp):
CTTTCTCTATT
Found at i:66526 original size:78 final size:78
Alignment explanation
Indices: 66278--66529 Score: 274
Period size: 78 Copynumber: 3.2 Consensus size: 78
66268 ACATGACTCT
* * *
66278 AGACGCGATTTTAAGGTAGTATTACCTAAATGACCTTTAACGGACATGTTTTGACATTAAAGTTC
1 AGACTCGATTTTAAGGTAGTATTACCTAAATGACC-TTAATGGACATGTTTTGACATGAAAGTTC
* *
66343 CCACATGATCTTAA
65 CCATATGATCCTAA
* * * * * * * * *
66357 GGACTTGGTTTTAAGGCAATGTTACCTAAAT-ACCTCTAATGGACATTTTTTGATATGAAAATTC
1 AGACTCGATTTTAAGGTAGTATTACCTAAATGACCT-TAATGGACATGTTTTGACATGAAAGTTC
* *
66421 TCATGTGATCCTAA
65 CCATATGATCCTAA
* * * *
66435 AAACTC-AGCTTTAAGGTAGTATTACCTAAATGACCTTAATGGATATGTTTTGACATGAAGGTTC
1 AGACTCGA-TTTTAAGGTAGTATTACCTAAATGACCTTAATGGACATGTTTTGACATGAAAGTTC
*
66499 CCATATGACCCTAA
65 CCATATGATCCTAA
66513 AGACTCGATTTTAAGGT
1 AGACTCGATTTTAAGGT
66530 GAGGTTCCCA
Statistics
Matches: 135, Mismatches: 34, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
77 1 0.01
78 105 0.78
79 29 0.21
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (78 bp):
AGACTCGATTTTAAGGTAGTATTACCTAAATGACCTTAATGGACATGTTTTGACATGAAAGTTCC
CATATGATCCTAA
Found at i:66536 original size:38 final size:38
Alignment explanation
Indices: 66493--66568 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
66483 TTTGACATGA
*
66493 AGGTTCCCATATGACCCTAAAGACTCGATTTTAAGGTG
1 AGGTTCCCACATGACCCTAAAGACTCGATTTTAAGGTG
*
66531 AGGTTCCCACATGATCCTAAAGACTCGATTTTAAGGTG
1 AGGTTCCCACATGACCCTAAAGACTCGATTTTAAGGTG
66569 CTTTTACCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (38 bp):
AGGTTCCCACATGACCCTAAAGACTCGATTTTAAGGTG
Found at i:66958 original size:57 final size:57
Alignment explanation
Indices: 66752--67033 Score: 153
Period size: 57 Copynumber: 4.9 Consensus size: 57
66742 AAACAATCCG
* * ** * * **
66752 AAATCATTA-AAAATTACTAAAATGACCTTAAAATAAATAAATTTACATGATGGTCCT-T
1 AAATCA-TAGAAAATGACTAAAATGACCCTAAAATGCATGAA-TTACATAATGG-AATAT
* * * * * ** *
66810 AAATCATAGAAAATAATTAAAAT-AGCCCTAGAATGCATGAAATTACAAAATAGTTTCT
1 AAATCATAGAAAATGACTAAAATGA-CCCTAAAATGCATG-AATTACATAATGGAATAT
** * ** * ** *
66868 AAATTTTAGAAAAGGACTAAAATG--GTTATAAATGCATGATATTACATAATTGTTTCT
1 AAATCATAGAAAATGACTAAAATGACCCTA-AAATGCATGA-ATTACATAATGGAATAT
** * *
66925 AAATCAT-GAAAATGACTAATGTGACCCTAAAATGCATTAATTGCATAATGGAATAT
1 AAATCATAGAAAATGACTAAAATGACCCTAAAATGCATGAATTACATAATGGAATAT
***
66981 AAATCATAGAAAATGACTAAAATGGTTCTAAAATGCATGAAATTACATGAATG
1 AAATCATAGAAAATGACTAAAATGACCCTAAAATGCATG-AATTACAT-AATG
67034 CATGAATTTG
Statistics
Matches: 170, Mismatches: 42, Indels: 23
0.72 0.18 0.10
Matches are distributed among these distances:
56 35 0.21
57 66 0.39
58 63 0.37
59 6 0.04
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (57 bp):
AAATCATAGAAAATGACTAAAATGACCCTAAAATGCATGAATTACATAATGGAATAT
Found at i:68346 original size:17 final size:16
Alignment explanation
Indices: 68324--68369 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
68314 TTTTTTGCAT
* *
68324 TATTTATTTAGGATATA
1 TATTTATTTAAG-TAAA
68341 TATTTAATTTAAGTAAA
1 TATTT-ATTTAAGTAAA
68358 TATTTATTTAAG
1 TATTTATTTAAG
68370 ACAAGAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 7 0.27
17 13 0.50
18 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TATTTATTTAAGTAAA
Found at i:68723 original size:23 final size:24
Alignment explanation
Indices: 68696--68742 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
68686 ATCTAGATAT
*
68696 ATAAAATTAACAA-TCTAATTAAA
1 ATAAAATTAAAAATTCTAATTAAA
*
68719 ATAAAATTAAAAATTCTGATTAAA
1 ATAAAATTAAAAATTCTAATTAAA
68743 CTCCTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAAATTAAAAATTCTAATTAAA
Found at i:74991 original size:30 final size:30
Alignment explanation
Indices: 74957--75049 Score: 141
Period size: 30 Copynumber: 3.1 Consensus size: 30
74947 ACTTTTCATC
*
74957 TTTCAAAGCCCAAAAGTCAGTGGCATCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
74987 TTTCAAAGCCTACAAGTCAGTGGCATTCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
75017 TTTCAAAGCCCACAAGTTAATGGCATCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTT
75047 TTT
1 TTT
75050 TAAAATAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (30 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTT
Found at i:77475 original size:96 final size:94
Alignment explanation
Indices: 77365--77556 Score: 307
Period size: 96 Copynumber: 2.0 Consensus size: 94
77355 TATCTCCAAT
*
77365 AATGATATTTTAGGCAAAAATAGGAAGTATCTTGACAAATTTAAAAAACGAGG-TTGGAGTATCC
1 AATGATATTTTAGGCAAAAATAGGAAGTATCTTGACAAATTT-AAAAACG-GGATTAGAGTATCC
77429 CCTCGAAAGAAT-GGAGTTGGAGTGTCCCTGAC
64 CCTCGAAAGAATAGG-GTTGGAGTGTCCC-GAC
* *
77461 AATGATATTTTAGGCAAAAATAGGAAGTATCTTGACAAGTTTAAAAATGGGATTAGAGTATCCCC
1 AATGATATTTTAGGCAAAAATAGGAAGTATCTTGACAAATTTAAAAACGGGATTAGAGTATCCCC
77526 TCGAAAGAATAGGGTTGGAGTGTCCCGAC
66 TCGAAAGAATAGGGTTGGAGTGTCCCGAC
77555 AA
1 AA
77557 ATAAAGTTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
94 7 0.08
95 41 0.45
96 43 0.47
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (94 bp):
AATGATATTTTAGGCAAAAATAGGAAGTATCTTGACAAATTTAAAAACGGGATTAGAGTATCCCC
TCGAAAGAATAGGGTTGGAGTGTCCCGAC
Found at i:79913 original size:20 final size:20
Alignment explanation
Indices: 79888--79925 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
79878 AGTATTGATA
*
79888 TAATGTATTGATACATTTAT
1 TAATGTATCGATACATTTAT
79908 TAATGTATCGATACATTT
1 TAATGTATCGATACATTT
79926 TCTTGACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
TAATGTATCGATACATTTAT
Found at i:80754 original size:61 final size:61
Alignment explanation
Indices: 80652--80774 Score: 192
Period size: 61 Copynumber: 2.0 Consensus size: 61
80642 ATGATGAAGT
* * *
80652 TGAGAAAAGTGATAAAGGTGCTAATATGTTGATTCATGGCCAACGATATTAGGCTTAAAGA
1 TGAGAAAAATGATAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTAGGCTTAAAGA
* * *
80713 TGAGAAAAATGATAAAGGTGCCAATATGTTGATTTAAGGCCACCGATATTGGGCTTAAAGA
1 TGAGAAAAATGATAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTAGGCTTAAAGA
80774 T
1 T
80775 ACGAAGAATG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (61 bp):
TGAGAAAAATGATAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTAGGCTTAAAGA
Found at i:80957 original size:52 final size:52
Alignment explanation
Indices: 80883--81119 Score: 266
Period size: 52 Copynumber: 4.6 Consensus size: 52
80873 AGGAATGTTA
* * *
80883 AAGAAAAA--TGCCAATATACTGATTCGAGGCCAACGATATTAGACTTAAAG
1 AAGAAAAAGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
* * * *
80933 ATGATAAAGTTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAG
1 AAGAAAAAGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
* * * * *
80984 AAAAAAAAGGTGTCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
1 AAGAAAAAGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
* * * * *
81036 ATGAGAAATGTT-CCAATATGCTGATGCAAGGCCAATGATATTGGACTTAAAA
1 AAGA-AAAAGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
* *
81088 AAGAAAAAGTTGTCAATGTGCTGATTCAAGGC
1 AAGAAAAAGTTGCCAATATGCTGATTCAAGGC
81120 TAGTGCCATT
Statistics
Matches: 151, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
50 6 0.04
51 48 0.32
52 92 0.61
53 5 0.03
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (52 bp):
AAGAAAAAGTTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
Found at i:81036 original size:103 final size:104
Alignment explanation
Indices: 80901--81119 Score: 334
Period size: 103 Copynumber: 2.1 Consensus size: 104
80891 TGCCAATATA
* * * *
80901 CTGATTCGAGGCCAACGATATTAGACTTAAAGATGATAAA-GTTACCAATATGCTGATTCAAGGC
1 CTGATTCAAGGCCAACGACATTAGACTTAAAGATGAGAAATGTT-CCAATATGCTGATGCAAGGC
* *
80965 CAGCGATATTGGACTTAAGAAA-AAAAAGGTGTCAATGTG
65 CAACGATATTGGACTTAAAAAAGAAAAAGGTGTCAATGTG
*
81004 CTGATTCAAGGCCAACGACATTGGACTTAAAGATGAGAAATGTTCCAATATGCTGATGCAAGGCC
1 CTGATTCAAGGCCAACGACATTAGACTTAAAGATGAGAAATGTTCCAATATGCTGATGCAAGGCC
* *
81069 AATGATATTGGACTTAAAAAAGAAAAAGTTGTCAATGTG
66 AACGATATTGGACTTAAAAAAGAAAAAGGTGTCAATGTG
81108 CTGATTCAAGGC
1 CTGATTCAAGGC
81120 TAGTGCCATT
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
103 74 0.70
104 31 0.30
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (104 bp):
CTGATTCAAGGCCAACGACATTAGACTTAAAGATGAGAAATGTTCCAATATGCTGATGCAAGGCC
AACGATATTGGACTTAAAAAAGAAAAAGGTGTCAATGTG
Found at i:81334 original size:34 final size:34
Alignment explanation
Indices: 81290--81541 Score: 214
Period size: 34 Copynumber: 7.8 Consensus size: 34
81280 TTGTGGACTT
* *
81290 AAAAGGGTGCCATGGAGTTGTGGGCTTTGAAAAGA
1 AAAAGGATGCCATGGAGTCGTGGGCTTTG-AAAGA
81325 AAAAGG-TGCCATGGAGTCGTGGGCTTT---AG-
1 AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAGA
* * *
81354 -GAAGGATGCCACGGAGTCATGGGCTTTGAAAG-
1 AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAGA
* * *
81386 -AAAGGATTCCATGAAGTCATGGGCTTTGAAAAGA
1 AAAAGGATGCCATGGAGTCGTGGGCTTTG-AAAGA
**
81420 AAAAGG-TGCCACAGAGTCGTGGGCTTT---AG-
1 AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAGA
* *
81449 -GAAGGATGCCATGAAGTCGTGGGCTTTG-AA-A
1 AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAGA
* *
81480 AAAAGGATGCCATAGAGTCGGGGGCTTTGAAAAGA
1 AAAAGGATGCCATGGAGTCGTGGGCTTTG-AAAGA
**
81515 AAAAGG-TGCCACAGAGTCGTGGGCTTT
1 AAAAGGATGCCATGGAGTCGTGGGCTTT
81542 AGGAAGGATG
Statistics
Matches: 179, Mismatches: 23, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
28 8 0.04
29 37 0.21
30 4 0.02
31 1 0.01
32 50 0.28
33 4 0.02
34 57 0.32
35 18 0.10
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (34 bp):
AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAGA
Found at i:81369 original size:29 final size:30
Alignment explanation
Indices: 81326--81555 Score: 139
Period size: 32 Copynumber: 7.4 Consensus size: 30
81316 TTGAAAAGAA
*
81326 AAAGG-TGCCATGGAGTCGTGGGCTTT-AG
1 AAAGGATGCCACGGAGTCGTGGGCTTTAAG
* *
81354 GAAGGATGCCACGGAGTCATGGGCTTTGAAAG
1 AAAGGATGCCACGGAGTCGTGGGCTTT--AAG
* * * *
81386 AAAGGATTCCATGAAGTCATGGGCTTTGAAAAG
1 AAAGGATGCCACGGAGTCGTGGGCTTT---AAG
*
81419 AAAAAGG-TGCCACAGAGTCGTGGGCTTT-AG
1 --AAAGGATGCCACGGAGTCGTGGGCTTTAAG
* * * *
81449 GAAGGATGCCATGAAGTCGTGGGCTTTGAAAA
1 AAAGGATGCCACGGAGTCGTGGGCTTT--AAG
** *
81481 AAAGGATGCCATAGAGTCGGGGGCTTTGAAAAG
1 AAAGGATGCCACGGAGTCGTGGGCTTT---AAG
*
81514 AAAAAGG-TGCCACAGAGTCGTGGGCTTT-AG
1 --AAAGGATGCCACGGAGTCGTGGGCTTTAAG
*
81544 GAAGGATGCCAC
1 AAAGGATGCCAC
81556 CTACTTATAT
Statistics
Matches: 160, Mismatches: 27, Indels: 29
0.74 0.12 0.13
Matches are distributed among these distances:
28 12 0.08
29 43 0.27
30 4 0.03
32 49 0.31
33 7 0.04
34 35 0.22
35 10 0.06
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.20
Consensus pattern (30 bp):
AAAGGATGCCACGGAGTCGTGGGCTTTAAG
Found at i:81377 original size:63 final size:62
Alignment explanation
Indices: 81304--81555 Score: 198
Period size: 63 Copynumber: 4.0 Consensus size: 62
81294 GGGTGCCATG
* * * *
81304 GAGTTGTGGGCTTTGAAAAGAAAAAGG-TGCCATGGAGTCGTGGGCTTT-AGGAAGGATGCCACG
1 GAGTCGTGGGCTTTG-AAAG--AAAGGATGCCATGAAGTCGTGGGCTTTAAGAAAGGATGCCACA
* * *
81367 GAGTCATGGGCTTTGAAAGAAAGGATTCCATGAAGTCATGGGCTTTGAAAAGAAAAAGG-TGCCA
1 GAGTCGTGGGCTTTGAAAGAAAGGATGCCATGAAGTCGTGGGCTTT---AAG--AAAGGATGCCA
81431 CA
61 CA
* * *
81433 GAGTCGTGGGCTTT---AGGAAGGATGCCATGAAGTCGTGGGCTTTGAAAAAAAGGATGCCATA
1 GAGTCGTGGGCTTTGAAAGAAAGGATGCCATGAAGTCGTGGGCTTT--AAGAAAGGATGCCACA
* * *
81494 GAGTCGGGGGCTTTGAAAAGAAAAAGG-TGCCA-CAGAGTCGTGGGCTTT-AGGAAGGATGCCAC
1 GAGTCGTGGGCTTTG-AAAG--AAAGGATGCCATGA-AGTCGTGGGCTTTAAGAAAGGATGCCAC
81556 CTACTTATAT
Statistics
Matches: 154, Mismatches: 20, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
60 10 0.06
61 37 0.24
62 7 0.05
63 50 0.32
65 5 0.03
66 37 0.24
67 8 0.05
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.21
Consensus pattern (62 bp):
GAGTCGTGGGCTTTGAAAGAAAGGATGCCATGAAGTCGTGGGCTTTAAGAAAGGATGCCACA
Found at i:81398 original size:95 final size:95
Alignment explanation
Indices: 81290--81555 Score: 415
Period size: 95 Copynumber: 2.8 Consensus size: 95
81280 TTGTGGACTT
* * **
81290 AAAAGGGTGCCATGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGGAGTCGTGGGCTTTAGG
1 AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGGCTTTAGG
*
81355 AAGGATGCCACGGAGTCATGGGCTTTGAAA
66 AAGGATGCCACGAAGTCATGGGCTTTGAAA
* * * *
81385 GAAAGGATTCCATGAAGTCATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGGCTTTAGG
1 AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGGCTTTAGG
* *
81450 AAGGATGCCATGAAGTCGTGGGCTTTGAAA
66 AAGGATGCCACGAAGTCATGGGCTTTGAAA
* *
81480 AAAAGGATGCCATAGAGTCGGGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGGCTTTAGG
1 AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGGCTTTAGG
81545 AAGGATGCCAC
66 AAGGATGCCAC
81556 CTACTTATAT
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 153 1.00
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.21
Consensus pattern (95 bp):
AAAAGGATGCCATGGAGTCGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTCGTGGGCTTTAGG
AAGGATGCCACGAAGTCATGGGCTTTGAAA
Found at i:83037 original size:12 final size:12
Alignment explanation
Indices: 83000--83037 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
82990 GTCTGGACCC
83000 TTTTTTTGCTTTT
1 TTTTTTTG-TTTT
*
83013 GTTTTTTGTTTT
1 TTTTTTTGTTTT
83025 TTTTTTTGTTTT
1 TTTTTTTGTTTT
83037 T
1 T
83038 GTGAAAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.87
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:92550 original size:72 final size:71
Alignment explanation
Indices: 92440--92572 Score: 194
Period size: 72 Copynumber: 1.9 Consensus size: 71
92430 CATTCTTCAA
* * *
92440 TGTATCGATATATTTTATCTTTTTACCCAGATGTATCGATACATTTTTCAATTTATCGATAGATG
1 TGTATCAATACATTTTATCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATAGATG
92505 TATGAC
66 TATGAC
* ** *
92511 TGTATCAATACATTTTGTCTTTTTTTTCCAGATGTATCGATACATTTTTTAATGTATCGATA
1 TGTATCAATACATTTTATC-TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATA
92573 CATCTAGTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
71 16 0.30
72 38 0.70
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (71 bp):
TGTATCAATACATTTTATCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATAGATG
TATGAC
Found at i:93464 original size:22 final size:22
Alignment explanation
Indices: 93436--93489 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
93426 GCCTTTGACT
93436 ATGCATTTTTTTATTATGTTTC
1 ATGCATTTTTTTATTATGTTTC
93458 ATGCATTTTTTTATTATGTTTC
1 ATGCATTTTTTTATTATGTTTC
93480 ATGCATTTTT
1 ATGCATTTTT
93490 AATATGTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (22 bp):
ATGCATTTTTTTATTATGTTTC
Found at i:103552 original size:9 final size:9
Alignment explanation
Indices: 103538--103591 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
103528 ATTCATACCC
*
103538 AAAAAAATA
1 AAAAAAACA
103547 AAAAAAACA
1 AAAAAAACA
*
103556 AAAAAAACC
1 AAAAAAACA
103565 AAAAAAACA
1 AAAAAAACA
103574 AAAAAAACCA
1 AAAAAAA-CA
103584 AGAAAAAA
1 A-AAAAAA
103592 TAGGAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
9 31 0.77
10 3 0.08
11 6 0.15
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAAACA
Found at i:104861 original size:28 final size:28
Alignment explanation
Indices: 104818--105724 Score: 1141
Period size: 28 Copynumber: 31.7 Consensus size: 28
104808 CGTTCATCTC
*
104818 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
104846 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
104874 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
104903 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
104931 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
104959 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
104987 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
105015 TTCAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
105043 TTCAAAGCCCACAAGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
*
105072 TTCCAAAGCCCACAAGTCAGTGGCATCCT
1 TT-CAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
105101 TTCAAAGCCCACGAGACAATGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
105131 TTCAAAGCCTACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
105159 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
105187 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
105215 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
105243 TTCAAAGCCCACAAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
105273 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
105301 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * **
105329 TTCAAAGCCCACGAGACAATGGCAACTTTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
105359 TTCAAAGCCCACAAGTCAGTGGCATCCG
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
105387 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
105415 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
105443 TTCAAAGCCCACAAG-CTAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGGC-AC-CCT
*
105473 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
105501 TTCAAAGGCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
105529 TTCAAAGCCCACGAGACAATGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
105559 TTCAAATCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
105587 TTCAAAGTCCACAAGTCAGTTGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
105615 TTCAAAGCCTATATGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
105644 TTCAAAGCCCACACGAGTCGGTGGTAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGG-CAC-CCT
* * *
105676 TTTAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
105705 TTCAAAGCCCACAAGCCAGT
1 TTCAAAGCCCACAAGTCAGT
105725 TTTCAAAGCC
Statistics
Matches: 765, Mismatches: 95, Indels: 37
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.00
28 520 0.68
29 80 0.10
30 139 0.18
31 7 0.01
32 18 0.02
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:105182 original size:200 final size:200
Alignment explanation
Indices: 104818--105719 Score: 1323
Period size: 200 Copynumber: 4.5 Consensus size: 200
104808 CGTTCATCTC
* * *
104818 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGC-A-TCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAG
* *
104881 CCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAG
66 CCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAG
* * *
104946 TCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGG
130 ACAATGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
105009 CACCCT
195 CACCCT
* * *
105015 TTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTTCCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAG
* * * * *
105080 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGACAATGGTAACTCTTTTCAAAGCCTACAA
66 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGG-CA-TCCTTTCAAAGCCCACAA
* *
105145 GTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
129 GACAATGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTG
105208 GCACCCT
194 GCACCCT
105215 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAG
* *
105280 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGA
66 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGA
** *
105345 CAATGGCAACTTTTTTCAAAGCCCACAAGTCAGTGGCATCCGTTCAAAGCCCACAAGTCAGTGGC
131 CAATGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC
105410 ACCCT
196 ACCCT
105415 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG-CTAGTGGCAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC-AGTGGCAACTCTTTTCAAA
* * *
105479 GCCCACAAGTCAGTGGCATCCTTTCAAAGGCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAG
65 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAG
* * * *
105544 ACAATGGCAACTCTTTTCAAATCCCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTTG
130 ACAATGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
105609 CACCCT
195 CACCCT
* * * * * * * *
105615 TTCAAAGCCTATATGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGTAACTCTTTTTA
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGCAACTCTTTTCA
* *
105680 AAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAG
63 AAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAG
105720 CCAGTTTTCA
Statistics
Matches: 646, Mismatches: 46, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
197 48 0.07
198 45 0.07
199 29 0.04
200 456 0.71
201 15 0.02
203 35 0.05
204 18 0.03
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (200 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAAAG
CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGA
CAATGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC
ACCCT
Found at i:105218 original size:228 final size:226
Alignment explanation
Indices: 104818--105724 Score: 1280
Period size: 228 Copynumber: 4.0 Consensus size: 226
104808 CGTTCATCTC
* * *
104818 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* * * * *
104883 CATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTC
66 CACAAGACAATGGAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
*
104948 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAC-
131 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACT
105012 CCTTTCAAAGCCCACAAGTCAGTGGCAACCT
196 CCTTTCAAAGCCCACAAGTCAGTGGCAACCT
105043 TTCAAAGCCCACAAGTCAGTGGCATCTCTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* *
105108 CCCACGAGACAATGGTAACTCTTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACAA
64 CCCACAAGACAATGG-AACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAA
* *
105173 GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
128 GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGC
105238 AC-CCTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
193 ACTCCTTTCAAAGCCCACAAGTCAGTGGCAAC-C-T
105273 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* * *
105338 CACGAGACAATGGCAACTTTTTTCAAAGCCCACAAGTCAGTGGCATCCGTTCAAAGCCCACAAGT
66 CACAAGACAATGG-AACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
*
105403 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCTAGTGGCAA
130 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGC-A
* *
105468 CTCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
194 CTCCTTTCAAAGCCCACAAGTCAGTGGCAACCT
* * * * * *
105501 TTCAAAGGCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGACAATGGCAACTCTTTTCAAAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAG
* * * * * * * * * *
105566 CCCACAAGTCAGTGGCA-TCCTTTCAAAGTCCACAAGTCAGTTGCACCCTTTCAAAGCCTATATG
64 CCCACAAGACAATGGAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
* * * * * *
105630 TTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGTAACTCTTTTTAAAGCCCACAAGTTAG
129 TCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGG-CAC-CCTTTCAAAGCCCACAAGTTAG
* *
105695 TGGCACTCTTTTCAAAGCCCACAAGCCAGT
189 TGGCACTCCTTTCAAAGCCCACAAGTCAGT
105725 TTTCAAAGCC
Statistics
Matches: 619, Mismatches: 49, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
225 24 0.04
226 4 0.01
227 43 0.07
228 390 0.63
229 25 0.04
230 75 0.12
231 8 0.01
232 27 0.04
233 23 0.04
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (226 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
CACAAGACAATGGAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACT
CCTTTCAAAGCCCACAAGTCAGTGGCAACCT
Found at i:106528 original size:40 final size:40
Alignment explanation
Indices: 106473--106625 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
106463 GGTAGAGGGT
106473 CATTCTTCAATGTATCGATACATGTATGAATGTATCGATA
1 CATTCTTCAATGTATCGATACATGTATGAATGTATCGATA
* * *
106513 CATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAAATATATCGATA
1 CATTCTTCAATGTATCGATACA-TGTA------T----GAATGTATCGATA
* * * *
106564 TATTTTTCAATGTATCGATATATGTATGACTGTATCGATA
1 CATTCTTCAATGTATCGATACATGTATGAATGTATCGATA
* *
106604 CATTTTTTAATGTATCGATACA
1 CATTCTTCAATGTATCGATACA
106626 CTCTATCTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
40 51 0.57
41 3 0.03
44 1 0.01
47 1 0.01
50 3 0.03
51 30 0.34
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (40 bp):
CATTCTTCAATGTATCGATACATGTATGAATGTATCGATA
Found at i:106538 original size:20 final size:20
Alignment explanation
Indices: 106473--106538 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
106463 GGTAGAGGGT
106473 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* *
106493 CATGT-ATGAATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
106513 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
106533 CATTCT
1 CATTCT
106539 ATCTTTTTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
CATTCTTCAATGTATCGATA
Found at i:106624 original size:20 final size:20
Alignment explanation
Indices: 106556--106677 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
106546 TACCCAAATA
* *
106556 TATCGATATATTTTTCAATG
1 TATCGATACATTTTTTAATG
* * * * *
106576 TATCGATATATGTATGACTG
1 TATCGATACATTTTTTAATG
106596 TATCGATACATTTTTTAATG
1 TATCGATACATTTTTTAATG
106616 TATCGATACACTCTATCTTTTTTTTCAAATG
1 TATCGAT--A--C-A----TTTTTT--AATG
106647 TATCGATACATTTTTTAATG
1 TATCGATACATTTTTTAATG
106667 TATCGATACAT
1 TATCGATACAT
106678 CTAATTAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
20 53 0.65
22 7 0.09
24 1 0.01
25 1 0.01
26 1 0.01
27 1 0.01
29 7 0.09
31 11 0.13
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.47
Consensus pattern (20 bp):
TATCGATACATTTTTTAATG
Found at i:106633 original size:91 final size:91
Alignment explanation
Indices: 106473--106677 Score: 302
Period size: 91 Copynumber: 2.3 Consensus size: 91
106463 GGTAGAGGGT
* *
106473 CATTCTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGATACATTC
1 CATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGATACACTC
106538 TATCTTTTTACCCAAATATATCGATA
66 TATCTTTTTACCCAAATATATCGATA
* * * * *
106564 TATTTTTCAATGTATCGATATATGTATGACTGTATCGATACATTTTTTAATGTATCGATACACTC
1 CATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGATACACTC
*** *
106629 TATCTTTTTTTTCAAATGTATCGATA
66 TATCTTTTTACCCAAATATATCGATA
*
106655 CATTTTTTAATGTATCGATACAT
1 CATTTTTCAATGTATCGATACAT
106678 CTAATTAAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 100 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (91 bp):
CATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTTCAATGTATCGATACACTC
TATCTTTTTACCCAAATATATCGATA
Found at i:111766 original size:95 final size:90
Alignment explanation
Indices: 111667--111888 Score: 241
Period size: 95 Copynumber: 2.4 Consensus size: 90
111657 AAAAGGGTAG
* *
111667 GAGTATCCCATTAGAGGAATGGGGTTAGAGTGTCCCCAACAATGATATTTTAGGCAAAAATAGGA
1 GAGTATCCC-TTAGAAGAATGGGGTTAGAGTGTCCCCAACAATGATATTTTAGACAAAAATAGG-
111732 AATATCTTAACAAATTTAAAAATGAGGTTA
64 -A-A-CTTAACAAATTTAAAAATGAGGTTA
* * ***
111762 GAGTATGCCC-TCGAAAGAATGGGATTAGAGTGTCCTTGACAATGATATTTTAGACAAAAATAGG
1 GAGTAT-CCCTTAG-AAGAATGGGGTTAGAGTGTCCCCAACAATGATATTTTAGACAAAAATAGG
* * * *
111826 AAGTTGACAAGTTTAAAAATGGGGTTA
64 AACTTAACAAATTTAAAAATGAGGTTA
* *
111853 GAGTATCCCTTTGGAAGAAT-GGGTTGGAGTGTCCCC
1 GAGTATCCC-TTAGAAGAATGGGGTTAGAGTGTCCCC
111889 GATAAATAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
90 15 0.14
91 33 0.31
92 3 0.03
93 1 0.01
94 2 0.02
95 50 0.47
96 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (90 bp):
GAGTATCCCTTAGAAGAATGGGGTTAGAGTGTCCCCAACAATGATATTTTAGACAAAAATAGGAA
CTTAACAAATTTAAAAATGAGGTTA
Found at i:114011 original size:13 final size:13
Alignment explanation
Indices: 113988--114021 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
113978 GTATCAATAC
113988 ATTGA-ACAATGT
1 ATTGATACAATGT
114000 ATTGATACAATGT
1 ATTGATACAATGT
*
114013 ATCGATACA
1 ATTGATACA
114022 TTTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (13 bp):
ATTGATACAATGT
Found at i:116251 original size:20 final size:21
Alignment explanation
Indices: 116219--116265 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
116209 GGAGGTGCTG
116219 AACATGCTGC-AAATGCATGA
1 AACATGCTGCAAAATGCATGA
116239 AACATAGCT-CAAAATGCATGA
1 AACAT-GCTGCAAAATGCATGA
*
116260 ATCATG
1 AACATG
116266 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (21 bp):
AACATGCTGCAAAATGCATGA
Found at i:117260 original size:52 final size:52
Alignment explanation
Indices: 117113--117242 Score: 233
Period size: 53 Copynumber: 2.5 Consensus size: 52
117103 CGAAATATGA
*
117113 AAATTTGCCTGCATATATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
117165 AAATTTGCCTGCACTGTATCGATACATTTTATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCA-TGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
117218 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
117243 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 25 0.33
53 50 0.67
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:117269 original size:13 final size:13
Alignment explanation
Indices: 117251--117275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117241 CAAAGATCAG
117251 TGTATCGATACAA
1 TGTATCGATACAA
117264 TGTATCGATACA
1 TGTATCGATACA
117276 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:117357 original size:13 final size:13
Alignment explanation
Indices: 117339--117393 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
117329 AAAACTTATA
117339 TATCGATACATTG
1 TATCGATACATTG
117352 TATCGATACAACACTTATG
1 TATCGAT---ACA--T-TG
117371 TATCGATACATTG
1 TATCGATACATTG
117384 TATCGATACA
1 TATCGATACA
117394 CCACTTTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
16 6 0.17
18 1 0.03
19 9 0.25
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:117374 original size:19 final size:19
Alignment explanation
Indices: 117318--117380 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
117308 TAGCTTACAT
*
117318 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
117337 TATATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
117350 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
117369 TGTATCGATACA
1 TGTATCGATACA
117381 TTGTATCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 8 0.23
14 1 0.03
16 5 0.14
18 1 0.03
19 20 0.57
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:117399 original size:32 final size:32
Alignment explanation
Indices: 117313--117413 Score: 157
Period size: 32 Copynumber: 3.1 Consensus size: 32
117303 GGTAGTAGCT
* *
117313 TACATTGTATCGATACAAAACTTATATATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
117345 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
* *
117377 TACATTGTATCGATACACCACTTTATGTATCGG
1 TACATTGTATCGATACAACAC-TTATGTATCGA
117410 TACA
1 TACA
117414 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 50 0.78
33 14 0.22
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:117749 original size:13 final size:13
Alignment explanation
Indices: 117733--117758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117723 TAGGGTAGCT
117733 TTGTATCGATACA
1 TTGTATCGATACA
117746 TTGTATCGATACA
1 TTGTATCGATACA
117759 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:118614 original size:34 final size:35
Alignment explanation
Indices: 118571--118640 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
118561 AATGAGGGAG
* * *
118571 TTACAATTTTTTAAA-CTAAGCTGTCTAGAACCCC
1 TTACAATTTTTCAAATCTAAGCTATCTAAAACCCC
118605 TTACAATTTTTCAAATCTAAGCTATCTAAAACCCC
1 TTACAATTTTTCAAATCTAAGCTATCTAAAACCCC
118640 T
1 T
118641 GAAATCAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (35 bp):
TTACAATTTTTCAAATCTAAGCTATCTAAAACCCC
Found at i:124567 original size:19 final size:20
Alignment explanation
Indices: 124543--124595 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
124533 ACATTATGCT
**
124543 TTGTATCGATACAT-GTTAA
1 TTGTATCGATACATGGACAA
124562 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
*
124582 TTGTATTGATACAT
1 TTGTATCGATACAT
124596 TAGATTGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:124664 original size:13 final size:13
Alignment explanation
Indices: 124648--124672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124638 TGTTACAATG
124648 TATCGATACATTC
1 TATCGATACATTC
124661 TATCGATACATT
1 TATCGATACATT
124673 GCTTGTAACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTC
Found at i:130663 original size:21 final size:21
Alignment explanation
Indices: 130633--130678 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
130623 GATTTTGTTT
*
130633 TGTTGTTGAATGAATTTTG-A
1 TGTTGTTGAATGAATTATGCA
130653 TGTTGTGTGAATGAATTATGCA
1 TGTTGT-TGAATGAATTATGCA
130675 TGTT
1 TGTT
130679 TGATATGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (21 bp):
TGTTGTTGAATGAATTATGCA
Found at i:133375 original size:19 final size:20
Alignment explanation
Indices: 133351--133400 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
133341 ACATTATGCT
**
133351 TTGTATCGATACAT-GTTAA
1 TTGTATCGATACATGGACAA
133370 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
133390 TTGTATCGATA
1 TTGTATCGATA
133401 GATAAGATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:133459 original size:20 final size:20
Alignment explanation
Indices: 133434--133486 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
133424 TACAACTGTT
*
133434 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
133454 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
133474 TGTATCGATACAT
1 TGTATCGATACAT
133487 TTCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:137007 original size:31 final size:31
Alignment explanation
Indices: 136972--137348 Score: 220
Period size: 31 Copynumber: 12.0 Consensus size: 31
136962 AACCTCTTTA
136972 TCTTTGTCCTCAAAGAGCAAGGCATTTTCTT
1 TCTTTGTCCTCAAAGAGCAAGGCATTTTCTT
* * * *
137003 TCTTTCTTCATCCTTAAA-AGCACGACATTTTCTT
1 TC--T-TT-GTCCTCAAAGAGCAAGGCATTTTCTT
* * * * *
137037 TCTCTGTCCTGAAA-AGGATAGACGTTTTCTT
1 TCTTTGTCCTCAAAGAGCA-AGGCATTTTCTT
*
137068 TCTTCTGTACTCCTCAAAGAGCAAGACATCTTT-TT
1 TCTT-TG---TCCTCAAAGAGCAAGGCAT-TTTCTT
* * * *
137103 TCATTGTCCTCAAAGAACAAGACATTTGCTT
1 TCTTTGTCCTCAAAGAGCAAGGCATTTTCTT
* * * *
137134 CCTTTATCCTCAAAGAG-TAGGATATTTTCTT
1 TCTTTGTCCTCAAAGAGCAAGG-CATTTTCTT
* * * ** *
137165 TCTTTATCCTAAAAAATTAGGGCATTTTCTT
1 TCTTTGTCCTCAAAGAGCAAGGCATTTTCTT
* * *
137196 TCTTTTTCCTCAAAGACCAA-G-ATGTCGTCTT
1 TCTTTGTCCTCAAAGAGCAAGGCAT-T-TTCTT
137227 TCTTTGTCCTCAAAGAGC-AGGACA-TTT-TT
1 TCTTTGTCCTCAAAGAGCAAGG-CATTTTCTT
* * *
137256 T-TTTGTCCTTAAAGAGTAAGACATTTTCTT
1 TCTTTGTCCTCAAAGAGCAAGGCATTTTCTT
*
137286 TCTTTGTCCTCAAAGAG-TAGGACATTTTCTT
1 TCTTTGTCCTCAAAGAGCAAGG-CATTTTCTT
* * *
137317 CCTTTGTACTTAAAGAGC-AGGACATTTTCTT
1 TCTTTGTCCTCAAAGAGCAAGG-CATTTTCTT
137348 T
1 T
137349 ATTTATTACT
Statistics
Matches: 269, Mismatches: 52, Indels: 50
0.73 0.14 0.13
Matches are distributed among these distances:
28 16 0.06
29 10 0.04
30 23 0.09
31 163 0.61
32 5 0.02
33 2 0.01
34 20 0.07
35 24 0.09
36 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (31 bp):
TCTTTGTCCTCAAAGAGCAAGGCATTTTCTT
Done.