Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 1 of 427
Found at i:17 original size:7 final size:7
Alignment explanation
Indices: 3--341 Score: 255
Period size: 7 Copynumber: 48.4 Consensus size: 7
1 AC
3 CCCT-AA
1 CCCTAAA
9 CCCTAAA
1 CCCTAAA
16 CCCTAAA
1 CCCTAAA
23 CCCTAAA
1 CCCTAAA
30 CCCTAAA
1 CCCTAAA
37 CCCTAAAA
1 CCCT-AAA
*
45 CCCTGAA
1 CCCTAAA
52 -CCTAAAA
1 CCCT-AAA
59 CCCTAAA
1 CCCTAAA
*
66 CCCTGAAC
1 CCCT-AAA
* *
74 CCCGAAC
1 CCCTAAA
*
81 CCCTGAA
1 CCCTAAA
*
88 CCCTGAA
1 CCCTAAA
*
95 CCCTGAA
1 CCCTAAA
*
102 CCCTGAA
1 CCCTAAA
*
109 CCCTGAA
1 CCCTAAA
*
116 CCCTGAA
1 CCCTAAA
*
123 CCCTGAA
1 CCCTAAA
*
130 CCCTGAA
1 CCCTAAA
*
137 CCCTGAA
1 CCCTAAA
*
144 CCCTGAA
1 CCCTAAA
*
151 CCCTGAA
1 CCCTAAA
*
158 CCCTAGA
1 CCCTAAA
*
165 CCCTAGA
1 CCCTAAA
*
172 CCCT-GA
1 CCCTAAA
*
178 CCCTAGA
1 CCCTAAA
*
185 CCCTAGA
1 CCCTAAA
*
192 CCCTAGA
1 CCCTAAA
*
199 CCCTAGA
1 CCCTAAA
*
206 CCCTAGA
1 CCCTAAA
213 CCCTAAAA
1 CCCT-AAA
*
221 CCCTAGA
1 CCCTAAA
*
228 CCTTAAA
1 CCCTAAA
*
235 CCCCTAGA
1 -CCCTAAA
*
243 CCTTAAA
1 CCCTAAA
250 CCCCT-AA
1 -CCCTAAA
257 CCCTAAA
1 CCCTAAA
*
264 CCCTAAC
1 CCCTAAA
271 CCCT-AA
1 CCCTAAA
*
277 CCCTTAAC
1 CCC-TAAA
285 CCCTAAA
1 CCCTAAA
292 -CCTAAAA
1 CCCT-AAA
299 CCCTAAA
1 CCCTAAA
306 CCCCT-AA
1 -CCCTAAA
313 CCC-AAA
1 CCCTAAA
*
319 CCCCAAA
1 CCCTAAA
326 CCC-AAA
1 CCCTAAA
*
332 CCCCAAA
1 CCCTAAA
339 CCC
1 CCC
342 CAAAACCCTT
Statistics
Matches: 293, Mismatches: 22, Indels: 35
0.84 0.06 0.10
Matches are distributed among these distances:
6 38 0.13
7 215 0.73
8 40 0.14
ACGTcount: A:0.35, C:0.45, G:0.07, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:335 original size:13 final size:13
Alignment explanation
Indices: 296--341 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
286 CCTAAACCTA
296 AAACCCTAAACCCC
1 AAACCC-AAACCCC
*
310 TAACCCAAACCCC
1 AAACCCAAACCCC
323 AAACCCAAACCCC
1 AAACCCAAACCCC
336 AAACCC
1 AAACCC
342 CAAAACCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 25 0.83
14 5 0.17
ACGTcount: A:0.43, C:0.52, G:0.00, T:0.04
Consensus pattern (13 bp):
AAACCCAAACCCC
Found at i:7269 original size:15 final size:16
Alignment explanation
Indices: 7231--7270 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
7221 ATAACAACGA
7231 ACCGGGATATCCCTGG
1 ACCGGGATATCCCTGG
*
7247 AACGGGATATCCCTGG
1 ACCGGGATATCCCTGG
7263 -CCGGGATA
1 ACCGGGATA
7271 AGTATGACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.17
Consensus pattern (16 bp):
ACCGGGATATCCCTGG
Found at i:16595 original size:670 final size:670
Alignment explanation
Indices: 15315--17323 Score: 3975
Period size: 670 Copynumber: 3.0 Consensus size: 670
15305 CTGATGAGCT
*
15315 ATAAGCTCAACTAGGACGGTCATAACACATAAGTCATACCAGCATGGTTATCTTCTATTCTTGTT
1 ATAAGCTCAACTAGGACGGTCATAACACATAAGTCATACCAGCACGGTTATCTTCTATTCTTGTT
*
15380 CGCTGTTTTATTTGTTTGTTATTATTATTGACTACAGATGCATGTAACTATAACTTCTTCCTAGC
66 CGCTGTTTTATTTGTTTGTTATTATTATTGACTACAGATGCACGTAACTATAACTTCTTCCTAGC
15445 AACAGAAAACTGAGAATAGTTGATTCACCACACATGCCAAAAAGGAATGAAAAGTTAAATAGCAA
131 AACAGAAAACTGAGAATAGTTGATTCACCACACATGCCAAAAAGGAATGAAAAGTTAAATAGCAA
15510 AAATATAGAACCTCATTTAGCTGCAGGCTCTTGGACTCACTAAAGGCGTCATAAAAAGGCTTGCT
196 AAATATAGAACCTCATTTAGCTGCAGGCTCTTGGACTCACTAAAGGCGTCATAAAAAGGCTTGCT
*
15575 CCAAGAATCGACCATAGCCTGACAAGGAAAAGGAGTTAAAATGCATCATCAACAACAATAACCAG
261 CCAAGAATCTACCATAGCCTGACAAGGAAAAGGAGTTAAAATGCATCATCAACAACAATAACCAG
15640 AAACAAGAGAAAAGAAAAGTTAGCAACCAAAAACATCTTTTGTTTCTCATGTTTTTGTTGTTTTC
326 AAACAAGAGAAAAGAAAAGTTAGCAACCAAAAACATCTTTTGTTTCTCATGTTTTTGTTGTTTTC
15705 ATGATTGCAATTTAGTGCTAACCCCTCCATTGCCATGGTGTAGCTGATATGCCTCTTATCACAAT
391 ATGATTGCAATTTAGTGCTAACCCCTCCATTGCCATGGTGTAGCTGATATGCCTCTTATCACAAT
15770 TTTAAAGCAATGCACTATCTATTCAACATTCTATTATCATGATAAAAATGGAAGATTTATAACAT
456 TTTAAAGCAATGCACTATCTATTCAACATTCTATTATCATGATAAAAATGGAAGATTTATAACAT
15835 CATTAAGAAATACATAAATTTAATCCAAAACAAACATACAAAAAGGAAACCATACCTGAGAGTTT
521 CATTAAGAAATACATAAATTTAATCCAAAACAAACATACAAAAAGGAAACCATACCTGAGAGTTT
15900 GCCCTAAATGATAGACAGACTAAAGATGCTTCAGGGACAGCCAACTTGCTAGCATCAACGCCAGT
586 GCCCTAAATGATAGACAGACTAAAGATGCTTCAGGGACAGCCAACTTGCTAGCATCAACGCCAGT
15965 TGCATCAAAAACAATCGGCA
651 TGCATCAAAAACAATCGGCA
15985 ATAAGCTCAACTAGGACGGTCATAACACATAAGTCATACCAGCACGGTTATCTTCTATTCTTGTT
1 ATAAGCTCAACTAGGACGGTCATAACACATAAGTCATACCAGCACGGTTATCTTCTATTCTTGTT
16050 CGCTGTTTTATTTGTTTGTTATTATTATTGACTACAGATGCACGTAACTATAACTTCTTCCTAGC
66 CGCTGTTTTATTTGTTTGTTATTATTATTGACTACAGATGCACGTAACTATAACTTCTTCCTAGC
16115 AACAGAAAACTGAGAATAGTTGATTCACCACACATGCCAAAAAGGAATGAAAAGTTAAATAGCAA
131 AACAGAAAACTGAGAATAGTTGATTCACCACACATGCCAAAAAGGAATGAAAAGTTAAATAGCAA
16180 AAATATAGAACCTCATTTAGCTGCAGGCTCTTGGACTCACTAAAGGCGTCATAAAAAGGCTTGCT
196 AAATATAGAACCTCATTTAGCTGCAGGCTCTTGGACTCACTAAAGGCGTCATAAAAAGGCTTGCT
16245 CCAAGAATCTACCATAGCCTGACAAGGAAAAGGAGTTAAAATGCATCATCAACAACAATAACCAG
261 CCAAGAATCTACCATAGCCTGACAAGGAAAAGGAGTTAAAATGCATCATCAACAACAATAACCAG
16310 AAACAAGAGAAAAGAAAAGTTAGCAACCAAAAACATCTTTTGTTTCTCATGTTTTTGTTGTTTTC
326 AAACAAGAGAAAAGAAAAGTTAGCAACCAAAAACATCTTTTGTTTCTCATGTTTTTGTTGTTTTC
16375 ATGATTGCAATTTAGTGCTAACCCCTCCATTGCCATGGTGTAGCTGATATGCCTCTTATCACAAT
391 ATGATTGCAATTTAGTGCTAACCCCTCCATTGCCATGGTGTAGCTGATATGCCTCTTATCACAAT
16440 TTTAAAGCAATGCACTATCTATTCAACATTCTATTATCATGATAAAAATGGAAGATTTATAACAT
456 TTTAAAGCAATGCACTATCTATTCAACATTCTATTATCATGATAAAAATGGAAGATTTATAACAT
16505 CATTAAGAAATACATAAATTTAATCCAAAACAAACATACAAAAAGGAAACCATACCTGAGAGTTT
521 CATTAAGAAATACATAAATTTAATCCAAAACAAACATACAAAAAGGAAACCATACCTGAGAGTTT
16570 GCCCTAAATGATAGACAGACTAAAGATGCTTCAGGGACAGCCAACTTGCTAGCATCAACGCCAGT
586 GCCCTAAATGATAGACAGACTAAAGATGCTTCAGGGACAGCCAACTTGCTAGCATCAACGCCAGT
16635 TGCATCAAAAACAATCGGCA
651 TGCATCAAAAACAATCGGCA
16655 ATAAGCTCAACTAGGACGGTCATAACACATAAGTCATACCAGCACGGTTATCTTCTATTCTTGTT
1 ATAAGCTCAACTAGGACGGTCATAACACATAAGTCATACCAGCACGGTTATCTTCTATTCTTGTT
16720 CGCTGTTTTATTTGTTTGTTATTATTATTGACTACAGATGCACGTAACTATAACTTCTTCCTAGC
66 CGCTGTTTTATTTGTTTGTTATTATTATTGACTACAGATGCACGTAACTATAACTTCTTCCTAGC
16785 AACAGAAAACTGAGAATAGTTGATTCACCACACATGCCAAAAAGGAATGAAAAGTTAAATAGCAA
131 AACAGAAAACTGAGAATAGTTGATTCACCACACATGCCAAAAAGGAATGAAAAGTTAAATAGCAA
16850 AAATATAGAACCTCATTTAGCTGCAGGCTCTTGGACTCACTAAAGGCGTCATAAAAAGGCTTGCT
196 AAATATAGAACCTCATTTAGCTGCAGGCTCTTGGACTCACTAAAGGCGTCATAAAAAGGCTTGCT
16915 CCAAGAATCTACCATAGCCTGACAAGGAAAAGGAGTTAAAATGCATCATCAACAACAATAACCAG
261 CCAAGAATCTACCATAGCCTGACAAGGAAAAGGAGTTAAAATGCATCATCAACAACAATAACCAG
16980 AAACAAGAGAAAAGAAAAGTTAGCAACCAAAAACATCTTTTGTTTCTCATG-TTTTGTTGTTTTC
326 AAACAAGAGAAAAGAAAAGTTAGCAACCAAAAACATCTTTTGTTTCTCATGTTTTTGTTGTTTTC
*
17044 AAGATTGCAATTTAGTGCTAACCCCTCCATTGCCATGGTGTAGCTGATATGCCTCTTATCACAAT
391 ATGATTGCAATTTAGTGCTAACCCCTCCATTGCCATGGTGTAGCTGATATGCCTCTTATCACAAT
17109 TTTAAAGCAATGCACTATCTATTCAACATTCTATTATCATGATAAAAATGGAAGATTTATAACAT
456 TTTAAAGCAATGCACTATCTATTCAACATTCTATTATCATGATAAAAATGGAAGATTTATAACAT
17174 CATTAAGAAATACATAAATTTAATCCAAAACAAACATACAAAAAGGAAACCATACCTGAGAGTTT
521 CATTAAGAAATACATAAATTTAATCCAAAACAAACATACAAAAAGGAAACCATACCTGAGAGTTT
17239 GCCCTAAATGATAGACAGACTAAAGATGCTTCAGGGACAGCCAACTTGCTAGCATCAACGCCAGT
586 GCCCTAAATGATAGACAGACTAAAGATGCTTCAGGGACAGCCAACTTGCTAGCATCAACGCCAGT
17304 TGCATCAAAAACAATCGGCA
651 TGCATCAAAAACAATCGGCA
17324 GCTTTGATTT
Statistics
Matches: 1335, Mismatches: 4, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
669 292 0.22
670 1043 0.78
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (670 bp):
ATAAGCTCAACTAGGACGGTCATAACACATAAGTCATACCAGCACGGTTATCTTCTATTCTTGTT
CGCTGTTTTATTTGTTTGTTATTATTATTGACTACAGATGCACGTAACTATAACTTCTTCCTAGC
AACAGAAAACTGAGAATAGTTGATTCACCACACATGCCAAAAAGGAATGAAAAGTTAAATAGCAA
AAATATAGAACCTCATTTAGCTGCAGGCTCTTGGACTCACTAAAGGCGTCATAAAAAGGCTTGCT
CCAAGAATCTACCATAGCCTGACAAGGAAAAGGAGTTAAAATGCATCATCAACAACAATAACCAG
AAACAAGAGAAAAGAAAAGTTAGCAACCAAAAACATCTTTTGTTTCTCATGTTTTTGTTGTTTTC
ATGATTGCAATTTAGTGCTAACCCCTCCATTGCCATGGTGTAGCTGATATGCCTCTTATCACAAT
TTTAAAGCAATGCACTATCTATTCAACATTCTATTATCATGATAAAAATGGAAGATTTATAACAT
CATTAAGAAATACATAAATTTAATCCAAAACAAACATACAAAAAGGAAACCATACCTGAGAGTTT
GCCCTAAATGATAGACAGACTAAAGATGCTTCAGGGACAGCCAACTTGCTAGCATCAACGCCAGT
TGCATCAAAAACAATCGGCA
Found at i:28369 original size:16 final size:16
Alignment explanation
Indices: 28348--28382 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
28338 CTGCTCCGAC
28348 ACAAGCCAACCCAATA
1 ACAAGCCAACCCAATA
*
28364 ACAAGCTAACCCAATA
1 ACAAGCCAACCCAATA
28380 ACA
1 ACA
28383 CAGTACTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
ACAAGCCAACCCAATA
Found at i:30541 original size:71 final size:71
Alignment explanation
Indices: 30447--30589 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
30437 CTAAAATATG
* *
30447 ATGGTATTCACGGGGCATTAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
1 ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
30512 ATGGTC
66 ATGGTC
*
30518 ATGGTATTCACAGGGCATAAGACAAGATTAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
1 ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
30583 ATGGTC
66 ATGGTC
30589 A
1 A
30590 ACCTTGCCAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.27
Consensus pattern (71 bp):
ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
ATGGTC
Found at i:35778 original size:16 final size:16
Alignment explanation
Indices: 35757--35793 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
35747 CCCCTTTTAG
35757 TGTGGCATAGTAAATT
1 TGTGGCATAGTAAATT
35773 TGTGGCATAGTAAATT
1 TGTGGCATAGTAAATT
35789 TGTGG
1 TGTGG
35794 AACCTGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.38
Consensus pattern (16 bp):
TGTGGCATAGTAAATT
Found at i:35981 original size:265 final size:265
Alignment explanation
Indices: 35508--36155 Score: 1251
Period size: 265 Copynumber: 2.4 Consensus size: 265
35498 CCCCTTTTAG
35508 TGTGGCATAGTAAATTTGTGGAACCTGAGTATGCTAGTAAATTTTCATTTAGAAGGATTGAGCAT
1 TGTGGCATAGTAAATTTGTGGAACCTGAGTATGCTAGTAAATTTTCATTTAGAAGGATTGAGCAT
* **
35573 CTCAGAAATATGCAAAAGGAAATGAAGATAATAAAGTAACAAACACAGTTCCCCTCAATTAAGAA
66 CTCAGAAATATGCAAAAGGAAATGAAGATAATAAAGTAAGAAATGCAGTTCCCCTCAATTAAGAA
35638 AAGGAATATTTAGACGGATGATATCCGAATCCTTCTTCTTCTTCTTTTCCTCAATGGGAAAATTT
131 AAGGAATATTTAGACGGATGATATCCGAATCCTTCTTCTTCTTCTTTTCCTCAATGGGAAAATTT
35703 TAGTGATTCACAACAATACTTTTAACAATTATAGATTTCCTGAACCCCTTTTAGTGTGGCATAGT
196 TAGTGATTCACAACAATACTTTTAACAATTATAGATTTCCTGAACCCCTTTTAGTGTGGCATAGT
35768 AAATT
261 AAATT
35773 TGTGGCATAGTAAATTTGTGGAACCTGAGTATGCTAGTAAATTTTCATTTAGAAGGATTGAGCAT
1 TGTGGCATAGTAAATTTGTGGAACCTGAGTATGCTAGTAAATTTTCATTTAGAAGGATTGAGCAT
*
35838 CTCAGAAATATGCAAAAGGAAATGAAGATAATAAAGTAAGGAATGCAGTTCCCCTCAATTAAGAA
66 CTCAGAAATATGCAAAAGGAAATGAAGATAATAAAGTAAGAAATGCAGTTCCCCTCAATTAAGAA
35903 AAGGAATATTTAGACGGATGATATCCGAATCCTTCTTCTTCTTCTTTTCCTCAATGGGAAAATTT
131 AAGGAATATTTAGACGGATGATATCCGAATCCTTCTTCTTCTTCTTTTCCTCAATGGGAAAATTT
35968 TAGTGATTCACAACAATACTTTTAACAATTATAGATTTCCTGAACCCCTTTTAGTGTGGCATAGT
196 TAGTGATTCACAACAATACTTTTAACAATTATAGATTTCCTGAACCCCTTTTAGTGTGGCATAGT
36033 AAATT
261 AAATT
36038 TGTGGCATAGTAAATTTGTGGAACCTGAGTATGCTAGTAAATTTTCATTTAGAAGGATTGAGCAT
1 TGTGGCATAGTAAATTTGTGGAACCTGAGTATGCTAGTAAATTTTCATTTAGAAGGATTGAGCAT
*
36103 CTCAGAAATATGCAAAAGGAAATGAAGATAAAAAAGTAAGAAATGCAGTTCCC
66 CTCAGAAATATGCAAAAGGAAATGAAGATAATAAAGTAAGAAATGCAGTTCCC
36156 TTTTCATGAA
Statistics
Matches: 377, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
265 377 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (265 bp):
TGTGGCATAGTAAATTTGTGGAACCTGAGTATGCTAGTAAATTTTCATTTAGAAGGATTGAGCAT
CTCAGAAATATGCAAAAGGAAATGAAGATAATAAAGTAAGAAATGCAGTTCCCCTCAATTAAGAA
AAGGAATATTTAGACGGATGATATCCGAATCCTTCTTCTTCTTCTTTTCCTCAATGGGAAAATTT
TAGTGATTCACAACAATACTTTTAACAATTATAGATTTCCTGAACCCCTTTTAGTGTGGCATAGT
AAATT
Found at i:36043 original size:16 final size:16
Alignment explanation
Indices: 36022--36058 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
36012 CCCCTTTTAG
36022 TGTGGCATAGTAAATT
1 TGTGGCATAGTAAATT
36038 TGTGGCATAGTAAATT
1 TGTGGCATAGTAAATT
36054 TGTGG
1 TGTGG
36059 AACCTGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.38
Consensus pattern (16 bp):
TGTGGCATAGTAAATT
Found at i:41623 original size:47 final size:47
Alignment explanation
Indices: 41569--41664 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 47
41559 CTTCAATACA
*
41569 GTTACATACAATATCTTTACCGGATTCAAAC-CACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCGGATTC-AACTCACCTAATCAAGCTTT
* * *
41616 GTTACATACAATATCTCTATCTGATTCAGCTCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCGGATTCAACTCACCTAATCAAGCTTT
41663 GT
1 GT
41665 ACGTTAGGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 2 0.05
47 42 0.95
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCGGATTCAACTCACCTAATCAAGCTTT
Found at i:46357 original size:105 final size:105
Alignment explanation
Indices: 46236--46446 Score: 332
Period size: 105 Copynumber: 2.0 Consensus size: 105
46226 CCAGTAACCA
* * * * *
46236 AAACCTAAGAAATCCACAGCCCCAAACACTTAAACGAAAGCTCAAAAATACCAGCCCAACCGTAA
1 AAACCTAAGAAATCCACAGCCACAAACACTTAAAAGAAAGCCCAAAAACACCAACCCAACCGTAA
* *
46301 AACTTAAGCCACAAACCCAAGCCCCAAGCTTCAAACCCTT
66 AACTTAAGCCACAAACCCAAGCCCCAAACCTCAAACCCTT
*
46341 AAACCTAAGAAGTCCACAGCCACAAACACTTAAAAGAAAGCCCAAAAACACCAACCCAACCGTAA
1 AAACCTAAGAAATCCACAGCCACAAACACTTAAAAGAAAGCCCAAAAACACCAACCCAACCGTAA
* *
46406 ACCTTAAGCCTCAAACCCAAGCCCCAAACCTCAAACCCTT
66 AACTTAAGCCACAAACCCAAGCCCCAAACCTCAAACCCTT
46446 A
1 A
46447 GGCCCCAAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.45, C:0.36, G:0.08, T:0.11
Consensus pattern (105 bp):
AAACCTAAGAAATCCACAGCCACAAACACTTAAAAGAAAGCCCAAAAACACCAACCCAACCGTAA
AACTTAAGCCACAAACCCAAGCCCCAAACCTCAAACCCTT
Found at i:46439 original size:20 final size:21
Alignment explanation
Indices: 46414--46458 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
46404 AAACCTTAAG
46414 CCTCAAACCC-AAGCCCCAAA
1 CCTCAAACCCTAAGCCCCAAA
*
46434 CCTCAAACCCTTAGGCCCCAAA
1 CCTCAAACCC-TAAGCCCCAAA
46456 CCT
1 CCT
46459 AAATATCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.33, C:0.49, G:0.07, T:0.11
Consensus pattern (21 bp):
CCTCAAACCCTAAGCCCCAAA
Found at i:53352 original size:22 final size:21
Alignment explanation
Indices: 53308--53358 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
53298 CACAAAAGCT
* **
53308 AAAAAAAAATAAAATCAGGAA
1 AAAAAAAAATAAAATAAACAA
53329 AAAAATAAAATAAAATAAACAA
1 AAAAA-AAAATAAAATAAACAA
*
53351 AAGAAAAA
1 AAAAAAAA
53359 GAAAGTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (21 bp):
AAAAAAAAATAAAATAAACAA
Found at i:56837 original size:16 final size:16
Alignment explanation
Indices: 56816--56853 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
56806 CTTACTTAGA
56816 ATATCC-TCGAACCGGG
1 ATATCCTTCGAA-CGGG
*
56832 ATATCCTTCGAATGGG
1 ATATCCTTCGAACGGG
56848 ATATCC
1 ATATCC
56854 CTATCCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (16 bp):
ATATCCTTCGAACGGG
Found at i:57825 original size:224 final size:224
Alignment explanation
Indices: 57358--57963 Score: 1069
Period size: 223 Copynumber: 2.8 Consensus size: 224
57348 AGTTAGGGTT
*
57358 TTCGCTATAAAATCTCATAAATAGGACTCAAAA-ATTTTCAAGAAAATGTCCCTCAATAC-----
1 TTCGCTATAAAATCTCATAAATAGGACTCAAAAGATTTGCAAGAAAATGTCCCTCAATACAGATT
57417 --AGAGGGAAACAAACAA-C--C--AAAAAAAATAAAACACATAACAGGCGATAAACTATCAAAA
66 ATAGAGGGAAACAAACAACCGACAAAAAAAAAATAAAACACATAACAGGCGATAAACTATCAAAA
*
57475 AAATGACAGACATCACAAGATTTAAGAAGACGAATATAAGCAGTGTTTCATAAGGGTTTTAGGGT
131 AAATGAC-GACATCACAAGATTTAAAAAGACGAATATAAGCAGTGTTTCATAAGGGTTTTAGGGT
*
57540 AGATACTTATATAGTTGTTAGAAACATATC
195 AGATACTTATATAGTTGCTAGAAACATATC
57570 TTCGCTATAAAATCTCATAAATAGGACTCAAAAGATTTGCAAGAAAATGTCCCTCAATACAGATT
1 TTCGCTATAAAATCTCATAAATAGGACTCAAAAGATTTGCAAGAAAATGTCCCTCAATACAGATT
*
57635 ATAGAGGGAAACAAACAACCGACAAAAAAAAAATAAAACACATATCAGGCGATAAACTATCAAAA
66 ATAGAGGGAAACAAACAACCGACAAAAAAAAAATAAAACACATAACAGGCGATAAACTATCAAAA
57700 AAATGACGACATCACAAGATTTAAAAAGACGAATATAAGCAGTGTTTCATAAGGGTTTTAGGGTA
131 AAATGACGACATCACAAGATTTAAAAAGACGAATATAAGCAGTGTTTCATAAGGGTTTTAGGGTA
57765 GATACTTATATAGTTGCTAGAAACATATC
196 GATACTTATATAGTTGCTAGAAACATATC
57794 TTCGCTATAAAATCTCATAAATAGGACTC-AAAGATTTGCAAGAAAATGTCCCTCAATACAGATT
1 TTCGCTATAAAATCTCATAAATAGGACTCAAAAGATTTGCAAGAAAATGTCCCTCAATACAGATT
57858 ATAGAGGGAAACAAACAACCGACAAAAAAAAAATAAAACACATAACAGGCGATAAACTATCAAAA
66 ATAGAGGGAAACAAACAACCGACAAAAAAAAAATAAAACACATAACAGGCGATAAACTATCAAAA
57923 AAATGACGACATCACAAGATTTAAAAAGACGAATATAAGCA
131 AAATGACGACATCACAAGATTTAAAAAGACGAATATAAGCA
57964 TAAATCTGAA
Statistics
Matches: 376, Mismatches: 5, Indels: 15
0.95 0.01 0.04
Matches are distributed among these distances:
212 33 0.09
213 25 0.07
220 16 0.04
221 1 0.00
223 141 0.38
224 114 0.30
225 46 0.12
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (224 bp):
TTCGCTATAAAATCTCATAAATAGGACTCAAAAGATTTGCAAGAAAATGTCCCTCAATACAGATT
ATAGAGGGAAACAAACAACCGACAAAAAAAAAATAAAACACATAACAGGCGATAAACTATCAAAA
AAATGACGACATCACAAGATTTAAAAAGACGAATATAAGCAGTGTTTCATAAGGGTTTTAGGGTA
GATACTTATATAGTTGCTAGAAACATATC
Found at i:60492 original size:52 final size:51
Alignment explanation
Indices: 60406--60611 Score: 180
Period size: 52 Copynumber: 3.8 Consensus size: 51
60396 AGATAGAAAG
**
60406 AATATATCAAAAGAATATATATAGATGCAAATTTCACTTATGGATGCATGCA
1 AATATATCAAAAGAATATATATA-ACACAAATTTCACTTATGGATGCATGCA
* **
60458 AATATATCAAAAGAATATATATACACACACATTTCACTTACAGATGCATGAAGCAA
1 AATATATCAAAAGAATATATATA-ACACAAATTTCACTTATGGATGCAT---GC-A
* * *
60514 AATTTATAACAGATAGAAATAAATATATATACTTGCAAATTTCACTTATGGATGCATGCA
1 AA--TATATCA-AAAG-AAT--ATATATA-AC--ACAAATTTCACTTATGGATGCATGCA
* *
60574 AATATATAAAAAGAATATATA-AACACACATTTCACTTA
1 AATATATCAAAAGAATATATATAACACAAATTTCACTTA
60612 CAGATGCAGG
Statistics
Matches: 124, Mismatches: 18, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
50 12 0.10
52 45 0.36
53 1 0.01
54 5 0.04
55 2 0.02
56 6 0.05
57 3 0.02
58 11 0.09
59 3 0.02
60 6 0.05
61 2 0.02
62 9 0.07
64 19 0.15
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.30
Consensus pattern (51 bp):
AATATATCAAAAGAATATATATAACACAAATTTCACTTATGGATGCATGCA
Found at i:60542 original size:64 final size:59
Alignment explanation
Indices: 60471--60635 Score: 150
Period size: 64 Copynumber: 2.9 Consensus size: 59
60461 ATATCAAAAG
*
60471 AATATATATACACACACATTTCACTTACAGATGCATGAAGCAAAATTTATAACAGATAGAAAT
1 AATATATATACACACAAATTTCACTTACAGATGCATGAAGCAAAATTTATAA-A-A-AG-AAT
*** ** *
60534 AAATATATATACTTGCAAATTTCACTTATGGATGCAT---GC-AAATATATAAAAAGAAT
1 -AATATATATACACACAAATTTCACTTACAGATGCATGAAGCAAAATTTATAAAAAGAAT
*
60590 -ATATA-A-ACACAC--ATTTCACTTACAGATGCAGGAAGCAAAATTTATA
1 AATATATATACACACAAATTTCACTTACAGATGCATGAAGCAAAATTTATA
60636 TGAAATGTGC
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
50 16 0.19
52 3 0.04
53 3 0.04
54 13 0.16
56 3 0.04
57 2 0.02
58 1 0.01
59 1 0.01
60 9 0.11
61 2 0.02
64 30 0.36
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (59 bp):
AATATATATACACACAAATTTCACTTACAGATGCATGAAGCAAAATTTATAAAAAGAAT
Found at i:60628 original size:114 final size:116
Alignment explanation
Indices: 60419--60635 Score: 384
Period size: 116 Copynumber: 1.9 Consensus size: 116
60409 ATATCAAAAG
* *
60419 AATATATATAGATGCAAATTTCACTTATGGATGCATGCAAATATATCAAAAGAATATATATACAC
1 AATATATATACATGCAAATTTCACTTATGGATGCATGCAAATATATAAAAAGAATATATATACAC
*
60484 ACACATTTCACTTACAGATGCATGAAGCAAAATTTATAACAGATAGAAATA
66 ACACATTTCACTTACAGATGCAGGAAGCAAAATTTATAACAGATAGAAATA
*
60535 AATATATATACTTGCAAATTTCACTTATGGATGCATGCAAATATATAAAAAGAATATATA-A-AC
1 AATATATATACATGCAAATTTCACTTATGGATGCATGCAAATATATAAAAAGAATATATATACAC
60598 ACACATTTCACTTACAGATGCAGGAAGCAAAATTTATA
66 ACACATTTCACTTACAGATGCAGGAAGCAAAATTTATA
60636 TGAAATGTGC
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
114 39 0.40
115 1 0.01
116 57 0.59
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (116 bp):
AATATATATACATGCAAATTTCACTTATGGATGCATGCAAATATATAAAAAGAATATATATACAC
ACACATTTCACTTACAGATGCAGGAAGCAAAATTTATAACAGATAGAAATA
Found at i:61272 original size:26 final size:26
Alignment explanation
Indices: 61236--61295 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
61226 AAGAAAACCG
*
61236 AATACGCATTGATCCAAGGACTAACT
1 AATATGCATTGATCCAAGGACTAACT
* *
61262 AATATGCATTGATCCATGGACTGACT
1 AATATGCATTGATCCAAGGACTAACT
61288 AATATGCA
1 AATATGCA
61296 CCACCTTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (26 bp):
AATATGCATTGATCCAAGGACTAACT
Found at i:63536 original size:19 final size:19
Alignment explanation
Indices: 63500--63538 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63490 ACTACGTGTA
*
63500 ATTTATTTTTGAAAATTTT
1 ATTTATTTTTAAAAATTTT
63519 ATTTA-TTTTAAAATATTTT
1 ATTTATTTTTAAAA-ATTTT
63538 A
1 A
63539 AAGCTTACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTATTTTTAAAAATTTT
Found at i:65821 original size:47 final size:47
Alignment explanation
Indices: 65752--65851 Score: 159
Period size: 47 Copynumber: 2.1 Consensus size: 47
65742 CTCCAATAGA
*
65752 GTTACATACAATATCTTTACCTGATTCAAAC-CACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTC-AACTCACCTAATCAAGCTTT
*
65799 GTTACATACAATATCTCTACCTGATTCAGCTCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAGCTTT
65846 G-TACAT
1 GTTACAT
65852 TAGGTCTCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
46 7 0.14
47 43 0.86
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAGCTTT
Found at i:69976 original size:78 final size:78
Alignment explanation
Indices: 69842--69997 Score: 231
Period size: 78 Copynumber: 2.0 Consensus size: 78
69832 TTCTGGTACA
* * *
69842 CAAAGTCCATGGTGATCGCTATCAACATGATCACCAACTCTCCTAGCTGATGAGATCAAGCAATC
1 CAAACTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGCAATC
*
69907 AGGGTTTAATGGT
66 ACGGTTTAATGGT
* * * **
69920 CAAACTCCATGGTGATCATTATCAACATGATCACCGACTCTCCCAGCTGGTGAGATCAAGGGATC
1 CAAACTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGCAATC
69985 ACGGTTTAATGGT
66 ACGGTTTAATGGT
69998 AGAATATGAG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAACTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGCAATC
ACGGTTTAATGGT
Found at i:90552 original size:26 final size:30
Alignment explanation
Indices: 90518--90584 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
90508 TCTGACCCGA
90518 ATAT-ATTATA-AT-ATAAA-AATAATTAT
1 ATATAATTATATATGATAAATAATAATTAT
*
90544 AT-TAATTATATATGTTAAATAATAATTAT
1 ATATAATTATATATGATAAATAATAATTAT
*
90573 ATATATTTATAT
1 ATATAATTATAT
90585 TAAATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 8 0.24
27 2 0.06
28 4 0.12
29 11 0.32
30 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
ATATAATTATATATGATAAATAATAATTAT
Found at i:92682 original size:74 final size:74
Alignment explanation
Indices: 92518--92667 Score: 214
Period size: 75 Copynumber: 2.0 Consensus size: 74
92508 ATCGAGTCAC
* * * *
92518 TTATATGTTAAATCATGTTGACGTGATTTTTTTCTTAGTATAATAGTAAAATTCACCTGCCAATA
1 TTATAAGTTAAATCATGTTGACGTGATTTTTTTCTTAGCATAATAGTAAAATTAACCTACCAATA
92583 TTTGCATATT
66 TTT-CATATT
* *
92593 TTATAAGTTAAATCATGTTGATGTGATTTTTTT-TTGGCATAATAGTAAAATTAACCTACCAATA
1 TTATAAGTTAAATCATGTTGACGTGATTTTTTTCTTAGCATAATAGTAAAATTAACCTACCAATA
92657 TTT-ATAATT
66 TTTCAT-ATT
92666 TT
1 TT
92668 TATTAATTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
72 2 0.03
73 5 0.07
74 30 0.44
75 31 0.46
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (74 bp):
TTATAAGTTAAATCATGTTGACGTGATTTTTTTCTTAGCATAATAGTAAAATTAACCTACCAATA
TTTCATATT
Found at i:101588 original size:17 final size:17
Alignment explanation
Indices: 101566--101599 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
101556 TAAAATTCAG
101566 TTAGTTGAGAAGCAAGA
1 TTAGTTGAGAAGCAAGA
101583 TTAGTTGAGAAGCAAGA
1 TTAGTTGAGAAGCAAGA
101600 ACCTGAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (17 bp):
TTAGTTGAGAAGCAAGA
Found at i:105584 original size:17 final size:19
Alignment explanation
Indices: 105547--105584 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
105537 AATTAAAATT
*
105547 AAAATTATATCAATTTGAA
1 AAAATTATATAAATTTGAA
105566 AAAATTATA-AAATTT-AA
1 AAAATTATATAAATTTGAA
105583 AA
1 AA
105585 TTAATGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAATTATATAAATTTGAA
Found at i:108251 original size:2 final size:2
Alignment explanation
Indices: 108244--108270 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
108234 AGAAAACCTG
108244 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
108271 ACACACACAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:118847 original size:31 final size:31
Alignment explanation
Indices: 118804--118872 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
118794 CTTAACAAAC
* *
118804 CAATTACTTAAATAAAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
* **
118835 CAATGACTTAAATGAAAACTTTTGAATAATT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
118866 CAATGAC
1 CAATGAC
118873 CATTTTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAATT
Found at i:123986 original size:43 final size:42
Alignment explanation
Indices: 123934--124094 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
123924 ATTTGATTTC
*
123934 CAGCTTGTTACCCTACTACTTAGGGGGTTAAGATTTGTAAATT
1 CAGCCTGTTACCCTACTACTTAGGGGGTTAAGATTTGT-AATT
* *
123977 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTTTCGCT--TT
1 CAGCCTGTTACCCTACTACTTAGGGGGTTAA-G-ATTT-G-TAATT
* * * * * **
124021 C-GATCTGTTTCCCTACTGCTTAGGGAGATAAGACCTGTAATT
1 CAG-CCTGTTACCCTACTACTTAGGGGGTTAAGATTTGTAATT
* *
124063 CAACCTGTTACCCTACTACTTAGGGGTTTAAG
1 CAGCCTGTTACCCTACTACTTAGGGGGTTAAG
124095 GTTCTTCGTC
Statistics
Matches: 93, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 27 0.29
43 31 0.33
44 28 0.30
45 3 0.03
46 1 0.01
47 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (42 bp):
CAGCCTGTTACCCTACTACTTAGGGGGTTAAGATTTGTAATT
Found at i:124094 original size:86 final size:86
Alignment explanation
Indices: 123973--124541 Score: 928
Period size: 86 Copynumber: 6.6 Consensus size: 86
123963 AAGATTTGTA
* * * *
123973 AATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTT-TTCG-CTTTCGATCTGTTTCC-CT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG-TTCTTCGTC-TTCGATCCG-CTCCACT
* * * *
124035 ACTGCTTAGGGAGATAAGACCTGT
63 ATTGCTCAGGGAGATAAGATCTGC
* *
124059 AATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTATT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
* *
124124 GCTTAGGGAGATAGGATCTGC
66 GCTCAGGGAGATAAGATCTGC
*
124145 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTTGTCTTCGATCCGCTCCACTATT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
*
124210 GCTCAGGGAGATAGGATCTGC
66 GCTCAGGGAGATAAGATCTGC
124231 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
*
124296 GCTCAGGGAGATGAGATCTGC
66 GCTCAGGGAGATAAGATCTGC
124317 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
*
124382 GCTCAGGGAGATGAGATCTGC
66 GCTCAGGGAGATAAGATCTGC
*
124403 AATTCAACTTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
1 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
*
124468 GCTCAGGGAGATGAGATCTGC
66 GCTCAGGGAGATAAGATCTGC
124489 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATC
1 AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATC
124542 TGTTACCATT
Statistics
Matches: 463, Mismatches: 17, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
85 5 0.01
86 457 0.99
87 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (86 bp):
AATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCCGCTCCACTATT
GCTCAGGGAGATAAGATCTGC
Found at i:132613 original size:19 final size:20
Alignment explanation
Indices: 132585--132626 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
132575 GTCTTTTCGC
* *
132585 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
132604 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
132624 GAA
1 GAA
132627 TGCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:145534 original size:19 final size:19
Alignment explanation
Indices: 145498--145534 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
145488 TAAAAGTTTT
*
145498 TTTAATAATGTTTCATATG
1 TTTAATAATATTTCATATG
*
145517 TTTAATAATATTTTATAT
1 TTTAATAATATTTCATAT
145535 ATAAATAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTAATAATATTTCATATG
Found at i:146173 original size:25 final size:25
Alignment explanation
Indices: 146121--146173 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
146111 TTGAATTACC
* * * *
146121 ATTATTTGCAAAATCTTAGTATTAT
1 ATTAGTTGCAAAATCATAATACTAT
*
146146 ATTAGTTGCAAAATCATAATACTGT
1 ATTAGTTGCAAAATCATAATACTAT
146171 ATT
1 ATT
146174 GGAATGCTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (25 bp):
ATTAGTTGCAAAATCATAATACTAT
Found at i:167181 original size:14 final size:14
Alignment explanation
Indices: 167162--167198 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
167152 ATAGGAAAGC
167162 AAGAGAGAAAGAAA
1 AAGAGAGAAAGAAA
* *
167176 AAGAGAAAAAGATA
1 AAGAGAGAAAGAAA
167190 AAGAGAGAA
1 AAGAGAGAA
167199 GGGGTAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (14 bp):
AAGAGAGAAAGAAA
Found at i:167293 original size:6 final size:6
Alignment explanation
Indices: 167282--167328 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
167272 AGCGTAGAGA
167282 GGGCAG GGGCAG GGGCAG GGGCAG GGGCAG GGGCAG GGGCAG GGGCA
1 GGGCAG GGGCAG GGGCAG GGGCAG GGGCAG GGGCAG GGGCAG GGGCA
167329 CCTGCTCTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.17, G:0.66, T:0.00
Consensus pattern (6 bp):
GGGCAG
Found at i:167783 original size:6 final size:6
Alignment explanation
Indices: 167774--167799 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
167764 AGGTAAAGGT
167774 AAAGCA AAAGCA AAAGCA AAAGCA AA
1 AAAGCA AAAGCA AAAGCA AAAGCA AA
167800 CCACGCCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:176343 original size:30 final size:32
Alignment explanation
Indices: 176285--176345 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
176275 ATAAAAAAGT
176285 AAAAATCTAACCTTTTCCATATGAAAGAGAAAC
1 AAAAATCTAACC-TTTCCATATGAAAGAGAAAC
* *
176318 AAAAATCTAA-C-TTCTATATGGAAGAGAA
1 AAAAATCTAACCTTTCCATATGAAAGAGAA
176346 GCAATGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 15 0.58
32 1 0.04
33 10 0.38
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (32 bp):
AAAAATCTAACCTTTCCATATGAAAGAGAAAC
Found at i:182882 original size:20 final size:21
Alignment explanation
Indices: 182857--182899 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
182847 ATAGGAAAAT
182857 AATATATATATA-ATTATGAC
1 AATATATATATATATTATGAC
182877 AATATATATATATATTATGAC
1 AATATATATATATATTATGAC
182898 AA
1 AA
182900 AAAAAAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
AATATATATATATATTATGAC
Found at i:196207 original size:17 final size:16
Alignment explanation
Indices: 196185--196218 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
196175 AAGTGTAATT
196185 ATCATGTAAATTTGTTA
1 ATCATGTAAATTT-TTA
*
196202 ATCATGTTAATTTTTA
1 ATCATGTAAATTTTTA
196218 A
1 A
196219 CAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (16 bp):
ATCATGTAAATTTTTA
Found at i:206371 original size:3 final size:3
Alignment explanation
Indices: 206363--206399 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
206353 TCTGAAGCTA
206363 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
206400 CCCCACTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:212918 original size:31 final size:31
Alignment explanation
Indices: 212883--212941 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
212873 TGCTGAAATG
*
212883 TTTTTGCACAG-AGTAGACAGGTACGGTTTT
1 TTTTTTCACAGAAGTAGACAGGTACGGTTTT
* *
212913 TTTTTTTATAGAAGTAGACAGGTACGGTT
1 TTTTTTCACAGAAGTAGACAGGTACGGTT
212942 ACTTCTCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (31 bp):
TTTTTTCACAGAAGTAGACAGGTACGGTTTT
Found at i:215646 original size:1 final size:1
Alignment explanation
Indices: 215642--215669 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
215632 TTGGGTTGTG
215642 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
215670 GGTTCTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:216794 original size:13 final size:12
Alignment explanation
Indices: 216772--216808 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
216762 TTAAAAAATT
216772 ATAAATAATTTC
1 ATAAATAATTTC
216784 ATAACATAATTTC
1 ATAA-ATAATTTC
216797 ATAAAATAATTT
1 AT-AAATAATTT
216809 TTTGGTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 17 0.74
14 2 0.09
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAAATAATTTC
Found at i:219448 original size:3 final size:3
Alignment explanation
Indices: 219409--219436 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
219399 GTTTGACTTC
219409 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
219437 GTTGAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:248501 original size:17 final size:16
Alignment explanation
Indices: 248476--248525 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
248466 ATTATTGGTC
*
248476 TTATTTTTTAATTAAA
1 TTATATTTTAATTAAA
248492 TTTATATTTTAATTTAAA
1 -TTATATTTTAA-TTAAA
*
248510 TTATTAATTTAATTAA
1 TTA-TATTTTAATTAA
248526 GAATATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTTTAATTAAA
Found at i:248520 original size:18 final size:18
Alignment explanation
Indices: 248482--248523 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
248472 GGTCTTATTT
*
248482 TTTAA-TTAAATTTATAT
1 TTTAATTTAAATTTATAA
248499 TTTAATTTAAA-TTATTAA
1 TTTAATTTAAATTTA-TAA
248517 TTTAATT
1 TTTAATT
248524 AAGAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTTAAATTTATAA
Found at i:256671 original size:25 final size:25
Alignment explanation
Indices: 256634--256702 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
256624 TTCCTGAGCG
256634 TTTTAATACAAATATATTTAAT-TAT
1 TTTTAATACAAATATATTTAATGT-T
*
256659 TTTTAATAAAAAT-TATTT-ATGTT
1 TTTTAATACAAATATATTTAATGTT
*
256682 TTATTTATACAAATATATTTA
1 TT-TTAATACAAATATATTTA
256703 GTGAGGGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 5 0.14
24 15 0.41
25 17 0.46
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (25 bp):
TTTTAATACAAATATATTTAATGTT
Found at i:260345 original size:50 final size:51
Alignment explanation
Indices: 260263--260391 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
260253 GACCATGGAA
*
260263 ACAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAA-GGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATG
260314 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
* * * *
260364 ACAACTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
260392 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
Found at i:260576 original size:31 final size:31
Alignment explanation
Indices: 260369--260569 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
260359 AAATGACAAC
260369 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
260400 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
260431 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
260462 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
260493 TGAAAAGTGGTAGC-CCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
260523 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
260554 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
260570 TGGCTACAAG
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
30 28 0.18
31 128 0.82
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:260587 original size:7 final size:7
Alignment explanation
Indices: 260575--260603 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
260565 AGCTTTGGCT
260575 ACAAGTG
1 ACAAGTG
260582 ACAAGTG
1 ACAAGTG
260589 ACAAGTG
1 ACAAGTG
260596 ACAAGTG
1 ACAAGTG
260603 A
1 A
260604 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:260676 original size:47 final size:48
Alignment explanation
Indices: 260607--260732 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 48
260597 CAAGTGATTT
* *
260607 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
260654 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
260702 -TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
260733 TTATGTAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:262669 original size:10 final size:10
Alignment explanation
Indices: 262654--262686 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
262644 GATAGTCCGG
262654 AAAATAAAAA
1 AAAATAAAAA
262664 AAAAT--AAA
1 AAAATAAAAA
262672 AAAATAAAAA
1 AAAATAAAAA
262682 AAAAT
1 AAAAT
262687 TCTTGATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:265102 original size:50 final size:51
Alignment explanation
Indices: 265020--265148 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
265010 GACCATGGAA
*
265020 ACAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAA-GGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATG
265071 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
* * * *
265121 ACAACTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
265149 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATG
Found at i:265333 original size:31 final size:31
Alignment explanation
Indices: 265126--265326 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
265116 AAATGACAAC
265126 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
265157 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
265188 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
265219 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
265250 TGAAAAGTGGTAGC-CCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
265280 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
265311 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
265327 TGGCTACAAG
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
30 28 0.18
31 128 0.82
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:265344 original size:7 final size:7
Alignment explanation
Indices: 265332--265360 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
265322 AGCTTTGGCT
265332 ACAAGTG
1 ACAAGTG
265339 ACAAGTG
1 ACAAGTG
265346 ACAAGTG
1 ACAAGTG
265353 ACAAGTG
1 ACAAGTG
265360 A
1 A
265361 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:265433 original size:47 final size:48
Alignment explanation
Indices: 265364--265489 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 48
265354 CAAGTGATTT
* *
265364 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
265411 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
265459 -TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
265490 TTATGTAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:274899 original size:137 final size:137
Alignment explanation
Indices: 274665--275076 Score: 761
Period size: 137 Copynumber: 3.0 Consensus size: 137
274655 GCCCATTCAA
* * *
274665 GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTC
* *
274730 AGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
274795 CATTTGG
131 CATTTGG
*
274802 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGAGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTC
274867 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
274932 CATTTGG
131 CATTTGG
*
274939 GTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTC
275004 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
275069 CATTTGG
131 CATTTGG
275076 G
1 G
275077 GAGACTACTC
Statistics
Matches: 267, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 267 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (137 bp):
GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTC
AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
CATTTGG
Found at i:275034 original size:64 final size:64
Alignment explanation
Indices: 274824--275034 Score: 144
Period size: 64 Copynumber: 3.2 Consensus size: 64
274814 CTGGGCCAGA
* *
274824 GCCCTTTTCAGATTATAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * ** * ** *
274888 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-AGCCTTA-GC---CCCTTATTCAGATAACA---GT
*
274950 ACTAGG-CCAGA-
54 A-T-GGCCCATAG
*
274961 GCCCTTTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
275025 GCCCATTTCA
1 GCCCATTTCA
275035 AAATACATGC
Statistics
Matches: 104, Mismatches: 24, Indels: 38
0.63 0.14 0.23
Matches are distributed among these distances:
62 2 0.02
63 7 0.07
64 24 0.23
65 5 0.05
66 1 0.01
67 11 0.11
68 6 0.06
69 6 0.06
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.15
74 7 0.07
75 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:275361 original size:25 final size:27
Alignment explanation
Indices: 275324--275376 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
275314 TCAAACATGC
275324 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
275350 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
275376 A
1 A
275377 AAACTGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:276897 original size:26 final size:26
Alignment explanation
Indices: 276861--276970 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
276851 CATGAAATTC
*
276861 TTATCATGAAACATTTCCCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
276887 TTATCATGAAACATTTCCCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
276913 TTATCATGAAACGTTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
276939 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
276965 TTATCA
1 TTATCA
276971 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:276981 original size:10 final size:10
Alignment explanation
Indices: 276966--276990 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
276956 CCTAACCTAT
276966 TATCAATTTG
1 TATCAATTTG
276976 TATCAATTTG
1 TATCAATTTG
276986 TATCA
1 TATCA
276991 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:278811 original size:25 final size:26
Alignment explanation
Indices: 278786--278844 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
278776 TTTATTATTC
* *
278786 ATTAATATTGTTCGTGAACATGTTCA
1 ATTAATATTGTTCATAAACATGTTCA
*
278812 ATT-ATA-TGTTCATAAACATGTTCG
1 ATTAATATTGTTCATAAACATGTTCA
*
278836 TTTAATATT
1 ATTAATATT
278845 CGTGGACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 17 0.63
25 6 0.22
26 4 0.15
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (26 bp):
ATTAATATTGTTCATAAACATGTTCA
Found at i:280267 original size:23 final size:21
Alignment explanation
Indices: 280192--280273 Score: 119
Period size: 21 Copynumber: 3.8 Consensus size: 21
280182 GACACATAAA
* * *
280192 GTGCCTAAAACGATACACGAG
1 GTGCCTGATACGACACACGAG
280213 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
280234 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
280255 GTGCCTGAAATACGACACA
1 GTGCCTG--ATACGACACA
280274 TAAAGTGCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
21 46 0.82
23 10 0.18
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.15
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:280682 original size:15 final size:15
Alignment explanation
Indices: 280657--280714 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
280647 TCATATATAT
280657 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
280673 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
280688 AATAATTTCAATCAA
1 TATAAATTCAATCAA
280703 TATAAATTCAAT
1 TATAAATTCAAT
280715 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:281819 original size:5 final size:5
Alignment explanation
Indices: 281809--281864 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
281799 TTACTTATTT
* *
281809 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
281857 ATATA ATA
1 ATATA ATA
281865 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:281825 original size:12 final size:12
Alignment explanation
Indices: 281808--281861 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
281798 TTTACTTATT
281808 TATATAATATAA
1 TATATAATATAA
281820 TATATAATATAATA
1 TATATAATAT-A-A
281834 TACTATAATATAA
1 TA-TATAATATAA
*
281847 TA-ATAATATCA
1 TATATAATATAA
281858 TATA
1 TATA
281862 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:281996 original size:21 final size:22
Alignment explanation
Indices: 281957--282007 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
281947 CATACAATTG
*
281957 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
281979 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
281999 ATAAAATAA
1 TTAAAATAA
282008 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:282197 original size:19 final size:22
Alignment explanation
Indices: 282173--282219 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
282163 ATCCTTTCCA
282173 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
282192 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
282213 CTAATTA
1 CTAATTA
282220 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:284963 original size:69 final size:71
Alignment explanation
Indices: 284845--284979 Score: 159
Period size: 69 Copynumber: 1.9 Consensus size: 71
284835 AAGTATTTTG
* **
284845 TTTAATGAAAATAGTGATCGAAGAAGTGAATTATAGTAGTATTCGCTAGTCAATGTGGGATTAAA
1 TTTAATGAAAATA--GATCGAAGAAGTGAATTATAGTAATATTCGCTAGTCAATGTACGATTAAA
284910 ACTAATAT
64 ACTAATAT
* ** *
284918 TTTAATGAAAATA-AT-GAAGAAGTGAGA-TATGGTAATATTTTCTAGTCGATGTACGATTAAAA
1 TTTAATGAAAATAGATCGAAGAAGTGA-ATTATAGTAATATTCGCTAGTCAATGTACGATTAAAA
284980 TTACCTTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
69 38 0.70
70 3 0.06
73 13 0.24
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (71 bp):
TTTAATGAAAATAGATCGAAGAAGTGAATTATAGTAATATTCGCTAGTCAATGTACGATTAAAAC
TAATAT
Found at i:287512 original size:3 final size:3
Alignment explanation
Indices: 287504--287531 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
287494 TAGTATGTCA
287504 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
287532 CTTTCTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:291161 original size:8 final size:8
Alignment explanation
Indices: 291144--291186 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
291134 TTTTATTTTT
*
291144 AATTTTAA
1 AATTTAAA
291152 AATTTAAA
1 AATTTAAA
*
291160 AAATTAAA
1 AATTTAAA
291168 AA-TTAAA
1 AATTTAAA
291175 AATCTTAAA
1 AAT-TTAAA
291184 AAT
1 AAT
291187 AAAATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 7 0.23
8 16 0.52
9 8 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTTAAA
Found at i:291166 original size:15 final size:15
Alignment explanation
Indices: 291148--291204 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
291138 ATTTTTAATT
*
291148 TTAAAATTTAAAAAA
1 TTAAAAATTAAAAAA
*
291163 TTAAAAATTAAAAATC
1 TTAAAAATTAAAAA-A
291179 TTAAAAA-TAAAATAA
1 TTAAAAATTAAAA-AA
*
291194 -TAAAGATTAAA
1 TTAAAAATTAAA
291205 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 5 0.14
15 22 0.63
16 8 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
TTAAAAATTAAAAAA
Found at i:300864 original size:130 final size:128
Alignment explanation
Indices: 300570--300873 Score: 296
Period size: 129 Copynumber: 2.4 Consensus size: 128
300560 TTTTTTTGGA
* * *
300570 GTTTGTAATTGTTCGAACTTAAATTTTT-CCTTAGAAAATGCAATGTTCTTTATCATTGCATCAT
1 GTTTGTAATTGTTTGAACTTAAATTTTTCCCTTA-AAAGTGCAATGTGCTTTATCATTGCATCAT
* * * *
300634 ACAATTTTTAAACGGAAATATGTTTCATGTCCATTTTATGATCCATAAAAATTAATCTTTTTAAG
65 AC-ATTTTTAAACGGAAATATATTTCATATCCATTTTATGATCCATAAAAACTAATCTCTTTAAG
* * * * ** *
300699 GTTTGTGATTGTTTGAACCTGAATTCTTCTTTTAAAAGTGCAATGTGCTTTCTCATTGCACTCAA
1 GTTTGTAATTGTTTGAACTTAAATTTTTCCCTTAAAAGTGCAATGTGCTTTATCATTGCA-TC-A
* * * * *
300764 TAC-TTTTTAAA-TGAAGATATCCATTT-ATATTCGTTTTAT-AGTCTATAAAGACTAAT-TCTT
64 TACATTTTTAAACGGAA-ATAT--ATTTCATATCCATTTTATGA-TCCATAAAAACTAATCTCTT
*
300824 TCAG
125 TAAG
*
300828 GTTTTGTAAATGTTTGAACTTAAATTTTTCCCTTAAAAGTGCAATG
1 G-TTTGTAATTGTTTGAACTTAAATTTTTCCCTTAAAAGTGCAATG
300874 GTGCAATACT
Statistics
Matches: 140, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
128 3 0.02
129 66 0.47
130 64 0.46
131 7 0.05
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (128 bp):
GTTTGTAATTGTTTGAACTTAAATTTTTCCCTTAAAAGTGCAATGTGCTTTATCATTGCATCATA
CATTTTTAAACGGAAATATATTTCATATCCATTTTATGATCCATAAAAACTAATCTCTTTAAG
Found at i:301460 original size:23 final size:21
Alignment explanation
Indices: 301410--301460 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
301400 TAGAATATAG
301410 TTAA-ATTTATTGTTTAAAAA
1 TTAATATTTATTGTTTAAAAA
301430 -T-ATCATTTATTGTTTAACAAAA
1 TTAAT-ATTTATTGTTT-A-AAAA
301452 TTAATATTT
1 TTAATATTT
301461 TTAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
18 1 0.04
19 1 0.04
20 11 0.44
21 1 0.04
22 4 0.16
23 5 0.20
24 2 0.08
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (21 bp):
TTAATATTTATTGTTTAAAAA
Found at i:306890 original size:30 final size:31
Alignment explanation
Indices: 306856--306923 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 31
306846 TTAAATTATT
* *
306856 TAAAAATTTGA-AGGGCTTAA-TAAGAATTTC
1 TAAAAATTT-ACAAGGCTTAATTAAAAATTTC
*
306886 T-AAAATTTACAAGTCTTAATTAAAAATTTC
1 TAAAAATTTACAAGGCTTAATTAAAAATTTC
306916 -AAAAATTT
1 TAAAAATTT
306924 TAGGAGGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
28 1 0.03
29 14 0.44
30 17 0.53
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (31 bp):
TAAAAATTTACAAGGCTTAATTAAAAATTTC
Found at i:308877 original size:17 final size:18
Alignment explanation
Indices: 308855--308898 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
308845 GTTTGGTTAG
308855 AAAGAAAATAAAAGAA-A
1 AAAGAAAATAAAAGAAGA
* *
308872 AAAGAAAAGAAAAGAAGG
1 AAAGAAAATAAAAGAAGA
308890 AAAGAAAAT
1 AAAGAAAAT
308899 GAAGAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAGAAAATAAAAGAAGA
Found at i:308902 original size:14 final size:13
Alignment explanation
Indices: 308864--308916 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
308854 GAAAGAAAAT
308864 AAAAGAAAA-AAG
1 AAAAGAAAAGAAG
308876 AAAAGAAAAGAAG
1 AAAAGAAAAGAAG
*
308889 GAAAGAAAATGAAG
1 AAAAGAAAA-GAAG
*
308903 AAAATAAAAAGAAG
1 AAAA-GAAAAGAAG
308917 TGATTCAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 9 0.26
13 11 0.31
14 11 0.31
15 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (13 bp):
AAAAGAAAAGAAG
Found at i:311742 original size:36 final size:36
Alignment explanation
Indices: 311702--311774 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
311692 GCGATTATAG
311702 AGGTTTTAATATTGTTGTTAAAGATGAAACCCTAAA
1 AGGTTTTAATATTGTTGTTAAAGATGAAACCCTAAA
311738 AGGTTTTAATATTGTTGTTAAAGATGAAACCCTAAA
1 AGGTTTTAATATTGTTGTTAAAGATGAAACCCTAAA
311774 A
1 A
311775 TTTTGATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (36 bp):
AGGTTTTAATATTGTTGTTAAAGATGAAACCCTAAA
Found at i:319332 original size:31 final size:31
Alignment explanation
Indices: 319297--319362 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
319287 AAAAAAAAGA
* *
319297 TTCAAGCTCTAATT-TGAGAACAGTTGCCTAG
1 TTCAAG-TCTAATTGTGAGAACAATTGCCAAG
*
319328 TTCAAGTCTCATTGTGAGAACAATTGCCAAG
1 TTCAAGTCTAATTGTGAGAACAATTGCCAAG
319359 TTCA
1 TTCA
319363 GAACTTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (31 bp):
TTCAAGTCTAATTGTGAGAACAATTGCCAAG
Found at i:320332 original size:10 final size:10
Alignment explanation
Indices: 320317--320342 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
320307 TCTTGAGCAA
320317 TAGGATAAAG
1 TAGGATAAAG
320327 TAGGATAAAG
1 TAGGATAAAG
320337 TAGGAT
1 TAGGAT
320343 GGCATAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (10 bp):
TAGGATAAAG
Found at i:325105 original size:21 final size:20
Alignment explanation
Indices: 325077--325115 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
325067 CCCGTTCGGA
325077 GAAAGAAAA-TCTGGGTTCTT
1 GAAAGAAAATTC-GGGTTCTT
325097 GAAAGGAAAATTCGGGTTC
1 GAAA-GAAAATTCGGGTTC
325116 GAATGAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (20 bp):
GAAAGAAAATTCGGGTTCTT
Found at i:329237 original size:17 final size:17
Alignment explanation
Indices: 329197--329247 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
329187 ATTTCACCTA
* *
329197 AATTTA-TTTAAATTTA
1 AATTTATTTTAATTTTT
*
329213 AATATATTTTAATTTTT
1 AATTTATTTTAATTTTT
* *
329230 AATTTATTATATTTTTT
1 AATTTATTTTAATTTTT
329247 A
1 A
329248 CTGAATTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTATTTTAATTTTT
Found at i:329296 original size:30 final size:29
Alignment explanation
Indices: 329262--329324 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
329252 ATTGATTCTG
* *
329262 ATTTTAATTA-ATGAGATATTGTTATTTGTA
1 ATTTTAATTATATGA-ATATT-ATACTTGTA
*
329292 ATTTTTATTATATGAATATTATACTTGTA
1 ATTTTAATTATATGAATATTATACTTGTA
329321 ATTT
1 ATTT
329325 ACTCCCGACG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 11 0.38
30 14 0.48
31 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.56
Consensus pattern (29 bp):
ATTTTAATTATATGAATATTATACTTGTA
Found at i:333115 original size:40 final size:40
Alignment explanation
Indices: 333052--333178 Score: 107
Period size: 40 Copynumber: 3.2 Consensus size: 40
333042 TAGCTTGAAT
* *
333052 ATCAACACTACAATATTTAATATGTAAGGAATTATA-AAAA
1 ATCAACACTACAATATTTAATATGCAAGAAATTA-ACAAAA
* *
333092 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACAAAA
1 ATCAACACTACAAT-ATTTAATATGCAAGAAATTAACAAAA
* * * * * * *
333132 ATCAATC-TTACAACAGTTAATGTGAAACAAATTAGCAAAA
1 ATCAA-CACTACAATATTTAATATGCAAGAAATTAACAAAA
333172 ATCAACA
1 ATCAACA
333179 ATTCAAAGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
39 5 0.07
40 61 0.86
41 5 0.07
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (40 bp):
ATCAACACTACAATATTTAATATGCAAGAAATTAACAAAA
Found at i:333303 original size:86 final size:86
Alignment explanation
Indices: 333157--333480 Score: 390
Period size: 86 Copynumber: 3.8 Consensus size: 86
333147 GTTAATGTGA
** * * * *
333157 AACAAATTAGCAAAAATCAACAATTCAAAGTTCATATATTTACCAACAACCGGGCTAAATTTTCA
1 AACAAATTAGCAAAAATCAACGGTTC-AAGTTCATGTATTTACCAAAAACCAGACTAAATTTTCA
* **
333222 ATTTCTATAATGATTTATATGC
65 ATTTTTATAACAATTTATATGC
* * * *
333244 AACAAATTAGTAAAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATCAGACAAAATTTTCAA
1 AACAAATTAGCAAAAATCAACGGTTCAAGTTCATGTATTTACCAAAAACCAGACTAAATTTTCAA
333309 TTTTTATAACAATTTATATGC
66 TTTTTATAACAATTTATATGC
*
333330 AACAAATTAGCAAAAATCAAC-G-----GTTCATGTATTTACCAACAACCAGACTAAATTTTCAA
1 AACAAATTAGCAAAAATCAACGGTTCAAGTTCATGTATTTACCAAAAACCAGACTAAATTTTCAA
*
333389 TTTTTATAACAATTTATGTGC
66 TTTTTATAACAATTTATATGC
* * * * * * *
333410 AACAAATTAGCACAACTCAACGGTTCAAGTGCATGTATTCAACAAAAACCGGACCAAATTTTCAA
1 AACAAATTAGCAAAAATCAACGGTTCAAGTTCATGTATTTACCAAAAACCAGACTAAATTTTCAA
333475 CTTTTT
66 -TTTTT
333481 TAAAGCAAGA
Statistics
Matches: 203, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
80 73 0.36
81 1 0.00
85 1 0.00
86 101 0.50
87 27 0.13
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (86 bp):
AACAAATTAGCAAAAATCAACGGTTCAAGTTCATGTATTTACCAAAAACCAGACTAAATTTTCAA
TTTTTATAACAATTTATATGC
Found at i:333397 original size:80 final size:80
Alignment explanation
Indices: 333186--333436 Score: 322
Period size: 80 Copynumber: 3.1 Consensus size: 80
333176 ACAATTCAAA
* * * * **
333186 GTTCATATATTTACCAACAACCGGGCTAAATTTTCAATTTCTATAATGATTTATATGCAACAAAT
1 GTTCATGTATTTACCAACAACCAGACTAAATTTTCAATTTTTATAACAATTTATATGCAACAAAT
* *
333251 TAGTAAAAATCAATGGTTCAA
66 TAGCAAAAATCAA-----C-G
* * *
333272 GTTCATGTATTTACCAAAAATCAGACAAAATTTTCAATTTTTATAACAATTTATATGCAACAAAT
1 GTTCATGTATTTACCAACAACCAGACTAAATTTTCAATTTTTATAACAATTTATATGCAACAAAT
333337 TAGCAAAAATCAACG
66 TAGCAAAAATCAACG
*
333352 GTTCATGTATTTACCAACAACCAGACTAAATTTTCAATTTTTATAACAATTTATGTGCAACAAAT
1 GTTCATGTATTTACCAACAACCAGACTAAATTTTCAATTTTTATAACAATTTATATGCAACAAAT
* *
333417 TAGCACAACTCAACG
66 TAGCAAAAATCAACG
333432 GTTCA
1 GTTCA
333437 AGTGCATGTA
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
80 79 0.53
81 1 0.01
86 68 0.46
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (80 bp):
GTTCATGTATTTACCAACAACCAGACTAAATTTTCAATTTTTATAACAATTTATATGCAACAAAT
TAGCAAAAATCAACG
Found at i:337922 original size:207 final size:206
Alignment explanation
Indices: 337516--338046 Score: 650
Period size: 207 Copynumber: 2.6 Consensus size: 206
337506 AAGGGGAAAC
* * * * *
337516 AAGTTAACAAACCAAGTTTACATGACATGATCATCTCACCATTCTAGCTTA-T-CCT-GAATCGT
1 AAGTTAACAAACCAAG-TTACATGGCATGATCATCTGACCATTGTAGCTTATTAACTCGAATTGT
* * * *
337578 TACATTTAATCCGACCCA-ATATCATACCCCACTCATCGGTTATATGCAACTATTCAAGTTAAAC
65 TACATTTAATCTGA-CCAGAT-TCATACTCCATTCACCGGTTATATGCAACTATTCAAGTTAAAC
* * *
337642 TCCAGTGTGTCTGATGAATATGACACGTTACATTATGTTTTAAAATAATGCCACATCATTAAATC
128 TCCAGTGGGTCTGATGAATATGACACGTTACATTATATTTTAAAAGAATGCCACATCATTAAATC
337707 AAGCTCAACTCATA
193 AAGCTCAACTCATA
*
337721 AAGTTAACAAACCAAGTTACATGGTATGATCATCTGACCATTGTAGCTTATTAACTCGAATTGTT
1 AAGTTAACAAACCAAGTTACATGGCATGATCATCTGACCATTGTAGCTTATTAACTCGAATTGTT
*
337786 ACATTTAATCTGACCAGATCTCATACTCCATTCACCGGTTACATGCAACTATTCAAGTTAAAACT
66 ACATTTAATCTGACCAGAT-TCATACTCCATTCACCGGTTATATGCAACTATTCAAGTT-AAACT
* * ** **
337851 CTAGTGGGTC-GAGTGAATATGACACGTTACATTATATTTTAAACGAATGCCGA-ATTGTTTTAT
129 CCAGTGGGTCTGA-TGAATATGACACGTTACATTATATTTTAAAAGAATGCC-ACATCATTAAAT
**
337914 -TTGCTCAACTCATA
192 CAAGCTCAACTCATA
* ** *
337928 AAGTTGACAAACCAAGTTACATGGCATGATCATCTGGTCATTGTAGC---TTAACTCGAGTTGTT
1 AAGTTAACAAACCAAGTTACATGGCATGATCATCTGACCATTGTAGCTTATTAACTCGAATTGTT
* * * * *
337990 ACATTTGATCTGACCTGATTCATACTCCATTCACTGATTATATGCAACAATTCAAGT
66 ACATTTAATCTGACCAGATTCATACTCCATTCACCGGTTATATGCAACTATTCAAGT
338047 AAATATGACG
Statistics
Matches: 285, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
203 34 0.12
204 61 0.21
205 17 0.06
206 5 0.02
207 113 0.40
208 54 0.19
209 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (206 bp):
AAGTTAACAAACCAAGTTACATGGCATGATCATCTGACCATTGTAGCTTATTAACTCGAATTGTT
ACATTTAATCTGACCAGATTCATACTCCATTCACCGGTTATATGCAACTATTCAAGTTAAACTCC
AGTGGGTCTGATGAATATGACACGTTACATTATATTTTAAAAGAATGCCACATCATTAAATCAAG
CTCAACTCATA
Found at i:338176 original size:183 final size:182
Alignment explanation
Indices: 337866--338347 Score: 716
Period size: 183 Copynumber: 2.6 Consensus size: 182
337856 GGGTCGAGTG
* *
337866 AATATGACACGTTACATTATATTTTAAACGAATGCCGA-ATTGTTTTATTTGCTCAACTCATAAA
1 AATATGACACGTTACATTATATTTTAAACTAATGCC-ACAATGTTTTATTTGCTCAACTCATAAA
*
337930 GTTGACAAACCAAGTTACATGGCATGATCATCTGGTCATTGTAGCTTAACTCGAGTTGTTACATT
65 GTTGACAAACCAAGTTACATGGCATGATCATCTGGTCATTGTAGCTTAACTCGAGTAGTTACATT
* *
337995 TGATCTGACCTGATTCATACTCCATTCACTGATTATATGCAACAATTCAAGTA
130 TGACCTGACCTGATTCATACTCCATTCACTGATTACATGCAACAATTCAAGTA
* *
338048 AATATGACGCGTTACATTATATTTTAAACTAAATGCCACAATGTTTTGTTTGCTCAACTCATAAA
1 AATATGACACGTTACATTATATTTTAAACT-AATGCCACAATGTTTTATTTGCTCAACTCATAAA
* * *
338113 GTTGACAAACCAAGTTATATGGCATGATGATCTGGTCATTGTAGCTTAATTCGAGTAGTTACATT
65 GTTGACAAACCAAGTTACATGGCATGATCATCTGGTCATTGTAGCTTAACTCGAGTAGTTACATT
* * * *
338178 TGACCTGACTTGATTCATACTCTATTCACTGATTACATGCAACTATTCAAGTG
130 TGACCTGACCTGATTCATACTCCATTCACTGATTACATGCAACAATTCAAGTA
* * * *
338231 AATATGACACGTTACATTATATTTTAAACTAATGCTAC-ATCATTTAATTAAGCTCAACTCATAA
1 AATATGACACGTTACATTATATTTTAAACTAATGCCACAAT-GTTTTATT-TGCTCAACTCATAA
* ** *
338295 AGTTGACAGACCAAGTTACATGGCATGATCATCTGCCCATTGGAGCTTAACTC
64 AGTTGACAAACCAAGTTACATGGCATGATCATCTGGTCATTGTAGCTTAACTC
338348 AAATGTATAC
Statistics
Matches: 269, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
181 2 0.01
182 41 0.15
183 226 0.84
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (182 bp):
AATATGACACGTTACATTATATTTTAAACTAATGCCACAATGTTTTATTTGCTCAACTCATAAAG
TTGACAAACCAAGTTACATGGCATGATCATCTGGTCATTGTAGCTTAACTCGAGTAGTTACATTT
GACCTGACCTGATTCATACTCCATTCACTGATTACATGCAACAATTCAAGTA
Found at i:340144 original size:31 final size:31
Alignment explanation
Indices: 340109--340169 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
340099 TACAAAATAG
* *
340109 TAATTAAATAATTTAAAATTTTTTATTTAAA
1 TAATTAAATAATTCAAAAATTTTTATTTAAA
* *
340140 TAATTGAATTATTCAAAAATTTTTATTTAA
1 TAATTAAATAATTCAAAAATTTTTATTTAA
340170 GTCGTTGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (31 bp):
TAATTAAATAATTCAAAAATTTTTATTTAAA
Found at i:341202 original size:27 final size:27
Alignment explanation
Indices: 341172--341227 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
341162 ATGAGACGAA
341172 TCTATTAAACCCTATACGTATAACATG
1 TCTATTAAACCCTATACGTATAACATG
341199 TCTATTAAACCCTATACGTATAACATG
1 TCTATTAAACCCTATACGTATAACATG
341226 TC
1 TC
341228 ACCTGTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (27 bp):
TCTATTAAACCCTATACGTATAACATG
Found at i:354335 original size:20 final size:20
Alignment explanation
Indices: 354297--354336 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
354287 CCGTTCCACG
* *
354297 TGCGAGTGTGGACCCCACAA
1 TGCGAATGTGGACACCACAA
*
354317 TGCGAATGTGGACAGCACAA
1 TGCGAATGTGGACACCACAA
354337 ACAAAAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.30, T:0.15
Consensus pattern (20 bp):
TGCGAATGTGGACACCACAA
Found at i:368427 original size:53 final size:53
Alignment explanation
Indices: 368347--368452 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
368337 TTTTGAGTAT
368347 TTAACTTTGAGACACACCATGAACAATTAAATGTGCGGGTTTCTAAACAGCAC
1 TTAACTTTGAGACACACCATGAACAATTAAATGTGCGGGTTTCTAAACAGCAC
368400 TTAACTTTGAGACACACCATGAACAATTAAATGTGCGGGTTTCTAAACAGCAC
1 TTAACTTTGAGACACACCATGAACAATTAAATGTGCGGGTTTCTAAACAGCAC
368453 AATAAACTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (53 bp):
TTAACTTTGAGACACACCATGAACAATTAAATGTGCGGGTTTCTAAACAGCAC
Found at i:371838 original size:16 final size:17
Alignment explanation
Indices: 371812--371843 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
371802 AGACTAGCAA
371812 TAAATAAATAAAAAAAT
1 TAAATAAATAAAAAAAT
371829 TAAA-AAATAAAAAAA
1 TAAATAAATAAAAAAA
371844 AATATTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
TAAATAAATAAAAAAAT
Found at i:371838 original size:20 final size:20
Alignment explanation
Indices: 371813--371852 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
371803 GACTAGCAAT
371813 AAATAAATAAAAAA-ATTAAA
1 AAATAAA-AAAAAATATTAAA
371833 AAATAAAAAAAAATATTAAA
1 AAATAAAAAAAAATATTAAA
371853 CCGGTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (20 bp):
AAATAAAAAAAAATATTAAA
Found at i:371843 original size:8 final size:8
Alignment explanation
Indices: 371810--371843 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
371800 TTAGACTAGC
*
371810 AATAAATA
1 AATAAAAA
371818 AATAAAAA
1 AATAAAAA
*
371826 AATTAAAA
1 AATAAAAA
371834 AATAAAAA
1 AATAAAAA
371842 AA
1 AA
371844 AATATTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AATAAAAA
Found at i:375994 original size:241 final size:231
Alignment explanation
Indices: 375622--376331 Score: 685
Period size: 233 Copynumber: 3.0 Consensus size: 231
375612 CATGTATATA
** * * ** * *
375622 TAACATATATGAAAATATTTAAAAAATA-TAGATAAACCTGAAACGGTATACCGAAACACACAAA
1 TAACATATATGAAAATATTTTGAAAATATTA-ATAAATCTAAAACAATACACCAAAACACACAAA
* * ** * *
375686 TATCAGCATGTAATAATATCATCACAAAAACGATACTATCTACTGGTTTGATACCAACCACCTTA
65 TAT---C--GTAACAATACCAGAACAAAAACGATACTATCTACTGGTTTGATACAAACTACCTTA
* *
375751 AACTCCATACAATATAAGCAACAAAACAGAACATGATTAAAATTGTTATCAAAGCAAAGCTGTAG
125 AACTCCATACAATATAACCAACAAAACAGAACATGATTAAAA-GGTTATC-AAGC-AAGCTGTAG
*
375816 TGTTTAACTATGTTTTCGTCAAATCCAGTAGACGACACGAAATGGG
187 TGTTTAA-TATGTTTTCATCAAATCCAGTAGACGACACGAAATGGG
* * * * *
375862 TGATATATATGAAAATACTTTTAGAAAGATATTGATATA-CTCAAAACAATACACCGAAACACA-
1 TAACATATATGAAAATA-TTTT-GAAA-ATATTAATAAATCT-AAAACAATACACCAAAACACAC
* * * * * *
375925 AATACTGGTACGTAACAATACCAGAACAAAAACAATATTATCCACTTGTTCGATACAAACTACCT
62 AA-A-T-AT-CGTAACAATACCAGAACAAAAACGATACTATCTACTGGTTTGATACAAACTACCT
* ** * * * *
375990 TAAACTCGATAGGATAGAACCAACAGAACAGAACATGATTAAAGAGGTTATCAAGCATGCTATAG
123 TAAACTCCATACAATATAACCAACAAAACAGAACATGATTAAA-AGGTTATCAAGCAAGCTGTAG
* * * *
376055 T-TTCTAATGATGTTTACATTAAATCCAGTAGATGACATGAAATGGG
187 TGTT-TAAT-ATGTTTTCATCAAATCCAGTAGACGACACGAAATGGG
* * **
376101 TAACATATATGAAAATATTTTTAAAATATTAATAAATCTGAAATGATACACCAAAACACACAAAT
1 TAACATATATGAAAATATTTTGAAAATATTAATAAATCTAAAACAATACACCAAAACACACAAAT
* * * ** *
376166 ATCGTAACACTACTAGAACAAAAACGATACTATCTACCGGTTTGATACTGACTACTTTAAACTCC
66 ATCGTAACAATACCAGAACAAAAACGATACTATCTACTGGTTTGATACAAACTACCTTAAACTCC
*
376231 ATACAATATAACCAACAAAACAGAACATGATTAAAAAGGTTATCGAAGCAAGCAGTAGTGTTTAA
131 ATACAATATAACCAACAAAACAGAACATGATT-AAAAGGTTATC-AAGCAAGCTGTAGTGTTTAA
* * *
376296 TTATG-TTTCATC-AATCCAATAGAGGACACAAAATGG
194 -TATGTTTTCATCAAATCCAGTAGACGACACGAAATGG
376332 ATAATTATTA
Statistics
Matches: 381, Mismatches: 72, Indels: 42
0.77 0.15 0.08
Matches are distributed among these distances:
232 20 0.05
233 92 0.24
234 21 0.06
235 4 0.01
236 27 0.07
237 7 0.02
238 7 0.02
239 58 0.15
240 19 0.05
241 89 0.23
242 8 0.02
243 26 0.07
244 2 0.01
245 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (231 bp):
TAACATATATGAAAATATTTTGAAAATATTAATAAATCTAAAACAATACACCAAAACACACAAAT
ATCGTAACAATACCAGAACAAAAACGATACTATCTACTGGTTTGATACAAACTACCTTAAACTCC
ATACAATATAACCAACAAAACAGAACATGATTAAAAGGTTATCAAGCAAGCTGTAGTGTTTAATA
TGTTTTCATCAAATCCAGTAGACGACACGAAATGGG
Found at i:376247 original size:233 final size:239
Alignment explanation
Indices: 375709--376331 Score: 689
Period size: 233 Copynumber: 2.6 Consensus size: 239
375699 TAATATCATC
* * *
375709 ACAAAAACGATACTATCTACTGGTTTGATACCAACCACCTTAAACTCCATACAATATAAGCAACA
1 ACAAAAACGATACTATCTACTGGTTTGATACAAACTACCTTAAACTCCATACAATATAACCAACA
* * * *
375774 AAACAGAACATGATTAAAATTGTTATCAAAGCAAAGCTGTAGTGTTTAACTATGTTTTCGTCAAA
66 AAACAGAACATGATTAAAA-GGTTATCAAAGC-AAGCTATAGTGTTTAACTATGTTTACATCAAA
* * * *
375839 TCCAGTAGACGACACGAAATGGGTGATATATATGAAAATACTTTTAGAAAGATATTGATATACTC
129 TCCAGTAGACGACACGAAATGGGTAACATATATGAAAATACTTTTAGAAAGATATTAATAAACTC
* *
375904 AAAACAATACACCGAAACACAAATACTGGTACGTAACAATACCAGA
194 AAAACAATACACCAAAACACAAATACTGATACGTAACAATACCAGA
* * * * * * ** *
375950 ACAAAAACAATATTATCCACTTGTTCGATACAAACTACCTTAAACTCGATAGGATAGAACCAACA
1 ACAAAAACGATACTATCTACTGGTTTGATACAAACTACCTTAAACTCCATACAATATAACCAACA
* * *
376015 GAACAGAACATGATTAAAGAGGTTATC-AAGCATGCTATAGT-TTCTAA-TGATGTTTACATTAA
66 AAACAGAACATGATTAAA-AGGTTATCAAAGCAAGCTATAGTGTT-TAACT-ATGTTTACATCAA
* * *
376077 ATCCAGTAGATGACATGAAATGGGTAACATATATGAAAATA-TTTT-TAAA-ATATTAATAAA-T
128 ATCCAGTAGACGACACGAAATGGGTAACATATATGAAAATACTTTTAGAAAGATATTAATAAACT
* ** * *
376138 CTGAAATGATACACCAAAACACACAA-A-T-AT-CGTAACACTACTAGA
193 C-AAAACAATACACCAAAACACA-AATACTGATACGTAACAATACCAGA
* ** *
376183 ACAAAAACGATACTATCTACCGGTTTGATACTGACTACTTTAAACTCCATACAATATAACCAACA
1 ACAAAAACGATACTATCTACTGGTTTGATACAAACTACCTTAAACTCCATACAATATAACCAACA
* *
376248 AAACAGAACATGATTAAAAAGGTTATCGAAGCAAGC-AGTAGTGTTTAATTATGTTT-CATC-AA
66 AAACAGAACATGATT-AAAAGGTTATCAAAGCAAGCTA-TAGTGTTTAACTATGTTTACATCAAA
* * *
376310 TCCAATAGAGGACACAAAATGG
129 TCCAGTAGACGACACGAAATGG
376332 ATAATTATTA
Statistics
Matches: 319, Mismatches: 53, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
232 20 0.06
233 91 0.29
234 24 0.08
235 6 0.02
236 27 0.08
237 5 0.02
238 7 0.02
239 58 0.18
240 4 0.01
241 76 0.24
242 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (239 bp):
ACAAAAACGATACTATCTACTGGTTTGATACAAACTACCTTAAACTCCATACAATATAACCAACA
AAACAGAACATGATTAAAAGGTTATCAAAGCAAGCTATAGTGTTTAACTATGTTTACATCAAATC
CAGTAGACGACACGAAATGGGTAACATATATGAAAATACTTTTAGAAAGATATTAATAAACTCAA
AACAATACACCAAAACACAAATACTGATACGTAACAATACCAGA
Found at i:382293 original size:19 final size:18
Alignment explanation
Indices: 382271--382337 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
382261 TTTGCAAAAA
382271 TTTAAAAAGTATTTAAATT
1 TTTAAAAA-TATTTAAATT
**
382290 TTT-AAAATA-AAAATATT
1 TTTAAAAATATTTAA-ATT
382307 TTTAAAAAATATTTTAAATT
1 TTT-AAAAATA-TTTAAATT
*
382327 TTAAAAAATAT
1 TTTAAAAATAT
382338 AAGAAAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
16 2 0.05
17 8 0.21
18 5 0.13
19 16 0.42
20 5 0.13
21 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
TTTAAAAATATTTAAATT
Found at i:382762 original size:27 final size:27
Alignment explanation
Indices: 382732--382786 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
382722 ACATTTCACG
382732 TATATTTCATTGCTAACATGGATAAAT
1 TATATTTCATTGCTAACATGGATAAAT
382759 TATATTTCATTGCTAACATGGATAAAT
1 TATATTTCATTGCTAACATGGATAAAT
382786 T
1 T
382787 TTCTAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (27 bp):
TATATTTCATTGCTAACATGGATAAAT
Found at i:397156 original size:15 final size:15
Alignment explanation
Indices: 397136--397167 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
397126 AACTTAGGGG
397136 TTTTTCTTTATCTTT
1 TTTTTCTTTATCTTT
*
397151 TTTTTCTTTTTCTTT
1 TTTTTCTTTATCTTT
397166 TT
1 TT
397168 ACCTGCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTATCTTT
Found at i:400629 original size:235 final size:232
Alignment explanation
Indices: 400320--400905 Score: 956
Period size: 232 Copynumber: 2.5 Consensus size: 232
400310 GTATGTCACT
* * * * * *
400320 TATTGTGCCTCAAATCGGACCAAAAAGCAATACTCCGAGTGCTTACTCGAACAAGATACCTACTA
1 TATTATGCCTAAAATCGGACCAAGAAGCAATAGTCCGAGCGCTTACTCGAACAAGATACCTGCTA
*
400385 GAACTACTACTACAACAAAGGTACTAAATGCTTCAAGAAACCCAAAATAAACACTGAAGCAGTAG
66 G-A--ACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCAAAATAAACACTGAAGCAGTAG
* *
400450 TATACATCTCATACAAGTAGTCGTATACATCTATTACAAAATCGTTCGATAAATGCAGGAAAGAT
128 TATACATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTCGATAAATGCAGGAAAGAT
*
400515 TACCCGGACACACTCGAACTCGGAGTATGGATTCTTACCC
193 TACCAGGACACACTCGAACTCGGAGTATGGATTCTTACCC
*
400555 TATTATGCCTAAAATCAGACCAAGAAGCAATAGTCCGAGCGCTTACTCGAACAAGATACCTGCTA
1 TATTATGCCTAAAATCGGACCAAGAAGCAATAGTCCGAGCGCTTACTCGAACAAGATACCTGCTA
** * * *
400620 GAACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCTGAAATAAACACTAAAGTAGTGGTAT
66 GAACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCAAAATAAACACTGAAGCAGTAGTAT
*
400685 ACATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTTGATAAATGCAGGAAAGATTAC
131 ACATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTCGATAAATGCAGGAAAGATTAC
400750 CAGGACACACTCGAACTCGGAGTATGGATTCTTACCC
196 CAGGACACACTCGAACTCGGAGTATGGATTCTTACCC
* *
400787 TATTATGCCTAAAATCGGACCGAGAAGCAATAGTCCGAGCGCTTACTCGAACATGATACCTGCTA
1 TATTATGCCTAAAATCGGACCAAGAAGCAATAGTCCGAGCGCTTACTCGAACAAGATACCTGCTA
*
400852 GAACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCGAAAATAAAAACTG
66 GAACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCC-AAAATAAACACTG
400906 GCATAATATC
Statistics
Matches: 326, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
232 256 0.79
233 10 0.03
234 1 0.00
235 59 0.18
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (232 bp):
TATTATGCCTAAAATCGGACCAAGAAGCAATAGTCCGAGCGCTTACTCGAACAAGATACCTGCTA
GAACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCAAAATAAACACTGAAGCAGTAGTAT
ACATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTCGATAAATGCAGGAAAGATTAC
CAGGACACACTCGAACTCGGAGTATGGATTCTTACCC
Found at i:402682 original size:4 final size:4
Alignment explanation
Indices: 402673--402741 Score: 102
Period size: 4 Copynumber: 17.2 Consensus size: 4
402663 AAGCTAAGAA
* *
402673 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
**
402721 ATGT GCGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT A
402742 AAGTAATTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:403430 original size:23 final size:23
Alignment explanation
Indices: 403387--403434 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
403377 TGGCTTCAAA
*
403387 TTCAATTTGGTAATTGAGTTTTT
1 TTCAATTTGATAATTGAGTTTTT
*
403410 TTCAATTTGATACTT-AGGTTTTT
1 TTCAATTTGATAATTGA-GTTTTT
403433 TT
1 TT
403435 TACCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (23 bp):
TTCAATTTGATAATTGAGTTTTT
Found at i:414382 original size:46 final size:46
Alignment explanation
Indices: 414225--414544 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
414215 TTATCTTCGA
* * * * * * *
414225 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ***
414270 AATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATAT
* ** *
414317 CATGTTGCCATGGTATCTTTCGACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
414363 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
414409 CATGTCGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
414455 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
414501 CATGTTGCCATGGTATCTTTCAATCATAGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
414545 TTCAGAAAGC
Statistics
Matches: 253, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
45 34 0.13
46 178 0.70
47 41 0.16
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:415393 original size:51 final size:51
Alignment explanation
Indices: 415317--415430 Score: 167
Period size: 51 Copynumber: 2.2 Consensus size: 51
415307 CTCAAACTTA
* ** *
415317 CTTCATACTTCATTCGGAATTATTACTTTGTTGCTCTAG-TATCAACAAAAG
1 CTTCATATTTCACCCGGAATTATTACTTTATTGCTCTAGCT-TCAACAAAAG
*
415368 CTTCATATTTCACCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCACCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAAAG
415419 CTTCATATTTCA
1 CTTCATATTTCA
415431 TCTGGATAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCACCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAAAG
Found at i:417521 original size:232 final size:232
Alignment explanation
Indices: 417115--417626 Score: 837
Period size: 232 Copynumber: 2.2 Consensus size: 232
417105 GGGGTATTAC
* * *
417115 AACTACTACAACAAAGGTACTAAATGCTTCAAGAAACCCAAAATAAACACTGAAGTAGTAGTATA
1 AACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCGAAATAAACACTGAAGTAATAGTATA
* *
417180 CATCTCATACAAGTAGTTGTATACATCTATTACAAAATCGTTCGATAAATGCAGGAAAGATTACC
66 CATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTCGATAAATGCAGGAAAGATTACC
* * *
417245 CAGACACACTCGAACTCAGAGTATGGATTCTTACCCTATTATGCCTAAAATCGGACCAAGAAGCC
131 CAGACACACTCGAACTCACAATATGGATTCTTACCCTATTATGCCTAAAATCGGACCAAGAAGCA
* *
417310 ATAGTCTGAGCGTTTACTCAAACAAGATACCTGCTAG
196 ATAGTCCGAGCGCTTACTCAAACAAGATACCTGCTAG
* * * * *
417347 AACTACTATAACAAAGTTACTAAATGCTTCGAGAAACCTGAAATAAACACTGGAGTAATGGTATA
1 AACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCGAAATAAACACTGAAGTAATAGTATA
417412 CATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTCGATAAATGCAGGAAAGATTA-C
66 CATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTCGATAAATGCAGGAAAGATTACC
* *
417476 CAGGACATACTCGAACTCACAATATGGATTCTTACCCTATTATGCCTAAAATCGGACCGAGAAGC
131 CA-GACACACTCGAACTCACAATATGGATTCTTACCCTATTATGCCTAAAATCGGACCAAGAAGC
*
417541 AATAGTCCGAGCGCTTACTCAAACATGATACCTGCTAG
195 AATAGTCCGAGCGCTTACTCAAACAAGATACCTGCTAG
417579 AACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCGAAAATAAA
1 AACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCG-AAATAAA
417627 AACTAGCATA
Statistics
Matches: 257, Mismatches: 21, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
231 3 0.01
232 247 0.96
233 7 0.03
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (232 bp):
AACTACTACAACAAAGGTACTAAATGCTTCGAGAAACCCGAAATAAACACTGAAGTAATAGTATA
CATCTCATACAAGTAGTAGTATACATCTATTACAAAATCATTCGATAAATGCAGGAAAGATTACC
CAGACACACTCGAACTCACAATATGGATTCTTACCCTATTATGCCTAAAATCGGACCAAGAAGCA
ATAGTCCGAGCGCTTACTCAAACAAGATACCTGCTAG
Found at i:419383 original size:4 final size:4
Alignment explanation
Indices: 419374--419454 Score: 108
Period size: 4 Copynumber: 20.2 Consensus size: 4
419364 AAGCTAAGAA
*
419374 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * ** *
419422 ATGC ATGC ATGT GCGT ATGT ATGT ATAT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
419455 AAGTAATTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 69 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:423131 original size:22 final size:24
Alignment explanation
Indices: 423106--423149 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
423096 AATTCAAGAC
423106 ATTATATA-TTT-ATATAAATTTT
1 ATTATATATTTTAATATAAATTTT
*
423128 ATTATTTATTTTAATATAAATT
1 ATTATATATTTTAATATAAATT
423150 GTAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATATATTTTAATATAAATTTT
Found at i:426044 original size:18 final size:20
Alignment explanation
Indices: 426005--426046 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
425995 CAGAGAAACC
426005 AAATTTAAGATATAAAGGAT
1 AAATTTAAGATATAAAGGAT
*
426025 AAATTTAAGA-A-AAGGGAT
1 AAATTTAAGATATAAAGGAT
426043 AAAT
1 AAAT
426047 ATCAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (20 bp):
AAATTTAAGATATAAAGGAT
Found at i:431528 original size:31 final size:33
Alignment explanation
Indices: 431492--431569 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 33
431482 GCTCTTTTAC
* * *
431492 ATTTTTGAAAATTTTTATTATA-CCTTTTAATT
1 ATTTTTGAAAATTTTAATTAAATCCTTCTAATT
* *
431524 TTTTTTGAAAATTTTAATTAAATTCTTCTAA-T
1 ATTTTTGAAAATTTTAATTAAATCCTTCTAATT
431556 ATTTTTG-AAATTTT
1 ATTTTTGAAAATTTT
431570 CATCAATATC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
31 7 0.18
32 26 0.67
33 6 0.15
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (33 bp):
ATTTTTGAAAATTTTAATTAAATCCTTCTAATT
Found at i:434249 original size:29 final size:28
Alignment explanation
Indices: 434204--434264 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
434194 GCCCCCCAAA
434204 AAAAACCTAACCCAAAAAAAAAAAGAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAG
434232 AAAAACCTAACCCAAAAAAAAAAAGAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAG
434260 AAAAA
1 AAAAA
434265 AGAAAAACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.74, C:0.16, G:0.07, T:0.03
Consensus pattern (28 bp):
AAAAACCTAACCCAAAAAAAAAAAGAAG
Found at i:434275 original size:35 final size:31
Alignment explanation
Indices: 434217--434295 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 31
434207 AACCTAACCC
*
434217 AAAAAAAAAAAGAAGAAAAACCTAACCCAAAAA
1 AAAAAAAAAAAAAAGAAAAACCTAA--CAAAAA
434250 AAAAAAGAAGAAAAAAGAAAAACCTAACAAAAA
1 AAAAAA-AA-AAAAAAGAAAAACCTAACAAAAA
**
434283 AAAACTAAAAAAA
1 AAAAAAAAAAAAA
434296 CCTAGCCACC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 5 0.12
32 2 0.05
33 16 0.39
34 2 0.05
35 16 0.39
ACGTcount: A:0.78, C:0.11, G:0.06, T:0.04
Consensus pattern (31 bp):
AAAAAAAAAAAAAAGAAAAACCTAACAAAAA
Found at i:434352 original size:12 final size:12
Alignment explanation
Indices: 434325--434353 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
434315 TCCCACTTGC
434325 CCCATTTTTCCT
1 CCCATTTTTCCT
434337 -CCATTTTTCCT
1 CCCATTTTTCCT
434348 CCCATT
1 CCCATT
434354 GTCTACCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.10, C:0.41, G:0.00, T:0.48
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:436844 original size:12 final size:12
Alignment explanation
Indices: 436827--436862 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
436817 ATTCATTTGA
436827 CATTCATGCATT
1 CATTCATGCATT
436839 CATTCATGCATT
1 CATTCATGCATT
*
436851 CATTCATACATT
1 CATTCATGCATT
436863 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:442257 original size:70 final size:71
Alignment explanation
Indices: 442047--442305 Score: 284
Period size: 72 Copynumber: 3.7 Consensus size: 71
442037 GAGTTAAGCC
* *
442047 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCT
442112 GAGGTAT
65 GAGGTAT
* * ** * * * ** * *
442119 TTTCAATTTTTGTGTTTTAATTTCAACTTATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTT
1 TTTTAATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCT
442184 GAGGTAT
65 GAGGTAT
* *
442191 TTTTAA-TTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCGGGGCATGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCTG
442255 AGGTAT
66 AGGTAT
**
442261 TTTT-A-----GTTTT--AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
442306 TTTTATTTTT
Statistics
Matches: 159, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
63 32 0.20
65 5 0.03
69 1 0.01
70 50 0.31
71 7 0.04
72 64 0.40
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (71 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCTG
AGGTAT
Found at i:442353 original size:258 final size:258
Alignment explanation
Indices: 441883--442493 Score: 1053
Period size: 258 Copynumber: 2.4 Consensus size: 258
441873 TCAAGTAAAA
441883 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTG-TT
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATT-TTGTTT
* *
441947 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTT
65 TCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTTAGTTT
442012 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
130 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
* *
442077 TATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
195 TATTGCTAGAGATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
*
442141 TCAACTTATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGTTTT
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGTTTT
* *
442206 CAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCGGGGCATGCTGAGGTATTTTTAGTTTT
66 CAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTT
*
442271 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAACTCAT
131 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCAT
*
442336 ATTGCTAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
196 ATTGCTAGAGATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
* * * * *
442399 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-TGTTT
442464 GTCAAGAATCAACTCATATTGCGAGAGGTG
65 -TCAA-AATCAACTCATATTGCGAGAGGTG
442494 GGTTGAACCT
Statistics
Matches: 333, Mismatches: 16, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
257 3 0.01
258 298 0.89
259 5 0.02
260 4 0.01
261 23 0.07
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (258 bp):
TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTGTTTT
CAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTT
AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCAT
ATTGCTAGAGATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
Found at i:442427 original size:72 final size:71
Alignment explanation
Indices: 442310--442499 Score: 254
Period size: 72 Copynumber: 2.6 Consensus size: 71
442300 AAGCCTTTTT
* * * *
442310 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGT
1 ATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
*
442375 ATTTTCA
65 AATTTCA
**
442382 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
442447 AATTTCA
65 AATTTCA
* * *
442454 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 ATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
442500 ACCTTTTAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
71 2 0.02
72 70 0.68
73 31 0.30
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
ATTTCA
Found at i:442603 original size:314 final size:315
Alignment explanation
Indices: 442202--442782 Score: 1038
Period size: 314 Copynumber: 1.8 Consensus size: 315
442192 TTTAATTTTG
* * *
442202 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCGGGGCATGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTTAG
*
442267 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
*
442332 TCATATTGCTAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
*
442397 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCCGT
442462 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
261 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
*
442517 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTTAG
442581 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
* *
442646 TCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
* * *
442711 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCCGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCCGT
*
442776 TTTTCAA
261 TTGTCAA
442783 TTTCTGCCTT
Statistics
Matches: 253, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
314 214 0.85
315 39 0.15
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.37
Consensus pattern (315 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTTAG
TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
TCATATTGCTAGAGATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCCGT
TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
Found at i:442685 original size:116 final size:119
Alignment explanation
Indices: 442376--442693 Score: 378
Period size: 116 Copynumber: 2.6 Consensus size: 119
442366 CGCTGAGGTA
** *
442376 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACG
* * *
442440 ATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
63 CTGAGGT-A-TT---TTTCAGTTTGT-AAGAATCAACTCATATTGCGAGAGGTGAGTTGAACC
** *
442503 TTTTAATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCT
1 TTTTAATTT-TTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCT
**
442568 GAGGTATTTTT-AGTTT-T-A-AATTGACTCATATTGCGAGAGGTGAGTT-AAGCC
65 GAGGTATTTTTCAGTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAA-CC
*
442619 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCT
442684 GAGGTATTTT
65 GAGGTATTTT
442694 CAATTTTTGT
Statistics
Matches: 172, Mismatches: 15, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
115 44 0.26
116 55 0.32
117 1 0.01
119 1 0.01
120 4 0.02
121 3 0.02
124 2 0.01
125 1 0.01
126 21 0.12
127 40 0.23
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.37
Consensus pattern (119 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTG
AGGTATTTTTCAGTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACC
Found at i:442740 original size:72 final size:72
Alignment explanation
Indices: 442619--442782 Score: 242
Period size: 72 Copynumber: 2.3 Consensus size: 72
442609 GAGTTAAGCC
* *
442619 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
442683 TGAGGTA
66 TGAGGTA
** *
442690 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTCAATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
442754 CTGAGGTA
65 CTGAGGTA
**
442762 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTTTGTTTTTCAA
442783 TTTCTGCCTT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
71 8 0.10
72 71 0.86
73 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (72 bp):
TTTTCAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTA
Done.