Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 198 of 313
Found at i:60711413 original size:32 final size:32
Alignment explanation
Indices: 60711372--60711435 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
60711362 TATTTGAAAA
*
60711372 GGCTTTTATTGCACAAGACTATCATACCTTTC
1 GGCTTTTATTGCACAAGACTATAATACCTTTC
60711404 GGCTTTTATTGCACAAGACTATAATACCTTTC
1 GGCTTTTATTGCACAAGACTATAATACCTTTC
60711436 TCACTCATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (32 bp):
GGCTTTTATTGCACAAGACTATAATACCTTTC
Found at i:60715164 original size:15 final size:15
Alignment explanation
Indices: 60715144--60715174 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60715134 AGTTTATACG
60715144 AATCCATATCATCAA
1 AATCCATATCATCAA
60715159 AATCCATATCATCAA
1 AATCCATATCATCAA
60715174 A
1 A
60715175 CACGATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
AATCCATATCATCAA
Found at i:60715242 original size:25 final size:25
Alignment explanation
Indices: 60715214--60715402 Score: 159
Period size: 25 Copynumber: 7.6 Consensus size: 25
60715204 AAGTAAAACC
* *
60715214 AAGCATTTGTGGCGAGTTATCTTTA
1 AAGCCTTTGTGGCGAGTTATCTATA
* * *
60715239 AAGCCGTTGTGGCGAATTATCTAAA
1 AAGCCTTTGTGGCGAGTTATCTATA
* *
60715264 AAGCCTTTGTGGTGAGTTATCTGT-
1 AAGCCTTTGTGGCGAGTTATCTATA
* ** * *
60715288 AAGCCCTTGTGGAAAATTATC-AGAA
1 AAGCCTTTGTGGCGAGTTATCTA-TA
* *
60715313 AATCCTTTTGTGGTGAGTTATCTATA
1 AAGCC-TTTGTGGCGAGTTATCTATA
* *
60715339 AAGCCTTTGTGACAAGTTATCTATA
1 AAGCCTTTGTGGCGAGTTATCTATA
* * *
60715364 AAGCCTTTGCGGTGAATTATCTGA-A
1 AAGCCTTTGTGGCGAGTTATCT-ATA
60715389 AAGCCTTTGTGGCG
1 AAGCCTTTGTGGCG
60715403 TGTTGCACGA
Statistics
Matches: 126, Mismatches: 33, Indels: 10
0.75 0.20 0.06
Matches are distributed among these distances:
24 17 0.13
25 90 0.71
26 18 0.14
27 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGCGAGTTATCTATA
Found at i:60715285 original size:50 final size:50
Alignment explanation
Indices: 60715214--60715402 Score: 204
Period size: 50 Copynumber: 3.8 Consensus size: 50
60715204 AAGTAAAACC
* * * *
60715214 AAGCATTTGTGGCGAGTTATCTTTAAAGCCGTTGTGGCGAATTATCTAAA
1 AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAATTATCTAAA
* **
60715264 AAGCCTTTGTGGTGAGTTATCTGT-AAGCCCTTGTGGAAAATTATC-AGAA
1 AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAATTATCTA-AA
* * * *
60715313 AATCCTTTTGTGGTGAGTTATCTATAAAGCCTTTGTGAC-AAGTTATCTATA
1 AAGCC-TTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAA-TTATCTAAA
* * *
60715364 AAGCCTTTGCGGTGAATTATCTGAAAAGCCTTTGTGGCG
1 AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCG
60715403 TGTTGCACGA
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 24 0.21
50 69 0.60
51 20 0.17
52 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (50 bp):
AAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTGTGGCGAATTATCTAAA
Found at i:60715357 original size:75 final size:75
Alignment explanation
Indices: 60715238--60715402 Score: 188
Period size: 75 Copynumber: 2.2 Consensus size: 75
60715228 AGTTATCTTT
* *** * *
60715238 AAAGCCGTTGTGGCGAATTATCTAAAAAGCCTTTGTGGTGAGTTATCTGT-AAGCCCTTGTGGAA
1 AAAGCCTTTGTGGCGAATTATCTAAAAAGCCTTTGTGACAAGTTATCTATAAAGCCCTTGCGGAA
60715302 AATTATCAGA
66 AATTATCAGA
* * * * * *
60715312 AAATCCTTTTGTGGTGAGTTATCTATAAAGCCTTTGTGACAAGTTATCTATAAAGCCTTTGCGGT
1 AAAGCC-TTTGTGGCGAATTATCTAAAAAGCCTTTGTGACAAGTTATCTATAAAGCCCTTGCGGA
* *
60715377 GAATTATCTGA
65 AAATTATCAGA
60715388 AAAGCCTTTGTGGCG
1 AAAGCCTTTGTGGCG
60715403 TGTTGCACGA
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
74 5 0.07
75 44 0.60
76 24 0.33
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (75 bp):
AAAGCCTTTGTGGCGAATTATCTAAAAAGCCTTTGTGACAAGTTATCTATAAAGCCCTTGCGGAA
AATTATCAGA
Found at i:60719031 original size:39 final size:39
Alignment explanation
Indices: 60718988--60719858 Score: 1536
Period size: 39 Copynumber: 22.3 Consensus size: 39
60718978 TACTCGTTCA
* *
60718988 AATGCCTTCGGGA-CATAGCCCGGTTATAGTAACTCGCAC
1 AATGCCTTC-GGATCTTAGTCCGGTTATAGTAACTCGCAC
60719027 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719066 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719105 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719144 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719183 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719222 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719261 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719300 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719339 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719378 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719417 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719456 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719495 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719534 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719573 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719612 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719651 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
60719690 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
**
60719729 AATGCCTTCGGGA-CTTAACCCGGATT-TAGTAACTCGCACC
1 AATGCCTTC-GGATCTTAGTCCGG-TTATAGTAACTCGCA-C
* * *
60719769 AATGCCTTCGG-GCTTAGCCCGG-AATTAGTAACTCGCAC
1 AATGCCTTCGGATCTTAGTCCGGTTA-TAGTAACTCGCAC
* * * *
60719807 AAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC
1 -AATGCCTTCGGATCTTAGTCCGGTTATAGTAAC-TCGCAC
*
60719848 AAAGCCTTCGG
1 AATGCCTTCGG
60719859 GACTTAGCCC
Statistics
Matches: 808, Mismatches: 13, Indels: 21
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.00
39 759 0.94
40 39 0.05
41 6 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (39 bp):
AATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCAC
Found at i:60721145 original size:23 final size:23
Alignment explanation
Indices: 60721114--60721167 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
60721104 GATGGACACA
*
60721114 TTTTTTTTCT-TTTGTTTTCATCC
1 TTTTCTTTCTCTTTGTTTTC-TCC
*
60721137 TTTTCTTTCTCTTTTTTTTCTCC
1 TTTTCTTTCTCTTTGTTTTCTCC
*
60721160 ATTTCTTT
1 TTTTCTTT
60721168 ATTACTAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTTTCTCTTTGTTTTCTCC
Found at i:60723235 original size:25 final size:25
Alignment explanation
Indices: 60723207--60723276 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
60723197 CTCTTTTAAG
*
60723207 AACTGGGGCAAAGCCCTTATT-GATT
1 AACTGGGGCAAAGCCCTT-TTCGATA
*
60723232 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
60723257 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
60723277 TGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 2 0.05
25 40 0.95
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:60723354 original size:21 final size:21
Alignment explanation
Indices: 60723324--60723382 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
60723314 TATAATGAAT
* *
60723324 ATATCTTGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
* **
60723345 ATATCATGTGCAGATCATGTC
1 ATATCATGTGCATATCATAAC
60723366 ATATCATGT-CATATCAT
1 ATATCATGTGCATATCAT
60723383 GTATATCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.22
21 25 0.78
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:60723373 original size:10 final size:10
Alignment explanation
Indices: 60723344--60723390 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
60723334 CATCTCATAA
60723344 CATATCATGT
1 CATATCATGT
*
60723354 GCAGATCATGT
1 -CATATCATGT
60723365 CATATCATGT
1 CATATCATGT
60723375 CATATCATGT
1 CATATCATGT
60723385 -ATATCA
1 CATATCA
60723391 AAATCTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 6 0.18
10 19 0.56
11 9 0.26
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (10 bp):
CATATCATGT
Found at i:60725261 original size:20 final size:20
Alignment explanation
Indices: 60725238--60725276 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60725228 CACAACCAAA
*
60725238 TACCAAATTTTAAAAAATTT
1 TACCAAATTCTAAAAAATTT
*
60725258 TACCAAATTCTCAAAAATT
1 TACCAAATTCTAAAAAATT
60725277 ACGAAAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TACCAAATTCTAAAAAATTT
Found at i:60732979 original size:48 final size:48
Alignment explanation
Indices: 60732923--60733015 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
60732913 AGCCAACCCA
*
60732923 AAATTTGTTTAGAAAGATACAAGGTAAGTCTTTGAGTAATGGAACATG
1 AAATTTGTTCAGAAAGATACAAGGTAAGTCTTTGAGTAATGGAACATG
60732971 AAATTTGTTCAGAAAGATACAAGGTAAGTCTTTGAGTAATGGAAC
1 AAATTTGTTCAGAAAGATACAAGGTAAGTCTTTGAGTAATGGAAC
60733016 TTAGCTTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (48 bp):
AAATTTGTTCAGAAAGATACAAGGTAAGTCTTTGAGTAATGGAACATG
Found at i:60733386 original size:39 final size:39
Alignment explanation
Indices: 60733335--60734295 Score: 1631
Period size: 39 Copynumber: 24.6 Consensus size: 39
60733325 TGTGTGAGAT
* * *
60733335 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
* * * *
60733374 TTATA-TCTGGGCTAAGTCCTGAAGGCAATCGTGCTGGTG
1 TTATATTC-GAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
* * * *
60733413 TTAT-GTCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATTCGA-GCTAAGTCCCGAAGGTATTCGTGCTGGTG
* * * * *
60733452 TTATGTGT-GGGCTAAGTCTCGAAGGCATTCGTGCTAGTG
1 TTATAT-TCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733491 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
* * * **
60733530 TTATATTCGAGCTAAGTCCCGAAGGCATTTGTGTTGGAA
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
* * * ***
60733569 ATGTGTGATAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733608 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733647 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733686 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733725 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733764 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733803 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733842 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733881 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733920 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733959 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60733998 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60734037 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60734076 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60734115 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60734154 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60734193 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60734232 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
60734271 TTATATTCGAGCTAAGTCCCGAAGG
1 TTATATTCGAGCTAAGTCCCGAAGG
60734296 CATTTGTGTT
Statistics
Matches: 875, Mismatches: 41, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
38 2 0.00
39 872 1.00
41 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (39 bp):
TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
Found at i:60741966 original size:38 final size:39
Alignment explanation
Indices: 60741915--60742176 Score: 269
Period size: 39 Copynumber: 6.7 Consensus size: 39
60741905 TAATTGAGGA
* * *
60741915 TTATAACCGGGCTAAGACCCGTAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTG-G-TG
* *
60741953 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* *
60741992 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* * * *
60742031 TTATGTCTGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* * *
60742070 TTATGTCTGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
** * * * *
60742109 TTATATTAGAGCTAAGTCCAGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
* * * *
60742148 TTATATCTGAGCTAAGTCTCGAAGGCATT
1 TTATATCCGGGCTAAGACCCGAAGGCATT
60742177 TGTGTTGGAA
Statistics
Matches: 196, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
38 25 0.13
39 169 0.86
40 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGGTG
Found at i:60742001 original size:39 final size:39
Alignment explanation
Indices: 60741953--60742176 Score: 315
Period size: 39 Copynumber: 5.7 Consensus size: 39
60741943 TGTGTGAGAT
* *
60741953 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
60741992 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
60742031 TTATGTCTGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
60742070 TTATGTCTGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
60742109 TTATAT-TAGAGCTAAGTCCAGAAGGTATTCGTGCTGGTG
1 TTATATCT-GGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
60742148 TTATATCTGAGCTAAGTCTCGAAGGCATT
1 TTATATCTGGGCTAAGTCCCGAAGGCATT
60742177 TGTGTTGGAA
Statistics
Matches: 167, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 165 0.99
40 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:60743953 original size:15 final size:15
Alignment explanation
Indices: 60743933--60743962 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60743923 AATGTATTCG
60743933 TGGTCTACATCTTCA
1 TGGTCTACATCTTCA
60743948 TGGTCTACATCTTCA
1 TGGTCTACATCTTCA
60743963 CGAAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (15 bp):
TGGTCTACATCTTCA
Found at i:60753837 original size:29 final size:29
Alignment explanation
Indices: 60753782--60753899 Score: 103
Period size: 29 Copynumber: 4.1 Consensus size: 29
60753772 ATGGCCCACT
*
60753782 TGGCCCATCAAGCCTCAATTCACATTCATA
1 TGGCCCATCAGGCC-CAATTCACATTCATA
* *
60753812 TGGCCCATCAGGCCCAATTCATATTCGTA
1 TGGCCCATCAGGCCCAATTCACATTCATA
* * * * *
60753841 TGGCCTATTAGGCCCAAATCACCTTTATA
1 TGGCCCATCAGGCCCAATTCACATTCATA
* * * * *
60753870 TGGCTCGTTAGGCCCAAATCACCTT-ATA
1 TGGCCCATCAGGCCCAATTCACATTCATA
60753898 TG
1 TG
60753900 CATGCTCACA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
28 5 0.07
29 57 0.76
30 13 0.17
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TGGCCCATCAGGCCCAATTCACATTCATA
Found at i:60763497 original size:19 final size:20
Alignment explanation
Indices: 60763473--60763515 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
60763463 CATGATCATT
*
60763473 CAATGCATAATTT-GTAAAA
1 CAATGCATAATTTAGGAAAA
*
60763492 CAATGCATATTTTAGGAAAA
1 CAATGCATAATTTAGGAAAA
60763512 CAAT
1 CAAT
60763516 CTTGTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
CAATGCATAATTTAGGAAAA
Found at i:60764731 original size:15 final size:15
Alignment explanation
Indices: 60764703--60764743 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
60764693 TTTCTTAATG
60764703 GAAAAGATAAGAAAAA
1 GAAAAGA-AAGAAAAA
60764719 GAAAAGAAAGAAAAA
1 GAAAAGAAAGAAAAA
60764734 -AAGAAGAAAG
1 GAA-AAGAAAG
60764744 GAATTAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.08
15 15 0.62
16 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
GAAAAGAAAGAAAAA
Found at i:60767410 original size:35 final size:35
Alignment explanation
Indices: 60767245--60767410 Score: 156
Period size: 35 Copynumber: 4.7 Consensus size: 35
60767235 AGTTTCAATA
** * * * * *
60767245 GGCATGCTTTGCATGCGATTCAGTATCAATATAGT
1 GGCATGCTTAACATGAGAATCAGAATCAGTATAAT
* *
60767280 GACATGCTTAACAT-ACGAATCAAAATCAGTA-AAGT
1 GGCATGCTTAACATGA-GAATCAGAATCAGTATAA-T
* * *
60767315 GGCATGCTTAACATGTGAATAAGAATCAGTATATT
1 GGCATGCTTAACATGAGAATCAGAATCAGTATAAT
** *
60767350 GGCATGCTTAACATGTTAATTAGAATCAGTATAAT
1 GGCATGCTTAACATGAGAATCAGAATCAGTATAAT
*
60767385 GGCATGCTTAACTTGAGAATCAGAAT
1 GGCATGCTTAACATGAGAATCAGAAT
60767411 ATCAACAGAA
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
34 1 0.01
35 104 0.98
36 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (35 bp):
GGCATGCTTAACATGAGAATCAGAATCAGTATAAT
Found at i:60768993 original size:25 final size:25
Alignment explanation
Indices: 60768959--60769021 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
60768949 AAGGTTATTA
*
60768959 ATTTATAGCTCGTAATAGCATACCG
1 ATTTATAGCTCGTAAGAGCATACCG
*
60768984 ATTTATAGCTCATAAGAGCATACCG
1 ATTTATAGCTCGTAAGAGCATACCG
*
60769009 ATTCATAGCTCGT
1 ATTTATAGCTCGT
60769022 GACAATATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (25 bp):
ATTTATAGCTCGTAAGAGCATACCG
Found at i:60778377 original size:30 final size:30
Alignment explanation
Indices: 60778343--60778403 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60778333 TCCTTAAATC
60778343 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
60778373 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
60778403 A
1 A
60778404 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:60779777 original size:30 final size:30
Alignment explanation
Indices: 60779743--60779799 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
60779733 TAATTCAAAA
60779743 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
60779773 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
60779800 GGCTCAGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:60789385 original size:21 final size:22
Alignment explanation
Indices: 60789350--60789397 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
60789340 TTCGACCATT
*
60789350 ATTTGACAATGATTCGACAGTG
1 ATTTGACAATGATTCGACACTG
* *
60789372 ATTTGA-ATTGATTCGACTCTG
1 ATTTGACAATGATTCGACACTG
60789393 ATTTG
1 ATTTG
60789398 GTATTGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (22 bp):
ATTTGACAATGATTCGACACTG
Found at i:60789532 original size:49 final size:48
Alignment explanation
Indices: 60789479--60789592 Score: 113
Period size: 48 Copynumber: 2.4 Consensus size: 48
60789469 TGGCTTTGGT
* *
60789479 CCATGATATCGGCACTTCGG-GTGTGAGTTATACATGATTTGGCTACGGG
1 CCATGATATAGGCACTTCGGAGAG-GAGTTA-ACATGATTTGGCTACGGG
* * * * * *
60789528 CCATGGTATAGGTATTTTGGAGAGGAGTTACCTTGATTTGGCTACGGG
1 CCATGATATAGGCACTTCGGAGAGGAGTTAACATGATTTGGCTACGGG
* *
60789576 CCATGGTATAGGTACTT
1 CCATGATATAGGCACTT
60789593 ACCGATTGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
48 32 0.58
49 21 0.38
50 2 0.04
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (48 bp):
CCATGATATAGGCACTTCGGAGAGGAGTTAACATGATTTGGCTACGGG
Found at i:60796273 original size:48 final size:48
Alignment explanation
Indices: 60796212--60796336 Score: 142
Period size: 48 Copynumber: 2.6 Consensus size: 48
60796202 TGTGCGCTAG
* *
60796212 TGTAAGATAATGTTTGGGACATGGCGTCAACCACGATATGAGAGCCAA
1 TGTAAGATAATGTTTGGGACATGGCATCAACAACGATATGAGAGCCAA
** * * * * * *
60796260 TGTAAGACCATGTTTGGAACATGGCATCAGCAATGTTGTGAGAGCCAG
1 TGTAAGATAATGTTTGGGACATGGCATCAACAACGATATGAGAGCCAA
* *
60796308 TGTAAGATTATGTCTGGGACATGGCATCA
1 TGTAAGATAATGTTTGGGACATGGCATCA
60796337 GCATTGATAT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (48 bp):
TGTAAGATAATGTTTGGGACATGGCATCAACAACGATATGAGAGCCAA
Found at i:60796337 original size:48 final size:48
Alignment explanation
Indices: 60796250--60796533 Score: 213
Period size: 48 Copynumber: 5.9 Consensus size: 48
60796240 AACCACGATA
* * *
60796250 TGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCAGCAATGTTG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGTTG
** *
60796298 TGAGAGCCAGTGTAAGATTATGTCTGGGACATGGCATCAGCATTGATATG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAATG-T-TG
* * * * * ** * ** *
60796348 TG-CA-CTAGTGGAAGACTATGTCTCGGACAATGGCATTGGCCACATTA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGAC-ATGGCATCAGCAATGTTG
* * *
60796395 TGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATC-GGAAT-TGAG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGT-TG
* * * **
60796442 ACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGACTTAA-CATG
1 -TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-C--AATGTTG
*
60796493 T--GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAA
60796534 ATACCCTCTT
Statistics
Matches: 183, Mismatches: 41, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
45 2 0.01
46 1 0.01
47 6 0.03
48 136 0.74
49 31 0.17
50 4 0.02
51 1 0.01
52 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGTTG
Found at i:60796418 original size:97 final size:96
Alignment explanation
Indices: 60796298--60796528 Score: 266
Period size: 97 Copynumber: 2.4 Consensus size: 96
60796288 AGCAATGTTG
** * * * *
60796298 TGAGAGCCAGTGTAAGATTATGTCTGGGACATGGCATCAGCATTGATATGTGCA-CTAGTGGAAG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAATTGAGACGAG-AGCTAGTGGAAG
* * ** * **
60796362 ACTATGTCTCGGACAATGGCATTGGCCACATTA
65 ACCATGTCTAGGAC-ATGGCATCAGACACAACA
* * *
60796395 TGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGAATTGAGACGAGAGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAATTGAGACGAGAGCTAGTGGAAGA
**
60796460 CCATGTCTAGGACATGGCATCAGACTTAACA
66 CCATGTCTAGGACATGGCATCAGACACAACA
*
60796491 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
60796529 GGCAAATACC
Statistics
Matches: 113, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
96 48 0.42
97 65 0.58
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAATTGAGACGAGAGCTAGTGGAAGA
CCATGTCTAGGACATGGCATCAGACACAACA
Found at i:60796508 original size:145 final size:144
Alignment explanation
Indices: 60796248--60796527 Score: 334
Period size: 145 Copynumber: 1.9 Consensus size: 144
60796238 TCAACCACGA
* * * *
60796248 TATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCAGCAATGTTGTGAGAGCCAGTGTAA
1 TATGAGAGCCAATGTAAAACCATGTCTGGAACATGGCATCAGCAATGTAGCGAGAGCCAGTGTAA
** * * * * *
60796313 GATTATGTCTGGGACATGGCATCAGCATTGATATGTGCACTAGTGGAAGACTATGTCTCGGACAA
66 GACCATGTCTAGGACATGGCATCAGCATTAACATGTGCACCAGTGGAAGACCATGTCTCGGAC-A
60796378 TGGCATTGGCCACAT
130 TGGCATTGGCCACAT
* * * *
60796393 TATGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATC-GGAAT-TGAGACGAGAGCTAGTGT
1 TATGAGAGCCAATGTAAAACCATGTCTGGAACATGGCATCAGCAATGT-AG-CGAGAGCCAGTGT
* *
60796456 AAGACCATGTCTAGGACATGGCATCAG-ACTTAACATGTG-AGCCAGTGTAAGACCATGTCTGGG
64 AAGACCATGTCTAGGACATGGCATCAGCA-TTAACATGTGCA-CCAGTGGAAGACCATGTCTCGG
60796519 ACATGGCAT
127 ACATGGCAT
60796528 CGGCAAATAC
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
143 1 0.01
144 14 0.12
145 99 0.87
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (144 bp):
TATGAGAGCCAATGTAAAACCATGTCTGGAACATGGCATCAGCAATGTAGCGAGAGCCAGTGTAA
GACCATGTCTAGGACATGGCATCAGCATTAACATGTGCACCAGTGGAAGACCATGTCTCGGACAT
GGCATTGGCCACAT
Found at i:60797723 original size:21 final size:21
Alignment explanation
Indices: 60797699--60797754 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
60797689 AAGAATACAC
60797699 ACGGGCGTGTTGCCCATCCAT
1 ACGGGCGTGTTGCCCATCCAT
60797720 ACGGGCGTGTTGCCCATCCAT
1 ACGGGCGTGTTGCCCATCCAT
*
60797741 ACGAGCGTG-TGCCC
1 ACGGGCGTGTTGCCC
60797755 CTGTCTGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.14, C:0.34, G:0.30, T:0.21
Consensus pattern (21 bp):
ACGGGCGTGTTGCCCATCCAT
Found at i:60801116 original size:40 final size:39
Alignment explanation
Indices: 60801085--60801294 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
60801075 GGACTAAGAT
* *
60801085 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
60801125 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
60801165 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
60801205 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
60801245 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
60801284 CCGAAGGCATT
1 CCGAAGGCATT
60801295 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:60801248 original size:120 final size:120
Alignment explanation
Indices: 60801032--60801294 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
60801022 TTGAATGCTG
* *
60801032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
60801096 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
60801152 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
60801215 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
60801271 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
60801295 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60801314 original size:79 final size:80
Alignment explanation
Indices: 60801033--60801329 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
60801023 TGAATGCTGT
* ** * * * **
60801033 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
60801096 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
60801113 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
60801177 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
60801193 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
60801257 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
60801272 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
60801330 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:60806438 original size:47 final size:47
Alignment explanation
Indices: 60806369--60806461 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
60806359 TCCAGCCGAT
60806369 CATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGA
1 CATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGA
60806416 CATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTG
1 CATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTG
60806462 TCCGGACTGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
CATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGA
Found at i:60809148 original size:40 final size:39
Alignment explanation
Indices: 60809117--60809326 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
60809107 GGACTAAGAT
* *
60809117 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
60809157 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
60809197 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
60809237 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
60809277 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
60809316 CCGAAGGCATT
1 CCGAAGGCATT
60809327 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:60809280 original size:120 final size:120
Alignment explanation
Indices: 60809064--60809326 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
60809054 TTGAATGCTG
* *
60809064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
60809128 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
60809184 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
60809247 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
60809303 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
60809327 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60809346 original size:79 final size:80
Alignment explanation
Indices: 60809117--60809361 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
60809107 GGACTAAGAT
* * * * * * * ** *
60809117 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
60809180 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
60809197 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
60809262 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
60809277 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
60809341 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
60809355 CCGAAGG
1 CCGAAGG
60809362 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:60815647 original size:40 final size:40
Alignment explanation
Indices: 60815565--60815788 Score: 249
Period size: 40 Copynumber: 5.5 Consensus size: 40
60815555 ACCCAAGTAT
* *
60815565 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
60815604 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATTC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
60815644 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
60815684 CTTCGAGACTTAGCCCAGG-TATAG-CAACTACTCGTACAAATGC
1 CTTCGGGACTTAGCCC-GGATATAGTC-ACTA---GCACAAATGC
* * *
60815727 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
60815767 CTTCGGGACTTACCCCGTATAT
1 CTTCGGGACTTAGCCCGGATAT
60815789 CATCCGAATA
Statistics
Matches: 156, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 12 0.08
40 109 0.70
41 2 0.01
42 2 0.01
43 31 0.20
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:60815761 original size:83 final size:79
Alignment explanation
Indices: 60815565--60815788 Score: 254
Period size: 83 Copynumber: 2.8 Consensus size: 79
60815555 ACCCAAGTAT
* * * *
60815565 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
* *
60815630 ACTAGCATAAATTC
66 ACTAGCACAAATGC
* * *
60815644 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCAGG-TATAG
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCC-GGATATAG
*
60815708 -CAACTACTCGTACAAATGC
64 TC-ACTA---GCACAAATGC
* * *
60815727 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATGCCTTCGGGACTTACCCCGTATAT
1 CTTCGGGACTTAGCC-GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
60815789 CATCCGAATA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
79 13 0.11
80 45 0.37
81 2 0.02
82 3 0.02
83 58 0.48
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:60820744 original size:49 final size:47
Alignment explanation
Indices: 60820439--60820801 Score: 240
Period size: 46 Copynumber: 7.7 Consensus size: 47
60820429 TTTGTGTGCC
*
60820439 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATT-AT-GA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATCGATGAGCT
* *
60820485 AGTGTAAGACCATGTTTGGGACATGGCATCGACATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGA-TCGATGAGCT
* * *
60820533 AGAT-TAAGA-CATGTCTGAGACAT-GCATCGACCTCGA--GATGCAAGCC
1 AG-TGTAAGACCATGTCTGGGACATGGCATCGA-CTTGATCGATG--AGCT
* * * * *
60820579 AGTGTAAGA-CATATATGGGACAT-GCATCGGCTACGA--GATGTG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGATCGATGAGCT
* ** *
60820622 CAGCGTAAGACCATGTCTGGGACATGGCATCGACACGGATATG-TGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAT-CGAT--GAGCT
* * *
60820673 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTTGATTTCGAT-AGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA--TCGATGAGCT
* *
60820722 AGTGTAAGACCATGTCCGGGACATGGCATCGACTTGATCGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGAGCT
*
60820769 AGTGTAAGACTATGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
60820802 ATTATACCCT
Statistics
Matches: 256, Mismatches: 34, Indels: 53
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.01
44 10 0.04
45 20 0.08
46 68 0.27
47 59 0.23
48 26 0.10
49 33 0.13
50 32 0.12
51 4 0.02
52 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGAGCT
Found at i:60822721 original size:48 final size:48
Alignment explanation
Indices: 60822669--60822900 Score: 188
Period size: 48 Copynumber: 4.9 Consensus size: 48
60822659 CCACGATATA
* *
60822669 AGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGTAATGTTGTG
1 AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTG
* * * * * *
60822717 AGAGCCAGTGTAAGATCATGTCTAGG-ACATGGCATCAGCATTGAATGTG
1 AGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCAATG-TTGTG
* * * *
60822766 -CA-CTAGTATAAGACCATGTTTGGAACATGGCATCGGCCATATTGTG
1 AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTG
* * * * * *
60822812 AGAG-TCAGTGTAAGACCATATCTAGG-ACATGACATCGGCATTG-AGACG
1 AGAGCT-AGTGTAAGACCATGT-TTGGAACATGGCATCGGCAATGTTG-TG
* * *
60822860 AGAGCTCGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAA
60822901 ATTACCCTCT
Statistics
Matches: 140, Mismatches: 34, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
46 7 0.05
47 32 0.23
48 90 0.64
49 11 0.08
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (48 bp):
AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTG
Found at i:60822796 original size:95 final size:96
Alignment explanation
Indices: 60822669--60822900 Score: 306
Period size: 95 Copynumber: 2.4 Consensus size: 96
60822659 CCACGATATA
* * * *
60822669 AGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGTAATGTTGTGAGAGCCAGTGTAAGATC
1 AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATATTGTGAGAGCCAGTGTAAGACC
* * *
60822734 ATGTCTAGGACATGGCATCAGCATTGA-ATG
66 ATATCTAGGACATGACATCAGCATTGAGACG
* * * *
60822764 TGCA-CTAGTATAAGACCATGTTTGGAACATGGCATCGGCCATATTGTGAGAGTCAGTGTAAGAC
1 AG-AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATATTGTGAGAGCCAGTGTAAGAC
*
60822828 CATATCTAGGACATGACATCGGCATTGAGACG
65 CATATCTAGGACATGACATCAGCATTGAGACG
* * *
60822860 AGAGCTCGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAA
60822901 ATTACCCTCT
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
95 80 0.69
96 36 0.31
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (96 bp):
AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATATTGTGAGAGCCAGTGTAAGACC
ATATCTAGGACATGACATCAGCATTGAGACG
Found at i:60825757 original size:40 final size:40
Alignment explanation
Indices: 60825704--60825798 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
60825694 ATCTCAGTAT
*
60825704 CGCACACTTAGTGCC-TCATATAGCCGAAACTA-TTCTAAC
1 CGCACACTTAGTGCCAT-ATATAGCCGAAACTATTTCGAAC
* * * *
60825743 TTGCACACTTAGTGCCATTTGTAGCCGAAGCTATTTCGAAC
1 -CGCACACTTAGTGCCATATATAGCCGAAACTATTTCGAAC
60825784 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
60825799 GAACATAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 40 0.85
41 7 0.15
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (40 bp):
CGCACACTTAGTGCCATATATAGCCGAAACTATTTCGAAC
Found at i:60829927 original size:24 final size:24
Alignment explanation
Indices: 60829900--60830007 Score: 119
Period size: 25 Copynumber: 4.4 Consensus size: 24
60829890 TTGGAGGCCT
*
60829900 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
60829924 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* *
60829949 AACCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
* *
60829974 AGCCCTTTTCGGTAAACTGGGCCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
*
60829999 AACCCTTTT
1 AGCCCTTTT
60830008 AGCACTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 1 0.01
24 14 0.19
25 60 0.80
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:60829947 original size:25 final size:25
Alignment explanation
Indices: 60829913--60830007 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
60829903 CTCTTTTAAT
* * *
60829913 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAACCCTTTTCGGTA
60829938 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAACCCTTTTCGGTA
*
60829963 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAACCCTTTTCGGTA
*
60829988 AACTGGGCCAAAACCCTTTT
1 AACTGGGGCAAAACCCTTTT
60830008 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAACCCTTTTCGGTA
Found at i:60829967 original size:50 final size:50
Alignment explanation
Indices: 60829913--60830007 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
60829903 CTCTTTTAAT
* *
60829913 AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATAAACTGGGCCAAAACCCTTTTCGGTA
*
60829963 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGCCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTTCGATAAACTGGGCCAAAACCCTTTT
60830008 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AACTGGGGCAAAGCCCTTTTCGATAAACTGGGCCAAAACCCTTTTCGGTA
Found at i:60830242 original size:27 final size:27
Alignment explanation
Indices: 60830212--60830350 Score: 179
Period size: 27 Copynumber: 5.1 Consensus size: 27
60830202 GGGGCAAAAT
* * * *
60830212 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60830239 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60830266 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60830293 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60830320 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60830347 GGTA
1 GGTA
60830351 TTTTAAAAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:60830259 original size:54 final size:54
Alignment explanation
Indices: 60830200--60830313 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
60830190 TTTAATATCC
*
60830200 TAGGGGCAAAAT-GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTA
1 TAGGGG-AAAATCGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
* ** * * *
60830254 TAGGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTA
1 TAGGGGAAAATCGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
*
60830308 CAGGGG
1 TAGGGG
60830314 TATTTTAGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (54 bp):
TAGGGGAAAATCGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
Found at i:60830314 original size:54 final size:54
Alignment explanation
Indices: 60830212--60830350 Score: 197
Period size: 54 Copynumber: 2.6 Consensus size: 54
60830202 GGGGCAAAAT
* * * *
60830212 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
60830266 GGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
60830320 AGTAATTCTACCCTACAGGGGTATTTCGGTA
1 GGTAATTTTACCCTACAAGGGTATTTCGGTA
60830351 TTTTAAAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:60830405 original size:27 final size:28
Alignment explanation
Indices: 60830375--60830489 Score: 139
Period size: 27 Copynumber: 4.2 Consensus size: 28
60830365 AGTATTTCAA
*
60830375 TAATTTCACAAATC-AAGGGTATTTTGG
1 TAATTTTACAAATCTAAGGGTATTTTGG
*
60830402 TAATTTTAC-AAGCTAAGGGTATTTTGG
1 TAATTTTACAAATCTAAGGGTATTTTGG
* *
60830429 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAATCTAAGGGTATTTTGG
** *
60830456 TAATTTTACTGATC-GAGGGTATTTTGG
1 TAATTTTACAAATCTAAGGGTATTTTGG
60830483 TAATTTT
1 TAATTTT
60830490 GTAAACCAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
26 3 0.04
27 70 0.92
28 3 0.04
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (28 bp):
TAATTTTACAAATCTAAGGGTATTTTGG
Found at i:60830525 original size:54 final size:54
Alignment explanation
Indices: 60830417--60830530 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
60830407 TTACAAGCTA
* *** * *
60830417 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACTGATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAAAGTATTTTAATAATTTTACTAATCG
** *
60830471 AGGGTATTTTGGTAATTTTGTAAACCAAAAGTATTTTAATAATTTT-GTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAAAGTATTTTAATAATTTTACT-AATCG
60830525 AGGGTA
1 AGGGTA
60830531 AAACGATAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 49 0.98
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAAAGTATTTTAATAATTTTACTAATCG
Found at i:60831002 original size:27 final size:27
Alignment explanation
Indices: 60830510--60830989 Score: 681
Period size: 27 Copynumber: 17.8 Consensus size: 27
60830500 AGTATTTTAA
* * *
60830510 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830537 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
60830564 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* **
60830591 TAATTCTATAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
60830618 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830645 TAATTCTGTAAATCGAGAGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830672 TAATTCTATAAATAGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* **
60830699 TAATTCTATAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
60830726 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830753 TAATTCTGTAAATCGAGAGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830780 TAATTCTATAAATAGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* **
60830807 TAATTCTATAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
60830834 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830861 TAATTCTGTAAATCGAGAGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830888 TAATTCTATAAATAGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
60830915 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
60830942 TAACTCTGTAAATCGAGGATAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
60830969 TAATTTTGTAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
60830990 CTTTGGTAAT
Statistics
Matches: 403, Mismatches: 50, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 403 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGG
Found at i:60831014 original size:108 final size:108
Alignment explanation
Indices: 60830510--60830985 Score: 844
Period size: 108 Copynumber: 4.4 Consensus size: 108
60830500 AGTATTTTAA
* * * * * *
60830510 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAA
1 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
*
60830575 ATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
66 ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
60830618 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
60830683 ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
66 ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
60830726 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
60830791 ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
66 ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
60830834 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
**
60830899 ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGG
66 ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
* * *
60830942 TAACTCTGTAAATCGAGGATAAAATGGTAATTTTGTAAATCGAG
1 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAG
60830986 GGTACTTTGG
Statistics
Matches: 356, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 356 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (108 bp):
TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAA
ATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAG
Found at i:60837964 original size:46 final size:46
Alignment explanation
Indices: 60837914--60838086 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
60837904 TGTTTGGGCA
* *
60837914 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
60837960 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
60838007 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
60838053 CCCGAGCTCGTTGAGTTGCGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60838087 CGGGCGGGTT
Statistics
Matches: 103, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:60838069 original size:93 final size:93
Alignment explanation
Indices: 60837910--60838081 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
60837900 AGGATGTTTG
* ***
60837910 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
60837975 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
60838003 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
*
60838068 TTGCGTCCGAGTTC
66 TTGAGTCCGAGTTC
60838082 ACTTACGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:60841865 original size:79 final size:80
Alignment explanation
Indices: 60841767--60841949 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
60841757 TCCTCGTTCA
* *
60841767 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
60841830 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* * **
60841847 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGGACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
60841911 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
60841926 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
60841950 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:60841949 original size:40 final size:40
Alignment explanation
Indices: 60841765--60841949 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
60841755 GCTCCTCGTT
* *
60841765 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
60841805 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
60841845 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
60841884 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
60841925 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60841950 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:60849795 original size:79 final size:82
Alignment explanation
Indices: 60849684--60849868 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
60849674 GCTACTCGTT
* * *
60849684 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
60849747 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
60849764 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
60849827 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
60849844 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60849869 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:60849868 original size:40 final size:40
Alignment explanation
Indices: 60849665--60849868 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
60849655 CGGAATTTAA
** *
60849665 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60849705 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60849745 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60849784 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60849824 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60849864 CCGGA
1 CCGGA
60849869 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60851087 original size:62 final size:61
Alignment explanation
Indices: 60850990--60851113 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 61
60850980 ATGAACAAAA
60850990 TTTTCTCTTTTCTTTTCTTTAACTCACGGCAATGGGGGGGGAACAACTACACACTTTTTTTT
1 TTTTCTCTTTTCTTTTCTTTAACTCACGGCAATGGGGGGGG-ACAACTACACACTTTTTTTT
60851052 TTTTCTCTTTTCTTTTCTTTAACTCACGGCAATGGGGGGGGACAACTACACACTTTTTTTT
1 TTTTCTCTTTTCTTTTCTTTAACTCACGGCAATGGGGGGGGACAACTACACACTTTTTTTT
60851113 T
1 T
60851114 GTTTTCATCA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 21 0.34
62 41 0.66
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (61 bp):
TTTTCTCTTTTCTTTTCTTTAACTCACGGCAATGGGGGGGGACAACTACACACTTTTTTTT
Found at i:60855376 original size:28 final size:29
Alignment explanation
Indices: 60855344--60855426 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 29
60855334 ACATACCTAT
* *
60855344 ATATGGCCCATTAGGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
60855372 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
60855401 ATATGG-CCACTAGGCCCGAATC-CATT
1 ATATGGCCCATTAGGCCCAAATCACATT
60855427 TTACAGTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 4 0.08
28 32 0.64
29 14 0.28
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:60855534 original size:19 final size:18
Alignment explanation
Indices: 60855501--60855537 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
60855491 TGGGCCCAAC
60855501 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
60855519 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
60855538 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:60855546 original size:19 final size:19
Alignment explanation
Indices: 60855510--60855546 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60855500 CAGCCCATCA
*
60855510 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
60855529 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
60855547 ACAACCCAAG
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:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:60858269 original size:42 final size:42
Alignment explanation
Indices: 60858209--60858362 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 42
60858199 CGAGACTATG
* *
60858209 TGTAAGACCATATTTGGGATATGGCATCATTATGAGATATCG
1 TGTAAGACCATATCTGGGATATGGCATCATTATGAGATATCA
* * **
60858251 CGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTTT
1 TGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATATCA
* * * **
60858293 TGTAAGACCATAGCTGGGCTATTGGCAT-TTATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAT-TATGAGATATCA
*
60858336 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
60858363 TGGTGTAGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCATTATGAGATATCA
Found at i:60867541 original size:27 final size:27
Alignment explanation
Indices: 60867524--60867730 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
60867514 ATATTAAGTC
60867524 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
60867551 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
60867579 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
60867606 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
60867634 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
60867661 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * * *
60867689 CGCACAGTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
60867716 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
60867731 GCACAATTTA
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
27 91 0.54
28 78 0.46
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:60867608 original size:55 final size:55
Alignment explanation
Indices: 60867524--60867730 Score: 351
Period size: 55 Copynumber: 3.8 Consensus size: 55
60867514 ATATTAAGTC
* * * *
60867524 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
60867579 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
60867634 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* *
60867689 CGCACAGTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
60867731 GCACAATTTA
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 146 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:60871351 original size:27 final size:28
Alignment explanation
Indices: 60871267--60871363 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 28
60871257 CATGAGATTG
* * * *
60871267 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
60871296 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60871324 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60871351 GCACTGAGTGTGC
1 GCACTAAGTGTGC
60871364 AGACTTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60871376 original size:27 final size:27
Alignment explanation
Indices: 60871295--60871377 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
60871285 TAAATTGTAC
* **
60871295 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAAAATAT
* **
60871323 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAAAATAT
*
60871350 AGCACTGAGTGTGCAGACTT-AAAATAT
1 AGCACTAAGTGTGC-GACTTGAAAATAT
60871377 A
1 A
60871378 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAAAATAT
Found at i:60871378 original size:29 final size:27
Alignment explanation
Indices: 60871267--60871378 Score: 80
Period size: 28 Copynumber: 4.0 Consensus size: 27
60871257 CATGAGATTG
** * *
60871267 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTTAAA-TATATA
* * *
60871296 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAAATATATA
* * *
60871324 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAAATATATA
*
60871351 GCACTGAGTGTGCAGACTTAAAATATAT
1 GCACTAAGTGTGC-GACTT-AAATATAT
60871379 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 24 0.34
29 23 0.33
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAAATATATA
Found at i:60877666 original size:54 final size:54
Alignment explanation
Indices: 60877607--60877763 Score: 210
Period size: 54 Copynumber: 2.9 Consensus size: 54
60877597 TTAATCCAGC
* * *
60877607 AACTAAG-TGAACTTAATTAACTAAAATGAGTGATTTTATTCCAGTAACTTAATT
1 AACTAAGATGAACTCAATTAACTAAAATGAGT-AATTTATTCCAGCAACTTAATT
* *
60877661 AACTAAGATGAACTCAAGTAAC-AAAGATGAGTAATTTATTCAAGCAACTTAATT
1 AACTAAGATGAACTCAATTAACTAAA-ATGAGTAATTTATTCCAGCAACTTAATT
* * *
60877715 AACTAAGATGAGCTCAATTAACTAAGATGAGTAACTTATTCCAGCAACT
1 AACTAAGATGAACTCAATTAACTAAAATGAGTAATTTATTCCAGCAACT
60877764 AAATACTTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
54 70 0.78
55 20 0.22
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (54 bp):
AACTAAGATGAACTCAATTAACTAAAATGAGTAATTTATTCCAGCAACTTAATT
Found at i:60877735 original size:19 final size:19
Alignment explanation
Indices: 60877657--60877745 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 19
60877647 CCAGTAACTT
*
60877657 AATTAACTAAGATGAACTC
1 AATTAACTAAGATGAGCTC
* *
60877676 AAGTAACAAAGATGAG-T-
1 AATTAACTAAGATGAGCTC
* * *
60877693 AATTTATTCAAGCA--A-CTT
1 AATTAACT-AAG-ATGAGCTC
60877711 AATTAACTAAGATGAGCTC
1 AATTAACTAAGATGAGCTC
60877730 AATTAACTAAGATGAG
1 AATTAACTAAGATGAG
60877746 TAACTTATTC
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
16 1 0.02
17 9 0.17
18 11 0.21
19 32 0.60
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (19 bp):
AATTAACTAAGATGAGCTC
Found at i:60882098 original size:54 final size:54
Alignment explanation
Indices: 60882037--60882167 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
60882027 AAAGTTTAAG
* * *
60882037 CCAGCAACTAAGTGAACTAAGTTGAACTTAATTAACTAAGATGAGTAATTTATT
1 CCAGCAACTAAGTTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATT
60882091 CCAGCAACTTAA-TTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATT
1 CCAGCAAC-TAAGTTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATT
* * *
60882145 CAAGAAACTTAGTTAACTAAGAT
1 CCAGCAACTAAGTTAACTAAGAT
60882168 TATTAATTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 2 0.03
54 64 0.93
55 3 0.04
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (54 bp):
CCAGCAACTAAGTTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATT
Found at i:60882123 original size:19 final size:19
Alignment explanation
Indices: 60882096--60882134 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60882086 TTATTCCAGC
*
60882096 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
60882115 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
60882134 A
1 A
60882135 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:60882930 original size:21 final size:20
Alignment explanation
Indices: 60882889--60882933 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
60882879 TTAAGTACAA
*
60882889 TTTAATTATTTTATAATAAT
1 TTTAATTATTTTATAAGAAT
60882909 TTTATATT-TTTTGATAAGAAT
1 TTTA-ATTATTTT-ATAAGAAT
60882930 TTTA
1 TTTA
60882934 CCCAAATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTAATTATTTTATAAGAAT
Found at i:60886533 original size:16 final size:15
Alignment explanation
Indices: 60886508--60886541 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
60886498 AAAGTTGATA
*
60886508 ATAATTAATATATATT
1 ATAATAAATATA-ATT
60886524 ATAATAAATATAATT
1 ATAATAAATATAATT
60886539 ATA
1 ATA
60886542 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:60893482 original size:31 final size:31
Alignment explanation
Indices: 60893440--60893501 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
60893430 CGTAAAGTCG
60893440 AAAGAGAGTGGGTATTCTCACTGTCTCTTCT
1 AAAGAGAGTGGGTATTCTCACTGTCTCTTCT
*
60893471 AAAGAGTGTGGGTATTCTCACTGTCTCTTCT
1 AAAGAGAGTGGGTATTCTCACTGTCTCTTCT
60893502 GTGAATTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (31 bp):
AAAGAGAGTGGGTATTCTCACTGTCTCTTCT
Found at i:60896051 original size:37 final size:37
Alignment explanation
Indices: 60896010--60896084 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
60896000 TCATCTTTCC
**
60896010 CTATTCTATTTTTCCGAATATACCTGAACTATTCCAA
1 CTATTCTATTTGGCCGAATATACCTGAACTATTCCAA
* * *
60896047 CTATTGTGTTTGGCCGAATATACCTGAACTTTTCCAA
1 CTATTCTATTTGGCCGAATATACCTGAACTATTCCAA
60896084 C
1 C
60896085 CGATCCCATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (37 bp):
CTATTCTATTTGGCCGAATATACCTGAACTATTCCAA
Found at i:60899684 original size:26 final size:27
Alignment explanation
Indices: 60899638--60899688 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
60899628 TATATGACTG
60899638 AAATACCCTTAAAGGGTAAAATTACTA
1 AAATACCCTTAAAGGGTAAAATTACTA
*
60899665 AAATACCC-TATAGGGTAAAATTAC
1 AAATACCCTTAAAGGGTAAAATTAC
60899689 CATTTTACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (27 bp):
AAATACCCTTAAAGGGTAAAATTACTA
Found at i:60909211 original size:4 final size:4
Alignment explanation
Indices: 60909202--60909253 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
60909192 ATATAACATT
* * *
60909202 AATA AATA AATA AATAA AATA AATA TAT- AATAA AATA AACA AATA ATTA
1 AATA AATA AATA AAT-A AATA AATA AATA AAT-A AATA AATA AATA AATA
60909251 AAT
1 AAT
60909254 CAATTAAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 2 0.05
4 30 0.77
5 7 0.18
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:60909221 original size:13 final size:13
Alignment explanation
Indices: 60909205--60909247 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
60909195 TAACATTAAT
60909205 AAATAAATAAATA
1 AAATAAATAAATA
60909218 AAATAAATATATAATA
1 AAAT-AA-ATA-AATA
*
60909234 AAATAAACAAATA
1 AAATAAATAAATA
60909247 A
1 A
60909248 TTAAATCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 9 0.35
14 4 0.15
15 5 0.19
16 8 0.31
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:60909247 original size:16 final size:16
Alignment explanation
Indices: 60909202--60909253 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
60909192 ATATAACATT
60909202 AATAAATAAATAAATAA
1 AATAAATAAAT-AATAA
*
60909219 AATAAATATATAATAA
1 AATAAATAAATAATAA
* *
60909235 AATAAACAAATAATTA
1 AATAAATAAATAATAA
60909251 AAT
1 AAT
60909254 CAATTAAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 21 0.68
17 10 0.32
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAATAAATAATAA
Found at i:60910536 original size:21 final size:21
Alignment explanation
Indices: 60910512--60910552 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
60910502 TAGAAAAGTT
60910512 TGGGTCTATATTTTGAAATAA
1 TGGGTCTATATTTTGAAATAA
60910533 TGGGTCTATATTTTGAAATA
1 TGGGTCTATATTTTGAAATA
60910553 GAATAACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
TGGGTCTATATTTTGAAATAA
Found at i:60912370 original size:19 final size:19
Alignment explanation
Indices: 60912325--60912370 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
60912315 TTGTCGATTT
*
60912325 TGATTAATTAAGTTTTGTA
1 TGATTATTTAAGTTTTGTA
*
60912344 TGA-GATTTAAGTTTT-TAA
1 TGATTATTTAAGTTTTGT-A
60912362 TGATTATTT
1 TGATTATTT
60912371 TTTAATGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TGATTATTTAAGTTTTGTA
Found at i:60912728 original size:29 final size:28
Alignment explanation
Indices: 60912646--60912737 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
60912636 TCATTAGGAT
* * *
60912646 TTATCAGGCACTATGTGCTATAGATTACAG
1 TTATCAGGCACTTTGTGCTGT-G-TTATAG
* * *
60912676 TTATCAGGTACTTTGTATCCGTGTTATAG
1 TTATCAGGCACTTTGT-GCTGTGTTATAG
*
60912705 TTATCAGGCACTTTGTGCTGGTGTTATAT
1 TTATCAGGCACTTTGTGCT-GTGTTATAG
60912734 TTAT
1 TTAT
60912738 TGGGTACTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.02
29 32 0.64
30 15 0.30
31 2 0.04
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (28 bp):
TTATCAGGCACTTTGTGCTGTGTTATAG
Found at i:60915725 original size:27 final size:27
Alignment explanation
Indices: 60915695--60915777 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
60915685 CGAAAGCTGT
* *
60915695 GAATAGCCTTTTTGGCGAACTCTGAAA
1 GAATAGCCTTTGTGGTGAACTCTGAAA
* * *
60915722 GAATAGACTTTGTGGTGAAACTATAAAA
1 GAATAGCCTTTGTGGTG-AACTCTGAAA
* *
60915750 GAATAACCTTTGTGATGAACTCTGAAA
1 GAATAGCCTTTGTGGTGAACTCTGAAA
60915777 G
1 G
60915778 GGATGCCTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (27 bp):
GAATAGCCTTTGTGGTGAACTCTGAAA
Found at i:60920532 original size:14 final size:14
Alignment explanation
Indices: 60920513--60920541 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60920503 GGTTGTTTTT
60920513 AATAAATAAATAAA
1 AATAAATAAATAAA
60920527 AATAAATAAATAAA
1 AATAAATAAATAAA
60920541 A
1 A
60920542 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:60923842 original size:30 final size:29
Alignment explanation
Indices: 60923796--60923948 Score: 148
Period size: 29 Copynumber: 5.2 Consensus size: 29
60923786 TCAAAGTCTT
60923796 GCCACAAAGG-TGTCCTTTTAACAGAGATA
1 GCCACAAAGGCT-TCCTTTTAACAGAGATA
*
60923825 GCCACAAAAGGCATCCTTTTAACAGAGATA
1 GCCAC-AAAGGCTTCCTTTTAACAGAGATA
* * * *
60923855 GCCACAAAGGCTTCCTTATAACAAATATG
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
** * *
60923884 GTGACATAGGCGTT-CTTTTAACAAAGATA
1 GCCACAAAGGC-TTCCTTTTAACAGAGATA
* * * *
60923913 GCCACATAGGCTTCCTTATAGCAGAGATT
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
60923942 GCCACAA
1 GCCACAA
60923949 GGGATTTGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
28 2 0.02
29 70 0.69
30 29 0.29
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (29 bp):
GCCACAAAGGCTTCCTTTTAACAGAGATA
Found at i:60937494 original size:14 final size:14
Alignment explanation
Indices: 60937475--60937506 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
60937465 AGGTCATTTA
60937475 GCCCAACCAAACTG
1 GCCCAACCAAACTG
60937489 GCCCAACCAAACTG
1 GCCCAACCAAACTG
60937503 GCCC
1 GCCC
60937507 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:60937625 original size:36 final size:36
Alignment explanation
Indices: 60937576--60937645 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
60937566 GAAGATATAA
* *
60937576 TTATGGAATCTTAGAGTTCTATTTGTATACAGCTGG
1 TTATGGAAGCTTAGAGTTCTAATTGTATACAGCTGG
* *
60937612 TTATGTAAGCTTAGAGTTCTAATTGTATTCAGCT
1 TTATGGAAGCTTAGAGTTCTAATTGTATACAGCT
60937646 TTTAATTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (36 bp):
TTATGGAAGCTTAGAGTTCTAATTGTATACAGCTGG
Found at i:60942620 original size:14 final size:14
Alignment explanation
Indices: 60942601--60942632 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
60942591 AGGTCATTTA
60942601 GCCCAACCAAACTG
1 GCCCAACCAAACTG
60942615 GCCCAACCAAACTG
1 GCCCAACCAAACTG
60942629 GCCC
1 GCCC
60942633 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:60946402 original size:18 final size:19
Alignment explanation
Indices: 60946371--60946406 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60946361 ACATCAATTC
60946371 AAAAATTCAAATTCAAAAT
1 AAAAATTCAAATTCAAAAT
*
60946390 AAAAA-TCATATTCAAAA
1 AAAAATTCAAATTCAAAA
60946407 CAATCCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATTCAAATTCAAAAT
Found at i:60948683 original size:50 final size:50
Alignment explanation
Indices: 60948608--60948705 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
60948598 AATGAAAAGG
* * **
60948608 CCATATTGTGTAAGACCATAGCTGGTGGGCTATGGTGTCATATGGAAATA
1 CCATATCGTGTAAGACCATAACTGGTGGGCTATGGCATCATATGGAAATA
*
60948658 CCATATCGTGTAAGACCATAACTGGTGGGTTATGGCATCATATGGAAA
1 CCATATCGTGTAAGACCATAACTGGTGGGCTATGGCATCATATGGAAA
60948706 GATTTAAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (50 bp):
CCATATCGTGTAAGACCATAACTGGTGGGCTATGGCATCATATGGAAATA
Found at i:60953912 original size:26 final size:26
Alignment explanation
Indices: 60953873--60953948 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
60953863 CAAATTTCTG
*
60953873 TAAAAGGATACCTTCGTGGCTATCCC
1 TAAAAGGATGCCTTCGTGGCTATCCC
* *
60953899 TAAAAGGATGCCTTTGTGGCTATCCT
1 TAAAAGGATGCCTTCGTGGCTATCCC
*
60953925 TGAAAA-GACGCCTTCGTGGCTATC
1 T-AAAAGGATGCCTTCGTGGCTATC
60953949 TCTTTTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (26 bp):
TAAAAGGATGCCTTCGTGGCTATCCC
Found at i:60953974 original size:29 final size:29
Alignment explanation
Indices: 60953869--60954130 Score: 193
Period size: 29 Copynumber: 9.3 Consensus size: 29
60953859 AACACAAATT
* *
60953869 TCTG-TAAAAGGATACCTTCGTGGCTATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
* **
60953897 -C--CTAAAAGGATGCCTTTGTGGCTATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
* ** *
60953923 -CT-TGAAAA-GACGCCTTCGTGGCTATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
* **
60953949 TCTTTTAAAAGGAATTCTTTGTGGCTATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
* *
60953978 TCTGTTAAAAGGAAGCCTTTGTGGCGATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
*
60954007 TCTGTTAAAA-GAAACCTTTGTGTCTATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
* * * * *
60954035 TTTTTTAAAAGGAAGCCTTTGAGGCAATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
* ** **
60954064 T-TAGTT-AAAGGAAGCCTTCATCACTATC
1 TCT-GTTAAAAGGAAACCTTTGTGGCTATC
* * *
60954092 TTTGTTAAAAGGAAGCCTTTGTGGCCATC
1 TCTGTTAAAAGGAAACCTTTGTGGCTATC
60954121 TCTGTTAAAA
1 TCTGTTAAAA
60954131 AAATGCCTTT
Statistics
Matches: 188, Mismatches: 37, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
26 39 0.21
27 7 0.04
28 49 0.26
29 93 0.49
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (29 bp):
TCTGTTAAAAGGAAACCTTTGTGGCTATC
Found at i:60954035 original size:57 final size:57
Alignment explanation
Indices: 60953909--60954130 Score: 218
Period size: 57 Copynumber: 3.9 Consensus size: 57
60953899 TAAAAGGATG
* * * * * *
60953909 CCTTTGTGGCTATC-CT-TGAAAA-GACGCCTTCGTGGCTATCTCTTTTAAAAGGAAT
1 CCTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCAATCTCTGTTAAAA-GAAA
* *
60953964 TCTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCGATCTCTGTTAAAAGAAA
1 CCTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCAATCTCTGTTAAAAGAAA
* * * * * *
60954021 CCTTTGTGTCTATCTTTTTTAAAAGGAAGCCTTTGAGGCAATCT-TAGTTAAAGGAAG
1 CCTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCAATCTCT-GTTAAAAGAAA
** ** * *
60954078 CCTTCATCACTATCTTTGTTAAAAGGAAGCCTTTGTGGCCATCTCTGTTAAAA
1 CCTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCAATCTCTGTTAAAA
60954131 AAATGCCTTT
Statistics
Matches: 139, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
55 13 0.09
56 3 0.02
57 98 0.71
58 25 0.18
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (57 bp):
CCTTTGTGGCTATCTCTGTTAAAAGGAAGCCTTTGTGGCAATCTCTGTTAAAAGAAA
Found at i:60954055 original size:86 final size:84
Alignment explanation
Indices: 60953899--60954081 Score: 217
Period size: 86 Copynumber: 2.2 Consensus size: 84
60953889 TGGCTATCCC
* * ** *
60953899 TAAAAGGATGCCTTTGTGGCTATCCTTGAAAAGACGCCTTCGTGGCTATCTCTTTTAAAAGGAAT
1 TAAAAGGAAGCCTTTGTGGCGATCCTTGAAAAGAAACCTTCGTGGCTATCTCTTTTAAAAGGAAG
* * *
60953964 TCTTTGTGGCTATCTCT-GT
66 CCTTTGAGGCAATCT-TAGT
* * * *
60953983 TAAAAGGAAGCCTTTGTGGCGATCTCTGTTAAAAGAAACCTTTGTGTCTATCTTTTTTAAAAGGA
1 TAAAAGGAAGCCTTTGTGGCGATC-CT-TGAAAAGAAACCTTCGTGGCTATCTCTTTTAAAAGGA
60954048 AGCCTTTGAGGCAATCTTAGT
64 AGCCTTTGAGGCAATCTTAGT
60954069 T-AAAGGAAGCCTT
1 TAAAAGGAAGCCTT
60954082 CATCACTATC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
84 22 0.26
85 15 0.18
86 47 0.56
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (84 bp):
TAAAAGGAAGCCTTTGTGGCGATCCTTGAAAAGAAACCTTCGTGGCTATCTCTTTTAAAAGGAAG
CCTTTGAGGCAATCTTAGT
Found at i:60954111 original size:86 final size:86
Alignment explanation
Indices: 60953927--60954130 Score: 223
Period size: 86 Copynumber: 2.4 Consensus size: 86
60953917 GCTATCCTTG
* * ** * *
60953927 AAAAGACGCCTTCGTGGCTATCTCTTTTAAAAGGAATTCTTTGTGGCTATCTCTGTTAAAAGGAA
1 AAAAGAAGCCTTTGTGGCTATCTCTTTTAAAAGGAAGCCTTTGAGGCAATCTCTGTTAAAAGGAA
** **
60953992 GCCTTTGTGGCGATCTCTGTT
66 GCCTTCATCACGATCTCTGTT
* * *
60954013 AAAAGAAACCTTTGTGTCTATCTTTTTTAAAAGGAAGCCTTTGAGGCAATCT-TAGTT-AAAGGA
1 AAAAGAAGCCTTTGTGGCTATCTCTTTTAAAAGGAAGCCTTTGAGGCAATCTCT-GTTAAAAGGA
* *
60954076 AGCCTTCATCACTATCTTTGTT
65 AGCCTTCATCACGATCTCTGTT
* *
60954098 AAAAGGAAGCCTTTGTGGCCATCTCTGTTAAAA
1 AAAA-GAAGCCTTTGTGGCTATCTCTTTTAAAA
60954131 AAATGCCTTT
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
85 27 0.28
86 69 0.72
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
AAAAGAAGCCTTTGTGGCTATCTCTTTTAAAAGGAAGCCTTTGAGGCAATCTCTGTTAAAAGGAA
GCCTTCATCACGATCTCTGTT
Found at i:60954142 original size:29 final size:29
Alignment explanation
Indices: 60953899--60954130 Score: 233
Period size: 29 Copynumber: 8.2 Consensus size: 29
60953889 TGGCTATCCC
*
60953899 TAAAAGGATGCCTTTGTGGCTATC-CT-T
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* * * *
60953926 GAAAA-GACGCCTTCGTGGCTATCTCTTT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
**
60953954 TAAAAGGAATTCTTTGTGGCTATCTCTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
*
60953983 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* * * *
60954012 TAAAA-GAAACCTTTGTGTCTATCTTTTT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* *
60954040 TAAAAGGAAGCCTTTGAGGCAATCT-TAGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCT-GT
** ** *
60954069 T-AAAGGAAGCCTTCATCACTATCTTTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
*
60954097 TAAAAGGAAGCCTTTGTGGCCATCTCTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
60954126 TAAAA
1 TAAAA
60954131 AAATGCCTTT
Statistics
Matches: 164, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 16 0.10
27 6 0.04
28 49 0.30
29 93 0.57
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (29 bp):
TAAAAGGAAGCCTTTGTGGCTATCTCTGT
Found at i:60956061 original size:6 final size:6
Alignment explanation
Indices: 60956050--60956074 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60956040 ATGGCTCATG
60956050 GTTTGA GTTTGA GTTTGA GTTTGA G
1 GTTTGA GTTTGA GTTTGA GTTTGA G
60956075 GTTTAGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (6 bp):
GTTTGA
Found at i:60956098 original size:20 final size:19
Alignment explanation
Indices: 60956075--60956153 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
60956065 TGAGTTTGAG
* *
60956075 GTTTAGGGTTTGGGTTCAAA
1 GTTT-GGGTTCGGGTTCGAA
*
60956095 GTTTGAGGTTCGAGGTTCGAG
1 GTTTG-GGTTCG-GGTTCGAA
*
60956116 GTTTGGGTTCGAGTTCGAA
1 GTTTGGGTTCGGGTTCGAA
60956135 GTTTAGGGTTCGGGGTTCG
1 GTTT-GGGTTC-GGGTTCG
60956154 GGGTTTAGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 11 0.22
20 21 0.43
21 17 0.35
ACGTcount: A:0.14, C:0.09, G:0.41, T:0.37
Consensus pattern (19 bp):
GTTTGGGTTCGGGTTCGAA
Found at i:60960453 original size:21 final size:21
Alignment explanation
Indices: 60960429--60960495 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
60960419 GTTACTGGGG
* *
60960429 TGGGTCAAACAAAAGTGATTT
1 TGGGTCAAGCAGAAGTGATTT
60960450 TGGGT-AGAGCAGAAGTGATTT
1 TGGGTCA-AGCAGAAGTGATTT
60960471 TGGGTCAAGCAGAAGTGATTT
1 TGGGTCAAGCAGAAGTGATTT
60960492 TGGG
1 TGGG
60960496 GTTGACCCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.34, T:0.28
Consensus pattern (21 bp):
TGGGTCAAGCAGAAGTGATTT
Found at i:60965711 original size:37 final size:37
Alignment explanation
Indices: 60965669--60965745 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
60965659 CTGATTTGAG
60965669 CAGGAAAGAGCTGAGGGAGCTGGAATTGAGCTAAAAT
1 CAGGAAAGAGCTGAGGGAGCTGGAATTGAGCTAAAAT
*
60965706 CAGGAATGAGCTGAGGGAGCTGGAATTGAGCTAAAAT
1 CAGGAAAGAGCTGAGGGAGCTGGAATTGAGCTAAAAT
60965743 CAG
1 CAG
60965746 TTTGCACTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.36, C:0.12, G:0.35, T:0.17
Consensus pattern (37 bp):
CAGGAAAGAGCTGAGGGAGCTGGAATTGAGCTAAAAT
Found at i:60966608 original size:33 final size:33
Alignment explanation
Indices: 60966566--60966672 Score: 169
Period size: 33 Copynumber: 3.2 Consensus size: 33
60966556 TTCAAGAGGC
*
60966566 TTACCTTTAGGAGTAGGAAAAGAAAGTTCGGTT
1 TTACCTTTAGGAGTAGGAAAACAAAGTTCGGTT
*
60966599 TTACCTTTAGGAGTAGGAAAACAAAGTTCGATT
1 TTACCTTTAGGAGTAGGAAAACAAAGTTCGGTT
* **
60966632 TTACCTTTAGGAGAAGGAAAACAAAGTTTAGTT
1 TTACCTTTAGGAGTAGGAAAACAAAGTTCGGTT
60966665 TTACCTTT
1 TTACCTTT
60966673 TCCATTTAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (33 bp):
TTACCTTTAGGAGTAGGAAAACAAAGTTCGGTT
Found at i:60967642 original size:14 final size:14
Alignment explanation
Indices: 60967622--60967669 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
60967612 TTCTTCGTTT
60967622 TCTTTTTCTTTTATC
1 TCTTTTTCTTTT-TC
60967637 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
* *
60967651 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTC
60967666 TCTT
1 TCTT
60967670 CTCTCAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTTTTCTTTTTC
Found at i:60967643 original size:21 final size:20
Alignment explanation
Indices: 60967594--60967651 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
60967584 CAATCTCAAT
* *
60967594 TTCTTTTTCAATTTTCTTTTC
1 TTCTTTTTC-TTTTTCTTTTA
*
60967615 TTCGTTTTCTTTTTCTTTTA
1 TTCTTTTTCTTTTTCTTTTA
60967635 TCTCTTTTTCTTTTTCT
1 T-TCTTTTTCTTTTTCT
60967652 CTCATTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.31
21 22 0.69
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (20 bp):
TTCTTTTTCTTTTTCTTTTA
Found at i:60967661 original size:21 final size:21
Alignment explanation
Indices: 60967619--60967680 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
60967609 CTTTTCTTCG
* * *
60967619 TTTTCTTTTTCTTTTATCTCT
1 TTTTCTTTTTCTCTCATTTCT
60967640 TTTTCTTTTTCTCTCATTTCT
1 TTTTCTTTTTCTCTCATTTCT
*
60967661 TTTT-TTCTTCTCTCAATTTC
1 TTTTCTTTTTCTCTC-ATTTC
60967681 ATTCAAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.25
21 27 0.75
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTCTTTTTCTCTCATTTCT
Found at i:60969543 original size:16 final size:16
Alignment explanation
Indices: 60969522--60969574 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
60969512 TTAGGTGAGT
60969522 ATTCATGCACTCTTCC
1 ATTCATGCACTCTTCC
* **
60969538 ATTCATTGCAATGAT--
1 ATTCA-TGCACTCTTCC
60969553 ATTCATGCACTCTTCC
1 ATTCATGCACTCTTCC
60969569 ATTCAT
1 ATTCAT
60969575 TGTAATGAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 6 0.21
15 5 0.18
16 11 0.39
17 6 0.21
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.40
Consensus pattern (16 bp):
ATTCATGCACTCTTCC
Found at i:60969556 original size:31 final size:31
Alignment explanation
Indices: 60969521--60969582 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
60969511 ATTAGGTGAG
60969521 TATTCATGCACTCTTCCATTCATTGCAATGA
1 TATTCATGCACTCTTCCATTCATTGCAATGA
*
60969552 TATTCATGCACTCTTCCATTCATTGTAATGA
1 TATTCATGCACTCTTCCATTCATTGCAATGA
60969583 ACCGCTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (31 bp):
TATTCATGCACTCTTCCATTCATTGCAATGA
Found at i:60980339 original size:11 final size:11
Alignment explanation
Indices: 60980325--60980373 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
60980315 TTATTTATTT
60980325 ATTATAAATAC
1 ATTATAAATAC
60980336 ATTATAATATA-
1 ATTATAA-ATAC
* *
60980347 A-TATATAT-T
1 ATTATAAATAC
60980356 ATTATAAATAC
1 ATTATAAATAC
60980367 ATTATAA
1 ATTATAA
60980374 TATAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.10
10 10 0.32
11 15 0.48
12 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (11 bp):
ATTATAAATAC
Found at i:60980361 original size:31 final size:31
Alignment explanation
Indices: 60980323--60980388 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
60980313 GTTTATTTAT
60980323 TTATTATAAATACATTATAATATAATATATA
1 TTATTATAAATACATTATAATATAATATATA
60980354 TTATTATAAATACATTATAATATAATATATA
1 TTATTATAAATACATTATAATATAATATATA
60980385 TTAT
1 TTAT
60980389 AACCTTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (31 bp):
TTATTATAAATACATTATAATATAATATATA
Found at i:60980389 original size:17 final size:16
Alignment explanation
Indices: 60980327--60980390 Score: 78
Period size: 17 Copynumber: 4.0 Consensus size: 16
60980317 ATTTATTTAT
60980327 TATAAATACATTATAA
1 TATAAATACATTATAA
*
60980343 TATAATATATATTAT--
1 TATAA-ATACATTATAA
60980358 TATAAATACATTATAA
1 TATAAATACATTATAA
*
60980374 TATAATATATATTATAA
1 TATAA-ATACATTATAA
60980391 CCTTTATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 8 0.20
15 5 0.12
16 10 0.24
17 18 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAAATACATTATAA
Found at i:60986485 original size:24 final size:24
Alignment explanation
Indices: 60986440--60986485 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
60986430 AATTTGGTTT
*
60986440 GTTTATTTTAATTAATTGTATTAG
1 GTTTATTTTAATTAATTATATTAG
*
60986464 GTTTA-TTTAACTTAGTTATATT
1 GTTTATTTTAA-TTAATTATATT
60986486 TAATCTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (24 bp):
GTTTATTTTAATTAATTATATTAG
Found at i:61018755 original size:19 final size:19
Alignment explanation
Indices: 61018727--61018767 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
61018717 AAAAAAGATA
61018727 AAAATAAAAATAAATAAAT
1 AAAATAAAAATAAATAAAT
* * *
61018746 AAAATTAAAATATATTAAT
1 AAAATAAAAATAAATAAAT
61018765 AAA
1 AAA
61018768 TTATGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAAAAATAAATAAAT
Found at i:61018795 original size:14 final size:14
Alignment explanation
Indices: 61018776--61018802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61018766 AATTATGAAA
61018776 ATATGTATATATAT
1 ATATGTATATATAT
61018790 ATATGTATATATA
1 ATATGTATATATA
61018803 AGGAAAATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATGTATATATAT
Found at i:61019076 original size:3 final size:3
Alignment explanation
Indices: 61019068--61019126 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
61019058 TTTGTATTGA
* * *
61019068 AAT AAT AAT AAT AAC CAT AAT AAT AAT AAT AAAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
61019114 ACAGT AAT AAT AA
1 A-A-T AAT AAT AA
61019127 CAATTTAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
3 40 0.85
4 5 0.11
5 2 0.04
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:61019841 original size:43 final size:43
Alignment explanation
Indices: 61019794--61019882 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
61019784 TCTTTGTTTC
61019794 TTTTTA-CACTCGTGTTTTTACCCCCCCCCCCCTAATTTACAGA
1 TTTTTACCA-TCGTGTTTTTACCCCCCCCCCCCTAATTTACAGA
* * *
61019837 TTTTTTCCATCGTTTTTTTTCCCCCCCCCCCCTAATTTACAGA
1 TTTTTACCATCGTGTTTTTACCCCCCCCCCCCTAATTTACAGA
61019880 TTT
1 TTT
61019883 GAGTTTGCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 40 0.95
44 2 0.05
ACGTcount: A:0.16, C:0.36, G:0.06, T:0.43
Consensus pattern (43 bp):
TTTTTACCATCGTGTTTTTACCCCCCCCCCCCTAATTTACAGA
Found at i:61020666 original size:55 final size:55
Alignment explanation
Indices: 61020596--61020729 Score: 205
Period size: 55 Copynumber: 2.4 Consensus size: 55
61020586 ATTTCCCACA
* * *
61020596 AATATTGCTTCTTTTGGATCGATTGTTTTTATGTTTAAATCAATTGTCATGTTGG
1 AATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATGTTAG
* * *
61020651 AATACTGCTTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTAG
1 AATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATGTTAG
*
61020706 AATATTGATTCTTTTGAATCGATT
1 AATATTGCTTCTTTTGAATCGATT
61020730 ATTATGGTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (55 bp):
AATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTCATGTTAG
Found at i:61020812 original size:94 final size:95
Alignment explanation
Indices: 61020659--61020891 Score: 355
Period size: 94 Copynumber: 2.5 Consensus size: 95
61020649 GGAATACTGC
* *
61020659 TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTAGAATATTGATTCTTTTGAA
1 TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTAGAATACTGATTCTTTTGAA
61020724 TCGATTA-TTATGGTGGAATACTGC-TTCTT
66 TCGA-TAGTTATGGTGGAATACTGCTTTCTT
* * *
61020753 ATTCTTTTGAATC-ATTTTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTTTTGA
1 -TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTAGAATACTGATTCTTTTGA
61020817 ATCGATAGTTATGGTGGAATACTGCTTTCTT
65 ATCGATAGTTATGGTGGAATACTGCTTTCTT
* * *
61020848 TTCTTTTGAATCGATTGTTTGTATGTTTAAATCAATTGTTATGT
1 TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGT
61020892 AACTTGTCTA
Statistics
Matches: 127, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
93 2 0.02
94 80 0.63
95 45 0.35
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.50
Consensus pattern (95 bp):
TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTAGAATACTGATTCTTTTGAA
TCGATAGTTATGGTGGAATACTGCTTTCTT
Found at i:61020828 original size:34 final size:35
Alignment explanation
Indices: 61020782--61020849 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
61020772 TATATGTTTA
* *
61020782 AATCGATTGTTATGTTGGAATACTGC-TTCTTTTG
1 AATCGATAGTTATGGTGGAATACTGCTTTCTTTTG
61020816 AATCGATAGTTATGGTGGAATACTGCTTTCTTTT
1 AATCGATAGTTATGGTGGAATACTGCTTTCTTTT
61020850 CTTTTGAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 24 0.77
35 7 0.23
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.46
Consensus pattern (35 bp):
AATCGATAGTTATGGTGGAATACTGCTTTCTTTTG
Found at i:61021272 original size:7 final size:7
Alignment explanation
Indices: 61021262--61021292 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
61021252 AAAAAATCCG
61021262 AAACCCA
1 AAACCCA
61021269 AAACCCA
1 AAACCCA
61021276 AAACCCA
1 AAACCCA
*
61021283 AAACCTA
1 AAACCCA
61021290 AAA
1 AAA
61021293 AAAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.61, C:0.35, G:0.00, T:0.03
Consensus pattern (7 bp):
AAACCCA
Done.