Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 49 of 320
Found at i:14120313 original size:15 final size:15
Alignment explanation
Indices: 14120295--14120324 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14120285 TCATGTTCTG
14120295 TTCTTTCTATTCTTT
1 TTCTTTCTATTCTTT
*
14120310 TTCTTTCTTTTCTTT
1 TTCTTTCTATTCTTT
14120325 CTTTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTCTATTCTTT
Found at i:14120397 original size:19 final size:19
Alignment explanation
Indices: 14120373--14120411 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14120363 AATACTTATT
*
14120373 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
14120392 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
14120411 T
1 T
14120412 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:14120458 original size:16 final size:16
Alignment explanation
Indices: 14120434--14120475 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
14120424 ATACACTTGT
14120434 CTTTTTATTTATTATA
1 CTTTTTATTTATTATA
*
14120450 CTTTATA-TTATTATA
1 CTTTTTATTTATTATA
14120465 -TTTTTATTTAT
1 CTTTTTATTTAT
14120476 AATTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 12 0.52
16 6 0.26
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (16 bp):
CTTTTTATTTATTATA
Found at i:14120969 original size:27 final size:27
Alignment explanation
Indices: 14120939--14121018 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
14120929 CTTTTATCTA
*
14120939 ATAGATTGCCACAAAAACTTCCATTTC
1 ATAGATTGCCACAAAGACTTCCATTTC
*
14120966 ATAGATTGCCATAAAGACTTCCATTTC
1 ATAGATTGCCACAAAGACTTCCATTTC
* ** *
14120993 ATAAATTATCACAAAGGCTTCCATTT
1 ATAGATTGCCACAAAGACTTCCATTT
14121019 TCTAGCGTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.33
Consensus pattern (27 bp):
ATAGATTGCCACAAAGACTTCCATTTC
Found at i:14124961 original size:22 final size:22
Alignment explanation
Indices: 14124933--14124976 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14124923 TTCACAGGCA
*
14124933 AAAAATTGCTCCATTGGAATAG
1 AAAAATTCCTCCATTGGAATAG
14124955 AAAAATTCCTCCATTGGAATAG
1 AAAAATTCCTCCATTGGAATAG
14124977 TCATTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (22 bp):
AAAAATTCCTCCATTGGAATAG
Found at i:14143238 original size:42 final size:42
Alignment explanation
Indices: 14143191--14143278 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
14143181 GAAGCCTAAA
* * * *
14143191 GGTTGAACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAG
1 GGTTGAACAGAAACTCATAAGAGCTAAAAAAAAACCCATAAG
** * *
14143233 GGTTGAATGGAAACTCGTAAGATCTAAAAAAAAACCCATAAG
1 GGTTGAACAGAAACTCATAAGAGCTAAAAAAAAACCCATAAG
14143275 GGTT
1 GGTT
14143279 ACTAGAACTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (42 bp):
GGTTGAACAGAAACTCATAAGAGCTAAAAAAAAACCCATAAG
Found at i:14144445 original size:46 final size:46
Alignment explanation
Indices: 14144387--14144613 Score: 366
Period size: 46 Copynumber: 4.9 Consensus size: 46
14144377 TTTCTGTCAT
** * *
14144387 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACTTTTCATATCAG
*
14144433 GTTGCCATGGTATCTTTCAACCATGGTCTTACA-TATTTCATATCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACT-TTTCATATCAG
*
14144479 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACTTTTCATATCAG
*
14144525 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACTTTTCATATCAG
*
14144571 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACTTTTCATAT
14144614 TAGAGAGCAC
Statistics
Matches: 173, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
45 1 0.01
46 172 0.99
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACTTTTCATATCAG
Found at i:14144494 original size:92 final size:92
Alignment explanation
Indices: 14144339--14144613 Score: 399
Period size: 92 Copynumber: 2.9 Consensus size: 92
14144329 TTTGACATGA
* * * *
14144339 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGTTGCCATGGTATCTT
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CA-T-A-TTTCATATCATGTTGCCATGGTATCTT
** * *
14144403 TCAACCATGGTCTTATTCTTTTCATGTCACGT
61 TCAACCATGGTCTTACACATTTCATATCACGT
14144435 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
14144500 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
* *
14144527 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
14144592 CATGGTCTTACACATTTCATAT
66 CATGGTCTTACACATTTCATAT
14144614 TAGAGAGCAC
Statistics
Matches: 167, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
91 4 0.02
92 134 0.80
93 1 0.01
94 2 0.01
96 26 0.16
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:14144591 original size:138 final size:140
Alignment explanation
Indices: 14144334--14144613 Score: 404
Period size: 138 Copynumber: 2.0 Consensus size: 140
14144324 TTATCTTTGA
* * * *
14144334 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTA
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTAC-CA-TCATTTTCTATCAGGTTGCCATGGTA
** * *
14144399 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
64 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
14144464 CATATTTCATAT
129 CACATTTCATAT
* *
14144476 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CA-CA-TTTCATATCAGGTTGCCATGGTAT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACCATCATTTTC-TATCAGGTTGCCATGGTAT
*
14144538 CTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTAC
65 CTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
14144603 ACATTTCATAT
130 ACATTTCATAT
14144614 TAGAGAGCAC
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
137 4 0.03
138 89 0.71
140 2 0.02
142 30 0.24
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (140 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACCATCATTTTCTATCAGGTTGCCATGGTATC
TTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTTCATAT
Found at i:14146776 original size:16 final size:17
Alignment explanation
Indices: 14146745--14146790 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
14146735 TCATCCTTTC
*
14146745 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
14146762 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
14146778 TTACTTTATATAT
1 TTTCTTTTTATAT
14146791 ATATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:14146779 original size:10 final size:10
Alignment explanation
Indices: 14146741--14146778 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
14146731 CGTTTCATCC
14146741 TTTCTTTCTT
1 TTTCTTTCTT
14146751 TTTCTATTCTT
1 TTTCT-TTCTT
14146762 TTTCTTT-TT
1 TTTCTTTCTT
14146771 ATTTCTTT
1 -TTTCTTT
14146779 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:14150339 original size:21 final size:20
Alignment explanation
Indices: 14150313--14150352 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14150303 TTATTTTTAT
14150313 TTATATATAAGAAACATAAAA
1 TTATAT-TAAGAAACATAAAA
* *
14150334 TTATATTTAGAAATATAAA
1 TTATATTAAGAAACATAAA
14150353 CAACTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
TTATATTAAGAAACATAAAA
Found at i:14150815 original size:15 final size:15
Alignment explanation
Indices: 14150795--14150825 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14150785 AAAACATTTT
14150795 ATATTGTTGATCTAG
1 ATATTGTTGATCTAG
14150810 ATATTGTTGATCTAG
1 ATATTGTTGATCTAG
14150825 A
1 A
14150826 AAAAAAACTT
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:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (15 bp):
ATATTGTTGATCTAG
Found at i:14151592 original size:32 final size:32
Alignment explanation
Indices: 14151555--14151619 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
14151545 AATGCTTACC
14151555 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
14151587 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
14151619 A
1 A
14151620 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:14160024 original size:20 final size:20
Alignment explanation
Indices: 14159963--14160013 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
14159953 CTGCTTTCAC
*
14159963 TTGCTGACAAATCAAACATT
1 TTGCTAACAAATCAAACATT
14159983 TTGCTAACAAATCAAACATT
1 TTGCTAACAAATCAAACATT
14160003 TTGCT-ACAAAT
1 TTGCTAACAAAT
14160014 TCACAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (20 bp):
TTGCTAACAAATCAAACATT
Found at i:14164844 original size:21 final size:21
Alignment explanation
Indices: 14164764--14164872 Score: 74
Period size: 21 Copynumber: 5.2 Consensus size: 21
14164754 GCCCGAAGGC
* * *
14164764 TGAACAGAAGCTCATGAGAGC
1 TGAACAGAAACTCATAAGAGT
* * * *
14164785 TAAAAAGAAACCCATAAGGGT
1 TGAACAGAAACTCATAAGAGT
** *
14164806 TGAACAGATGCTCTTAAGAGT
1 TGAACAGAAACTCATAAGAGT
* *
14164827 TGAACAAAAACTCATAAGGGT
1 TGAACAGAAACTCATAAGAGT
* * * *
14164848 TAAACAGAAGCTCAAAAGAGC
1 TGAACAGAAACTCATAAGAGT
14164869 TGAA
1 TGAA
14164873 TGGAAACATA
Statistics
Matches: 62, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:14164867 original size:42 final size:43
Alignment explanation
Indices: 14164766--14164872 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 43
14164756 CCGAAGGCTG
* *
14164766 AACAGAAGCTCATGAGAGCT-AAAAAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAAAAAGAAACCCATAAGGGTTA
* * * * *
14164808 AACAGATGCTCTTAAGAGTTGAACAA-AAACTCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAAAAAGAAACCCATAAGGGTTA
*
14164850 AACAGAAGCTCAAAAGAGCTGAA
1 AACAGAAGCTCATAAGAGCTGAA
14164873 TGGAAACATA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 49 0.92
43 4 0.08
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (43 bp):
AACAGAAGCTCATAAGAGCTGAAAAAGAAACCCATAAGGGTTA
Found at i:14166513 original size:16 final size:16
Alignment explanation
Indices: 14166492--14166527 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
14166482 CTAAAAGACT
14166492 ATGGAAAGGAAATTTA
1 ATGGAAAGGAAATTTA
14166508 ATGG-AAGGAAATTTA
1 ATGGAAAGGAAATTTA
14166523 ATGGA
1 ATGGA
14166528 CTTAAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (16 bp):
ATGGAAAGGAAATTTA
Found at i:14174876 original size:46 final size:46
Alignment explanation
Indices: 14174792--14175010 Score: 171
Period size: 46 Copynumber: 4.7 Consensus size: 46
14174782 TATGGGAGCC
* *
14174792 AGTGTAAGACCGTGTCTGGGACATGGCATCGGCATTGAGACGAGAGGT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTTGAGACGA-AGGT
* * **
14174840 AGGGTAAGACATGTTTGGGACAT-GCATCGGCCTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGAGACG-AAGGT
* * *
14174886 AGTGTAAGACATGTCTAGGACAT-GCGTCGG-CTATGAGATGATA-GT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCT-TGAGACGA-AGGT
* * * *
14174931 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGA-TATGAGC
1 -AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTTGAGACGAAG-GT
* * *
14174978 AGTGTAAGACAATGTGTGGGATATGACATCGGC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGC
14175011 ACCTTACCCA
Statistics
Matches: 138, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
45 4 0.03
46 86 0.62
47 34 0.25
48 14 0.10
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGAGACGAAGGT
Found at i:14174953 original size:93 final size:93
Alignment explanation
Indices: 14174788--14175011 Score: 224
Period size: 93 Copynumber: 2.4 Consensus size: 93
14174778 ATATTATGGG
* *
14174788 AGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGCATTGAGACGAGAGGTAGGGTAAGACATG
1 AGCCAGTGTAAGA-CATGTCTAGGACATGGCATCGGCATTGAGACGAGAGGTAGGGTAAGACATG
* * *
14174853 TTTGGGACAT-GCATCGGCCTTGAGACGTA
65 TCTGGGACATGGCATC-GACTTGAGACATA
* * * *
14174882 AGCCAGTGTAAGACATGTCTAGGACAT-GCGTCGGC-TATGAGATGATA-GTCAGTGTAAGACCA
1 AGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCAT-TGAGACGAGAGGT-AGGGTAAGA-CA
* *
14174944 TGTCTGGGACATGGCATCGACTTGAGATATG
63 TGTCTGGGACATGGCATCGACTTGAGACATA
* * * *
14174975 AG-CAGTGTAAGACAATGTGTGGGATATGACATCGGCA
1 AGCCAGTGTAAGAC-ATGTCTAGGACATGGCATCGGCA
14175012 CCTTACCCAC
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
91 3 0.03
92 34 0.32
93 46 0.43
94 24 0.22
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCATTGAGACGAGAGGTAGGGTAAGACATGT
CTGGGACATGGCATCGACTTGAGACATA
Found at i:14176336 original size:132 final size:130
Alignment explanation
Indices: 14175801--14176450 Score: 493
Period size: 132 Copynumber: 4.9 Consensus size: 130
14175791 AGAAAATACA
* * * ** * * *
14175801 AGTGAAATTCTGAAGAGATATTCGATTATTTTGACCAAACGGGAAATTGCTACCTAGCACGATAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAG
* * * * * * * *** *
14175866 GGTACTATTCCCCGAACTGCCAAACATCGAACA-CTTCTTTCATTTTAAAGGGCTTTTAAAA-AA
66 GGCACGATT-CTCGAATTGCCAAACATCGAACATC-GCCTTCGTTTTAAA-AATTTTTAAAAGAC
14175929 AGTG
128 A-TG
* *** ** * * * * * * *
14175933 AATGAAATTCCCAAGGGACCTTCGATTGTTTAGACCAAATGAAAAAAGTGCAACCCAAAACGATA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAA-CAAGAAATTGCAACCCAACACGATA
* * * *
14175998 GGGCACGATTCTCAAATCGCCAAACATCGAACAT--CCTTTGTTTTGAAAAGTTTTTAATAA-AC
65 GGGCACGATTCTCGAATTGCCAAACATCGAACATCGCCTTCGTTTT-AAAAATTTTTAA-AAGAC
14176060 ATG
128 ATG
*** * * * * ** *
14176063 AGTGAAAACCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAG
* * * * * * *
14176128 GGCATGATTCTCGAATTGTCAAACGTCGAATATTGCCTTCGTTTTAAATGATTTTTAGAAGACAT
66 GGCACGATTCTCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAA-AATTTTTAAAAGACAT
14176193 G
130 G
* * * * * *
14176194 AGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAACCAAGAGATTGCAACCCAGCACGTTAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAG
* * * *
14176259 GGCACGATTCTGGGAATTGCCAAATATCGCACATCGCCTTCGTTTTAAAAATTTTTTAAAAGGCA
66 GGCACGATTCT-CGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAAA-TTTTTAAAAGACA
14176324 TG
129 TG
* * *
14176326 AGTGAAATTTTGAAGGGATATTCGATTATTTTGAGAAAACACGAAATTGCAACCCAACACGTTAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAG
* * * * * *
14176391 GGCACTATTCCGCGAATTGTCAAATATCGAATC-TCGTCTTCGTTTTAAAGGATTTTTAAA
66 GGCACGATT-CTCGAATTGCCAAACATCGAA-CATCGCCTTCGTTTTAAA-AATTTTTAAA
14176451 CGAATACTTA
Statistics
Matches: 409, Mismatches: 96, Indels: 26
0.77 0.18 0.05
Matches are distributed among these distances:
129 45 0.11
130 50 0.12
131 89 0.22
132 198 0.48
133 27 0.07
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (130 bp):
AGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAG
GGCACGATTCTCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAAATTTTTAAAAGACATG
Found at i:14179796 original size:132 final size:132
Alignment explanation
Indices: 14179555--14179805 Score: 364
Period size: 132 Copynumber: 1.9 Consensus size: 132
14179545 ATTTGCAATC
* * *
14179555 TTCAGCCTACTCCGCTGCAACTTTAGGGAGCTAGGTTGGTGGTGTAAATCTGCTTCACTGCAACT
1 TTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGTTGGTGGTGTAAATCTGCTTCACTGCAACT
* * **
14179620 TCAGGAAGACTAGATTCATCGTCTTTGATCTGTTACACTACAACTTTC-GGGAAAAAAGATCTAA
66 TCAGGAAGACAAGATTCAACGTCTTCAATCTGTTACACTACAAC-TTCAGGGAAAAAAGATCTAA
14179684 AAT
130 AAT
*
14179687 TTCAGCCTACTCCACTACAACTTTAGAGAGCTGGGTTGGTGGCT-TAAATCTGCTTCACTGCAAC
1 TTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGTTGGTGG-TGTAAATCTGCTTCACTGCAAC
* *
14179751 TTCAGGAAGCCAAGATTCAACGTCTTCAATCTGCTT-CACTGCAACTTCAGGGAAA
65 TTCAGGAAGACAAGATTCAACGTCTTCAATCTG-TTACACTACAACTTCAGGGAAA
14179806 CAGGATTTGT
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
131 3 0.03
132 100 0.94
133 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
TTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGTTGGTGGTGTAAATCTGCTTCACTGCAACT
TCAGGAAGACAAGATTCAACGTCTTCAATCTGTTACACTACAACTTCAGGGAAAAAAGATCTAAA
AT
Found at i:14191928 original size:132 final size:131
Alignment explanation
Indices: 14191411--14192052 Score: 434
Period size: 132 Copynumber: 4.9 Consensus size: 131
14191401 AAAATACGAG
** * * * * * *
14191411 TGAAATTCCGAAGAGATATTCGATTATTTTGACCAAACGAGAAATTGCTACCCAGCACGATAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGG
* * * * * * * * * ** * **
14191476 TACTATTCCCCGAACTGCCAAACATCGAA-CACTTCTTTCGTTTTAAAGGGCTTTTAAAAAATGT
66 CACGATTCCGCAAATTGCCAAATATCGAATCTC-GCCTTCGTTTTAAA-GATTTTTAAAAGACAT
14191540 GAA
129 GAA
*** * * * * * ** *
14191543 TGAAATTCCCAAGGGATCTTCGATT-GTTTAGGCCAAATGAAAAAAGCGCAACCCAACACGATAG
1 TGAAATTTTGAAGGGATATTCGATTATTTTAAG-CAAACG-AGAAATTGCAACCCAACACGTTAG
* * * *
14191607 GGCACGATT-CTCAAATCGCCAAACATCGAA-CAT--CCTTTGTTTTGAAA-AGTTTTTAATAA-
64 GGCACGATTCCGCAAATTGCCAAATATCGAATC-TCGCCTTCGTTTT-AAAGA-TTTTTAA-AAG
*
14191666 ACATGAG
125 ACATGAA
*** * * * * **
14191673 TGAAAACCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAAA-T-C-A--CAAC-CCATAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGG
* * * *** * * *
14191732 CATGATTCC-CGAATTGTCAAACGCCGAATATTGCCTTCGTTTTAAATGATTTTTAGAAGACATG
66 CACGATTCCGCAAATTGCCAAATATCGAATCTCGCCTTCGTTTTAAA-GATTTTTAAAAGACATG
14191796 AA
130 AA
* * * *
14191798 TGCAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAGATTGCAACCCAGCACGTTAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGG
* *
14191863 CACGATTCCGCAAATTGCCAAATATCGCA-CATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCAT
66 CACGATTCCGCAAATTGCCAAATATCGAATC-TCGCCTTCGTTTTAAAG-ATTTTTAAAAGACAT
*
14191927 GAG
129 GAA
* * *
14191930 TGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAGCCCAACACGTTAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGG
* * * *
14191995 CACTATTCCGCGAATTGTCAAATATCGAATCTCGTCTTCGTTTTAAAGGATTTTTAAA
66 CACGATTCCGCAAATTGCCAAATATCGAATCTCGCCTTCGTTTTAAA-GATTTTTAAA
14192053 TGAATACTTA
Statistics
Matches: 398, Mismatches: 87, Indels: 50
0.74 0.16 0.09
Matches are distributed among these distances:
123 28 0.07
124 10 0.03
125 55 0.14
126 3 0.01
127 2 0.01
128 1 0.00
129 4 0.01
130 45 0.11
131 27 0.07
132 195 0.49
133 28 0.07
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (131 bp):
TGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGG
CACGATTCCGCAAATTGCCAAATATCGAATCTCGCCTTCGTTTTAAAGATTTTTAAAAGACATGA
A
Found at i:14192979 original size:12 final size:12
Alignment explanation
Indices: 14192962--14192987 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14192952 AGCGTATTAG
14192962 TATATATGTATA
1 TATATATGTATA
14192974 TATATATGTATA
1 TATATATGTATA
14192986 TA
1 TA
14192988 AATTCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:14205788 original size:22 final size:22
Alignment explanation
Indices: 14205740--14205789 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
14205730 TCCAAGTTTG
* **
14205740 ATATTTTTTAAATATAGTATTT
1 ATATTTTTTAAATATAATACAT
* *
14205762 GTATTTTTTCAATATAATACAT
1 ATATTTTTTAAATATAATACAT
14205784 ATATTT
1 ATATTT
14205790 GATAAATGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (22 bp):
ATATTTTTTAAATATAATACAT
Found at i:14213313 original size:44 final size:44
Alignment explanation
Indices: 14213232--14213321 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
14213222 AACTGATGTA
* *
14213232 AAGTAGCAGTATGACACACATGGTGCCTCATCGACTCATA-GTCG
1 AAGTAACAGTATGACACACATAGTGCCTCATCGACTCA-AGGTCG
** * **
14213276 AAGTAACAGTATGACACTTATAGTGCCTTATTTACTCAAGGTCG
1 AAGTAACAGTATGACACACATAGTGCCTCATCGACTCAAGGTCG
14213320 AA
1 AA
14213322 ATATCCTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
AAGTAACAGTATGACACACATAGTGCCTCATCGACTCAAGGTCG
Found at i:14214513 original size:22 final size:22
Alignment explanation
Indices: 14214476--14214522 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 22
14214466 TCTGTTTCTT
*
14214476 TTTTATGCTTTATTTTGTTT-G
1 TTTTATGCTTTATTTTATTTAG
14214497 TTTTAT-CTTTTATTTTTATTTAG
1 TTTTATGC-TTTA-TTTTATTTAG
14214520 TTT
1 TTT
14214523 ATTATATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 1 0.05
21 10 0.45
22 7 0.32
23 4 0.18
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTATGCTTTATTTTATTTAG
Found at i:14214720 original size:18 final size:19
Alignment explanation
Indices: 14214697--14214746 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
14214687 CAATTAAATA
14214697 ATAATAATAAATAT-TATT
1 ATAATAATAAATATCTATT
14214715 ATAATAATAAATATCTATT
1 ATAATAATAAATATCTATT
*
14214734 -TAATAACAAATAT
1 ATAATAATAAATAT
14214747 AAATATTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAATAAATATCTATT
Found at i:14214739 original size:42 final size:43
Alignment explanation
Indices: 14214673--14214754 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 43
14214663 TTCGCTGATC
*
14214673 TAATAATATAATATCAATTAAATAA-TAATAATAAATATTATTA
1 TAATAATATAATATCAATTAAATAACAAAT-ATAAATATTATTA
* *
14214716 TAATAATA-AATATCTATTTAATAACAAATATAAATATTA
1 TAATAATATAATATCAATTAAATAACAAATATAAATATTA
14214755 CAAATGTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 24 0.69
43 11 0.31
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (43 bp):
TAATAATATAATATCAATTAAATAACAAATATAAATATTATTA
Found at i:14214884 original size:33 final size:32
Alignment explanation
Indices: 14214832--14214903 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
14214822 TATTTATCAT
14214832 ATAAAA-ATCTTTTACTAATTA-ATAATAAATA
1 ATAAAATATCTTTTACTAATTATAT-ATAAATA
*
14214863 ATAAAATATCTTTTTATTAATTATATATAAATA
1 ATAAAATATC-TTTTACTAATTATATATAAATA
14214896 ATACAAAT
1 ATA-AAAT
14214904 GTACTCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 3 0.08
33 21 0.58
34 6 0.17
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (32 bp):
ATAAAATATCTTTTACTAATTATATATAAATA
Found at i:14220824 original size:21 final size:21
Alignment explanation
Indices: 14220765--14220829 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
14220755 CAGAAGCAGT
*
14220765 ATACGACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCT-A
** *
14220787 AT-CGACACACGTGGTGCCTA
1 ATACGACACATATAGTGCCTA
*
14220807 ATACAACACATATAGTGCCTA
1 ATACGACACATATAGTGCCTA
14220828 AT
1 AT
14220830 CAGCAAAGCT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 3 0.09
21 29 0.85
22 2 0.06
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTA
Found at i:14230467 original size:52 final size:52
Alignment explanation
Indices: 14230406--14230509 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
14230396 CTGATAAGTT
* * *
14230406 AGCTTCACAATGTGTGCAAGATAAGTTTTGTAATTTTCTATGTAATTAGTGG
1 AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
14230458 AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
1 AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
14230510 GAGTAGTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (52 bp):
AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
Found at i:14231224 original size:48 final size:48
Alignment explanation
Indices: 14231153--14231248 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
14231143 ATGGGAGAAG
*
14231153 GGGTTTCAATTTGGTTACTACCTATTTCTATGTGGGTCAAACTCAATA
1 GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
14231201 GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
1 GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
14231249 CAAATGGTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (48 bp):
GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
Found at i:14231825 original size:3 final size:3
Alignment explanation
Indices: 14231817--14231849 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
14231807 AACCAAAGCC
14231817 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14231850 ATGACAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:14233631 original size:3 final size:3
Alignment explanation
Indices: 14233625--14233659 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14233615 TTATAGCCAT
*
14233625 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14233660 GGCATATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:14236282 original size:131 final size:131
Alignment explanation
Indices: 14235998--14236502 Score: 362
Period size: 131 Copynumber: 3.8 Consensus size: 131
14235988 TAGAAAATAC
* * * * *
14235998 GAGTGAAATTCCGAAGGGATCTTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATA
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* *
14236063 GGGCACGATTCTCAAATTTCCAAACATCGAACATCGCCTTCGTTTTGAAAGGTTTTTAATAAACA
66 GGGCACGATTCTCAAATTTCCAAACACCGAACATCGCCTTCGTTTTGAAAGGTCTTTAATAAACA
14236128 T
131 T
** * * *
14236129 GAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATA
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* * * ** *
14236194 GGGCATGATTC-CTGAATTGT-CAAACCCCGAGTATTGCCTTCGTTTT-AAAGGATCTTTAA-AA
66 GGGCACGATTCTC-AAATT-TCCAAACACCGAACATCGCCTTCGTTTTGAAAGG-TCTTTAATAA
*
14236255 GATAT
128 -ACAT
* * * * * * *
14236260 GAGTGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAGACGAGAAATTGCAACCTAGCACGTT
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAA-CAAACGAGAAATCGCAACCCAGCACGAT
* * * * * ** * * * *
14236324 AGGGTACGATTTCGCGAATTGCCAAATATAGCATATCGCCTTCG-TTT-AAGGGATTTTTAA-AG
65 AGGGCACGA-TTCTCAAATTTCCAAACACCGAACATCGCCTTCGTTTTGAAAGG-TCTTTAATA-
*
14236386 GACAT
127 AACAT
* * * ** ** ** * * *
14236391 AAGTAAAATTCTAAAGGGACCTTCGATTACTTTGAGTAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* ** * *
14236456 GGGCACGATTC-CACGAATTACCAAGGATCGAATATCGCCTTCGTTTT
66 GGGCACGATTCTCA--AATTTCCAAACACCGAACATCGCCTTCGTTTT
14236503 AAGGAATTCC
Statistics
Matches: 296, Mismatches: 65, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
129 1 0.00
130 13 0.04
131 253 0.85
132 28 0.09
133 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
GGGCACGATTCTCAAATTTCCAAACACCGAACATCGCCTTCGTTTTGAAAGGTCTTTAATAAACA
T
Found at i:14240744 original size:32 final size:34
Alignment explanation
Indices: 14240698--14240762 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
14240688 TAACAGTGGT
*
14240698 ACTGGGCCAGAG-CCCTT-TTCAAATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAAATAACAATAA
** *
14240730 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAAATAACAATA
14240763 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 10 0.37
33 5 0.19
34 12 0.44
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAAATAACAATAA
Found at i:14244274 original size:27 final size:26
Alignment explanation
Indices: 14244244--14244420 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
14244234 AAATTGTACA
*
14244244 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
14244271 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
14244298 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
14244325 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
14244353 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * * *
14244380 GCACTAAGTGTGCAAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
14244407 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
14244421 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.78
28 26 0.21
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:14244411 original size:82 final size:81
Alignment explanation
Indices: 14244240--14244420 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
14244230 GATTAAATTG
* * *
14244240 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
14244305 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
14244321 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
14244385 AAGTGTGC-AAGTTGATTA
64 AAGTGTGCGAA-TTGACCA
* *
14244403 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
14244421 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 22 0.27
82 61 0.73
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:14245881 original size:26 final size:26
Alignment explanation
Indices: 14245845--14245928 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14245835 CATGAAATTC
14245845 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14245871 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14245897 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14245923 TTATCA
1 TTATCA
14245929 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14249504 original size:20 final size:20
Alignment explanation
Indices: 14249479--14249525 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
14249469 AGGATGACAT
14249479 AAATCTACTGAATTAGAGTC
1 AAATCTACTGAATTAGAGTC
14249499 AAATCTACTGAATTAGAGTC
1 AAATCTACTGAATTAGAGTC
14249519 AAATCTA
1 AAATCTA
14249526 ATAAGGGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (20 bp):
AAATCTACTGAATTAGAGTC
Found at i:14253475 original size:32 final size:32
Alignment explanation
Indices: 14253437--14253497 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
14253427 TTATTATTCT
14253437 TATACTTATATT-TTTTATATTTTAATTTTTTA
1 TATACTTATATTATTTT-TATTTTAATTTTTTA
* * *
14253469 TATACTTTTGTTATTTTTATTTTTATTTT
1 TATACTTATATTATTTTTATTTTAATTTT
14253498 GCTATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (32 bp):
TATACTTATATTATTTTTATTTTAATTTTTTA
Found at i:14253497 original size:5 final size:6
Alignment explanation
Indices: 14253479--14253512 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
14253469 TATACTTTTG
14253479 TTATTT TTATTT TTATTT TGCTATTT TTATTT TT
1 TTATTT TTATTT TTATTT T--TATTT TTATTT TT
14253513 TTCTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:14253497 original size:20 final size:20
Alignment explanation
Indices: 14253474--14253512 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14253464 TTTTATATAC
*
14253474 TTTTGTTATTTTTATTTTTA
1 TTTTGCTATTTTTATTTTTA
14253494 TTTTGCTATTTTTATTTTT
1 TTTTGCTATTTTTATTTTT
14253513 TTCTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTGCTATTTTTATTTTTA
Found at i:14253539 original size:17 final size:17
Alignment explanation
Indices: 14253480--14253539 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
14253470 ATACTTTTGT
*
14253480 TATTTTTATTTTTATTTTG
1 TATTTTTA-TTTT-TTTCG
*
14253499 CTATTTTTATTTTTTTCT
1 -TATTTTTATTTTTTTCG
*
14253517 TCTTTTT-TTTTCTTTCG
1 TATTTTTATTTT-TTTCG
14253534 TATTTT
1 TATTTT
14253540 ATTATTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
16 4 0.12
17 15 0.44
18 3 0.09
19 4 0.12
20 8 0.24
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.78
Consensus pattern (17 bp):
TATTTTTATTTTTTTCG
Found at i:14253627 original size:20 final size:21
Alignment explanation
Indices: 14253602--14253645 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
14253592 TTTATTATTG
*
14253602 TTTTTTATTTTTATTTTT-AT
1 TTTTTTATCTTTATTTTTAAT
*
14253622 TTTTTTATCTTTCTTTTTAAT
1 TTTTTTATCTTTATTTTTAAT
14253643 TTT
1 TTT
14253646 GTTTTAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTATCTTTATTTTTAAT
Found at i:14268769 original size:25 final size:25
Alignment explanation
Indices: 14268735--14268783 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14268725 TTTAATTAAT
*
14268735 ACAAGACTTTGGACTGTTCTAAGAC
1 ACAAGACTTTGGACTGTTCCAAGAC
*
14268760 ACAAGACTTTGGATTGTTCCAAGA
1 ACAAGACTTTGGACTGTTCCAAGA
14268784 TGGTCTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (25 bp):
ACAAGACTTTGGACTGTTCCAAGAC
Found at i:14298154 original size:17 final size:18
Alignment explanation
Indices: 14298134--14298173 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14298124 ATATATAAAA
*
14298134 TAAAAATA-TAATAACAT
1 TAAAAATACTAAAAACAT
*
14298151 TAAAAATACTAAAAATAT
1 TAAAAATACTAAAAACAT
14298169 TAAAA
1 TAAAA
14298174 TAAATGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAATACTAAAAACAT
Found at i:14298296 original size:16 final size:18
Alignment explanation
Indices: 14298275--14298308 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
14298265 CTAAAATAGT
14298275 AACAAAA-TTA-ACAATA
1 AACAAAAGTTATACAATA
14298291 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
14298309 TCCAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.21
Consensus pattern (18 bp):
AACAAAAGTTATACAATA
Found at i:14304380 original size:47 final size:47
Alignment explanation
Indices: 14304270--14304381 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
14304260 CTCCGGGATA
* * *
14304270 ACACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGT
1 ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGT
* * *
14304317 ACACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-
1 ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGT
14304364 ACACATAGTG-TCTCATCG
1 ACACATAGTGCT-TCATCG
14304382 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGT
Found at i:14307748 original size:21 final size:20
Alignment explanation
Indices: 14307724--14307766 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14307714 AGCTGAACGT
14307724 AAACCCAT-TAGGGTTAAACTG
1 AAACCCATATA-GGTT-AACTG
*
14307745 AAACTCATATAGGTTAACTG
1 AAACCCATATAGGTTAACTG
14307765 AA
1 AA
14307767 GCTCATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 11 0.55
22 2 0.10
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
AAACCCATATAGGTTAACTG
Found at i:14310405 original size:18 final size:18
Alignment explanation
Indices: 14310365--14310420 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
14310355 AAATTACAAA
*
14310365 AAAAATCAAAATAATTT-T
1 AAAATTCAAAAT-ATTTAT
14310383 CAAAATTCAAAATATTTAT
1 -AAAATTCAAAATATTTAT
*
14310402 AAAATATCCAAA-ATTTAT
1 AAAAT-TCAAAATATTTAT
14310420 A
1 A
14310421 CTTTTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:14311166 original size:20 final size:22
Alignment explanation
Indices: 14311141--14311189 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
14311131 TTAAAAAATC
14311141 TTAAAAATAAATA-TAAAT-TA
1 TTAAAAATAAATATTAAATATA
*
14311161 TTAAAAA-ATATATTAAATATA
1 TTAAAAATAAATATTAAATATA
14311182 TTAAAAAT
1 TTAAAAAT
14311190 TATGTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAAATAAATATTAAATATA
Found at i:14311167 original size:21 final size:21
Alignment explanation
Indices: 14311143--14311188 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14311133 AAAAAATCTT
14311143 AAAAATAAATATAAAT-TATTA
1 AAAAATAAAT-TAAATATATTA
*
14311164 AAAAATATATTAAATATATTA
1 AAAAATAAATTAAATATATTA
14311185 AAAA
1 AAAA
14311189 TTATGTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATAAATTAAATATATTA
Found at i:14314928 original size:40 final size:40
Alignment explanation
Indices: 14314873--14314950 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
14314863 TGGAAAAAAA
*
14314873 TATAACCGGGTTAAGTCCCGAAGGTATTTGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTAT
*
14314913 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTT
14314951 GTTACATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTAT
Found at i:14320219 original size:15 final size:15
Alignment explanation
Indices: 14320199--14320232 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14320189 ATTGAAAATT
14320199 AAATATAGAGTTAAA
1 AAATATAGAGTTAAA
**
14320214 AAATATAGTTTTAAA
1 AAATATAGAGTTAAA
14320229 AAAT
1 AAAT
14320233 TTAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
AAATATAGAGTTAAA
Found at i:14320369 original size:3 final size:3
Alignment explanation
Indices: 14320361--14320389 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14320351 AGATTAAGAG
14320361 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14320390 GTTTTCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14321822 original size:48 final size:46
Alignment explanation
Indices: 14321721--14321828 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 46
14321711 TCACTTGTGT
* * * *
14321721 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACATATGACGA
14321767 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACAT-TGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACATAT--GACGA
14321815 GAGCTAGTGTAAGA
1 GAGCTAGTGTAAGA
14321829 GCTAGTGTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
46 15 0.28
47 18 0.33
48 21 0.39
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACATATGACGA
Found at i:14321831 original size:12 final size:12
Alignment explanation
Indices: 14321814--14321840 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14321804 CATTGAGACG
14321814 AGAGCTAGTGTA
1 AGAGCTAGTGTA
14321826 AGAGCTAGTGTA
1 AGAGCTAGTGTA
14321838 AGA
1 AGA
14321841 CATGTCTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
AGAGCTAGTGTA
Found at i:14321952 original size:46 final size:45
Alignment explanation
Indices: 14321832--14321954 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 45
14321822 TGTAAGAGCT
**
14321832 AGTGTAAGACATGTCTGGGACATGCATTAGCTTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGT-AGCC
*
14321878 AGTGTAAGACATGTCTGGGACATGCATCGGCTGT-GAGATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-TCGAGATGTAGCC
*
14321922 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
14321955 ACCCTACCCC
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
44 10 0.14
45 14 0.20
46 45 0.64
47 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGTAGCC
Found at i:14328056 original size:21 final size:20
Alignment explanation
Indices: 14328019--14328057 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14328009 CCCATGTTGC
*
14328019 CCCATTTTCTCTATTTTTGG
1 CCCATTTTCGCTATTTTTGG
*
14328039 CCCATTTCTCGCTCTTTTT
1 CCCATTT-TCGCTATTTTT
14328058 ACTCTCCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.08, C:0.31, G:0.08, T:0.54
Consensus pattern (20 bp):
CCCATTTTCGCTATTTTTGG
Found at i:14330342 original size:42 final size:42
Alignment explanation
Indices: 14330294--14330378 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
14330284 ATTTTTATTA
*
14330294 CTTAATTTATTATATTTAGTCCGACAAGATTTTTGTTTAAAT
1 CTTAATTTATTATAGTTAGTCCGACAAGATTTTTGTTTAAAT
* *
14330336 CTTAATTTATTATAGTTAGTTCGATAAGATTTTTGTTTAAAT
1 CTTAATTTATTATAGTTAGTCCGACAAGATTTTTGTTTAAAT
14330378 C
1 C
14330379 GTCGAACTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.51
Consensus pattern (42 bp):
CTTAATTTATTATAGTTAGTCCGACAAGATTTTTGTTTAAAT
Found at i:14349513 original size:32 final size:32
Alignment explanation
Indices: 14349409--14349515 Score: 108
Period size: 33 Copynumber: 3.3 Consensus size: 32
14349399 GGTGTACATT
* **
14349409 CCTTTCCAAGTGGTACACACAAAGTATACATTT
1 CCTTTTCAA-TGGTACACACAAAGTATACATAA
* *
14349442 CCTTTTCATATGGTATACACAAAGTATACCTAA
1 CCTTTTCA-ATGGTACACACAAAGTATACATAA
* * *
14349475 CATTTTCAACT-GTACACACAAGGTGTACATAA
1 CCTTTTCAA-TGGTACACACAAAGTATACATAA
14349507 CCTTTTCAA
1 CCTTTTCAA
14349516 ATTGTACCAT
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
32 26 0.43
33 34 0.56
34 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (32 bp):
CCTTTTCAATGGTACACACAAAGTATACATAA
Found at i:14350934 original size:22 final size:22
Alignment explanation
Indices: 14350903--14350944 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14350893 ACTATCATTT
14350903 TCTAAATAAAATAATAATAATA
1 TCTAAATAAAATAATAATAATA
* *
14350925 TCTAAGTAAAATATTAATAA
1 TCTAAATAAAATAATAATAA
14350945 AATAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
TCTAAATAAAATAATAATAATA
Found at i:14352470 original size:43 final size:43
Alignment explanation
Indices: 14352409--14352628 Score: 293
Period size: 43 Copynumber: 5.1 Consensus size: 43
14352399 ATGTGATTTC
* *
14352409 GATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCGTT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
* * *
14352452 GATATGTGATTACGTGTAAGACCACGTCTGGGACATTGACATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
* * *
14352495 GATATGTGATTACATGTAAGACCACGTCTAGGATGTTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
* * *
14352538 GATACGTGATTACGTGTAAGACC-CTGTCTGGAACAG-TGGCATC
1 GATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATT
*
14352581 GATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
14352624 G-TATG
1 GATATG
14352629 ATATGTGTGA
Statistics
Matches: 152, Mismatches: 21, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
42 6 0.04
43 144 0.95
44 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
Found at i:14352552 original size:86 final size:86
Alignment explanation
Indices: 14352407--14352624 Score: 339
Period size: 86 Copynumber: 2.5 Consensus size: 86
14352397 ATATGTGATT
* * * *
14352407 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCGTTGATATGTGATTACGTGTAAG
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTGATACGTGATTACGTGTAAG
* *
14352472 ACCAC-GTCTGGGACATTGACA
66 ACC-CTGTCTGGAACAGTGACA
* *
14352493 TCGATATGTGATTACATGTAAGACCACGTCTAGGATGTTGGCATTGATACGTGATTACGTGTAAG
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTGATACGTGATTACGTGTAAG
*
14352558 ACCCTGTCTGGAACAGTGGCA
66 ACCCTGTCTGGAACAGTGACA
14352579 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
14352625 TATGATATGT
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 1 0.01
86 119 0.99
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTGATACGTGATTACGTGTAAG
ACCCTGTCTGGAACAGTGACA
Found at i:14353810 original size:10 final size:10
Alignment explanation
Indices: 14353797--14353835 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
14353787 ATATGTGAAT
14353797 ATATCATGGC
1 ATATCATGGC
14353807 ATATCATGTGC
1 ATATCATG-GC
*
14353818 ATATCATGGT
1 ATATCATGGC
14353828 ATATCATG
1 ATATCATG
14353836 TACAAAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:14353823 original size:21 final size:21
Alignment explanation
Indices: 14353797--14353836 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14353787 ATATGTGAAT
14353797 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
14353818 ATATCATGGTATATCATGT
1 ATATCATGGCATATCATGT
14353837 ACAAAAGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:14353902 original size:25 final size:25
Alignment explanation
Indices: 14353874--14353924 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
14353864 ATAACATAAC
* * *
14353874 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
14353899 CCTAGGGGCAAAAAGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
14353924 C
1 C
14353925 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:14361582 original size:10 final size:10
Alignment explanation
Indices: 14361567--14361605 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
14361557 CATATGTGAT
14361567 ATATCATGGC
1 ATATCATGGC
14361577 ATATCATGTGC
1 ATATCATG-GC
14361588 ATATCATGGC
1 ATATCATGGC
14361598 ATATCATG
1 ATATCATG
14361606 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:14361592 original size:21 final size:21
Alignment explanation
Indices: 14361567--14361606 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14361557 CATATGTGAT
14361567 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
14361588 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
14361607 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:14361691 original size:24 final size:25
Alignment explanation
Indices: 14361646--14361695 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
14361636 ATAACATAAC
* *
14361646 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCATAAAGGTCATTTTCA
14361671 CCTAGGGGCA-AAAGGTCATTTTCA
1 CCTAGGGGCATAAAGGTCATTTTCA
14361695 C
1 C
14361696 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
CCTAGGGGCATAAAGGTCATTTTCA
Found at i:14375004 original size:24 final size:25
Alignment explanation
Indices: 14374977--14375028 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
14374967 GCCTAGCCTC
*
14374977 TTTTAAT-AACTC-GGGCAAAGCCCT
1 TTTTAATAAAC-CGGGGCAAAACCCT
*
14375001 TTTTAGTAAACCGGGGCAAAACCCT
1 TTTTAATAAACCGGGGCAAAACCCT
14375026 TTT
1 TTT
14375029 AGCACTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACCGGGGCAAAACCCT
Found at i:14375088 original size:10 final size:10
Alignment explanation
Indices: 14375075--14375113 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
14375065 ATATGTGAAT
14375075 ATATCATGGC
1 ATATCATGGC
14375085 ATATCATGTGC
1 ATATCATG-GC
14375096 ATATCATGGC
1 ATATCATGGC
14375106 ATATCATG
1 ATATCATG
14375114 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:14375101 original size:21 final size:21
Alignment explanation
Indices: 14375075--14375114 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14375065 ATATGTGAAT
14375075 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
14375096 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
14375115 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:14375199 original size:24 final size:25
Alignment explanation
Indices: 14375154--14375203 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
14375144 ATAACATAAC
* *
14375154 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCATAAAGGTCATTTTCA
14375179 CCTAGGGGCA-AAAGGTCATTTTCA
1 CCTAGGGGCATAAAGGTCATTTTCA
14375203 C
1 C
14375204 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
CCTAGGGGCATAAAGGTCATTTTCA
Found at i:14377577 original size:33 final size:33
Alignment explanation
Indices: 14377535--14377601 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
14377525 TATATAAGTA
14377535 TACATATATGTGAATCTTGTTTGATATGCTTTG
1 TACATATATGTGAATCTTGTTTGATATGCTTTG
14377568 TACATATATGTGAATCTTGTTTGATATGCTTTG
1 TACATATATGTGAATCTTGTTTGATATGCTTTG
14377601 T
1 T
14377602 TAAGGTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.49
Consensus pattern (33 bp):
TACATATATGTGAATCTTGTTTGATATGCTTTG
Found at i:14380320 original size:6 final size:6
Alignment explanation
Indices: 14380309--14380343 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
14380299 AGGTTTCCAA
*
14380309 AAATGG AAATGG AAAATGA AAATGG AAATGG AAAT
1 AAATGG AAATGG -AAATGG AAATGG AAATGG AAAT
14380344 TTACAATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:14380326 original size:13 final size:13
Alignment explanation
Indices: 14380308--14380343 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14380298 TAGGTTTCCA
14380308 AAAATGGAAATGG
1 AAAATGGAAATGG
*
14380321 AAAATGAAAATGG
1 AAAATGGAAATGG
14380334 -AAATGGAAAT
1 AAAATGGAAAT
14380344 TTACAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (13 bp):
AAAATGGAAATGG
Found at i:14382438 original size:30 final size:30
Alignment explanation
Indices: 14382338--14382440 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
14382328 GTTATTTATA
* **
14382338 TATAATATATATGGGTTTTGGTGTTATA--
1 TATAATATATTTGGGTCATGGTGTTATATG
* **
14382366 TATAATATATGTACGTGCATGGGTGTTATATG
1 TATAATATATTTGGGT-CAT-GGTGTTATATG
*
14382398 AATAATATATTTGGGTCATGGTGTTATATG
1 TATAATATATTTGGGTCATGGTGTTATATG
14382428 TATAATATATTTG
1 TATAATATATTTG
14382441 CGTGGGTCTG
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 13 0.21
29 1 0.02
30 32 0.52
31 3 0.05
32 12 0.20
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (30 bp):
TATAATATATTTGGGTCATGGTGTTATATG
Found at i:14384965 original size:17 final size:18
Alignment explanation
Indices: 14384932--14384965 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14384922 ATGTGACATG
*
14384932 CCCGTGTGGGCCTACACC
1 CCCGTGTGGGCCCACACC
14384950 CCCGTGT-GGCCCACAC
1 CCCGTGTGGGCCCACAC
14384966 GACCCAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.47, G:0.26, T:0.15
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACC
Found at i:14392582 original size:6 final size:6
Alignment explanation
Indices: 14392555--14392592 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
14392545 GATATGAAAC
* *
14392555 AAATAA ATATAA AAA-AA GAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
14392593 ATTTACCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:14394172 original size:26 final size:25
Alignment explanation
Indices: 14394129--14394183 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
14394119 TATGCTACAT
*
14394129 TTTTACATATTATCTTATGTA-TATA
1 TTTTACATATTATATTATGTACT-TA
*
14394154 TTTTATATATATATATTATGTACTTA
1 TTTTACATAT-TATATTATGTACTTA
14394180 TTTT
1 TTTT
14394184 TAGTGTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 16 0.62
27 1 0.04
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTACATATTATATTATGTACTTA
Found at i:14407622 original size:47 final size:47
Alignment explanation
Indices: 14407548--14407912 Score: 255
Period size: 48 Copynumber: 7.7 Consensus size: 47
14407538 AAGGTATAAT
* * *
14407548 GTTGATGCCATGTCTCGGACATAGTCTTACACTGGCTCATC-TATCAA
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATCAA
* * * * *
14407595 GTTGATGTCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAG
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATATC-AA
** * * *
14407644 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-C
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATATCAA
* * * * * * *
14407692 GTGCTGATGTCATATCCCAGACATGGTCTAATACTGACACCTC-TAT-AC
1 GT--TGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATCAA
* * *
14407740 GTTCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTAT--A
1 GTT--GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATCAA
* * * *
14407788 GTTGATG-CATGTCCCAGACAT-GTTTTACACTAGCTCTCGTCTCAA
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAA
** ***
14407833 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 -GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCAA
14407882 GTTGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTTGATGCCATGTCCCAGACATGGTCTTACACT
14407913 AGCACACAAA
Statistics
Matches: 249, Mismatches: 50, Indels: 39
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.02
44 11 0.04
45 15 0.06
46 22 0.09
47 61 0.24
48 65 0.26
49 38 0.15
50 30 0.12
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAA
Found at i:14407728 original size:99 final size:97
Alignment explanation
Indices: 14407597--14407774 Score: 241
Period size: 99 Copynumber: 1.8 Consensus size: 97
14407587 TCTATCAAGT
* *
14407597 TGATGTCATGTCCCAGACATGGTCTTACACTGACTA-TCGAAATCGAGGCCGACGCCATGTCCCA
1 TGATGTCATATCCCAGACATGGTCTAACACTGAC-ACTCGAAA-CG-GGCCGACGCCATGTCCCA
14407661 GACATGGTCTTACACTAGCTCTCACATATCCGTGC
63 GACATGGTCTTACACTAGCTCTCACATATCCGTGC
* * * ** *
14407696 TGATGTCATATCCCAGACATGGTCTAATACTGACACCTCTATACGTTCCGATGCCATGTCCCAGA
1 TGATGTCATATCCCAGACATGGTCTAACACTGACA-CTCGAAACGGGCCGACGCCATGTCCCAGA
14407761 CATGGTCTTACACT
65 CATGGTCTTACACT
14407775 GACACATCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 32 0.46
99 33 0.48
100 4 0.06
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (97 bp):
TGATGTCATATCCCAGACATGGTCTAACACTGACACTCGAAACGGGCCGACGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCACATATCCGTGC
Found at i:14407866 original size:92 final size:93
Alignment explanation
Indices: 14407551--14407915 Score: 282
Period size: 92 Copynumber: 3.8 Consensus size: 93
14407541 GTATAATGTT
* * * * *
14407551 GATGCCATGTCTCGGACATAGTCTTACACTG--GCTCATCTATCAAGTTGATGTCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATAT--AGTTGATG-CATGTCCCAGA
* ** * *
14407614 CATGGTCTTACACT-GACTATCGAAATCGAGGCC
63 CAT-GTCTTACACTAG-CTCTCG-TCTCAATGCC
* * * * *
14407647 GACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCGTGCTGATGTCATATCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCATATAT-AGT--TGATG-CATGTCCCA
* * * *
14407711 GACATGGTCTAATACT-GACAC-C-TCT-ATACGTTCC
61 GACAT-GTCTTACACTAG-CTCTCGTCTCA-A--TGCC
14407745 GATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T-TATAGTTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCATATATAGTTGATGCATGTCCCAGACA
*
14407808 TGTTTTACACTAGCTCTCGTCTCAATGCC
65 TGTCTTACACTAGCTCTCGTCTCAATGCC
* * * *
14407837 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACTCAT-ATATAGTTGATGCATGTCCCAGACA
14407902 TGTCTTACACTAGC
65 TGTCTTACACTAGC
14407916 ACACAAATGA
Statistics
Matches: 218, Mismatches: 34, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
91 2 0.01
92 46 0.21
93 15 0.07
94 44 0.20
95 1 0.00
96 30 0.14
97 5 0.02
98 41 0.19
99 34 0.16
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATATAGTTGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGCC
Found at i:14407872 original size:48 final size:47
Alignment explanation
Indices: 14407551--14407912 Score: 224
Period size: 47 Copynumber: 7.6 Consensus size: 47
14407541 GTATAATGTT
* * * **
14407551 GATGCCATGTCTCGGACATAGTCTTACACTGGCTCATCTATCAA-GTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTATCAATGCC
* * * * * *
14407598 GATGTCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--TATCAATGCC
* * ** *
14407647 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--C-TATCAATGCC
* * * * * * * *
14407697 GATGTCATATCCCAGACATGGTCTAATACTGACACCTCTAT-ACGTTCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCTATCA-ATGCC
* * **
14407745 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-T--ATAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTATCAAT-GCC
* * *
14407791 GATG-CATGTCCCAGACAT-GTTTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TATCAATGCC
**
14407837 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AATGTGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTATCAA--T-GCC
14407885 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
14407913 AGCACACAAA
Statistics
Matches: 246, Mismatches: 51, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 18 0.07
46 22 0.09
47 62 0.25
48 62 0.25
49 33 0.13
50 32 0.13
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTATCAATGCC
Found at i:14409313 original size:20 final size:20
Alignment explanation
Indices: 14409276--14409313 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14409266 TGATGGGGAG
*
14409276 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
14409296 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
14409314 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:14411259 original size:46 final size:46
Alignment explanation
Indices: 14411207--14411469 Score: 420
Period size: 46 Copynumber: 5.7 Consensus size: 46
14411197 GTGTGCTCTT
14411207 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
14411253 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
14411299 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
14411345 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*** * *
14411391 TGATATGAAATGAACAAGACCATAGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
14411437 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGA
14411470 CACTATGGAA
Statistics
Matches: 205, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 204 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:14415732 original size:41 final size:41
Alignment explanation
Indices: 14415687--14415767 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
14415677 AAACATTCTT
14415687 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGAA
1 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGAA
14415728 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGA
1 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGA
14415768 CTATTTGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.44
Consensus pattern (41 bp):
GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGAA
Found at i:14433040 original size:26 final size:26
Alignment explanation
Indices: 14433008--14433059 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14432998 TTTTAATCCT
14433008 TTAAATTCATGTTTTAATGCTTAATA
1 TTAAATTCATGTTTTAATGCTTAATA
14433034 TTAAATTCATGTTTTAATGCTTAATA
1 TTAAATTCATGTTTTAATGCTTAATA
14433060 GAGCACTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (26 bp):
TTAAATTCATGTTTTAATGCTTAATA
Found at i:14433863 original size:60 final size:59
Alignment explanation
Indices: 14433783--14433914 Score: 185
Period size: 60 Copynumber: 2.2 Consensus size: 59
14433773 TTAATAGGGG
* * **
14433783 AATCCATAGCATGAGTTAATGTGATAATAG-GAGTTTTATTTAGTGATAAATTTCAAATGA
1 AATCCATAGCATGAGTTAATGTGACAATAGTG-GTTTTAATTAGAAATAAATTTCAAAT-A
*
14433843 AATCCATAGCATTAGTTAATGTGACAATAGTGGTTTTAATTAGAAATAAATTTCAAATA
1 AATCCATAGCATGAGTTAATGTGACAATAGTGGTTTTAATTAGAAATAAATTTCAAATA
*
14433902 AATCTATAGCATG
1 AATCCATAGCATG
14433915 CAATCCACAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
59 12 0.19
60 51 0.80
61 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (59 bp):
AATCCATAGCATGAGTTAATGTGACAATAGTGGTTTTAATTAGAAATAAATTTCAAATA
Found at i:14447849 original size:14 final size:14
Alignment explanation
Indices: 14447830--14447857 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14447820 TTAATGCGAC
14447830 AATAGGGGTTTTAA
1 AATAGGGGTTTTAA
14447844 AATAGGGGTTTTAA
1 AATAGGGGTTTTAA
14447858 TTAGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
AATAGGGGTTTTAA
Found at i:14449594 original size:18 final size:18
Alignment explanation
Indices: 14449571--14449605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14449561 AGAAATAGTT
*
14449571 GCAAAATAATACATAAAA
1 GCAAAACAATACATAAAA
14449589 GCAAAACAATACATAAA
1 GCAAAACAATACATAAA
14449606 TGCTCAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (18 bp):
GCAAAACAATACATAAAA
Found at i:14450620 original size:19 final size:19
Alignment explanation
Indices: 14450555--14450627 Score: 78
Period size: 18 Copynumber: 3.9 Consensus size: 19
14450545 AATTGATCGG
* *
14450555 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
*
14450573 TTATTCAGTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
* *
14450592 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
*
14450610 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
14450628 TATTTCCAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
18 28 0.64
19 16 0.36
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:14450637 original size:19 final size:18
Alignment explanation
Indices: 14450558--14450637 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
14450548 TGATCGGTTA
*
14450558 TCCAGTAACAGTC-AATT
1 TCCAGTAACAATCAAATT
* * *
14450575 ATTCAGTAAAAATCAAATA
1 -TCCAGTAACAATCAAATT
* *
14450594 TACAGTAACAATTAAATT
1 TCCAGTAACAATCAAATT
* *
14450612 ATTCAGTAACAGTCAATATT
1 -TCCAGTAACAATCAA-ATT
14450632 TCCAGT
1 TCCAGT
14450638 TCCTTTATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
18 24 0.51
19 20 0.43
20 3 0.06
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (18 bp):
TCCAGTAACAATCAAATT
Found at i:14450867 original size:12 final size:12
Alignment explanation
Indices: 14450850--14450874 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14450840 AGTGCTGAAT
14450850 CGGTAACAGTAA
1 CGGTAACAGTAA
14450862 CGGTAACAGTAA
1 CGGTAACAGTAA
14450874 C
1 C
14450875 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:14451047 original size:19 final size:20
Alignment explanation
Indices: 14451000--14451047 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
14450990 CACTTTCCAG
*
14451000 TTTTCAATTAATTCATATTT
1 TTTTCAATTAACTCATATTT
*
14451020 TAATT-AATTAACT-ATATTT
1 T-TTTCAATTAACTCATATTT
14451039 TTTTCAATT
1 TTTTCAATT
14451048 CAATATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCAATTAACTCATATTT
Found at i:14455208 original size:26 final size:26
Alignment explanation
Indices: 14455171--14455226 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
14455161 TAAAAAGTAT
*
14455171 AAAATATTAAAAAT-ATAAAATTCAGA
1 AAAATATAAAAAATAATAAAATT-AGA
*
14455197 AAAATATAAAAATTAATAAAATTAGA
1 AAAATATAAAAAATAATAAAATTAGA
14455223 AAAA
1 AAAA
14455227 ACAATTAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (26 bp):
AAAATATAAAAAATAATAAAATTAGA
Found at i:14455217 original size:17 final size:16
Alignment explanation
Indices: 14455160--14455218 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
14455150 AACAAATAAT
*
14455160 TTAAAAAGTATAAAATA
1 TTAAAAAATATAAAA-A
14455177 TT-AAAAATAT-AAAA
1 TTAAAAAATATAAAAA
14455191 TTCAGAAAAATATAAAAA
1 TT-A-AAAAATATAAAAA
14455209 TTAATAAAAT
1 TTAA-AAAAT
14455219 TAGAAAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 3 0.08
15 3 0.08
16 8 0.22
17 16 0.44
18 6 0.17
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (16 bp):
TTAAAAAATATAAAAA
Found at i:14455702 original size:3 final size:3
Alignment explanation
Indices: 14455694--14455742 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
14455684 GAACTCTTCT
* *
14455694 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14455742 A
1 A
14455743 CGTGCAGTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:14457297 original size:9 final size:9
Alignment explanation
Indices: 14457275--14457373 Score: 63
Period size: 9 Copynumber: 10.7 Consensus size: 9
14457265 GTAGGGGCAA
*
14457275 TGGAGGGGG
1 TGGAGGTGG
*
14457284 AGGAGGTGG
1 TGGAGGTGG
*
14457293 CGGAGGTGG
1 TGGAGGTGG
**
14457302 TGGAAATGG
1 TGGAGGTGG
* *
14457311 TGGTGGAGG
1 TGGAGGTGG
*
14457320 TGGGGGTGG
1 TGGAGGTGG
*
14457329 GGGAGGTGG
1 TGGAGGTGG
14457338 TGGAGGCAGTGG
1 TGGA-G--GTGG
* *
14457350 GGGAGGAGG
1 TGGAGGTGG
14457359 TGGAGGTGG
1 TGGAGGTGG
*
14457368 CGGAGG
1 TGGAGG
14457374 AAACGGCAAT
Statistics
Matches: 67, Mismatches: 20, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
9 58 0.87
10 1 0.01
11 1 0.01
12 7 0.10
ACGTcount: A:0.15, C:0.03, G:0.68, T:0.14
Consensus pattern (9 bp):
TGGAGGTGG
Found at i:14457336 original size:21 final size:21
Alignment explanation
Indices: 14457325--14457364 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14457315 GGAGGTGGGG
*
14457325 GTGGGGGAGGTGGTGGAGGCA
1 GTGGGGGAGGTGGAGGAGGCA
* *
14457346 GTGGGGGAGGAGGTGGAGG
1 GTGGGGGAGGTGGAGGAGG
14457365 TGGCGGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.70, T:0.12
Consensus pattern (21 bp):
GTGGGGGAGGTGGAGGAGGCA
Found at i:14457448 original size:33 final size:33
Alignment explanation
Indices: 14457411--14457529 Score: 112
Period size: 33 Copynumber: 3.5 Consensus size: 33
14457401 GGGCGGAGGA
*
14457411 AATGGAGGGGGAGGAGGCGGGGGAGGGGGTGGG
1 AATGGAGGAGGAGGAGGCGGGGGAGGGGGTGGG
* * * * *
14457444 AATGGTGGAGGAGGAGGTGGAGGAGGCAATGGTGGT
1 AATGGAGGAGGAGGAGGCGGGGGAGG---GGGTGGG
** * *
14457480 AGGGGAGGTGGAGGAGGCGGGGGAGGGAGTGGG
1 AATGGAGGAGGAGGAGGCGGGGGAGGGGGTGGG
*
14457513 AATGGTGGAGGAGGAGG
1 AATGGAGGAGGAGGAGG
14457530 AGGTTGGGGT
Statistics
Matches: 64, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
33 39 0.61
36 25 0.39
ACGTcount: A:0.22, C:0.03, G:0.66, T:0.10
Consensus pattern (33 bp):
AATGGAGGAGGAGGAGGCGGGGGAGGGGGTGGG
Found at i:14457456 original size:30 final size:30
Alignment explanation
Indices: 14457420--14457526 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
14457410 AAATGGAGGG
14457420 GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
1 GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
* *
14457450 GGAGGAGGAGGTGGAGGAGGCAATGGTGGTAGGGGA-GGT
1 GGAGGAGG-CG-GG-GGA-G----GG-GGT-GGGAATGGT
*
14457489 GGAGGAGGCGGGGGAGGGAGTGGGAATGGT
1 GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
14457519 GGAGGAGG
1 GGAGGAGG
14457527 AGGAGGTTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
29 4 0.07
30 21 0.34
31 3 0.05
32 2 0.03
33 3 0.05
34 1 0.02
35 1 0.02
36 3 0.05
37 2 0.03
38 3 0.05
39 14 0.23
40 4 0.07
ACGTcount: A:0.21, C:0.03, G:0.66, T:0.10
Consensus pattern (30 bp):
GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
Found at i:14457460 original size:36 final size:36
Alignment explanation
Indices: 14457413--14457532 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 36
14457403 GCGGAGGAAA
*
14457413 TGGAGGGGGAGGAGGCGGGGGAGGGGGTGGGAATGG
1 TGGAGGAGGAGGAGGCGGGGGAGGGGGTGGGAATGG
* * * ** *
14457449 TGGAGGAGGAGGTGGAGGAGGCA-ATGGT-GGTA-GG
1 TGGAGGAGGAGGAGGCGG-GGGAGGGGGTGGGAATGG
* *
14457483 -GGAGGTGGAGGAGGCGGGGGAGGGAGTGGGAATGG
1 TGGAGGAGGAGGAGGCGGGGGAGGGGGTGGGAATGG
14457518 TGGAGGAGGAGGAGG
1 TGGAGGAGGAGGAGG
14457533 TTGGGGTTGG
Statistics
Matches: 63, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
32 3 0.05
33 16 0.25
34 5 0.08
35 5 0.08
36 31 0.49
37 3 0.05
ACGTcount: A:0.21, C:0.03, G:0.67, T:0.10
Consensus pattern (36 bp):
TGGAGGAGGAGGAGGCGGGGGAGGGGGTGGGAATGG
Found at i:14457464 original size:12 final size:12
Alignment explanation
Indices: 14457447--14457496 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
14457437 GGGTGGGAAT
14457447 GGTGGAGGAGGA
1 GGTGGAGGAGGA
14457459 GGTGGAGGAGGCAA
1 GGTGGAGGAGG--A
14457473 TGGTGGTAGG-GGA
1 -GGTGG-AGGAGGA
14457486 GGTGGAGGAGG
1 GGTGGAGGAGG
14457497 CGGGGGAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.09
12 18 0.55
13 1 0.03
14 1 0.03
15 7 0.21
16 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.64, T:0.12
Consensus pattern (12 bp):
GGTGGAGGAGGA
Found at i:14457474 original size:27 final size:27
Alignment explanation
Indices: 14457444--14457497 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
14457434 AGGGGGTGGG
14457444 AATGGTGG-AGGAGGAGGTGGAGGAGGC
1 AATGGTGGTAGG-GGAGGTGGAGGAGGC
14457471 AATGGTGGTAGGGGAGGTGGAGGAGGC
1 AATGGTGGTAGGGGAGGTGGAGGAGGC
14457498 GGGGGAGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.24, C:0.04, G:0.59, T:0.13
Consensus pattern (27 bp):
AATGGTGGTAGGGGAGGTGGAGGAGGC
Found at i:14458749 original size:24 final size:24
Alignment explanation
Indices: 14458683--14458750 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
14458673 TGGAGGATCA
14458683 ATAATACTTCCATTGAAAATATCC
1 ATAATACTTCCATTGAAAATATCC
*
14458707 ---ATA-TT--ATTGAGAAA-CTCC
1 ATAATACTTCCATTGA-AAATATCC
14458725 ATAATACTTCCATTGAAAATATCC
1 ATAATACTTCCATTGAAAATATCC
14458749 AT
1 AT
14458751 GTTATTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
18 8 0.24
19 3 0.09
20 2 0.06
21 6 0.18
22 2 0.06
23 3 0.09
24 10 0.29
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (24 bp):
ATAATACTTCCATTGAAAATATCC
Found at i:14469024 original size:18 final size:19
Alignment explanation
Indices: 14468993--14469028 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14468983 ATATTTATTT
*
14468993 TAAACATAATATTAAATAA
1 TAAAAATAATATTAAATAA
14469012 TAAAAATAA-ATTAAATA
1 TAAAAATAATATTAAATA
14469029 GTATTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATAATATTAAATAA
Found at i:14489511 original size:16 final size:16
Alignment explanation
Indices: 14489490--14489537 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
14489480 TTCATTTCGG
14489490 GAAGAAAAAAGGAGAA
1 GAAGAAAAAAGGAGAA
14489506 GAAGAAAAGAA-GAGAA
1 GAAGAAAA-AAGGAGAA
*
14489522 GAAG-AATAAGGAGAA
1 GAAGAAAAAAGGAGAA
14489537 G
1 G
14489538 GAGGCAGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.07
15 8 0.28
16 17 0.59
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (16 bp):
GAAGAAAAAAGGAGAA
Found at i:14490068 original size:16 final size:16
Alignment explanation
Indices: 14490047--14490102 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
14490037 AAAAATAGCA
14490047 TAAAAAAATAAAATAC
1 TAAAAAAATAAAATAC
*** *
14490063 TAAAAAAATATCTTAA
1 TAAAAAAATAAAATAC
*
14490079 TGAAAAAATAAAATAC
1 TAAAAAAATAAAATAC
*
14490095 GAAAAAAA
1 TAAAAAAA
14490103 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (16 bp):
TAAAAAAATAAAATAC
Found at i:14490382 original size:151 final size:150
Alignment explanation
Indices: 14490140--14490823 Score: 1054
Period size: 151 Copynumber: 4.6 Consensus size: 150
14490130 GCGGGTTTTT
14490140 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTTAAAAAATAAAAT-------T
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAATCCGAAAAT
* * *
14490197 TAAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAA-ACTTAAA
65 AAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTT-AA
14490261 ATAATACATTT-AAACATTATG
129 ATAATACATTTGAAACATTATG
* *
14490282 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTAAATTTTAAAAAATAAAATCTGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* * * *
14490347 AAAAAAATAACCAACAAAGTGTCAAAATAAAGGTTATTTATTAAATTAATAT-AAAAACACTTAA
65 AAAAAAAT-ACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAA
14490411 ATAATACATTTGAAACATTATG
129 ATAATACATTTGAAACATTATG
14490433 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT--AAAATAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
*
14490496 AAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAATACTTAAAT
66 AAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
*
14490561 AATACATTTAAAACATTATG
131 AATACATTTGAAACATTATG
* *
14490581 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT-
* * *
14490646 AAAAAAATACCAACAAAGGGTCAAAATTAGGGTTATTTATTAAATTAATAGAAAAAACACTTAAA
65 AAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAA
*
14490711 TAATACATTTGAAATATTATG
130 TAATACATTTGAAACATTATG
**
14490732 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATAAGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
14490796 AAAAAATACCAACAAAGGGCCAAAATCA
66 AAAAAATACCAACAAAGGGCCAAAATCA
14490824 CCGAAAAATT
Statistics
Matches: 496, Mismatches: 30, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
142 14 0.03
143 16 0.03
144 24 0.05
147 39 0.08
148 100 0.20
149 27 0.05
150 117 0.24
151 159 0.32
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (150 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
AAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAAT
AATACATTTGAAACATTATG
Found at i:14490566 original size:298 final size:296
Alignment explanation
Indices: 14490140--14490823 Score: 1103
Period size: 298 Copynumber: 2.3 Consensus size: 296
14490130 GCGGGTTTTT
* *
14490140 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTT-TAA-AAAAT-AAAATTTAAAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAATAAAATGAAAA-TAAAAA
*
14490202 AATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACTTAAAATAATA
65 AATACCAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACTTAAAATAATA
14490267 CATTT-AAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTAAATTTTAAAA
130 CATTTAAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTAAATTTTAAAA
** *
14490331 AATAAAATCTGAAAAT-AAAAAAATAACCAACAAAGTGTCAAAATAAAGGTTATTTATTAAATTA
194 AATAAAATCCAAAAATAAAAAAAAT-ACCAACAAAGGGTCAAAATAAAGGTTATTTATTAAATTA
*
14490395 ATA-TAAAAACACTTAAATAATACATTTGAAACATTATG
258 ATAGAAAAAACACTTAAATAATACATTTGAAACATTATG
14490433 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAATAAAATCCGAAAATAAA
1 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAATAAAAT--GAAAATAAA
*
14490498 AAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAATACTT-AAATA
63 AAAATACCAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAA-ACTTAAAATA
* *
14490562 ATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAA
127 ATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAAATTTTAA
* *
14490627 AAAATAAAATCCAAAAATAAAAAAAATACCAACAAAGGGTCAAAATTAGGGTTATTTATTAAATT
192 AAAATAAAATCCAAAAATAAAAAAAATACCAACAAAGGGTCAAAATAAAGGTTATTTATTAAATT
*
14490692 AATAGAAAAAACACTTAAATAATACATTTGAAATATTATG
257 AATAGAAAAAACACTTAAATAATACATTTGAAACATTATG
14490732 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATAAGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTT--AAAATAAAAT--GAAAATAA
14490797 AAAAATACCAACAAAGGGCCAAAATCA
62 AAAAATACCAACAAAGGGCCAAAATCA
14490824 CCGAAAAATT
Statistics
Matches: 364, Mismatches: 15, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
293 14 0.04
294 29 0.08
295 2 0.01
296 5 0.01
298 182 0.50
299 87 0.24
300 45 0.12
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (296 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAATAAAATGAAAATAAAAAA
ATACCAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACTTAAAATAATAC
ATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAAATTTTAAAAAA
TAAAATCCAAAAATAAAAAAAATACCAACAAAGGGTCAAAATAAAGGTTATTTATTAAATTAATA
GAAAAAACACTTAAATAATACATTTGAAACATTATG
Found at i:14495283 original size:28 final size:29
Alignment explanation
Indices: 14495252--14495306 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
14495242 AAAACTAAAG
*
14495252 AAAAAAATAAAAATATT-TTAAATTTATT
1 AAAAAAATAAAAAAATTGTTAAATTTATT
* *
14495280 AAAAATATAAAAAAATTGTTAGATTTA
1 AAAAAAATAAAAAAATTGTTAAATTTA
14495307 AAGTTGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAAAAATAAAAAAATTGTTAAATTTATT
Found at i:14495779 original size:18 final size:19
Alignment explanation
Indices: 14495758--14495795 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14495748 AAAAGCTAAT
14495758 AAAAGA-AGAAAAAGGCCC
1 AAAAGAGAGAAAAAGGCCC
* *
14495776 AAAAGAGAGTAAATGGCCC
1 AAAAGAGAGAAAAAGGCCC
14495795 A
1 A
14495796 CAAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.55, C:0.16, G:0.24, T:0.05
Consensus pattern (19 bp):
AAAAGAGAGAAAAAGGCCC
Found at i:14503857 original size:32 final size:32
Alignment explanation
Indices: 14503821--14503884 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
14503811 TATAACTATA
14503821 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
14503853 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
14503885 ATTTTTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:14505923 original size:21 final size:20
Alignment explanation
Indices: 14505876--14505928 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
14505866 CACCATTGTT
14505876 TCTAATCTCACCGCTAAGTA
1 TCTAATCTCACCGCTAAGTA
*
14505896 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTA-AGT-A
14505918 T-TAATCTCACC
1 TCTAATCTCACC
14505929 ACCACCGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 15 0.52
21 12 0.41
22 2 0.07
ACGTcount: A:0.30, C:0.34, G:0.08, T:0.28
Consensus pattern (20 bp):
TCTAATCTCACCGCTAAGTA
Found at i:14506553 original size:14 final size:14
Alignment explanation
Indices: 14506534--14506568 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
14506524 CTAACATAAC
14506534 ATAATTTTTTTAAA
1 ATAATTTTTTTAAA
*
14506548 ATAATTATTTTAAA
1 ATAATTTTTTTAAA
14506562 ATAATTT
1 ATAATTT
14506569 ATCTACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAATTTTTTTAAA
Found at i:14508006 original size:28 final size:28
Alignment explanation
Indices: 14507927--14508031 Score: 83
Period size: 28 Copynumber: 3.8 Consensus size: 28
14507917 TTACTTAGGC
*
14507927 TTTTATATTTTTA-ATATTTTTGTAAT--
1 TTTTATATTTTTATAAATTTTT-TAATAA
* * **
14507953 TTTAAAATTTTTATAGAAAAATTTTAATAA
1 TTTTATATTTTTAT--AAATTTTTTAATAA
*
14507983 TATTT-TATTTTTATATATTTTTTAATAA
1 T-TTTATATTTTTATAAATTTTTTAATAA
*
14508011 TTTTATTTTTTTATAAATTTT
1 TTTTATATTTTTATAAATTTT
14508032 ATCATTTTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
26 11 0.18
27 3 0.05
28 30 0.50
29 5 0.08
30 9 0.15
31 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTATATTTTTATAAATTTTTTAATAA
Done.